Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, whole genome shotgun sequence
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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 105 of 131
Found at i:18797622 original size:117 final size:115
Alignment explanation
Indices: 18797487--18797938 Score: 642
Period size: 117 Copynumber: 3.9 Consensus size: 115
18797477 ATAAAAATAA
18797487 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTC-AAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTCAAAAAAA
18797551 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTCGAAAATCAAAATTTT
65 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTT-GAAAATCAAAATTTT
* ** *
18797603 AGAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTCAAAAAA
1 A-AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC-AAAAA
* * *
18797668 AATATTTTTGAGGAAAAGTTGGAAGTATCAATTTTCCTTAAAAAT--AAATTTT
63 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT-CTTGAAAATCAAAATTTT
18797720 CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA
1 -AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA
* * *
18797785 TGATTTTTGGGGAAAAGTTGAAATTATCAATTTTTCTTGAAAATCAAAGTTTCAA
65 T-ATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTTCTTGAAAATCAAAATTT--T
* *
18797840 AAAAATATATTTTTGAGGAAAAGTT-AGAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAA
1 AAAAA-ATATTTTTGGGGAAAAGTTGA-AAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
*
18797904 GTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTC
64 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTC
18797939 CCTACACAAG
Statistics
Matches: 301, Mismatches: 22, Indels: 24
0.87 0.06 0.07
Matches are distributed among these distances:
115 8 0.03
116 41 0.14
117 108 0.36
118 11 0.04
119 75 0.25
120 58 0.19
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.36
Consensus pattern (115 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAT
ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTGAAAATCAAAATTTT
Found at i:18797628 original size:59 final size:57
Alignment explanation
Indices: 18797487--18797939 Score: 574
Period size: 59 Copynumber: 7.7 Consensus size: 57
18797477 ATAAAAATAA
18797487 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTT
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTT
*
18797544 CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT-CTTCGAAAATCAAAATTTT
1 -AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAAT-AAAATTTT
* ** * *
18797603 AGAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTCAA
1 A-AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTT--T
* *
18797664 AAAAAATATTTTTGAGGAAAAGTTGGAAGTATCAATTTTCCTTAAAAAT-AAATTTT
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTT
18797720 CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTT
1 -AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTT
* * * * *
18797777 CAAAAAAATGATTTTTGGGGAAAAGTTGAAATTATCAATTTTTCTTGAAAATCAAAGTTTCAA
1 --AAAAAAT-ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTT--T
* *
18797840 AAAAATATATTTTTGAGGAAAAGTT-AGAAGTATCAATTTTCCTTAAAAAT-AAATTTCC
1 AAAAA-ATATTTTTGGGGAAAAGTTGA-AAGTATCAATTTTCCTTAAAAATAAAATTT-T
18797898 AAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
18797940 CTACACAAGA
Statistics
Matches: 350, Mismatches: 28, Indels: 34
0.85 0.07 0.08
Matches are distributed among these distances:
57 58 0.17
58 94 0.27
59 102 0.29
60 47 0.13
61 47 0.13
62 2 0.01
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (57 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTT
Found at i:18797800 original size:176 final size:176
Alignment explanation
Indices: 18797485--18797939 Score: 745
Period size: 177 Copynumber: 2.6 Consensus size: 176
18797475 AAATAAAAAT
* *
18797485 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTCAAAAA
1 AAAAAAAATATTTTTGAGGAAAAGTTGGAAGTATCAATTTTCCTTAAAAAT-AAATTTTCAAAAA
* *
18797550 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT-CTTCGAAAATCAAAATTTTAGAAAAATATT
65 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTCAAAAAT-AAAATTTTAAAAAAATATT
*
18797614 TTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTC
129 TTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
18797662 AAAAAAAATATTTTTGAGGAAAAGTTGGAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
1 AAAAAAAATATTTTTGAGGAAAAGTTGGAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
18797727 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAAT-AAATTTTCAAAAAAATGATT
66 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTCAAAAATAAAATTTT-AAAAAAAT-ATT
* * *
18797790 TTTGGGGAAAAGTTGAAATTATCAATTTTTCTTGAAAATCAAAGTTTC
129 TTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
* *
18797838 AAAAAAATATATTTTTGAGGAAAAGTTAGAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAA
1 AAAAAAA-ATATTTTTGAGGAAAAGTTGGAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAA
18797903 AGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
65 A-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
18797940 CTACACAAGA
Statistics
Matches: 263, Mismatches: 10, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
174 7 0.03
175 7 0.03
176 106 0.40
177 108 0.41
178 35 0.13
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (176 bp):
AAAAAAAATATTTTTGAGGAAAAGTTGGAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTCAAAAATAAAATTTTAAAAAAATATTTT
TAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
Found at i:18799104 original size:15 final size:14
Alignment explanation
Indices: 18799086--18799120 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
18799076 AAAAAAAGAT
18799086 GAAAAAAATGAAAAA
1 GAAAAAAATG-AAAA
18799101 GAAAAAAAATGAAAA
1 G-AAAAAAATGAAAA
18799116 GAAAA
1 GAAAA
18799121 TATGGTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.21
15 6 0.32
16 9 0.47
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (14 bp):
GAAAAAAATGAAAA
Found at i:18799106 original size:16 final size:15
Alignment explanation
Indices: 18799087--18799120 Score: 59
Period size: 15 Copynumber: 2.2 Consensus size: 15
18799077 AAAAAAGATG
18799087 AAAAAAATGAAAAAGA
1 AAAAAAATG-AAAAGA
18799103 AAAAAAATGAAAAGA
1 AAAAAAATGAAAAGA
18799118 AAA
1 AAA
18799121 TATGGTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (15 bp):
AAAAAAATGAAAAGA
Found at i:18800769 original size:24 final size:24
Alignment explanation
Indices: 18800736--18800784 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
18800726 TTTGTATTTG
18800736 TATAAAACATTTGCATTTGCATCA
1 TATAAAACATTTGCATTTGCATCA
*
18800760 TATAAGACATTTGCATTTGCATCA
1 TATAAAACATTTGCATTTGCATCA
18800784 T
1 T
18800785 GGTATCTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (24 bp):
TATAAAACATTTGCATTTGCATCA
Found at i:18801209 original size:22 final size:22
Alignment explanation
Indices: 18801185--18801372 Score: 155
Period size: 22 Copynumber: 8.5 Consensus size: 22
18801175 ATTAAATTTG
* * *
18801185 AGCCTAGATTAGCTAGCATATG
1 AGCCTAGATTAGCTGGCACATA
* * *
18801207 AGCCCAGCTTAGCTGGCACATG
1 AGCCTAGATTAGCTGGCACATA
*
18801229 AGCCTAGATTATCTGGCACATA
1 AGCCTAGATTAGCTGGCACATA
* **
18801251 A-ACTCAGATTAGCTGGCATGTA
1 AGCCT-AGATTAGCTGGCACATA
* *
18801273 AGCCTAGATTAGCTGACATATA
1 AGCCTAGATTAGCTGGCACATA
* * *
18801295 AG-TTCGGATTAGCTGGCACATC
1 AGCCT-AGATTAGCTGGCACATA
* * *
18801317 AGCCCAGATTAGCTAGCATATA
1 AGCCTAGATTAGCTGGCACATA
* * *
18801339 AGCCCAGATTAGTTGACACATA
1 AGCCTAGATTAGCTGGCACATA
18801361 AGCCTAGATTAG
1 AGCCTAGATTAG
18801373 TTAAAAAGTA
Statistics
Matches: 131, Mismatches: 31, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
21 3 0.02
22 126 0.96
23 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (22 bp):
AGCCTAGATTAGCTGGCACATA
Found at i:18801263 original size:44 final size:44
Alignment explanation
Indices: 18801185--18801372 Score: 207
Period size: 44 Copynumber: 4.3 Consensus size: 44
18801175 ATTAAATTTG
* * *
18801185 AGCCTAGATTAGCTAGCATATGAGCCCAGCTTAGCTGGCACATG
1 AGCCTAGATTAGCTAGCATATAAGCCCAGATTAGCTGGCACATA
* * * * * **
18801229 AGCCTAGATTATCTGGCACATAAACTCAGATTAGCTGGCATGTA
1 AGCCTAGATTAGCTAGCATATAAGCCCAGATTAGCTGGCACATA
** * *
18801273 AGCCTAGATTAGCT-GACATATAAGTTCGGATTAGCTGGCACATC
1 AGCCTAGATTAGCTAG-CATATAAGCCCAGATTAGCTGGCACATA
* * *
18801317 AGCCCAGATTAGCTAGCATATAAGCCCAGATTAGTTGACACATA
1 AGCCTAGATTAGCTAGCATATAAGCCCAGATTAGCTGGCACATA
18801361 AGCCTAGATTAG
1 AGCCTAGATTAG
18801373 TTAAAAAGTA
Statistics
Matches: 116, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
43 1 0.01
44 114 0.98
45 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (44 bp):
AGCCTAGATTAGCTAGCATATAAGCCCAGATTAGCTGGCACATA
Found at i:18801287 original size:66 final size:66
Alignment explanation
Indices: 18801190--18801372 Score: 215
Period size: 66 Copynumber: 2.8 Consensus size: 66
18801180 ATTTGAGCCT
* * * * * *
18801190 AGATTAGCTAGCATATGAGCCCAGCTTAGCTGGCACATGAGCCTAGATTATCTGGCACATAAACT
1 AGATTAGCTAGCATATAAGCCCAGATTAGCTGACACATAAGCCTAGATTAGCTGGCACATAAACC
18801255 C
66 C
* * * * * * * *
18801256 AGATTAGCTGGCATGTAAGCCTAGATTAGCTGACATATAAG-TTCGGATTAGCTGGCACATCAGC
1 AGATTAGCTAGCATATAAGCCCAGATTAGCTGACACATAAGCCT-AGATTAGCTGGCACATAAAC
18801320 CC
65 CC
*
18801322 AGATTAGCTAGCATATAAGCCCAGATTAGTTGACACATAAGCCTAGATTAG
1 AGATTAGCTAGCATATAAGCCCAGATTAGCTGACACATAAGCCTAGATTAG
18801373 TTAAAAAGTA
Statistics
Matches: 94, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
65 1 0.01
66 92 0.98
67 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (66 bp):
AGATTAGCTAGCATATAAGCCCAGATTAGCTGACACATAAGCCTAGATTAGCTGGCACATAAACC
C
Found at i:18801620 original size:34 final size:33
Alignment explanation
Indices: 18801536--18801688 Score: 116
Period size: 33 Copynumber: 4.5 Consensus size: 33
18801526 TTACACAAAG
* *
18801536 ATTTAAGCCTAAATTAGGTGGCCTCTAATGAAAT
1 ATTTAAGCC-AAATTAGCTGGCCTCTAAAGAAAT
* *
18801570 A-TTAAGCCCGATTTAGCTGGCCT-TCAAAGAAAT
1 ATTTAAG-CCAAATTAGCTGGCCTCT-AAAGAAAT
* * *
18801603 ATTTAAGCTCAAATTAGCTGACCCCTAATGAAAT
1 ATTTAAGC-CAAATTAGCTGGCCTCTAAAGAAAT
* * *
18801637 A-TTAAGCCAAGTTTAACTGGCCT-TCAAAGAAAG
1 ATTTAAGCCAA-ATTAGCTGGCCTCT-AAAGAAAT
*
18801670 ATTTAAACCCAAATTAGCT
1 ATTT-AAGCCAAATTAGCT
18801689 AGTCCCCAAT
Statistics
Matches: 92, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
32 5 0.05
33 46 0.50
34 34 0.37
35 7 0.08
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (33 bp):
ATTTAAGCCAAATTAGCTGGCCTCTAAAGAAAT
Found at i:18801644 original size:67 final size:66
Alignment explanation
Indices: 18801532--18801718 Score: 225
Period size: 67 Copynumber: 2.8 Consensus size: 66
18801522 AAGTTTACAC
* * * * *
18801532 AAAGATTTAAGCCTAAATTAGGTGGCCTCTAATGAAATATTAAGCC-CGATTTAGCTGGCCTTCA
1 AAAGATTTAAGCC-AAATTAGCTGACCCCTAATGAAATATTAAGCCAAG-TTTAACTGGCCTTCA
18801596 AAG
64 AAG
*
18801599 AAATATTTAAGCTCAAATTAGCTGACCCCTAATGAAATATTAAGCCAAGTTTAACTGGCCTTCAA
1 AAAGATTTAAGC-CAAATTAGCTGACCCCTAATGAAATATTAAGCCAAGTTTAACTGGCCTTCAA
18801664 AG
65 AG
* * * *
18801666 AAAGATTTAAACCCAAATTAGCTAGTCCCC-AATGAAATATTAAACCCAGTTTA
1 AAAGATTT-AAGCCAAATTAGCT-GACCCCTAATGAAATATTAAGCCAAGTTTA
18801719 TCTGACACAA
Statistics
Matches: 105, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
67 95 0.90
68 10 0.10
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (66 bp):
AAAGATTTAAGCCAAATTAGCTGACCCCTAATGAAATATTAAGCCAAGTTTAACTGGCCTTCAAA
G
Found at i:18802498 original size:34 final size:33
Alignment explanation
Indices: 18802385--18802499 Score: 122
Period size: 34 Copynumber: 3.4 Consensus size: 33
18802375 CTAACTCATG
*
18802385 GTTCAATCCTAGTCTCTTTATTTCTTGACTCGCA
1 GTTCAATCCTGGTCTCTTTATTT-TTGACTCGCA
* * * *
18802419 GTTCAATCCTTGTTTCATTATTTTCTGACTCACA
1 GTTCAATCCTGGTCTCTTTATTTT-TGACTCGCA
* * * *
18802453 GTTTAATCCTGGTCTCTTTATTTTTTACTGGCG
1 GTTCAATCCTGGTCTCTTTATTTTTGACTCGCA
