Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 58 of 127
Found at i:11280787 original size:43 final size:43
Alignment explanation
Indices: 11280717--11280827 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 43
11280707 ATGATTAATA
* * *
11280717 AATTTACTACTAATTATCATTGATTTACAACTAAGTTATGAGT
1 AATTTACTACTAATTATCAGTGATTTACAACTAAGTTATCAAT
* * ***
11280760 AATTTATTACTACATTATTAGTG-TTTACTTTTAAGTTATCAAT
1 AATTTACTACTA-ATTATCAGTGATTTACAACTAAGTTATCAAT
*
11280803 AATTTACTACTAAATTATCAATGAT
1 AATTTACTACT-AATTATCAGTGAT
11280828 CTATTATTAT
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
43 44 0.81
44 10 0.19
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (43 bp):
AATTTACTACTAATTATCAGTGATTTACAACTAAGTTATCAAT
Found at i:11280808 original size:22 final size:22
Alignment explanation
Indices: 11280717--11280931 Score: 98
Period size: 22 Copynumber: 9.9 Consensus size: 22
11280707 ATGATTAATA
*
11280717 AATTTACTACT-AATTATCATT
1 AATTTACTACTAAATTATCAAT
* * * * *
11280738 GATTTACAACTAAGTTATGAGT
1 AATTTACTACTAAATTATCAAT
* * * *
11280760 AATTTATTACTACATTATTAGT
1 AATTTACTACTAAATTATCAAT
* ** *
11280782 -GTTTACTTTTAAGTTATCAAT
1 AATTTACTACTAAATTATCAAT
11280803 AATTTACTACTAAATTATCAAT
1 AATTTACTACTAAATTATCAAT
* * * * * *
11280825 GATCTATTATTATATTA-CTAT
1 AATTTACTACTAAATTATCAAT
* * *
11280846 ATATTTACTATTATATTATCATT
1 A-ATTTACTACTAAATTATCAAT
** * * *
11280869 GGTCTACTACTTAATT-TCTGAT
1 AATTTACTACTAAATTATC-AAT
* *
11280891 TATTTACTACAAAATTATC-AT
1 AATTTACTACTAAATTATCAAT
11280912 CAATTTACTACTAAATTATC
1 -AATTTACTACTAAATTATC
11280932 TATGATTCAT
Statistics
Matches: 138, Mismatches: 49, Indels: 13
0.69 0.25 0.06
Matches are distributed among these distances:
21 29 0.21
22 105 0.76
23 4 0.03
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.47
Consensus pattern (22 bp):
AATTTACTACTAAATTATCAAT
Found at i:11280911 original size:44 final size:44
Alignment explanation
Indices: 11280804--11280911 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 44
11280794 GTTATCAATA
* *
11280804 ATTTACTACTAAATTATCAATGATCTATTATTATATTACTATAT
1 ATTTACTACTAAATTATCATTGATCTACTATTATATTACTATAT
* * * *
11280848 ATTTACTATTATATTATCATTGGTCTACTACTTA-ATTTCTGAT-T
1 ATTTACTACTAAATTATCATTGATCTACTA-TTATATTACT-ATAT
*
11280892 ATTTACTACAAAATTATCAT
1 ATTTACTACTAAATTATCAT
11280912 CAATTTACTA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
44 48 0.91
45 5 0.09
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.48
Consensus pattern (44 bp):
ATTTACTACTAAATTATCATTGATCTACTATTATATTACTATAT
Found at i:11280971 original size:22 final size:22
Alignment explanation
Indices: 11280946--11280991 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
11280936 ATTCATTACC
11280946 AAGTTAT-AACGGATTTACTATT
1 AAGTTATCAA-GGATTTACTATT
* *
11280968 AAGTTATCAATGATTTATTATT
1 AAGTTATCAAGGATTTACTATT
11280990 AA
1 AA
11280992 TGATTAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (22 bp):
AAGTTATCAAGGATTTACTATT
Found at i:11281242 original size:22 final size:21
Alignment explanation
Indices: 11281217--11281326 Score: 94
Period size: 22 Copynumber: 5.0 Consensus size: 21
11281207 TTATAACTAT
11281217 ATTATAATTAATTTACTATTAA
1 ATTATAATT-ATTTACTATTAA
* *
11281239 ATTATTATGTATTTACTATTAT
1 ATTATAAT-TATTTACTATTAA
* * * *
11281261 GTTATTACTTATTTATTACTAA
1 ATTA-TAATTATTTACTATTAA
* *
11281283 ATTATCAATTATTGACTACTAA
1 ATTAT-AATTATTTACTATTAA
*
11281305 ATTATTATTTATTTACTATTAA
1 ATTA-TAATTATTTACTATTAA
11281327 GATATCATTA
Statistics
Matches: 69, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
21 1 0.01
22 64 0.93
23 4 0.06
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (21 bp):
ATTATAATTATTTACTATTAA
Found at i:11281275 original size:44 final size:44
Alignment explanation
Indices: 11281227--11281326 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 44
11281217 ATTATAATTA
* * * **
11281227 ATTTACTATTAAATTAT-TATGTATTTACTATTATGTTATTACTT
1 ATTTACTATTAAATTATCAAT-TATTGACTACTAAATTATTACTT
* * *
11281271 ATTTATTACTAAATTATCAATTATTGACTACTAAATTATTATTT
1 ATTTACTATTAAATTATCAATTATTGACTACTAAATTATTACTT
11281315 ATTTACTATTAA
1 ATTTACTATTAA
11281327 GATATCATTA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
44 43 0.96
45 2 0.04
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (44 bp):
ATTTACTATTAAATTATCAATTATTGACTACTAAATTATTACTT
Found at i:11281323 original size:66 final size:65
Alignment explanation
Indices: 11281130--11281325 Score: 198
Period size: 66 Copynumber: 3.0 Consensus size: 65
11281120 AATAATTTAC
* ** * ** * *
11281130 TATTACATTGATTTATTATTAAATTATCAATTATTTTTATTAAAATATCCTTAATTTACTACTAT
1 TATTAC-TT-ATTTATTACTAAATTATCAATTATTACTATTAAATTATTATTTATTTACTATTAT
11281195 GT
64 GT
* * * * *
11281197 TGTTA-TGCATTTATAACTATATTAT-AATTAATTTACTATTAAATTATTATGTATTTACTATTA
1 TATTACT-TATTTATTACTAAATTATCAATT-A-TTACTATTAAATTATTATTTATTTACTATTA
11281260 TGT
63 TGT
*
11281263 TATTACTTATTTATTACTAAATTATCAATTATTGACTACTAAATTATTATTTATTTACTATTA
1 TATTACTTATTTATTACTAAATTATCAATTATT-ACTATTAAATTATTATTTATTTACTATTA
11281326 AGATATCATT
Statistics
Matches: 104, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
64 4 0.04
65 18 0.17
66 73 0.70
67 9 0.09
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.53
Consensus pattern (65 bp):
TATTACTTATTTATTACTAAATTATCAATTATTACTATTAAATTATTATTTATTTACTATTATGT
Found at i:11286075 original size:25 final size:25
Alignment explanation
Indices: 11286015--11286066 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
11286005 TAATGTGTTC
*
11286015 AGAAACATC-ATTCAGCAAACCATTT
1 AGAAACA-CAATTAAGCAAACCATTT
*
11286040 AGAAACACAATTAAGCAAATCATTT
1 AGAAACACAATTAAGCAAACCATTT
11286065 AG
1 AG
11286067 CATACCAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.48, C:0.19, G:0.10, T:0.23
Consensus pattern (25 bp):
AGAAACACAATTAAGCAAACCATTT
Found at i:11287176 original size:238 final size:237
Alignment explanation
Indices: 11286871--11287422 Score: 684
Period size: 238 Copynumber: 2.3 Consensus size: 237
11286861 TTTTATATAA
* * * * * *
11286871 AAGATGCCTTAAATAATCCTAAATAATTTTTCAAAGGAAATTATTAAAGTCGTTTATCCTCAAAA
1 AAGATGCCTTTAATAATCC-AAATAATTTTTAAAAGAAAATTATTAAAGGCATTTATCCTAAAAA
* * * * *
11286936 AATATCTTCAATGATTCTGTACGAAAATTATTGAAAGTGTATAATGCAAAAAATGCTTTCAATAA
65 AATACCTTCAATAATTCTGTACAAAAATTATTGAAAGTGTATAATGCAAAAAATGCCTTCAAAAA
* * * *
11287001 TT-TTTTCAAAAATTAGAATGAATTAGTGAAGGCGTTTCTATCAAATAAACACCTTGAATAACCT
130 TTCCTTT-AAAAACTAGAACGAATTAGTGAAGGCGTTTCTATCAAATAAACACCTTCAATAACCT
*
11287065 TCTAAAAATTTTAATAGTGAAATATTAAAGGTATTTTCTACT-AG
194 TCTAAAAATTTTAATAGTGAAATATTAAAGGCATTTTCTA-TGAG
* *
11287109 AAGATGCCTTTAATAATCTCAAATAATTTTTAAAAGAAAATTATTGAAGGCATTTATTCTAAAAA
1 AAGATGCCTTTAATAATC-CAAATAATTTTTAAAAGAAAATTATTAAAGGCATTTATCCTAAAAA
* * *
11287174 AATGCCTTCAATAATTCTGTACAAAAATTATTGAAGGTGTATAATGGAAAAAATGCCTTCAAAAA
65 AATACCTTCAATAATTCTGTACAAAAATTATTGAAAGTGTATAATGCAAAAAATGCCTTCAAAAA
* * ** *
11287239 TTCCTTTAAAAACTAGAACGAATTAGTGAAGGTGTTTTTATGGAATAAACACCTTCAATAACTTT
130 TTCCTTTAAAAACTAGAACGAATTAGTGAAGGCGTTTCTATCAAATAAACACCTTCAATAACCTT
* * *
11287304 CTTAAAATTTTAGTAGTGAAATATTAAAGGCGTTTTCTATGAG
195 CTAAAAATTTTAATAGTGAAATATTAAAGGCATTTTCTATGAG
* * * * * * *
11287347 AAGACGCCTTTAAAAATCCCAAACAA--TTTAAAAAAAAATTATTTAAGGCATATAATGC--AAA
1 AAGATGCCTTTAATAAT-CCAAATAATTTTTAAAAGAAAATTATTAAAGGCAT-TTATCCTAAAA
11287408 AAATACCTTCAATAA
64 AAATACCTTCAATAA
11287423 ATTTTTTCAA
Statistics
Matches: 272, Mismatches: 37, Indels: 13
0.84 0.11 0.04
Matches are distributed among these distances:
235 17 0.06
236 23 0.08
237 5 0.02
238 222 0.82
239 5 0.02
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (237 bp):
AAGATGCCTTTAATAATCCAAATAATTTTTAAAAGAAAATTATTAAAGGCATTTATCCTAAAAAA
ATACCTTCAATAATTCTGTACAAAAATTATTGAAAGTGTATAATGCAAAAAATGCCTTCAAAAAT
TCCTTTAAAAACTAGAACGAATTAGTGAAGGCGTTTCTATCAAATAAACACCTTCAATAACCTTC
TAAAAATTTTAATAGTGAAATATTAAAGGCATTTTCTATGAG
Found at i:11287636 original size:187 final size:184
Alignment explanation
Indices: 11287196--11287771 Score: 696
Period size: 187 Copynumber: 3.1 Consensus size: 184
11287186 AATTCTGTAC
* * * * * *
11287196 AAAAATTATTGAAGGTGTATAATGGAAAAAATGCCTTCAA-AAATTCCTTTAAAAACTAGAACGA
1 AAAAATTATTGAAGGCGTATAAT-GCAAAAATACCTTCAATAAATTTCTTAAAAAATTAGAACGA
* * **
11287260 ATTAGTGAAGGTGTTTTTATGGAATAAACACC-TTCAATAACTTTCTTAAAATTTTAGTAGTGAA
65 ATTAGTGAAGGTTTTTTTTTGGAATAAACACCTTTC-ATAAC-CCCTTAAAATTTTAGTAGTGAA
* * * * *
11287324 ATATTAAAGGCGTTTTCTATGAGAAGACGCCTTTAAAAATCCCAAACAA--TTTAAAA
128 ATATTGAAGGCGTTTTCTCT-ATAAGACGCCTTTAATAATCCCAAACAATTTTTAATA
* * * * *
11287380 AAAAATTATTTAAGGCATATAATGCAAAAAATACCTTCAATAAATTTTTTCAAAAATTAAAACGA
1 AAAAATTATTGAAGGCGTATAATGC-AAAAATACCTTCAATAAATTTCTTAAAAAATTAGAACGA
11287445 ATTAGTGAAGGCATTTTTTTTTGGAATAAACACCTTTCATAACCCCTTAAAATTTTAGTAGT-AT
65 ATTAGTGAAGG--TTTTTTTTTGGAATAAACACCTTTCATAACCCCTTAAAATTTTAGTAGTGA-
11287509 AATATTGAAGGCGTTTTCTGCTATAAGACGCCTTTAATAATCCCAAACAATTTTTAATA
127 AATATTGAAGGCGTTTTCT-CTATAAGACGCCTTTAATAATCCCAAACAATTTTTAATA
** *
11287568 GGAAATTATTGAAGGCGTATAATGCAAAAATACCTTTAATAAATTTCTTAAAAAATTAGAACGAA
1 AAAAATTATTGAAGGCGTATAATGCAAAAATACCTTCAATAAATTTCTTAAAAAATTAGAACGAA
*** **
11287633 TTAGTGAAGGTTTTTTTTTTTTTGGAATAAATTTCTTAGATAACCCCCTTAAAATTTTAGTAGTG
66 TTAGTGAAGG----TTTTTTTTTGGAATAAACACCTTTCATAA-CCCCTTAAAATTTTAGTAGTG
* * *
11287698 AAATATTGAAGGCATTTTCTACTATAAGACGCTTTTAATAATTCCAAA-AATTTTTAATA
126 AAATATTGAAGGCGTTTTCT-CTATAAGACGCCTTTAATAATCCCAAACAATTTTTAATA
11287757 AAAAATTATTGAAGG
1 AAAAATTATTGAAGG
11287772 TATTTTTTCT
Statistics
Matches: 339, Mismatches: 40, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
183 1 0.00
