Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007918.1 Hibiscus syriacus cultivar Beakdansim tig00110321_pilon, 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: 2302251
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 9
Found at i:403401 original size:61 final size:60
Alignment explanation
Indices: 403352--403660 Score: 474
Period size: 61 Copynumber: 5.0 Consensus size: 60
403342 TAAGTTTATT
* *
403352 ATAAGACAAGTTTAAATATATAATTTTTAAAAATTAATAATATTATCTTTTTATAAATTTAA
1 ATAAAACAAGCTTAAATATATAATTTTT-AAAATTAATAATATTATC-TTTTATAAATTTAA
* * *
403414 ATAAAACAAGCTTAAATATTTAATTTTTAAAATTAATAATATTGTTTTTTATAAATTTAA
1 ATAAAACAAGCTTAAATATATAATTTTTAAAATTAATAATATTATCTTTTATAAATTTAA
* * *
403474 ATAAAACAAGATTAAATATATAATTTTTAAAATTAATAATATTATATTTTTTTATAAGTTTAA
1 ATAAAACAAGCTTAAATATATAATTTTTAAAATTAATAATA-T-TA-TCTTTTATAAATTTAA
*
403537 ATAAAACAAGCTTAAATATATAATTTTTAAAATTAATAATACTATCTTTTTATAAATTTAA
1 ATAAAACAAGCTTAAATATATAATTTTTAAAATTAATAATATTATC-TTTTATAAATTTAA
403598 ATAAAACAAGCTTAAATATATAATTTTTAAAATTAATAATATTATCTTTTTATAAATTTAA
1 ATAAAACAAGCTTAAATATATAATTTTTAAAATTAATAATATTATC-TTTTATAAATTTAA
403659 AT
1 AT
403661 TTGTGTGTTT
Statistics
Matches: 229, Mismatches: 14, Indels: 9
0.91 0.06 0.04
Matches are distributed among these distances:
60 54 0.24
61 94 0.41
62 26 0.11
63 55 0.24
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (60 bp):
ATAAAACAAGCTTAAATATATAATTTTTAAAATTAATAATATTATCTTTTATAAATTTAA
Found at i:403629 original size:124 final size:121
Alignment explanation
Indices: 403352--403660 Score: 510
Period size: 123 Copynumber: 2.5 Consensus size: 121
403342 TAAGTTTATT
* *
403352 ATAAGACAAGTTTAAATATATAATTTTTAAAAATTAATAATATTATCTTTTTATAAATTTAAATA
1 ATAAAACAAGATTAAATATATAATTTTT-AAAATTAATAATATTATCTTTTTATAAATTTAAATA
* * *
403417 AAACAAGCTTAAATATTTAATTTTTAAAATTAATAATATTGTTTTTTATAAATTTAA
65 AAACAAGCTTAAATATATAATTTTTAAAATTAATAATACTATTTTTTATAAATTTAA
* *
403474 ATAAAACAAGATTAAATATATAATTTTTAAAATTAATAATATTATATTTTTTTATAAGTTTAAAT
1 ATAAAACAAGATTAAATATATAATTTTTAAAATTAATAATA-T-TATCTTTTTATAAATTTAAAT
403539 AAAACAAGCTTAAATATATAATTTTTAAAATTAATAATACTATCTTTTTATAAATTTAA
64 AAAACAAGCTTAAATATATAATTTTTAAAATTAATAATACTAT-TTTTTATAAATTTAA
*
403598 ATAAAACAAGCTTAAATATATAATTTTTAAAATTAATAATATTATCTTTTTATAAATTTAAAT
1 ATAAAACAAGATTAAATATATAATTTTTAAAATTAATAATATTATCTTTTTATAAATTTAAAT
403661 TTGTGTGTTT
Statistics
Matches: 174, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
121 13 0.07
122 46 0.26
123 60 0.34
124 55 0.32
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (121 bp):
ATAAAACAAGATTAAATATATAATTTTTAAAATTAATAATATTATCTTTTTATAAATTTAAATAA
AACAAGCTTAAATATATAATTTTTAAAATTAATAATACTATTTTTTATAAATTTAA
Found at i:407536 original size:2 final size:2
Alignment explanation
Indices: 407531--407599 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
407521 CGTGTGGTCC
407531 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
407573 AT 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 AT A
407600 GTGCAAGAAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:424263 original size:28 final size:27
Alignment explanation
Indices: 424227--424279 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
424217 ATATTAAAAA
424227 AATAATTAATTAGTGTGTTAGTTAGTCT
1 AATAATTAATTAGTGTG-TAGTTAGTCT
* *
424255 AATATTTAATTAGTTTGTAGTTAGT
1 AATAATTAATTAGTGTGTAGTTAGT
424280 TAAATAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (27 bp):
AATAATTAATTAGTGTGTAGTTAGTCT
Found at i:424285 original size:27 final size:29
Alignment explanation
Indices: 424226--424290 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 29
424216 TATATTAAAA
424226 AAATAATTAATTAGTGTGTTAGTTAGTCT
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
* *
424255 -AATATTTAATTAGTTTG-TAGTTAGT-T
