Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 31 of 226
Found at i:10747181 original size:24 final size:24
Alignment explanation
Indices: 10747128--10747173 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
10747118 TATTTCTAGA
*
10747128 ATATTTAGTATTTATCAGTATAAT
1 ATATTTAGCATTTATCAGTATAAT
*
10747152 ATATTTAGCATTTATTAGTATA
1 ATATTTAGCATTTATCAGTATA
10747174 GTTTATTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (24 bp):
ATATTTAGCATTTATCAGTATAAT
Found at i:10747714 original size:30 final size:30
Alignment explanation
Indices: 10747680--10747741 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
10747670 CCTAAACGCA
*
10747680 ATATCGACTCTTCCTAAACTCCTAAACAAG
1 ATATCAACTCTTCCTAAACTCCTAAACAAG
* * * * *
10747710 ATATCAAGTTTTTCTAAACTCCTGAACGAG
1 ATATCAACTCTTCCTAAACTCCTAAACAAG
10747740 AT
1 AT
10747742 GTCGGGTCTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (30 bp):
ATATCAACTCTTCCTAAACTCCTAAACAAG
Found at i:10757161 original size:23 final size:23
Alignment explanation
Indices: 10757135--10757185 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
10757125 TAATTTTTAA
* *
10757135 ATTTAGGATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTAATAAT
10757158 ATTTAGAATTATTTAGTAATAAT
1 ATTTAGAATTATTTAGTAATAAT
10757181 ATTTA
1 ATTTA
10757186 AAAAAAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTAATAAT
Found at i:10759665 original size:24 final size:24
Alignment explanation
Indices: 10759638--10759688 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
10759628 AGCCTATAAT
10759638 GGGTAGCTCCAAAAAGCAATTAAC
1 GGGTAGCTCCAAAAAGCAATTAAC
* * *
10759662 GGGTAGTTCCGAAGAGCAATTAAC
1 GGGTAGCTCCAAAAAGCAATTAAC
10759686 GGG
1 GGG
10759689 AAGTTCAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (24 bp):
GGGTAGCTCCAAAAAGCAATTAAC
Found at i:10759703 original size:24 final size:25
Alignment explanation
Indices: 10759651--10759714 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
10759641 TAGCTCCAAA
*
10759651 AAGCAATTAACGGGTAGTTCCGAAG
1 AAGCAATTAACGGGAAGTTCCGAAG
10759676 -AGCAATTAACGGGAAGTT-C-AAG
1 AAGCAATTAACGGGAAGTTCCGAAG
*
10759698 CAAGC-ACTAACGGGAAG
1 -AAGCAATTAACGGGAAG
10759715 CTCACAAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 3 0.09
23 12 0.34
24 20 0.57
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.16
Consensus pattern (25 bp):
AAGCAATTAACGGGAAGTTCCGAAG
Found at i:10759769 original size:26 final size:25
Alignment explanation
Indices: 10759705--10759770 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
10759695 AAGCAAGCAC
* *
10759705 TAACGGGAAGCTCACAAAGAACCTT
1 TAACGGGAAGCTCACAAAGAACATA
* *
10759730 TAATCGAGAAGCTCACAAAGATTCATA
1 TAA-CGGGAAGCTCACAAAGA-ACATA
*
10759757 TAACGGGACGCTCA
1 TAACGGGAAGCTCA
10759771 TAAGAGCTGC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
25 3 0.09
26 25 0.76
27 5 0.15
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (25 bp):
TAACGGGAAGCTCACAAAGAACATA
Found at i:10763747 original size:20 final size:20
Alignment explanation
Indices: 10763722--10763766 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
10763712 TAAGTATTCA
10763722 TTTATATATATT-TATGTATT
1 TTTATA-ATATTATATGTATT
*
10763742 TTTATAATTTTATATGTATT
1 TTTATAATATTATATGTATT
10763762 TTTAT
1 TTTAT
10763767 CGAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTATAATATTATATGTATT
Found at i:10764875 original size:3 final size:3
Alignment explanation
Indices: 10764867--10764904 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
10764857 TGGGTAGTTA
10764867 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG -AG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
10764905 GAAAGTAGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10775016 original size:2 final size:2
Alignment explanation
Indices: 10775009--10775060 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
10774999 ATCCAAAACC
10775009 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10775051 CT CT CT CT CT
1 CT CT CT CT CT
10775061 TAGGGTTTCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10791248 original size:29 final size:30
Alignment explanation
Indices: 10791189--10791246 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
10791179 TCCGAGCCTT
*
10791189 GGGGAAAAAATGTAATTATGTAAAAGTTTA
1 GGGGAAAAAATGTAATTATGAAAAAGTTTA
* * *
10791219 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGAAAAAATGTAATTATGAAAAAGTT
10791247 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGAAAAAATGTAATTATGAAAAAGTTTA
Found at i:10791476 original size:13 final size:13
Alignment explanation
Indices: 10791458--10791489 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10791448 TTTCCAGCAA
10791458 TTATGAATTTATT
1 TTATGAATTTATT
10791471 TTATGAATTTATT
1 TTATGAATTTATT
*
10791484 TGATGA
1 TTATGA
10791490 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:10791696 original size:50 final size:50
Alignment explanation
Indices: 10791583--10791824 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
10791573 ATTTGGGTAA
* * *
10791583 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
10791639 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
10791689 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
10791739 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
10791789 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
10791825 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:10791772 original size:100 final size:103
Alignment explanation
Indices: 10791583--10791832 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
10791573 ATTTGGGTAA
10791583 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
10791648 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
10791689 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
10791751 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
10791789 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
10791833 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:10798048 original size:50 final size:50
Alignment explanation
Indices: 10797924--10798172 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
10797914 GATAATAACA
* * ** * *
10797924 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
10797975 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
10798025 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
10798075 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
10798130 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
10798173 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:10798102 original size:100 final size:104
Alignment explanation
Indices: 10797923--10798172 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
10797913 TGATAATAAC
**
10797923 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
10797988 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
10798025 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
10798088 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
10798130 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
10798173 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:10798288 original size:13 final size:13
Alignment explanation
Indices: 10798267--10798298 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10798257 GCTTGGATCA
*
10798267 TCATCAAATAAAT
1 TCATAAAATAAAT
10798280 TCATAAAATAAAT
1 TCATAAAATAAAT
10798293 TCATAA
1 TCATAA
10798299 TTACTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:10798545 original size:30 final size:30
Alignment explanation
Indices: 10798510--10798567 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10798500 CCTCGAATCT
*
10798510 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
10798540 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
10798568 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:10808732 original size:18 final size:18
Alignment explanation
Indices: 10808709--10808751 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
10808699 AAATAGATTT
10808709 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
10808727 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
10808745 TTAATTA
1 TTAATTA
10808752 CACCTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:10828915 original size:26 final size:24
Alignment explanation
Indices: 10828871--10828918 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
10828861 GTGTATCGAA
*
10828871 TAATAATTTTTATTTTATTATATT
1 TAATAATTTTTAATTTATTATATT
10828895 TAATAATTAATTTAATTTATTATA
1 TAATAATT--TTTAATTTATTATA
10828919 AAAATCAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
26 13 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TAATAATTTTTAATTTATTATATT
Found at i:10840069 original size:29 final size:30
Alignment explanation
Indices: 10840037--10840099 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
10840027 GCCCTAATAT
*
10840037 AATAAATATTTTT-ATTTTTTTATTTTTAA
1 AATAAATATTTTTAATTTTTTTAATTTTAA
* *
10840066 AAT-ACTTTTTTTAAATTTTTTTAATTTTAA
1 AATAAATATTTTT-AATTTTTTTAATTTTAA
10840096 AATA
1 AATA
10840100 TTTTTAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
28 7 0.25
29 3 0.11
30 18 0.64
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (30 bp):
AATAAATATTTTTAATTTTTTTAATTTTAA
Found at i:10840104 original size:11 final size:11
Alignment explanation
Indices: 10840090--10840149 Score: 57
Period size: 11 Copynumber: 4.9 Consensus size: 11
10840080 ATTTTTTTAA
10840090 TTTTAAAATAT
1 TTTTAAAATAT
10840101 TTTTAAAATACAT
1 TTTTAAAAT--AT
*
10840114 TTTTAAAATTTGTAA
1 TTTTAAAA----TAT
10840129 TTTTAAAATAT
1 TTTTAAAATAT
10840140 TTTTAAAATA
1 TTTTAAAATA
10840150 AATTTTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
11 21 0.51
13 10 0.24
15 9 0.22
17 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:10840108 original size:41 final size:41
Alignment explanation
Indices: 10840057--10840165 Score: 152
Period size: 39 Copynumber: 2.7 Consensus size: 41
10840047 TTTATTTTTT
*
10840057 TATTTTTAAAATACTTTTTTTAAATTTTTTTAATTTTAAAA
1 TATTTTTAAAATACTTTTTTTAAATTTTTGTAATTTTAAAA
* *
10840098 TATTTTTAAAATAC-ATTTTTAAA-ATTTGTAATTTTAAAA
1 TATTTTTAAAATACTTTTTTTAAATTTTTGTAATTTTAAAA
*
10840137 TATTTTTAAAATAAATTTTTTT-AATTTTT
1 TATTTTTAAAAT-ACTTTTTTTAAATTTTT
10840166 AAAATAAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
39 26 0.44
40 11 0.19
41 22 0.37
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.59
Consensus pattern (41 bp):
TATTTTTAAAATACTTTTTTTAAATTTTTGTAATTTTAAAA
Found at i:10840117 original size:30 final size:29
Alignment explanation
Indices: 10840053--10840119 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
10840043 TATTTTTATT
* * *
10840053 TTTTTATTTTTAAAATACTTTTTTTAAATT
1 TTTTTAATTTTAAAATAC-TTTTTAAAATA
10840083 TTTTTAATTTTAAAATA-TTTTTAAAATACA
1 TTTTTAATTTTAAAATACTTTTTAAAAT--A
10840113 TTTTTAA
1 TTTTTAA
10840120 AATTTGTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 9 0.28
30 23 0.72
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTTTAATTTTAAAATACTTTTTAAAATA
Found at i:10840185 original size:22 final size:21
Alignment explanation
Indices: 10840137--10840185 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 21
10840127 AATTTTAAAA
*
10840137 TATTTTTAAAATAAATTTTTT
1 TATTTTTAAAATAAATTTTTG
10840158 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
10840181 TATTT
1 TATTT
