Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 149 of 153
Found at i:46623657 original size:33 final size:34
Alignment explanation
Indices: 46623606--46623680 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 34
46623596 AGATTTAAAC
*
46623606 AAATTAATTACTAACACTTATTTAAGGTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
46623640 AAATTAATT-CTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
46623673 AATTTAAT
1 AAATTAAT
46623681 AAACTAACTC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 29 0.76
34 9 0.24
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:46625280 original size:18 final size:17
Alignment explanation
Indices: 46625257--46625295 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
46625247 CTCTTTTTGC
46625257 TCTTTTTCATTCTCTTTT
1 TCTTTTTCATT-TCTTTT
*
46625275 TCTTTTTTGATTTCTTTT
1 TC-TTTTTCATTTCTTTT
46625293 TCT
1 TCT
46625296 GTCTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 1 0.05
18 10 0.53
19 8 0.42
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (17 bp):
TCTTTTTCATTTCTTTT
Found at i:46644340 original size:17 final size:17
Alignment explanation
Indices: 46644318--46644350 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
46644308 TGGAGGAAAT
46644318 AGACGTTTTTGGGGCAA
1 AGACGTTTTTGGGGCAA
46644335 AGACGTTTTTGGGGCA
1 AGACGTTTTTGGGGCA
46644351 GGGTCGTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.36, T:0.30
Consensus pattern (17 bp):
AGACGTTTTTGGGGCAA
Found at i:46646093 original size:30 final size:28
Alignment explanation
Indices: 46646059--46646115 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
46646049 TCACTCAACA
*
46646059 AAAATCTGAATTCAATGTAATGTCCTCAAT
1 AAAATCTCAATTCAATGT-AT-TCCTCAAT
*
46646089 AAAATCTCATTTCAATGTATTCCTCAA
1 AAAATCTCAATTCAATGTATTCCTCAA
46646116 GTGTAGTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.28
29 2 0.08
30 16 0.64
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (28 bp):
AAAATCTCAATTCAATGTATTCCTCAAT
Found at i:46650179 original size:18 final size:18
Alignment explanation
Indices: 46650158--46650196 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
46650148 GATTGAGAGT
* *
46650158 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
46650176 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
46650194 GAA
1 GAA
46650197 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:46651939 original size:33 final size:34
Alignment explanation
Indices: 46651902--46651973 Score: 101
Period size: 33 Copynumber: 2.1 Consensus size: 34
46651892 GAGTTAGTCT
*
46651902 ATTAAATCTAGTTCAGCTCAAATAAGTGTTAG-A
1 ATTAAATCTAGTTCAACTCAAATAAGTGTTAGTA
* * *
46651935 ATTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
1 ATTAAATCTAGTTCAACTCAAATAAGTGTTAGTA
46651969 ATTAA
1 ATTAA
46651974 TTTGTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 28 0.82
34 6 0.18
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.39
Consensus pattern (34 bp):
ATTAAATCTAGTTCAACTCAAATAAGTGTTAGTA
Found at i:46654103 original size:18 final size:17
Alignment explanation
Indices: 46654080--46654118 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
46654070 CTCTTTTTGC
46654080 TCTTTTTCATTCTCTTTT
1 TCTTTTTCATT-TCTTTT
*
46654098 TCTTTTTTGATTTCTTTT
1 TC-TTTTTCATTTCTTTT
46654116 TCT
1 TCT
46654119 GTCTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 1 0.05
18 10 0.53
19 8 0.42
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (17 bp):
TCTTTTTCATTTCTTTT
Found at i:46663174 original size:16 final size:17
Alignment explanation
Indices: 46663142--46663174 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
46663132 CCATGTCCTC
46663142 CAACTCAACATAATGTTG
1 CAACTCAACA-AATGTTG
46663160 CAACTCAAC-AATGTT
1 CAACTCAACAAATGTT
46663175 AGAAATTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.27
Consensus pattern (17 bp):
CAACTCAACAAATGTTG
Found at i:46665400 original size:29 final size:29
Alignment explanation
Indices: 46665358--46665458 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
46665348 CATGAAATTG
46665358 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
46665387 GCACTAAGTGTGCGGGTTCAAGTTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
* * *
46665416 GCACTAAGTGTGCGAGTTC-GATTATATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
46665444 ACACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
46665459 ACTTACTATA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 19 0.29
29 46 0.71
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTCAAATTGTATA
Found at i:46667698 original size:28 final size:28
Alignment explanation
Indices: 46667666--46667720 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
46667656 TCGGCTAGAC
* *
46667666 TTAGACATCATTAA-AGCTTGTAATAAAA
1 TTAGACA-CATTAATAACATGTAATAAAA
46667694 TTAGACACATTAATAACATGTAATAAA
1 TTAGACACATTAATAACATGTAATAAA
46667721 TTAAAACACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (28 bp):
TTAGACACATTAATAACATGTAATAAAA
Found at i:46669709 original size:42 final size:42
Alignment explanation
Indices: 46669662--46669745 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
46669652 TAATATGTGT
46669662 GAAATGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
1 GAAATGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
46669704 GAAATGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
1 GAAATGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
46669746 CTTTGAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (42 bp):
GAAATGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
Found at i:46671835 original size:118 final size:118
Alignment explanation
Indices: 46671624--46671856 Score: 430
Period size: 118 Copynumber: 2.0 Consensus size: 118
46671614 CAAGCTCAAG
*
46671624 AACGTGATGGGCTCAAATTACCACAAGGCCCAATAACGAGGTCAAAGGCTAGGCAAATGCGTATG
1 AACGTGATGGGCTCAAATTACCACAAGGCCCAATAACGAGGTCAAAGGCCAGGCAAATGCGTATG
* *
46671689 AAACTAAATGGAACCGTTCAAGAATTCATTAGCGAGGCCTTAGATGCGTACAT
66 AAACTAAATGGAACCATTCAAGAATTCATTAGCAAGGCCTTAGATGCGTACAT
46671742 AACGTGATGGGCTCAAATTACCACAAGGCCCAATAACGAGGTCAAAGGCCAGGCAAATGCGTATG
1 AACGTGATGGGCTCAAATTACCACAAGGCCCAATAACGAGGTCAAAGGCCAGGCAAATGCGTATG
*
46671807 AAACTAAATGGAACCATTCAAGACTTCATTAGCAAGGCCTTAGATGCGTA
66 AAACTAAATGGAACCATTCAAGAATTCATTAGCAAGGCCTTAGATGCGTA
46671857 TACAAAGGAA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 111 1.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (118 bp):
AACGTGATGGGCTCAAATTACCACAAGGCCCAATAACGAGGTCAAAGGCCAGGCAAATGCGTATG
AAACTAAATGGAACCATTCAAGAATTCATTAGCAAGGCCTTAGATGCGTACAT
Found at i:46679388 original size:68 final size:68
Alignment explanation
Indices: 46679279--46679414 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
46679269 ATTCCAGATT
46679279 CATTCGATCATGTTCATGCCTTAAAACATAGGCTTTATAACATGTTGCATGCAGATATGTGACAT
1 CATTCGATCATGTTCATGCCTTAAAACATAGGCTTTATAACATGTTGCATGCAGATATGTGACAT
46679344 ATC
66 ATC
*
46679347 CATTCGATCATGTTCATGCCTTAAAACATAGGCTTTATAACATGTTGCATGCTGATATGTGACAT
1 CATTCGATCATGTTCATGCCTTAAAACATAGGCTTTATAACATGTTGCATGCAGATATGTGACAT
46679412 ATC
66 ATC
46679415 TCGGTTATAT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (68 bp):
CATTCGATCATGTTCATGCCTTAAAACATAGGCTTTATAACATGTTGCATGCAGATATGTGACAT
ATC
Found at i:46680007 original size:15 final size:15
Alignment explanation
Indices: 46679987--46680022 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
46679977 AGAACAAGAG
46679987 TTCAAATGTTTGAAT
1 TTCAAATGTTTGAAT
46680002 TTCAAATGTTTGAAT
1 TTCAAATGTTTGAAT
46680017 TTCAAA
1 TTCAAA
46680023 CATTTCACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.44
Consensus pattern (15 bp):
TTCAAATGTTTGAAT
Found at i:46685883 original size:14 final size:15
Alignment explanation
Indices: 46685864--46685893 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
46685854 TAAATCCAAT
46685864 AGCCATAATT-ATCC
1 AGCCATAATTCATCC
46685878 AGCCATAATTCATCC
1 AGCCATAATTCATCC
46685893 A
1 A
46685894 CACATCTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.37, C:0.30, G:0.07, T:0.27
Consensus pattern (15 bp):
AGCCATAATTCATCC
Found at i:46686642 original size:38 final size:38
Alignment explanation
Indices: 46686600--46686739 Score: 176
Period size: 37 Copynumber: 4.0 Consensus size: 38
46686590 TTCTTTTCTG
46686600 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
1 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
* *
46686638 CCCTCCGTTTCTTTTCTTTTC-TTT-T--C----TG--
1 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
46686666 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
1 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
*
46686704 CCCTTTGTTT-TTTTCTTTTCTTTTCTGCCGATTTGC
1 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGC
46686740 CAGTTTTTGC
Statistics
Matches: 87, Mismatches: 5, Indels: 21
0.77 0.04 0.19
Matches are distributed among these distances:
28 19 0.22
29 3 0.03
30 3 0.03
32 1 0.01
34 1 0.01
36 3 0.03
37 29 0.33
38 28 0.32
ACGTcount: A:0.04, C:0.27, G:0.10, T:0.59
Consensus pattern (38 bp):
CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
Found at i:46686669 original size:28 final size:28
Alignment explanation
Indices: 46686638--46686695 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
46686628 CCGATTTGCT
*
46686638 CCCTCCGTTTCTTTTCTTTTCTTTTCTG
1 CCCTCCGTTTATTTTCTTTTCTTTTCTG
*
46686666 CCCTCTGTTTATTTTCTTTTCTTTTCTG
1 CCCTCCGTTTATTTTCTTTTCTTTTCTG
46686694 CC
1 CC
46686696 GATTTGCTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.02, C:0.31, G:0.07, T:0.60
Consensus pattern (28 bp):
CCCTCCGTTTATTTTCTTTTCTTTTCTG
Found at i:46686690 original size:66 final size:65