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
*
424281 AAATAGTTAA
1 AAATAATTAA
424291 GTTATATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.03
27 16 0.50
28 15 0.47
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (29 bp):
AAATAATTAATTAGTGTGTTAGTTAGTCT
Found at i:424382 original size:34 final size:35
Alignment explanation
Indices: 424317--424383 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
424307 TGAATTTATA
*
424317 TTATATAAAAATTAGTTATTAGTAGTTTAAGTTTT
1 TTATATAAAAAATAGTTATTAGTAGTTTAAGTTTT
*
424352 TTATAATAAAAAATAG-T-TTATTAGTTTAAGTT
1 TTAT-ATAAAAAATAGTTATTAGTAGTTTAAGTT
424384 ATATAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 14 0.48
35 5 0.17
36 10 0.34
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.49
Consensus pattern (35 bp):
TTATATAAAAAATAGTTATTAGTAGTTTAAGTTTT
Found at i:424509 original size:21 final size:21
Alignment explanation
Indices: 424484--424523 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
424474 GTTAATTAGT
424484 TTGTTAGTTTAAGTTATATTA
1 TTGTTAGTTTAAGTTATATTA
424505 TTGTTAGTTTAAGTTATAT
1 TTGTTAGTTTAAGTTATAT
424524 CATATAGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (21 bp):
TTGTTAGTTTAAGTTATATTA
Found at i:424760 original size:29 final size:30
Alignment explanation
Indices: 424722--424788 Score: 111
Period size: 29 Copynumber: 2.3 Consensus size: 30
424712 TTAAAAATCA
424722 TTTATTAGTTTA-ATTATATTAAAGAATAG
1 TTTATTAGTTTACATTATATTAAAGAATAG
*
424751 TTTATTAG-TTACGTTATATTAAAGAATAG
1 TTTATTAGTTTACATTATATTAAAGAATAG
424780 TTTATTAGT
1 TTTATTAGT
424789 GTTTAAGGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
28 3 0.09
29 32 0.91
ACGTcount: A:0.37, C:0.01, G:0.12, T:0.49
Consensus pattern (30 bp):
TTTATTAGTTTACATTATATTAAAGAATAG
Found at i:432907 original size:20 final size:19
Alignment explanation
Indices: 432871--432930 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 19
432861 TTTTGGTGCA
*
432871 GAGGGAATCGATCCCCCCTT
1 GAGGGAA-CGATTCCCCCTT
*
432891 GAGGGAACAGATTCCCCTTT
1 GAGGGAAC-GATTCCCCCTT
432911 GAAGGGGAACTGATTCCCCC
1 G-A-GGGAAC-GATTCCCCC
432931 CACAGGGGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 17 0.52
21 1 0.03
22 14 0.42
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.20
Consensus pattern (19 bp):
GAGGGAACGATTCCCCCTT
Found at i:432950 original size:21 final size:21
Alignment explanation
Indices: 432913--432952 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
432903 TCCCCTTTGA
*
432913 AGGGGAACTGATTCCCCCCAC
1 AGGGGAACTGATACCCCCCAC
432934 AGGGGAA-TCGATACCCCCC
1 AGGGGAACT-GATACCCCCC
432953 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (21 bp):
AGGGGAACTGATACCCCCCAC
Found at i:435453 original size:16 final size:16
Alignment explanation
Indices: 435432--435464 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
435422 GGGTACGATC
435432 CCCCATGAATGGTTGG
1 CCCCATGAATGGTTGG
435448 CCCCATGAATGGTTGG
1 CCCCATGAATGGTTGG
435464 C
1 C
435465 TCCGAGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.27, G:0.30, T:0.24
Consensus pattern (16 bp):
CCCCATGAATGGTTGG
Found at i:436118 original size:52 final size:53
Alignment explanation
Indices: 436056--436160 Score: 187
Period size: 52 Copynumber: 2.0 Consensus size: 53
436046 GGCCACTACG
436056 CATCAGACGTCCGCCCCAGCATTATCATTC-ACAACA-CCAGGACATCGGCAAC
1 CATCAGACGTCCGCCCCAGCATTATCATTCAACAACACCCA-GACATCGGCAAC
436108 CATCAGACGTCCGCCCCAGCATTATCATTCAACAACACCCAGACATCGGCAAC
1 CATCAGACGTCCGCCCCAGCATTATCATTCAACAACACCCAGACATCGGCAAC
436161 AATTGTAAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
52 30 0.59
53 18 0.35
54 3 0.06
ACGTcount: A:0.31, C:0.39, G:0.14, T:0.15
Consensus pattern (53 bp):
CATCAGACGTCCGCCCCAGCATTATCATTCAACAACACCCAGACATCGGCAAC