10840186 ATTTAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.92
23 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:10843063 original size:12 final size:12
Alignment explanation
Indices: 10843041--10843084 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
10843031 ATCTCTCTCA
*
10843041 AGAAGCAGAAGC
1 AGAAGCCGAAGC
* *
10843053 CGAAGCCGAAGT
1 AGAAGCCGAAGC
10843065 AGAAGCCGAAGC
1 AGAAGCCGAAGC
10843077 AGAAGCCG
1 AGAAGCCG
10843085 TGGTCGGAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.41, C:0.23, G:0.34, T:0.02
Consensus pattern (12 bp):
AGAAGCCGAAGC
Found at i:10843068 original size:18 final size:18
Alignment explanation
Indices: 10843041--10843082 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
10843031 ATCTCTCTCA
10843041 AGAAGCAGAAGCCGAAGC
1 AGAAGCAGAAGCCGAAGC
* *
10843059 CGAAGTAGAAGCCGAAGC
1 AGAAGCAGAAGCCGAAGC
10843077 AGAAGC
1 AGAAGC
10843083 CGTGGTCGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.33, T:0.02
Consensus pattern (18 bp):
AGAAGCAGAAGCCGAAGC
Found at i:10846977 original size:25 final size:25
Alignment explanation
Indices: 10846935--10846982 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
10846925 AAATATACAA
*
10846935 AAAAAAAATAATATTTTAATCATAT
1 AAAAAAAATAATAGTTTAATCATAT
**
10846960 AAAAAAAATTTTAGTTTAATCAT
1 AAAAAAAATAATAGTTTAATCAT
10846983 GTGTTCAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (25 bp):
AAAAAAAATAATAGTTTAATCATAT
Found at i:10855486 original size:92 final size:91
Alignment explanation
Indices: 10854931--10855573 Score: 295
Period size: 91 Copynumber: 7.0 Consensus size: 91
10854921 TATATATTTT
* * *
10854931 ATTTTATT-GAATAATTATAAT-AATTACTATGTATTTCATTTCATTTTTGAGGCACTT-GAGCT
1 ATTTT-TTAGAATAATTATAATCAA-CACTATTTATTTTATTTCATTTTTG-GGCACTTGGA-CT
* ***
10854993 TGAAT-T-TAG-TGCACA-AAT-AATTTTTTT
62 TGAGTCTGT-GTTGCA-ATAATAAATTTTAAA
* * * * * *
10855020 ATTTTATAAAATAATTATAAT-AATTACAATTTATTTCATTTCATTTTTGGAGCACTT-AAGCTT
1 ATTTTTTAGAATAATTATAATCAA-CACTATTTATTTTATTTCATTTTTGG-GCACTTGGA-CTT
* ** * *
10855083 GAGGTTTGTACTGCAATCAT-ATTTTTAAAA
63 GA-GTCTGTGTTGCAATAATAAATTTT-AAA
* * * * * * * * *
10855113 ATTTTCTAGATTAATTATAA-GAATCATTATTAATTTAATTTTATTTTCGAGGCACTTGAACTTG
1 ATTTTTTAGAATAATTATAATCAA-CACTATTTATTTTATTTCATTTTTG-GGCACTTGGACTTG
* **
10855177 AGTATG-GTTTCGCAATAAT--ATTTTTTA
64 AGTCTGTG-TT-GCAATAATAAATTTTAAA
* * * *
10855204 ATTTTACT-GAATAATTATAATCAACACTATTTATTATATTTCATTTTAAGGCCACTTGGACTTG
1 ATTTT-TTAGAATAATTATAATCAACACTATTTATTTTATTTCATTTT-TGGGCACTTGGACTTG
* * *
10855268 AGTCTGGGGTTGAAATAACATATATATTTTTAA
64 AGTCT-GTGTTGCAAT-A-ATA-A-ATTTTAAA
* * * * **
10855301 TTTTTTTAGAATTATTATAA-CAATCATTATTTATTTTATTTCATTTTTGGGGCATTTGGGTTTG
1 ATTTTTTAGAATAATTATAATCAA-CACTATTTATTTTATTTCATTTTT-GGGCACTTGGACTTG
* * ***
10855365 AGTCTTGTGCTACAAT-ATTTTTTTTAAA
64 AGTC-TGTGTTGCAATAATAAATTTTAAA
* * * *
10855393 ATTTTTTGGAATAATTATAATCAACACTATTTATTTTGTTTCATTTTTGGGAACTTAGACTTGAG
1 ATTTTTTAGAATAATTATAATCAACACTATTTATTTTATTTCATTTTTGGGCACTTGGACTTGAG
10855458 TCTGCTGTTGCAATAATAAA-TTTAAA
66 TCTG-TGTTGCAATAATAAATTTTAAA
* * * * * * * * *
10855484 A-ATTTCAGAATAATTATAATAAATAATATTAATTTCTA-TTAATTTTCGGGTTACTTGGGA-TT
1 ATTTTTTAGAATAATTATAATCAACACTATTTATTT-TATTTCATTTTTGGG-CACTT-GGACTT
**
10855546 GAGTCTAGTGTAACAATAATAAATTTTA
63 GAGTCT-GTGTTGCAATAATAAATTTTA
10855574 TTTTCTGAAA
Statistics
Matches: 429, Mismatches: 89, Indels: 69
0.73 0.15 0.12
Matches are distributed among these distances:
88 2 0.00
89 56 0.13
90 40 0.09
91 111 0.26
92 84 0.20
93 62 0.14
94 5 0.01
96 4 0.01
97 64 0.15
98 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (91 bp):
ATTTTTTAGAATAATTATAATCAACACTATTTATTTTATTTCATTTTTGGGCACTTGGACTTGAG
TCTGTGTTGCAATAATAAATTTTAAA
Found at i:10855789 original size:89 final size:87
Alignment explanation
Indices: 10854940--10856428 Score: 513
Period size: 89 Copynumber: 16.6 Consensus size: 87
10854930 TATTTTATTG
* * * * * *
10854940 AATAATTATAATAATTACTATGTATTTCATTTCATTTTTGAGGCACTTGAGCTTGAATTTAGTG-
1 AATAATTATAATAATTACAATTTATTTCATTTCA-TTTTCAGGCACTTGGGCTTGAATCTGGTGT
** * *
10855004 CACAAATAATTTTTTTATTTTATAA
65 TGC-AATAATTTTTTTA-TTTCTGA
** ** * * *
10855029 AATAATTATAATAATTACAATTTATTTCATTTCATTTTTGGAGCACTTAAGCTTGAGGT-TTGTA
1 AATAATTATAATAATTACAATTTATTTCATTTCATTTTCAG-GCACTTGGGCTTGA-ATCTGGTG
* **
10855093 CTGCAATCATATTTTTAAAAATTTTCT-A
64 TTGCAAT-A-ATTTTT--TTA-TTTCTGA
* * * ** * * * ** * *
10855121 GATTAATTATAAGAATCATTATTAATTTAATTTTATTTTCGAGGCACTTGAACTTGAGTATGGT-
1 -AATAATTATAATAATTACAATTTATTTCATTTCATTTTC-AGGCACTTGGGCTTGAATCTGGTG
10855185 TTCGCAATAATATTTTTTAATTTTACTG-
64 TT-GCAATAAT-TTTTTT-A-TTT-CTGA
* * * * * *
10855213 AATAATTATAATCAA-CACTATTTATTAT-ATTTCATTTTAAGGCCACTTGGACTTGAGTCTGGG
1 AATAATTATAAT-AATTACAATTTATT-TCATTTCATTTTCAGG-CACTTGGGCTTGAATCTGGT
* * *
10855276 GTTGAAATAACATATATATTTTTAATTTTTTTA
63 GTTGCAAT---A-AT-T-TTTTT-A-TTTCTGA
* * * ** * ** * * * *
10855309 GAATTATTATAACAATCATTATTTATTTTATTTCATTTTTGGGGCATTTGGGTTTGAGTCTTGTG
1 -AATAATTATAATAATTACAATTTATTTCATTTCA-TTTTCAGGCACTTGGGCTTGAATCTGGTG
* * * * *
10855374 CTACAATATTTTTTTTAAAATTTTTTGG
64 TTGCAATAATTTTTTT---A-TTTCTGA
* * ** ** * * * * *
10855402 AATAATTATAATCAA-CACTATTTATTTTGTTTCATTTTTGGGAACTTAGACTTGAGTCTGCTGT
1 AATAATTATAAT-AATTACAATTTATTTCATTTCATTTTCAGGCACTTGGGCTTGAATCTGGTGT
*** *
10855466 TGCAATAATAAATTTAAAAATTTCAG-
65 TGCAATAAT---TTT-TTTATTTCTGA
* * * * * * * *
10855492 AATAATTATAATAAATA-ATATTAATTTC-TATTAATTTTCGGGTTACTTGGGATTGAGTCTAGT
1 AATAATTATAATAATTACA-ATTTATTTCAT-TTCATTTTCAGG-CACTTGGGCTTGAATCTGGT
** **
10855555 GTAACAATAATAAATTTTATTTTCTGA
63 GTTGCAATAAT-TTTTTTA-TTTCTGA
* * *
10855582 AATAATTAAAATAATTACCATATATTTTTATTTTCATTTCATTTTTTAGGCACTTGGGTTTG-AT
1 AATAATTATAATAATTA-C--A-A--TTTA-TTTCATTTCA-TTTTCAGGCACTTGGGCTTGAAT
* *
10855646 CTGGTGTTGCAATAATTTTTTTTAATTTTTCGG
58 CTGGTGTTGCAATAA-TTTTTTT-ATTTCT-GA
* * * * *
10855679 AATAATTATAAAAATTACAATTTATATCATTTCATTTTCATGGCACTTGGACTTGAATATGTTGT
1 AATAATTATAATAATTACAATTTATTTCATTTCATTTTCA-GGCACTTGGGCTTGAATCTGGTGT
10855744 TGCAATAATTTTTCTTATTTCTGA
65 TGCAATAATTTTT-TTATTTCTGA
** * * * *
10855768 AATAATTATAATAATTACAATTTCCTTCATTTCATTTTC-GGGACATTTGGCTTGAGTCTGATGT
1 AATAATTATAATAATTACAATTTATTTCATTTCATTTTCAGGCAC-TTGGGCTTGAATCTGGTGT
* *
10855832 CGCAATAAGTTTTTATT-TTTC-GG
65 TGCAATAA-TTTTT-TTATTTCTGA
* * *
10855855 AATAGTTATAATAATTACAATTTATTTCATTAT-ATTTTCGAGGCACTAGGGCTTG-AGCTTGGT
1 AATAATTATAATAATTACAATTTATTTCATT-TCATTTTC-AGGCACTTGGGCTTGAATC-TGGT
* * *
10855918 GCTACAAT-ATATTTTTTATTTTCCGA
63 GTTGCAATAAT-TTTTTTA-TTTCTGA
* * * * * * *
10855944 AATAATTATAACAATTACTATTTATTTCATTTCATTTTCGAGGCACTAGGGCTCGAGTTTGGTGC
1 AATAATTATAATAATTACAATTTATTTCATTTCATTTTC-AGGCACTTGGGCTTGAATCTGGTGT
* ** * *
10856009 TACAAGATTTTTTTTTTAATTTTTGG
65 TGC-A-ATAATTTTTTT-ATTTCTGA
* * * * * * * *
10856035 AATAATTATAAT-ATT-TAA--TA-TTCATTTCATTTTCGGGGAATATAGACTTGAGTCTGGTAT
1 AATAATTATAATAATTACAATTTATTTCATTTCATTTTCAGGCACT-TGGGCTTGAATCTGGTGT
* *
10856095 TGCAATAA---ATTT-TTT-TGG
65 TGCAATAATTTTTTTATTTCTGA
* ** * ** * ** *
10856113 AATAATTTTAATAGCTACTATTTATTTCATTTCATTTTTGGGCACTTGGGCTTGATTCTGAAGCT
1 AATAATTATAATAATTACAATTTATTTCATTTCATTTTCAGGCACTTGGGCTTGAATCTGGTGTT
* * *
10856178 ACAATAA-TTTTTTATTTTTTGG
66 GCAATAATTTTTTTA-TTTCTGA
* * * * * * * * * * * *
10856200 AATAGTTATAGTAGTTACTATTTGTTTCATTTCATTTTCGGAGCACTTGGTCTTTATTCTAGAGC
1 AATAATTATAATAATTACAATTTATTTCATTTCATTTTCAG-GCACTTGGGCTTGAATCTGGTGT
* * *
10856265 TACAATAATTTTTTTTTTATTTTTCA
65 TGCAATAA---TTTTTTTATTTCTGA
* * * * * *
10856291 GAATGATTATAATAATTAC-TTTATATTTCATTTCATTTTGAGGACACTTAGGCTTG-AGCTTAG
1 -AATAATTATAATAATTACAATT-TATTTCATTTCATTTTCAGG-CACTTGGGCTTGAATC-TGG
*
10856354 TGTTGCAATAA-TTTTTTATTTTTTGA
62 TGTTGCAATAATTTTTTTA-TTTCTGA
* *
10856380 AATAATTATAATAATTACTATTTATTTCATTTCATTTTCGGGTCACTTG
1 AATAATTATAATAATTACAATTTATTTCATTTCATTTTCAGG-CACTTG
10856429 AAATTTTTTC
Statistics
Matches: 1076, Mismatches: 229, Indels: 191
0.72 0.15 0.13
Matches are distributed among these distances:
78 14 0.01
79 4 0.00
80 1 0.00
81 3 0.00
82 20 0.02
83 18 0.02
84 5 0.00
85 5 0.00
86 33 0.03
87 85 0.08
88 126 0.12
89 181 0.17
90 86 0.08
91 175 0.16
92 104 0.10
93 68 0.06
94 10 0.01
95 5 0.00
96 39 0.04
97 81 0.08
98 13 0.01
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (87 bp):
AATAATTATAATAATTACAATTTATTTCATTTCATTTTCAGGCACTTGGGCTTGAATCTGGTGTT
GCAATAATTTTTTTATTTCTGA
Found at i:10856195 original size:88 final size:88
Alignment explanation
Indices: 10855663--10856428 Score: 476
Period size: 88 Copynumber: 8.7 Consensus size: 88
10855653 TGCAATAATT
* * * * *
10855663 TTTTTTAATTTTTCGGAATAATTATAAAAATTACAATTTATATCATTTCATTTTCATGG-CACTT
1 TTTTTT-ATTTTTTGGAATAATTATAATAATTACTATTTATTTCATTTCATTTTC-GGGACACTT
* * * * * *
10855727 GGACTTGAATAT-GTTGTTGCAATAA
64 GGGCTTGATTCTAG-AGCTACAATAA
* * * **
10855752 TTTTTCT-TATTTCTGAAATAATTATAATAATTACAATTTCCTTCATTTCATTTTCGGGACA-TT
1 TTTTT-TAT-TTTTTGGAATAATTATAATAATTACTATTTATTTCATTTCATTTTCGGGACACTT
* * *
10855815 TGGCTTGAGTCT-GATG-TCGCAATAA
64 GGGCTTGATTCTAGA-GCT-ACAATAA
* * * * *
10855840 GTTTTTATTTTTCGGAATAGTTATAATAATTACAATTTATTTCATTAT-ATTTTCGAGG-CACTA
1 TTTTTTATTTTTTGGAATAATTATAATAATTACTATTTATTTCATT-TCATTTTCG-GGACACTT
* * *
10855903 GGGCTTGA-GCTTGGTGCTACAATATA
64 GGGCTTGATTC-TAGAGCTACAATA-A
** * * *
10855929 TTTTTTATTTTCCGAAATAATTATAACAATTACTATTTATTTCATTTCATTTTCGAGG-CACTAG
1 TTTTTTATTTTTTGGAATAATTATAATAATTACTATTTATTTCATTTCATTTTCG-GGACACTTG
* * * **
10855993 GGCTCGAGTT-TGGTGCTACAAGATTTT
65 GGCTTGA-TTCTAGAGCTAC-A-A-TAA
* *
10856020 TTTTTTAATTTTTGGAATAATTATAAT-ATT--TA-ATA-TTCATTTCATTTTCGGGGA-A-TAT
1 TTTTTTATTTTTTGGAATAATTATAATAATTACTATTTATTTCATTTCATTTTC-GGGACACT-T
* * * * * *
10856078 AGACTTGAGTCTGGTA-TTGCAATAA
64 GGGCTTGATTCTAG-AGCTACAATAA
* * ** *
10856103 ----AT-TTTTTTGGAATAATTTTAATAGCTACTATTTATTTCATTTCATTTTTGGG-CACTTGG
1 TTTTTTATTTTTTGGAATAATTATAATAATTACTATTTATTTCATTTCATTTTCGGGACACTTGG
10856162 GCTTGATTCT-GAAGCTACAATAA
66 GCTTGATTCTAG-AGCTACAATAA
* * * *
10856185 TTTTTTATTTTTTGGAATAGTTATAGTAGTTACTATTTGTTTCATTTCATTTTC-GGAGCACTTG
1 TTTTTTATTTTTTGGAATAATTATAATAATTACTATTTATTTCATTTCATTTTCGGGA-CACTTG
* *
10856249 GTCTTTATTCTAGAGCTACAATAA
65 GGCTTGATTCTAGAGCTACAATAA
** *
10856273 TTTTTTTTTTATTTTTCAGAATGATTATAATAATTACT-TTATATTTCATTTCATTTT-GAGGAC
1 ----TTTTTTATTTTTTGGAATAATTATAATAATTACTATT-TATTTCATTTCATTTTCG-GGAC
* * * * *
10856336 ACTTAGGCTTGA-GCTTAGTGTTGCAATAA
60 ACTTGGGCTTGATTC-TAGAGCTACAATAA
* *
10856365 TTTTTTATTTTTTGAAATAATTATAATAATTACTATTTATTTCATTTCATTTTCGGGTCACTTG
1 TTTTTTATTTTTTGGAATAATTATAATAATTACTATTTATTTCATTTCATTTTCGGGACACTTG
10856429 AAATTTTTTC
Statistics
Matches: 534, Mismatches: 93, Indels: 101
0.73 0.13 0.14
Matches are distributed among these distances:
78 18 0.03
79 2 0.00
81 4 0.01
82 23 0.04
83 15 0.03
84 1 0.00
85 3 0.01
86 30 0.06
87 88 0.16
88 127 0.24
89 124 0.23
90 5 0.01
91 26 0.05
92 65 0.12
93 3 0.01
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (88 bp):
TTTTTTATTTTTTGGAATAATTATAATAATTACTATTTATTTCATTTCATTTTCGGGACACTTGG
GCTTGATTCTAGAGCTACAATAA
Found at i:10856310 original size:92 final size:87
Alignment explanation
Indices: 10854737--10856428 Score: 435
Period size: 89 Copynumber: 18.8 Consensus size: 87
10854727 CTGGAGCTGA
* * *
10854737 AATAA-TTTTTTTATTTTACGGAATAATTATAATAATTA-TAATTTTTTTCATTTCATTTT-GGG
1 AATAATTTTTTTTATTTTTCAGAAT-ATTATAATAATTACT-ATTTATTTCATTTCATTTTCGGG