Alignment explanation
Indices: 46686563--46686732 Score: 276
Period size: 66 Copynumber: 2.7 Consensus size: 65
46686553 CCTTCTAGCC
*
46686563 TCTGCCGATTTGCTCCCTCC----ATTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTT
1 TCTGCCGATTTGCTCCCTCCGTTTTTTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTT
46686624 TCTGCCGATTTGCTCCCTCCGTTTCTTTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTT
1 TCTGCCGATTTGCTCCCTCCGTTT-TTTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTT
46686689 T
65 T
**
46686690 TCTGCCGATTTGCTCCCTTTGTTTTTTTCTTTTCTTTTCTGCC
1 TCTGCCGATTTGCTCCCTCCGTTTTTTTCTTTTCTTTTCTGCC
46686733 GATTTGCCAG
Statistics
Matches: 101, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
61 20 0.20
65 19 0.19
66 62 0.61
ACGTcount: A:0.04, C:0.29, G:0.09, T:0.58
Consensus pattern (65 bp):
TCTGCCGATTTGCTCCCTCCGTTTTTTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTT
Found at i:46687301 original size:7 final size:7
Alignment explanation
Indices: 46687286--46687319 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
46687276 ATTGTTGATA
46687286 CTGTTGT
1 CTGTTGT
*
46687293 CTATTGT
1 CTGTTGT
46687300 CTGTTGT
1 CTGTTGT
46687307 CTGTTGT
1 CTGTTGT
*
46687314 TTGTTG
1 CTGTTG
46687320 ATGTGTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.03, C:0.12, G:0.26, T:0.59
Consensus pattern (7 bp):
CTGTTGT
Found at i:46694630 original size:91 final size:91
Alignment explanation
Indices: 46694483--46694690 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
46694473 TTGATTTTAG
* *
46694483 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
46694548 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
46694575 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
46694640 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
46694666 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
46694691 GTTATAATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:46694659 original size:26 final size:28
Alignment explanation
Indices: 46694605--46694665 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
46694595 TATTATCAAG
* *
46694605 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
46694633 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
46694659 AATTATA
1 AATTATA
46694666 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:46694665 original size:44 final size:43
Alignment explanation
Indices: 46694523--46694665 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
46694513 GAATTTTATG
* *
46694523 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
46694567 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
46694614 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
46694658 AAATTATA
1 AAATTATA
46694666 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:46694785 original size:59 final size:57
Alignment explanation
Indices: 46694717--46694905 Score: 145
Period size: 59 Copynumber: 3.2 Consensus size: 57
46694707 ATTTTATTAA
46694717 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTTTCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTTT-TTTTATAGT
* * ** * *
46694776 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TTAAGAATTTTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTAA-ATTTTTTTTATAGT
* * *
46694837 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTT-T-TTTTATAGT
46694896 ATCATATATT
1 ATCATATATT
46694906 ATGATTTGAG
Statistics
Matches: 99, Mismatches: 16, Indels: 30
0.68 0.11 0.21
Matches are distributed among these distances:
54 13 0.13
55 6 0.06
56 7 0.07
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 7 0.07
65 10 0.10
66 11 0.11
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTTTTTTTATAGT
Found at i:46694830 original size:66 final size:63
Alignment explanation
Indices: 46694744--46694951 Score: 175
Period size: 66 Copynumber: 3.3 Consensus size: 63
46694734 AAATATATTT
*
46694744 AATATTAATTATTTCAAATTTTCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTA-TT-AAAATTT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
46694809 G
63 G
* * * * **
46694810 AATATTAATTATTAAGAATTTTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTAA-AATTTTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* * *
46694864 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TAAAATT-T-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
46694929 G
63 G
*
46694930 AATATTGATTATTAAGAATTTT
1 AATATTAATTATTAA-AATTTT
46694952 ATTAAATTAT
Statistics
Matches: 107, Mismatches: 20, Indels: 32
0.67 0.13 0.20
Matches are distributed among these distances:
54 14 0.13
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 8 0.07
65 13 0.12
66 24 0.22
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTAAAATTTTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:46694830 original size:120 final size:120
Alignment explanation
Indices: 46694706--46694998 Score: 509
Period size: 120 Copynumber: 2.4 Consensus size: 120
46694696 AATTATTTTA
* * * *
46694706 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
46694769 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
46694826 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
46694891 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
46694946 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
46694999 TAAATATGAT
Statistics
Matches: 166, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
119 5 0.03
120 159 0.96
121 2 0.01
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:46694866 original size:15 final size:15
Alignment explanation
Indices: 46694831--46694882 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
46694821 TTAAGAATTT
*
46694831 TATTAAATTAT-ATA
1 TATTTAATTATAATA
46694845 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
46694859 TATTTAATAATAAT-
1 TATTTAATTATAATA
46694873 TATGTTAATT
1 TAT-TTAATT
46694883 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:46694964 original size:61 final size:61
Alignment explanation
Indices: 46694779--46694966 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
46694769 TTATAGTATC
*
46694779 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
46694840 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AATT
46694899 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
46694960 ATATATT
1 ATATATT
46694967 TTAATTATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 29 0.30
60 25 0.26
61 36 0.38
62 3 0.03
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:46694981 original size:16 final size:16
Alignment explanation
Indices: 46694960--46695001 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
46694950 TTATTAAATT
*
46694960 ATATATTTTAATTATA
1 ATATATTTTAATAATA
46694976 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
46694991 AT-TATGTTTAA
1 ATATAT-TTTAA
46695002 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:46694986 original size:15 final size:15
Alignment explanation
Indices: 46694951--46694992 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46694941 TTAAGAATTT
*
46694951 TATTAAATTAT-ATA
1 TATTTAATTATAATA
46694965 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
46694979 TATTTAATAATAAT
1 TATTTAATTATAAT
46694993 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:46695233 original size:43 final size:43
Alignment explanation
Indices: 46695146--46695233 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 43
46695136 ACCTCTATTT
46695146 CATTCAACCAAACACAAGATTACTATTATGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTAT-CCTCTATTCCATTA
* *
46695190 CATTCAACCAAACA-ATTGATTTGCTATTAT-CTCTATTCCATTA
1 CATTCAACCAAACACA-AGA-TTACTATTATCCTCTATTCCATTA
46695233 C
1 C
46695234 GCCTCTATTC
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
43 15 0.38
44 16 0.40
45 9 0.22
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (43 bp):
CATTCAACCAAACACAAGATTACTATTATCCTCTATTCCATTA
Found at i:46695241 original size:16 final size:16
Alignment explanation
Indices: 46695220--46695261 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
46695210 TTGCTATTAT
46695220 CTCTATTCCATTACGC
1 CTCTATTCCATTACGC
46695236 CTCTATTCCATTACGC
1 CTCTATTCCATTACGC
*
46695252 CTGTATTCCA
1 CTCTATTCCA
46695262 ATACAGCGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.19, C:0.36, G:0.07, T:0.38
Consensus pattern (16 bp):
CTCTATTCCATTACGC
Found at i:46701158 original size:18 final size:18
Alignment explanation
Indices: 46701137--46701176 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
46701127 AAAATATTTA
*
46701137 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
46701155 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
46701173 TTTT
1 TTTT
46701177 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:46701208 original size:12 final size:12
Alignment explanation
Indices: 46701178--46701210 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
46701168 TATATTTTTT
46701178 AAAATT-ATATA
1 AAAATTAATATA
46701189 AAAA-TAATATA
1 AAAATTAATATA
46701200 AAAATTAATAT
1 AAAATTAATAT
46701211 GGGCGGGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:46701497 original size:21 final size:21
Alignment explanation
Indices: 46701471--46701522 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
46701461 GCGGTGGCGG
*
46701471 TGAGATTAGTTACTGTAGCAA
1 TGAGATTAGATACTGTAGCAA
* **
46701492 TGAGATTAGATATTGTAGCGG
1 TGAGATTAGATACTGTAGCAA
46701513 TGAGATTAGA
1 TGAGATTAGA
46701523 AACAATGGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.33
Consensus pattern (21 bp):
TGAGATTAGATACTGTAGCAA
Found at i:46704476 original size:6 final size:7
Alignment explanation