18802486 GTTCAATCCCTGGT
1 GTTCAAT-CCTGGT
18802500 TCAATCCTTG
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
33 12 0.18
34 54 0.82
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.46
Consensus pattern (33 bp):
GTTCAATCCTGGTCTCTTTATTTTTGACTCGCA
Found at i:18802568 original size:34 final size:34
Alignment explanation
Indices: 18802497--18802640 Score: 110
Period size: 34 Copynumber: 4.3 Consensus size: 34
18802487 TTCAATCCCT
* ** ***
18802497 GGTTCAATCCTTGTATTTTTATTTT-TGACTTGT
1 GGTTCAATCCTTGTCTCATTATTTTCTGACTCAC
*
18802530 GGTTCAATCCTTGTCTCATTATTCTCTGACTCAC
1 GGTTCAATCCTTGTCTCATTATTTTCTGACTCAC
* ** * **
18802564 GGTTCAATCCTAGTCTTTTTATTTTCTAACTTGC
1 GGTTCAATCCTTGTCTCATTATTTTCTGACTCAC
* * * *
18802598 GATTCAATCCCTATCTCATTATTTTTTGACTCAC
1 GGTTCAATCCTTGTCTCATTATTTTCTGACTCAC
* *
18802632 AGTTTAATC
1 GGTTCAATC
18802641 TTGGTCTTTT
Statistics
Matches: 83, Mismatches: 27, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
33 21 0.25
34 62 0.75
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.48
Consensus pattern (34 bp):
GGTTCAATCCTTGTCTCATTATTTTCTGACTCAC
Found at i:18802585 original size:112 final size:114
Alignment explanation
Indices: 18802383--18802609 Score: 305
Period size: 112 Copynumber: 2.0 Consensus size: 114
18802373 GTCTAACTCA
* * *
18802383 TGGTTCAATCCTAGTCTCTTTATTTCTTGACTCGCAGTTCAATCCTTGTTTCATTATTTTCTGAC
1 TGGTTCAATCCTAGTATCTTTATTTCTTGACTCGCAGTTCAATCCTTGTCTCATTATTCTCTGAC
* * * *
18802448 TCACAGTTTAATCCTGGTCTCTTTATTTT-TTACTGGCGGTTCAATCCC
66 TCACAGTTCAATCCTAGTCTCTTTATTTTCTAACTGGCGATTCAATCCC
* * * **
18802496 TGGTTCAATCCTTGTATTTTTATTT-TTGACTTGTGGTTCAATCCTTGTCTCATTATTCTCTGAC
1 TGGTTCAATCCTAGTATCTTTATTTCTTGACTCGCAGTTCAATCCTTGTCTCATTATTCTCTGAC
* * *
18802560 TCACGGTTCAATCCTAGTCTTTTTATTTTCTAACTTGCGATTCAATCCC
66 TCACAGTTCAATCCTAGTCTCTTTATTTTCTAACTGGCGATTCAATCCC
18802609 T
1 T
18802610 ATCTCATTAT
Statistics
Matches: 98, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
112 59 0.60
113 39 0.40
ACGTcount: A:0.17, C:0.23, G:0.13, T:0.47
Consensus pattern (114 bp):
TGGTTCAATCCTAGTATCTTTATTTCTTGACTCGCAGTTCAATCCTTGTCTCATTATTCTCTGAC
TCACAGTTCAATCCTAGTCTCTTTATTTTCTAACTGGCGATTCAATCCC
Found at i:18802618 original size:68 final size:68
Alignment explanation
Indices: 18802497--18803354 Score: 517
Period size: 67 Copynumber: 13.0 Consensus size: 68
18802487 TTCAATCCCT
* * * * * * * *
18802497 GGTTCAATCCTTGTATTTTTATTTT-TGACTTGTGGTTCAATCCTTGTCTCATTATTCTCTGACT
1 GGTTCAATCCTGGTCTCTTTATTTTCTAACTTGCGATTCAATCCCTGTCTCGTTATTCTCTGACT
18802561 CAC
66 CAC
* * * * * *
18802564 GGTTCAATCCTAGTCTTTTTATTTTCTAACTTGCGATTCAATCCCTATCTCATTATTTTTTGACT
1 GGTTCAATCCTGGTCTCTTTATTTTCTAACTTGCGATTCAATCCCTGTCTCGTTATTCTCTGACT
18802629 CAC
66 CAC
* * * * * * *
18802632 AGTTTAATCTTGG--TC--T-TTTTC-AACTTGC-AGTTTAATCCCTATTTCGTTATTATCTGAC
1 GGTTCAATCCTGGTCTCTTTATTTTCTAACTTGCGA-TTCAATCCCTGTCTCGTTATTCTCTGAC
*
18802690 TCAT
65 TCAC
** * * ** * * * * * *
18802694 GGTTCAAT--T--T-TAGTCACTTTCTAACTT-ATAGTTCAATTCATGTCTTGTTAGTGTCTAAC
1 GGTTCAATCCTGGTCTCTTTATTTTCTAACTTGCGA-TTCAATCCCTGTCTCGTTATTCTCTGAC
*
18802753 TCAA
65 TCAC
* * * * * *
18802757 GGTTCAATCCCGATTTCTTTATTTT-TCAACTCATG-G-TTCAATCCCTGTCTTGTTATTCTATA
1 GGTTCAATCCTGGTCTCTTTATTTTCT-AACT--TGCGATTCAATCCCTGTCTCGTTATTCTCTG
*
18802819 ACTCAT
63 ACTCAC
* * * * *
18802825 GGTTCAATCTTGG--TC--T-TTTTC-AACTAGCGATTTAATCCCTGTCTTGTTATTCTTTGACT
1 GGTTCAATCCTGGTCTCTTTATTTTCTAACTTGCGATTCAATCCCTGTCTCGTTATTCTCTGACT
18802884 CAC
66 CAC
* * * * * * *
18802887 GGTGCAATCCTGGTCTCTTTATTTT-TGACTCGC-AGTTTAATCCCTGTCTCATTATTATATGAC
1 GGTTCAATCCTGGTCTCTTTATTTTCTAACTTGCGA-TTCAATCCCTGTCTCGTTATTCTCTGAC
*
18802950 TCAT
65 TCAC
* * * * *
18802954 GGTTCAATCCTGGTCTCTTTATTTTCTGACTCGTGGTTCAATCCCTATCTCGTTATTCTCTGACT
1 GGTTCAATCCTGGTCTCTTTATTTTCTAACTTGCGATTCAATCCCTGTCTCGTTATTCTCTGACT
*
18803019 CAT
66 CAC
* * * * *
18803022 GGTTCAATCCT-GTATCTTTATTTT-TCAACTTGTGATTCAATCCCTATCTCATTATTCTTTGAC
1 GGTTCAATCCTGGTCTCTTTATTTTCT-AACTTGCGATTCAATCCCTGTCTCGTTATTCTCTGAC
*
18803085 TCAT
65 TCAC
* * * * * * * *
18803089 GATTCAATTCTGGTCTCTTTATTTT-TGAGTTGCGGTTCAATCCCTGTTTCATTA--CTCAGACT
1 GGTTCAATCCTGGTCTCTTTATTTTCTAACTTGCGATTCAATCCCTGTCTCGTTATTCTCTGACT
18803151 CAC
66 CAC
* * * * * * *
18803154 AGTTCAATCTTGGTCTCTTTTATTTTTTGACTCATG-G-TTCAATCCTTGTTTTGTTATTCTCTG
1 GGTTCAATCCTGGTCTC-TTTATTTTCTAACT--TGCGATTCAATCCCTGTCTCGTTATTCTCTG
18803217 ACTCAC
63 ACTCAC
* * ** * * * *
18803223 GGTTCAATCCTGGTCCCTTTATTTTC-GACTTATGGTTCAATCCTTAG-CTCGTTTTTCTTTGAC
1 GGTTCAATCCTGGTCTCTTTATTTTCTAACTTGCGATTCAATCCCT-GTCTCGTTATTCTCTGAC
18803286 TCAC
65 TCAC
* * * *
18803290 GGTTCAATCCTGGTCTCTTTATTTTTTAACTTGCTG-TTCAATTCCAGTCTCATTATTCTCTGAC
1 GGTTCAATCCTGGTCTCTTTATTTTCTAACTTGC-GATTCAATCCCTGTCTCGTTATTCTCTGAC
18803354 T
65 T
18803355 AGCAATTTAA
Statistics
Matches: 628, Mismatches: 120, Indels: 85
0.75 0.14 0.10
Matches are distributed among these distances:
59 1 0.00
60 2 0.00
61 2 0.00
62 86 0.14
63 46 0.07
64 4 0.01
65 22 0.04
66 15 0.02
67 239 0.38
68 183 0.29
69 27 0.04
70 1 0.00
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.46
Consensus pattern (68 bp):
GGTTCAATCCTGGTCTCTTTATTTTCTAACTTGCGATTCAATCCCTGTCTCGTTATTCTCTGACT
CAC
Found at i:18802813 original size:34 final size:34
Alignment explanation
Indices: 18802724--18803066 Score: 102
Period size: 34 Copynumber: 10.3 Consensus size: 34
18802714 CTAACTTATA
* * * * *
18802724 GTTCAATTCATGTCTTGTTA-GTGTCTAACTCAAG
1 GTTCAATCCCTGTCTTGTTATTTTTC-AACTCATG
*
18802758 GTTCAATCCC-GAT-TTCTTTATTTTTCAACTCATG
1 GTTCAATCCCTG-TCTT-GTTATTTTTCAACTCATG
*
18802792 GTTCAATCCCTGTCTTGTTATTCTAT-AACTCATG
1 GTTCAATCCCTGTCTTGTTATT-TTTCAACTCATG
* *
18802826 GTTCAA------TCTTGGTCTTTTTCAACT-A-G
1 GTTCAATCCCTGTCTTGTTATTTTTCAACTCATG
* * *
18802852 CGATTTAATCCCTGTCTTGTTATTCTTT-GACTCACG
1 -G-TTCAATCCCTGTCTTGTTATT-TTTCAACTCATG
* * ***
18802888 GTGCAAT-CCTGGTCTCT-TTATTTTT-GACTCGCA
1 GTTCAATCCCT-GTCT-TGTTATTTTTCAACTCATG
* ** * *
18802921 GTTTAATCCCTGTCTCATTATTATAT-GACTCATG
1 GTTCAATCCCTGTCTTGTTATT-TTTCAACTCATG
* *
18802955 GTTCAAT-CCTGGTCTCT-TTA-TTTTCTGACTCGTG
1 GTTCAATCCCT-GTCT-TGTTATTTTTC-AACTCATG
* * * *
18802989 GTTCAATCCCTATCTCGTTA-TTCTCTGACTCATG
1 GTTCAATCCCTGTCTTGTTATTTTTC-AACTCATG
* **
18803023 GTTCAAT-CCTGTATCT-TTATTTTTCAACTTGTG
1 GTTCAATCCCTGTCT-TGTTATTTTTCAACTCATG
*
18803056 ATTCAATCCCT
1 GTTCAATCCCT
18803067 ATCTCATTAT
Statistics
Matches: 235, Mismatches: 42, Indels: 64
0.69 0.12 0.19
Matches are distributed among these distances:
26 1 0.00
27 4 0.02
28 16 0.07
32 2 0.01
33 52 0.22
34 142 0.60
35 17 0.07
36 1 0.00
ACGTcount: A:0.19, C:0.23, G:0.13, T:0.45
Consensus pattern (34 bp):
GTTCAATCCCTGTCTTGTTATTTTTCAACTCATG
Found at i:18803213 original size:134 final size:134
Alignment explanation
Indices: 18802751--18803354 Score: 488
Period size: 135 Copynumber: 4.5 Consensus size: 134
18802741 TTAGTGTCTA
* * * * ** * **
18802751 ACTCAAGGTTCAATCCCGATTTCTTTATTTTTCAACTCATGGTTCAATCCCTGTCTTGTTATTCT
1 ACTCACGGTTCAATCCTGGTCTCTTTATTTTTTGACTCGTGGTTCAATCCCTGTCTCATTATTCT
* * ** * * * * * **
18802816 ATAACTCATGGTTCAATCTTGG--TC--T-TTTTCAACTAGCGATTTAATCCCTGTCTTGTTATT
66 ATGACTCATGGTTCAATCCTGGTCTCTTTATTTTTGACTTGTGGTTCAATCCCTATCTCATTA-T
**
18802876 CTTTG
130 CTCAG
* ** * *
18802881 ACTCACGGTGCAATCCTGGTCTCTTTA-TTTTTGACTCGCAGTTTAATCCCTGTCTCATTATTAT
1 ACTCACGGTTCAATCCTGGTCTCTTTATTTTTTGACTCGTGGTTCAATCCCTGTCTCATTATTCT
* *
18802945 ATGACTCATGGTTCAATCCTGGTCTCTTTATTTTCTGACTCGTGGTTCAATCCCTATCTCGTTAT
66 ATGACTCATGGTTCAATCCTGGTCTCTTTATTTT-TGACTTGTGGTTCAATCCCTATCTCATTA-
*
18803010 TCTCTG
129 TCTCAG
* * ** * * *
18803016 ACTCATGGTTCAATCCT-GTATCTTTATTTTTCAACTTGTGATTCAATCCCTATCTCATTATTCT
1 ACTCACGGTTCAATCCTGGTCTCTTTATTTTTTGACTCGTGGTTCAATCCCTGTCTCATTATTCT
* * * * * * *
18803080 TTGACTCATGATTCAATTCTGGTCTCTTTATTTTTGAGTTGCGGTTCAATCCCTGTTTCATTA-C
66 ATGACTCATGGTTCAATCCTGGTCTCTTTATTTTTGACTTGTGGTTCAATCCCTATCTCATTATC
18803144 TCAG
131 TCAG
* * * * * **
18803148 ACTCACAGTTCAATCTTGGTCTCTTTTATTTTTTGACTCATGGTTCAATCCTTGTTTTGTTATTC
1 ACTCACGGTTCAATCCTGGTCTC-TTTATTTTTTGACTCGTGGTTCAATCCCTGTCTCATTATTC
* * * * * * * * *
18803213 TCTGACTCACGGTTCAATCCTGGTCCCTTTATTTTCGACTTATGGTTCAATCCTTAGCTCGTTTT
65 TATGACTCATGGTTCAATCCTGGTCTCTTTATTTTTGACTTGTGGTTCAATCCCTATCTC-ATTA
**
18803278 TCTTTG
129 TCTCAG
* * * *
18803284 ACTCACGGTTCAATCCTGGTCTCTTTATTTTTTAACTTGCT-GTTCAATTCCAGTCTCATTATTC
1 ACTCACGGTTCAATCCTGGTCTCTTTATTTTTTGACTCG-TGGTTCAATCCCTGTCTCATTATTC
*
18803348 TCTGACT
65 TATGACT
18803355 AGCAATTTAA
Statistics
Matches: 373, Mismatches: 89, Indels: 19
0.78 0.19 0.04
Matches are distributed among these distances:
129 48 0.13
130 22 0.06
131 2 0.01
132 18 0.05
133 5 0.01
134 113 0.30
135 140 0.38
136 25 0.07
ACGTcount: A:0.18, C:0.23, G:0.13, T:0.46
Consensus pattern (134 bp):
ACTCACGGTTCAATCCTGGTCTCTTTATTTTTTGACTCGTGGTTCAATCCCTGTCTCATTATTCT
ATGACTCATGGTTCAATCCTGGTCTCTTTATTTTTGACTTGTGGTTCAATCCCTATCTCATTATC
TCAG
Found at i:18803300 original size:34 final size:35
Alignment explanation
Indices: 18802858--18803312 Score: 236
Period size: 34 Copynumber: 13.5 Consensus size: 35
18802848 CTAGCGATTT
* * *
18802858 AATCCCTGTCTTG-TTATTCTTTGACTCACGGTGC
1 AATCCTTGTCTCGTTTATTCTTTGACTCACGGTTC
* * * *
18802892 AATCCTGGTCTC-TTTATT-TTTGACTCGCAGTTT
1 AATCCTTGTCTCGTTTATTCTTTGACTCACGGTTC
* * * * *
18802925 AATCCCTGTCTC-ATTATTATATGACTCATGGTTC
1 AATCCTTGTCTCGTTTATTCTTTGACTCACGGTTC
* **
18802959 AATCCTGGTCTC-TTTATT-TTCTGACTCGTGGTTC
1 AATCCTTGTCTCGTTTATTCTT-TGACTCACGGTTC
* * * *
18802993 AATCCCTATCTCG-TTATTCTCTGACTCATGGTTC
1 AATCCTTGTCTCGTTTATTCTTTGACTCACGGTTC
* * *** *
18803027 AATCC-TGTATC-TTTATT-TTTCAACTTGTGATTC
1 AATCCTTGTCTCGTTTATTCTTT-GACTCACGGTTC
* * * * *
18803060 AATCCCTATCTC-ATTATTCTTTGACTCATGATTC
1 AATCCTTGTCTCGTTTATTCTTTGACTCACGGTTC
* * * **
18803094 AATTCTGGTCTC-TTTATT-TTTGAGTTGCGGTTC
1 AATCCTTGTCTCGTTTATTCTTTGACTCACGGTTC
* * * ** *
18803127 AATCCCTGTTTC-ATTA--CTCAGACTCACAGTTC
1 AATCCTTGTCTCGTTTATTCTTTGACTCACGGTTC
* * *
18803159 AAT-CTTGGTCTCTTTTATTTTTTGACTCATGGTTC
1 AATCCTT-GTCTCGTTTATTCTTTGACTCACGGTTC
* * *
18803194 AATCCTTGTTTTG-TTATTCTCTGACTCACGGTTC
1 AATCCTTGTCTCGTTTATTCTTTGACTCACGGTTC
* * * * *
18803228 AATCCTGGTC-CCTTTATT-TTCGACTTATGGTTC
1 AATCCTTGTCTCGTTTATTCTTTGACTCACGGTTC
18803261 AATCCTTAG-CTCGTTT-TTCTTTGACTCACGGTTC
1 AATCCTT-GTCTCGTTTATTCTTTGACTCACGGTTC
*
18803295 AATCCTGGTCTC-TTTATT
1 AATCCTTGTCTCGTTTATT
18803313 TTTTAACTTG
Statistics
Matches: 313, Mismatches: 87, Indels: 42
0.71 0.20 0.10
Matches are distributed among these distances:
31 2 0.01
32 18 0.06
33 97 0.31
34 172 0.55
35 21 0.07
36 3 0.01
ACGTcount: A:0.17, C:0.24, G:0.14, T:0.46
Consensus pattern (35 bp):
AATCCTTGTCTCGTTTATTCTTTGACTCACGGTTC
Found at i:18803312 original size:101 final size:102
Alignment explanation
Indices: 18802871--18803313 Score: 358
Period size: 101 Copynumber: 4.4 Consensus size: 102
18802861 CCCTGTCTTG
* * * * * *
18802871 TTATTCTTTGACTCACGGTGCAATCCTGGTCTCTTTATTTTTGACTCGCAGTTTAATCCCTGTCT
1 TTATTCTTTGACTCATGGTTCAATCCTGGTCTCTTTATTTCTGACTCACGGTTCAATCCCTGTCT
* *
18802936 CATTATTATAT-GACTCATGGTTCAATCC-TGGTCTCT
66 CTTTATTAT-TCGACTCATGGTTCAATCCTTAGTCTCT
* * * *
18802972 TTATT-TTCTGACTCGTGGTTCAATCCCT-ATCTCGTTATTCTCTGACTCATGGTTCAAT-CCTG
1 TTATTCTT-TGACTCATGGTTCAAT-CCTGGTCTCTTTATT-TCTGACTCACGGTTCAATCCCTG
* * * ** * * *
18803034 TATCTTTATTTTTCAACTTGTGATTCAATCCCTA-TCTCA
63 TCTCTTTATTATTCGACTCATGGTTCAATCCTTAGTCTCT
* * * * **
18803073 TTATTCTTTGACTCATGATTCAATTCTGGTCTCTTTATTTTTGAGTTGCGGTTCAATCCCTG--T
1 TTATTCTTTGACTCATGGTTCAATCCTGGTCTCTTTATTTCTGACTCACGGTTCAATCCCTGTCT
* * ** *
18803136 -TTCATTACTCAGACTCACAGTTCAAT-CTTGGTCTCTT
66 CTTTATTATTC-GACTCATGGTTCAATCCTTAGTCTC-T
* * *
18803173 TTATTTTTTGACTCATGGTTCAATCCTTGT-TTTGTTATTCTCTGACTCACGGTTCAAT-CCTGG
1 TTATTCTTTGACTCATGGTTCAATCCTGGTCTCT-TTATT-TCTGACTCACGGTTCAATCCCT-G