Found at i:436360 original size:14 final size:14
Alignment explanation
Indices: 436341--436387 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
436331 TTCAAGTCGT
436341 AAATCATTACTATC
1 AAATCATTACTATC
436355 AAATCATTAC--T-
1 AAATCATTACTATC
*
436366 -AATCATTAATATC
1 AAATCATTACTATC
436379 AAATCATTA
1 AAATCATTA
436388 ATATTAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
10 8 0.29
12 2 0.07
14 18 0.64
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:436369 original size:24 final size:24
Alignment explanation
Indices: 436342--436387 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
436332 TCAAGTCGTA
*
436342 AATCATTACTATCAAATCATTACT
1 AATCATTAATATCAAATCATTACT
436366 AATCATTAATATCAAATCATTA
1 AATCATTAATATCAAATCATTA
436388 ATATTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (24 bp):
AATCATTAATATCAAATCATTACT
Found at i:436525 original size:60 final size:60
Alignment explanation
Indices: 436356--436974 Score: 498
Period size: 60 Copynumber: 10.2 Consensus size: 60
436346 ATTACTATCA
* * *
436356 AATCATTACT-AATCATTAATATCAAATCATT-AATATTAATAATAA-AT--TTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
436411 AATCA-TACT-AATCATTACTATCAAATCATT--AAATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
*
436467 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAACTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
** * * * *
436527 -ATCATTACTATCAAATCATTAAAAT-TAAT-A-TAAATTCATTATACTAATCAACTATCA-AAT
1 AATCATTAC--T-AAATCATTACTATCAAATCATTAAA--AATTA-A-TAAT-AA-TTTCATTAT
* *
436587 CATT
57 TACT
** * * * * *
436591 AAAAAGTTAAT-AAT-TTTATTA-CTAATCATTACTAAATCATTAAT-ATAAATCATT-AATATA
1 AATCA-TTACTAAATCATTACTATCAAATCATTA--AAA--ATTAATAAT-AAT--TTCATTAT-
*
436651 TAAT
57 TACT
* *
436655 AATTTCATTATTACTAATCATTACTAAATCATTATTATCAAATCATTAAAAATTAATAATGATTT
1 AA--TCATTACTA--AATCA-T--T--A-C-----TATCAAATCATTAAAAATTAATAATAATTT
436720 CATTATTACT
51 CATTATTACT
*
436730 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATCATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
* *
436790 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAA-TTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
436849 AATCATT--T-AATCATTACTATCAAATCATT-AAAATTAATAATAATTTTCATTA-TACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAA-TTTCATTATTACT
* * *
436905 AATC-TTACTAAATCATTATTATCAAATTATTAAAAATTAATAATGATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
436964 AATCATTACTA
1 AATCATTACTA
436975 TCAAATCATT
Statistics
Matches: 462, Mismatches: 45, Indels: 109
0.75 0.07 0.18
Matches are distributed among these distances:
53 12 0.03
54 25 0.05
55 20 0.04
56 41 0.09
57 13 0.03
58 48 0.10
59 51 0.11
60 115 0.25
61 17 0.04
62 21 0.05
63 10 0.02
64 12 0.03
65 16 0.03
66 5 0.01
68 4 0.01
70 2 0.00
71 5 0.01
72 1 0.00
73 8 0.02
74 1 0.00
75 7 0.02
76 4 0.01
77 8 0.02
78 2 0.00
79 3 0.01
80 2 0.00
81 9 0.02
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (60 bp):
AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
Found at i:436533 original size:48 final size:48
Alignment explanation
Indices: 436473--436604 Score: 193
Period size: 46 Copynumber: 2.8 Consensus size: 48
436463 TACTAATCAT
*
436473 TACTAAATCATTACTATCAAATCATTAAAAATTAATAATAACTTCATTA
1 TACT-AATCATTACTATCAAATCATTAAAAATTAATAATAAATTCATTA
436522 TTACT-ATCATTACTATCAAATCATT-AAAATTAAT-ATAAATTCATTA
1 -TACTAATCATTACTATCAAATCATTAAAAATTAATAATAAATTCATTA
436568 TACTAATCA--ACTATCAAATCATTAAAAAGTTAATAAT
1 TACTAATCATTACTATCAAATCATTAAAAA-TTAATAAT
436605 TTTATTACTA
Statistics
Matches: 77, Mismatches: 1, Indels: 11
0.87 0.01 0.12
Matches are distributed among these distances:
44 14 0.18
45 8 0.10
46 20 0.26
47 11 0.14
48 20 0.26
50 4 0.05
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (48 bp):