Indices: 46704458--46704502 Score: 63
Period size: 7 Copynumber: 6.0 Consensus size: 7
46704448 AGAAAGGATA
46704458 ATTTTTT
1 ATTTTTT
46704465 ATTTTTT
1 ATTTTTT
46704472 ATTTTTT
1 ATTTTTT
46704479 GATTGTGTTT
1 -ATT-T-TTT
46704489 ATTTTTT
1 ATTTTTT
46704496 ATTTTTT
1 ATTTTTT
46704503 GCTTAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 24 0.69
8 4 0.11
9 4 0.11
10 3 0.09
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (7 bp):
ATTTTTT
Found at i:46704675 original size:126 final size:126
Alignment explanation
Indices: 46704464--46704701 Score: 458
Period size: 126 Copynumber: 1.9 Consensus size: 126
46704454 GATAATTTTT
46704464 TATTTTTTATTTTTTGATTGTGTTTATTTTTTATTTTTTGCTTAAAAATAGAGTCTTTGATTCAA
1 TATTTTTTATTTTTTGATTGTGTTTATTTTTTATTTTTTGCTTAAAAATAGAGTCTTTGATTCAA
*
46704529 CTGGTTCAAGTTCTGTGCACATTTGGGGTTGTTCTATATCTTCACAAATATAGAAAGGATA
66 CTGGTTCAAGTTCTCTGCACATTTGGGGTTGTTCTATATCTTCACAAATATAGAAAGGATA
*
46704590 TATTTTTTATTTTTTGGTTGTGTTTATTTTTTATTTTTTGCTTAAAAATAGAGTCTTTGATTCAA
1 TATTTTTTATTTTTTGATTGTGTTTATTTTTTATTTTTTGCTTAAAAATAGAGTCTTTGATTCAA
46704655 CTGGTTCAAGTTCTCTGCACATTTGGGGTTGTTCTATATCTTCACAA
66 CTGGTTCAAGTTCTCTGCACATTTGGGGTTGTTCTATATCTTCACAA
46704702 GAAAGGTAAT
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 110 1.00
ACGTcount: A:0.23, C:0.11, G:0.16, T:0.51
Consensus pattern (126 bp):
TATTTTTTATTTTTTGATTGTGTTTATTTTTTATTTTTTGCTTAAAAATAGAGTCTTTGATTCAA
CTGGTTCAAGTTCTCTGCACATTTGGGGTTGTTCTATATCTTCACAAATATAGAAAGGATA
Found at i:46704876 original size:30 final size:30
Alignment explanation
Indices: 46704836--46705256 Score: 672
Period size: 30 Copynumber: 14.1 Consensus size: 30
46704826 GAATATAAAC
*
46704836 TATA-TTTTTTATTTTTAAAATACACAACA
1 TATATTTTTTTATTTTTAAAATACACTACA
46704865 TATATTTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
46704895 TATATATTTTTTATTTTTAAAATACACTACA
1 TATAT-TTTTTTATTTTTAAAATACACTACA
*
46704926 TATAATTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
46704956 TATATTTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
* *
46704986 TATATTATTTTATTTTTAAAATACACTGCA
1 TATATTTTTTTATTTTTAAAATACACTACA
* *
46705016 TATATTTTTTTTACTTTTAAAATACAGTACA
1 TATA-TTTTTTTATTTTTAAAATACACTACA
* *
46705047 TATTTTTTTTTATTTTTAAAATACATTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
*
46705077 TATA--TTTTTACTTTTAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
46705105 TATA-TTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
46705134 TATAATTTTTTTATTTTTAAAATACACTACA
1 TAT-ATTTTTTTATTTTTAAAATACACTACA
46705165 TAT-TATTTTTTATTTTTAAAATACACTACA
1 TATAT-TTTTTTATTTTTAAAATACACTACA
*
46705195 TATATTTTTTTATTTTAAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
*
46705225 TATATTTTTTTATTTTTAAAATATACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
46705255 TA
1 TA
46705257 CACTACACCA
Statistics
Matches: 365, Mismatches: 19, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
28 26 0.07
29 31 0.08
30 225 0.62
31 83 0.23
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (30 bp):
TATATTTTTTTATTTTTAAAATACACTACA
Found at i:46704941 original size:91 final size:91
Alignment explanation
Indices: 46704839--46705256 Score: 668
Period size: 91 Copynumber: 4.6 Consensus size: 91
46704829 TATAAACTAT
*
46704839 ATTTTTTATTTTTAAAATACACAACATATATTTTTTTATTTTTAAAATACACTACATATATATTT
1 ATTTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATACACTACATATATATTT
46704904 TTTATTTTTAAAATACACTACATATA
66 TTTATTTTTAAAATACACTACATATA
*
46704930 ATTTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATACACTACATATAT-TAT
1 ATTTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATACACTACATATATATTT
*
46704994 TTTATTTTTAAAATACACTGCATATA
66 TTTATTTTTAAAATACACTACATATA
* * * * *
46705020 TTTTTTTTACTTTTAAAATACAGTACATATTTTTTTTTATTTTTAAAATACATTAC--ATATA-T
1 -ATTTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATACACTACATATATATT
*
46705082 TTTTACTTTTAAAATACACTACATAT-
65 TTTTATTTTTAAAATACACTACATATA
46705108 ATTTTTTATTTTTAAAATACACTACATATAATTTTTTTATTTTTAAAATACACTACATAT-TATT
1 ATTTTTTATTTTTAAAATACACTACATAT-ATTTTTTTATTTTTAAAATACACTACATATATATT
46705172 TTTTATTTTTAAAATACACTACATATA
65 TTTTATTTTTAAAATACACTACATATA
* * *
46705199 TTTTTTTATTTTAAAAATACACTACATATATTTTTTTATTTTTAAAATATACTACATA
1 ATTTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATACACTACATA
46705257 CACTACACCA
Statistics
Matches: 300, Mismatches: 20, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
87 26 0.09
88 24 0.08
89 30 0.10
90 83 0.28
91 137 0.46
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (91 bp):
ATTTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATACACTACATATATATTT
TTTATTTTTAAAATACACTACATATA
Found at i:46704974 original size:60 final size:60
Alignment explanation
Indices: 46704836--46705256 Score: 654
Period size: 61 Copynumber: 7.0 Consensus size: 60
46704826 GAATATAAAC
* *
46704836 TATA-TTTTTTATTTTTAAAATACACAACATATATTTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACATATAATTTTTTATTTTTAAAATACACTACA
46704895 TATATATTTTTTATTTTTAAAATACACTACATATAATTTTTTATTTTTAAAATACACTACA
1 TATAT-TTTTTTATTTTTAAAATACACTACATATAATTTTTTATTTTTAAAATACACTACA
*
46704956 TATATTTTTTTATTTTTAAAATACACTACATAT-ATTATTTTATTTTTAAAATACACTGCA
1 TATATTTTTTTATTTTTAAAATACACTACATATAATT-TTTTATTTTTAAAATACACTACA
* * ** *
46705016 TATATTTTTTTTACTTTTAAAATACAGTACATATTTTTTTTTATTTTTAAAATACATTACA
1 TATA-TTTTTTTATTTTTAAAATACACTACATATAATTTTTTATTTTTAAAATACACTACA
*
46705077 TATA--TTTTTACTTTTAAAATACACTACATAT-ATTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACATATAATTTTTTATTTTTAAAATACACTACA
*
46705134 TATAATTTTTTTATTTTTAAAATACACTACATATTATTTTTTATTTTTAAAATACACTACA
1 TAT-ATTTTTTTATTTTTAAAATACACTACATATAATTTTTTATTTTTAAAATACACTACA
* * *
46705195 TATATTTTTTTATTTTAAAAATACACTACATATATTTTTTTATTTTTAAAATATACTACA
1 TATATTTTTTTATTTTTAAAATACACTACATATAATTTTTTATTTTTAAAATACACTACA
46705255 TA
1 TA
46705257 CACTACACCA
Statistics
Matches: 337, Mismatches: 16, Indels: 17
0.91 0.04 0.05
Matches are distributed among these distances:
57 27 0.08
58 27 0.08
59 7 0.02
60 135 0.40
61 139 0.41
62 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (60 bp):
TATATTTTTTTATTTTTAAAATACACTACATATAATTTTTTATTTTTAAAATACACTACA
Found at i:46705436 original size:42 final size:41
Alignment explanation
Indices: 46705381--46705468 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
46705371 AGGTCTTGGT
* *
46705381 CTTTAGCGACGCTTTTTCCACAAACGCCGCTAAAGAACA-AAC
1 CTTTAGCGACGCTTCTACCA-AAACGCCGCT-AAGAACATAAC
* * *
46705423 CTTTAGCGGCGCTTCTAGCAAAACGCCGCTAAGAACATAAT
1 CTTTAGCGACGCTTCTACCAAAACGCCGCTAAGAACATAAC
46705464 CTTTA
1 CTTTA
46705469 AAAAAATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
40 7 0.17
41 17 0.43
42 16 0.40
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (41 bp):
CTTTAGCGACGCTTCTACCAAAACGCCGCTAAGAACATAAC
Found at i:46705644 original size:35 final size:35
Alignment explanation
Indices: 46705608--46705675 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
46705598 CTATGAAAAT
46705608 TTTAACTTTA-AAACTAAATATAA-AAATTAATAAA
1 TTTAACTTTAGAAACTAAA-ATAATAAATTAATAAA
* **
46705642 TTTAATTTTAGAATTTAAAATAATAAATTAATAA
1 TTTAACTTTAGAAACTAAAATAATAAATTAATAA
46705676 CACAATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (35 bp):
TTTAACTTTAGAAACTAAAATAATAAATTAATAAA
Found at i:46705819 original size:19 final size:19
Alignment explanation
Indices: 46705797--46705862 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
46705787 ACAGTAACGA
*
46705797 AAAATTAAACACCACACAT
1 AAAATTAAACACCAAACAT
* * *
46705816 AAAATTACACAGACAGTAACAA
1 AAAATTAAACA-CCA--AACAT
*
46705838 AAAATTAAACACCATACAT
1 AAAATTAAACACCAAACAT
46705857 AAAATT
1 AAAATT
46705863 TATCAAATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 19 0.53
20 2 0.06
21 2 0.06
22 13 0.36
ACGTcount: A:0.59, C:0.20, G:0.03, T:0.18
Consensus pattern (19 bp):
AAAATTAAACACCAAACAT
Found at i:46705842 original size:22 final size:22
Alignment explanation
Indices: 46705781--46705844 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
46705771 AAAAATTAAA
*
46705781 ACACAGACAGTAACGAAAAATT
1 ACACAGACAGTAACAAAAAATT
* * * *
46705803 AAACA-CCA--CACATAAAATT
1 ACACAGACAGTAACAAAAAATT
46705822 ACACAGACAGTAACAAAAAATT
1 ACACAGACAGTAACAAAAAATT
46705844 A
1 A
46705845 AACACCATAC
Statistics
Matches: 30, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
19 12 0.40
20 2 0.07
21 2 0.07
22 14 0.47
ACGTcount: A:0.58, C:0.20, G:0.08, T:0.14
Consensus pattern (22 bp):
ACACAGACAGTAACAAAAAATT
Found at i:46705883 original size:41 final size:41
Alignment explanation
Indices: 46705781--46705862 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
46705771 AAAAATTAAA
*
46705781 ACACAGACAGTAACGAAAAATTAAACACCACACATAAAATT
1 ACACAGACAGTAACAAAAAATTAAACACCACACATAAAATT
*
46705822 ACACAGACAGTAACAAAAAATTAAACACCATACATAAAATT
1 ACACAGACAGTAACAAAAAATTAAACACCACACATAAAATT
46705863 TATCAAATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.57, C:0.21, G:0.06, T:0.16
Consensus pattern (41 bp):
ACACAGACAGTAACAAAAAATTAAACACCACACATAAAATT
Found at i:46706196 original size:30 final size:30
Alignment explanation
Indices: 46706134--46706198 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
46706124 ACTTTTCCCT
* * **
46706134 CAAAACTTTTACTCCTTCCCACTTTCCCCC
1 CAAAACTTTTACTCCCTCCCACTCTCAACC
46706164 CAAAACTTTTACTCCCCTCCC-CTCTCAACC
1 CAAAACTTTTACT-CCCTCCCACTCTCAACC
46706194 CAAAA
1 CAAAA
46706199 TCCATTTCCC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 24 0.80
31 6 0.20
ACGTcount: A:0.26, C:0.46, G:0.00, T:0.28
Consensus pattern (30 bp):
CAAAACTTTTACTCCCTCCCACTCTCAACC