184 33 0.10
185 31 0.09
186 61 0.18
187 71 0.21
188 30 0.09
189 48 0.14
190 63 0.19
191 1 0.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (184 bp):
AAAAATTATTGAAGGCGTATAATGCAAAAATACCTTCAATAAATTTCTTAAAAAATTAGAACGAA
TTAGTGAAGGTTTTTTTTTGGAATAAACACCTTTCATAACCCCTTAAAATTTTAGTAGTGAAATA
TTGAAGGCGTTTTCTCTATAAGACGCCTTTAATAATCCCAAACAATTTTTAATA
Found at i:11290418 original size:21 final size:21
Alignment explanation
Indices: 11290393--11290437 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
11290383 TTATATTATG
11290393 CAAGTTGGTGATACTGATATT
1 CAAGTTGGTGATACTGATATT
* *
11290414 CAAGTTGGTGATATTGATGTT
1 CAAGTTGGTGATACTGATATT
11290435 CAA
1 CAA
11290438 AGTGATGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (21 bp):
CAAGTTGGTGATACTGATATT
Found at i:11297780 original size:16 final size:16
Alignment explanation
Indices: 11297744--11297777 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
11297734 CTTTTATTTG
11297744 AAATTTTATTATACTA
1 AAATTTTATTATACTA
11297760 AAATTTTATTATA-TA
1 AAATTTTATTATACTA
11297775 AAA
1 AAA
11297778 ATTAAAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATTTTATTATACTA
Found at i:11297808 original size:5 final size:5
Alignment explanation
Indices: 11297798--11297822 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11297788 ATGATTTTAA
11297798 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
11297823 TTTAACCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:11298859 original size:27 final size:27
Alignment explanation
Indices: 11298811--11298862 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
11298801 GATTTAAATT
* *
11298811 AAACTTAAATATTATTCAAAAAATTTA
1 AAACTTAAATATAATTAAAAAAATTTA
11298838 AAACTTAAATA-AATTAATAAAAATT
1 AAACTTAAATATAATTAA-AAAAATT
11298863 ATATGTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (27 bp):
AAACTTAAATATAATTAAAAAAATTTA
Found at i:11301089 original size:2 final size:2
Alignment explanation
Indices: 11301082--11301121 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
11301072 GCACAGAAGG
* *
11301082 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11301122 TTTGTGATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:11308834 original size:22 final size:21
Alignment explanation
Indices: 11308806--11308853 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 21
11308796 TTGGTTTCTT
11308806 AAAAAAAAGAAGA-GAATTTAAA
1 AAAAAAAAGAA-ATGAA-TTAAA
11308828 AAAAAAAAGAAATGAATTAAA
1 AAAAAAAAGAAATGAATTAAA
11308849 AAAAA
1 AAAAA
11308854 TAAGTGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.12
Consensus pattern (21 bp):
AAAAAAAAGAAATGAATTAAA
Found at i:11310648 original size:53 final size:51
Alignment explanation
Indices: 11310487--11310669 Score: 188
Period size: 53 Copynumber: 3.5 Consensus size: 51
11310477 TATATAATTA
* * * *
11310487 TTTCACTATTTGGGCCAAATTAGAAATATTTTCTTTTTTGAATTTTTAAAAT
1 TTTCACTATTTGGGTCTATTTA-AAATATTTTCTTTTTTGAATTTATAAAAT
* * * * ** *
11310539 TTTCACTATTTGGCTCTATTTAGAATTTCTTTTTATTTTTTTATTTATAAATT
1 TTTCACTATTTGGGTCTATTTAAAATAT-TTTCT-TTTTTGAATTTATAAAAT
* *
11310592 TTTCACCATTTGGGT-TAATTTTAAAATATTTTCTTTTTTGAAATTTCTAAAAT
1 TTTCACTATTTGGGTCT-A-TTTAAAATATTTTCTTTTTTG-AATTTATAAAAT
11310645 TTTCACTATTTGGGTCTATTTAAAA
1 TTTCACTATTTGGGTCTATTTAAAA
11310670 ATTCTTTTAT
Statistics
Matches: 104, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
51 4 0.04
52 35 0.34
53 56 0.54
54 9 0.09
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.54
Consensus pattern (51 bp):
TTTCACTATTTGGGTCTATTTAAAATATTTTCTTTTTTGAATTTATAAAAT
Found at i:11310720 original size:106 final size:104
Alignment explanation
Indices: 11310510--11310718 Score: 235
Period size: 106 Copynumber: 2.0 Consensus size: 104
11310500 GCCAAATTAG
* * *
11310510 AAATATTTTCTTTTTTGAATTTTTAAAATTTTCACTATTTGGCTCTATTTAGAATTTCTTTTTAT
1 AAATATTTTCTTTTTTGAATTTCTAAAATTTTCACTATTTGGCTCTATTTAAAAATTCTTTTTAT
* **** * **
11310575 TTTTTTATTTATAAATTTTTCACCATTTGGGTTAATTTTA
66 TTTTTTATTTAGAAAGAAATCA-CATATGAATTAATTTTA
*
11310615 AAATATTTTCTTTTTTGAAATTTCTAAAATTTTCACTATTTGGGTCTATTTAAAAATTC-TTTTA
1 AAATATTTTCTTTTTTG-AATTTCTAAAATTTTCACTATTTGGCTCTATTTAAAAATTCTTTTTA
*
11310679 TTTATTTTTTTTAGAAAGAAAT-A-ATATGACAATTAATTTT
65 TTT-TTTTATTTAGAAAGAAATCACATATG--AATTAATTTT
11310719 TATTGAAATT
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
103 4 0.05
105 34 0.39
106 49 0.56
ACGTcount: A:0.30, C:0.08, G:0.07, T:0.56
Consensus pattern (104 bp):
AAATATTTTCTTTTTTGAATTTCTAAAATTTTCACTATTTGGCTCTATTTAAAAATTCTTTTTAT
TTTTTTATTTAGAAAGAAATCACATATGAATTAATTTTA
Found at i:11310987 original size:26 final size:23
Alignment explanation
Indices: 11310970--11311015 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
11310960 AATTTCTTAC
11310970 TTAGAAATTTTATAAAAATTTACCA
1 TTAGAAATTTT-TAAAAATTT-CCA
*
11310995 TTTGAAATTTTTAAAAATTTC
1 TTAGAAATTTTTAAAAATTTC
11311016 ATGATTGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 9 0.45
25 10 0.50
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (23 bp):
TTAGAAATTTTTAAAAATTTCCA
Found at i:11311120 original size:4 final size:4
Alignment explanation
Indices: 11311097--11311138 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
11311087 GCAAAAATAC
* *
11311097 TAAA -AAA TAAA CATA TAAA TAAA TAAA TAAA T-AA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
11311139 ACACTAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 6 0.19
4 26 0.81
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:11315634 original size:7 final size:7
Alignment explanation
Indices: 11315619--11315657 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
11315609 TGACAAAAAT
*
11315619 TAATGAA
1 TAATAAA
11315626 TAATAAA
1 TAATAAA
11315633 TAAT-AA
1 TAATAAA
11315639 TAATAAA
1 TAATAAA
11315646 TATATAAA
1 TA-ATAAA
11315654 TAAT
1 TAAT
11315658 TCACTATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (7 bp):
TAATAAA
Found at i:11327427 original size:59 final size:58
Alignment explanation
Indices: 11327188--11327643 Score: 532
Period size: 57 Copynumber: 7.9 Consensus size: 58
11327178 TTTTGTGTAG
* * * *
11327188 GAAAAATTGATACTTTCAACTTTTTCTC-AAAATATTTTTTAG-AAATGTTAATCTCGA
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAAT-TTATTTTCAA
* * * *
11327245 GGAAAATTGATACTTTCAAC-TTTTCTTC-AAAATA-TCTTTTGAAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTTC-TCAAAAATATTTTTTTGAAAA-TTTATTTTCAA
* * ** *
11327302 GGAACATTGATACTTTCAACTTTTTCTCAAAAA-CCTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAATTTATTTTCAA
*
11327359 GAAAAATTGATACTTTCAAC-TTTTCTCAAAAAATATTTTTTTGAAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTCTC-AAAAATATTTTTTTG-AAAATTTATTTTCAA
* * * *
11327418 GAAAAATTGATAATTTCAACTTTTCCTCAAAAACTTTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAA-TATTTTTTTGAAAATTTATTTTCAA
* * **
11327477 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTAGAAAGCTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAATTTATTTTCAA
* * * *
11327534 GAAAAATTGATACTTTTAACTTTTTCTCAAAAATATCTTTTAGAAAGTTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAATTTATTTTCAA
* *
11327592 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTCTTTTTGAAAATTT
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATA-TT-TTTTTGAAAATTT
11327644 TTATTTTTTG
Statistics
Matches: 350, Mismatches: 35, Indels: 25
0.85 0.09 0.06
Matches are distributed among these distances:
56 17 0.05
57 142 0.41
58 80 0.23
59 85 0.24
60 26 0.07
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAATTTATTTTCAA
Found at i:11330056 original size:13 final size:13
Alignment explanation
Indices: 11330035--11330064 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11330025 AAAAAATGAT
11330035 AAATATGAAATAA
1 AAATATGAAATAA
*
11330048 AAATCTGAAATAA
1 AAATATGAAATAA
11330061 AAAT
1 AAAT
11330065 TAAAAAAAAT
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:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (13 bp):
AAATATGAAATAA
Found at i:11330233 original size:14 final size:14
Alignment explanation
Indices: 11330214--11330249 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
11330204 CTCAACTGGA
11330214 TTATTTTTTTTTGC
1 TTATTTTTTTTTGC
11330228 TTATTTTATTTTTGC
1 TTATTTT-TTTTTGC
11330243 TT-TTTTT
1 TTATTTTT
11330250 AAAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 11 0.52
15 9 0.43
ACGTcount: A:0.08, C:0.06, G:0.06, T:0.81
Consensus pattern (14 bp):
TTATTTTTTTTTGC
Found at i:11330241 original size:15 final size:15
Alignment explanation
Indices: 11330214--11330250 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
11330204 CTCAACTGGA
11330214 TTATTTT-TTTTTGC
1 TTATTTTATTTTTGC
11330228 TTATTTTATTTTTGC
1 TTATTTTATTTTTGC
*
11330243 TTTTTTTA
1 TTATTTTA
11330251 AAAAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.78
Consensus pattern (15 bp):
TTATTTTATTTTTGC
Found at i:11330506 original size:104 final size:108
Alignment explanation
Indices: 11330261--11330521 Score: 343
Period size: 116 Copynumber: 2.4 Consensus size: 108
11330251 AAAAAAAAAA
* *
11330261 TTTGATCAAAGCTCCTTTAAGCAGATGTTCAACGACTTTGAGAAACATAAACAAAGCTCCTTTAA
1 TTTGATCAAAGCTCCTTTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTTTAA
*
11330326 ACAGAGGCTCAACTTTTTTTTTGTTTTCTTGCTCTTTTTTTTTTTATT
66 ACAGAGGC-CAACTTTTTTTTTGTTTTCTTG----TTTTTGTTTTATT
* *
11330374 TAAATTGATCAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCT-CTC
1 T---TTGATCAAAGCTCCTTTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCT-
*
11330438 TTAAACAGAGG-CAA-TTTTTTTTTGTTTT-TTG-TTTTGTTTTGTT
62 TTAAACAGAGGCCAACTTTTTTTTTGTTTTCTTGTTTTTGTTTTATT
*