TACTAATCATTACTATCAAATCATTAAAAATTAATAATAAATTCATTA
Found at i:436653 original size:15 final size:13
Alignment explanation
Indices: 436623--436650 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
436613 TAATCATTAC
436623 TAAATCATTAATA
1 TAAATCATTAATA
436636 TAAATCATTAATA
1 TAAATCATTAATA
436649 TA
1 TA
436651 TAATAATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAATCATTAATA
Found at i:436666 original size:203 final size:210
Alignment explanation
Indices: 436362--437008 Score: 759
Period size: 203 Copynumber: 3.0 Consensus size: 210
436352 ATCAAATCAT
* * *
436362 TACT-AATCATTAATATCAAATCATT-AATATTAATAATAAATTTATTACTAATCA-TACTAATC
1 TACTAAATCA-TAATATCAAATCATTAAAAAGT-ATAATAATTTTATTACTAATCATTACTAATC
*
436424 ATTACTATCAAATCATTAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACTA
64 ATTACTATCAAATCATTAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTATTA
*
436489 TCAAATCATTAAAAATTAATAATAACTTCATTATTACT-ATCATTACTATCAAATCATT-AAAAT
129 TCAAATCATTAAAAATTAATAATAAATTCATTATTACTAATCATTACTATCAAATCATTAAAAAT
436552 TAAT-ATAAATTCATTA
194 TAATAATAAATTCATTA
*
436568 TACT-AATCA-ACTATCAAATCATTAAAAAGT-TAATAATTTTATTACTAATCATTACTAAATCA
1 TACTAAATCATAATATCAAATCATTAAAAAGTATAATAATTTTATTACTAATCATTACT-AATCA
*
436630 TTAATAT-AAATCATT-AA-TATATAATAATTTCATTATTACTAATCATTACTAAATCATTATTA
65 TTACTATCAAATCATTAAATTA-ATAATAATTTCATTATTACTAATCATTACTAAATCATTATTA
*
436692 TCAAATCATTAAAAATTAATAATGATTTCATTATTACTAATCATTACTAAATCATTACTATCAAA
129 TCAAATCATTAAAAATTAATAAT-A----A--ATT-C--ATTATTACT-AATCATTACTATCAAA
*
436757 TCATTAAAAATTAATAATAATTTCATCATTACTAATCA
183 TCATTAAAAATTAATAAT-A----A--ATT-C--ATTA
* *
436795 TTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTCATTATTACTAATCATT--TA
1 -TACTAAATCA-TAATATCAAATCATTAAAAAGT-ATAATAATT--TTATTACTAATCATTACTA
436858 ATCATTACTATCAAATCATTAAAATTAATAATAATTTTCATTA-TACTAATC-TTACTAAATCAT
61 ATCATTACTATCAAATCATT-AAATTAATAATAA-TTTCATTATTACTAATCATTACTAAATCAT
* * *
436921 TATTATCAAATTATTAAAAATTAATAATGATTTCATTATTACTAATCATTACTATCAAATCATTA
124 TATTATCAAATCATTAAAAATTAATAATAAATTCATTATTACTAATCATTACTATCAAATCATTA
*
436986 AAAATTAATAATAATTTCATTA
189 AAAATTAATAATAAATTCATTA
437008 T
1 T
437009 CACACATCAT
Statistics
Matches: 381, Mismatches: 19, Indels: 76
0.80 0.04 0.16
Matches are distributed among these distances:
202 2 0.01
203 86 0.23
204 26 0.07
205 15 0.04
206 9 0.02
208 1 0.00
210 2 0.01
211 1 0.00
212 1 0.00
213 11 0.03
215 21 0.06
216 11 0.03
217 2 0.01
218 2 0.01
222 2 0.01
223 34 0.09
224 11 0.03
225 1 0.00
226 1 0.00
227 5 0.01
228 4 0.01
229 6 0.02
231 18 0.05
232 11 0.03
233 17 0.04
234 39 0.10
235 32 0.08
236 10 0.03
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (210 bp):
TACTAAATCATAATATCAAATCATTAAAAAGTATAATAATTTTATTACTAATCATTACTAATCAT
TACTATCAAATCATTAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTATTATC
AAATCATTAAAAATTAATAATAAATTCATTATTACTAATCATTACTATCAAATCATTAAAAATTA
ATAATAAATTCATTA
Found at i:436707 original size:24 final size:24
Alignment explanation
Indices: 436659--436707 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
436649 TATAATAATT
* *
436659 TCATTATTACTAATCATTACTAAA
1 TCATTATTACAAATCATTACAAAA
436683 TCATTATTATCAAATCATTA-AAAA
1 TCATTATTA-CAAATCATTACAAAA
436707 T
1 T
436708 TAATAATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (24 bp):
TCATTATTACAAATCATTACAAAA
Found at i:436746 original size:11 final size:11
Alignment explanation
Indices: 436724--436808 Score: 50
Period size: 10 Copynumber: 7.4 Consensus size: 11
436714 TGATTTCATT
436724 ATTACT-AATC
1 ATTACTAAATC
436734 ATTACTAAATC
1 ATTACTAAATC
436745 ATTACTATCAAATC
1 ATTAC--T-AAATC
* *
436759 ATTA-AAAATT
1 ATTACTAAATC
* *
436769 AATAATAATTTCATC
1 ATTACTAA----ATC
436784 ATTACT-AATC
1 ATTACTAAATC