Found at i:46707485 original size:17 final size:16
Alignment explanation
Indices: 46707452--46707485 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46707442 ATATTAGATT
*
46707452 TAAAAAAATTAATAAA
1 TAAAAAAATTAACAAA
46707468 TAAAAAAATGTAACAAA
1 TAAAAAAAT-TAACAAA
46707485 T
1 T
46707486 TGATACGGAT
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:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
TAAAAAAATTAACAAA
Found at i:46707797 original size:27 final size:27
Alignment explanation
Indices: 46707738--46707800 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
46707728 ATTTTACTTT
* **
46707738 AAAAAAAATCAATTTATAAAAACGCCG
1 AAAAAAAATCAATTTATAAAAACACAA
*
46707765 CAAAAAAATCAATTTATAAAAA-ACAA
1 AAAAAAAATCAATTTATAAAAACACAA
46707791 AATAAAAAAT
1 AA-AAAAAAT
46707801 TAATAAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.67, C:0.11, G:0.03, T:0.19
Consensus pattern (27 bp):
AAAAAAAATCAATTTATAAAAACACAA
Found at i:46712788 original size:21 final size:21
Alignment explanation
Indices: 46712762--46712807 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
46712752 TCTTGGATGT
46712762 GGGAAA-TTAGGGATTTTAGGG
1 GGGAAAGTTAGGGA-TTTAGGG
*
46712783 GGGAAAGTTAGGGATTTCGGG
1 GGGAAAGTTAGGGATTTAGGG
46712804 GGGA
1 GGGA
46712808 GGGGGGAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.26, C:0.02, G:0.48, T:0.24
Consensus pattern (21 bp):
GGGAAAGTTAGGGATTTAGGG
Found at i:46713100 original size:143 final size:144
Alignment explanation
Indices: 46712840--46713110 Score: 406
Period size: 143 Copynumber: 1.9 Consensus size: 144
46712830 TGACGCTATT
* * *
46712840 TTTTTTAAAAGTAAATTTTATTTTGTGGTATTTTTTATAAAAACGCCGCTATTGCTTATCTATTG
1 TTTTTTAAAAGTAAATTTTATTTTGTGGCA-TTTTAATAAAAACGCCGCTATTGCTTACCTATTG
** *
46712905 CGGCGTTTTTCATAAAAACGTTGCAAAAAATTATTTTATTTGGAATAAAACGACACTGTTTTGTT
65 CGGCGTTTTTCATAAAAACGCCGCAAAAAATTATTTCATTTGGAATAAAACGACACTGTTTTGTT
46712970 ATTAAAATGGCACTA
130 ATTAAAATGGCACTA
*
46712985 TTTTTTAAAA-TAAAATTATT-TTTTGTGGCA-TTTAATAAAAACGCCGCTATTGCTTACCTTTT
1 TTTTTTAAAAGT-AAATT-TTATTTTGTGGCATTTTAATAAAAACGCCGCTATTGCTTACCTATT
*
46713047 GCGGCGTTTTT-ATGAAAAACGCCGCAAAAAATTATTTCATTTGGAGTAAAACGACACTGTTTTG
64 GCGGCGTTTTTCAT-AAAAACGCCGCAAAAAATTATTTCATTTGGAATAAAACGACACTGTTTTG
46713111 CTATGCTAAA
Statistics
Matches: 115, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
142 2 0.02
143 86 0.75
144 1 0.01
145 24 0.21
146 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (144 bp):
TTTTTTAAAAGTAAATTTTATTTTGTGGCATTTTAATAAAAACGCCGCTATTGCTTACCTATTGC
GGCGTTTTTCATAAAAACGCCGCAAAAAATTATTTCATTTGGAATAAAACGACACTGTTTTGTTA
TTAAAATGGCACTA
Found at i:46714640 original size:41 final size:41
Alignment explanation
Indices: 46714553--46714670 Score: 148
Period size: 41 Copynumber: 2.9 Consensus size: 41
46714543 TTTTATTATT
* * * *
46714553 ATTAGCGGCGCTTTTCCAAAAATGCCGCTAAAGG-TCGAGT
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
46714593 ACTAGCGGCGATTTTTCAAAAACGCTGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
* *
46714634 ATTAGCGGTGCTTTTTCAAAAACGCCGCTAAATGCCC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCC
46714671 CCAAAACTCA
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
40 29 0.45
41 36 0.55
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
Found at i:46714840 original size:40 final size:40
Alignment explanation
Indices: 46714718--46714840 Score: 151
Period size: 40 Copynumber: 3.1 Consensus size: 40
46714708 TTTGCAACGC
* *
46714718 TTTTCAAAAAACGCCGCTAATGCTT-ATTTTTAGTGGCGT
1 TTTTCAAAAAGCGCAGCTAATGCTTGATTTTTAGTGGCGT
* * **
46714757 TTTCCAAAAAGCGCCA-CTAATGCTCGACCTTTAGTGGCGT
1 TTTTCAAAAAGCG-CAGCTAATGCTTGATTTTTAGTGGCGT
**
46714797 TTTTGTAAAAGCGCAGCTAATGCTTGATTTTTAGTGGCGT
1 TTTTCAAAAAGCGCAGCTAATGCTTGATTTTTAGTGGCGT
46714837 TTTT
1 TTTT
46714841 TGTCCAAATG
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
39 21 0.30
40 48 0.70
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (40 bp):
TTTTCAAAAAGCGCAGCTAATGCTTGATTTTTAGTGGCGT
Found at i:46714857 original size:41 final size:40
Alignment explanation
Indices: 46714725--46714857 Score: 116
Period size: 40 Copynumber: 3.3 Consensus size: 40
46714715 CGCTTTTCAA
46714725 AAAACGCCGCTAATGCTT-ATTTTTAGTGGCG--TTT-TCC
1 AAAA-GCCGCTAATGCTTGATTTTTAGTGGCGTTTTTGTCC
* * **
46714762 AAAAAGCGCCACTAATGCTCGACCTTTAGTGGCGTTTTTGT--
1 -AAAA--GCCGCTAATGCTTGATTTTTAGTGGCGTTTTTGTCC
46714803 AAAAGCGCAGCTAATGCTTGATTTTTAGTGGCGTTTTTTGTCC
1 AAAAGC-C-GCTAATGCTTGATTTTTAGTGGCG-TTTTTGTCC
*
46714846 AAATGCCGCTAA
1 AAAAGCCGCTAA
46714858 AAATGCCGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 17
0.75 0.09 0.17
Matches are distributed among these distances:
38 6 0.08
39 13 0.17
40 35 0.46
41 12 0.16
42 4 0.05
43 6 0.08
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (40 bp):
AAAAGCCGCTAATGCTTGATTTTTAGTGGCGTTTTTGTCC
Found at i:46714863 original size:12 final size:12
Alignment explanation
Indices: 46714846--46714871 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46714836 TTTTTTGTCC
46714846 AAATGCCGCTAA
1 AAATGCCGCTAA
46714858 AAATGCCGCTAA
1 AAATGCCGCTAA
46714870 AA
1 AA
46714872 GCTTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (12 bp):
AAATGCCGCTAA
Found at i:46714936 original size:29 final size:30
Alignment explanation
Indices: 46714890--46715059 Score: 259
Period size: 30 Copynumber: 6.0 Consensus size: 30
46714880 TGGTGTAGTG
46714890 ATATATATTTTTATTTTTAAAATACACTAC
1 ATATATATTTTTATTTTTAAAATACACTAC
*
46714920 ATATAT-TTTTTACTTTTAAAATACACTAC
1 ATATATATTTTTATTTTTAAAATACACTAC
46714949 --ATA-A--TTT-TTTTT-AAATACACTAC
1 ATATATATTTTTATTTTTAAAATACACTAC
46714972 ATATATATTTTTATTTTTAAAATACACTAC
1 ATATATATTTTTATTTTTAAAATACACTAC
*
46715002 ATATATTTTTTTATTTTTAAAATACACTAC
1 ATATATATTTTTATTTTTAAAATACACTAC
46715032 ATATATATTTTTA-TTTTAAAATACACTA
1 ATATATATTTTTATTTTTAAAATACACTA
46715060 ATACAGTGCA
Statistics
Matches: 128, Mismatches: 4, Indels: 17
0.86 0.03 0.11
Matches are distributed among these distances:
23 11 0.09
24 4 0.03
25 6 0.05
26 1 0.01
27 3 0.02
28 3 0.02
29 42 0.33
30 58 0.45
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (30 bp):
ATATATATTTTTATTTTTAAAATACACTAC
Found at i:46714982 original size:82 final size:84
Alignment explanation
Indices: 46714890--46715043 Score: 276
Period size: 82 Copynumber: 1.9 Consensus size: 84
46714880 TGGTGTAGTG
46714890 ATATATATTTTTATTTTTAAAATACACTACATATA-TTTTTTACTTTTAAAATACACTACATA-A
1 ATATATATTTTTATTTTTAAAATACACTACATATATTTTTTTACTTTTAAAATACACTACATATA
*
46714953 TTTTTTTTAAATACACTAC
66 TATTTTTTAAATACACTAC
*
46714972 ATATATATTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATACACTACATATA
1 ATATATATTTTTATTTTTAAAATACACTACATATATTTTTTTACTTTTAAAATACACTACATATA
46715037 TATTTTT
66 TATTTTT
46715044 ATTTTAAAAT
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
82 35 0.51
83 26 0.38
84 7 0.10
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.51
Consensus pattern (84 bp):
ATATATATTTTTATTTTTAAAATACACTACATATATTTTTTTACTTTTAAAATACACTACATATA
TATTTTTTAAATACACTAC
Found at i:46715557 original size:15 final size:15
Alignment explanation
Indices: 46715539--46715567 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
46715529 GTATTTGTAA
46715539 GGAATTATCTCCAAG
1 GGAATTATCTCCAAG
46715554 GGAATTATCTCCAA
1 GGAATTATCTCCAA
46715568 TGGCAGCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (15 bp):
GGAATTATCTCCAAG
Found at i:46720853 original size:33 final size:32
Alignment explanation
Indices: 46720791--46720855 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 32
46720781 CTTTCACATT
* *
46720791 CAATGATGCGGTGGGATCAGCACGTAGCAACCAC
1 CAATGAT-CGG-GGAATCAGCACTTAGCAACCAC
*
46720825 CAATGAATCGGGGAATCAACACTTAGCAACC
1 CAATG-ATCGGGGAATCAGCACTTAGCAACC
46720856 CCTTTCACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 17 0.63
34 8 0.30
35 2 0.07
ACGTcount: A:0.34, C:0.26, G:0.25, T:0.15
Consensus pattern (32 bp):
CAATGATCGGGGAATCAGCACTTAGCAACCAC
Found at i:46720865 original size:76 final size:76
Alignment explanation
Indices: 46720739--46720935 Score: 313
Period size: 76 Copynumber: 2.6 Consensus size: 76
46720729 ATTCAACACT
* * * *
46720739 TAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATGCGGTG
1 TAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATACGGTA
*
46720804 GGATCAGCACG
66 GAATCAGCACG
*
46720815 TAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTTCACATTCAATGATACGGTA
1 TAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATACGGTA
* *
46720880 GAATTAGCACT
66 GAATCAGCACG
*
46720891 TAGCAACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTT
1 TAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
46720936 GGGGGAATCA
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 111 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (76 bp):
TAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATACGGTA
GAATCAGCACG
Found at i:46720941 original size:27 final size:27
Alignment explanation
Indices: 46720911--46720962 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
46720901 CAATGAATCA
*
46720911 GGGAATCAGCACTTAGCAACCCCTTGG
1 GGGAATCAACACTTAGCAACCCCTTGG
46720938 GGGAATCAACACTTAGCAACCCCTT
1 GGGAATCAACACTTAGCAACCCCTT
46720963 TCACATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (27 bp):
GGGAATCAACACTTAGCAACCCCTTGG
Found at i:46721133 original size:102 final size:102
Alignment explanation
Indices: 46720834--46721165 Score: 531
Period size: 101 Copynumber: 3.3 Consensus size: 102
46720824 CCAATGAATC
* * * *
46720834 GGGGAATCAACACTTAGCAACCCCTTTCACATTCAATGATACGGTAGAATTAGCACTTAGCAACC
1 GGGGAATCAACACTTAGCAACCCCTTTCACATTTAA-AATACGGTGGAATCAGCACTTAGCAACC