11330481 TTTGACCAAAGCTCCTTTAAGCAGAGGCTCAACGACTTTGA
1 TTTGATCAAAGCTCCTTTAAGCAGAGGCTCAACGACTTTGA
11330522 AAAGTAAATT
Statistics
Matches: 135, Mismatches: 9, Indels: 17
0.84 0.06 0.11
Matches are distributed among these distances:
104 37 0.27
107 11 0.08
112 3 0.02
113 15 0.11
114 3 0.02
115 2 0.01
116 64 0.47
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.39
Consensus pattern (108 bp):
TTTGATCAAAGCTCCTTTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTTTAA
ACAGAGGCCAACTTTTTTTTTGTTTTCTTGTTTTTGTTTTATT
Found at i:11330557 original size:41 final size:41
Alignment explanation
Indices: 11330491--11330652 Score: 218
Period size: 41 Copynumber: 3.9 Consensus size: 41
11330481 TTTGACCAAA
* * *
11330491 GCTCCTTTAAGCAGAGGCTCAACGACTTTGAAAAGTAAATT
1 GCTCCTTTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
11330532 GCTCCTTTAAACAAAGACACCACGACTTTGAAAAGTAAATT
1 GCTCCTTTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* * *
11330573 ACTCCTCTAAACAGAGGCACCATGACTTTGAAAAGTAAATT
1 GCTCCTTTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
11330614 GCT-CTTCTAAACAGAGGCATCACGACTTTGAGAAAGTAA
1 GCTCCTT-TAAACAGAGGCACCACGACTTTGA-AAAGTAA
11330653 CTTTGAGAAA
Statistics
Matches: 105, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
40 2 0.02
41 96 0.91
42 7 0.07
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.25
Consensus pattern (41 bp):
GCTCCTTTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:11330657 original size:14 final size:14
Alignment explanation
Indices: 11330638--11330666 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11330628 AGGCATCACG
11330638 ACTTTGAGAAAGTA
1 ACTTTGAGAAAGTA
11330652 ACTTTGAGAAAGTA
1 ACTTTGAGAAAGTA
11330666 A
1 A
11330667 ATTACTCCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (14 bp):
ACTTTGAGAAAGTA
Found at i:11330764 original size:42 final size:41
Alignment explanation
Indices: 11330652--11330959 Score: 490
Period size: 42 Copynumber: 7.4 Consensus size: 41
11330642 TGAGAAAGTA
*
11330652 ACTTTGAGAAAGTAAATTACTCCTCTAAACAGAGGCACCACG
1 ACTTTGA-AAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
* *
11330694 ACTTTGAAAAATAAATTGCTTCTCTAAACAGAGGCACCACG
1 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
*
11330735 ACTTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 AC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
*
11330777 ACTTTGAGAAAGTAAATTGCTCCTATAAACAGAGGCACCACG
1 ACTTTGA-AAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
*
11330819 ACTTTGAAAAGTAAATTGCTCCTCTAAACAAAGGCACCACG
1 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
11330860 ACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 AC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
* * *
11330902 ACTTTGAGAAAGTAAATTGCTCTTTTAAACAGAGGCACCATG
1 ACTTTGA-AAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
11330944 ACTTTGAAAAGTAAAT
1 ACTTTGAAAAGTAAAT
11330960 GACTCCTTGA
Statistics
Matches: 248, Mismatches: 14, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
41 85 0.34
42 163 0.66
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (41 bp):
ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
Found at i:11330966 original size:83 final size:83
Alignment explanation
Indices: 11330652--11330959 Score: 503
Period size: 83 Copynumber: 3.7 Consensus size: 83
11330642 TGAGAAAGTA
* * *
11330652 ACTTTGAGAAAGTAAATTACTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTTCT
1 ACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
11330717 CTAAACAGAGGCACCACG
66 CTAAACAGAGGCACCACG
11330735 ACTTTTG-GAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTC
1 AC-TTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGA-AAAGTAAATTGCTC
*
11330799 CTATAAACAGAGGCACCACG
64 CTCTAAACAGAGGCACCACG
*
11330819 ACTTTGA-AAAGTAAATTGCTCCTCTAAACAAAGGCACCACGACTTTTGAAAAGTAAATTGCTCC
1 ACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCC
11330883 TCTAAACAGAGGCACCACG
65 TCTAAACAGAGGCACCACG
* * *
11330902 ACTTTGAGAAAGTAAATTGCTCTTTTAAACAGAGGCACCATGACTTTGAAAAGTAAAT
1 ACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAAT
11330960 GACTCCTTGA
Statistics
Matches: 210, Mismatches: 10, Indels: 10
0.91 0.04 0.04
Matches are distributed among these distances:
83 136 0.65
84 74 0.35
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (83 bp):
ACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
CTAAACAGAGGCACCACG
Found at i:11330966 original size:125 final size:125
Alignment explanation
Indices: 11330652--11330959 Score: 535
Period size: 125 Copynumber: 2.5 Consensus size: 125
11330642 TGAGAAAGTA
* * * *
11330652 ACTTTGAGAAAGTAAATTACTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTTCT
1 ACTTTGAGAAAGTAAATTGCTCCTATAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
* *
11330717 CTAAACAGAGGCACCACGACTTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
66 CTAAACAAAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
11330777 ACTTTGAGAAAGTAAATTGCTCCTATAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
1 ACTTTGAGAAAGTAAATTGCTCCTATAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
11330842 CTAAACAAAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
66 CTAAACAAAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
* * *
11330902 ACTTTGAGAAAGTAAATTGCTCTTTTAAACAGAGGCACCATGACTTTGAAAAGTAAAT
1 ACTTTGAGAAAGTAAATTGCTCCTATAAACAGAGGCACCACGACTTTGAAAAGTAAAT
11330960 GACTCCTTGA
Statistics
Matches: 174, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
125 174 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (125 bp):
ACTTTGAGAAAGTAAATTGCTCCTATAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
CTAAACAAAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
Found at i:11331308 original size:43 final size:43
Alignment explanation
Indices: 11331256--11331338 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
11331246 TTTGGCAAAC
* * *
11331256 TTGGAATTCATATCCAAAAA-TCTAAAGCTTT-TTATTTGAATT
1 TTGGAATTCACATCAAAAAATTC-AAAGCTTTCTCATTTGAATT
11331298 TTGGAGATTCACATCAAAAAATTCAAAGCTTTCTCATTTGA
1 TTGGA-ATTCACATCAAAAAATTCAAAGCTTTCTCATTTGA
11331339 GTTCAAAGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 5 0.14
43 21 0.60
44 9 0.26
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (43 bp):
TTGGAATTCACATCAAAAAATTCAAAGCTTTCTCATTTGAATT
Found at i:11332739 original size:35 final size:32
Alignment explanation
Indices: 11332662--11332741 Score: 87
Period size: 32 Copynumber: 2.5 Consensus size: 32
11332652 TTTGAATCTC
11332662 TTTTTTCATTTTC-TCATTTTTTTTATTCTTT
1 TTTTTTCATTTTCATCATTTTTTTTATTCTTT
*
11332693 TTTTTT-A-TTTCATCATCTTCTTTTCT-TTTTTT
1 TTTTTTCATTTTCATCAT-TT-TTTT-TATTCTTT
11332725 TTTTTTCATTTTTCATC
1 TTTTTTCA-TTTTCATC
11332742 CATTGTTGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
29 4 0.10
30 5 0.12
31 8 0.20
32 15 0.37
33 2 0.05
35 7 0.17
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (32 bp):
TTTTTTCATTTTCATCATTTTTTTTATTCTTT
Found at i:11335313 original size:172 final size:172
Alignment explanation
Indices: 11335027--11335378 Score: 623
Period size: 172 Copynumber: 2.0 Consensus size: 172
11335017 TGGCATTCTT
* *
11335027 AATGATTTCGCCTGAAATCACCATGTTAGCAAAATTTTTTGTGACATTCCCTATCATCTTTTCAT
1 AATGATTTCGCCTGAAATCACCATGTCAACAAAATTTTTTGTGACATTCCCTATCATCTTTTCAT
* *
11335092 AATAGAGAGATTTCAAAGTGCTGACAAACAATATGATGGTCTTTTTTTCAATAAAAAAAGGTTAC
66 AATAGAGAGATTTCAAAGTGCTGACAAACAATACGATGGTCTCTTTTTCAATAAAAAAAGGTTAC
* *
11335157 ACTTGAATAGCCATGTTCTTCCACCTCTGGGTATATTCTTTG
131 ACTTAAATAGCCATGTTCTTCCACCTCTGGGCATATTCTTTG
11335199 AATGATTTCGCCTGAAATCACCATGTCAACAAAATTTTTTGTGACATTCCCTATCATCTTTTCAT
1 AATGATTTCGCCTGAAATCACCATGTCAACAAAATTTTTTGTGACATTCCCTATCATCTTTTCAT
* * *
11335264 AATAGAGAGATTTCAAAGTGCTGACAAATAATACGGTGGTCTCTTTTTCAATCAAAAAAGGTTAC
66 AATAGAGAGATTTCAAAGTGCTGACAAACAATACGATGGTCTCTTTTTCAATAAAAAAAGGTTAC
11335329 ACTTAAATAGCCATGTTCTTCCACCTCTGGGCATATTCTTTG
131 ACTTAAATAGCCATGTTCTTCCACCTCTGGGCATATTCTTTG
11335371 AATGATTT
1 AATGATTT
11335379 AGTTACTTTC
Statistics
Matches: 171, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
172 171 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (172 bp):
AATGATTTCGCCTGAAATCACCATGTCAACAAAATTTTTTGTGACATTCCCTATCATCTTTTCAT
AATAGAGAGATTTCAAAGTGCTGACAAACAATACGATGGTCTCTTTTTCAATAAAAAAAGGTTAC
ACTTAAATAGCCATGTTCTTCCACCTCTGGGCATATTCTTTG
Found at i:11337488 original size:56 final size:57
Alignment explanation
Indices: 11337351--11337499 Score: 214
Period size: 57 Copynumber: 2.6 Consensus size: 57
11337341 TTGTGTAGAA
* *
11337351 AAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTAGAAATGTTAATCTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTGAGAAATGTTAATCTCGAGG
*
11337408 AAAATTGATACTTTCAACTTTTCCTCAAAATATCTTTTGA-AAACT-TTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAATAT-TTTTGAGAAA-TGTTAATCTCGAGG
*
11337465 -AAATTGATACTTTCAACTTTTCCTTAAAAATATTT
1 AAAATTGATACTTTCAACTTTTCC-TCAAAATATTT
11337500 CTTTTTGAAA
Statistics
Matches: 85, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
56 25 0.29
57 54 0.64
58 6 0.07
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTGAGAAATGTTAATCTCGAGG
Found at i:11340782 original size:6 final size:7
Alignment explanation
Indices: 11340764--11340788 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11340754 ATGATAAGAC
11340764 TAAAAAA
1 TAAAAAA
11340771 TAAAAAA
1 TAAAAAA
11340778 TAAAAAA
1 TAAAAAA
11340785 TAAA
1 TAAA
11340789 GGGATTCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAAAAA
Found at i:11346138 original size:34 final size:34
Alignment explanation