* * *
10854799 CACTTAAGCTTAAGTT-T-GATGCTGC
64 CACTT-GGCTTGA-TTCTAGA-GCTAC
* * * * *
10854824 AATAAATTTTTCTATTTTTCA-ATATAATCATAATAATTACTCTTTATTTCTATTT-ATTATCGG
1 AATAATTTTTTTTATTTTTCAGA-AT-ATTATAATAATTACTATTTATTTC-ATTTCATTTTC-G
* * * * * * *
10854887 GGTATTTGGAATTGAGTCTAGTGCAAT
62 GGCACTTGG-CTTGATTCTAGAGCTAC
* *
10854914 AATAATATATATATTTTATTTTAT-TGAATAATTATAATAATTACTATGTATTTCATTTCATTTT
1 AATAAT-T-T-T-TTTTATTTT-TCAGAAT-ATTATAATAATTACTATTTATTTCATTTCATTTT
* *
10854978 TGAGGCACTTGAGCTTGAATT-TAGTGC-AC
60 CG-GGCACTTG-GCTTG-ATTCTAGAGCTAC
* * *
10855007 AAATAA-TTTTTTTATTTTAT-AAAATAATTATAATAATTACAATTTATTTCATTTCATTTTTGG
1 -AATAATTTTTTTTATTTT-TCAGAAT-ATTATAATAATTACTATTTATTTCATTTCATTTTCGG
* *
10855070 AGCACTTAAGCTTGAGGTT-T-GTA-CTGC
63 -GCACTT-GGCTTGA--TTCTAG-AGCTAC
*** * * * * * * * *
10855097 AATCATATTTTTAAAAATTTTCTAGATTAATTATAAGAATCATTATTAATTTAATTTTATTTTCG
1 AAT-A-ATTTTTTTTATTTTTC-AGAAT-ATTATAATAATTACTATTTATTTCATTTCATTTTCG
* * * * *
10855162 AGGCACTTGAACTTGAGTAT-G-GTTTCGC
62 -GGCACTTG-GCTTGATTCTAGAG-CT-AC
* * * * *
10855190 AATAATATTTTTTAATTTTACTGAATAATTATAATCAA-CACTATTTATTAT-ATTTCATTTTAA
1 AATAAT-TTTTTTTATTTTTCAGAAT-ATTATAAT-AATTACTATTTATT-TCATTTCATTTT-C
* * * * *
10855253 GGCCACTTGGACTTGAGTCTGGGGTTGA-
61 GGGCACTTGG-CTTGATTCTAGAGCT-AC
* * * * *
10855281 AATAACATATATATTTTTAATTTTTTTAGAATTATTATAACAATCATTATTTATTTTATTTCATT
1 AAT-A-AT-T-T-TTTTT-A-TTTTTCAGAA-TATTATAATAATTACTATTTATTTCATTTCA-T
* * * * * *
10855346 TTTGGGGCATTTGGGTTTGAGTCTTGTGCTAC
57 TTTCGGGCACTT-GGCTTGATTCTAGAGCTAC
** * ** *
10855378 AAT-ATTTTTTTTAAAATTTTTTGGAATAATTATAATCAA-CACTATTTATTTTGTTTCATTTTT
1 AATAATTTTTTTT---ATTTTTCAGAAT-ATTATAAT-AATTACTATTTATTTCATTTCATTTTC
* * * * * *
10855441 GGGAACTTAGACTTGAGTCT-GCTGTTGC
61 GGGCACTT-GGCTTGATTCTAG-AGCTAC
** ** ** * * * *
10855469 AATAATAAATTTAAAAATTTCAGAATAATTATAATAAATAATATTAATTTC-TATTAATTTTCGG
1 AATAAT-TTTTTTTATTTTTCAGAAT-ATTATAATAATTACTATTTATTTCAT-TTCATTTTCGG
* * * *
10855533 GTTACTTGGGATTGAGTCTAGTG-TAAC
63 G-CACTT-GGCTTGATTCTAGAGCT-AC
*** * *
10855560 AATAATAAATTTTA-TTTTCTGAAATAATTAAAATAATTACCATATATTTTTATTTTCATTTCAT
1 AATAATTTTTTTTATTTTTCAG-AAT-ATTATAATAATTA-C---TA--TTTA-TTTCATTTCA-
** * * * * *
10855624 TTTTTAGGCACTTGGGTTTGA-TCTGGTGTTGC
56 TTTTCGGGCACTT-GGCTTGATTCTAGAGCTAC
* * * * *
10855656 AATAATTTTTTTTAATTTTTCGGAATAATTATAAAAATTACAATTTATATCATTTCATTTTCATG
1 AATAATTTTTTTT-ATTTTTCAGAAT-ATTATAATAATTACTATTTATTTCATTTCATTTTC-GG
* * * * *
10855721 GCACTTGGACTTGAATAT-GTTGTTGC
63 GCACTTGG-CTTGATTCTAG-AGCTAC
* * * * **
10855747 AATAATTTTTCTTATTTCTGA-AATAATTATAATAATTACAATTTCCTTCATTTCATTTTCGGGA
1 AATAATTTTTTTTATTTTTCAGAAT-ATTATAATAATTACTATTTATTTCATTTCATTTTCGGG-
* * *
10855811 CATTTGGCTTGAGTCT-GATG-TCGC
64 CACTTGGCTTGATTCTAGA-GCT-AC
* * *
10855835 AATAA--GTTTTTATTTTTCGGAATAGTTATAATAATTACAATTTATTTCATTAT-ATTTTCGAG
1 AATAATTTTTTTTATTTTTCAGAATA-TTATAATAATTACTATTTATTTCATT-TCATTTTCG-G
* * * *
10855897 GCACTAGGGCTTGA-GCTTGGTGCTAC
63 GCACT-TGGCTTGATTC-TAGAGCTAC
* * *
10855923 AAT-ATATTTTTTA-TTTTCCGAAATAATTATAACAATTACTATTTATTTCATTTCATTTTCGAG
1 AATAATTTTTTTTATTTTTCAG-AAT-ATTATAATAATTACTATTTATTTCATTTCATTTTCG-G
* * * *
10855986 GCACTAGGGCTCGAGTT-TGGTGCTAC
63 GCACT-TGGCTTGA-TTCTAGAGCTAC
* * * *
10856012 AAGATTTTTTTTTTAATTTTT-GGAATAATTATAAT-ATT--TA-ATA-TTCATTTCATTTTCGG
1 AATA-ATTTTTTTT-ATTTTTCAGAAT-ATTATAATAATTACTATTTATTTCATTTCATTTTCGG
* * * * * * *
10856071 GGAATATAGACTTGAGTCTGGTA-TTGC
63 GCACT-T-GGCTTGATTCTAG-AGCTAC
* * * ** *
10856098 AATAA-----ATT-TTTTT-GGAATAATTTTAATAGCTACTATTTATTTCATTTCATTTTTGGGC
1 AATAATTTTTTTTATTTTTCAGAAT-ATTATAATAATTACTATTTATTTCATTTCATTTTCGGGC
10856156 ACTTGGGCTTGATTCT-GAAGCTAC
65 ACTT-GGCTTGATTCTAG-AGCTAC
** * * *
10856180 AATAA--TTTTTTATTTTTTGGAATAGTTATAGTAGTTACTATTTGTTTCATTTCATTTTCGGAG
1 AATAATTTTTTTTATTTTTCAGAATA-TTATAATAATTACTATTTATTTCATTTCATTTTCGG-G
*
10856243 CACTTGGTCTTTATTCTAGAGCTAC
64 CACTTGG-CTTGATTCTAGAGCTAC
10856268 AATAATTTTTTTTTTATTTTTCAGAATGATTATAATAATTACT-TTATATTTCATTTCATTTT-G
1 AATAA--TTTTTTTTATTTTTCAGAAT-ATTATAATAATTACTATT-TATTTCATTTCATTTTCG
* * * *
10856331 AGGACACTTAGGCTTGA-GCTTAGTGTTGC
62 -GG-CACTT-GGCTTGATTC-TAGAGCTAC
* *
10856360 AATAATTTTTTAT-TTTTTGA-AATAATTATAATAATTACTATTTATTTCATTTCATTTTCGGGT
1 AATAATTTTTTTTATTTTTCAGAAT-ATTATAATAATTACTATTTATTTCATTTCATTTTCGGG-
10856423 CACTTG
64 CACTTG
10856429 AAATTTTTTC
Statistics
Matches: 1242, Mismatches: 226, Indels: 274
0.71 0.13 0.16
Matches are distributed among these distances:
78 18 0.01
79 1 0.00
80 2 0.00
81 4 0.00
82 19 0.02
83 18 0.01
85 8 0.01
86 44 0.04
87 87 0.07
88 149 0.12
89 205 0.17
90 118 0.10
91 156 0.13
92 135 0.11
93 76 0.06
94 62 0.05
95 9 0.01
96 26 0.02
97 85 0.07
98 20 0.02
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (87 bp):
AATAATTTTTTTTATTTTTCAGAATATTATAATAATTACTATTTATTTCATTTCATTTTCGGGCA
CTTGGCTTGATTCTAGAGCTAC
Found at i:10857433 original size:21 final size:21
Alignment explanation
Indices: 10857409--10857449 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10857399 AAAATCGATA
*
10857409 TAATTTTA-TTAATTATTAATT
1 TAATATTACTTAA-TATTAATT
10857430 TAATATTACTTAATATTAAT
1 TAATATTACTTAATATTAAT
10857450 ACGTTAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATATTACTTAATATTAATT
Found at i:10858231 original size:16 final size:16
Alignment explanation
Indices: 10858210--10858241 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10858200 CAATGGTGGG
10858210 TTCCTTTTTTTTTTCT
1 TTCCTTTTTTTTTTCT
10858226 TTCCTTTTTTTTTTCT
1 TTCCTTTTTTTTTTCT
10858242 GTGGTACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTCCTTTTTTTTTTCT
Found at i:10861048 original size:75 final size:75
Alignment explanation
Indices: 10860920--10861072 Score: 270
Period size: 75 Copynumber: 2.0 Consensus size: 75
10860910 TCACCAGAGT
* *
10860920 AAGAGGGAACACTATGAGAACTAGTATTTGTTGGACTAATATCTACTCTATTCTGAGGAATCGAA
1 AAGAGGGAACACTATGAGAACTAGTATTTGTTGGACTAATATCTACTCCATTCTAAGGAATCGAA
10860985 GACCCATTCA
66 GACCCATTCA
* *
10860995 AAGAGGGAATACTATGAGAATTAGTATTTGTTGGACTAATATCTACTCCATTCTAAGGAATCGAA
1 AAGAGGGAACACTATGAGAACTAGTATTTGTTGGACTAATATCTACTCCATTCTAAGGAATCGAA
10861060 GACCCATTCA
66 GACCCATTCA
10861070 AAG
1 AAG
10861073 TACTCGGGAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (75 bp):
AAGAGGGAACACTATGAGAACTAGTATTTGTTGGACTAATATCTACTCCATTCTAAGGAATCGAA
GACCCATTCA
Found at i:10868686 original size:102 final size:102
Alignment explanation
Indices: 10868555--10868755 Score: 321
Period size: 102 Copynumber: 2.0 Consensus size: 102
10868545 CCAATGAGTC
* ** **
10868555 GGGGAATCAGCACTTAGCAACCCTTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCA
1 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
*
10868620 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
66 CCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTCG
* *
10868657 GGGGAATCAACACTTAGCAGCCCCCTTCACATTTAAGATATGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
*
10868722 CCAATGAGTCGGGGAATTAGCACTTAGCAACCCC
66 CCAATGAGTCGGGGAATCAGCACTTAGCAACCCC
10868756 CTTCACATTT
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 90 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (102 bp):
GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTCG
Found at i:10868756 original size:75 final size:75
Alignment explanation
Indices: 10868657--10868830 Score: 285
Period size: 75 Copynumber: 2.3 Consensus size: 75
10868647 CAACCCCTCG
* * * *
10868657 GGGGAATCAACACTTAGCAGCCCCCTTCACATTTAAGATATGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
10868722 CCAATGAGTC
66 CCAATGAGTC
*
10868732 GGGGAATTAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
10868797 CCAATGATTC
66 CCAATGAGTC
*
10868807 GAGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
10868831 TCGGGGGAAT
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 91 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (75 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAGTC
Found at i:10868831 original size:177 final size:177
Alignment explanation
Indices: 10868521--10868852 Score: 574
Period size: 177 Copynumber: 1.9 Consensus size: 177
10868511 AACCGTTATC
* * **
10868521 GGTGGATTCAGCATTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCTTTTCACA
1 GGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCCTTCACA
* ** *
10868586 TTTAAGATACGGTGGGTTCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAAC
66 TTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATGATTCGAGGAATCAGCACTTAGCAAC
10868651 CCCTCGGGGGAATCAACACTTAGCAGCCCCCTTCACATTTAAGATAT
131 CCCTCGGGGGAATCAACACTTAGCAGCCCCCTTCACATTTAAGATAT
*
10868698 GGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATTAGCACTTAGCAACCCCCTTCACA
1 GGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCCTTCACA
10868763 TTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATGATTCGAGGAATCAGCACTTAGCAAC
66 TTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATGATTCGAGGAATCAGCACTTAGCAAC
*
10868828 CCCTCGGGGGAATCAGCACTTAGCA
131 CCCTCGGGGGAATCAACACTTAGCA
10868853 ACCACCTTTT
Statistics
Matches: 145, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
177 145 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (177 bp):
GGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCCTTCACA
TTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATGATTCGAGGAATCAGCACTTAGCAAC
CCCTCGGGGGAATCAACACTTAGCAGCCCCCTTCACATTTAAGATAT
Found at i:10869228 original size:30 final size:30
Alignment explanation
Indices: 10869194--10869251 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
10869184 CCACCCAAGT
*
10869194 TTTTGAAAAATTATAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
10869224 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
10869252 GCTCGGAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:10876020 original size:102 final size:102
Alignment explanation
Indices: 10875897--10876229 Score: 585
Period size: 102 Copynumber: 3.3 Consensus size: 102
10875887 CCAATGAGTC
** **
10875897 GGGGAATCAGCACTTAGCAACCCTTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
10875962 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
66 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
*
10875999 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
* *
10876064 CCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
*
10876101 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
10876166 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
66 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
*
10876203 GGGGAATCAGCACTTAGCAACCACCTT
1 GGGGAATCAGCACTTAGCAACCCCCTT
10876230 TTTATTCAAT
Statistics
Matches: 219, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 219 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
Found at i:10880013 original size:24 final size:24
Alignment explanation
Indices: 10879963--10880014 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
10879953 AATTAAAGTC
* **
10879963 AAATATATTATGTTAATAAATGTT
1 AAATATATTATCTTAATAAATACT
10879987 AAATATATTATACTT-ATAAATACT
1 AAATATATTAT-CTTAATAAATACT
10880011 AAAT
1 AAAT
10880015 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (24 bp):
AAATATATTATCTTAATAAATACT
Found at i:10894601 original size:18 final size:17
Alignment explanation
Indices: 10894568--10894606 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
10894558 TTTTATAAAT