* *
46720899 ACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTTG
65 ACCAATGGATCGGGGAATCAGCACTTAGCAACCCCTTG
46720937 GGGGAATCAACACTTAGCAACCCCTTTCACATTTAAAATACGGTGGAATCAGC-CTTAGCAACCA
1 GGGGAATCAACACTTAGCAACCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
* *
46721001 CCAATGGGTTGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGGATCGGGGAATCAGCACTTAGCAACCCCTTG
* * *
46721038 GGGGAATCAGCACTTGGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAACACTTAGCAACCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
46721103 CCGATGGATCGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGGATCGGGGAATCAGCACTTAGCAACCCCTTG
*
46721140 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAACACTTAGCAACCCCTT
46721166 GGGGGAATCA
Statistics
Matches: 212, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
101 94 0.44
102 83 0.39
103 35 0.17
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (102 bp):
GGGGAATCAACACTTAGCAACCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGGATCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:46721147 original size:27 final size:27
Alignment explanation
Indices: 46721113--46721190 Score: 156
Period size: 27 Copynumber: 2.9 Consensus size: 27
46721103 CCGATGGATC
46721113 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
46721140 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
46721167 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
46721191 CTTAATATTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.27, C:0.31, G:0.26, T:0.17
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTTG
Found at i:46723025 original size:19 final size:19
Alignment explanation
Indices: 46723001--46723040 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
46722991 ATTGTATCAA
46723001 AAAGAATAAAAATGATTAG
1 AAAGAATAAAAATGATTAG
* *
46723020 AAAGAATAGATATGATTAG
1 AAAGAATAAAAATGATTAG
46723039 AA
1 AA
46723041 CCTATAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (19 bp):
AAAGAATAAAAATGATTAG
Found at i:46725846 original size:39 final size:39
Alignment explanation
Indices: 46725802--46725897 Score: 147
Period size: 39 Copynumber: 2.5 Consensus size: 39
46725792 CCCATACCTT
** **
46725802 TCCCTCTTTCCCACCATCCCTCCCCCTACTTCGATTCTC
1 TCCCTCTCCCCCACCATCCCTCCCCCTACTTCGACCCTC
*
46725841 TCCCTCTCCCCCACCATCCCTCCCCCTACTTTGACCCTC
1 TCCCTCTCCCCCACCATCCCTCCCCCTACTTCGACCCTC
46725880 TCCCTCTCCCCCACCATC
1 TCCCTCTCCCCCACCATC
46725898 TATTTCCTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.10, C:0.59, G:0.02, T:0.28
Consensus pattern (39 bp):
TCCCTCTCCCCCACCATCCCTCCCCCTACTTCGACCCTC
Found at i:46725917 original size:39 final size:39
Alignment explanation
Indices: 46725802--46725933 Score: 113
Period size: 39 Copynumber: 3.4 Consensus size: 39
46725792 CCCATACCTT
** * * **
46725802 TCCCTCTTTCCCACCATCCCTCCCCCTACT-TCGATTCTC
1 TCCCTCTCCCCCACCATCCATCCCCCTACTCT-AACCCTC
* * *
46725841 TCCCTCTCCCCCACCATCCCTCCCCCTACTTTGACCCTC
1 TCCCTCTCCCCCACCATCCATCCCCCTACTCTAACCCTC
* ** * *
46725880 TCCCTCTCCCCCACCATCTATTTCCTTTCTCTAACCCTC
1 TCCCTCTCCCCCACCATCCATCCCCCTACTCTAACCCTC
*
46725919 TCCCTCTACCCCACC
1 TCCCTCTCCCCCACC
46725934 GTCCCTTTCC
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 78 0.99
40 1 0.01
ACGTcount: A:0.11, C:0.57, G:0.02, T:0.30
Consensus pattern (39 bp):
TCCCTCTCCCCCACCATCCATCCCCCTACTCTAACCCTC
Found at i:46725943 original size:39 final size:39
Alignment explanation
Indices: 46725838--46725945 Score: 126
Period size: 39 Copynumber: 2.8 Consensus size: 39
46725828 TACTTCGATT
** * *
46725838 CTCTCCCTCTCCCCCACCATCCCTCCCCCTACTTTGACC
1 CTCTCCCTCTCCCCCACCATCCCTTTCCCTACTCTAACC
** * *
46725877 CTCTCCCTCTCCCCCACCATCTATTTCCTTTCTCTAACC
1 CTCTCCCTCTCCCCCACCATCCCTTTCCCTACTCTAACC
* *
46725916 CTCTCCCTCTACCCCACCGTCCCTTTCCCT
1 CTCTCCCTCTCCCCCACCATCCCTTTCCCT
46725946 CTACCAACCC
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.10, C:0.57, G:0.02, T:0.31
Consensus pattern (39 bp):
CTCTCCCTCTCCCCCACCATCCCTTTCCCTACTCTAACC
Found at i:46725955 original size:39 final size:39
Alignment explanation
Indices: 46725874--46725961 Score: 97
Period size: 39 Copynumber: 2.2 Consensus size: 39
46725864 CCCTACTTTG
* * * *
46725874 ACCCTCTCCCTCTCCCCCACCATCTATTTCCTTTCTCTA
1 ACCCTCTCCCTCTACCCCACCATCCATTTCCTCTCTCCA
* *
46725913 ACCCTCTCCCTCTACCCCACCGTCCCTTTCC-CTCTACCA
1 ACCCTCTCCCTCTACCCCACCATCCATTTCCTCTCT-CCA
46725952 ACCCTACTCC
1 ACCCT-CTCC
46725962 AATTTCCAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
38 3 0.07
39 34 0.83
40 4 0.10
ACGTcount: A:0.14, C:0.56, G:0.01, T:0.30
Consensus pattern (39 bp):
ACCCTCTCCCTCTACCCCACCATCCATTTCCTCTCTCCA
Found at i:46729381 original size:18 final size:20
Alignment explanation
Indices: 46729360--46729409 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
46729350 AAAGGAAGAC
46729360 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
46729378 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
46729398 AGCAAAAAGAGA
1 AG-AAAAAGAGA
46729410 TTGAGAGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 2 0.07
21 9 0.32
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:46731201 original size:33 final size:34
Alignment explanation
Indices: 46731164--46731243 Score: 103
Period size: 33 Copynumber: 2.4 Consensus size: 34
46731154 GAGTTAGTTT
*
46731164 ATTAAATTTAGTTTAGCTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTTACCTCAAATAAGTGTTAGTA
* * *
46731197 ATTAATTTTAGTTCACCTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTTACCTCAAATAAGTGTTAGTA
46731231 ATT-AATTT-GTTTA
1 ATTAAATTTAGTTTA
46731244 AATCTGGACA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
32 4 0.10
33 32 0.80
34 4 0.10
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (34 bp):
ATTAAATTTAGTTTACCTCAAATAAGTGTTAGTA
Found at i:46746805 original size:48 final size:48
Alignment explanation
Indices: 46746750--46746855 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
46746740 TTGTCTTTTC
*
46746750 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
46746798 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
46746846 TTTCTTTTTC
1 TTTCTTTTTC
46746856 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:46749490 original size:20 final size:20
Alignment explanation
Indices: 46749467--46749513 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
46749457 GGGTTAAGAT
*
46749467 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
46749487 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
46749507 TGAGCTG
1 TGAGCTG
46749514 GAAACAAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:46759758 original size:39 final size:34
Alignment explanation
Indices: 46759713--46759797 Score: 98
Period size: 35 Copynumber: 2.3 Consensus size: 34
46759703 GCAAACTTAT
46759713 TTTCTTTTTCACTCGATTTCTTTTCAAGCTCTCTTTCAA
1 TTTCTTTTTCACTC--TTTCTTTTC---CTCTCTTTCAA
*
46759752 TTTCTTTTTCCACTCTTTCTTTTCTTCTCTTTCAA
1 TTTCTTTTT-CACTCTTTCTTTTCCTCTCTTTCAA
*
46759787 TCTCTTTTTCA
1 TTTCTTTTTCA
46759798 ATCTCTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
34 2 0.05
35 18 0.42
38 9 0.21
39 9 0.21
40 5 0.12
ACGTcount: A:0.12, C:0.27, G:0.02, T:0.59
Consensus pattern (34 bp):
TTTCTTTTTCACTCTTTCTTTTCCTCTCTTTCAA
Found at i:46759798 original size:12 final size:12
Alignment explanation
Indices: 46759733--46759807 Score: 57
Period size: 12 Copynumber: 6.3 Consensus size: 12
46759723 ACTCGATTTC
*
46759733 TTTTCAAGCTCT
1 TTTTCAATCTCT
* *
46759745 CTTTCAATTTCT
1 TTTTCAATCTCT
*
46759757 TTTTCCA-CTCT
1 TTTTCAATCTCT
*
46759768 TTCTT--TTCTTCT
1 TT-TTCAATC-TCT
*
46759780 CTTTCAATCTCT
1 TTTTCAATCTCT
46759792 TTTTCAATCTCT
1 TTTTCAATCTCT
46759804 TTTT
1 TTTT
46759808 TCTTTTCACT
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
11 8 0.17
12 38 0.79
13 2 0.04
ACGTcount: A:0.12, C:0.27, G:0.01, T:0.60
Consensus pattern (12 bp):
TTTTCAATCTCT
Found at i:46759857 original size:14 final size:15
Alignment explanation
Indices: 46759840--46759882 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
46759830 TGAAATCTCA
46759840 TTTTCATATT-TTTC-
1 TTTTCAT-TTCTTTCG
46759854 TTTTCATTTCTTTCG
1 TTTTCATTTCTTTCG
46759869 TTTTCATTTTCTTT
1 TTTTCA-TTTCTTT
46759883 GTTCTTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.08
14 11 0.42
15 6 0.23
16 7 0.27
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.72
Consensus pattern (15 bp):
TTTTCATTTCTTTCG
Found at i:46762183 original size:24 final size:23
Alignment explanation
Indices: 46762150--46762207 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
46762140 AGTTGAAAAG
46762150 TATAA-AATAAAATAAATAATGATA
1 TATAATAATAAAAT-AAT-ATGATA
*
46762174 -ATAATAATAAAATGATATGATA
1 TATAATAATAAAATAATATGATA
46762196 TATATATAATAA
1 TATA-ATAATAA
46762208 TGTTTGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.20
23 9 0.30
24 15 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAATAATAAAATAATATGATA
Found at i:46762727 original size:37 final size:37
Alignment explanation
Indices: 46762671--46762749 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
46762661 CCGAGCTCTA
* * *
46762671 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
46762708 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
46762745 AAGAC
1 AAGAC
46762750 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:46764014 original size:21 final size:20
Alignment explanation
Indices: 46763986--46764030 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
46763976 ACTTCAACAC
46763986 TTTC-CTTTTTCTTTCCAAAA
1 TTTCTCTTTTTCTTTCC-AAA
* *
46764006 TTTCTCTTTTTTTTTTCAAA
1 TTTCTCTTTTTCTTTCCAAA
46764026 TTTCT
1 TTTCT