Indices: 11346095--11346163 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
11346085 CCTGCTCCCC
*
11346095 TTACTATTTATCTATTCATTTCCTTGTTCATCAT
1 TTACTATTTATCTATTCATTTCATTGTTCATCAT
11346129 TTACTATTTATCTATTCATTTCATTGTTCATCAT
1 TTACTATTTATCTATTCATTTCATTGTTCATCAT
11346163 T
1 T
11346164 CTCCCAACTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.22, C:0.19, G:0.03, T:0.57
Consensus pattern (34 bp):
TTACTATTTATCTATTCATTTCATTGTTCATCAT
Found at i:11356460 original size:16 final size:16
Alignment explanation
Indices: 11356439--11356472 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
11356429 TGGCAAGCTA
11356439 GTGTTAAGATAGGATT
1 GTGTTAAGATAGGATT
*
11356455 GTGTTAAGATAGGGTT
1 GTGTTAAGATAGGATT
11356471 GT
1 GT
11356473 TATTGGAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
GTGTTAAGATAGGATT
Found at i:11367635 original size:16 final size:16
Alignment explanation
Indices: 11367616--11367651 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11367606 AGTAACATAT
11367616 TTAATTAATCATAAAA
1 TTAATTAATCATAAAA
* *
11367632 TTAATTAATTATATAA
1 TTAATTAATCATAAAA
11367648 TTAA
1 TTAA
11367652 ATTGAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAATTAATCATAAAA
Found at i:11369221 original size:9 final size:8
Alignment explanation
Indices: 11369196--11369225 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
11369186 AATTCCAAAA
11369196 TTTTTA-T
1 TTTTTATT
11369203 TTTTTATT
1 TTTTTATT
11369211 TTTTTATT
1 TTTTTATT
11369219 TTTTTAT
1 TTTTTAT
11369226 AAAAATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTATT
Found at i:11369375 original size:189 final size:193
Alignment explanation
Indices: 11369018--11369415 Score: 440
Period size: 189 Copynumber: 2.1 Consensus size: 193
11369008 CATATTTAGA
* * *
11369018 ATTTTTTTATTTTTTGAAAAAAATAATATGACAACTATTTTTCATTGAAATTTCATTTAAATTCT
1 ATTTTTTTATTTTTTGAAAAAAATAATAT-ACAACTATTGTTCATTGAAATTTCATCTAAATTAT
* * * **
11369083 TTCACAATTTGGGACAAATTCAAAGAAATTTCTCACCTAGAAATTTTATAAAAATTTTTCATTTA
65 TCCACAATTTGGGACAAATTCAAAAAAATTTCGCACCTAGAAATTTTATAAAAATTTACCATTTA
* * *
11369148 AAATTTCTAAGAATCTCATTCTTGGGTAATTTATATTTA-ATTC-CAAAAT-TTTTATT-TTTT
130 AAATTTCTAAGAATCTCATTCTTGGATAATTAATATTTATATTCAAAAAATATTTTATTCTTTT
* * * * *
11369208 ATTTTTTTATTTTTTTATAAAAATAA-ATATTAATTATTGTT-GTTGAAACTTT-ATCTAAATTA
1 ATTTTTTTATTTTTTGAAAAAAATAATATA-CAACTATTGTTCATTGAAA-TTTCATCTAAATTA
* * * *
11369270 TTCCACCATTTGGGACAAATTTAAATAAAATTTGGCACCTAGAAATTTTATGAAAATTTACCATT
64 TTCCACAATTTGGGACAAATTCAAA-AAAATTTCGCACCTAGAAATTTTATAAAAATTTACCATT
* *
11369335 TAAAATTTTTAA-ACAT-TCCA-TCATTGGATAATTAATATTTATTTTCAAAAAAATATTTTATT
128 TAAAATTTCTAAGA-ATCT-CATTC-TTGGATAATTAATATTTATATTC-AAAAAATATTTTATT
11369397 CTTTT
189 CTTTT
*
11369402 -TTTTTATATTTTTT
1 ATTTTTTTATTTTTT
11369416 AATTTTTTCT
Statistics
Matches: 174, Mismatches: 23, Indels: 19
0.81 0.11 0.09
Matches are distributed among these distances:
188 41 0.24
189 77 0.44
190 27 0.16
192 5 0.03
193 20 0.11
194 4 0.02
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (193 bp):
ATTTTTTTATTTTTTGAAAAAAATAATATACAACTATTGTTCATTGAAATTTCATCTAAATTATT
CCACAATTTGGGACAAATTCAAAAAAATTTCGCACCTAGAAATTTTATAAAAATTTACCATTTAA
AATTTCTAAGAATCTCATTCTTGGATAATTAATATTTATATTCAAAAAATATTTTATTCTTTT
Found at i:11370442 original size:16 final size:15
Alignment explanation
Indices: 11370423--11370452 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11370413 AAGATAATAA
11370423 AATAAATAACATAAAT
1 AATAAATAA-ATAAAT
11370439 AATAAATAAATAAA
1 AATAAATAAATAAA
11370453 CCAATGATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAAATAAATAAAT
Found at i:11370876 original size:43 final size:43
Alignment explanation
Indices: 11370771--11371266 Score: 505
Period size: 43 Copynumber: 11.8 Consensus size: 43
11370761 ATGCTACTCT
* * * *
11370771 TCTAAATAGAGACTTAACGACTTT-AAAAA-ATA-AAGGCTTC
1 TCTAAACAGAGGCTTAACGACTTTGAAAAATAAATAAGGCTCC
* * * * **
11370811 TCTAAACAAAGACTTAATGACTTTGAAAAGTAAATAAGATTCC
1 TCTAAACAGAGGCTTAACGACTTTGAAAAATAAATAAGGCTCC
* * *
11370854 TCTAAACAGAGGCTCAACGACTTTGGAAAGTAAATAAGGCTCC
1 TCTAAACAGAGGCTTAACGACTTTGAAAAATAAATAAGGCTCC
*
11370897 TCTAAACAGAGGCTTAACGACTTTGAAAAATAAATAAGGCTCT
1 TCTAAACAGAGGCTTAACGACTTTGAAAAATAAATAAGGCTCC
*
11370940 TCTAAACAGAGGCTTAATC-ACTTTGAAAAATAAATAAGGCTCT
1 TCTAAACAGAGGCTTAA-CGACTTTGAAAAATAAATAAGGCTCC
* * ** * *
11370983 TCTAAATAGAGGCTCAATAACTTTAAAAAATAAATAAGGCTCT
1 TCTAAACAGAGGCTTAACGACTTTGAAAAATAAATAAGGCTCC
* *
11371026 TTTAAACAGAGGCTTAACGACTTT-AAAAA-ATA-AAGGCTCC
1 TCTAAACAGAGGCTTAACGACTTTGAAAAATAAATAAGGCTCC
* * * **
11371066 TCTGAACAGAGGCTTAATGACTTTGAAAAAT--A-AAGGTTGT
1 TCTAAACAGAGGCTTAACGACTTTGAAAAATAAATAAGGCTCC
* * *
11371106 TCTAAATAGAGGCTCAACAACTTTGAAAAAT--A-AAGGCTCC
1 TCTAAACAGAGGCTTAACGACTTTGAAAAATAAATAAGGCTCC
* * * * *
11371146 TTTAAACAGAGGCTCAACAACTTTGAAAAATAAATAAAGTTCC
1 TCTAAACAGAGGCTTAACGACTTTGAAAAATAAATAAGGCTCC
* *
11371189 TCTAAACAGAGACTTAACGACTTTGAAAAGTAAATAAGGCTCC
1 TCTAAACAGAGGCTTAACGACTTTGAAAAATAAATAAGGCTCC
* * * *
11371232 TTCTAAATAGAGGTTTAACAATTTTGAAAAATAAA
1 -TCTAAACAGAGGCTTAACGACTTTGAAAAATAAA
11371267 CAAAACTCAT
Statistics
Matches: 384, Mismatches: 61, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
40 116 0.30
41 11 0.03
42 8 0.02
43 220 0.57
44 29 0.08
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (43 bp):
TCTAAACAGAGGCTTAACGACTTTGAAAAATAAATAAGGCTCC
Found at i:11383341 original size:52 final size:52
Alignment explanation
Indices: 11383273--11383395 Score: 133
Period size: 52 Copynumber: 2.4 Consensus size: 52
11383263 TTATTCGATT
* * *
11383273 ATTTGGGCCAAATTAGAAATATCTTCTCTTTTGAATTTCTAAATTCTCCACC
1 ATTTGGGCCTATTTAGAAATATCTTATCTTTTGAATTTCTAAATTCTCCACC
* * * ** * *
11383325 ATTTTGGG-CTATTTAGAAATTTTTTATTTTTTTTATTTCTAAATTTTTCACC
1 A-TTTGGGCCTATTTAGAAATATCTTATCTTTTGAATTTCTAAATTCTCCACC
11383377 ATTTGGGCCTATTTA-AAAT
1 ATTTGGGCCTATTTAGAAAT
11383396 TTTATTTATT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
51 10 0.17
52 43 0.73
53 6 0.10
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.49
Consensus pattern (52 bp):
ATTTGGGCCTATTTAGAAATATCTTATCTTTTGAATTTCTAAATTCTCCACC
Found at i:11383408 original size:52 final size:52
Alignment explanation
Indices: 11383307--11383408 Score: 145
Period size: 52 Copynumber: 1.9 Consensus size: 52
11383297 TCTCTTTTGA
11383307 ATTTCTAAATTCTCCACCATTTTGGGCTATTTAGAAATTTTTTATTTTTTTT
1 ATTTCTAAATTCTCCACCATTTTGGGCTATTTAGAAATTTTTTATTTTTTTT
* *
11383359 ATTTCTAAATTTTTCACCA-TTTGGGCCTATTTA-AAATTTTATTTATTTTT
1 ATTTCTAAATTCTCCACCATTTTGGG-CTATTTAGAAA-TTT-TTTATTTTT
11383409 GGAAAAAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
51 9 0.20
52 27 0.60
53 9 0.20
ACGTcount: A:0.25, C:0.13, G:0.07, T:0.56
Consensus pattern (52 bp):
ATTTCTAAATTCTCCACCATTTTGGGCTATTTAGAAATTTTTTATTTTTTTT
Found at i:11384655 original size:3 final size:3
Alignment explanation
Indices: 11384647--11384711 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
11384637 TCAGCGCAAA
11384647 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11384695 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
11384712 CACCAAACAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:11384810 original size:24 final size:23
Alignment explanation
Indices: 11384767--11384814 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
11384757 AACTAGAAAG
*
11384767 ATAAAATAAAGACATAAATAATA
1 ATAAAATAAAAACATAAATAATA
11384790 ATAAAATAAATAACATAAATAATA
1 ATAAAATAAA-AACATAAATAATA
11384814 A
1 A
11384815 ATCAATCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (23 bp):
ATAAAATAAAAACATAAATAATA
Found at i:11385010 original size:17 final size:17
Alignment explanation
Indices: 11384980--11385013 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
11384970 TTCTTCAAAT
11384980 TGAGATATTAAAAAAAA
1 TGAGATATTAAAAAAAA
11384997 TGAGA-ATTATAAAAAAA
1 TGAGATATTA-AAAAAAA
11385014 CCAAAAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (17 bp):
TGAGATATTAAAAAAAA
Found at i:11385355 original size:24 final size:24
Alignment explanation
Indices: 11385319--11385367 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
11385309 ATACAAAAAT
* *
11385319 AATCTTGGGTTAGGATTAT-TGAAA
1 AATCCTGGATTAGGATT-TCTGAAA
11385343 AATCCTGGATTAGGATTTCTGAAA
1 AATCCTGGATTAGGATTTCTGAAA
11385367 A
1 A
11385368 GAGTTGAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (24 bp):
AATCCTGGATTAGGATTTCTGAAA
Found at i:11389486 original size:9 final size:9
Alignment explanation
Indices: 11389452--11389488 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
11389442 AAGACTAAAC
11389452 ATAAA-AAG
1 ATAAATAAG
11389460 ATAAATAA-
1 ATAAATAAG
11389468 ATAAATAAG
1 ATAAATAAG
*
11389477 ATAAACAAG
1 ATAAATAAG
11389486 ATA
1 ATA
11389489 TAAAAAAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
8 13 0.50
9 13 0.50
ACGTcount: A:0.70, C:0.03, G:0.08, T:0.19
Consensus pattern (9 bp):
ATAAATAAG
Found at i:11391020 original size:25 final size:25
Alignment explanation
Indices: 11390968--11391020 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
11390958 TTTATATATC
* * *
11390968 TATATTTGAATCTGTTTAATATTTA
1 TATATCTGAATCTGGTTAATATTAA
11390993 TATATCTGAATCTGGTTAAGT-TTAA
1 TATATCTGAATCTGGTTAA-TATTAA
11391018 TAT
1 TAT
11391021 TACTATCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.51
Consensus pattern (25 bp):
TATATCTGAATCTGGTTAATATTAA
Found at i:11403477 original size:91 final size:91
Alignment explanation
Indices: 11403376--11403561 Score: 318
Period size: 91 Copynumber: 2.0 Consensus size: 91
11403366 TTTTTGAATA
*
11403376 TTATCATTTTATATAAATAAATTTTATATGAATCAAATACGATTTTTATATAAATTTTAATTGGG