10894568 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
10894586 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
10894603 TGTG
1 TGTG
10894607 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:10894863 original size:23 final size:23
Alignment explanation
Indices: 10894832--10894904 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
10894822 AGTGTTATTG
*
10894832 ATCAATGGTAGCTACGGCTACAT
1 ATCAATGGTAGCTTCGGCTACAT
*
10894855 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAATGGTAGCTTCGGCTACAT
* *
10894878 TTCAATGGTAGCTTCGGCTACAA
1 ATCAATGGTAGCTTCGGCTACAT
10894901 ATCA
1 ATCA
10894905 GTGTGGCACT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (23 bp):
ATCAATGGTAGCTTCGGCTACAT
Found at i:10895403 original size:16 final size:16
Alignment explanation
Indices: 10895376--10895430 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
10895366 ATTTGGTTCG
*
10895376 CTGTAATAGAATAGAA
1 CTGTAATGGAATAGAA
* * *
10895392 CTGTAGTTGAATAGAG
1 CTGTAATGGAATAGAA
10895408 CTGTAATGGAATAGAA
1 CTGTAATGGAATAGAA
10895424 CTGTAAT
1 CTGTAAT
10895431 AGTAATTCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAA
Found at i:10895465 original size:45 final size:44
Alignment explanation
Indices: 10895412--10895504 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
10895402 ATAGAGCTGT
10895412 AATGGAATAGAACTGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGT-ATTC-ATGTGTTTGGTTGAATGG
*
10895457 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
10895501 AATG
1 AATG
10895505 ATGTTGTAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.50
45 22 0.48
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
Found at i:10895727 original size:56 final size:56
Alignment explanation
Indices: 10895612--10895740 Score: 145
Period size: 56 Copynumber: 2.3 Consensus size: 56
10895602 AATAAGATTA
* *
10895612 TTAATATAAATAATAAATAATTTAATCATATTTTAACATAATTATTATTAAATATAAT
1 TTAATA-AAATAATAAATAATTTAATAAAATTTTAACATAATTATTATT-AATATAAT
* * *
10895670 TTAATAAAA-AATATATAATTTAATAAAATTCTTAATATAATTATTCTT-ATATGAAT
1 TTAATAAAATAATAAATAATTTAATAAAATT-TTAACATAATTATTATTAATAT-AAT
* *
10895726 TTACTAAAATCATAA
1 TTAATAAAATAATAA
10895741 TATATAATAA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
55 4 0.07
56 29 0.48
57 21 0.35
58 6 0.10
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (56 bp):
TTAATAAAATAATAAATAATTTAATAAAATTTTAACATAATTATTATTAATATAAT
Found at i:10896997 original size:37 final size:38
Alignment explanation
Indices: 10896954--10897029 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
10896944 GGTTGCGGAA
* *
10896954 AGGGAAAAAA-AGCAATTACTTTACCAAAATGGATCCC
1 AGGGAAAAAAGAGCAACTACGTTACCAAAATGGATCCC
10896991 AGGGAAAAAAGAGCAACTACGTTACCAAAATGGATCCC
1 AGGGAAAAAAGAGCAACTACGTTACCAAAATGGATCCC
10897029 A
1 A
10897030 ATACAAGAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 10 0.28
38 26 0.72
ACGTcount: A:0.46, C:0.20, G:0.18, T:0.16
Consensus pattern (38 bp):
AGGGAAAAAAGAGCAACTACGTTACCAAAATGGATCCC
Found at i:10899807 original size:49 final size:49
Alignment explanation
Indices: 10899748--10899883 Score: 211
Period size: 49 Copynumber: 2.8 Consensus size: 49
10899738 AAGTGATATG
*
10899748 TGATTCCGTGTAAGACCATAGTTGGGCTATGGCATC-AGTATATGTTATA
1 TGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGA-TATATGTTATA
* * *
10899797 TGATTACGTGTAAGACTATAGCTGGGCTATGGCATCGATATATGTTATG
1 TGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATATGTTATA
*
10899846 TGATTACGTGTAAGACCATAGTTGGACTATGGCATCGA
1 TGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGA
10899884 GAAAATAAGT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
49 78 0.99
50 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (49 bp):
TGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATATGTTATA
Found at i:10903668 original size:41 final size:41
Alignment explanation
Indices: 10903606--10903736 Score: 145
Period size: 41 Copynumber: 3.2 Consensus size: 41
10903596 TCAGATTTAT
* * * *
10903606 TGCCAGTGAAATAATTCAGACTTTAGGTCTAGCAGGCTTGA
1 TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGCTTAA
*
10903647 TGCCGGTGAAATTATTCAGACTATACGTCTAGCAGGCTTAA
1 TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGCTTAA
* *** * * *
10903688 TGCCGGTGATACGTTTCAAACTATAAGTCTAGCAGGCTAAA
1 TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGCTTAA
*
10903729 AGCCGGTG
1 TGCCGGTG
10903737 TACCAAATCA
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 77 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (41 bp):
TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGCTTAA
Found at i:10907136 original size:9 final size:9
Alignment explanation
Indices: 10907122--10907152 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
10907112 TTTATACCTA
10907122 TTTTTTCTT
1 TTTTTTCTT
10907131 TTTTTTCTCT
1 TTTTTTCT-T
10907141 TTTTTTCTT
1 TTTTTTCTT
10907150 TTT
1 TTT
10907153 CTTTTCTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:10913700 original size:129 final size:119
Alignment explanation
Indices: 10913467--10913704 Score: 278
Period size: 119 Copynumber: 1.9 Consensus size: 119
10913457 AATATTTATA
* * * *
10913467 TTTTTTATTTTAAATTATTTCAAGTTTTTTAAATTTTTAATTAATTTTTAATATATTAGTTCTAT
1 TTTTTTATTTCAAATTACTTCAAGCTTTTTAAATTTTTAATTAATTTTTAACATATTAGTTCTAT
* * *
10913532 AGTTAGATAGTTGTAATTACATATTTGAGTCTTGGGTTCAATTCATCATTTGTG
66 AGTTAGATAGTTATAATTACATATTTGAATCTTGAGTTCAATTCATCATTTGTG
**
10913586 TTTTTTATTTCATGTTACTTCAAGCTTTTTAAATTTTTAATTAATGTTTTTAACATATTAGTTCT
1 TTTTTTATTTCAAATTACTTCAAGCTTTTTAAATTTTTAATTAA--TTTTTAACATATTAG---T
* * *
10913651 TCTATTAAATGGTTAGATTGTTATAATTACATCTTTGAATTTTGAGTTCAATTC
61 TCTA-T--A--GTTAGATAGTTATAATTACATATTTGAATCTTGAGTTCAATTC
10913705 CTTTACTACT
Statistics
Matches: 97, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
119 39 0.40
121 14 0.14
124 5 0.05
125 1 0.01
127 1 0.01
129 37 0.38
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.54
Consensus pattern (119 bp):
TTTTTTATTTCAAATTACTTCAAGCTTTTTAAATTTTTAATTAATTTTTAACATATTAGTTCTAT
AGTTAGATAGTTATAATTACATATTTGAATCTTGAGTTCAATTCATCATTTGTG
Found at i:10914306 original size:5 final size:5
Alignment explanation
Indices: 10914296--10914333 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
10914286 GAAATGGTGA
10914296 GACGT GACGT GACGT GACGT GACGT GACGT GACGT GAC
1 GACGT GACGT GACGT GACGT GACGT GACGT GACGT GAC
10914334 CTCAATTAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.39, T:0.18
Consensus pattern (5 bp):
GACGT
Found at i:10921978 original size:68 final size:69
Alignment explanation
Indices: 10921847--10921985 Score: 217
Period size: 68 Copynumber: 2.0 Consensus size: 69
10921837 GACTTGCAAA
* * *
10921847 ATTGTGAAAAACTAGATAGGCAAAATAAGTACAAGCAATAATGCAAATTAGGTTTCCCAAGATAT
1 ATTGTGAAAAACTAGATAGGAAAAATAAGTAAAAGCAATAATACAAATTAGGTTTCCCAAGATAT
10921912 AGAC
66 AGAC
* **
10921916 ATTGTGAAAAACTAGATAGGAAAAAT-AGTAAAAGCAATGATACAAATTAGGTTTCCTGAGATAT
1 ATTGTGAAAAACTAGATAGGAAAAATAAGTAAAAGCAATAATACAAATTAGGTTTCCCAAGATAT
10921980 AGAC
66 AGAC
10921984 AT
1 AT
10921986 GAAGAAAGGA
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
68 39 0.61
69 25 0.39
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (69 bp):
ATTGTGAAAAACTAGATAGGAAAAATAAGTAAAAGCAATAATACAAATTAGGTTTCCCAAGATAT
AGAC
Found at i:10924155 original size:15 final size:15
Alignment explanation
Indices: 10924135--10924163 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10924125 TGGAACCAAA
10924135 TAATCATAAATTATG
1 TAATCATAAATTATG
10924150 TAATCATAAATTAT
1 TAATCATAAATTAT
10924164 CTAAAATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.41
Consensus pattern (15 bp):
TAATCATAAATTATG
Found at i:10931099 original size:19 final size:20
Alignment explanation
Indices: 10931064--10931103 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
10931054 AATATTTTTA
*
10931064 ATATTTTTTATATATTATAT
1 ATATTTTTTATAAATTATAT
10931084 ATATTTTTTA-AAATTATAT
1 ATATTTTTTATAAATTATAT
10931103 A
1 A
10931104 AAAAATGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATATTTTTTATAAATTATAT
Found at i:10931531 original size:13 final size:13
Alignment explanation
Indices: 10931476--10931534 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
10931466 TTTTAAAAAT
10931476 TTTAA-AAATATG
1 TTTAATAAATATG
10931488 TTTAATAAATA-G
1 TTTAATAAATATG
* * *
10931500 --AAATAAATTTT
1 TTTAATAAATATG
*
10931511 TTTTATAAATATG
1 TTTAATAAATATG
10931524 TTTAATAAATA
1 TTTAATAAATA
10931535 GAAGTAAAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
10 7 0.20
12 6 0.17
13 22 0.63
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (13 bp):
TTTAATAAATATG
Found at i:10951107 original size:46 final size:45
Alignment explanation
Indices: 10951040--10951385 Score: 341
Period size: 46 Copynumber: 8.2 Consensus size: 45
10951030 TTTGAGTACT
* *
10951040 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
10951086 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
10951122 TCTGATCAAGAGACAAAGTGATACGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
10951168 TCTGATCAAGTGGAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
10951204 TCTGATCAAGTGAAAAAAGTGATAA---GT-GC--A---ATACTTA
1 TCTGATCAAGTG-AAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
10951241 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
10951287 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
10951333 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
10951378 TTTGATCA
1 TCTGATCA
10951386 GGGACAAGCG
Statistics
Matches: 259, Mismatches: 18, Indels: 47
0.80 0.06 0.15
Matches are distributed among these distances:
36 59 0.23
37 33 0.13
38 1 0.00
39 1 0.00
40 5 0.02
41 1 0.00
42 4 0.02
43 3 0.01
45 22 0.08
46 130 0.50
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:10951117 original size:36 final size:36
Alignment explanation
Indices: 10951076--10951267 Score: 222
Period size: 36 Copynumber: 5.0 Consensus size: 36
10951066 GGTAGCTTTA
10951076 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
10951112 GCTACACTTATCTGATCAAGAGACAAAGTGATACGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATA------AG---T
*
10951157 AGCTACACTTATCTGATCAAGTGGAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
10951194 GCTATACTTATCTGATCAAGTGAAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTG-AAAAAGTGATAAGT
* * *
10951231 GCAATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
10951267 G
1 G
10951268 TTAGCCTTAG
Statistics
Matches: 136, Mismatches: 9, Indels: 22
0.81 0.05 0.13
Matches are distributed among these distances:
36 66 0.49
37 35 0.26
40 2 0.01
42 2 0.01
45 1 0.01
46 30 0.22
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:10951177 original size:82 final size:81
Alignment explanation
Indices: 10951040--10951359 Score: 354
Period size: 82 Copynumber: 3.9 Consensus size: 81
10951030 TTTGAGTACT
10951040 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGA-AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
10951105 GATAAGTGCTACACTTA
65 GATAAGTGCTACACTTA
* *
10951122 TCTGATCAAGAGACAAAGTGATACGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGGAAAAGT
1 TCTGATCAAGAGA-AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
10951187 GATAAGTGCTATACTTA
65 GATAAGTGCTACACTTA
* * *
10951204 TCTGATCAAGTGAAAAAAGTGATAA---GT-GC---A---ATACTTATCTGATCAAGTGACAAAG