46764031 TCTTCTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTCTCTTTTTCTTTCCAAA
Found at i:46764026 original size:20 final size:23
Alignment explanation
Indices: 46764003--46764044 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 23
46763993 TTTCTTTCCA
46764003 AAATTTC-TCTT-T-TTTTTTTC
1 AAATTTCTTCTTCTCTTTTTTTC
46764023 AAATTTCTTCTTCTCTTTTTTT
1 AAATTTCTTCTTCTCTTTTTTT
46764045 TTGATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 4 0.21
22 1 0.05
23 7 0.37
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (23 bp):
AAATTTCTTCTTCTCTTTTTTTC
Found at i:46770487 original size:18 final size:18
Alignment explanation
Indices: 46770443--46770487 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
46770433 TTTGCTCTTT
*
46770443 TTCATTCTCTTTTTCTTTC
1 TTCATT-TCTTTTTCTGTC
*
46770462 TTGATTTCTTTTTCTGTC
1 TTCATTTCTTTTTCTGTC
*
46770480 TTCCTTTC
1 TTCATTTC
46770488 ATTACAAGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.04, C:0.24, G:0.04, T:0.67
Consensus pattern (18 bp):
TTCATTTCTTTTTCTGTC
Found at i:46772212 original size:7 final size:7
Alignment explanation
Indices: 46772202--46772243 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
46772192 ATTTTAAGGT
46772202 TTATGGA
1 TTATGGA
*
46772209 TTATGGGT
1 TTAT-GGA
*
46772217 TTAGGGA
1 TTATGGA
46772224 TTATGGA
1 TTATGGA
46772231 TTATGGA
1 TTATGGA
46772238 TTATGG
1 TTATGG
46772244 TTTAAAGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 25 0.83
8 5 0.17
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (7 bp):
TTATGGA
Found at i:46772219 original size:22 final size:22
Alignment explanation
Indices: 46772194--46772236 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
46772184 GAGTTACTAT
*
46772194 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTATGGG
*
46772216 TTTAGGGATTATGGATTATGG
1 TTTAAGGATTATGGATTATGG
46772237 ATTATGGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (22 bp):
TTTAAGGATTATGGATTATGGG
Found at i:46772292 original size:57 final size:57
Alignment explanation
Indices: 46772217--46772347 Score: 140
Period size: 57 Copynumber: 2.3 Consensus size: 57
46772207 GATTATGGGT
* * * * *
46772217 TTAGGGA-TTATGGATTATGGATTATGGTTTAAAGGTT-GGGGTTTAAGGGTTAAGGG
1 TTAGGGATTTAGGGTTTATGGATTAT-GTTTAAAGATTCAGGGTTTAAGGGATAAGGG
* * * * * *
46772273 TTAGGGGTTTAGGTTTTATGGTTTATGTTTTATGATTCAGGGTTTAAGGGATAGGGG
1 TTAGGGATTTAGGGTTTATGGATTATGTTTAAAGATTCAGGGTTTAAGGGATAAGGG
46772330 TTAGGGATTTAGGGTTTA
1 TTAGGGATTTAGGGTTTA
46772348 GATTAATTAA
Statistics
Matches: 60, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
56 14 0.23
57 46 0.77
ACGTcount: A:0.22, C:0.01, G:0.36, T:0.41
Consensus pattern (57 bp):
TTAGGGATTTAGGGTTTATGGATTATGTTTAAAGATTCAGGGTTTAAGGGATAAGGG
Found at i:46778576 original size:25 final size:26
Alignment explanation
Indices: 46778548--46778627 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 26
46778538 CACAGCTCTT
* *
46778548 ATGAGCTTCCCGA-TATTTAGCTTGC
1 ATGAGCTTCCCGATTATTCAGCTCGC
*
46778573 ATGAGCTTCCC-ATTATTCAGCTCGG
1 ATGAGCTTCCCGATTATTCAGCTCGC
* * *
46778598 ACGAGCTTCCCG-TT-TACAGCTCGT
1 ATGAGCTTCCCGATTATTCAGCTCGC
46778622 ATGAGC
1 ATGAGC
46778628 ATAAATGTAC
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
24 14 0.30
25 32 0.70
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.31
Consensus pattern (26 bp):
ATGAGCTTCCCGATTATTCAGCTCGC
Found at i:46785597 original size:14 final size:15
Alignment explanation
Indices: 46785578--46785607 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
46785568 TAAATCCAAT
46785578 AGCCATAATT-ATCC
1 AGCCATAATTCATCC
46785592 AGCCATAATTCATCC
1 AGCCATAATTCATCC
46785607 A
1 A
46785608 CACATCTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.37, C:0.30, G:0.07, T:0.27
Consensus pattern (15 bp):
AGCCATAATTCATCC
Found at i:46815193 original size:28 final size:28
Alignment explanation
Indices: 46815162--46815215 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
46815152 TGTGTTTTAA
*
46815162 TTTATTACATGTTATTAATG-TGTCTACT
1 TTTATTACAAGTT-TTAATGATGTCTACT
46815190 TTTATTACAAGTTTTAATGATGTCTA
1 TTTATTACAAGTTTTAATGATGTCTA
46815216 AGTCCAGCCG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.28, C:0.09, G:0.11, T:0.52
Consensus pattern (28 bp):
TTTATTACAAGTTTTAATGATGTCTACT
Found at i:46818758 original size:27 final size:27
Alignment explanation
Indices: 46818701--46818759 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 27
46818691 TTTCAACAAC
*
46818701 GAAAAAAAGTGAAAAGCAAAGAAAGATT
1 GAAAAAAAGTGAAAAGAAAAGAAAGA-T
46818729 GAAAAAAA-TGAAAAGGAAAAAGAAAG-T
1 GAAAAAAAGTGAAAA-G-AAAAGAAAGAT
46818756 GAAA
1 GAAA
46818760 TAAACTTGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 11 0.39
28 9 0.32
29 8 0.29
ACGTcount: A:0.68, C:0.02, G:0.22, T:0.08
Consensus pattern (27 bp):
GAAAAAAAGTGAAAAGAAAAGAAAGAT
Found at i:46819984 original size:28 final size:28
Alignment explanation
Indices: 46819953--46820007 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
46819943 TGTGTTTTAA
* *
46819953 TTTATTACATGTTATTAATG-TGTCTAAT
1 TTTATTACAAGAT-TTAATGATGTCTAAT
46819981 TTTATTACAAGATTTAATGATGTCTAA
1 TTTATTACAAGATTTAATGATGTCTAA
46820008 GTCCAGCCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (28 bp):
TTTATTACAAGATTTAATGATGTCTAAT
Found at i:46831387 original size:33 final size:34
Alignment explanation
Indices: 46831336--46831410 Score: 125
Period size: 33 Copynumber: 2.2 Consensus size: 34
46831326 AGATTTAAAC
*
46831336 AAATTAATTACTAACACTTATTTAAGGTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
46831370 AAATTAATT-CTAACACTTATTTAAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
46831403 AATTTAAT
1 AAATTAAT
46831411 AAACTAACTC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 30 0.77
34 9 0.23
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:46832940 original size:18 final size:17
Alignment explanation
Indices: 46832917--46832955 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
46832907 CTTTTTTTGC
46832917 TCTTTTTCATTCTCTTTT
1 TCTTTTTCATT-TCTTTT
*
46832935 TCTTTTTTGATTTCTTTT
1 TC-TTTTTCATTTCTTTT
46832953 TCT
1 TCT
46832956 GTCTTCCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 1 0.05
18 10 0.53
19 8 0.42
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (17 bp):
TCTTTTTCATTTCTTTT
Found at i:46836420 original size:18 final size:18
Alignment explanation
Indices: 46836393--46836432 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
46836383 CAGGTGCGTT
*
46836393 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
46836411 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
46836429 TCCT
1 TCCT
46836433 TTTTTGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:46851647 original size:27 final size:27
Alignment explanation
Indices: 46851616--46851793 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
46851606 TAAATTGTAC
46851616 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
46851643 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
46851669 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
46851697 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
46851725 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
46851752 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
46851779 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
46851794 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:46851730 original size:82 final size:81
Alignment explanation
Indices: 46851617--46851772 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
46851607 AAATTGTACA
* *
46851617 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
46851681 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
46851698 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
46851763 TGCGAGTTGA
65 TGCGAATTGA
46851773 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:46851784 original size:82 final size:81
Alignment explanation
Indices: 46851613--46851793 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
46851603 GATTAAATTG
* *
46851613 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
46851678 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
46851694 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
46851758 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
46851776 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
46851794 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:46857171 original size:18 final size:19
Alignment explanation
Indices: 46857150--46857186 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
46857140 AAAGGAAGAC
46857150 AGAAAAAGA-AATCAAAAA
1 AGAAAAAGAGAATCAAAAA
*
46857168 AGAAAAAGAGAATGAAAAA
1 AGAAAAAGAGAATCAAAAA
46857187 GACCAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.76, C:0.03, G:0.16, T:0.05
Consensus pattern (19 bp):
AGAAAAAGAGAATCAAAAA
Found at i:46867981 original size:33 final size:33
Alignment explanation
Indices: 46867932--46868006 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 33
46867922 AGATTTAAAC
46867932 AAATTAATTTCTAACACTTATTTAA-CGTGAACTA
1 AAATTAA-TTCTAACACTTATTTAAGC-TGAACTA
*
46867966 AAATTAATTCTAACACTTATTTGAGCTGAACTA
1 AAATTAATTCTAACACTTATTTAAGCTGAACTA
*
46867999 AATTTAAT
1 AAATTAAT
46868007 AAACTAACTC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 30 0.79
34 8 0.21
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (33 bp):
AAATTAATTCTAACACTTATTTAAGCTGAACTA
Found at i:46869763 original size:18 final size:17
Alignment explanation
Indices: 46869740--46869778 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
46869730 CTCCTTTTGC
46869740 TCTTTTTCATTCTCTTTT
1 TCTTTTTCATT-TCTTTT
*