* *
18803236 TCCCTTTATT-TTCGACTTATGGTTCAATCCTTAG-CTCGT
63 TCTCTTTATTATTCGACTCATGGTTCAATCCTTAGTCTC-T
*
18803275 TT-TTCTTTGACTCACGGTTCAATCCTGGTCTCTTTATTT
1 TTATTCTTTGACTCATGGTTCAATCCTGGTCTCTTTATTT
18803314 TTTAACTTGC
Statistics
Matches: 261, Mismatches: 62, Indels: 39
0.72 0.17 0.11
Matches are distributed among these distances:
98 9 0.03
99 16 0.06
100 53 0.20
101 133 0.51
102 39 0.15
103 6 0.02
104 5 0.02
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.46
Consensus pattern (102 bp):
TTATTCTTTGACTCATGGTTCAATCCTGGTCTCTTTATTTCTGACTCACGGTTCAATCCCTGTCT
CTTTATTATTCGACTCATGGTTCAATCCTTAGTCTCT
Found at i:18803459 original size:6 final size:6
Alignment explanation
Indices: 18803448--18803522 Score: 52
Period size: 6 Copynumber: 13.3 Consensus size: 6
18803438 AAAAAAAAGG
* ** * *
18803448 AACAAA AAC-AA AACAAA AGC--A AACACG AAGAAA AACAAC AA-AAA
1 AACAAA AACAAA AACAAA AACAAA AACAAA AACAAA AACAAA AACAAA
* *
18803492 AACAAA AACAAA AACAAA GA-AAA AAGAAA AA
1 AACAAA AACAAA AACAAA AACAAA AACAAA AA
18803523 AATGAGAAGA
Statistics
Matches: 53, Mismatches: 11, Indels: 10
0.72 0.15 0.14
Matches are distributed among these distances:
4 3 0.06
5 13 0.25
6 37 0.70
ACGTcount: A:0.79, C:0.15, G:0.07, T:0.00
Consensus pattern (6 bp):
AACAAA
Found at i:18803462 original size:11 final size:10
Alignment explanation
Indices: 18803448--18803524 Score: 55
Period size: 11 Copynumber: 7.0 Consensus size: 10
18803438 AAAAAAAAGG
18803448 AACAAAAACAA
1 AACAAAAA-AA
18803459 AACAAAAGCAAA
1 AACAAAA--AAA
* * *
18803471 CACGAAGAAA
1 AACAAAAAAA
18803481 AACAACAAAAA
1 AACAA-AAAAA
18803492 AACAAAAACAAA
1 AAC-AAAA-AAA
18803504 AACAAAGAAAA
1 AACAAA-AAAA
*
18803515 AAGAAAAAAA
1 AACAAAAAAA
18803525 TGAGAAGAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
10 10 0.19
11 27 0.51
12 15 0.28
13 1 0.02
ACGTcount: A:0.79, C:0.14, G:0.06, T:0.00
Consensus pattern (10 bp):
AACAAAAAAA
Found at i:18803524 original size:33 final size:33
Alignment explanation
Indices: 18803448--18803524 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 33
18803438 AAAAAAAAGG
* * * *
18803448 AACAAAAACAAAACAAAAGCAAACACGAAGAAA
1 AACAAAAAAAAAACAAAAACAAAAACAAAGAAA
*
18803481 AACAACAAAAAAACAAAAACAAAAACAAAGAAA
1 AACAAAAAAAAAACAAAAACAAAAACAAAGAAA
*
18803514 AA-AGAAAAAAA
1 AACAAAAAAAAA
18803525 TGAGAAGAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 7 0.19
33 30 0.81
ACGTcount: A:0.79, C:0.14, G:0.06, T:0.00
Consensus pattern (33 bp):
AACAAAAAAAAAACAAAAACAAAAACAAAGAAA
Found at i:18803942 original size:18 final size:17
Alignment explanation
Indices: 18803912--18803945 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18803902 AAATACATAT
*
18803912 ATAAATAAAAATTAATC
1 ATAAAAAAAAATTAATC
18803929 ATAAAAAAAGAATTAAT
1 ATAAAAAAA-AATTAAT
18803946 TAAAAAATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (17 bp):
ATAAAAAAAAATTAATC
Found at i:18803958 original size:15 final size:17
Alignment explanation
Indices: 18803930--18803970 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
18803920 AAATTAATCA
18803930 TAAAAAAAGAATT-AAT
1 TAAAAAAAGAATTAAAT
*
18803946 TAAAAAATG-ATTAAAT
1 TAAAAAAAGAATTAAAT
18803962 TACAAAAAA
1 TA-AAAAAA
18803971 AAAAATCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 3 0.14
16 13 0.62
17 5 0.24
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.24
Consensus pattern (17 bp):
TAAAAAAAGAATTAAAT
Found at i:18805688 original size:3 final size:3
Alignment explanation
Indices: 18805680--18805706 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18805670 ATAAATAAAT
18805680 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
18805707 ATTGTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:18805863 original size:30 final size:29
Alignment explanation
Indices: 18805827--18805954 Score: 129
Period size: 30 Copynumber: 4.4 Consensus size: 29
18805817 ACGTTTTCTT
*
18805827 TAAACCCTAAAACTAAAATCTTAAACCCAC
1 TAAACCCTAAAACTAAAATCCTAAACCC-C
18805857 TAAACCCTAAAA-TCAAAATCCT-AACCCC
1 TAAACCCTAAAACT-AAAATCCTAAACCCC
* * *
18805885 TAAACCTTAAAACTAAAAACCTAAACCCT
1 TAAACCCTAAAACTAAAATCCTAAACCCC
* *
18805914 TCAAACCCTAAAA-TCGAAACCCTAAA-CCC
1 T-AAACCCTAAAACT-AAAATCCTAAACCCC
*
18805943 TAAACCTTAAAA
1 TAAACCCTAAAA
18805955 TCGAAATTCT
Statistics
Matches: 84, Mismatches: 9, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
28 29 0.35
29 17 0.20
30 38 0.45
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.19
Consensus pattern (29 bp):
TAAACCCTAAAACTAAAATCCTAAACCCC
Found at i:18805898 original size:58 final size:58
Alignment explanation
Indices: 18805827--18805954 Score: 177
Period size: 58 Copynumber: 2.2 Consensus size: 58
18805817 ACGTTTTCTT
* * * * *
18805827 TAAACCCTAAAACTAAAATCTTAAACCCACT-AAACCCTAAAATCAAAATCCTAACCCC
1 TAAACCTTAAAACTAAAAACCTAAACCC-CTCAAACCCTAAAATCAAAACCCTAAACCC
* *
18805885 TAAACCTTAAAACTAAAAACCTAAACCCTTCAAACCCTAAAATCGAAACCCTAAACCC
1 TAAACCTTAAAACTAAAAACCTAAACCCCTCAAACCCTAAAATCAAAACCCTAAACCC
18805943 TAAACCTTAAAA
1 TAAACCTTAAAA
18805955 TCGAAATTCT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 1 0.02
58 61 0.98
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.19
Consensus pattern (58 bp):
TAAACCTTAAAACTAAAAACCTAAACCCCTCAAACCCTAAAATCAAAACCCTAAACCC
Found at i:18805935 original size:14 final size:14
Alignment explanation
Indices: 18805916--18805960 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
18805906 TAAACCCTTC
18805916 AAACCCTAAAATCG
1 AAACCCTAAAATCG
** *
18805930 AAACCCTAAACCCT
1 AAACCCTAAAATCG
*
18805944 AAACCTTAAAATCG
1 AAACCCTAAAATCG
18805958 AAA
1 AAA
18805961 TTCTAAATCC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.51, C:0.29, G:0.04, T:0.16
Consensus pattern (14 bp):
AAACCCTAAAATCG
Found at i:18805942 original size:7 final size:7
Alignment explanation
Indices: 18805856--18805953 Score: 54
Period size: 7 Copynumber: 13.7 Consensus size: 7
18805846 CTTAAACCCA
18805856 CTAAACC
1 CTAAACC
**
18805863 CTAAAAT
1 CTAAACC
* *
18805870 CAAAATC
1 CTAAACC
*
18805877 CTAACCC
1 CTAAACC
18805884 CTAAACC
1 CTAAACC
* *
18805891 TTAAA-A
1 CTAAACC
*
18805897 CTAAAAAC
1 CT-AAACC
18805905 CTAAACC
1 CTAAACC
18805912 CTTCAAACC
1 C-T-AAACC
**
18805921 CTAAAAT
1 CTAAACC
*
18805928 CGAAACC
1 CTAAACC
18805935 CTAAACC
1 CTAAACC
18805942 CTAAACC
1 CTAAACC
*
18805949 TTAAA
1 CTAAA
18805954 ATCGAAATTC
Statistics
Matches: 66, Mismatches: 21, Indels: 8
0.69 0.22 0.08
Matches are distributed among these distances:
6 1 0.02
7 55 0.83
8 4 0.06
9 6 0.09
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:18806016 original size:8 final size:8
Alignment explanation
Indices: 18805999--18806066 Score: 56
Period size: 8 Copynumber: 9.0 Consensus size: 8
18805989 AACTTTAAAA
18805999 TTAAAACC
1 TTAAAACC
*
18806007 TTAAACCC
1 TTAAAACC
18806015 TTAAAACC
1 TTAAAACC
18806023 TTAAAA--
1 TTAAAACC
18806029 TTAAATACC
1 TTAAA-ACC
*
18806038 -TAAACCC
1 TTAAAACC
*
18806045 TTTAAACC
1 TTAAAACC
*
18806053 CTAAAA--
1 TTAAAACC
18806059 TTAAAACC
1 TTAAAACC
18806067 CTATACCCTA
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
6 10 0.22
7 3 0.07
8 33 0.72
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (8 bp):
TTAAAACC
Found at i:18806029 original size:30 final size:29
Alignment explanation
Indices: 18805974--18806081 Score: 121
Period size: 30 Copynumber: 3.7 Consensus size: 29
18805964 TAAATCCTCC
* *
18805974 AAACCTTAAACTCT-AAACTTTAAAATTA
1 AAACCTTAAACCCTAAAACCTTAAAATTA
18806002 AAACCTTAAACCCTTAAAACCTTAAAATTA
1 AAACCTTAAACCC-TAAAACCTTAAAATTA
* *
18806032 AATACC-TAAACCCTTTAAACCCTAAAATTA
1 AA-ACCTTAAACCC-TAAAACCTTAAAATTA
* *
18806062 AAACCCTATACCCTAAAACC
1 AAACCTTAAACCCTAAAACC
18806082 AAATCCTAGA
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
28 12 0.17
29 10 0.14
30 45 0.64
31 3 0.04
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (29 bp):
AAACCTTAAACCCTAAAACCTTAAAATTA
Found at i:18806041 original size:14 final size:14
Alignment explanation
Indices: 18805974--18806066 Score: 64
Period size: 14 Copynumber: 6.4 Consensus size: 14
18805964 TAAATCCTCC
*
18805974 AAACCTTAAACTCT-
1 AAACCTTAAAAT-TA
*
18805988 AAACTTTAAAATTA
1 AAACCTTAAAATTA
*
18806002 AAACCTTAAACCCTTA
1 AAACCTTAAA--ATTA
18806018 AAACCTTAAAATTA
1 AAACCTTAAAATTA
* *
18806032 AATACC-TAAACCCTTT
1 AA-ACCTTAAA--ATTA
*
18806048 AAACCCTAAAATTA
1 AAACCTTAAAATTA
18806062 AAACC
1 AAACC
18806067 CTATACCCTA
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
13 1 0.02
14 35 0.56
15 6 0.10
16 21 0.33
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
AAACCTTAAAATTA
Found at i:18806193 original size:21 final size:21
Alignment explanation
Indices: 18806153--18806193 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18806143 TCTAAACCTT
*
18806153 AAAACCCTTAAAACTCAAACC
1 AAAACCCTTAAAACTAAAACC
18806174 AAAACCC-TAAAATCTAAAAC
1 AAAACCCTTAAAA-CTAAAAC
18806194 TTCAAAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (21 bp):
AAAACCCTTAAAACTAAAACC
Found at i:18806218 original size:14 final size:14
Alignment explanation
Indices: 18806199--18806228 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18806189 AAAACTTCAA
18806199 AATCTCAAAACCTT
1 AATCTCAAAACCTT
*
18806213 AATCTCAAACCCTT
1 AATCTCAAAACCTT
18806227 AA
1 AA
18806229 GCGAGATCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (14 bp):
AATCTCAAAACCTT
Found at i:18811991 original size:21 final size:22
Alignment explanation
Indices: 18811942--18811998 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
18811932 TTTTATTTTT
*
18811942 ATTTAATATT-AATTATTCAAG
1 ATTTATTATTAAATTATTCAAG
*
18811963 ATTTTATTATTAAATTATTTAA-
1 A-TTTATTATTAAATTATTCAAG
*
18811985 ATTTATTTTTAAAT
1 ATTTATTATTAAAT
18811999 GAATATGCTC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
22 9 0.29
23 9 0.29
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTTATTATTAAATTATTCAAG
Found at i:18813293 original size:20 final size:19
Alignment explanation
Indices: 18813251--18813296 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
18813241 TAAAGTGTGC
* *
18813251 AAATAATTTTCAAATTGAT
1 AAATAATTTTCAAATTAAA
*
18813270 AAATATATTTTCAATTTAAA
1 AAATA-ATTTTCAAATTAAA
18813290 AAATAAT
1 AAATAAT
18813297 AAGTGATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (19 bp):
AAATAATTTTCAAATTAAA
Found at i:18813712 original size:30 final size:30
Alignment explanation
Indices: 18813668--18813729 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
18813658 AAAAATAGAG
* *
18813668 TTAATTATAAATAATATGATACATTTTTAT
1 TTAATGATAAATAATATCATACATTTTTAT
*
18813698 TTAATGATAGATAATATCATACATTTTTAT
1 TTAATGATAAATAATATCATACATTTTTAT
18813728 TT
1 TT
18813730 TAAATTTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (30 bp):
TTAATGATAAATAATATCATACATTTTTAT
Found at i:18815142 original size:66 final size:62
Alignment explanation
Indices: 18815000--18815143 Score: 144
Period size: 66 Copynumber: 2.3 Consensus size: 62
18814990 TAGATATAAA
* * * * ** *
18815000 AAATCTATCGATAAAAAATTTGCAAAAAAAAATTACACATTATCGATGGAAATTCTGTTGCT
1 AAATCCATCGATAAAAAATTTGCAAAAAAAAATTACACAGTACCAACAGAAATTCTGTAGCT
* ** * *
18815062 AAATCCGTTAATAAAAAAGTTTGCAAAAAAAAAATTTCACACAGTACCAACATAAATTTTGTAGC
1 AAATCCATCGATAAAAAA-TTTGC-AAAAAAAAA-TT-ACACAGTACCAACAGAAATTCTGTAGC
18815127 T
62 T
18815128 AAATCCATCGATAAAA
1 AAATCCATCGATAAAA
18815144 CAAAAAAATT
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
62 14 0.22
63 5 0.08
64 9 0.14
65 2 0.03
66 33 0.52
ACGTcount: A:0.48, C:0.15, G:0.10, T:0.28
Consensus pattern (62 bp):
AAATCCATCGATAAAAAATTTGCAAAAAAAAATTACACAGTACCAACAGAAATTCTGTAGCT
Found at i:18818758 original size:24 final size:25
Alignment explanation
Indices: 18818729--18818784 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
18818719 AAGGTATTTG
*