1 TCTGATCAA--GAGAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAG
10951259 TGATAAGTGTTAGCCTTAGCTACACTTA
64 TGAT-A-----AG---T-GCTACACTTA
* * *
10951287 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGA-AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
10951352 GATAAGTG
65 GATAAGTG
10951360 GTAGCCTAGC
Statistics
Matches: 202, Mismatches: 13, Indels: 46
0.77 0.05 0.18
Matches are distributed among these distances:
73 26 0.13
74 1 0.00
76 1 0.00
79 4 0.02
80 2 0.01
81 2 0.01
82 99 0.49
83 28 0.14
84 3 0.01
85 2 0.01
86 4 0.02
89 1 0.00
91 1 0.00
92 28 0.14
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (81 bp):
TCTGATCAAGAGAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
ATAAGTGCTACACTTA
Found at i:10951231 original size:119 final size:118
Alignment explanation
Indices: 10951076--10951313 Score: 388
Period size: 119 Copynumber: 2.0 Consensus size: 118
10951066 GGTAGCTTTA
*
10951076 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCAACACTTATCTGATCAAGAGACAAAGT
* *
10951141 GATACGTGGTAGCTTTAGCTACACTTATCTGATCAAGTG-GAAAAGTGATAAGT
66 GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAG-AAAGTGATAAGT
* * *
10951194 GCTATACTTATCTGATCAAGTGAAAAAAGTGATAAGTGCAATACTTATCTGATCAAGTGACAAAG
1 GCTACACTTATCTGATCAAGTG-AAAAAGTGATAAGTGCAACACTTATCTGATCAAGAGACAAAG
*
10951259 TGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGT
65 TGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGT
10951313 G
1 G
10951314 GTAGCCTTAG
Statistics
Matches: 111, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
118 21 0.19
119 89 0.80
120 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (118 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCAACACTTATCTGATCAAGAGACAAAGT
GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGT
Found at i:10958181 original size:46 final size:46
Alignment explanation
Indices: 10958115--10958414 Score: 489
Period size: 46 Copynumber: 6.6 Consensus size: 46
10958105 TTTGAGTACT
* *
10958115 TCTGATC-AGTGGCAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
10958160 TCTGATCAAGTGACAAAGTGATAAGTGGTAACTTTAGCCACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
10958206 TCTAATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
10958252 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTGCACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
10958298 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
10958344 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
10958390 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
10958415 ATCATACGTA
Statistics
Matches: 238, Mismatches: 16, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
44 12 0.05
45 12 0.05
46 214 0.90
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:10959684 original size:46 final size:45
Alignment explanation
Indices: 10959578--10959903 Score: 395
Period size: 46 Copynumber: 7.6 Consensus size: 45
10959568 TACGTATGAT
* *
10959578 CACTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGTCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
10959621 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
10959667 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
* *
10959713 CACTTATCACTTTGTCACTTGATTAGATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
*
10959759 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--TA----A-
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
10959795 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--TA-G----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
* *
10959831 CACTTATCAATTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
* *
10959877 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
10959904 AGTACTCAAA
Statistics
Matches: 258, Mismatches: 11, Indels: 25
0.88 0.04 0.09
Matches are distributed among these distances:
36 63 0.24
37 1 0.00
38 3 0.01
40 1 0.00
41 2 0.01
42 2 0.01
43 10 0.04
44 7 0.03
45 21 0.08
46 148 0.57
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (45 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
Found at i:10959800 original size:36 final size:36
Alignment explanation
Indices: 10959759--10959862 Score: 181
Period size: 36 Copynumber: 2.9 Consensus size: 36
10959749 CTGAGGCTAC
*
10959759 CACTTATCACTTTGTCACTTGATCAGATAAGTATAA
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
*
10959795 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
*
10959831 CACTTATCAATTTTTCACTTGATCAGATAAGT
1 CACTTATCACTTTTTCACTTGATCAGATAAGT
10959863 GTAGCTAAAG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
Found at i:10967885 original size:5 final size:5
Alignment explanation
Indices: 10967875--10967905 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
10967865 AATTTTTAAG
10967875 AATAT AATAT AATAT AATAT AATAT AATAT A
1 AATAT AATAT AATAT AATAT AATAT AATAT A
10967906 TTTTAATCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:10967985 original size:7 final size:7
Alignment explanation
Indices: 10967974--10968006 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
10967964 TTTGTCTCTT
*
10967974 AAAACAT
1 AAAACAA
10967981 AAAACAA
1 AAAACAA
10967988 AAAACAA
1 AAAACAA
10967995 AAAACAA
1 AAAACAA
10968002 AAAAC
1 AAAAC
10968007 GCAAGCTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (7 bp):
AAAACAA
Found at i:10974626 original size:12 final size:12
Alignment explanation
Indices: 10974609--10974645 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
10974599 TTCAAACTTC
10974609 AAAAAAAA-AAA
1 AAAAAAAAGAAA
10974620 AAAAAAAAGAAA
1 AAAAAAAAGAAA
*
10974632 AAAGAAAAGAAA
1 AAAAAAAAGAAA
10974644 AA
1 AA
10974646 GAGGCTAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:10974632 original size:18 final size:18
Alignment explanation
Indices: 10974611--10974647 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10974601 CAAACTTCAA
10974611 AAAAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAAAG
* *
10974629 AAAAAAGAAAAGAAAAAG
1 AAAAAAAAAAAAAAAAAG
10974647 A
1 A
10974648 GGCTAGTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAAAAAAAG
Found at i:10980085 original size:39 final size:40
Alignment explanation
Indices: 10980036--10980114 Score: 142
Period size: 39 Copynumber: 2.0 Consensus size: 40
10980026 CTAAGTTGCA
10980036 TTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTAAT
1 TTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTAAT
*
10980076 TTTAT-TTAGTATTATTTAGGTGAAATTATTTATTTTAAT
1 TTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTAAT
10980115 ATTTTTGATG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 33 0.87
40 5 0.13
ACGTcount: A:0.32, C:0.01, G:0.10, T:0.57
Consensus pattern (40 bp):
TTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTAAT
Found at i:10988530 original size:47 final size:47
Alignment explanation
Indices: 10988461--10988557 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
10988451 TTTGCAAAGG
10988461 AGTACGTATGGTACTGGATAACTAGGAATAGGAAAGCTGCTTTCTAC
1 AGTACGTATGGTACTGGATAACTAGGAATAGGAAAGCTGCTTTCTAC
10988508 AGTACGTATGGTACTGGATAACTAGGAATAGGAAAGCTGCTTTCTAC
1 AGTACGTATGGTACTGGATAACTAGGAATAGGAAAGCTGCTTTCTAC
10988555 AGT
1 AGT
10988558 TATTCTTCAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (47 bp):
AGTACGTATGGTACTGGATAACTAGGAATAGGAAAGCTGCTTTCTAC
Found at i:10997565 original size:16 final size:16
Alignment explanation
Indices: 10997544--10997580 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
10997534 TTGGTTCGCT
10997544 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
10997560 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
10997576 GTAAT
1 GTAAT
10997581 ATGTAATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:10997649 original size:44 final size:46
Alignment explanation
Indices: 10997560--10997650 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
10997550 GAATAGAGGC
* *
10997560 GTAATGGAATAGAGGCGTAATATGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
10997606 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
10997650 G
1 G
10997651 GAATAGAGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 20 0.47
45 2 0.05
46 21 0.49
ACGTcount: A:0.26, C:0.04, G:0.30, T:0.40
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:10997651 original size:39 final size:44
Alignment explanation
Indices: 10997560--10997667 Score: 136
Period size: 46 Copynumber: 2.5 Consensus size: 44
10997550 GAATAGAGGC
* *
10997560 GTAATGGAATAGAGGCGTAATATGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
10997606 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
*
10997646 G-AATGGAATAGAGGTGTAATAG
1 GTAATGGAATAGAGGCGTAATAG
10997668 CATAAGGAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
39 18 0.31
40 3 0.05
43 1 0.02
44 13 0.22
45 2 0.03
46 21 0.36
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.37
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:10997829 original size:15 final size:15
Alignment explanation
Indices: 10997809--10997847 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
10997799 CATAATTGTT
10997809 ATAAAATATAATTTA
1 ATAAAATATAATTTA
10997824 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
10997841 ATAAAAT
1 ATAAAAT
10997848 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:10997854 original size:17 final size:17
Alignment explanation
Indices: 10997814--10997847 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10997804 TTGTTATAAA
10997814 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10997831 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10997848 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10997919 original size:20 final size:21
Alignment explanation
Indices: 10997880--10997919 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
10997870 AATTTACTAA
*
10997880 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
10997901 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
10997920 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:10997961 original size:54 final size:54
Alignment explanation
Indices: 10997771--10997966 Score: 144
Period size: 54 Copynumber: 3.4 Consensus size: 54
10997761 TATTAATATA
* * * * * *
10997771 AATAATAAATAATTTAATCATATTTTAACATAATTGTTATAAAATATAATTTAAT
1 AATAATAAATAATTAAAT-AAAATTTAAAATAATTATTATTAAATATAATTTAAT
* * * **
10997826 AA-AATATATAATTTAATAAAATTGTTAATAA-ATATTCTTATATAAATTTACTAATAAAAT
1 AATAATAAATAATTAAATAAAA-T-TTAA-AATA-ATTATTAT-TAAA--TA-TAATTTAAT
* * *
10997886 CATAATATATAATACTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT
1 AATAATAAATAAT--T-AAATAAAATTTAAAATAATTATTATTAAATATAATTTAAT
10997943 AATAATAAATAATTAAATAAAATT
1 AATAATAAATAATTAAATAAAATT
10997967 CTTATTCTTA
Statistics
Matches: 111, Mismatches: 17, Indels: 27
0.72 0.11 0.17
Matches are distributed among these distances:
53 2 0.02
54 24 0.22
55 8 0.07
56 8 0.07
57 21 0.19
58 2 0.02
59 2 0.02
60 12 0.11
61 19 0.17
62 5 0.05
63 2 0.02
64 6 0.05
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (54 bp):
AATAATAAATAATTAAATAAAATTTAAAATAATTATTATTAAATATAATTTAAT
Found at i:10998045 original size:32 final size:32
Alignment explanation
Indices: 10998009--10998072 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
10997999 TATATAATAC
*
10998009 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATATAAATAATTATTATTAAA
** ** *
10998041 TATAATTTATAATATACTTTATTATTATTAAA
1 TATAAAATATAATATAAATAATTATTATTAAA
10998073 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATATAAATAATTATTATTAAA
Found at i:10999484 original size:49 final size:49
Alignment explanation
Indices: 10999412--10999515 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
10999402 GAAAAAAAAC
* * ** * *
10999412 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
*
10999461 AAATTAAAATTGAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
10999510 AAATTA
1 AAATTA
10999516 TAACACATGA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.31
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
Found at i:11001678 original size:12 final size:12
Alignment explanation
Indices: 11001654--11001687 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11001644 CCGCATTTTA
11001654 AGCAAAAGAACG
1 AGCAAAAGAACG
* *
11001666 AGCCAAAGCACG
1 AGCAAAAGAACG
11001678 AGCAAAAGAA
1 AGCAAAAGAA
11001688 AATAAATAAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.56, C:0.21, G:0.24, T:0.00
Consensus pattern (12 bp):
AGCAAAAGAACG
Found at i:11002798 original size:23 final size:22
Alignment explanation
Indices: 11002754--11002798 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
11002744 ATAAAAAATC
*
11002754 TATTTAAAAAAAGGTCAAATTT
1 TATTTAAAAAAAGGTAAAATTT
11002776 TATTTAAAATAAAGG-AAATATTT
1 TATTTAAAA-AAAGGTAAA-ATTT
11002799 CCACTTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (22 bp):
TATTTAAAAAAAGGTAAAATTT
Found at i:11003633 original size:13 final size:13
Alignment explanation
Indices: 11003615--11003639 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11003605 AACATTCGGC
11003615 CGGTGGGAATAAT
1 CGGTGGGAATAAT
11003628 CGGTGGGAATAA
1 CGGTGGGAATAA
11003640 ACAAATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.40, T:0.20
Consensus pattern (13 bp):
CGGTGGGAATAAT
Found at i:11005589 original size:22 final size:21
Alignment explanation
Indices: 11005564--11005616 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
11005554 ATGTAGAATT
11005564 TTTAATTAAATAAAAAAATAAA
1 TTTAATTAAAT-AAAAAATAAA
*
11005586 TTTAATATTAAATAAAAATTAAA
1 TTT-A-ATTAAATAAAAAATAAA
*
11005609 TTAAATTA
1 TTTAATTA
11005617 TCATTTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 4 0.15
22 4 0.15
23 12 0.44
24 7 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTAATTAAATAAAAAATAAA
Found at i:11005600 original size:16 final size:16
Alignment explanation
Indices: 11005567--11005614 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
11005557 TAGAATTTTT
* *
11005567 AATTAAATAAAAAAATA
1 AATTAAATTAAATAA-A
11005584 AATTTAATATTAAATAAA
1 AA-TTAA-ATTAAATAAA
11005602 AATTAAATTAAAT
1 AATTAAATTAAAT
11005615 TATCATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 7 0.26
17 6 0.22
18 7 0.26
19 7 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATTAAATTAAATAAA
Found at i:11006458 original size:29 final size:28
Alignment explanation
Indices: 11006412--11006473 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
11006402 TTAAATTTAT
11006412 TTAATTTTCTAATAATATAAAAGCTAAA
1 TTAATTTTCTAATAATATAAAAGCTAAA
* * * *
11006440 TTAATTTATTTAATAATATAGAGGCTAAT
1 TTAATTT-TCTAATAATATAAAAGCTAAA
11006469 TTAAT
1 TTAAT
11006474 CTAGTCACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 7 0.24
29 22 0.76
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (28 bp):
TTAATTTTCTAATAATATAAAAGCTAAA
Found at i:11009164 original size:18 final size:18
Alignment explanation
Indices: 11009143--11009184 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
11009133 AATATTACAA
11009143 AAAAAATTTAATAAAT-AT
1 AAAAAATTTAA-AAATCAT
* *
11009161 AAAAAGTTTCAAAATCAT
1 AAAAAATTTAAAAATCAT
11009179 AAAAAA
1 AAAAAA
11009185 AATATAATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAAAATTTAAAAATCAT
Found at i:11010599 original size:12 final size:13
Alignment explanation
Indices: 11010571--11010604 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
11010561 ATGCATCCAG
11010571 ATAATTAATAAAT
1 ATAATTAATAAAT
*
11010584 ATAATTAA-ATAT
1 ATAATTAATAAAT
11010596 ATAATTAAT
1 ATAATTAAT
11010605 TTGACTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATAATTAATAAAT
Found at i:11010639 original size:26 final size:27
Alignment explanation
Indices: 11010585--11010637 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 27
11010575 TTAATAAATA
* *
11010585 TAATTAAATATATAATTAATTTGACTT
1 TAATTAAATAAATAATTAATTAGACTT
11010612 TAATTAAA-AAATAATT-ATTAGACTT
1 TAATTAAATAAATAATTAATTAGACTT
11010637 T
1 T
11010638 TACCGTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 9 0.38
26 7 0.29
27 8 0.33
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (27 bp):
TAATTAAATAAATAATTAATTAGACTT
Found at i:11011006 original size:22 final size:22
Alignment explanation
Indices: 11010978--11011028 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
11010968 CTCTCTAATC
11010978 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
11011000 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
11011022 CTCTCAA
1 CTCTCAA
11011029 ACCCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:11011056 original size:51 final size:51
Alignment explanation
Indices: 11011000--11011111 Score: 188
Period size: 51 Copynumber: 2.2 Consensus size: 51
11010990 TTCCAAAATT
11011000 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
* * *
11011051 CTCTCAATTTCCTTCTAAAATTCTCTCAAATCCATATTTAATTTTAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
*
11011102 CCCTCAATTT
1 CTCTCAATTT
11011112 TATTTTTGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.29, C:0.28, G:0.00, T:0.44
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
Found at i:11011147 original size:10 final size:10
Alignment explanation
Indices: 11011127--11011177 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
11011117 TTGAAAATAA
11011127 TTTTAAA-TT
1 TTTTAAATTT
*
11011136 TTTTATATTT
1 TTTTAAATTT
**
11011146 TTTTAAAATAA
1 TTTT-AAATTT
11011157 TTTTAAATTT
1 TTTTAAATTT
*
11011167 TTTTATATTT
1 TTTTAAATTT
11011177 T
1 T
11011178 CATCAATGGC
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
9 6 0.18
10 20 0.61
11 7 0.21
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:11011154 original size:30 final size:31
Alignment explanation
Indices: 11011114--11011177 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
11011104 CTCAATTTTA
11011114 TTTTTGAAAATAATTTTAAA-TTTTTTATAT
1 TTTTTGAAAATAATTTTAAATTTTTTTATAT
*
11011144 TTTTTTAAAATAATTTTAAATTTTTTTATAT
1 TTTTTGAAAATAATTTTAAATTTTTTTATAT
11011175 TTT
1 TTT
11011178 CATCAATGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 19 0.59
31 13 0.41
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (31 bp):
TTTTTGAAAATAATTTTAAATTTTTTTATAT
Found at i:11013253 original size:21 final size:21
Alignment explanation
Indices: 11013196--11013247 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
11013186 CAGATGTCGA
11013196 ACCGGAAGAACCACAATCACC
1 ACCGGAAGAACCACAATCACC
11013217 ACCGGAAGAACCACAATCACC
1 ACCGGAAGAACCACAATCACC
11013238 ACCGGAAGAA
1 ACCGGAAGAA
11013248 GAACAACCGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.44, C:0.35, G:0.17, T:0.04
Consensus pattern (21 bp):
ACCGGAAGAACCACAATCACC
Found at i:11013426 original size:26 final size:25
Alignment explanation
Indices: 11013362--11013431 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
11013352 TTTAAATTTA
* *
11013362 TTATCTGATGGAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* * *
11013387 TTATTTAATATAATAAAATGGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
11013412 TCTATTTGATGTAATTAAAA
1 T-TATTTGATGTAA-TAAAA
11013432 ACCCTAACTT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
25 21 0.58
26 10 0.28
27 5 0.14
ACGTcount: A:0.44, C:0.03, G:0.14, T:0.39
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:11013446 original size:18 final size:18
Alignment explanation
Indices: 11013423--11013458 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
11013413 CTATTTGATG
11013423 TAATTAAAAACCCTAACT
1 TAATTAAAAACCCTAACT
11013441 TAATTAAAAACCCTAACT
1 TAATTAAAAACCCTAACT
11013459 CTAACCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (18 bp):
TAATTAAAAACCCTAACT
Found at i:11013476 original size:29 final size:29
Alignment explanation
Indices: 11013434--11013651 Score: 155
Period size: 29 Copynumber: 7.9 Consensus size: 29
11013424 AATTAAAAAC
*
11013434 CCTAACTTAATTAAAAACCCTAACTCTAA
1 CCTAATTTAATTAAAAACCCTAACTCTAA
* *
11013463 CCTAATTTAATTAAAAACCTTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACTCTAA
*
11013492 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAA
1 CCTAATTTAATTAAAAACCCTAAC-T--CT---AA
11013527 CCCTAATTTAATTAAAAACCCTAACT-TAA
1 -CCTAATTTAATTAAAAACCCTAACTCTAA
* *** * *
11013556 -TTAA---AAACCATAACTCTAAC-C---
1 CCTAATTTAATTAAAAACCCTAACTCTAA
11013577 --TAATTTAATTAAAAA-CC---C--TAA
1 CCTAATTTAATTAAAAACCCTAACTCTAA
*
11013598 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACTCTAA
11013627 CCTAATTTAATTAAAAACCCTAACT
1 CCTAATTTAATTAAAAACCCTAACT
11013652 TAATTAAAAA
Statistics
Matches: 149, Mismatches: 18, Indels: 44
0.71 0.09 0.21
Matches are distributed among these distances:
19 1 0.01
20 3 0.02
22 1 0.01
23 20 0.13
24 13 0.09
27 4 0.03
29 78 0.52
32 2 0.01
35 3 0.02
36 24 0.16
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACTCTAA
Found at i:11013514 original size:47 final size:47
Alignment explanation
Indices: 11013463--11013782 Score: 298
Period size: 47 Copynumber: 7.1 Consensus size: 47
11013453 CTAACTCTAA
*
11013463 CCTAATTTAATTAAAAACCTTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCTTAACCCTAACCTAATTTAATTAAAAAC
11013510 CCTAACTTAATT--AAA----AA--C---CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCTTAACCCTAACCTAATTTAATTAAAAAC
* *
11013546 CCTAACTTAATTAAAAACCATAACTCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCTTAACCCTAACCTAATTTAATTAAAAAC
*
11013593 CCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAA-C----TTAATTAAAAACCTTAACCCTAACCTAATTTAATTAAAAAC
*
11013645 CCTAACTTAATTAAAAA-CTCAAACCCTAACCT-A---AATTAAAAAC
1 CCTAACTTAATTAAAAACCT-TAACCCTAACCTAATTTAATTAAAAAC
11013688 CCTAACTTAATT--AAA----AA--C---CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCTTAACCCTAACCTAATTTAATTAAAAAC
11013724 CCTAACTTAATTAAAAACCCTAACCCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAA-CCT-----TAACCCTAACCTAATTTAATTAAAAAC
11013777 CCTAAC
1 CCTAAC
11013783 CCTAACCTAA
Statistics
Matches: 230, Mismatches: 5, Indels: 70
0.75 0.02 0.23
Matches are distributed among these distances:
32 3 0.01
33 1 0.00
35 1 0.00
36 52 0.23
37 2 0.01
38 6 0.03
39 1 0.00
41 5 0.02
42 2 0.01
43 22 0.10
44 1 0.00
45 3 0.01
46 2 0.01
47 56 0.24
48 3 0.01
50 1 0.00
51 1 0.00
52 44 0.19
53 24 0.10
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (47 bp):
CCTAACTTAATTAAAAACCTTAACCCTAACCTAATTTAATTAAAAAC
Found at i:11013519 original size:18 final size:18
Alignment explanation
Indices: 11013492--11013747 Score: 216
Period size: 18 Copynumber: 14.3 Consensus size: 18
11013482 TTAACCCTAA
*
11013492 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
11013510 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
*
11013528 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