46869758 TCTTTTTTGATTTCTTTT
1 TC-TTTTTCATTTCTTTT
46869776 TCT
1 TCT
46869779 GTCTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 1 0.05
18 10 0.53
19 8 0.42
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (17 bp):
TCTTTTTCATTTCTTTT
Found at i:46874046 original size:31 final size:31
Alignment explanation
Indices: 46874011--46874072 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
46874001 CTGATTCGAC
46874011 ATCATTCTTAGGCATCAAGAAACGTTCTTTG
1 ATCATTCTTAGGCATCAAGAAACGTTCTTTG
46874042 ATCATTCTTAGGCATCAAGAAACGTTCTTTG
1 ATCATTCTTAGGCATCAAGAAACGTTCTTTG
46874073 TTATAATTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (31 bp):
ATCATTCTTAGGCATCAAGAAACGTTCTTTG
Found at i:46877381 original size:33 final size:34
Alignment explanation
Indices: 46877338--46877412 Score: 100
Period size: 33 Copynumber: 2.2 Consensus size: 34
46877328 GAGTTGGTTT
*
46877338 ATTAAATTTAGTT-AAGCTCAAATAAGTGTTAG-A
1 ATTAATTTTAGTTCAA-CTCAAATAAGTGTTAGTA
* *
46877371 TTTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
1 ATTAATTTTAGTTCAACTCAAATAAGTGTTAGTA
46877405 ATTAATTT
1 ATTAATTT
46877413 GTTTAAATCT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 26 0.72
34 10 0.28
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (34 bp):
ATTAATTTTAGTTCAACTCAAATAAGTGTTAGTA
Found at i:46877652 original size:174 final size:174
Alignment explanation
Indices: 46877362--46877709 Score: 687
Period size: 174 Copynumber: 2.0 Consensus size: 174
46877352 AGCTCAAATA
*
46877362 AGTGTTAGATTTAATTTTAGTTCAACTTAAATAAGTGTTAGTAATTAATTTGTTTAAATCTAGAC
1 AGTGTTAGAATTAATTTTAGTTCAACTTAAATAAGTGTTAGTAATTAATTTGTTTAAATCTAGAC
46877427 AAATTTAATTATTTGTGTTTAATCTGGACTTATCTCCATTTGATTTTTTAGATTTGAGGATGAAT
66 AAATTTAATTATTTGTGTTTAATCTGGACTTATCTCCATTTGATTTTTTAGATTTGAGGATGAAT
46877492 CTTTTTGAGGAAGGGGGAATGATACGAGTCACAAAGGCCCAATT
131 CTTTTTGAGGAAGGGGGAATGATACGAGTCACAAAGGCCCAATT
46877536 AGTGTTAGAATTAATTTTAGTTCAACTTAAATAAGTGTTAGTAATTAATTTGTTTAAATCTAGAC
1 AGTGTTAGAATTAATTTTAGTTCAACTTAAATAAGTGTTAGTAATTAATTTGTTTAAATCTAGAC
46877601 AAATTTAATTATTTGTGTTTAATCTGGACTTATCTCCATTTGATTTTTTAGATTTGAGGATGAAT
66 AAATTTAATTATTTGTGTTTAATCTGGACTTATCTCCATTTGATTTTTTAGATTTGAGGATGAAT
46877666 CTTTTTGAGGAAGGGGGAATGATACGAGTCACAAAGGCCCAATT
131 CTTTTTGAGGAAGGGGGAATGATACGAGTCACAAAGGCCCAATT
46877710 CAAGCTCAAG
Statistics
Matches: 173, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 173 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (174 bp):
AGTGTTAGAATTAATTTTAGTTCAACTTAAATAAGTGTTAGTAATTAATTTGTTTAAATCTAGAC
AAATTTAATTATTTGTGTTTAATCTGGACTTATCTCCATTTGATTTTTTAGATTTGAGGATGAAT
CTTTTTGAGGAAGGGGGAATGATACGAGTCACAAAGGCCCAATT
Found at i:46880511 original size:8 final size:8
Alignment explanation
Indices: 46880498--46880534 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
46880488 TTCACGCCAC
46880498 TAAAACCA
1 TAAAACCA
46880506 TAAAACCA
1 TAAAACCA
46880514 TAAAACC-
1 TAAAACCA
*
46880521 T-AAACCC
1 TAAAACCA
46880528 TAAAACC
1 TAAAACC
46880535 CTTTCCTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 5 0.19
7 2 0.07
8 20 0.74
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (8 bp):
TAAAACCA
Found at i:46881578 original size:20 final size:21
Alignment explanation
Indices: 46881540--46881578 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
46881530 TTCATGGCTT
*
46881540 TAAATAATTTTTGGGTAAAAA
1 TAAATAATTTTAGGGTAAAAA
*
46881561 TAAAT-ATTTTAGGTTAAA
1 TAAATAATTTTAGGGTAAA
46881579 TTGGAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (21 bp):
TAAATAATTTTAGGGTAAAAA
Found at i:46882020 original size:20 final size:21
Alignment explanation
Indices: 46881995--46882040 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
46881985 TTTGAATTTG
46881995 TTCAAGCATTTTGATTCAAA-
1 TTCAAGCATTTTGATTCAAAC
46882015 TTCAAGCATTTTGATTCAAAC
1 TTCAAGCATTTTGATTCAAAC
46882036 TTCAA
1 TTCAA
46882041 AATTAATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (21 bp):
TTCAAGCATTTTGATTCAAAC
Found at i:46890459 original size:20 final size:20
Alignment explanation
Indices: 46890434--46890483 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
46890424 ATTGAGCGAG
*
46890434 AAAGAGAAAAAGAGAAAAAA
1 AAAGAGAAAAAGAAAAAAAA
*
46890454 AAAGAGTGAAAAGAAAAAAAA
1 AAAGAG-AAAAAGAAAAAAAA
46890475 AGAAGAGAA
1 A-AAGAGAA
46890484 TGATGAGAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 6 0.24
21 14 0.56
22 5 0.20
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (20 bp):
AAAGAGAAAAAGAAAAAAAA
Found at i:46890467 original size:21 final size:22
Alignment explanation
Indices: 46890441--46890481 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
46890431 GAGAAAGAGA
*
46890441 AAAAGAGAAAAAAA-AAGAGTG
1 AAAAGAAAAAAAAAGAAGAGTG
46890462 AAAAGAAAAAAAAAGAAGAG
1 AAAAGAAAAAAAAAGAAGAG
46890482 AATGATGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (22 bp):
AAAAGAAAAAAAAAGAAGAGTG
Found at i:46896733 original size:25 final size:25
Alignment explanation
Indices: 46896700--46896775 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 25
46896690 AAATGATTTT
46896700 TAGA-TGTGAAAACAATAGAAACTA
1 TAGATTGTGAAAACAATAGAAACTA
* * *
46896724 TAGATTGTG-AAACTATAGGAGACAA
1 TAGATTGTGAAAACAATA-GAAACTA
* ** *
46896749 TAGATTATGAAAATGATATAAACTA
1 TAGATTGTGAAAACAATAGAAACTA
46896774 TA
1 TA
46896776 TTATAGAGGG
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
24 11 0.28
25 23 0.57
26 6 0.15
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.26
Consensus pattern (25 bp):
TAGATTGTGAAAACAATAGAAACTA
Found at i:46903338 original size:18 final size:20
Alignment explanation
Indices: 46903317--46903366 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
46903307 AAAGGAAGAC
46903317 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
46903335 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
46903355 AGAAAAAAGAGA
1 AG-AAAAAGAGA
46903367 TTGAGAGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 2 0.07
21 9 0.32
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:46905082 original size:33 final size:34
Alignment explanation
Indices: 46905045--46905125 Score: 114
Period size: 33 Copynumber: 2.5 Consensus size: 34
46905035 GAGTTAGTTT
*
46905045 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
* *
46905078 ATTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
46905112 ATT-AATTT-GTTCAA
1 ATTAAATTTAGTTCAA
46905126 ATCTGGACAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
32 6 0.14
33 33 0.77
34 4 0.09
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.42
Consensus pattern (34 bp):
ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
Found at i:46905963 original size:179 final size:179
Alignment explanation
Indices: 46905663--46906029 Score: 700
Period size: 179 Copynumber: 2.1 Consensus size: 179
46905653 GAGACTTAGT
*
46905663 TGAAAATCAGGCCAAATTGTCAAACTGGCCCAACTTGTAACATTTTAATTCTTTAATTTTTAGAC
1 TGAAAATCAGGCCAAATTGTCAAACTGGCCCAACTTGTAAAATTTTAATTCTTTAATTTTTAGAC
46905728 TATATGATTAATGCCTATGTAAAAAAATTCAGCCCAAGCAGCCCATTAAATGCCTTGTGAAGGCA
66 TATATGATTAATGCCTATGTAAAAAAATTCAGCCCAAGCAGCCCATTAAATGCCTTGTGAAGGCA
46905793 TATTAATAGGCTTGGCCAGCCACCTTGTGAAAACACTTGAGGAATACAA
131 TATTAATAGGCTTGGCCAGCCACCTTGTGAAAACACTTGAGGAATACAA
* *
46905842 TGAAAATCAGGCCAAATTGTCAAAGTGGCCCAATTTGTAAAATTTTAATTCTTTAATTTTTAGAC
1 TGAAAATCAGGCCAAATTGTCAAACTGGCCCAACTTGTAAAATTTTAATTCTTTAATTTTTAGAC
46905907 TATATGATTAATGCCTATGTAAAAAAATTCAGCCCAAGCAGCCCATTAAATGCCTTGTGAAGGCA
66 TATATGATTAATGCCTATGTAAAAAAATTCAGCCCAAGCAGCCCATTAAATGCCTTGTGAAGGCA
46905972 TATTAATAGGCTTGGCCAGCCACCTTGTGAAAACACTTGAGGAATACAA
131 TATTAATAGGCTTGGCCAGCCACCTTGTGAAAACACTTGAGGAATACAA
46906021 TG-AAATCAG
1 TGAAAATCAG
46906030 ATTTGTTTTG
Statistics
Matches: 185, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
178 7 0.04
179 178 0.96
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (179 bp):
TGAAAATCAGGCCAAATTGTCAAACTGGCCCAACTTGTAAAATTTTAATTCTTTAATTTTTAGAC
TATATGATTAATGCCTATGTAAAAAAATTCAGCCCAAGCAGCCCATTAAATGCCTTGTGAAGGCA
TATTAATAGGCTTGGCCAGCCACCTTGTGAAAACACTTGAGGAATACAA
Found at i:46914518 original size:21 final size:22
Alignment explanation
Indices: 46914479--46914520 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
46914469 ATATTTCTTG
* *
46914479 CAAAAAAATTAGTAGAAAAAGT
1 CAAAAAAATTAGAAAAAAAAGT
46914501 CAAAAAAATT-GAAAAAAAAG
1 CAAAAAAATTAGAAAAAAAAG
46914521 AAATTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.69, C:0.05, G:0.12, T:0.14
Consensus pattern (22 bp):
CAAAAAAATTAGAAAAAAAAGT
Found at i:46916379 original size:13 final size:13
Alignment explanation
Indices: 46916361--46916390 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
46916351 TCCAGCAACA
46916361 ATGAATTTATTTC
1 ATGAATTTATTTC
*
46916374 ATGAATTTATTTG
1 ATGAATTTATTTC
46916387 ATGA
1 ATGA
46916391 TGATCCAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:46916544 original size:50 final size:50
Alignment explanation
Indices: 46916485--46916676 Score: 298
Period size: 50 Copynumber: 3.8 Consensus size: 50
46916475 ATTGGGGTAA
46916485 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
46916535 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
46916585 AGAGGTCCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
46916634 AGTACATCCCATGTAAGACCATGGCTGGGACATGG-ATTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCA
46916677 TGTTATTATC
Statistics
Matches: 131, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
49 39 0.30
50 65 0.50
51 27 0.21
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:46919318 original size:37 final size:37
Alignment explanation
Indices: 46919275--46919353 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