18818729 ATGGATGGATGTTATA-GATGTTTT
1 ATGGATGGATATTATATGATGTTTT
* *
18818753 TTGGATGGATATTTTATGATGTTTT
1 ATGGATGGATATTATATGATGTTTT
18818778 ATGGATG
1 ATGGATG
18818785 CTATGAATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (25 bp):
ATGGATGGATATTATATGATGTTTT
Found at i:18818796 original size:20 final size:19
Alignment explanation
Indices: 18818767--18818804 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
18818757 ATGGATATTT
*
18818767 TATGATGTTTTATGGATGC
1 TATGATGTTTAATGGATGC
18818786 TATGAATGTTTAATGGATG
1 TATG-ATGTTTAATGGATG
18818805 TTTTATCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.45
Consensus pattern (19 bp):
TATGATGTTTAATGGATGC
Found at i:18818807 original size:11 final size:11
Alignment explanation
Indices: 18818757--18818839 Score: 59
Period size: 11 Copynumber: 7.9 Consensus size: 11
18818747 TGTTTTTTGG
*
18818757 ATGGATATTTT
1 ATGGATGTTTT
18818768 AT-GATGTTTT
1 ATGGATGTTTT
*
18818778 ATGGATG--CT
1 ATGGATGTTTT
* *
18818787 ATGAATGTTTA
1 ATGGATGTTTT
18818798 ATGGATGTTTT
1 ATGGATGTTTT
** *
18818809 ATCATATTTTTT
1 AT-GGATGTTTT
18818821 ATGGATG-TTT
1 ATGGATGTTTT
18818831 AT-GATGTTT
1 ATGGATGTTT
18818840 ATCTAGATTT
Statistics
Matches: 54, Mismatches: 13, Indels: 11
0.69 0.17 0.14
Matches are distributed among these distances:
9 11 0.20
10 16 0.30
11 19 0.35
12 8 0.15
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.53
Consensus pattern (11 bp):
ATGGATGTTTT
Found at i:18818936 original size:19 final size:19
Alignment explanation
Indices: 18818908--18818951 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
18818898 AAATTGTAAT
*
18818908 TTATAGGTTTCTTAAATAA
1 TTATAAGTTTCTTAAATAA
* *
18818927 TTATAAGTTTTTTGAATAA
1 TTATAAGTTTCTTAAATAA
*
18818946 CTATAA
1 TTATAA
18818952 ATATTTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.48
Consensus pattern (19 bp):
TTATAAGTTTCTTAAATAA
Found at i:18819245 original size:20 final size:20
Alignment explanation
Indices: 18819216--18819253 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18819206 AAATTTTTCA
*
18819216 TCAATAATTATCAATAAATT
1 TCAATAATTACCAATAAATT
*
18819236 TCAATCATTACCAATAAA
1 TCAATAATTACCAATAAA
18819254 ATAGCATTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (20 bp):
TCAATAATTACCAATAAATT
Found at i:18827131 original size:4 final size:4
Alignment explanation
Indices: 18827122--18827148 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
18827112 TGATATCCAA
18827122 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
18827149 AGAAGCTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:18832296 original size:42 final size:38
Alignment explanation
Indices: 18832217--18832302 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 38
18832207 ACAAGGATAT
*
18832217 AACCATCAAAATCAATATCATCAAATAAGAATTTTTCA
1 AACCATCAAAATCAATATCATCAAATAAGAATATTTCA
* *
18832255 AACCATCAATATCAAGATCATCAATCAAATCAGAATATTTCA
1 AACCATCAAAATC-A-AT-ATC-ATCAAATAAGAATATTTCA
*
18832297 TACCAT
1 AACCAT
18832303 TTTCTTTCCC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
38 12 0.30
39 1 0.03
40 2 0.05
41 3 0.08
42 22 0.55
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.28
Consensus pattern (38 bp):
AACCATCAAAATCAATATCATCAAATAAGAATATTTCA
Found at i:18836298 original size:197 final size:197
Alignment explanation
Indices: 18835950--18836342 Score: 678
Period size: 197 Copynumber: 2.0 Consensus size: 197
18835940 GCTTAGGTAA
* * *
18835950 AAGATTTCACACTTAGCTACTTTTAAATTGGTCAATTCCTTTTACATAACCAATATCCAATAATC
1 AAGATTCCACACTTAGCTACTTTTAAATTGGTCAATTCCTCTTACATAACCAATATCCAACAATC
*
18836015 ATATCCTAAGGCCTCATCTATATTCTTAGGTTCAATATGAGATAGAAAAGTAACATAATTACACA
66 ATATCCTAAGGCCTCATCTATATTCTTAAGTTCAATATGAGATAGAAAAGTAACATAATTACACA
* * *
18836080 CATTGTAAGAAGATCTAGTTCTTACCCTTTAAGTTGGATCACCAATAGTCTCACTATCTTTGACA
131 AATTGTAAGAAGATATAGTTCTTACCCTTTAAGTTGGATCACCAATAATCTCACTATCTTTGACA
18836145 TG
196 TG
* * *
18836147 AAGATTCCACACTTGGCTGCTTTTAAATTGGTCAATTCCTCTTGCATAACCAATATCCAACAATC
1 AAGATTCCACACTTAGCTACTTTTAAATTGGTCAATTCCTCTTACATAACCAATATCCAACAATC
* *
18836212 ATCTCCTAAGGCCTCATCTATATTCTTAAGTTCAATATGAGATAGAAAAGTAACATAATTACATA
66 ATATCCTAAGGCCTCATCTATATTCTTAAGTTCAATATGAGATAGAAAAGTAACATAATTACACA
18836277 AATTGTAAGAAGATATAGTTCTTACCCTTTAAGTTGGATCACCAATAATCTCACTATCTTTGACA
131 AATTGTAAGAAGATATAGTTCTTACCCTTTAAGTTGGATCACCAATAATCTCACTATCTTTGACA
18836342 T
196 T
18836343 ATCTCATTTT
Statistics
Matches: 184, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
197 184 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (197 bp):
AAGATTCCACACTTAGCTACTTTTAAATTGGTCAATTCCTCTTACATAACCAATATCCAACAATC
ATATCCTAAGGCCTCATCTATATTCTTAAGTTCAATATGAGATAGAAAAGTAACATAATTACACA
AATTGTAAGAAGATATAGTTCTTACCCTTTAAGTTGGATCACCAATAATCTCACTATCTTTGACA
TG
Found at i:18841194 original size:330 final size:332
Alignment explanation
Indices: 18840512--18841333 Score: 919
Period size: 330 Copynumber: 2.5 Consensus size: 332
18840502 CAAGGCTAAG
** * * *
18840512 GATCAAGCACTTACCACTACACTAAAAGCTATAGCTGATAGTGAAGGTGCAACTTTATTTTCTTA
1 GATCAAGTGCTTACCACTACACCAAAAGCTATAGCTGATAGTGAAGGCGTAACTTTATTTTCTTA
* * * * * * * * *
18840577 TTTTTTTTGGTAACACAAAGTCAT-GTACTAAGTGACATGTAGACATAAAAAGCTTTGCAAAACC
66 TTTTTTTTGGTAATACAGAGTC-TCGTACTAAGCGATAGGTAGACAT-AAGAGGTTTGTAAAGCC
* * * * ** *
18840641 TTTTTGGGATACCTCACCCATTGGGCCT-TAGCAAGTTGGGTTATCATACACCAAAATTCGATCC
129 TTCTTGGGATACCTCACCCATTGGGCCTCGAGCAAGTTGGGTTACCACACACCAAAAGCCAATCC
* * * * * **
18840705 ACCATGGGATGCTTTACCCAGATGAACCGATATATCAAGTTCTTAAAGGAGATCGTTGGACCCTA
194 ACCATAGGATACCTCACCCAGATGAACCGATATATCAAGTTCTTAAAGGAGACCACTGGACCCTA
* * * * *
18840770 TGATCCAACAATCTCCCCTCCAATAGCATCTAAAGAACTCAAACATGCAACCTCACTTTGATACC
259 TGATCCAACAATCTCCCCCCCAATAACACCTAAAGAACTCAAACATGCAACCTCACTCTAATACC
18840835 AATTTTCAA
324 AATTTTCAA
* * *
18840844 GATTAAGTGTTTACCACTACACCAAAAGTTATAG-TGATAGTGAAGGCGTAACTTTATTTTCTT-
1 GATCAAGTGCTTACCACTACACCAAAAGCTATAGCTGATAGTGAAGGCGTAACTTTATTTTCTTA
18840907 TTTTTTTTGGTAATACAGAGTCTCGTACTAAGCGATAGGTAGACATAAGAGGTTTCGTAAAGCCT
66 TTTTTTTTGGTAATACAGAGTCTCGTACTAAGCGATAGGTAGACATAAGAGGTTT-GTAAAGCCT
* * *
18840972 TCTTGGGATACCTCACCTATTGGGCCTCGA-C-AGATTGGGTTGCCACACACCAGAAGCCAATCC
130 TCTTGGGATACCTCACCCATTGGGCCTCGAGCAAG-TTGGGTTACCACACACCAAAAGCCAATCC
* * *
18841035 ATCATAGGATACCTCACCCAGATGAATCGATATATCAAG-TCTCTAAAGGAGACCACTGGACCTT
194 ACCATAGGATACCTCACCCAGATGAACCGATATATCAAGTTCT-TAAAGGAGACCACTGGACCCT
* * * * * * *
18841099 GTGATCTAACAATCTCCCCCCCAATAACACCTGAAGGACTTAAACCTGCAACCTCGCTCTAATAC
258 ATGATCCAACAATCTCCCCCCCAATAACACCTAAAGAACTCAAACATGCAACCTCACTCTAATAC
* *
18841164 TAGTTTTCATA
323 CAATTTTCA-A
* * * *
18841175 -ATCAAGTGCTTATCACTACATCAAAAGCTATAGCTAATAATGAAGGCGTAACTTTATTTTCTTA
1 GATCAAGTGCTTACCACTACACCAAAAGCTATAGCTGATAGTGAAGGCGTAACTTTATTTTCTTA
* * *
18841239 TTTTTTTTGGTAATGCAGAG-CTACGTACTAAGCAATAGGT-GAACATAAG-GTGCTTTATAAAG
66 TTTTTTTTGGTAATACAGAGTCT-CGTACTAAGCGATAGGTAG-ACATAAGAG-G-TTTGTAAAG
* * **
18841301 CTTTCTTAGGATTTCTCACCCATTGGGCCTCGA
127 CCTTCTTGGGATACCTCACCCATTGGGCCTCGA
18841334 TAGGTTAGAT
Statistics
Matches: 412, Mismatches: 66, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
329 13 0.03
330 232 0.56
331 60 0.15
332 104 0.25
333 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (332 bp):
GATCAAGTGCTTACCACTACACCAAAAGCTATAGCTGATAGTGAAGGCGTAACTTTATTTTCTTA
TTTTTTTTGGTAATACAGAGTCTCGTACTAAGCGATAGGTAGACATAAGAGGTTTGTAAAGCCTT
CTTGGGATACCTCACCCATTGGGCCTCGAGCAAGTTGGGTTACCACACACCAAAAGCCAATCCAC
CATAGGATACCTCACCCAGATGAACCGATATATCAAGTTCTTAAAGGAGACCACTGGACCCTATG
ATCCAACAATCTCCCCCCCAATAACACCTAAAGAACTCAAACATGCAACCTCACTCTAATACCAA
TTTTCAA
Found at i:18841426 original size:332 final size:329
Alignment explanation
Indices: 18840512--18841442 Score: 779
Period size: 330 Copynumber: 2.8 Consensus size: 329
18840502 CAAGGCTAAG
** * * * * *
18840512 GATCAAGCACTTACCACTACACTAAAAGCTATAGCTGATAGTGAAGGTGCAACTTTATTTTCTTA
1 GATCAAGTGCTTACCACTACACCAAAAGCTATAG-TAATAATGAAGGCGTAACTTTATTTTCTT-
* * ** * * * *
18840577 TTTTTTTTGGTAACACAAAGTCAT-GTACTAAGTGACATGTAGACATAAAAAGCTTTGCA-AAA-
64 TTTTTTTTGGTAATACAGAGTC-TCGTACTAAGCAATAGGTAGACAT-AAGAGGTTT-CATAAAG
* * * * * ** * * ** *
18840639 CCTTTTTGGGATACCTCACCCATTGGGCCT-TAGCA-AGTTGGGTTATCATACACCAAAATTCGA
126 CCTTCTTAGGATACCTCACCCATTGGGCCTCGA-CAGA-TTAGATTGCCACACACCAGAAGCCAA
** * * * * * * **
18840702 TCCACCATGGGATGCTTTACCCAGATGAACCGATATATCAAGT-TCTTAAAGGAGATCGTTGGAC
189 TCCACCATAAGATACCTCACCCAGATGAACCGACATACCAAGTCTC-TAAA-GAGACCACTGGAC
* * * * *
18840766 CCTATGATCCAACAATCTCCCCTCCAATAGCATCTAAAGAACTCAAACATGCAACCTCACTTTGA
252 CCTATGATCCAACAATCTCCCCCCCAATAACACCTAAAGAACTCAAACATGCAACCTCACTCTAA
18840831 TACCAATTTTCAA
317 TACCAATTTTCAA
* * * * *
18840844 GATTAAGTGTTTACCACTACACCAAAAGTTATAGTGATAGTGAAGGCGTAACTTTATTTTCTTTT
1 GATCAAGTGCTTACCACTACACCAAAAGCTATAGTAATAATGAAGGCGTAACTTTATTTTCTTTT
* *
18840909 TTTTTTGGTAATACAGAGTCTCGTACTAAGCGATAGGTAGACATAAGAGGTTTCGTAAAGCCTTC
66 TTTTTTGGTAATACAGAGTCTCGTACTAAGCAATAGGTAGACATAAGAGGTTTCATAAAGCCTTC
* * * * *
18840974 TTGGGATACCTCACCTATTGGGCCTCGACAGATTGGGTTGCCACACACCAGAAGCCAATCCATCA
131 TTAGGATACCTCACCCATTGGGCCTCGACAGATTAGATTGCCACACACCAGAAGCCAATCCACCA
* * * * * *
18841039 TAGGATACCTCACCCAGATGAATCGATATATCAAGTCTCTAAAGGAGACCACTGGACCTTGTGAT
196 TAAGATACCTCACCCAGATGAACCGACATACCAAGTCTCTAAA-GAGACCACTGGACCCTATGAT
* * * * * * * *
18841104 CTAACAATCTCCCCCCCAATAACACCTGAAGGACTTAAACCTGCAACCTCGCTCTAATACTAGTT
260 CCAACAATCTCCCCCCCAATAACACCTAAAGAACTCAAACATGCAACCTCACTCTAATACCAATT
18841169 TTCATA
325 TTCA-A
* *
18841175 -ATCAAGTGCTTATCACTACATCAAAAGCTATAGCTAATAATGAAGGCGTAACTTTATTTTCTTA
1 GATCAAGTGCTTACCACTACACCAAAAGCTATAG-TAATAATGAAGGCGTAACTTTATTTTCTT-
*
18841239 TTTTTTTTGGTAATGCAGAG-CTACGTACTAAGCAATAGGT-GAACATAAG-GTGCTTT-ATAAA
64 TTTTTTTTGGTAATACAGAGTCT-CGTACTAAGCAATAGGTAG-ACATAAGAG-G-TTTCATAAA
* ** * * * * * *****
18841300 GCTTTCTTAGGATTTCTCACCCATTGGGCCTCGATAGGTTAGATTGCCATATACTAGATTTTGAT
125 GCCTTCTTAGGATACCTCACCCATTGGGCCTCGACAGATTAGATTGCCACACACCAGAAGCCAAT
** * * * *
18841365 CCACCATAAGATACCTCACTTATATGAACCGACATACCAAGTTTTTGGAAA-AGATCACTGGACC
190 CCACCATAAGATACCTCACCCAGATGAACCGACATACCAAGTCTCT--AAAGAGACCACTGGACC
* *
18841429 CCATAATCCAACAA
253 CTATGATCCAACAA
18841443 AGCATTTATC
Statistics
Matches: 491, Mismatches: 93, Indels: 30
0.80 0.15 0.05
Matches are distributed among these distances:
328 1 0.00
329 11 0.02
330 230 0.47
331 63 0.13
332 180 0.37
333 3 0.01
334 3 0.01
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (329 bp):
GATCAAGTGCTTACCACTACACCAAAAGCTATAGTAATAATGAAGGCGTAACTTTATTTTCTTTT
TTTTTTGGTAATACAGAGTCTCGTACTAAGCAATAGGTAGACATAAGAGGTTTCATAAAGCCTTC
TTAGGATACCTCACCCATTGGGCCTCGACAGATTAGATTGCCACACACCAGAAGCCAATCCACCA
TAAGATACCTCACCCAGATGAACCGACATACCAAGTCTCTAAAGAGACCACTGGACCCTATGATC
CAACAATCTCCCCCCCAATAACACCTAAAGAACTCAAACATGCAACCTCACTCTAATACCAATTT
TCAA
Found at i:18843975 original size:17 final size:17
Alignment explanation
Indices: 18843953--18844024 Score: 76
Period size: 17 Copynumber: 4.2 Consensus size: 17
18843943 AAAAAAGGCA
18843953 TTGATTTTAATTTAATT
1 TTGATTTTAATTTAATT
*
18843970 TTGATTTAAATTTAAATT
1 TTGATTTTAATTT-AATT
*
18843988 TTGCTTTTAATTTTAATT
1 TTGATTTTAA-TTTAATT
*
18844006 TT-AATTTAATCTT-ATT
1 TTGATTTTAAT-TTAATT
18844022 TTG
1 TTG
18844025 GTCAAAATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
16 6 0.13
17 19 0.41
18 18 0.39
19 3 0.07
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (17 bp):
TTGATTTTAATTTAATT
Found at i:18844015 original size:5 final size:6
Alignment explanation
Indices: 18843956--18844012 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
18843946 AAAGGCATTG
* * * * *
18843956 ATTTTA A-TTTA ATTTTG ATTTAA ATTTAA ATTTTG CTTTTA ATTTTA
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
18844003 ATTTTA ATTT
1 ATTTTA ATTT
18844013 AATCTTATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