1 TTATCATTTTATATAAATAAATTTTATATGAATCAAATACGATGTTTATATAAATTTTAATTGGG
11403441 ATCCAAATAAATTATTAATTATTAAT
66 ATCCAAATAAATTATTAATTATTAAT
* * *
11403467 TTATCATTTTATTTAAATAAATTTTATATGAATCAAATACGATGTTTATATAAATTTTACTTTGG
1 TTATCATTTTATATAAATAAATTTTATATGAATCAAATACGATGTTTATATAAATTTTAATTGGG
* *
11403532 ATCCAAATAAATTTTTAATTTTTAAT
66 ATCCAAATAAATTATTAATTATTAAT
11403558 TTAT
1 TTAT
11403562 ATTAAAAAAT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.48
Consensus pattern (91 bp):
TTATCATTTTATATAAATAAATTTTATATGAATCAAATACGATGTTTATATAAATTTTAATTGGG
ATCCAAATAAATTATTAATTATTAAT
Found at i:11403577 original size:28 final size:29
Alignment explanation
Indices: 11403540--11403596 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
11403530 GGATCCAAAT
*
11403540 AAATTTTTAATTTTTAATTTATA-TTAAA
1 AAATTGTTAATTTTTAATTTATACTTAAA
*
11403568 AAATTGTTAATTTTTAATTTGTACTTAAA
1 AAATTGTTAATTTTTAATTTATACTTAAA
11403597 TAAAATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (29 bp):
AAATTGTTAATTTTTAATTTATACTTAAA
Found at i:11406203 original size:1 final size:1
Alignment explanation
Indices: 11406197--11406235 Score: 60
Period size: 1 Copynumber: 39.0 Consensus size: 1
11406187 TCAAATTGGC
* *
11406197 AAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11406236 CTCTAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.95, C:0.00, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:11407035 original size:6 final size:6
Alignment explanation
Indices: 11407024--11407052 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
11407014 AAATGGGCGT
11407024 TCCAAC TCCAAC TCCAAC TCCAAC TCCAA
1 TCCAAC TCCAAC TCCAAC TCCAAC TCCAA
11407053 GTTCCAATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.48, G:0.00, T:0.17
Consensus pattern (6 bp):
TCCAAC
Found at i:11416867 original size:3 final size:3
Alignment explanation
Indices: 11416859--11416885 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11416849 TGAGGTCTTG
11416859 AGT AGT AGT AGT AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT
11416886 TATGGTTGAA
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:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
AGT
Found at i:11417438 original size:22 final size:22
Alignment explanation
Indices: 11417412--11417455 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
11417402 ATAGAGATTT
*
11417412 TATATATTATTTGTGTATAAATAA
1 TATAT-TTATTTAT-TATAAATAA
11417436 TATATTTATTTATTATAAAT
1 TATATTTATTTATTATAAAT
11417456 TATTTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
TATATTTATTTATTATAAATAA
Found at i:11420116 original size:16 final size:16
Alignment explanation
Indices: 11420095--11420130 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
11420085 TAGCATAAGA
11420095 TTCATTCCTCTAAACT
1 TTCATTCCTCTAAACT
11420111 TTCATTCCTCTAAACT
1 TTCATTCCTCTAAACT
11420127 TTCA
1 TTCA
11420131 CACGTGTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.31, G:0.00, T:0.44
Consensus pattern (16 bp):
TTCATTCCTCTAAACT
Found at i:11422141 original size:12 final size:13
Alignment explanation
Indices: 11422121--11422154 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
11422111 AAAATTATAA
*
11422121 AATTATAAAAT-T
1 AATTTTAAAATAT
11422133 AATTTTAAAATAT
1 AATTTTAAAATAT
11422146 AATTTTAAA
1 AATTTTAAA
11422155 TCAAATCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATTTTAAAATAT
Found at i:11422953 original size:23 final size:23
Alignment explanation
Indices: 11422922--11422966 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
11422912 CCGCTTTCTC
11422922 TCTTATCTCAACTTGTTTTTTTTT
1 TCTTATCTCAACTT-TTTTTTTTT
**
11422946 TCTT-TCTCCTCTTTTTTTTTT
1 TCTTATCTCAACTTTTTTTTTT
11422967 ATTTTTTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 7 0.37
24 4 0.21
ACGTcount: A:0.07, C:0.20, G:0.02, T:0.71
Consensus pattern (23 bp):
TCTTATCTCAACTTTTTTTTTTT
Found at i:11429591 original size:18 final size:18
Alignment explanation
Indices: 11429568--11429603 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11429558 AAATGCCCTT
11429568 TGTAAATACAAATGCAAA
1 TGTAAATACAAATGCAAA
*
11429586 TGTAAATGCAAATGCAAA
1 TGTAAATACAAATGCAAA
11429604 ATTCATTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.11, G:0.14, T:0.22
Consensus pattern (18 bp):
TGTAAATACAAATGCAAA
Found at i:11431705 original size:40 final size:40
Alignment explanation
Indices: 11431629--11431705 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
11431619 ATTTTTTTTC
* **
11431629 CTTTTTTTGGCTTTCTAGATTCTTTTGATTTTTTTTTAAA
1 CTTTTTTTGGCTTTCTAGATTCTCTTGATTAGTTTTTAAA
*
11431669 CTTTTTTTGGCTTTCTAGTATTCTCTT-CTTAGTTTTT
1 CTTTTTTTGGCTTTCTAG-ATTCTCTTGATTAGTTTTT
11431706 TTTTTTTACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 25 0.78
41 7 0.22
ACGTcount: A:0.12, C:0.13, G:0.10, T:0.65
Consensus pattern (40 bp):
CTTTTTTTGGCTTTCTAGATTCTCTTGATTAGTTTTTAAA
Found at i:11435181 original size:16 final size:16
Alignment explanation
Indices: 11435160--11435196 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
11435150 TTGGGAAATA
11435160 TAAAAAAATATTTTTT
1 TAAAAAAATATTTTTT
11435176 TAAAAAAATATTTTTT
1 TAAAAAAATATTTTTT
*
11435192 GAAAA
1 TAAAA
11435197 TACTAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
TAAAAAAATATTTTTT
Found at i:11440512 original size:65 final size:65
Alignment explanation
Indices: 11440430--11440552 Score: 196
Period size: 65 Copynumber: 1.9 Consensus size: 65
11440420 GGGCCAAACA
*
11440430 TCTATACATAATTATGTTTGA-TATTCTTT-TGCCACTATTTTATTACTTATTTTCAATTCCAGA
1 TCTATACATAATTATGTTT-ATTATTCTTTCT-CCACTATTTTATAACTTATTTTCAATTCCAGA
11440493 CC
64 CC
*
11440495 TCTATACATCATTATGTTTATTATTCTTTCTCCACTATTTTATAACTTATTTTCAATT
1 TCTATACATAATTATGTTTATTATTCTTTCTCCACTATTTTATAACTTATTTTCAATT
11440553 ATCTTACTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
64 1 0.02
65 52 0.96
66 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.04, T:0.52
Consensus pattern (65 bp):
TCTATACATAATTATGTTTATTATTCTTTCTCCACTATTTTATAACTTATTTTCAATTCCAGACC
Found at i:11453772 original size:2 final size:2
Alignment explanation
Indices: 11453765--11453797 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11453755 GGGTTATCTT
11453765 TA TA TA 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 TA TA TA T
11453798 GGGAATTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11453979 original size:7 final size:7
Alignment explanation
Indices: 11453969--11453996 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
11453959 ATGTTGGATG
11453969 TTGCAAC
1 TTGCAAC
11453976 TTGCAAC
1 TTGCAAC
11453983 TTGCAAC
1 TTGCAAC
11453990 TTGCAAC
1 TTGCAAC
11453997 CAAAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (7 bp):
TTGCAAC
Found at i:11454021 original size:97 final size:94
Alignment explanation
Indices: 11453842--11454033 Score: 233
Period size: 97 Copynumber: 1.9 Consensus size: 94
11453832 TCCAACATAT
*
11453842 CCAAAAAAATTTAATAATTTATGTTGGATGTTGCAACTTGCAACTTGCAACAAAAAAAGATTAAT
1 CCAAAAAAATTTAATAATTTATGTTGGATGTTGCAACTTGCAACTTGCAACAAAAAAAGATAAAT
*
11453907 AATTCCCATATATATATATATATATATTGCAA
66 AATT--C-TATACATATATATATATATTGCAA
*
11453939 CCAAAAAAGA-TTAATGATTTATGTTGGATGTTGCAACTTGCAACTTGCAACTTGCAACCAAAAA
1 CCAAAAAA-ATTTAATAATTTATGTTGGATGTTGCAACTTGCAACTTGCAA----CAA--AAAAA
* *
11454003 GATAAATAATTATCATATATATATATATATA
59 GATAAATAATTCT-ATACATATATATATATA
11454034 AGATATTAAA
Statistics
Matches: 84, Mismatches: 3, Indels: 12
0.85 0.03 0.12
Matches are distributed among these distances:
97 47 0.56
98 1 0.01
100 1 0.01
101 20 0.24
103 15 0.18
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.33
Consensus pattern (94 bp):
CCAAAAAAATTTAATAATTTATGTTGGATGTTGCAACTTGCAACTTGCAACAAAAAAAGATAAAT
AATTCTATACATATATATATATATTGCAA
Found at i:11454513 original size:22 final size:22
Alignment explanation
Indices: 11454485--11454527 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
11454475 ATTATGGTCG
11454485 ACAGCTCTATTACTAAAAGGAT
1 ACAGCTCTATTACTAAAAGGAT
11454507 ACAGCTCTATTACTAAAAGGA
1 ACAGCTCTATTACTAAAAGGA
11454528 AGAAACATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (22 bp):
ACAGCTCTATTACTAAAAGGAT
Found at i:11459311 original size:2 final size:2
Alignment explanation
Indices: 11459304--11459328 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11459294 GCAAAACATC
11459304 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
11459329 CATGTGCACG
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:11460754 original size:21 final size:20
Alignment explanation
Indices: 11460708--11460755 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
11460698 ATATGTTAAT
** *
11460708 TTTTATATTATTTTTTCATA
1 TTTTATATTATTTTTAAAAA
*
11460728 TATTATATTTATTTTTAAAAA
1 TTTTATA-TTATTTTTAAAAA
11460749 TTTTATA
1 TTTTATA
11460756 AGTAAAATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTATATTATTTTTAAAAA
Found at i:11468999 original size:2 final size:2
Alignment explanation
Indices: 11468992--11469016 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11468982 AGATTATAGA
11468992 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
11469017 GGATACTAAG
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:11469431 original size:134 final size:132
Alignment explanation
Indices: 11469191--11469439 Score: 308
Period size: 134 Copynumber: 1.9 Consensus size: 132
11469181 TTAAAGTTGC
*
11469191 TTCCAATAGACAACTTAAAATAAAATAATAAGTTAGACAAAATCTATAACATGAAAATTTGTTCA
1 TTCCAATAGACAACTTAAAATAAAATAATAAGTTAGACAAAATCTATAAAATGAAAATTTGTTCA
* * * *
11469256 TTATAATTAGCTAGGTTTCACTCACTCACTTTCGGCCTACTTTCATTTGTGTATAAAATTAAAAT
66 TTATAATTAACTAGGCTTCACTCACTCACTTTAGG-CTACTTTCACTTGTGTATAAAATTAAAAT