46919265 TTATTACGAA
* * *
46919275 GTCTTACCCGGAC-ATAATCTCCACACGAAGTTATTGG
1 GTCTTACCCGGACAAT-ATCCCCACACGAAGTCATCGG
*
46919312 GTCTTACCCGGACAATATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAATATCCCCACACGAAGTCATCGG
46919349 GTCTT
1 GTCTT
46919354 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAATATCCCCACACGAAGTCATCGG
Found at i:46919597 original size:49 final size:49
Alignment explanation
Indices: 46919472--46919986 Score: 914
Period size: 49 Copynumber: 10.6 Consensus size: 49
46919462 CCCTTCGGGA
* * * * *
46919472 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46919518 CTCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46919566 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46919615 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46919664 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46919713 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46919762 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46919811 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46919860 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46919909 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46919958 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
46919987 TATTCAAATA
Statistics
Matches: 452, Mismatches: 11, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
46 3 0.01
47 40 0.09
48 2 0.00
49 407 0.90
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46925989 original size:290 final size:290
Alignment explanation
Indices: 46925469--46926048 Score: 1160
Period size: 290 Copynumber: 2.0 Consensus size: 290
46925459 ATAGTGATGC
46925469 ATCATTAAATGGTTTAGGTTGTGTCTTGATGCAAGAAGATAAAGTAATAGCCTATATTTCAAGAC
1 ATCATTAAATGGTTTAGGTTGTGTCTTGATGCAAGAAGATAAAGTAATAGCCTATATTTCAAGAC
46925534 AACTTAAGCCACATGAAAGAAACTACCCGGTACATGATCTTGAATTAGCTGCTATTGTATTTGCA
66 AACTTAAGCCACATGAAAGAAACTACCCGGTACATGATCTTGAATTAGCTGCTATTGTATTTGCA
46925599 TTGAAAATATGGCGGCATTATTTGTATGGTGAGAAATGTCATATTTATACTGATCACAAAAGCCT
131 TTGAAAATATGGCGGCATTATTTGTATGGTGAGAAATGTCATATTTATACTGATCACAAAAGCCT
46925664 GAAATATTTGATGACACAAAAAGATTTGAATTTGAGACAACGCAGATGGCTAGAATTGATAAAAG
196 GAAATATTTGATGACACAAAAAGATTTGAATTTGAGACAACGCAGATGGCTAGAATTGATAAAAG
46925729 ATTATGATTTGGTTATTGATTATCATTCGA
261 ATTATGATTTGGTTATTGATTATCATTCGA
46925759 ATCATTAAATGGTTTAGGTTGTGTCTTGATGCAAGAAGATAAAGTAATAGCCTATATTTCAAGAC
1 ATCATTAAATGGTTTAGGTTGTGTCTTGATGCAAGAAGATAAAGTAATAGCCTATATTTCAAGAC
46925824 AACTTAAGCCACATGAAAGAAACTACCCGGTACATGATCTTGAATTAGCTGCTATTGTATTTGCA
66 AACTTAAGCCACATGAAAGAAACTACCCGGTACATGATCTTGAATTAGCTGCTATTGTATTTGCA
46925889 TTGAAAATATGGCGGCATTATTTGTATGGTGAGAAATGTCATATTTATACTGATCACAAAAGCCT
131 TTGAAAATATGGCGGCATTATTTGTATGGTGAGAAATGTCATATTTATACTGATCACAAAAGCCT
46925954 GAAATATTTGATGACACAAAAAGATTTGAATTTGAGACAACGCAGATGGCTAGAATTGATAAAAG
196 GAAATATTTGATGACACAAAAAGATTTGAATTTGAGACAACGCAGATGGCTAGAATTGATAAAAG
46926019 ATTATGATTTGGTTATTGATTATCATTCGA
261 ATTATGATTTGGTTATTGATTATCATTCGA
46926049 GTAAGGCTAA
Statistics
Matches: 290, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
290 290 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (290 bp):
ATCATTAAATGGTTTAGGTTGTGTCTTGATGCAAGAAGATAAAGTAATAGCCTATATTTCAAGAC
AACTTAAGCCACATGAAAGAAACTACCCGGTACATGATCTTGAATTAGCTGCTATTGTATTTGCA
TTGAAAATATGGCGGCATTATTTGTATGGTGAGAAATGTCATATTTATACTGATCACAAAAGCCT
GAAATATTTGATGACACAAAAAGATTTGAATTTGAGACAACGCAGATGGCTAGAATTGATAAAAG
ATTATGATTTGGTTATTGATTATCATTCGA
Found at i:46926574 original size:396 final size:396
Alignment explanation
Indices: 46925842--46926634 Score: 1559
Period size: 396 Copynumber: 2.0 Consensus size: 396
46925832 CCACATGAAA
* * *
46925842 GAAACTACCCGGTACATGATCTTGAATTAGCTGCTATTGTATTTGCATTGAAAATATGGCGGCAT
1 GAAACTACCCGGTACATGATCTCGAACTAGCTGCTATTGTATTTACATTGAAAATATGGCGGCAT
46925907 TATTTGTATGGTGAGAAATGTCATATTTATACTGATCACAAAAGCCTGAAATATTTGATGACACA
66 TATTTGTATGGTGAGAAATGTCATATTTATACTGATCACAAAAGCCTGAAATATTTGATGACACA
46925972 AAAAGATTTGAATTTGAGACAACGCAGATGGCTAGAATTGATAAAAGATTATGATTTGGTTATTG
131 AAAAGATTTGAATTTGAGACAACGCAGATGGCTAGAATTGATAAAAGATTATGATTTGGTTATTG
46926037 ATTATCATTCGAGTAAGGCTAATGTTGTAGCTGATGCTTTGAGTCAGAAATCTCTGTTTGCTTTA
196 ATTATCATTCGAGTAAGGCTAATGTTGTAGCTGATGCTTTGAGTCAGAAATCTCTGTTTGCTTTA
46926102 CGAGCTATGAATGCCCAGTTGTCATTGGCTGATGATGGTTCAATTATAGCTGAAATGAAGGCTAA
261 CGAGCTATGAATGCCCAGTTGTCATTGGCTGATGATGGTTCAATTATAGCTGAAATGAAGGCTAA
46926167 ATAGATGTTTCGTCAACAAATATGTGAAGCTCAGAAAAATGATGAGAAGTTACAGGCTAAACAGG
326 ATAGATGTTTCGTCAACAAATATGTGAAGCTCAGAAAAATGATGAGAAGTTACAGGCTAAACAGG
46926232 TACAAT
391 TACAAT
46926238 GAAACTACCCGGTACATGATCTCGAACTAGCTGCTATTGTATTTACATTGAAAATATGGCGGCAT
1 GAAACTACCCGGTACATGATCTCGAACTAGCTGCTATTGTATTTACATTGAAAATATGGCGGCAT
46926303 TATTTGTATGGTGAGAAATGTCATATTTATACTGATCACAAAAGCCTGAAATATTTGATGACACA
66 TATTTGTATGGTGAGAAATGTCATATTTATACTGATCACAAAAGCCTGAAATATTTGATGACACA
46926368 AAAAGATTTGAATTTGAGACAACGCAGATGGCTAGAATTGATAAAAGATTATGATTTGGTTATTG
131 AAAAGATTTGAATTTGAGACAACGCAGATGGCTAGAATTGATAAAAGATTATGATTTGGTTATTG
46926433 ATTATCATTCGAGTAAGGCTAATGTTGTAGCTGATGCTTTGAGTCAGAAATCTCTGTTTGCTTTA
196 ATTATCATTCGAGTAAGGCTAATGTTGTAGCTGATGCTTTGAGTCAGAAATCTCTGTTTGCTTTA
46926498 CGAGCTATGAATGCCCAGTTGTCATTGGCTGATGATGGTTCAATTATAGCTGAAATGAAGGCTAA
261 CGAGCTATGAATGCCCAGTTGTCATTGGCTGATGATGGTTCAATTATAGCTGAAATGAAGGCTAA
46926563 ATAGATGTTTCGTCAACAAATATGTGAAGCTCAGAAAAATGATGAGAAGTTACAGGCTAAACAGG
326 ATAGATGTTTCGTCAACAAATATGTGAAGCTCAGAAAAATGATGAGAAGTTACAGGCTAAACAGG
46926628 TACAAT
391 TACAAT
46926634 G
1 G
46926635 TGAGTCAGGT
Statistics
Matches: 394, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
396 394 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.32
Consensus pattern (396 bp):
GAAACTACCCGGTACATGATCTCGAACTAGCTGCTATTGTATTTACATTGAAAATATGGCGGCAT
TATTTGTATGGTGAGAAATGTCATATTTATACTGATCACAAAAGCCTGAAATATTTGATGACACA
AAAAGATTTGAATTTGAGACAACGCAGATGGCTAGAATTGATAAAAGATTATGATTTGGTTATTG
ATTATCATTCGAGTAAGGCTAATGTTGTAGCTGATGCTTTGAGTCAGAAATCTCTGTTTGCTTTA
CGAGCTATGAATGCCCAGTTGTCATTGGCTGATGATGGTTCAATTATAGCTGAAATGAAGGCTAA
ATAGATGTTTCGTCAACAAATATGTGAAGCTCAGAAAAATGATGAGAAGTTACAGGCTAAACAGG
TACAAT
Found at i:46929092 original size:13 final size:13
Alignment explanation
Indices: 46929074--46929103 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
46929064 TACAGCAACA
46929074 ATGAATTTATTTC
1 ATGAATTTATTTC
*
46929087 ATGAATTTATTTG
1 ATGAATTTATTTC
46929100 ATGA
1 ATGA
46929104 TGATCCATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:46929266 original size:50 final size:50
Alignment explanation
Indices: 46929198--46929440 Score: 369
Period size: 50 Copynumber: 4.8 Consensus size: 50
46929188 ATTGGGGTAA
* *
46929198 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGGGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
46929248 AGAGGTCCCAAGTGAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
46929298 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
46929348 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
46929398 AGTACATCCCATCTAAGACCATGTCTGGGACATGCCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
46929441 TGTTATTATC
Statistics
Matches: 176, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 143 0.81
51 33 0.19
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:46936145 original size:89 final size:89
Alignment explanation
Indices: 46936042--46936235 Score: 388
Period size: 89 Copynumber: 2.2 Consensus size: 89
46936032 TCAAGAAAAT
46936042 CAAGAAACCGAATCTTGGCCCAATGTTGCTGTTTGGAGCGTTTTCCAGAATAAAGAAAATCAGGA
1 CAAGAAACCGAATCTTGGCCCAATGTTGCTGTTTGGAGCGTTTTCCAGAATAAAGAAAATCAGGA
46936107 TTTCAAATCTTGGAAATCTTGGTC
66 TTTCAAATCTTGGAAATCTTGGTC
46936131 CAAGAAACCGAATCTTGGCCCAATGTTGCTGTTTGGAGCGTTTTCCAGAATAAAGAAAATCAGGA
1 CAAGAAACCGAATCTTGGCCCAATGTTGCTGTTTGGAGCGTTTTCCAGAATAAAGAAAATCAGGA
46936196 TTTCAAATCTTGGAAATCTTGGTC
66 TTTCAAATCTTGGAAATCTTGGTC
46936220 CAAGAAACCGAATCTT
1 CAAGAAACCGAATCTT
46936236 ACAGCCAAAG
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 105 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (89 bp):
CAAGAAACCGAATCTTGGCCCAATGTTGCTGTTTGGAGCGTTTTCCAGAATAAAGAAAATCAGGA
TTTCAAATCTTGGAAATCTTGGTC
Found at i:46958318 original size:20 final size:20
Alignment explanation
Indices: 46958293--46958337 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
46958283 GCTAATGGAA
* *
46958293 AGCTAAATTGAGCTCGAATG
1 AGCTAAACTGAGCTCAAATG
46958313 AGCTAAACTGAGCTCAAATG
1 AGCTAAACTGAGCTCAAATG
46958333 AGCTA
1 AGCTA
46958338 GTTGGAGCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (20 bp):
AGCTAAACTGAGCTCAAATG
Found at i:46958345 original size:20 final size:19
Alignment explanation
Indices: 46958322--46958377 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
46958312 GAGCTAAACT
* *
46958322 GAGCTCAAATGAGCTAGTTG
1 GAGCTAAAATGAGCTAG-GG
*
46958342 GAGCTAAAACGAGCTAGGG
1 GAGCTAAAATGAGCTAGGG
*
46958361 GAGCTGAAATTGAGCTA
1 GAGCT-AAAATGAGCTA
46958378 AAATCAGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 6 0.20
20 24 0.80
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.20
Consensus pattern (19 bp):
GAGCTAAAATGAGCTAGGG
Found at i:46961431 original size:20 final size:19
Alignment explanation
Indices: 46961401--46961450 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
46961391 GCACTCCCAA
46961401 TCTCTTTTTTCTCTTTTTCAT
1 TCTC-TTTTTCT-TTTTTCAT
*
46961422 TCTCTTTTTCTTTTTTGAT
1 TCTCTTTTTCTTTTTTCAT
46961441 T-TCTTTTTCT
1 TCTCTTTTTCT
46961451 GTCTTCCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 7 0.25
21 4 0.14
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (19 bp):
TCTCTTTTTCTTTTTTCAT
Done.