436794 ATTACTAAATC
1 ATTACTAAATC
436805 ATTA
1 ATTA
436809 ATATCAAATC
Statistics
Matches: 58, Mismatches: 7, Indels: 19
0.69 0.08 0.23
Matches are distributed among these distances:
10 22 0.38
11 19 0.33
13 1 0.02
14 10 0.17
15 6 0.10
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (11 bp):
ATTACTAAATC
Found at i:436847 original size:49 final size:50
Alignment explanation
Indices: 436794--437083 Score: 237
Period size: 49 Copynumber: 5.4 Consensus size: 50
436784 ATTACTAATC
* *
436794 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAA-TTCATT
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
436843 ATTACTAATCATTTAATCATTACTATCAAATCATT-AAAATTAATAATAATTTTCATTATACT
1 ATTAC---T-A---AATCATTACTATCAAATCATTAAAAATTAATAATAA-TTTC---AT--T
* * *
436905 AATCTTACTAAATCATTATTATCAAATTATTAAAAATTAATAATGATTTCATT
1 -A--TTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
436958 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
* * * *
437007 ATCACACATCATTACTATCAAATTACTATCAAATTATTAAATATTAATAATAATTTCATC
1 AT--TAC-T-A--A--ATC--ATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
437067 ATTACT-AATCATTACTA
1 ATTACTAAATCATTACTA
437084 ATCATCATGA
Statistics
Matches: 199, Mismatches: 13, Indels: 58
0.74 0.05 0.21
Matches are distributed among these distances:
49 54 0.27
50 5 0.03
51 5 0.03
52 3 0.02
53 3 0.02
55 15 0.08
56 21 0.11
57 4 0.02
58 28 0.14
59 13 0.07
60 40 0.20
61 1 0.01
62 2 0.01
63 1 0.01
65 4 0.02
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (50 bp):
ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
Found at i:437033 original size:11 final size:11
Alignment explanation
Indices: 437017--437042 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
437007 ATCACACATC
437017 ATTACTATCAA
1 ATTACTATCAA
437028 ATTACTATCAA
1 ATTACTATCAA
437039 ATTA
1 ATTA
437043 TTAAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (11 bp):
ATTACTATCAA
Found at i:437040 original size:60 final size:60
Alignment explanation
Indices: 436968--437083 Score: 180
Period size: 60 Copynumber: 1.9 Consensus size: 60
436958 ATTACTAATC
*
436968 ATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATCAC-ACATCATTACTATCAA
1 ATTACTATCAAATCATTAAAAATTAATAATAATTTCATCATCACTA-ATCATTACTATCAA
* * *
437028 ATTACTATCAAATTATTAAATATTAATAATAATTTCATCATTACTAATCATTACTA
1 ATTACTATCAAATCATTAAAAATTAATAATAATTTCATCATCACTAATCATTACTA
437084 ATCATCATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
60 50 0.98
61 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.40
Consensus pattern (60 bp):
ATTACTATCAAATCATTAAAAATTAATAATAATTTCATCATCACTAATCATTACTATCAA
Found at i:437079 original size:10 final size:10
Alignment explanation
Indices: 437064--437088 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
437054 TAATAATTTC
437064 ATCATTACTA
1 ATCATTACTA
437074 ATCATTACTA
1 ATCATTACTA
437084 ATCAT
1 ATCAT
437089 CATGAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (10 bp):
ATCATTACTA
Found at i:438762 original size:29 final size:29
Alignment explanation
Indices: 438678--438812 Score: 108
Period size: 29 Copynumber: 4.5 Consensus size: 29
438668 GGACGCCGGC
* * **
438678 GTGCTTGGCGACCTATAAGGTCGCTAGCC
1 GTGCTTGGCGACCTACAAGGTCGCTGGGA
* * * *
438707 GTACATGGCGACCTACCATCTTGGTCGCCGGGA
1 GTGCTTGGCGACCTA-CA---AGGTCGCTGGGA
*
438740 TTGCTTGGCGACCTACAAGGTCGCTGGGA
1 GTGCTTGGCGACCTACAAGGTCGCTGGGA
* *** *
438769 GTGCATGGCGACCTTGTAGGTCGCTTGGA
1 GTGCTTGGCGACCTACAAGGTCGCTGGGA
438798 GTGCTTGGCGACCTA
1 GTGCTTGGCGACCTA
438813 TGGTTGGGTT
Statistics
Matches: 81, Mismatches: 21, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
29 59 0.73
30 1 0.01
32 2 0.02
33 19 0.23
ACGTcount: A:0.16, C:0.26, G:0.33, T:0.24
Consensus pattern (29 bp):
GTGCTTGGCGACCTACAAGGTCGCTGGGA