11469321 AGT
130 AGT
* * *
11469324 TTCCAATAGATAACTTGAAATATAATAATAAGTTAGACAAAGATCTATAAAATGAAAA-TTGATT
1 TTCCAATAGACAACTTAAAATAAAATAATAAGTTAGACAAA-ATCTATAAAATGAAAATTTG--T
* * *
11469388 TC-TTATAGTTAACTAGGCCTT-ACTCATTCACTCTTAATG-TACTTTCACTTGT
63 TCATTATAATTAACTAGG-CTTCACTCACTCACT-TT-AGGCTACTTTCACTTGT
11469440 ATGCAAAATG
Statistics
Matches: 99, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
133 41 0.41
134 50 0.51
135 7 0.07
136 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (132 bp):
TTCCAATAGACAACTTAAAATAAAATAATAAGTTAGACAAAATCTATAAAATGAAAATTTGTTCA
TTATAATTAACTAGGCTTCACTCACTCACTTTAGGCTACTTTCACTTGTGTATAAAATTAAAATA
GT
Found at i:11470908 original size:12 final size:13
Alignment explanation
Indices: 11470892--11470924 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
11470882 AAAGTATTTA
11470892 AAAATAAATAAAT
1 AAAATAAATAAAT
*
11470905 -AAATAGATAAAT
1 AAAATAAATAAAT
11470917 AAAATAAA
1 AAAATAAA
11470925 CATAACAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 2
0.81 0.10 0.10
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:11472719 original size:17 final size:17
Alignment explanation
Indices: 11472673--11472713 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11472663 GATTCGTAAA
***
11472673 AATTTCATATTGGCAAG
1 AATTTCATATTCAAAAG
11472690 AATTTCATATTCAAAAG
1 AATTTCATATTCAAAAG
11472707 AATTTCA
1 AATTTCA
11472714 ACTTCATCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (17 bp):
AATTTCATATTCAAAAG
Found at i:11474440 original size:22 final size:21
Alignment explanation
Indices: 11474406--11474460 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
11474396 TCTTCTTCTT
*
11474406 TTTTCTTTCTTTCCCTTTTTC
1 TTTTCTTTTTTTCCCTTTTTC
* *
11474427 TTTTCATTTTTTTCCTTTTTTT
1 TTTTC-TTTTTTTCCCTTTTTC
*
11474449 TTTTTTTTTTTT
1 TTTTCTTTTTTT
11474461 TTTGCATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTCTTTTTTTCCCTTTTTC
Found at i:11474457 original size:21 final size:21
Alignment explanation
Indices: 11474404--11474460 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
11474394 TTTCTTCTTC
* *
11474404 TTTTTTCTTTCTTTCCCTTTT
1 TTTTTTCTTTTTTTTCCTTTT
* *
11474425 TCTTTTCATTTTTTTCCTTTT
1 TTTTTTCTTTTTTTTCCTTTT
*
11474446 TTTTTTTTTTTTTTT
1 TTTTTTCTTTTTTTT
11474461 TTTGCATTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTCTTTTTTTTCCTTTT
Found at i:11485498 original size:21 final size:20
Alignment explanation
Indices: 11485456--11485514 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 20
11485446 TTTTTTCTTT
*
11485456 TTTTCTTTTTTGAATTTGTAGA
1 TTTTCTTTTTT--TTTTGTAGA
11485478 TTTTCTTTTTTTTTTGTTAGA
1 TTTTCTTTTTTTTTTG-TAGA
*
11485499 GTTTCTGTTTTTTTTT
1 TTTTCT-TTTTTTTTT
11485515 TTTTGGTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.12
21 9 0.27
22 20 0.61
ACGTcount: A:0.10, C:0.05, G:0.12, T:0.73
Consensus pattern (20 bp):
TTTTCTTTTTTTTTTGTAGA
Found at i:11485912 original size:29 final size:29
Alignment explanation
Indices: 11485857--11485940 Score: 75
Period size: 29 Copynumber: 2.8 Consensus size: 29
11485847 CCTTGAATTA
*
11485857 TTTCACTTTT-CTTAAATAAGCCTTTATAC
1 TTTCA-TTTTACTCAAATAAGCCTTTATAC
*
11485886 TTTCATTTTACTCAAATAAG-CTCTTATCC
1 TTTCATTTTACTCAAATAAGCCT-TTATAC
*
11485915 TTTGATTTGTA-TCCAAATAAGACCTT
1 TTTCATTT-TACT-CAAATAAG-CCTT
11485941 ATTTCGAACC
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
28 6 0.13
29 27 0.59
30 10 0.22
31 1 0.02
32 2 0.04
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.45
Consensus pattern (29 bp):
TTTCATTTTACTCAAATAAGCCTTTATAC
Found at i:11486036 original size:31 final size:30
Alignment explanation
Indices: 11485965--11486069 Score: 113
Period size: 31 Copynumber: 3.5 Consensus size: 30
11485955 ATTGATTTAT
** * **
11485965 GTTAAGGGCTCGTTTAGGTACAAATTAACG
1 GTTAAGGGCTTATTTAGATACAAATTAAAA
* *
11485995 GTT-AGGGCTTATTTTGATGCAAATTAAAA
1 GTTAAGGGCTTATTTAGATACAAATTAAAA
*
11486024 GATTAAGGGCTTATTAAGATACAAATTAAAA
1 G-TTAAGGGCTTATTTAGATACAAATTAAAA
*
11486055 GTTAAGGACTTATTT
1 GTTAAGGGCTTATTT
11486070 GGGTGCAATA
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
29 20 0.33
30 17 0.28
31 24 0.39
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (30 bp):
GTTAAGGGCTTATTTAGATACAAATTAAAA
Found at i:11488542 original size:117 final size:117
Alignment explanation
Indices: 11488336--11488567 Score: 365
Period size: 117 Copynumber: 2.0 Consensus size: 117
11488326 GTTTTTGTTG
* *
11488336 GTCACAATCTATGTGACTGCATGATCAGTAAACTATGTGCATTGCTCTCTCATGTTTAACATTGA
1 GTCACAATCTATGTGACTGCATGATCAGGAAACTATGTGCATTGCTCACTCATGTTTAACATTGA
*
11488401 TTGCATCAACTGATTTCTAAACTATCTTCATGGTGGTTGGTGCTACCCTTAT
66 TTGCATCAACTGATTTCTAAACTATCTTCATGGTGGTTGATGCTACCCTTAT
* * ** * * *
11488453 GTCACAGTCTATGTGATTGCATGATTGGGAAACTGTGTGCATTGCTGACTCATTTTTAACATTGA
1 GTCACAATCTATGTGACTGCATGATCAGGAAACTATGTGCATTGCTCACTCATGTTTAACATTGA
*
11488518 TTGCATCAACTGATTTCTAAACTATCTTCATGGTGGTTGATGCTTCCCTT
66 TTGCATCAACTGATTTCTAAACTATCTTCATGGTGGTTGATGCTACCCTT
11488568 GTGTTATCAG
Statistics
Matches: 104, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
117 104 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (117 bp):
GTCACAATCTATGTGACTGCATGATCAGGAAACTATGTGCATTGCTCACTCATGTTTAACATTGA
TTGCATCAACTGATTTCTAAACTATCTTCATGGTGGTTGATGCTACCCTTAT
Found at i:11499583 original size:120 final size:120
Alignment explanation
Indices: 11499351--11499585 Score: 357
Period size: 120 Copynumber: 2.0 Consensus size: 120
11499341 GGTTTCGAAA
* *
11499351 CCGTGCGGGTTTGAAGCTTAAGTCTTGACCCATGACAAGTGGTATCAAAGCCAGCCCTATACCGT
1 CCGTGCGGGTTTGAAGCTTAAGTCTCGACCCATGACAAGTGGTATCAAAGCCAACCCTATACCGT
* *
11499416 TCGATTCATGCCAAGCACCTCGAGGGAAGTAGGCAGGATGACTAGCCTCCCGGAG
66 TCGATTCATGCCAAGCACCTCGAGGGAAGTAAGCAGGATGACCAGCCTCCCGGAG
* * *
11499471 CCGTGCGGGTTTGGAGCTTAAGTCTCGACCCATGACAAGTGGTATCAGAGCCAACCTTATACCGT
1 CCGTGCGGGTTTGAAGCTTAAGTCTCGACCCATGACAAGTGGTATCAAAGCCAACCCTATACCGT
* *
11499536 TCGA-TCTATGCCAAGCACCTCGAGGGAGGTAAGCAAGG-TGGCCAGCCTCC
66 TCGATTC-ATGCCAAGCACCTCGAGGGAAGTAAGC-AGGATGACCAGCCTCC
11499586 GTGACGAGGA
Statistics
Matches: 104, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
119 2 0.02
120 99 0.95
121 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.28, T:0.21
Consensus pattern (120 bp):
CCGTGCGGGTTTGAAGCTTAAGTCTCGACCCATGACAAGTGGTATCAAAGCCAACCCTATACCGT
TCGATTCATGCCAAGCACCTCGAGGGAAGTAAGCAGGATGACCAGCCTCCCGGAG
Found at i:11500024 original size:90 final size:90
Alignment explanation
Indices: 11499871--11500041 Score: 272
Period size: 90 Copynumber: 1.9 Consensus size: 90
11499861 AGAAGTTTTG
* *
11499871 AATCCCACATCGAACATAAAAAGAGGGTCACTAGGGTATAAAAGAGTTCACACCACTTCTCTCTT
1 AATCCCACATCGAACATAAAAAGAGGGTCACTAAGGTATAAAAGAGTTCACACCACCTCTCTCTT
** *
11499936 GTGAGGTTGGGTAGGAGGAGTTCTA
66 GAAAGGTTGGATAGGAGGAGTTCTA
*
11499961 AATCCCACATCGAACATAAAATGAGGGTCACTAAGGTATAAAA-AGGTTCACACCACCTCTCTCT
1 AATCCCACATCGAACATAAAAAGAGGGTCACTAAGGTATAAAAGA-GTTCACACCACCTCTCTCT
11500025 TGAAAGGTTGGATAGGA
65 TGAAAGGTTGGATAGGA
11500042 AAAAATATCA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
89 1 0.01
90 73 0.99
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (90 bp):
AATCCCACATCGAACATAAAAAGAGGGTCACTAAGGTATAAAAGAGTTCACACCACCTCTCTCTT
GAAAGGTTGGATAGGAGGAGTTCTA
Found at i:11500095 original size:112 final size:112
Alignment explanation
Indices: 11499950--11500166 Score: 328
Period size: 112 Copynumber: 1.9 Consensus size: 112
11499940 GGTTGGGTAG
11499950 GAGGAGTTCTAAATCCCACATCGAACATAAAATGAGGGTCACTAAGGTATAAAAAGGTTC-ACAC
1 GAGGAGTTCTAAATCCCACATCGAACATAAAATGAGGGTCACTAAGGTATAAAAAGGTTCGA-AC
11500014 CACCTCTCTCTTGAAAGGTTGGATAGGAAAAAATATCACGGATCTAAA
65 CACCTCTCTCTTGAAAGGTTGGATAGGAAAAAATATCACGGATCTAAA
* * * ** *
11500062 GAGGAGTTCTGAATCCCACATTGAACATAAAATGAGGGTCATTGGGGTATAAAAGGGTTCGAACC
1 GAGGAGTTCTAAATCCCACATCGAACATAAAATGAGGGTCACTAAGGTATAAAAAGGTTCGAACC
** * *
11500127 ACCTCTCTCTTGTGAGGTTGGGTAGGAAAAAATGTCACGG
66 ACCTCTCTCTTGAAAGGTTGGATAGGAAAAAATATCACGG
11500167 TTCACACCAC
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
112 93 0.99
113 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (112 bp):
GAGGAGTTCTAAATCCCACATCGAACATAAAATGAGGGTCACTAAGGTATAAAAAGGTTCGAACC
ACCTCTCTCTTGAAAGGTTGGATAGGAAAAAATATCACGGATCTAAA
Found at i:11503661 original size:38 final size:38
Alignment explanation
Indices: 11503610--11503685 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
11503600 TATGCACAGT
11503610 ACTTCAATTGTGTAAGATTTATTTGCTTCAACAGGGCC
1 ACTTCAATTGTGTAAGATTTATTTGCTTCAACAGGGCC
* *
11503648 ACTTCAATTGTGTAAGATTTATTTGTTTCAATAGGGCC
1 ACTTCAATTGTGTAAGATTTATTTGCTTCAACAGGGCC
11503686 GTTTGACTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (38 bp):
ACTTCAATTGTGTAAGATTTATTTGCTTCAACAGGGCC
Found at i:11510475 original size:18 final size:18
Alignment explanation
Indices: 11510433--11510475 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
11510423 GCTTTGAGAA
* *
11510433 ATCAAGTCAATTTGCCAT
1 ATCAACTCAATATGCCAT
*
11510451 ATAAACTCAATATGCCAT
1 ATCAACTCAATATGCCAT
*
11510469 GTCAACT
1 ATCAACT
11510476 TGAATCAAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.30
Consensus pattern (18 bp):
ATCAACTCAATATGCCAT
Found at i:11510948 original size:20 final size:21
Alignment explanation
Indices: 11510912--11510963 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
11510902 TCCGAAATTA
11510912 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
11510934 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
11510955 AT-AAATATT
1 ATAAAATATT
11510964 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:11510954 original size:21 final size:22