11013546 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
* *
11013564 CATAAC-T--CT---AA-
1 CCTAACTTAATTAAAAAC
*
11013575 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
11013593 CCTAACCTAATTTAATTAAAAAC
1 CCTAA-C----TTAATTAAAAAC
**
11013616 CCTAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
*
11013627 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
11013645 CCTAACTTAATTAAAAACTCAAAC
1 CCTAACTTAATT---AA---AAAC
*
11013669 CCTAACCTAAATTAAAAAC
1 CCTAA-CTTAATTAAAAAC
11013688 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
*
11013706 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
11013724 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
11013742 CCTAAC
1 CCTAAC
11013748 CCTAACCCTA
Statistics
Matches: 193, Mismatches: 19, Indels: 52
0.73 0.07 0.20
Matches are distributed among these distances:
11 9 0.05
12 5 0.03
14 2 0.01
15 2 0.01
17 5 0.03
18 124 0.64
19 9 0.05
21 2 0.01
22 3 0.02
23 17 0.09
24 9 0.05
25 6 0.03
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.29
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:11013726 original size:178 final size:189
Alignment explanation
Indices: 11013463--11013846 Score: 540
Period size: 178 Copynumber: 2.0 Consensus size: 189
11013453 CTAACTCTAA
* *
11013463 CCTAATTTAATTAAAAACCTTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCTAAACCCTAACCTAA--TAATTAAAAACCCTAACTTAATTAAAAAC
*
11013528 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAA-CC-A-TAACTCTAACCTAATTTAATTAAA
64 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCAACTAACCCTAACCTAATTTAATTAAA
*
11013590 AACCCTAA-CCTAA-T-TTAATTAAAAACCCTAA-C-C-CTAACCTAATTTAATTAAAAAC
129 AACCCTAACCCTAACTACTAATTAAAAACCCTAACCACTCTAACCTAATTTAATTAAAAAC
11013645 CCTAACTTAATTAAAAA-CTCAAACCCTAACCT-A-AATTAAAAACCCTAACTTAATTAAAAACC
1 CCTAACTTAATTAAAAACCT-AAACCCTAACCTAATAATTAAAAACCCTAACTTAATTAAAAACC
11013707 CTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCCTAACCTAATTTAATTA
65 CTAATTTAATTAAAAACCCTAACTTAATTAAAAACCC-AA--CTAACCCTAACCTAATTTAATTA
11013772 AAAACCCTAACCCTAACCTAACCTAATTAAAAACCCTAACCCTAACTCTAACCTAATTTAATTAA
127 AAAACCCTAACCCTAA-CT-A-CTAATTAAAAACCCTAA-CC--ACTCTAACCTAATTTAATTAA
11013837 AAAC
186 AAAC
11013841 CCTAAC
1 CCTAAC
11013847 CCTAACCTAA
Statistics
Matches: 179, Mismatches: 4, Indels: 24
0.86 0.02 0.12
Matches are distributed among these distances:
178 63 0.35
179 2 0.01
181 4 0.02
182 27 0.15
184 31 0.17
185 5 0.03
187 1 0.01
190 16 0.09
192 1 0.01
195 1 0.01
196 28 0.16
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (189 bp):
CCTAACTTAATTAAAAACCTAAACCCTAACCTAATAATTAAAAACCCTAACTTAATTAAAAACCC
TAATTTAATTAAAAACCCTAACTTAATTAAAAACCCAACTAACCCTAACCTAATTTAATTAAAAA
CCCTAACCCTAACTACTAATTAAAAACCCTAACCACTCTAACCTAATTTAATTAAAAAC
Found at i:11013770 original size:35 final size:35
Alignment explanation
Indices: 11013724--11013875 Score: 202
Period size: 29 Copynumber: 4.7 Consensus size: 35
11013714 AATTAAAAAC
*
11013724 CCTAACTTAATTAAAAACCCTAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCCTAA
11013759 CCTAATTTAATTAAAAACCCTAACCCTAA-CCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCCTAA
*
11013793 CC-----TAATTAAAAACCCTAACCCTAACTCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCCTAA
11013823 CCTAATTTAATT--AAA----AACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCCTAA
11013852 CCTAATTTAATTAAAAACCCTAAC
1 CCTAATTTAATTAAAAACCCTAAC
11013876 TTAATTAAAA
Statistics
Matches: 102, Mismatches: 3, Indels: 24
0.79 0.02 0.19
Matches are distributed among these distances:
29 47 0.46
30 6 0.06
31 3 0.03
33 3 0.03
34 7 0.07
35 36 0.35
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (35 bp):
CCTAATTTAATTAAAAACCCTAACCCTAACCCTAA
Found at i:11013802 original size:64 final size:64
Alignment explanation
Indices: 11013724--11013875 Score: 277
Period size: 64 Copynumber: 2.4 Consensus size: 64
11013714 AATTAAAAAC
11013724 CCTAACTTAATTAAAAACCCTAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* *
11013788 CCTAACCTAATTAAAAACCCTAACCCTAACTCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
*
11013852 CCTAATTTAATTAAAAACCCTAAC
1 CCTAACTTAATTAAAAACCCTAAC
11013876 TTAATTAAAA
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 84 1.00
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (64 bp):
CCTAACTTAATTAAAAACCCTAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:11013845 original size:23 final size:23
Alignment explanation
Indices: 11013844--11013929 Score: 95
Period size: 23 Copynumber: 3.7 Consensus size: 23
11013834 TAAAAACCCT
11013844 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
11013867 AACCCTAACTTAA-TTAA-AAACTCA
1 AACCCTAACCTAATTTAATTAA---A
*
11013891 AACCCTAACCTAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
11013914 AACCCTAACTTAATTT
1 AACCCTAACCTAATTT
11013930 TACTAACCAT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
21 2 0.04
22 4 0.08
23 27 0.52
24 13 0.25
25 4 0.08
26 2 0.04
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:11013850 original size:178 final size:168
Alignment explanation
Indices: 11013449--11013927 Score: 441
Period size: 164 Copynumber: 2.9 Consensus size: 168
11013439 CTTAATTAAA
*
11013449 AACCCTAACTCTAACCTAATTTAATTAAAAACCTTAACCCTAACCTAATTTAATTAAAAACCCTA
1 AACCCTAACTCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAA--TAATTAAAAACCCTA
*
11013514 ACTTAATTAAAAACCCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCATAACTCTAACCTA
64 ACTTAATTAAAAACCCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCATAACCCTAACCTA
*
11013579 ATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
129 ATTTAATTAAAAACCCTAACCTAATCTAATTAAAAACCCT
* * * * *
11013619 AA--C---C-CTAACCTAATTTAATTAAAAACCCTAA-CTTAA-TTAAAAACT-CAAACCCTAAC
1 AACCCTAACTCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATAATTAAAAACCCTAA-
* * * * * *
11013675 CTAAATTAAAAACCCTAACTTAATTAAAAACCCTAATTTAATTAAAAACCCTAA-CTTAA-TTAA
65 CTTAATTAAAAACCCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCATAACCCTAACCTAA
* * * *
11013738 --AAACCCTAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
130 TTTAA--TTAA---AAACCCTAACCTAATCTAATTAAAAACCCT
*
11013780 AACCCTAAC-CTAACCTAA-TTAA--AAACCCTAACCCTAACTCTAACCTAATTTAATTAAAAAC
1 AACCCTAACTCTAACCTAATTTAATTAAA----AACCCTAACCCTAACCTAA--TAATTAAAAAC
**
11013841 CCTAAC---CCT---AA-CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACTCA-AACCCTA
60 CCTAACTTAATTAAAAACCCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC-CATAACCCTA
* *
11013898 ACCTAACTTAATTAAAAACCCTAACTTAAT
124 ACCTAATTTAATTAAAAACCCTAACCTAAT
11013928 TTTACTAACC
Statistics
Matches: 251, Mismatches: 33, Indels: 57
0.74 0.10 0.17
Matches are distributed among these distances:
156 2 0.01
158 6 0.02
159 12 0.05
160 53 0.21
161 31 0.12
162 3 0.01
163 21 0.08
164 62 0.25
165 12 0.05
166 16 0.06
167 8 0.03
168 7 0.03
169 3 0.01
170 2 0.01
171 4 0.02
172 9 0.04
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (168 bp):
AACCCTAACTCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATAATTAAAAACCCTAAC
TTAATTAAAAACCCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCATAACCCTAACCTAAT
TTAATTAAAAACCCTAACCTAATCTAATTAAAAACCCT
Found at i:11013874 original size:47 final size:47
Alignment explanation
Indices: 11013823--11013928 Score: 176
Period size: 47 Copynumber: 2.3 Consensus size: 47
11013813 CTAACTCTAA
* * *
11013823 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCAAACCCTAACCTAACTTAATTAAAAAC
*
11013870 CCTAACTTAATTAAAAACTCAAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCAAACCCTAACCTAACTTAATTAAAAAC
11013917 CCTAACTTAATT
1 CCTAACTTAATT
11013929 TTACTAACCA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (47 bp):
CCTAACTTAATTAAAAACCCAAACCCTAACCTAACTTAATTAAAAAC
Found at i:11013879 original size:18 final size:18
Alignment explanation
Indices: 11013852--11013887 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11013842 CTAACCCTAA
*
11013852 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
11013870 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
11013888 TCAAACCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:11013975 original size:26 final size:26
Alignment explanation
Indices: 11013939--11014030 Score: 78
Period size: 26 Copynumber: 3.4 Consensus size: 26
11013929 TTACTAACCA
11013939 TTAACACAATTGTTGGACTTAATAAT
1 TTAACACAATTGTTGGACTTAATAAT
* * * * * *
11013965 TTAACATAATTTGAT-AATTTTACTAACCA
1 TTAACACAA-TTGTTGGA-CTTAATAA--T
11013994 TTAACACAATTGTTGGACTTAATAAT
1 TTAACACAATTGTTGGACTTAATAAT
*
11014020 TTAACATAATT
1 TTAACACAATT
11014031 TGATAATTTT
Statistics
Matches: 48, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
26 19 0.40
27 10 0.21
28 10 0.21
29 9 0.19
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (26 bp):
TTAACACAATTGTTGGACTTAATAAT
Found at i:11013984 original size:55 final size:54
Alignment explanation
Indices: 11013924--11014536 Score: 511
Period size: 55 Copynumber: 11.0 Consensus size: 54
11013914 AACCCTAACT
* * *
11013924 TAATTTTACTAA-CCATTAACACAATTGTTGGACTTAATAATTTAACATAATTTGA
1 TAATTTTACTAATCAATTAACAAAATT-TTGG-CTTAATAATTTTACATAATTTGA
* * *
11013979 TAATTTTACTAA-CCATTAACACAATTGTTGGACTTAATAATTTAACATAATTTGA
1 TAATTTTACTAATCAATTAACAAAATT-TTGG-CTTAATAATTTTACATAATTTGA
*
11014034 TAATTTTACTAA-CCATTAACAAAATTTTGGGACTTAATAATTTTACATAATTTGA
1 TAATTTTACTAATCAATTAACAAAATTTT-GG-CTTAATAATTTTACATAATTTGA
* *
11014089 TAATTTTACCTAATTTAATTAAAAAAATTTTGGCTTAATAATTTTACATAATTTGA
1 TAATTTTA-CTAA-TCAATTAACAAAATTTTGGCTTAATAATTTTACATAATTTGA
* *
11014145 TAATTTTACCTAATTTAATTAA-AAAATTTTGGCTTAATAATTTTACATAATTTTACA
1 TAATTTTA-CTAA-TCAATTAACAAAATTTTGGCTTAATAATTTTACATAA-TTT-GA
* **
11014202 TAATTTTACCTAATTTAATTAA-AATTTTTTTGGCTTAATAATTTTACATAATTTGA
1 TAATTTTA-CTAA-TCAATTAACAA-AATTTTGGCTTAATAATTTTACATAATTTGA
* **
11014258 TAATTTTACCTAATTTAATTAA-AAGTTTTTTGGCTTAATAATTTTACATAATTTTACATAATTT
1 TAATTTTA-CTAA-TCAATTAACAA-AATTTTGGC---------TTA-ATAATTTTACATAATTT
11014322 GA
53 GA
* **
11014324 TAATTTTACCTAATTTAATTAA-AATTTTTTTGGCTTAATAATTTTACATAATTT--
1 TAATTTTA-CTAA-TCAATTAACAA-AATTTTGGCTTAATAATTTTACATAATTTGA
* * * *
11014378 T-A----CCTAATTTAATTAAAAAAAGTTTGGCTTAATAATTTTACATAATTTGA
1 TAATTTTACTAA-TCAATTAACAAAATTTTGGCTTAATAATTTTACATAATTTGA
* **
11014428 TAATTTTACCTAATTTAATTAA-AATTTTTTTGGCTTAATAATTTTACATAATTTGA
1 TAATTTTA-CTAA-TCAATTAACAA-AATTTTGGCTTAATAATTTTACATAATTTGA
* **
11014484 TAATTTTACCTAATTTAATT-ACAATTTTTTGGCTTAATAATTTTACATAATTT
1 TAATTTTA-CTAA-TCAATTAACAAAATTTTGGCTTAATAATTTTACATAATTT
11014537 TACATAATTT
Statistics
Matches: 511, Mismatches: 19, Indels: 56
0.87 0.03 0.10
Matches are distributed among these distances:
48 39 0.08
49 2 0.00
50 1 0.00
51 1 0.00
53 1 0.00
54 3 0.01
55 173 0.34
56 166 0.32
57 33 0.06
58 37 0.07
65 3 0.01
66 52 0.10
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (54 bp):
TAATTTTACTAATCAATTAACAAAATTTTGGCTTAATAATTTTACATAATTTGA
Found at i:11014093 original size:18 final size:18
Alignment explanation
Indices: 11014070--11014104 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11014060 TTGGGACTTA
11014070 ATAATTTTACATAATTTG
1 ATAATTTTACATAATTTG
*
11014088 ATAATTTTACCTAATTT
1 ATAATTTTACATAATTT
11014105 AATTAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (18 bp):
ATAATTTTACATAATTTG
Found at i:11014141 original size:56 final size:56