Found at i:451331 original size:3 final size:3
Alignment explanation
Indices: 451323--451356 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
451313 TAATTTTGAC
451323 AAT AAT AAT AAT AAT AAT AGAT AA- AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT A
451357 CAATAGTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:455602 original size:35 final size:35
Alignment explanation
Indices: 455563--455640 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 35
455553 GTTGCTAATC
*
455563 AAGTATTTATCATTAAAGACCTAATATTTATTAAA
1 AAGTATTTATCATTAAAGAACTAATATTTATTAAA
*
455598 AAGTATTTATCATTAAAGAATTAATATTTATTAAA
1 AAGTATTTATCATTAAAGAACTAATATTTATTAAA
*
455633 AAATATTT
1 AAGTATTT
455641 TCAAAAACCT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (35 bp):
AAGTATTTATCATTAAAGAACTAATATTTATTAAA
Found at i:455632 original size:18 final size:18
Alignment explanation
Indices: 455574--455632 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
455564 AGTATTTATC
*
455574 ATTAAAGACCTAATATTT
1 ATTAAAGAACTAATATTT
*
455592 ATTAAA-AAGT-AT-TTAT
1 ATTAAAGAACTAATATT-T
*
455608 CATTAAAGAATTAATATTT
1 -ATTAAAGAACTAATATTT
455627 ATTAAA
1 ATTAAA
455633 AAATATTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
15 2 0.06
16 3 0.09
17 8 0.24
18 15 0.45
19 3 0.09
20 2 0.06
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (18 bp):
ATTAAAGAACTAATATTT
Found at i:465618 original size:2 final size:2
Alignment explanation
Indices: 465611--465640 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
465601 TAGATAGATG
*
465611 GA GA GA GA GG GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
465641 CCCAAATTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
GA
Found at i:466294 original size:37 final size:36
Alignment explanation
Indices: 466219--466294 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
466209 TTTTTATATT
*
466219 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
466255 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
466292 TTT
1 TTT
466295 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:466497 original size:20 final size:20
Alignment explanation
Indices: 466440--466490 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
466430 ATCCTATTCC
466440 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
466460 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
466480 CTGGTAATCTT
1 CTGGTAATCTT
466491 ACATTCCGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.45
Consensus pattern (20 bp):
CTGGTAATCTTTTATTCCCA
Found at i:466719 original size:20 final size:20
Alignment explanation
Indices: 466671--466721 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
466661 GCGAAATAAA
* *
466671 AATCGCAACGCGATCTTCAG
1 AATCGCAATGCGATATTCAG
466691 AATCGCAATGCGATATTCAG
1 AATCGCAATGCGATATTCAG
466711 AATCGCAATGC
1 AATCGCAATGC
466722 AATAGTACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (20 bp):
AATCGCAATGCGATATTCAG
Found at i:466776 original size:20 final size:20
Alignment explanation
Indices: 466751--466988 Score: 124
Period size: 20 Copynumber: 11.8 Consensus size: 20
466741 GCGATTTTCC
*
466751 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGAATACG
* *
466771 AAAATCGCAACGCGAACA-T
1 AAAATCGCAACGCGAATACG
* * ***
466790 ATAAATCGCAATGCGATTTTT
1 A-AAATCGCAACGCGAATACG
** * * *
466811 ACTATCGCAACGAGTATCCG
1 AAAATCGCAACGCGAATACG
* *
466831 TAAAATCGCAACGCGTATCCG
1 -AAAATCGCAACGCGAATACG
*
466852 TAAATCGCAACGAC-AATACG
1 AAAATCGCAACG-CGAATACG
*
466872 TAAAATCGCAACGCGTAT-CTG
1 -AAAATCGCAACGCGAATAC-G
* * *
466893 TAAATCGTAACGAGAATACG
1 AAAATCGCAACGCGAATACG
* * * *
466913 TAAATCGCAATGCGTATTCG
1 AAAATCGCAACGCGAATACG
* *
466933 TAAATCACAACGAC-AATACG
1 AAAATCGCAACG-CGAATACG
* *
466953 TAAAATCGCAACGCGTATCCG