5 5 0.12
6 37 0.88
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (6 bp):
ATTTTA
Found at i:18845106 original size:14 final size:15
Alignment explanation
Indices: 18845083--18845122 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
18845073 TTTTGTTTAT
18845083 TTTA-TATTTTA-TA
1 TTTATTATTTTATTA
18845096 TTCTATT-TTTTATTA
1 TT-TATTATTTTATTA
18845111 TTTATTATTTTA
1 TTTATTATTTTA
18845123 ATTGTGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 2 0.09
14 11 0.48
15 10 0.43
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTATTATTTTATTA
Found at i:18845285 original size:21 final size:19
Alignment explanation
Indices: 18845259--18845315 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
18845249 TAAAATATTA
18845259 TAATTGCATGATTATTTATAT
1 TAATTGCATGATT-TTT-TAT
*
18845280 TAATTGCATAATTTTTTAT
1 TAATTGCATGATTTTTTAT
* *
18845299 TATTTACATGATTTTTT
1 TAATTGCATGATTTTTT
18845316 TAAATATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 17 0.53
20 3 0.09
21 12 0.38
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.58
Consensus pattern (19 bp):
TAATTGCATGATTTTTTAT
Found at i:18845312 original size:19 final size:19
Alignment explanation
Indices: 18845265--18845330 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 19
18845255 ATTATAATTG
* *
18845265 CATGATTATTTATATTAATTG
1 CATGATT-TTT-TATTATTTA
*
18845286 CATAATTTTTTATTATTTA
1 CATGATTTTTTATTATTTA
*
18845305 CATGATTTTTTTAAATATTTA
1 CATGA-TTTTTT-ATTATTTA
18845326 CATGA
1 CATGA
18845331 GTATTAATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
19 11 0.29
20 9 0.24
21 18 0.47
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (19 bp):
CATGATTTTTTATTATTTA
Found at i:18845316 original size:21 final size:21
Alignment explanation
Indices: 18845291--18845330 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18845281 AATTGCATAA
*
18845291 TTTTTT-ATTATTTACATGAT
1 TTTTTTAAATATTTACATGAT
18845311 TTTTTTAAATATTTACATGA
1 TTTTTTAAATATTTACATGA
18845331 GTATTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (21 bp):
TTTTTTAAATATTTACATGAT
Found at i:18845521 original size:27 final size:29
Alignment explanation
Indices: 18845485--18845572 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 29
18845475 ACATGTTATG
*
18845485 TTATTGCATGATA-ATTT-TTGCATGATA
1 TTATTACATGATATATTTATTGCATGATA
*
18845512 TTATTACATGATATTTTTATTGCATGATAA
1 TTATTACATGATATATTTATTGCATGAT-A
* * *
18845542 TTTTTTGCATGATTTTATATTATTGCATGAT
1 -TTATTACATGA-TATAT-TTATTGCATGAT
18845573 GATATTTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
27 12 0.24
28 3 0.06
29 9 0.18
30 1 0.02
31 9 0.18
32 3 0.06
33 12 0.24
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.52
Consensus pattern (29 bp):
TTATTACATGATATATTTATTGCATGATA
Found at i:18845523 original size:13 final size:13
Alignment explanation
Indices: 18845485--18845559 Score: 60
Period size: 13 Copynumber: 5.3 Consensus size: 13
18845475 ACATGTTATG
18845485 TTATTGCATGATAA
1 TTATTGCATGAT-A
*
18845499 TTTTTGCATGATA
1 TTATTGCATGATA
*
18845512 TTATTACATGATA
1 TTATTGCATGATA
18845525 TTTTTATTGCATGATAA
1 ---TTATTGCATGAT-A
* *
18845542 TTTTTTGCATGATT
1 -TTATTGCATGATA
18845556 TTAT
1 TTAT
18845560 ATTATTGCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
13 15 0.30
14 11 0.22
15 12 0.24
16 11 0.22
17 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.53
Consensus pattern (13 bp):
TTATTGCATGATA
Found at i:18845535 original size:43 final size:43
Alignment explanation
Indices: 18845472--18845559 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 43
18845462 ATATTTTTGC
*
18845472 ATTACATGTTATGTTATTGCATGATAA-TTTTTGCATGATATT
1 ATTACATGATATGTTATTGCATGATAATTTTTTGCATGATATT
* *
18845514 ATTACATGATATTTTTATTGCATGATAATTTTTTGCATGATTTT
1 ATTACATGATA-TGTTATTGCATGATAATTTTTTGCATGATATT
18845558 AT
1 AT
18845560 ATTATTGCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 10 0.24
43 15 0.37
44 16 0.39
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.52
Consensus pattern (43 bp):
ATTACATGATATGTTATTGCATGATAATTTTTTGCATGATATT
Found at i:18845569 original size:18 final size:16
Alignment explanation
Indices: 18845480--18845572 Score: 65
Period size: 16 Copynumber: 6.0 Consensus size: 16
18845470 GCATTACATG
18845480 TTATGTTATTGCATGA-
1 TTAT-TTATTGCATGAT
*
18845496 TAATTT-TTGCATGA-
1 TTATTTATTGCATGAT
*
18845510 -TA-TTATTACATGAT
1 TTATTTATTGCATGAT
18845524 ATT-TTTATTGCATGA-
1 -TTATTTATTGCATGAT
* *
18845539 TAATTTTTTGCATGATT
1 TTATTTATTGCATGA-T
18845556 TTATATTATTGCATGAT
1 TTAT-TTATTGCATGAT
18845573 GATATTTTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
12 2 0.03
13 8 0.13
14 9 0.15
15 13 0.22
16 14 0.23
17 4 0.07
18 10 0.17
ACGTcount: A:0.28, C:0.06, G:0.13, T:0.53
Consensus pattern (16 bp):
TTATTTATTGCATGAT
Found at i:18845582 original size:18 final size:18
Alignment explanation
Indices: 18845519--18845582 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
18845509 ATATTATTAC
18845519 ATGATATTTTTATTGCATG
1 ATGATA-TTTTATTGCATG
18845538 AT-A-ATTTT-TTGCATG
1 ATGATATTTTATTGCATG
** *
18845553 ATTTTATATTATTGCATG
1 ATGATATTTTATTGCATG
18845571 ATGATATTTTAT
1 ATGATATTTTAT
18845583 ATTTTTGCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
15 9 0.24
16 4 0.11
17 5 0.14
18 17 0.46
19 2 0.05
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (18 bp):
ATGATATTTTATTGCATG
Found at i:18846243 original size:3 final size:3
Alignment explanation
Indices: 18846235--18846263 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18846225 TTTGGGGAGG
18846235 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
18846264 CTTCAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:18850263 original size:66 final size:65
Alignment explanation
Indices: 18850072--18850263 Score: 181
Period size: 66 Copynumber: 2.9 Consensus size: 65
18850062 GTTTTTTTGT
* ** ** **
18850072 TTAAATTTATAAAATCTTATTAAATTATTAAAAGATTTTCATAAATTT-AAAAATTATTTTTTAA
1 TTAAATTTATAAAATCTTATCAAATTATTAATGGA-TTTCATAAATTTAAAAAATTAAATTAGAA
18850136 A
65 A
* * *** *
18850137 TTAAATTTATAAAATCTTATCAAACTACT-ATAGGATTTCATGGGTTAAAAACAATTAAATTAGA
1 TTAAATTTATAAAATCTTATCAAATTATTAAT-GGATTTCATAAATTTAAAA-AATTAAATTAGA
18850201 AA
64 AA
* * * *
18850203 TTAAATTTATAAAATTTTATCAAATTATTAATGGATTTGATTATATTTAAAAAATAAAATT
1 TTAAATTTATAAAATCTTATCAAATTATTAATGGATTTCA-TAAATTTAAAAAATTAAATT
18850264 TTATCAAAAT
Statistics
Matches: 100, Mismatches: 22, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
64 9 0.09
65 31 0.31
66 51 0.51
67 9 0.09
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (65 bp):
TTAAATTTATAAAATCTTATCAAATTATTAATGGATTTCATAAATTTAAAAAATTAAATTAGAAA
Found at i:18850285 original size:45 final size:45
Alignment explanation
Indices: 18850211--18850338 Score: 134
Period size: 48 Copynumber: 2.8 Consensus size: 45
18850201 AATTAAATTT
* *
18850211 ATAAAATTTTATCAAATTATT-AATGGATTTGATTATATTTAAAAA
1 ATAAAATTTTATCAAATTATTGAA-AGATTTTATTATATTTAAAAA
* * **
18850256 ATAAAATTTTATCAAAATATTGAAAGATTTTATAATAATCTTTTTAAA
1 ATAAAATTTTATCAAATTATTGAAAGATTTTAT--T-ATATTTAAAAA
*
18850304 ATAAAATTTTA-CTAAATTATAGAAAGATTTTATTA
1 ATAAAATTTTATC-AAATTATTGAAAGATTTTATTA
18850339 AAAAAATAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
45 28 0.40
46 3 0.04
47 2 0.03
48 37 0.53
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (45 bp):
ATAAAATTTTATCAAATTATTGAAAGATTTTATTATATTTAAAAA
Found at i:18854370 original size:25 final size:25
Alignment explanation
Indices: 18854342--18854403 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
18854332 TATTATAGAA
18854342 ATCTGATTCTCCTACATTAGTACAG
1 ATCTGATTCTCCTACATTAGTACAG
* *
18854367 ATCTGATTCTCCTATATTAGTGCAG
1 ATCTGATTCTCCTACATTAGTACAG
*
18854392 CT-TGATT-TCCTA
1 ATCTGATTCTCCTA
18854404 ATTTATTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 5 0.15
24 5 0.15
25 24 0.71
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (25 bp):
ATCTGATTCTCCTACATTAGTACAG
Found at i:18862366 original size:16 final size:16
Alignment explanation
Indices: 18862336--18862368 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18862326 ACAGAAATTG
18862336 AGAAACAAAAGAGGGA
1 AGAAACAAAAGAGGGA
18862352 AGAAA-AAAAGTAGGGA
1 AGAAACAAAAG-AGGGA
18862368 A
1 A
18862369 AAGGGCAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.64, C:0.03, G:0.30, T:0.03
Consensus pattern (16 bp):
AGAAACAAAAGAGGGA
Found at i:18862613 original size:21 final size:22
Alignment explanation
Indices: 18862578--18862619 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
18862568 ATATACATAA
*
18862578 TTTAATATTGTTAAAAATTATT
1 TTTAAAATTGTTAAAAATTATT
*
18862600 TTTAAAATT-TTAAAATTTAT
1 TTTAAAATTGTTAAAAATTAT
18862620 AATATATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTAAAATTGTTAAAAATTATT
Found at i:18866126 original size:2 final size:2
Alignment explanation
Indices: 18866119--18866153 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
18866109 AAACAGAGTG
18866119 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18866154 GTAAGATCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18866314 original size:2 final size:2
Alignment explanation
Indices: 18866307--18866355 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
18866297 CATATGTATC
* *
18866307 TA TA TA TA TC TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18866349 TA TA TA T
1 TA TA TA T
18866356 CTGTGTGTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18870778 original size:2 final size:2
Alignment explanation
Indices: 18870771--18870797 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18870761 TCAAGTAATT
18870771 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
18870798 GCAATTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18871505 original size:19 final size:21
Alignment explanation
Indices: 18871481--18871522 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
18871471 TTACAAGCAA
18871481 TTACTGTTG-GTT-CATATTT
1 TTACTGTTGCGTTACATATTT
*
18871500 TTACTGTTGCTTTACATATTT
1 TTACTGTTGCGTTACATATTT
18871521 TT
1 TT
18871523 TGTACATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 2 0.10
21 9 0.45
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.60
Consensus pattern (21 bp):
TTACTGTTGCGTTACATATTT
Found at i:18876501 original size:2 final size:2
Alignment explanation
Indices: 18876494--18876519 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18876484 TTTTGTAATA
18876494 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
18876520 TAGATTTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18876990 original size:2 final size:2
Alignment explanation
Indices: 18876979--18877010 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
18876969 TGTATGTTGT
18876979 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18877011 TAGATTTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18877199 original size:493 final size:483
Alignment explanation
Indices: 18876491--18877492 Score: 1503
Period size: 493 Copynumber: 2.1 Consensus size: 483
18876481 ATATTTTGTA
*
18876491 ATAATATATATATATATATATATATATATTAGATTTAAGATGAAATTTTGTTAAATTTTCAAAAT
1 ATAATATATATATATATATATATATATATTAGATTTAAGATGAAATTTTGTTAAATTTACAAAAT
* *
18876556 CTTATATAAAGTTACTTAAATTTTTAATGTCTTACATAAATTTTTTAAAAATATAATTTTTTTAA
66 CTTACATAAAGTTACTTAAATTTTTAATATCTTA-ATAAATTTTTTAAAAATATAATTTTTTTAA
* *
18876621 ATCAAGATAAAAATGATTGGTAAAAAATTTGGATAAACTTAATCTTTGTAACTTTTAAATATGTT
130 ATCAAGATAAAAAAGATTGGTAAAAAATTTGGATAAACTTAATCCTTGTAACTTTTAAATATGTT
** *
18876686 TAAAAGAGTTTGATAATTAAATAATTTTTTAAATAAGGTTATTTGGTAAATAACTAAAATTATTT
195 TAAAAGAGTTTGATAATTAAATAATTTTTTAAATAAAATTATATGGTAAATAACTAAAATTATTT
*
18876751 ATTAAAAAAACAAAATCCATATTTTATATTTTTAA-TTTTAAAAATATATCTCTAAGTTGATTTA
260 ATT----AAA-AAAATCCA-ATTTTATATTTTTAATTTTTAAAAATATATCTCTAAATTGATTTA