Alignment explanation
Indices: 11510912--11510963 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
11510902 TCCGAAATTA
11510912 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
11510934 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
11510955 AT-AAATATT
1 ATAAAATATT
11510964 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:11511404 original size:31 final size:30
Alignment explanation
Indices: 11511364--11511466 Score: 91
Period size: 31 Copynumber: 3.4 Consensus size: 30
11511354 TCATTTGTAT
* *
11511364 CAAGTTGAATCTATATTAAAAG-GATTTACAC
1 CAAGGTGAAT-TATACT-AAAGTGATTTACAC
* * *
11511395 CAAGGTGAATTTGTGCTGAAGTGATTTACAC
1 CAAGGTGAA-TTATACTAAAGTGATTTACAC
* * *
11511426 CAAGGTGAATTATACCAATGTGATTTACAT
1 CAAGGTGAATTATACTAAAGTGATTTACAC
*
11511456 CAAGATGAATT
1 CAAGGTGAATT
11511467 TATGCCGAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
30 28 0.48
31 29 0.50
32 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (30 bp):
CAAGGTGAATTATACTAAAGTGATTTACAC
Found at i:11511451 original size:30 final size:30
Alignment explanation
Indices: 11511386--11511466 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
11511376 ATATTAAAAG
* * *
11511386 GATTTACACCAAGGTGAATTTGTGCTGAAGT
1 GATTTACACCAAGGTGAA-TTATACTCAAGT
11511417 GATTTACACCAAGGTGAATTATAC-CAATGT
1 GATTTACACCAAGGTGAATTATACTCAA-GT
* *
11511447 GATTTACATCAAGATGAATT
1 GATTTACACCAAGGTGAATT
11511467 TATGCCGAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
29 2 0.05
30 24 0.55
31 18 0.41
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.32
Consensus pattern (30 bp):
GATTTACACCAAGGTGAATTATACTCAAGT
Found at i:11511467 original size:61 final size:60
Alignment explanation
Indices: 11511386--11511577 Score: 169
Period size: 61 Copynumber: 3.1 Consensus size: 60
11511376 ATATTAAAAG
* *
11511386 GATTTACACCAAGGTGAATTTGTGCTGAAGTGATTTACACCAAGGTGAA-TTATACCAATGT
1 GATTTACATCAA-GTGAATTTGTGCTGAA-TAATTTACACCAAGGTGAACTTATACCAATGT
* * * * * *
11511447 GATTTACATCAAGATGAATTTATGCCGAAATAATTTACACTAAAGTGAATTTATGCCGAA-GT
1 GATTTACATCAAG-TGAATTTGTGCTG-AATAATTTACACCAAGGTGAACTTATACC-AATGT
* * *
11511509 GATTTATATCGAAGTGAATTTGTACCGTG-ATAATTTACACCAAGGT-AACCTATACC-ATAGT
1 GATTTACATC-AAGTGAATTTGT-GC-TGAATAATTTACACCAAGGTGAACTTATACCAAT-GT
11511570 GATTTACA
1 GATTTACA
11511578 CTTAAGTAAA
Statistics
Matches: 105, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
59 1 0.01
60 1 0.01
61 54 0.51
62 42 0.40
63 6 0.06
64 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (60 bp):
GATTTACATCAAGTGAATTTGTGCTGAATAATTTACACCAAGGTGAACTTATACCAATGT
Found at i:11511484 original size:31 final size:30
Alignment explanation
Indices: 11511386--11511529 Score: 139
Period size: 31 Copynumber: 4.7 Consensus size: 30
11511376 ATATTAAAAG
* *
11511386 GATTTACACCAAGGTGAATTTGTGCTGAAGT
1 GATTTACACCAA-GTGAATTTATGCCGAAGT
*
11511417 GATTTACACCAAGGTGAA-TTATACC-AATGT
1 GATTTACACCAA-GTGAATTTATGCCGAA-GT
* *
11511447 GATTTACATCAAGATGAATTTATGCCGAAAT
1 GATTTACACCAAG-TGAATTTATGCCGAAGT
* *
11511478 AATTTACACTAAAGTGAATTTATGCCGAAGT
1 GATTTACAC-CAAGTGAATTTATGCCGAAGT
* *
11511509 GATTTATATCGAAGTGAATTT
1 GATTTACA-CCAAGTGAATTT
11511530 GTACCGTGAT
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
29 3 0.03
30 21 0.22
31 64 0.68
32 6 0.06
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (30 bp):
GATTTACACCAAGTGAATTTATGCCGAAGT
Found at i:11511508 original size:16 final size:16
Alignment explanation
Indices: 11511412--11511535 Score: 66
Period size: 15 Copynumber: 8.1 Consensus size: 16
11511402 AATTTGTGCT
*
11511412 GAAGTG-ATTTACACC
1 GAAGTGAATTTATACC
11511427 -AAGGTGAA-TTATACC
1 GAA-GTGAATTTATACC
* *
11511442 -AATGTG-ATTTACATC
1 GAA-GTGAATTTATACC
*
11511457 -AAGATGAATTTATGCC
1 GAAG-TGAATTTATACC
* * *
11511473 GAAAT-AATTTACACT
1 GAAGTGAATTTATACC
* *
11511488 AAAGTGAATTTATGCC
1 GAAGTGAATTTATACC
*
11511504 GAAGTG-ATTTATATC
1 GAAGTGAATTTATACC
*
11511519 GAAGTGAATTTGTACC
1 GAAGTGAATTTATACC
11511535 G
1 G
11511536 TGATAATTTA
Statistics
Matches: 80, Mismatches: 21, Indels: 15
0.69 0.18 0.13
Matches are distributed among these distances:
14 4 0.05
15 46 0.57
16 28 0.35
17 2 0.03
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (16 bp):
GAAGTGAATTTATACC
Found at i:11511529 original size:62 final size:60
Alignment explanation
Indices: 11511386--11511621 Score: 181
Period size: 62 Copynumber: 3.8 Consensus size: 60
11511376 ATATTAAAAG
* * * * *
11511386 GATTTACACCAAGGTGAATTTGTGCTGAAGTGATTTACACCAAGGTGAATTATACCAATGT
1 GATTTACATCAA-GTGAATTTGTGCCGAAATAATTTACACCAAAGTGAATTATACCAATGT
* * *
11511447 GATTTACATCAAGATGAATTTATGCCGAAATAATTTACACTAAAGTGAATTTATGCCGAA-GT
1 GATTTACATCAAG-TGAATTTGTGCCGAAATAATTTACACCAAAGTGAA-TTATACC-AATGT
* * ** * *
11511509 GATTTATATCGAAGTGAATTTGTACCGTGATAATTTACACCAAGGT-AACCTATACC-ATAGT
1 GATTTACATC-AAGTGAATTTGTGCCGAAATAATTTACACCAAAGTGAA-TTATACCAAT-GT
* * * * * * *
11511570 GATTTACACTTAAGTAAAATATGTGTCGAGATAATTTACACTAAAATGAATT
1 GATTTACA-TCAAGT-GAATTTGTGCCGAAATAATTTACACCAAAGTGAATT
11511622 TGTACCAAGG
Statistics
Matches: 137, Mismatches: 29, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
59 1 0.01
60 1 0.01
61 60 0.44
62 68 0.50
63 7 0.05
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.33
Consensus pattern (60 bp):
GATTTACATCAAGTGAATTTGTGCCGAAATAATTTACACCAAAGTGAATTATACCAATGT
Found at i:11512254 original size:30 final size:30
Alignment explanation
Indices: 11512220--11512290 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
11512210 TTATTAAAAA
* *
11512220 AATTTGATCAAGTTAGACCTTTATAAAGGT
1 AATTTGATCAAGTTAAACCTTTATAAAGGC
* * *
11512250 AATTTG-TCAAATTAAACTTTTATTAAGGC
1 AATTTGATCAAGTTAAACCTTTATAAAGGC
*
11512279 ATTTTGATCAAG
1 AATTTGATCAAG
11512291 CTAATCTTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
29 23 0.70
30 10 0.30
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (30 bp):
AATTTGATCAAGTTAAACCTTTATAAAGGC
Found at i:11512916 original size:46 final size:45
Alignment explanation
Indices: 11512808--11512935 Score: 116
Period size: 46 Copynumber: 2.8 Consensus size: 45
11512798 TGAGTTAGGT
* * *
11512808 TTTTATTAAGATAATTTATCAATATGAGCTCTTTTTTCAAGCTAGA
1 TTTTA-TAAGATAATTTATCAAAATGAACTCTTTTGTCAAGCTAGA
** *
11512854 TCTTTATAAGGCAATTTATTAAAATGAACTCTTTTGTCAAGCTA-A
1 T-TTTATAAGATAATTTATCAAAATGAACTCTTTTGTCAAGCTAGA
* * * *
11512899 CTTTTATAAAAATAATTTGTCAAGATGAA-TTTTTTGT
1 -TTTTAT-AAGATAATTTATCAAAATGAACTCTTTTGT
11512936 TGAAATAAGC
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
45 13 0.20
46 49 0.74
47 4 0.06
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (45 bp):
TTTTATAAGATAATTTATCAAAATGAACTCTTTTGTCAAGCTAGA
Found at i:11513187 original size:47 final size:47
Alignment explanation
Indices: 11513133--11513224 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 47
11513123 TTGAGGTGGA
* * * * *
11513133 CAAGCTAAGCTTTTATAAAAGCAATTTATCGAGCTGAGCTTTTTTAC
1 CAAGCTAAACCTTTATAAAAGCAATTTATCAAGCTAAACTTTTTTAC
* *
11513180 CAAGCTAAACCTTTATGAAATCAATTTATCAAGCTAAACTTTTTT
1 CAAGCTAAACCTTTATAAAAGCAATTTATCAAGCTAAACTTTTTT
11513225 GTTGAAATGA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (47 bp):
CAAGCTAAACCTTTATAAAAGCAATTTATCAAGCTAAACTTTTTTAC
Found at i:11514656 original size:29 final size:29
Alignment explanation
Indices: 11514614--11514726 Score: 104
Period size: 29 Copynumber: 3.9 Consensus size: 29
11514604 AAGAATTAAA
* *
11514614 TCAAAATATGGAAATGTTTTTTAAAAAAAT
1 TCAAAATATTGAAA-ATTTTTTAAAAAAAT
* *
11514644 T-AAAATATTGAAAAACTTTTTAAACAAAT
1 TCAAAATATTG-AAAATTTTTTAAAAAAAT
* * * **
11514673 TCAAAATCTAG-AAATTTCTTATTAAAAT
1 TCAAAATATTGAAAATTTTTTAAAAAAAT
*
11514701 TCAAAATCTTGAAAATTTTTTAAAAA
1 TCAAAATATTGAAAATTTTTTAAAAA
11514727 TAAAAATTTG
Statistics
Matches: 65, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
28 22 0.34
29 32 0.49
30 11 0.17
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.37
Consensus pattern (29 bp):
TCAAAATATTGAAAATTTTTTAAAAAAAT
Found at i:11514758 original size:14 final size:14
Alignment explanation
Indices: 11514719--11514765 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
11514709 TTGAAAATTT
11514719 TTTAAAAATAAAAA
1 TTTAAAAATAAAAA
** *
11514733 TTT-GTAAGAAAAA
1 TTTAAAAATAAAAA
11514746 TTTAAAAATAAAAA
1 TTTAAAAATAAAAA
*
11514760 ATTAAA
1 TTTAAA
11514766 GGAAAGGGAA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (14 bp):
TTTAAAAATAAAAA
Found at i:11515312 original size:14 final size:13
Alignment explanation
Indices: 11515302--11515333 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11515292 GTTTTTTCTT
11515302 TTATTTTTTTTAG
1 TTATTTTTTTTAG
11515315 TTATTTTTTTTAG
1 TTATTTTTTTTAG
*
11515328 CTATTT
1 TTATTT
11515334 ATAGGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.03, G:0.06, T:0.75
Consensus pattern (13 bp):
TTATTTTTTTTAG
Found at i:11524564 original size:26 final size:25
Alignment explanation
Indices: 11524535--11524587 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
11524525 TTTATATTTG
* *
11524535 AATTAGATTTAATTTAATATTATATA
1 AATTAGATTCAATTTAAAATTA-ATA
* *
11524561 AATTATATTCGATTTAAAATTAATA
1 AATTAGATTCAATTTAAAATTAATA
11524586 AA
1 AA
11524588 ATATTATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (25 bp):
AATTAGATTCAATTTAAAATTAATA
Found at i:11524608 original size:23 final size:23
Alignment explanation
Indices: 11524573--11524616 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
11524563 TTATATTCGA
*
11524573 TTTAAAATTAATA-AAATATTATT
1 TTTAAAATAAATATAAA-ATTATT
*
11524596 TTTAATATAAATATAAAATTA
1 TTTAAAATAAATATAAAATTA
11524617 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTAAAATAAATATAAAATTATT
Found at i:11524618 original size:12 final size:13
Alignment explanation
Indices: 11524603--11524653 Score: 54
Period size: 12 Copynumber: 4.1 Consensus size: 13
11524593 ATTTTTAATA
11524603 TAAATATA-AAAT
1 TAAATATATAAAT
11524615 TAAATATATATAAT
1 TAAATATATA-AAT
*
11524629 TAAATA-ATTAAT
1 TAAATATATAAAT
*
11524641 TAAAAATA-AAAT
1 TAAATATATAAAT
11524653 T
1 T
11524654 TTTTTATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 20 0.61
13 4 0.12
14 9 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TAAATATATAAAT
Found at i:11524629 original size:14 final size:14
Alignment explanation
Indices: 11524598--11524644 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 14
11524588 ATATTATTTT
11524598 TAATATAAATATA-A
1 TAAT-TAAATATATA
11524612 -AATTAAATATATA
1 TAATTAAATATATA
11524625 TAATTAAATA-AT-
1 TAATTAAATATATA
11524637 TAATTAAA
1 TAATTAAA
11524645 AATAAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 16 0.52
13 6 0.19
14 9 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATTAAATATATA
Found at i:11528188 original size:42 final size:42
Alignment explanation
Indices: 11528093--11528192 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
11528083 AATCAGATTT
11528093 TATTTT-ATTTTT-AAACATTAATATTTCAAAATTTTAAAAA
1 TATTTTAATTTTTAAAACATTAATATTTCAAAATTTTAAAAA
* * * * * *
11528133 AATTCATATTTTTTAAAATATTAA-ATTTCATAATCTTTTAAAA
1 TATT-TTAATTTTTAAAACATTAATATTTCAAAAT-TTTAAAAA
11528176 TATTTTAATTTTTAAAA
1 TATTTTAATTTTTAAAA
11528193 ATATCATATT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
40 3 0.06
41 1 0.02
42 25 0.53
43 18 0.38
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (42 bp):
TATTTTAATTTTTAAAACATTAATATTTCAAAATTTTAAAAA
Found at i:11528274 original size:21 final size:21
Alignment explanation
Indices: 11528250--11528289 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11528240 ATATTTCATT
*
11528250 TTTTTAATATATTAAATTTAC
1 TTTTCAATATATTAAATTTAC
*
11528271 TTTTCAATATTTTAAATTT
1 TTTTCAATATATTAAATTT
11528290 TTTCAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTCAATATATTAAATTTAC
Found at i:11528327 original size:18 final size:17
Alignment explanation
Indices: 11528271--11528326 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
11528261 TTAAATTTAC
* *
11528271 TTTTCAATATTTTAAATT
1 TTTTCAA-ATTTTCATTT
11528289 TTTTCAAATTTTCATTT
1 TTTTCAAATTTTCATTT
*
11528306 TTTTGAAATTTTTC-TTT
1 TTTTCAAA-TTTTCATTT
11528323 TTTT
1 TTTT
11528327 TTTTTTCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 22 0.65
18 12 0.35
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTTCAAATTTTCATTT
Found at i:11528623 original size:31 final size:30
Alignment explanation
Indices: 11528579--11528664 Score: 77
Period size: 31 Copynumber: 2.8 Consensus size: 30
11528569 AAAATATTAA
**
11528579 AAAATATTGAAAATTTAAAATTTTAAAATAT
1 AAAATATAAAAAATTTAAAATTTTAAAA-AT
11528610 AAAATATAAAAAATTTTAAAAATTATTAAAAAT
1 AAAATATAAAAAA-TTT-AAAATT-TTAAAAAT
* *
11528643 TACA-A-AAAAAATTTAAATATTT
1 AAAATATAAAAAATTTAAA-ATTT
11528665 CGATTTAATC
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
29 4 0.09
30 6 0.13
31 17 0.36
32 4 0.09
33 10 0.21
34 6 0.13
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (30 bp):
AAAATATAAAAAATTTAAAATTTTAAAAAT
Found at i:11528644 original size:10 final size:9
Alignment explanation
Indices: 11528569--11528642 Score: 59
Period size: 9 Copynumber: 8.6 Consensus size: 9
11528559 CTTTTTCATT
11528569 AAAATATTAA
1 AAAATATT-A
*
11528579 AAAATATTG
1 AAAATATTA
11528588 AAAAT-TT-
1 AAAATATTA
*
11528595 AAAAT-TTT
1 AAAATATTA
11528603 AAAATA-T-
1 AAAATATTA
*
11528610 AAAATATAA
1 AAAATATTA
*
11528619 AAAATTTTA
1 AAAATATTA
11528628 AAAATTATTA
1 AAAA-TATTA
11528638 AAAAT
1 AAAAT
11528643 TACAAAAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
7 13 0.24
8 8 0.15
9 17 0.31
10 16 0.30
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (9 bp):
AAAATATTA
Found at i:11528848 original size:23 final size:22
Alignment explanation
Indices: 11528810--11528869 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 22
11528800 CTAAATTTTG
11528810 TAAAAATT--AAAATTTAATTT
1 TAAAAATTAAAAAATTTAATTT
*
11528830 TAAAAATATAAAAAATTTATTTT
1 TAAAAAT-TAAAAAATTTAATTT
11528853 TAAAAATTAAAATAATT
1 TAAAAATTAAAA-AATT
11528870 AAAAATATGA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
20 7 0.20
21 1 0.03
22 5 0.14
23 22 0.63
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAAAAATTAAAAAATTTAATTT
Found at i:11529533 original size:16 final size:17
Alignment explanation
Indices: 11529504--11529547 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
11529494 TTTTACTTAA
11529504 AAATAATAAAATTAATG-
1 AAAT-ATAAAATTAATGC
*
11529521 AAATATAATATTAATGC
1 AAATATAAAATTAATGC
11529538 AAATAATAAA
1 AAAT-ATAAA
11529548 TCTTATCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 11 0.48
17 8 0.35
18 4 0.17
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (17 bp):
AAATATAAAATTAATGC
Found at i:11529629 original size:14 final size:15
Alignment explanation
Indices: 11529598--11529630 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11529588 TCAAATTTAT
*
11529598 AATATTGGAATATAA
1 AATAATGGAATATAA
11529613 AATAATGGAAT-TAA
1 AATAATGGAATATAA
11529627 AATA
1 AATA
11529631 TTATTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (15 bp):
AATAATGGAATATAA
Found at i:11530622 original size:34 final size:35
Alignment explanation
Indices: 11530558--11530623 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
11530548 TTATAATAAA
11530558 ATATTTACATGAAAATTAATAAAAAGGAAATTTTT
1 ATATTTACATGAAAATTAATAAAAAGGAAATTTTT
* *
11530593 ATATTTATATGTAAATTAAT-AAAAGGAAATT
1 ATATTTACATGAAAATTAATAAAAAGGAAATT
11530624 AAAATCATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 11 0.38
35 18 0.62
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (35 bp):
ATATTTACATGAAAATTAATAAAAAGGAAATTTTT
Found at i:11531700 original size:11 final size:12
Alignment explanation
Indices: 11531677--11531747 Score: 51
Period size: 11 Copynumber: 6.2 Consensus size: 12
11531667 TTTTATTATT
*
11531677 TAATTTATT-AA
1 TAATATATTAAA
11531688 TAATATA-TAAA
1 TAATATATTAAA
11531699 TAATATATTAAA
1 TAATATATTAAA
* **
11531711 T-ATAAAATTTTA
1 TAAT-ATATTAAA
* *
11531723 TAAAATTTTAAA
1 TAATATATTAAA
11531735 TAATA-ATTAAA
1 TAATATATTAAA
11531746 TA
1 TA
11531748 CAATAATAAT
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
10 1 0.02
11 24 0.53
12 19 0.42
13 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAATATATTAAA
Found at i:11531715 original size:18 final size:18
Alignment explanation
Indices: 11531692--11531747 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
11531682 TATTAATAAT
11531692 ATATAAATAATATATTAA
1 ATATAAATAATATATTAA
* * *
11531710 ATATAAA-ATTTTATAAA
1 ATATAAATAATATATTAA
*
11531727 ATTTTAAATAATA-ATTAA
1 A-TATAAATAATATATTAA
11531745 ATA
1 ATA
11531748 CAATAATAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 5
0.68 0.20 0.12
Matches are distributed among these distances:
17 9 0.32
18 17 0.61
19 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATAAATAATATATTAA
Found at i:11532149 original size:27 final size:28
Alignment explanation
Indices: 11532119--11532187 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
11532109 ATTTAATATC
*
11532119 ATATATTTTTATATTTATATTAAA-AAA
1 ATATATTTTTATATTTAAATTAAATAAA
11532146 ATAT-TTTATTA-ATTTTAAATTAAATAAA
1 ATATATTT-TTATA-TTTAAATTAAATAAA
*
11532174 ATATAATTTTATAT
1 ATATATTTTTATAT
11532188 AATATAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
26 4 0.11
27 17 0.49
28 11 0.31
29 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
ATATATTTTTATATTTAAATTAAATAAA
Found at i:11532180 original size:22 final size:22
Alignment explanation
Indices: 11532155--11532197 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11532145 AATATTTTAT
11532155 TAATTTTAAATTAA-ATAAAATA
1 TAATTTTAAA-TAATATAAAATA
*
11532177 TAATTTTATATAATATAAAAT
1 TAATTTTAAATAATATAAAAT
11532198 CGAATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TAATTTTAAATAATATAAAATA
Found at i:11532203 original size:22 final size:22
Alignment explanation
Indices: 11532156--11532208 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
11532146 ATATTTTATT
*
11532156 AATTTTAAATTAAATAAAATAT
1 AATTTTAAATTAAATAAAATAG
* *
11532178 AATTTTATA-TAATATAAAATCG
1 AATTTTAAATTAA-ATAAAATAG
11532200 AA-TTTAAAT
1 AATTTTAAAT
11532209 ATTTAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
AATTTTAAATTAAATAAAATAG
Found at i:11541700 original size:2 final size:2
Alignment explanation
Indices: 11541693--11541723 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
11541683 GAAGAAGGAA
*
11541693 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11541724 AACAGTGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:11554220 original size:3 final size:3
Alignment explanation
Indices: 11554212--11554251 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
11554202 AGTTTAGGCT
11554212 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11554252 GGAGCTTTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11556813 original size:18 final size:18
Alignment explanation
Indices: 11556786--11556827 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11556776 GTGATTTAGG
* *
11556786 TTTTCGTTTTGTTATTTT
1 TTTTCCTTTTGTGATTTT
*
11556804 TTTTCCTTTTGTGCTTTT
1 TTTTCCTTTTGTGATTTT
11556822 TTTTCC
1 TTTTCC
11556828 CATGCTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.02, C:0.14, G:0.10, T:0.74
Consensus pattern (18 bp):
TTTTCCTTTTGTGATTTT
Done.