1 -AAAATCGCAACGCGAATACG
*
466974 TAAATCGCAACGCGA
1 AAAATCGCAACGCGA
466989 TTTTTAAAGC
Statistics
Matches: 165, Mismatches: 42, Indels: 22
0.72 0.18 0.10
Matches are distributed among these distances:
19 1 0.01
20 114 0.69
21 50 0.30
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
AAAATCGCAACGCGAATACG
Found at i:466857 original size:81 final size:82
Alignment explanation
Indices: 466751--466985 Score: 262
Period size: 81 Copynumber: 2.9 Consensus size: 82
466741 GCGATTTTCC
* * * * * * *
466751 AAAATCGCAACGCGAATATGAAAATCGCAACG-CGA-ACATATAAATCGCAATGCG-ATTTTTAC
1 AAAATCGCAACGCGTATACGTAAATCGCAACGACAATACATA-AAATCGCAACGCGTATCTGTA-
* * *
466813 TATCGCAACGAGTATCCGT
64 AATCGCAACGAGAATACGT
* *
466832 AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCTGTAAA
1 AAAATCGCAACGCGTATACGTAAATCGCAACGACAATACATAAAATCGCAACGCGTATCTGTAAA
*
466897 TCGTAACGAGAATACGT
66 TCGCAACGAGAATACGT
* * * * *
466914 -AAATCGCAATGCGTATTCGTAAATCACAACGACAATACGTAAAATCGCAACGCGTATCCGTAAA
1 AAAATCGCAACGCGTATACGTAAATCGCAACGACAATACATAAAATCGCAACGCGTATCTGTAAA
466978 TCGCAACG
66 TCGCAACG
466986 CGATTTTTAA
Statistics
Matches: 133, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
81 95 0.71
82 29 0.22
83 9 0.07
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.20
Consensus pattern (82 bp):
AAAATCGCAACGCGTATACGTAAATCGCAACGACAATACATAAAATCGCAACGCGTATCTGTAAA
TCGCAACGAGAATACGT
Found at i:466859 original size:41 final size:41
Alignment explanation
Indices: 466814--466985 Score: 256
Period size: 41 Copynumber: 4.2 Consensus size: 41
466804 GATTTTTACT
** *
466814 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
*
466855 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCTGTAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
* * * *
466896 ATCGTAACGAGAATACGT-AAATCGCAATGCGTATTCGTAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
*
466936 ATCACAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
466977 ATCGCAACG
1 ATCGCAACG
466986 CGATTTTTAA
Statistics
Matches: 115, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 34 0.30
41 81 0.70
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (41 bp):
ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:466878 original size:122 final size:122
Alignment explanation
Indices: 466751--466985 Score: 319
Period size: 122 Copynumber: 1.9 Consensus size: 122
466741 GCGATTTTCC
* * ** *
466751 AAAATCGCAACGCGAATATGAAAATCGCAACGCGAACATATAAATCGCAATGCG-ATTTTTACTA
1 AAAATCGCAACGCGAATATGAAAATCGCAACGAGAACACATAAATCGCAATGCGTATTCGTA-AA
* ** *
466815 TCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGT
65 TCACAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGT
* * * * * *
466873 AAAATCGCAACGCGTATCTGTAAATCGTAACGAGAATACGTAAATCGCAATGCGTATTCGTAAAT
1 AAAATCGCAACGCGAATATGAAAATCGCAACGAGAACACATAAATCGCAATGCGTATTCGTAAAT
466938 CACAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACG
66 CACAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACG
466986 CGATTTTTAA
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
122 92 0.95
123 5 0.05
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.20
Consensus pattern (122 bp):
AAAATCGCAACGCGAATATGAAAATCGCAACGAGAACACATAAATCGCAATGCGTATTCGTAAAT
CACAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGT
Found at i:467601 original size:21 final size:21
Alignment explanation
Indices: 467540--467618 Score: 94
Period size: 20 Copynumber: 3.9 Consensus size: 21
467530 TTCTAAACTT
467540 AAAATCGCAAC-ATGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
467560 AAAATCGCAAC-ACGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
**
467580 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACGAGAGAAATG
467601 AAAATCGCAACGAGAGAA
1 AAAATCGCAACGAGAGAA