* * *
18876815 ATATTT-AATTATAATTTGAAT-ATTTTTATATTTGAATAAATTTAAAATTATCTAATTTGTAAT
319 AT-TTTCAACTATAATTTGAATAATTTTAAAATTTGAATAAATTTAAAATTATCTAATTTGTAAT
*
18876878 TAAAAGAAACTATCTTATTCTTT-TAAAAAACTATCATATGTGTCATTTAAGAGAATTGCCCACA
383 TAAAAGAAACTATCTTATT-TTTAAAAAAAACTAT--TATGTGTCATTTAAGAGAATTGCCCACA
* * *
18876942 TAAGCACCCATGT-AGCAAACTTGTTTATGTATGTTGTTAT
445 TAAGCACCCATGTGA-CAAACTTATTTATGTA-ATAGTTAT
* *
18876982 ATAATATATATATATATATATATATATATTAGATTTAAGATGAAATTTTTTTTGAATTTACAAAA
1 ATAATATATATATATATATATATATATATTAGATTTAAGATGAAA-TTTTGTTAAATTTACAAAA
* *
18877047 TCTTACATAAAGTTGCTTGAATTTTTAATATCTT-ATAAATTTTTTTAAAAAATATAATTTTTTT
65 TCTTACATAAAGTTACTTAAATTTTTAATATCTTAATAAA-TTTTTT-AAAAATATAATTTTTTT
* * * * *
18877111 AAATCAAGATAAAAAAAGATTGGTGAAAATTTTGGATAAATTTAATCCTTGTAATTTTTAACTAT
128 AAATCAAGAT-AAAAAAGATTGGTAAAAAATTTGGATAAACTTAATCCTTGTAACTTTTAAATAT
*
18877176 GTTTAAAAGATTTTGATAATTAAATAATTTTTTAAATAAAATTATATGGTAAATAACTAAAATTA
192 GTTTAAAAGAGTTTGATAATTAAATAATTTTTTAAATAAAATTATATGGTAAATAACTAAAATTA
*
18877241 TTTATTAAAAAAATCCAATTTTATATTTTTAATTTTTAAAAATATATCTCTAAATTGATTTGATT
257 TTTATTAAAAAAATCCAATTTTATATTTTTAATTTTTAAAAATATATCTCTAAATTGATTTAATT
18877306 TTCAACTATAATTTGAATAATTTTAAAATTTGAATAAATTTAAAATTATCTAATTTGTAATTAAA
322 TTCAACTATAATTTGAATAATTTTAAAATTTGAATAAATTTAAAATTATCTAATTTGTAATTAAA
* * * * *
18877371 AGAAACTATTTTATTTTTAAAAAAAACTATTATGTGTCATTTAAGATAGTTGTCCACATAAGCGC
387 AGAAACTATCTTATTTTTAAAAAAAACTATTATGTGTCATTTAAGAGAATTGCCCACATAAGCAC
* *
18877436 TCATGTGACAGACTTATTTATGTAATAGTTAT
452 CCATGTGACAAACTTATTTATGTAATAGTTAT
18877468 ATAATATATATATATATATATATAT
1 ATAATATATATATATATATATATAT
18877493 TAGATTTAAC
Statistics
Matches: 468, Mismatches: 34, Indels: 23
0.89 0.06 0.04
Matches are distributed among these distances:
486 31 0.07
487 68 0.15
488 55 0.12
489 71 0.15
490 5 0.01
491 51 0.11
492 73 0.16
493 114 0.24
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (483 bp):
ATAATATATATATATATATATATATATATTAGATTTAAGATGAAATTTTGTTAAATTTACAAAAT
CTTACATAAAGTTACTTAAATTTTTAATATCTTAATAAATTTTTTAAAAATATAATTTTTTTAAA
TCAAGATAAAAAAGATTGGTAAAAAATTTGGATAAACTTAATCCTTGTAACTTTTAAATATGTTT
AAAAGAGTTTGATAATTAAATAATTTTTTAAATAAAATTATATGGTAAATAACTAAAATTATTTA
TTAAAAAAATCCAATTTTATATTTTTAATTTTTAAAAATATATCTCTAAATTGATTTAATTTTCA
ACTATAATTTGAATAATTTTAAAATTTGAATAAATTTAAAATTATCTAATTTGTAATTAAAAGAA
ACTATCTTATTTTTAAAAAAAACTATTATGTGTCATTTAAGAGAATTGCCCACATAAGCACCCAT
GTGACAAACTTATTTATGTAATAGTTAT
Found at i:18877337 original size:17 final size:17
Alignment explanation
Indices: 18877315--18877352 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
18877305 TTTCAACTAT
*
18877315 AATTTGAATAATTTTAA
1 AATTTGAATAAATTTAA
18877332 AATTTGAATAAATTTAA
1 AATTTGAATAAATTTAA
18877349 AATT
1 AATT
18877353 ATCTAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (17 bp):
AATTTGAATAAATTTAA
Found at i:18879751 original size:20 final size:20
Alignment explanation
Indices: 18879718--18879758 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
18879708 CAAATGCAAC
**
18879718 ATACATATGGAAAACATATT
1 ATACATATAAAAAACATATT
*
18879738 ATACATATAAAAAACCTATT
1 ATACATATAAAAAACATATT
18879758 A
1 A
18879759 CCTATCCTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (20 bp):
ATACATATAAAAAACATATT
Found at i:18880054 original size:19 final size:18
Alignment explanation
Indices: 18880005--18880055 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
18879995 ACTTTTCTCT
*
18880005 TTCTT-GTTTTTATTCAA
1 TTCTTAGTTTTGATTCAA
* *
18880022 TTCTTAATTCTGATTCTAA
1 TTCTTAGTTTTGATTC-AA
*
18880041 TTTTTAGTTTTGATT
1 TTCTTAGTTTTGATT
18880056 GTTATTTTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 5 0.19
18 7 0.27
19 14 0.54
ACGTcount: A:0.20, C:0.10, G:0.08, T:0.63
Consensus pattern (18 bp):
TTCTTAGTTTTGATTCAA
Found at i:18883298 original size:32 final size:30
Alignment explanation
Indices: 18883249--18883308 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
18883239 TACTTTTGAG
*
18883249 TTTTTTTTTAGTCTATTTGTTTTTTTTTTAA
1 TTTTTTTTTAGTCTATTT-TTTTCTTTTTAA
* *
18883280 TTTTTTTGTTCGTTTATTTTTTTCTTTTT
1 TTTTTTT-TTAGTCTATTTTTTTCTTTTT
18883309 GCTTTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 16 0.64
32 9 0.36
ACGTcount: A:0.08, C:0.05, G:0.07, T:0.80
Consensus pattern (30 bp):
TTTTTTTTTAGTCTATTTTTTTCTTTTTAA
Found at i:18883326 original size:6 final size:6
Alignment explanation
Indices: 18883317--18883359 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
18883307 TTGCTTTATT
18883317 TTTTGA TTTTGA TTTTGA TTTTGA TTTTG- -TTTGA TTTTG- TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
18883360 TTTATTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.11
5 4 0.11
6 27 0.77
ACGTcount: A:0.12, C:0.00, G:0.16, T:0.72
Consensus pattern (6 bp):
TTTTGA
Found at i:18883326 original size:18 final size:17
Alignment explanation
Indices: 18883291--18883382 Score: 61
Period size: 18 Copynumber: 5.5 Consensus size: 17
18883281 TTTTTTGTTC
**
18883291 GTTTATTTTTTTCTTTTT
1 GTTTA-TTTTTTGATTTT
18883309 GCTTTATTTTTTGATTTT
1 G-TTTATTTTTTGATTTT
*
18883327 GATTT-TGATTTTGATTTT
1 G-TTTAT-TTTTTGATTTT
18883345 GTTTGA--TTTTG-TTTT
1 GTTT-ATTTTTTGATTTT
*
18883360 -TTTATTTTTTTATTTT
1 GTTTATTTTTTGATTTT
18883376 -TTTATTT
1 GTTTATTT
18883383 GATTTGTTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
13 1 0.02
14 3 0.05
15 8 0.13
16 16 0.26
17 4 0.06
18 26 0.42
19 4 0.06
ACGTcount: A:0.11, C:0.02, G:0.10, T:0.77
Consensus pattern (17 bp):
GTTTATTTTTTGATTTT
Found at i:18883351 original size:10 final size:10
Alignment explanation
Indices: 18883324--18883358 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
18883314 ATTTTTTGAT
18883324 TTTGATTTTG
1 TTTGATTTTG
18883334 ATTTTGATTTTG
1 --TTTGATTTTG
18883346 TTTGATTTTG
1 TTTGATTTTG
18883356 TTT
1 TTT
18883359 TTTTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
12 10 0.43
ACGTcount: A:0.11, C:0.00, G:0.17, T:0.71
Consensus pattern (10 bp):
TTTGATTTTG
Found at i:18883367 original size:7 final size:8
Alignment explanation
Indices: 18883351--18883382 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
18883341 TTTTGTTTGA
*
18883351 TTTTGTTT
1 TTTTATTT
18883359 TTTTATTT
1 TTTTATTT
18883367 TTTTATTT
1 TTTTATTT
18883375 TTTTATTT
1 TTTTATTT
18883383 GATTTGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (8 bp):
TTTTATTT
Found at i:18883370 original size:16 final size:17
Alignment explanation
Indices: 18883341--18883393 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
18883331 TTGATTTTGA
*
18883341 TTTTGTTTGATTTTGTTT
1 TTTTATTTG-TTTTGTTT
*
18883359 TTTTATTT-TTTTATTT
1 TTTTATTTGTTTTGTTT
*
18883375 TTTTATTTGATTTGTTT
1 TTTTATTTGTTTTGTTT
18883392 TT
1 TT
18883394 ATTTGAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 15 0.50
17 8 0.27
18 7 0.23
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.81
Consensus pattern (17 bp):
TTTTATTTGTTTTGTTT
Found at i:18883694 original size:51 final size:50
Alignment explanation
Indices: 18883586--18883778 Score: 230
Period size: 51 Copynumber: 3.8 Consensus size: 50
18883576 CTCCTCTAAT
* * *
18883586 CAGAGGCCTTGAAACTTTAAAAATTTTATCTGAAAATGGCTCCCCCTAAA
1 CAGAGGCTTTGAAACTTTAAAAATCTTATCTGAAAATGGCTCCCCTTAAA
* *
18883636 TAGAGGCTTTGAAACTTTAAAACATCTTATTTGAAAATGGCTCCCCTTAAA
1 CAGAGGCTTTGAAACTTTAAAA-ATCTTATCTGAAAATGGCTCCCCTTAAA
* * * *
18883687 CAAAGGCTTTGAAACTTT-AAAATCTTATCTAAAAAT-GAT-TCCTTCCAAA
1 CAGAGGCTTTGAAACTTTAAAAATCTTATCTGAAAATGGCTCCCCTT--AAA
*
18883736 CAGAGGCTTTGAAACTTTAAAAATCTTGATGTTGAAAATGGCT
1 CAGAGGCTTTGAAACTTTAAAAATCTT-AT-CTGAAAATGGCT
18883779 TATGATATTT
Statistics
Matches: 121, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
47 4 0.03
48 2 0.02
49 33 0.27
50 31 0.26
51 43 0.36
52 6 0.05
53 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.32
Consensus pattern (50 bp):
CAGAGGCTTTGAAACTTTAAAAATCTTATCTGAAAATGGCTCCCCTTAAA
Found at i:18883715 original size:100 final size:102
Alignment explanation
Indices: 18883589--18883778 Score: 271
Period size: 100 Copynumber: 1.9 Consensus size: 102
18883579 CTCTAATCAG
* * * *
18883589 AGGCCTTGAAACTTTAAAAATTTTATCTGAAAATGGCTCC-CCCTAAATAGAGGCTTTGAAACTT
1 AGGCCTTGAAACTTTAAAAATCTTATCTAAAAATGACTCCTCCC-AAACAGAGGCTTTGAAACTT
18883653 TAAAACATCTT-AT-TTGAAAATGGCTCCCCTTAAACAA
65 TAAAA-ATCTTGATGTTGAAAATGGCTCCCCTTAAACAA
* * *
18883690 AGGCTTTGAAACTTT-AAAATCTTATCTAAAAATGATTCCTTCCAAACAGAGGCTTTGAAACTTT
1 AGGCCTTGAAACTTTAAAAATCTTATCTAAAAATGACTCCTCCCAAACAGAGGCTTTGAAACTTT
18883754 AAAAATCTTGATGTTGAAAATGGCT
66 AAAAATCTTGATGTTGAAAATGGCT
18883779 TATGATATTT
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
99 5 0.06
100 46 0.58
101 28 0.35
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (102 bp):
AGGCCTTGAAACTTTAAAAATCTTATCTAAAAATGACTCCTCCCAAACAGAGGCTTTGAAACTTT
AAAAATCTTGATGTTGAAAATGGCTCCCCTTAAACAA
Found at i:18883737 original size:49 final size:49
Alignment explanation
Indices: 18883575--18883778 Score: 232
Period size: 50 Copynumber: 4.1 Consensus size: 49
18883565 ACATGTAAAA
* * * *
18883575 GCTCCTCTAATCAGAGGCCTTGAAACTTTAAAAATTTTATCTGAAAATG
1 GCTCCCCTAAACAGAGGCTTTGAAACTTTAAAAATCTTATCTGAAAATG
* *
18883624 GCTCCCCCTAAATAGAGGCTTTGAAACTTTAAAACATCTTATTTGAAAATG
1 GCT-CCCCTAAACAGAGGCTTTGAAACTTTAAAA-ATCTTATCTGAAAATG
* *
18883675 GCTCCCCTTAAACAAAGGCTTTGAAACTTT-AAAATCTTATCTAAAAATG
1 GCTCCCC-TAAACAGAGGCTTTGAAACTTTAAAAATCTTATCTGAAAATG
** *
18883724 ATTCCTTCC-AAACAGAGGCTTTGAAACTTTAAAAATCTTGATGTTGAAAATG
1 GCTCC--CCTAAACAGAGGCTTTGAAACTTTAAAAATCTT-AT-CTGAAAATG
18883776 GCT
1 GCT
18883779 TATGATATTT
Statistics
Matches: 130, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
49 40 0.31
50 41 0.32
51 41 0.32
52 8 0.06
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.32
Consensus pattern (49 bp):
GCTCCCCTAAACAGAGGCTTTGAAACTTTAAAAATCTTATCTGAAAATG
Found at i:18887382 original size:18 final size:19
Alignment explanation
Indices: 18887358--18887402 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
18887348 CTTAACTTAG
18887358 ACCCTAAACT-AACCC-CAA
1 ACCCTAAA-TAAACCCTCAA
*
18887376 GCCCTAAATAAACCCTCAA
1 ACCCTAAATAAACCCTCAA
18887395 ACCCTAAA
1 ACCCTAAA
18887403 ACCAACTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 12 0.52
19 10 0.43
ACGTcount: A:0.44, C:0.40, G:0.02, T:0.13
Consensus pattern (19 bp):
ACCCTAAATAAACCCTCAA
Found at i:18887861 original size:20 final size:21
Alignment explanation
Indices: 18887824--18887866 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
18887814 CTTTTCAAAA
* *
18887824 TAAATAAAAAATGATTTGCTT
1 TAAAAAAAAAATGATTTGATT
*
18887845 TAAAAAAAAAAT-TTTTGATT
1 TAAAAAAAAAATGATTTGATT
18887865 TA
1 TA
18887867 TTGGAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (21 bp):
TAAAAAAAAAATGATTTGATT
Found at i:18889270 original size:16 final size:16
Alignment explanation
Indices: 18889249--18889307 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 16
18889239 TTTAATATTA
* *
18889249 AATATTATTATTTTTT
1 AATATTAATAATTTTT
18889265 AATATTAATAATTTTT
1 AATATTAATAATTTTT
18889281 AATATTTTAATAATTATATT
1 AATA--TTAATAATT-T-TT
18889301 AATATTA
1 AATATTA
18889308 TTTGGAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
16 18 0.49
18 12 0.32
19 1 0.03
20 6 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATATTAATAATTTTT
Found at i:18889433 original size:13 final size:14
Alignment explanation
Indices: 18889412--18889442 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
18889402 ATATAAATAT
18889412 TTTTCAAAAATTAC
1 TTTTCAAAAATTAC
18889426 TTTT-AAAAATTAC
1 TTTTCAAAAATTAC
18889439 TTTT
1 TTTT
18889443 TGCGAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTTCAAAAATTAC
Found at i:18892703 original size:29 final size:29
Alignment explanation
Indices: 18892661--18892719 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