Alignment explanation
Indices: 11013946--11014536 Score: 674
Period size: 56 Copynumber: 10.5 Consensus size: 56
11013936 CCATTAACAC
* ** * *
11013946 AATTGTTGGACTTAATAATTTAACATAATTTGATAATTTTA-CTAA--CCATTAACAC
1 AATT-TTGG-CTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAA
* ** *
11014001 AATTGTTGGACTTAATAATTTAACATAATTTGATAATTTTA-CTAA--CCATTAACAA
1 AATT-TTGG-CTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAA
11014056 AATTTTGGGACTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAA
1 AATTTT-GG-CTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAA
11014114 AATTTTGGCTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATT-AAAA
1 AATTTTGGCTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAA
* *
11014169 AATTTTGGCTTAATAATTTTACATAATTTTACATAATTTTACCTAATTTAATTAAAAT
1 AATTTTGGCTTAATAATTTTACATAA-TTT-GATAATTTTACCTAATTTAATTAAAAA
** *
11014227 TTTTTTGGCTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAG
1 AATTTTGGCTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAA
**
11014283 TTTTTTGGCTTAATAATTTTACATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAA
1 AATTTTGGC---------TTA-ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAA
*
11014348 T
56 A
**
11014349 TTTTTTGGCTTAATAATTTTAC--------ATAATTTTACCTAATTTAATTAAAAA
1 AATTTTGGCTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAA
* *
11014397 AAGTTTGGCTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAT
1 AATTTTGGCTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAA
** *
11014453 TTTTTTGGCTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATT-ACAA
1 AATTTTGGCTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAA
**
11014508 TTTTTTGGCTTAATAATTTTACATAATTT
1 AATTTTGGCTTAATAATTTTACATAATTT
11014537 TACATAATTT
Statistics
Matches: 489, Mismatches: 22, Indels: 50
0.87 0.04 0.09
Matches are distributed among these distances:
48 44 0.09
54 2 0.00
55 152 0.31
56 167 0.34
57 29 0.06
58 40 0.08
65 3 0.01
66 52 0.11
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (56 bp):
AATTTTGGCTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAA
Found at i:11014149 original size:18 final size:18
Alignment explanation
Indices: 11014126--11014160 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11014116 TTTTGGCTTA
11014126 ATAATTTTACATAATTTG
1 ATAATTTTACATAATTTG
*
11014144 ATAATTTTACCTAATTT
1 ATAATTTTACATAATTT
11014161 AATTAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (18 bp):
ATAATTTTACATAATTTG
Found at i:11014196 original size:10 final size:10
Alignment explanation
Indices: 11014181--11014217 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
11014171 TTTTGGCTTA
11014181 ATAATTTTAC
1 ATAATTTTAC
11014191 ATAATTTTAC
1 ATAATTTTAC
11014201 ATAATTTTAC
1 ATAATTTTAC
*
11014211 CTAATTT
1 ATAATTT
11014218 AATTAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:11014262 original size:18 final size:18
Alignment explanation
Indices: 11014239--11014273 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11014229 TTTTGGCTTA
11014239 ATAATTTTACATAATTTG
1 ATAATTTTACATAATTTG
*
11014257 ATAATTTTACCTAATTT
1 ATAATTTTACATAATTT
11014274 AATTAAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (18 bp):
ATAATTTTACATAATTTG
Found at i:11014299 original size:38 final size:37
Alignment explanation
Indices: 11014257--11014377 Score: 116
Period size: 38 Copynumber: 3.5 Consensus size: 37
11014247 ACATAATTTG
*
11014257 ATAATTTTACCTAATTTAATTAAAAGTTTTTTGGCTTA
1 ATAATTTTACATAATTTAATTAAAA-TTTTTTGGCTTA
* **
11014295 ATAATTTTACATAA-TT--TT-ACATAATTT-G----
1 ATAATTTTACATAATTTAATTAAAATTTTTTGGCTTA
*
11014323 ATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTA
1 ATAATTTTACATAATTTAATTAAAA-TTTTTTGGCTTA
11014361 ATAATTTTACATAATTT
1 ATAATTTTACATAATTT
11014378 TACCTAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 20
0.69 0.10 0.22
Matches are distributed among these distances:
28 13 0.20
29 2 0.03
31 2 0.03
32 3 0.05
33 8 0.12
34 3 0.05
35 2 0.03
37 2 0.03
38 29 0.45
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.51
Consensus pattern (37 bp):
ATAATTTTACATAATTTAATTAAAATTTTTTGGCTTA
Found at i:11014310 original size:10 final size:10
Alignment explanation
Indices: 11014295--11014339 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
11014285 TTTTGGCTTA
11014295 ATAATTTTAC
1 ATAATTTTAC
11014305 ATAATTTTAC
1 ATAATTTTAC
*
11014315 ATAA-TTT-G
1 ATAATTTTAC
11014323 ATAATTTTAC
1 ATAATTTTAC
*
11014333 CTAATTT
1 ATAATTT
11014340 AATTAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 4 0.13
9 6 0.20
10 20 0.67
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:11014328 original size:18 final size:18
Alignment explanation
Indices: 11014305--11014339 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11014295 ATAATTTTAC
11014305 ATAATTTTACATAATTTG
1 ATAATTTTACATAATTTG
*
11014323 ATAATTTTACCTAATTT
1 ATAATTTTACATAATTT
11014340 AATTAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (18 bp):
ATAATTTTACATAATTTG
Found at i:11014335 original size:235 final size:235
Alignment explanation
Indices: 11014070--11014677 Score: 959
Period size: 235 Copynumber: 2.6 Consensus size: 235
11014060 TTGGGACTTA
***
11014070 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAAAATTTTGGCTTAATAATTTTA
1 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTA
*
11014135 CATAATTTGATAATTTTACCTAATTTAATT-AAAAAATTTTGGCTTAATAATTTTACATAATTTT
66 CATAATTTGATAATTTTACCTAATTTAATTAAAAAAAATTTGGCTTAATAATTTTACATAATTTT
11014199 ACATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTACATAATTTGATAATTT
131 ACATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTACATAATTTGATAATTT
11014264 TACCTAATTTAATTAAAAGTTTTTTGGCTTAATAATTTTAC
196 TACCTAATTTAATTAAAA-TTTTTTGGCTTAATAATTTTAC
11014305 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTA
1 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTA
*
11014370 C--------ATAATTTTACCTAATTTAATTAAAAAAAGTTTGGCTTAATAATTTTACATAA-TTT
66 CATAATTTGATAATTTTACCTAATTTAATTAAAAAAAATTTGGCTTAATAATTTTACATAATTTT
*
11014426 -GATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTACATAATTTGATAATTT
131 ACATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTACATAATTTGATAATTT
*
11014490 TACCTAATTTAATTACAATTTTTTGGCTTAATAATTTTAC
196 TACCTAATTTAATTAAAATTTTTTGGCTTAATAATTTTAC
11014530 ATAATTTTACATAATTTTATATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTT
1 ATAATTTTAC----------ATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTT
11014595 AATAATTTTACATAATTTGATAATTTTACCTAATTTAAATTAAAAAAAATTTGGCTTAATAATTT
56 AATAATTTTACATAATTTGATAATTTTACCTAATTT-AATTAAAAAAAATTTGGCTTAATAATTT
*
11014660 TACGTAATTTTACATAAT
120 TACATAATTTTACATAAT
11014678 GTTAGATTTG
Statistics
Matches: 342, Mismatches: 9, Indels: 33
0.89 0.02 0.09
Matches are distributed among these distances:
225 32 0.09
226 80 0.23
227 24 0.07
228 29 0.08
235 119 0.35
243 17 0.05
244 33 0.10
245 3 0.01
246 5 0.01
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (235 bp):
ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTA
CATAATTTGATAATTTTACCTAATTTAATTAAAAAAAATTTGGCTTAATAATTTTACATAATTTT
ACATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTACATAATTTGATAATTT
TACCTAATTTAATTAAAATTTTTTGGCTTAATAATTTTAC
Found at i:11014535 original size:10 final size:10
Alignment explanation
Indices: 11014520--11014574 Score: 69
Period size: 10 Copynumber: 5.7 Consensus size: 10
11014510 TTTTGGCTTA
11014520 ATAATTTTAC
1 ATAATTTTAC
11014530 ATAATTTTAC
1 ATAATTTTAC
*
11014540 ATAATTTTAT
1 ATAATTTTAC
*
11014550 ATAA-TTT-G
1 ATAATTTTAC
11014558 ATAATTTTAC
1 ATAATTTTAC
*
11014568 CTAATTT
1 ATAATTT
11014575 AATTAAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
8 4 0.10
9 6 0.15
10 29 0.74
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:11014554 original size:75 final size:76
Alignment explanation
Indices: 11014465--11014630 Score: 275
Period size: 75 Copynumber: 2.2 Consensus size: 76
11014455 TTTTGGCTTA
*
11014465 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTACAA-TTTTTTGGCTTAATAATTTTA
1 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTA
11014529 CATAATTTTAC
66 CATAATTTTAC
*
11014540 ATAATTTTATATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTA
1 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTA
*
11014605 CATAA-TTT-G
66 CATAATTTTAC
*
11014614 ATAATTTTACCTAATTT
1 ATAATTTTACATAATTT
11014631 AAATTAAAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
74 15 0.18
75 44 0.52
76 26 0.31
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (76 bp):
ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTA
CATAATTTTAC
Found at i:11014600 original size:38 final size:38
Alignment explanation
Indices: 11014483--11014612 Score: 138
Period size: 38 Copynumber: 3.4 Consensus size: 38
11014473 ACATAATTTG
* *
11014483 ATAATTTTACCTAATTTAATTACAA-TTTTTTGGCTTA
1 ATAATTTTACATAATTTAATTAAAATTTTTTTGGCTTA
* * * * *** *
11014520 ATAATTTTACATAATTTTA-CATAATTTTATATAATTTG
1 ATAATTTTACATAATTTAATTAAAATTTT-TTTGGCTTA
*
11014558 ATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTA
1 ATAATTTTACATAATTTAATTAAAATTTTTTTGGCTTA
11014596 ATAATTTTACATAATTT
1 ATAATTTTACATAATTT
11014613 GATAATTTTA
Statistics
Matches: 71, Mismatches: 19, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
36 3 0.04
37 20 0.28
38 41 0.58
39 7 0.10
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (38 bp):
ATAATTTTACATAATTTAATTAAAATTTTTTTGGCTTA
Found at i:11014610 original size:56 final size:57
Alignment explanation
Indices: 11014540--11014669 Score: 199
Period size: 56 Copynumber: 2.3 Consensus size: 57
11014530 ATAATTTTAC
* ****
11014540 ATAATTTTATATAATTTGATAATTTTACCTAATTT-AATTAAAATTTTTTTGGCTTA
1 ATAATTTTACATAATTTGATAATTTTACCTAATTTAAATTAAAAAAAATTTGGCTTA
11014596 ATAATTTTACATAATTTGATAATTTTACCTAATTTAAATTAAAAAAAATTTGGCTTA
1 ATAATTTTACATAATTTGATAATTTTACCTAATTTAAATTAAAAAAAATTTGGCTTA
*
11014653 ATAATTTTACGTAATTT
1 ATAATTTTACATAATTT
11014670 TACATAATGT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
56 34 0.51
57 33 0.49
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.49
Consensus pattern (57 bp):
ATAATTTTACATAATTTGATAATTTTACCTAATTTAAATTAAAAAAAATTTGGCTTA
Found at i:11018336 original size:50 final size:50
Alignment explanation
Indices: 11018212--11018460 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
11018202 GATAATAACA
* * ** * *
11018212 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
11018263 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
11018313 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
11018363 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
11018418 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
11018461 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:11018390 original size:100 final size:104
Alignment explanation
Indices: 11018211--11018460 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
11018201 TGATAATAAC
**
11018211 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
11018276 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
11018313 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
11018376 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
11018418 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
11018461 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Done.