18892651 ATAGTAGAGG
18892661 TGACATAGGTACCATAAGAAACAAATATT
1 TGACATAGGTACCATAAGAAACAAATATT
*
18892690 TGACATAGGTACCATAAGATACAAATATT
1 TGACATAGGTACCATAAGAAACAAATATT
18892719 T
1 T
18892720 TCTTTTGGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.27
Consensus pattern (29 bp):
TGACATAGGTACCATAAGAAACAAATATT
Found at i:18901004 original size:3 final size:3
Alignment explanation
Indices: 18900992--18901021 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
18900982 CTCCACCCAA
18900992 CTC C-C CTC CTC CTC CTC CTC CTC CTC CTC C
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC C
18901022 AACTCCGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (3 bp):
CTC
Found at i:18906552 original size:2 final size:2
Alignment explanation
Indices: 18906545--18906569 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18906535 ATGATTTTTG
18906545 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
18906570 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18907572 original size:16 final size:17
Alignment explanation
Indices: 18907539--18907572 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
18907529 GTAGTTAATA
*
18907539 TCTTTAAGTTTTCTTGT
1 TCTTTAAGTTTTCATGT
18907556 TCTTTAA-TTTTCATGT
1 TCTTTAAGTTTTCATGT
18907572 T
1 T
18907573 TTAAAAGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.15, C:0.12, G:0.09, T:0.65
Consensus pattern (17 bp):
TCTTTAAGTTTTCATGT
Found at i:18910548 original size:19 final size:18
Alignment explanation
Indices: 18910513--18910565 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
18910503 TAAAAATAAT
*
18910513 ATATTTTAATTTATAAGATA
1 ATATTTT-ATTTTTAAG-TA
18910533 ATATTTTATTTTTAAGTA
1 ATATTTTATTTTTAAGTA
*
18910551 A-ATTTAATATTTTAA
1 ATATTTTAT-TTTTAA
18910566 TATGTTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 6 0.20
18 9 0.30
19 8 0.27
20 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (18 bp):
ATATTTTATTTTTAAGTA
Found at i:18924716 original size:21 final size:20
Alignment explanation
Indices: 18924692--18924734 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
18924682 TAAGTTTAAG
*
18924692 TTAACATAAGTTAAATTCTAT
1 TTAACACAAGTTAAATT-TAT
* *
18924713 TTAATACAATTTAAATTTAT
1 TTAACACAAGTTAAATTTAT
18924733 TT
1 TT
18924735 GCTTTGTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (20 bp):
TTAACACAAGTTAAATTTAT
Found at i:18933763 original size:62 final size:61
Alignment explanation
Indices: 18933673--18933795 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 61
18933663 TCTTATAAGT
* *
18933673 AATTAAAAGAATTATTTAAGGCATTTTTTGG-TCAAAAATGCTTTAAATAATATCTTTTAAAA
1 AATTAAAAGAATTATTTAAGG-ATTTTTTGGATCAAAAATGCCTTAAATAA-ATCTCTTAAAA
* * *
18933735 AATTAAAGGAGATTATTTAAGG-TGTTTTTGGATTAATAATGCCTTAAATAAATCTCTTAAA
1 AATTAAAAGA-ATTATTTAAGGAT-TTTTTGGATCAAAAATGCCTTAAATAAATCTCTTAAA
18933796 TAATCATCTG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
61 1 0.02
62 25 0.47
63 27 0.51
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (61 bp):
AATTAAAAGAATTATTTAAGGATTTTTTGGATCAAAAATGCCTTAAATAAATCTCTTAAAA
Found at i:18935674 original size:21 final size:21
Alignment explanation
Indices: 18935632--18935676 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
18935622 TTTAATTTCG
* *
18935632 TAATCAATCGATTAATCGAAT
1 TAATCAATCAATTAATCAAAT
* *
18935653 TAATCAATTAATTAATTAAAT
1 TAATCAATCAATTAATCAAAT
18935674 TAA
1 TAA
18935677 ATTAATTCGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (21 bp):
TAATCAATCAATTAATCAAAT
Found at i:18935735 original size:15 final size:15
Alignment explanation
Indices: 18935715--18935748 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18935705 ATTGAATTAT
18935715 AAAAATTT-TTATTTA
1 AAAAATTTATT-TTTA
18935730 AAAAATTTATTTTTA
1 AAAAATTTATTTTTA
18935745 AAAA
1 AAAA
18935749 TGCTTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 16 0.89
16 2 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAAATTTATTTTTA
Found at i:18940935 original size:2 final size:2
Alignment explanation
Indices: 18940923--18940971 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
18940913 ACCTTTGGCC
* * * *
18940923 TA TA CA TA TA TA TA TA TA TA TT TA TG TG TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18940965 TA TA TA T
1 TA TA TA T
18940972 GTATTGGTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18941767 original size:57 final size:58
Alignment explanation
Indices: 18941693--18942025 Score: 200
Period size: 58 Copynumber: 5.7 Consensus size: 58
18941683 TTTTGTAAAG
** *
18941693 AAAAAATTGATACTTTCAATTTTTTCTTAA-A-TTTTTTTTTGATAACTTTATTTTTAA
1 AAAAAATTGATACTTTCAATTTTTTCAAAATATTTTTTTTTTGA-AACTTTAATTTTAA
* * * * *
18941750 GAAAAATTGGTATTTTCAACTTTTCTCAAAATATTTTTTTTTTGAAATTTTAATTTTAA
1 AAAAAATTGATACTTTCAA-TTTTTTCAAAATATTTTTTTTTTGAAACTTTAATTTTAA
* * * ** *
18941809 AAAAAATTGATACTTTCAACTTTTCCTCAAAATA--CTTTTCTTGATATTTTTTATTTT-A
1 AAAAAATTGATACTTTCAA-TTTT-TTCAAAATATTTTTTTTTTGA-AACTTTAATTTTAA
* * * * * *
18941867 AAGACATTGACACTTCCAACTTTTTCTCAAAATA---TTTTTTTGAAATTTTAATTTCAA
1 AAAAAATTGATACTTTCAA-TTTTT-TCAAAATATTTTTTTTTTGAAACTTTAATTTTAA
** * * * *
18941924 GGAAATTTGATACTTTCAACTTTTTTTCAAAATA--CTTTTTTTGATAATTTTTATTTTTAA
1 AAAAAATTGATACTTTCAA--TTTTTTCAAAATATTTTTTTTTTGA-AA-CTTTAATTTTAA
** * *
18941984 GGAAAATTGGTACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 AAAAAATTGATACTTTCAA-TTTT-TTC-AAAATATTTTTTT
18942026 GAAAAAAAAA
Statistics
Matches: 222, Mismatches: 39, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
56 9 0.04
57 45 0.20
58 59 0.27
59 50 0.23
60 49 0.22
61 6 0.03
63 4 0.02
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.51
Consensus pattern (58 bp):
AAAAAATTGATACTTTCAATTTTTTCAAAATATTTTTTTTTTGAAACTTTAATTTTAA
Found at i:18941815 original size:59 final size:58
Alignment explanation
Indices: 18941694--18942025 Score: 334
Period size: 59 Copynumber: 5.7 Consensus size: 58
18941684 TTTGTAAAGA
* * * *
18941694 AAAAATTGATACTTTCAA-TTTTTTCTTAAAT-TTTTTTTTGATAACTTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCTC-AAAATATTTTTTTTGATAATTTTAATTTTAAG
* * *
18941751 AAAAATTGGTATTTTCAACTTTTCTCAAAATATTTTTTTTTTGA-AATTTTAATTTTAAA
1 AAAAATTGATACTTTCAACTTTTCTCAAAATA--TTTTTTTTGATAATTTTAATTTTAAG
* * * *
18941810 AAAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTCTTGATATTTTTTATTTTAA-
1 AAAAATTGATACTTTCAACTTTT-CTCAAAATATTTTTTTTGATAATTTTAATTTTAAG
* * * * *
18941868 AGACATTGACACTTCCAACTTTTTCTCAAAATA-TTTTTTTGA-AATTTTAATTTCAAG
1 AAAAATTGATACTTTCAAC-TTTTCTCAAAATATTTTTTTTGATAATTTTAATTTTAAG
* * * * *
18941925 GAAATTTGATACTTTCAACTTTTTTTCAAAATACTTTTTTTGATAATTTTTATTTTTAAG
1 AAAAATTGATACTTTCAAC-TTTTCTCAAAATATTTTTTTTGATAA-TTTTAATTTTAAG
* *
18941985 GAAAATTGGTACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 AAAAATTGATACTTTCAACTTTT-CTC-AAAATATTTTTTT
18942026 GAAAAAAAAA
Statistics
Matches: 228, Mismatches: 34, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
56 11 0.05
57 54 0.24
58 47 0.21
59 55 0.24
60 49 0.21
61 12 0.05
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.51
Consensus pattern (58 bp):
AAAAATTGATACTTTCAACTTTTCTCAAAATATTTTTTTTGATAATTTTAATTTTAAG
Found at i:18941838 original size:60 final size:58
Alignment explanation
Indices: 18941693--18942025 Score: 318
Period size: 57 Copynumber: 5.7 Consensus size: 58
18941683 TTTTGTAAAG
* * * *
18941693 AAAAAATTGATACTTTCAA-TTTTTTCTTAAAT-TTTTTTTTGATAACTTTATTTTTAA
1 AAAAAATTGATACTTTCAACTTTTCTC-AAAATATTTTTTTTGATAATTTTAATTTTAA
* * *
18941750 GAAAAATTGGTATTTTCAACTTTTCTCAAAATATTTTTTTTTTGA-AATTTTAATTTTAA
1 AAAAAATTGATACTTTCAACTTTTCTCAAAATA--TTTTTTTTGATAATTTTAATTTTAA
* * * *
18941809 AAAAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTCTTGATATTTTTTATTTT-A
1 AAAAAATTGATACTTTCAACTTTT-CTCAAAATATTTTTTTTGATAATTTTAATTTTAA
* * * * *
18941867 AAGACATTGACACTTCCAACTTTTTCTCAAAATA-TTTTTTTGA-AATTTTAATTTCAA
1 AAAAAATTGATACTTTCAAC-TTTTCTCAAAATATTTTTTTTGATAATTTTAATTTTAA
** * * * *
18941924 GGAAATTTGATACTTTCAACTTTTTTTCAAAATACTTTTTTTGATAATTTTTATTTTTAA
1 AAAAAATTGATACTTTCAAC-TTTTCTCAAAATATTTTTTTTGATAA-TTTTAATTTTAA
** *
18941984 GGAAAATTGGTACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 AAAAAATTGATACTTTCAACTTTT-CTC-AAAATATTTTTTT
18942026 GAAAAAAAAA
Statistics
Matches: 227, Mismatches: 36, Indels: 22
0.80 0.13 0.08
Matches are distributed among these distances:
56 9 0.04
57 55 0.24
58 49 0.22
59 53 0.23
60 49 0.22
61 12 0.05
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.51
Consensus pattern (58 bp):
AAAAAATTGATACTTTCAACTTTTCTCAAAATATTTTTTTTGATAATTTTAATTTTAA
Found at i:18941936 original size:115 final size:117
Alignment explanation
Indices: 18941693--18942029 Score: 364
Period size: 115 Copynumber: 2.9 Consensus size: 117
18941683 TTTTGTAAAG
* * * * * *
18941693 AAAAAATTGATACTTTCAATTTTTTCT-TAAAT-TTTTTTTTGATAA-CTTTATTTTT-AAGAAA
1 AAAAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTCTTGATAATTTTTATTTTTAAAG-AA
** * * *
18941754 AATTGGTATTTTCAAC-TTTTCTCAAAATATTTTTTTTTTGAAATTTTAATTTTAA
65 AATTGACACTTCCAACTTTTTCTCAAAATA---TTTTTTTGAAATTTTAATTTCAA
* *
18941809 AAAAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTCTTGATATTTTTTA-TTTTAAAG-AC
1 AAAAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTCTTGATAATTTTTATTTTTAAAGAAA
18941872 ATTGACACTTCCAACTTTTTCTCAAAATATTTTTTTGAAATTTTAATTTCAA
66 ATTGACACTTCCAACTTTTTCTCAAAATATTTTTTTGAAATTTTAATTTCAA
** * ** * *
18941924 GGAAATTTGATACTTTCAACTTTTTTTCAAAATACTTTTTTTGATAATTTTTATTTTTAAGGAAA
1 AAAAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTCTTGATAATTTTTATTTTTAAAGAAA
** * *
18941989 ATTGGTACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAA
66 ATTGACACTTCCAACTTTTTCTC-AAAATATTTTTTTGAAA
18942030 AAAAAAATTT
Statistics
Matches: 187, Mismatches: 26, Indels: 14
0.82 0.11 0.06
Matches are distributed among these distances:
115 68 0.36
116 32 0.17
117 36 0.19
118 44 0.24
119 7 0.04
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (117 bp):
AAAAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTCTTGATAATTTTTATTTTTAAAGAAA
ATTGACACTTCCAACTTTTTCTCAAAATATTTTTTTGAAATTTTAATTTCAA
Found at i:18942003 original size:175 final size:173
Alignment explanation
Indices: 18941698--18942015 Score: 415
Period size: 175 Copynumber: 1.8 Consensus size: 173
18941688 TAAAGAAAAA
* * * * * * * * *
18941698 ATTGATACTTTCAATTTTTTCTTAAATTTTTTTTTGATAACTTTATTTTTAAGAAAAATTGGTAT
1 ATTGACACTTCCAACTTTTTCTAAAATATTTTTTTGATAACTTTAATTTCAAGAAAAATTGATAC
*
18941763 TTTCAACTTTTCTCAAAATATTTTTTTTTTGAAATTTTAATTTTAAAAAAAATTGATACTTTCAA
66 TTTCAACTTTTCTCAAAATA-TCTTTTTTTGAAATTTTAATTTTAAAAAAAATTGATACTTTCAA
18941828 CTTTTCCTCAAAATACTTTTCTTGATATTTTTTATTTTAAAGAC
130 CTTTTCCTCAAAATACTTTTCTTGATATTTTTTATTTTAAAGAC
* * *
18941872 ATTGACACTTCCAACTTTTTCTCAAAATATTTTTTTGA-AATTTTAATTTCAAGGAAATTTGATA
1 ATTGACACTTCCAACTTTTTCT-AAAATATTTTTTTGATAACTTTAATTTCAAGAAAAATTGATA
* * ** *
18941936 CTTTCAACTTTTTTTCAAAATA-CTTTTTTTGATAATTTTTATTTTTAAGGAAAATTGGTACTTT
65 CTTTCAAC-TTTTCTCAAAATATCTTTTTTTGA-AA-TTTTAATTTTAAAAAAAATTGATACTTT
18942000 CAACTTTTCCTCAAAA
127 CAACTTTTCCTCAAAA
18942016 ATATTTTTTT
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
173 9 0.07
174 48 0.39
175 65 0.53
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (173 bp):
ATTGACACTTCCAACTTTTTCTAAAATATTTTTTTGATAACTTTAATTTCAAGAAAAATTGATAC
TTTCAACTTTTCTCAAAATATCTTTTTTTGAAATTTTAATTTTAAAAAAAATTGATACTTTCAAC
TTTTCCTCAAAATACTTTTCTTGATATTTTTTATTTTAAAGAC
Found at i:18942026 original size:60 final size:57
Alignment explanation
Indices: 18941695--18942027 Score: 332
Period size: 60 Copynumber: 5.7 Consensus size: 57
18941685 TTGTAAAGAA
* * * * * *
18941695 AAAATTGATACTTTCAA-TTTTTTCTTAAATTTTTTTTTGATAACTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCTC-AAAATATTTTTTTGATAATTTTAATTTTAAGG
* * **
18941752 AAAATTGGTATTTTCAACTTTTCTCAAAATATTTTTTTTTTGA-AATTTTAATTTTAAAA
1 AAAATTGATACTTTCAACTTTTCTCAAAATA---TTTTTTTGATAATTTTAATTTTAAGG
* * * *
18941811 AAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTCTTGATATTTTTTATTTTAAAG
1 AAAATTGATACTTTCAACTTTT-CTCAAAATA-TTTTTTTGATAATTTTAATTTTAAGG
* * * *
18941870 -ACATTGACACTTCCAACTTTTTCTCAAAATATTTTTTTGA-AATTTTAATTTCAAGG
1 AAAATTGATACTTTCAAC-TTTTCTCAAAATATTTTTTTGATAATTTTAATTTTAAGG
* * *
18941926 AAATTTGATACTTTCAACTTTTTTTCAAAATACTTTTTTTGATAATTTTTATTTTTAAGG
1 AAAATTGATACTTTCAAC-TTTTCTCAAAATA-TTTTTTTGATAA-TTTTAATTTTAAGG
*
18941986 AAAATTGGTACTTTCAACTTTTCCTCAAAAATATTTTTTTGA
1 AAAATTGATACTTTCAACTTTT-CTC-AAAATATTTTTTTGA
18942028 AAAAAAAAAT
Statistics
Matches: 230, Mismatches: 33, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
56 12 0.05
57 53 0.23
58 46 0.20
59 56 0.24
60 57 0.25
61 6 0.03
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCTCAAAATATTTTTTTGATAATTTTAATTTTAAGG
Found at i:18942037 original size:20 final size:20
Alignment explanation
Indices: 18942012--18942051 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
18942002 ACTTTTCCTC
*
18942012 AAAAATATTT-TTTT-GAAA
1 AAAAAAATTTATTTTAGAAA
18942030 AAAAAAATTTATTTTAGAAA
1 AAAAAAATTTATTTTAGAAA
18942050 AA
1 AA
18942052 TCATTGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAAAAATTTATTTTAGAAA
Found at i:18942423 original size:17 final size:18
Alignment explanation
Indices: 18942397--18942430 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18942387 ATGCCTTTTT
18942397 CTCTTCTCTCTC-TTCTC
1 CTCTTCTCTCTCATTCTC
*
18942414 CTCTTTTCTCTCATTCT
1 CTCTTCTCTCTCATTCT
18942431 TTTTCTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.03, C:0.41, G:0.00, T:0.56
Consensus pattern (18 bp):
CTCTTCTCTCTCATTCTC
Found at i:18942885 original size:6 final size:6
Alignment explanation
Indices: 18942864--18942907 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
18942854 AATTTAGAAC
* *
18942864 AAATAA AAA-AA ATAATAA TAATGA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA A-AATAA AAATAA AAATAA AAATAA AAATAA AA
18942908 TGGGCCCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 3 0.09
6 27 0.84
7 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:18942891 original size:24 final size:23
Alignment explanation
Indices: 18942864--18942909 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
18942854 AATTTAGAAC
18942864 AAATAAAAA-AAATAATAATAATGA
1 AAATAAAAATAAA-AATAA-AATGA
18942888 AAATAAAAATAAAAATAAAATG
1 AAATAAAAATAAAAATAAAATG
18942910 GGCCCATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.19
24 14 0.67
25 3 0.14
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (23 bp):
AAATAAAAATAAAAATAAAATGA
Found at i:18943257 original size:86 final size:87
Alignment explanation
Indices: 18943092--18943271 Score: 233
Period size: 86 Copynumber: 2.1 Consensus size: 87
18943082 TATTTTTTTT
* *
18943092 AGTAAATAAAGCTCCTCGAAACAGAGGCGAAACAACTTTGAAAAAATAAATGGCTCCTCTGAATA
1 AGTAAATAAAGCTCCTCGAAACAGAGGCGAAACAACTTTGAAAAAATAAATGGCTCCTCTAAACA
*
18943157 GAGGCAATAGAACTTTGAAAAA
66 GAGGCAATAAAACTTTGAAAAA
* ***
18943179 A-TAAATAAAGCTCCT-GTAATCAGAGGTTTAACAACTTTG-AAAAATAAAAT-GCTCCTCTAAA
1 AGTAAATAAAGCTCCTCG-AAACAGAGGCGAAACAACTTTGAAAAAAT-AAATGGCTCCTCTAAA
*
18943240 CAGAGGCACTACAAACTTTGAAAAA
64 CAGAGGCAATA-AAACTTTGAAAAA
18943265 AGTAAAT
1 AGTAAAT
18943272 TGCTCTTCTA
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
85 26 0.32
86 49 0.60
87 6 0.07
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (87 bp):
AGTAAATAAAGCTCCTCGAAACAGAGGCGAAACAACTTTGAAAAAATAAATGGCTCCTCTAAACA
GAGGCAATAAAACTTTGAAAAA
Found at i:18943282 original size:44 final size:42
Alignment explanation
Indices: 18943095--18943287 Score: 171
Period size: 42 Copynumber: 4.6 Consensus size: 42
18943085 TTTTTTTAGT
* *
18943095 AAATAAA--GCTCCTCGAAACAGAGGCGAA-ACAACTTTGAAA
1 AAATAAATTGCTCCTCTAAACAGAGGC-AATAAAACTTTGAAA
* * * *
18943135 AAATAAATGGCTCCTCTGAATAGAGGCAATAGAACTTTGAAA
1 AAATAAATTGCTCCTCTAAACAGAGGCAATAAAACTTTGAAA
* * * **
18943177 AAATAAATAAAGCTCCTGTAATCAGAGG-TTTAACAACTTTG-AA
1 AAATAAAT--TGCTCCTCTAAACAGAGGCAATAA-AACTTTGAAA
* *
18943220 AAATAAAATGCTCCTCTAAACAGAGGCACTACAAACTTTGAAA
1 AAATAAATTGCTCCTCTAAACAGAGGCAATA-AAACTTTGAAA
*
18943263 AAAGTAAATTGCTCTTCTAAACAGA
1 AAA-TAAATTGCTCCTCTAAACAGA
18943288 AGTAGTTATA
Statistics
Matches: 123, Mismatches: 20, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
40 7 0.06
41 17 0.14
42 43 0.35
43 17 0.14
44 39 0.32
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (42 bp):
AAATAAATTGCTCCTCTAAACAGAGGCAATAAAACTTTGAAA
Found at i:18943301 original size:44 final size:43
Alignment explanation
Indices: 18943125--18943317 Score: 130
Period size: 44 Copynumber: 4.5 Consensus size: 43
18943115 GAGGCGAAAC
* * * * *
18943125 AACTTTGAAAAAAT-AAATGGCTCCTCTGAATAGAGGCAATA-G
1 AACTTTGAAAAAATAAAAT-GCTCCTCTAAACAGAAGCACTACA
* * * ***
18943167 AACTTTGAAAAAATAAATAAAGCTCCTGTAATCAG-AGGTTTA-A
1 AACTTTGAAAAAAT-AA-AATGCTCCTCTAAACAGAAGCACTACA
*
18943210 CAACTTTG-AAAAATAAAATGCTCCTCTAAACAGAGGCACTACA
1 -AACTTTGAAAAAATAAAATGCTCCTCTAAACAGAAGCACTACA
* * * * *
18943253 AACTTTGAAAAAAGTAAATTGCTCTTCTAAACAGAAGTAGTTA-T
1 AACTTTGAAAAAA-TAAAATGCTCCTCTAAACAGAAGCA-CTACA
18943297 AACTTTG-AAAAATAAAATGCT
1 AACTTTGAAAAAATAAAATGCT
18943318 TATTGACAAT
Statistics
Matches: 118, Mismatches: 24, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
41 14 0.12
42 34 0.29
43 20 0.17
44 46 0.39
45 4 0.03
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (43 bp):
AACTTTGAAAAAATAAAATGCTCCTCTAAACAGAAGCACTACA
Found at i:18943301 original size:86 final size:84
Alignment explanation
Indices: 18943094--18943317 Score: 220
Period size: 86 Copynumber: 2.6 Consensus size: 84
18943084 TTTTTTTTAG
* * *** * *
18943094 TAAATAAAGCTCCTCGAAACAGAGGCGAAACAACTTTGAAAAA-ATAAATGGCTCCTCTGAATAG
1 TAAAT-AAGCTCCTCTAAACAGAAGTTTAACAACTTTGAAAAATA-AAAT-GCTCCTCTAAACAG
*
18943158 AGGCAATAGAACTTTGAAAAAA
63 AGGCAATAAAACTTTGAAAAAA
* * *
18943180 TAAATAAAGCTCCTGTAATCAGAGGTTTAACAACTTTGAAAAATAAAATGCTCCTCTAAACAGAG
1 TAAAT-AAGCTCCTCTAAACAGAAGTTTAACAACTTTGAAAAATAAAATGCTCCTCTAAACAGAG
*
18943245 GCACTACAAACTTTGAAAAAA
65 GCAATA-AAACTTTGAAAAAA
* * *
18943266 GTAAAT-TGCTCTTCTAAACAGAAGTAGTT-ATAACTTTGAAAAATAAAATGCT
1 -TAAATAAGCTCCTCTAAACAGAAGT--TTAACAACTTTGAAAAATAAAATGCT
18943318 TATTGACAAT
Statistics
Matches: 117, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
85 33 0.28
86 76 0.65
87 8 0.07
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.25
Consensus pattern (84 bp):
TAAATAAGCTCCTCTAAACAGAAGTTTAACAACTTTGAAAAATAAAATGCTCCTCTAAACAGAGG
CAATAAAACTTTGAAAAAA
Found at i:18943513 original size:23 final size:22
Alignment explanation
Indices: 18943487--18943536 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
18943477 GTTTCATAAG
18943487 GATTCAAATTTGCAAGATCT-CAA
1 GATTCAAATTTGCAA-AT-TGCAA
**
18943510 GATTCGCATTTGCAAATTGCAA
1 GATTCAAATTTGCAAATTGCAA
18943532 GATTC
1 GATTC
18943537 GCATCCAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 10 0.42
23 13 0.54
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (22 bp):
GATTCAAATTTGCAAATTGCAA
Found at i:18943535 original size:22 final size:23
Alignment explanation
Indices: 18943494--18943540 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
18943484 AAGGATTCAA
18943494 ATTTGCAAGATCTCAAGATTCGC
1 ATTTGCAAGATCTCAAGATTCGC
18943517 ATTTGCAA-AT-TGCAAGATTCGC
1 ATTTGCAAGATCT-CAAGATTCGC
18943539 AT
1 AT
18943541 CCAACATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 1 0.04
22 14 0.61
23 8 0.35
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (23 bp):
ATTTGCAAGATCTCAAGATTCGC
Found at i:18943633 original size:21 final size:21
Alignment explanation
Indices: 18943607--18943738 Score: 89
Period size: 21 Copynumber: 6.5 Consensus size: 21
18943597 GTTTCACACC
18943607 TCAAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
*
18943628 TCAAAGATTCTCATTTG-AGT
1 TCAAAGATTCTCATTTGAAAT
* *
18943648 TCAAATATTCACATTTG--A-
1 TCAAAGATTCTCATTTGAAAT
* * * **
18943666 T--AA-ATTTTGGATTTCATACC
1 TCAAAGATTCT-CATTTGA-AAT
*
18943686 TCAAAGATTCTTATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
*
18943707 TCAAAGATTCTCATTTGAGAAC
1 TCAAAGATTCTCATTTGA-AAT
*
18943729 TCAAAAATTC
1 TCAAAGATTC
18943739 AAAAGATTCC
Statistics
Matches: 85, Mismatches: 17, Indels: 17
0.71 0.14 0.14
Matches are distributed among these distances:
15 3 0.04
16 6 0.07
18 1 0.01
20 18 0.21
21 35 0.41
22 18 0.21
23 4 0.05
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:18943681 original size:79 final size:79
Alignment explanation
Indices: 18943575--18943725 Score: 257
Period size: 79 Copynumber: 1.9 Consensus size: 79
18943565 AATTTTGGAG
*
18943575 ATTCACATCCGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAGATTCTC
1 ATTCACATCCGATAAATTTTGGATTTCACACCTCAAAGATTCTCATTTGAAATTCAAAGATTCTC
18943640 ATTTGAGTTCAAAT
66 ATTTGAGTTCAAAT
** * *
18943654 ATTCACATTTGATAAATTTTGGATTTCATACCTCAAAGATTCTTATTTGAAATTCAAAGATTCTC
1 ATTCACATCCGATAAATTTTGGATTTCACACCTCAAAGATTCTCATTTGAAATTCAAAGATTCTC
18943719 ATTTGAG
66 ATTTGAG
18943726 AACTCAAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (79 bp):
ATTCACATCCGATAAATTTTGGATTTCACACCTCAAAGATTCTCATTTGAAATTCAAAGATTCTC
ATTTGAGTTCAAAT
Found at i:18944878 original size:8 final size:8
Alignment explanation
Indices: 18944849--18944914 Score: 69
Period size: 9 Copynumber: 7.5 Consensus size: 8
18944839 TGAGTATTCC
18944849 TTTTCTCTT
1 TTTTCT-TT
*
18944858 ATTTCTATT
1 TTTTCT-TT
18944867 TTTTCCTTT
1 TTTT-CTTT
18944876 TTTTCTTAT
1 TTTTCTT-T
18944885 TTTTCTTT
1 TTTTCTTT
18944893 TTTTCTTATT
1 TTTTC-T-TT
18944903 TTTTCTTT
1 TTTTCTTT
18944911 TTTT
1 TTTT
18944915 ACACATTATT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
8 15 0.30
9 26 0.52
10 9 0.18
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTCTTT
Found at i:18944887 original size:17 final size:18
Alignment explanation
Indices: 18944849--18944914 Score: 91
Period size: 18 Copynumber: 3.7 Consensus size: 18
18944839 TGAGTATTCC
*
18944849 TTTTCTCTTATTTC-TATT
1 TTTTCT-TTTTTTCTTATT
18944867 TTTTCCTTTTTTTCTTA-T
1 TTTT-CTTTTTTTCTTATT
18944885 TTTTCTTTTTTTCTTATT
1 TTTTCTTTTTTTCTTATT
18944903 TTTTCTTTTTTT
1 TTTTCTTTTTTT
18944915 ACACATTATT
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
17 12 0.27
18 28 0.64
19 4 0.09
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTCTTTTTTTCTTATT
Found at i:18950930 original size:5 final size:5
Alignment explanation
Indices: 18950922--18950947 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18950912 AAAAGAAAAG
18950922 AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA A
18950948 GAGGAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:18951090 original size:59 final size:59
Alignment explanation
Indices: 18951021--18951241 Score: 250
Period size: 60 Copynumber: 3.7 Consensus size: 59
18951011 GCTTTTGTAC
* *
18951021 AAGAAAAATTGATACTTTCGACTTTTTCT-TAAATATTTTTCTTGATAATCTTTATTTTT
1 AAGAAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTCTTGATAAT-TTTATTTTT
* * * * * *
18951080 AAGGAAAATTGGTACTTCCAACTTTTTCTCAAAATATTTTTTTTTTGA-AATTTTAATTTC
1 AAGAAAAATTGATACTTTCAACTTTTTCTCAAAATA--TTTTTCTTGATAATTTTATTTTT
*
18951140 AAGAAAAATTGATACTTTCAACTTTTTCTCAAAATACTTTTCTTGATAATTTTTATTTTT
1 AAGAAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTCTTGATAA-TTTTATTTTT
* * * *
18951200 AAGAAAAATT-AGTACTTCCAAATTTTCCTTAAAAATATTTTT
1 AAGAAAAATTGA-TACTTTCAACTTTTTC-TCAAAATATTTTT
18951242 TAAAAATTTT
Statistics
Matches: 135, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
58 8 0.06
59 28 0.21
60 76 0.56
61 14 0.10
62 9 0.07
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.48
Consensus pattern (59 bp):
AAGAAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTCTTGATAATTTTATTTTT
Done.