467619 TCGCAACGCG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
20 30 0.58
21 22 0.42
ACGTcount: A:0.52, C:0.18, G:0.19, T:0.11
Consensus pattern (21 bp):
AAAATCGCAACGAGAGAAATG
Found at i:467641 original size:19 final size:19
Alignment explanation
Indices: 467540--467661 Score: 92
Period size: 20 Copynumber: 6.5 Consensus size: 19
467530 TTCTAAACTT
**
467540 AAAATCGCAACATGAAAATG
1 AAAATCGCAACGCG-AAATG
*
467560 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCG-AAATG
** *
467580 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAAC--GCGAAATG
467601 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
*
467615 AGAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
**
467634 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATG
467653 AAAATCGCA
1 AAAATCGCA
467662 TTGCGATTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
14 10 0.12
15 1 0.01
16 2 0.02
17 1 0.01
18 1 0.01
19 26 0.31
20 28 0.34
21 13 0.16
22 1 0.01
ACGTcount: A:0.49, C:0.21, G:0.19, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:467679 original size:19 final size:19
Alignment explanation
Indices: 467657--467769 Score: 110
Period size: 20 Copynumber: 6.1 Consensus size: 19
467647 GAAACCAAAA
*
467657 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
467676 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
467690 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
467709 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
467728 TCCGCGTTGCGATAGTCATT
1 T-CGCGTTGCGATTTTCATT
*
467748 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
467768 TC
1 TC
467770 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
14 10 0.13
16 3 0.04
17 3 0.04
19 29 0.37
20 33 0.42
21 1 0.01
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:467767 original size:20 final size:19
Alignment explanation
Indices: 467657--467760 Score: 92
Period size: 19 Copynumber: 5.6 Consensus size: 19
467647 GAAACCAAAA
* **
467657 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATAGTCATT
467676 TCGCGTTGCGAT--TC---
1 TCGCGTTGCGATAGTCATT
* **
467690 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATAGTCATT
467709 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATAGTCATT
467728 TCCGCGTTGCGATAGTCATT
1 T-CGCGTTGCGATAGTCATT
*
467748 CTCTCGTTGCGAT
1 -TCGCGTTGCGAT
467761 TTTCATTTCA
Statistics
Matches: 72, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
14 11 0.15
16 2 0.03
17 2 0.03
19 28 0.39
20 28 0.39
21 1 0.01
ACGTcount: A:0.12, C:0.24, G:0.22, T:0.41
Consensus pattern (19 bp):
TCGCGTTGCGATAGTCATT
Found at i:469575 original size:94 final size:94
Alignment explanation
Indices: 469414--469793 Score: 656
Period size: 94 Copynumber: 4.1 Consensus size: 94
469404 TAGATTGCTT
* *
469414 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
469479 ATTTGTCTTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
469508 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
469573 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
469602 AGTAAATTTGTTCGGTTGCTGTCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
469667 ATTTGTCTTTGTTTTATCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * *
469696 AGTAAATTTGTTCGGTTGCTGTCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
469761 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
469789 AGTAA
1 AGTAA
469794 TGCAATCCAT
Statistics
Matches: 277, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
93 26 0.09
94 251 0.91
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:469905 original size:38 final size:39
Alignment explanation
Indices: 469844--469949 Score: 110
Period size: 36 Copynumber: 2.7 Consensus size: 39
469834 TTTACTTTCC
* * **
469844 CAACACGAAACTTAAAATTGCAACGTGAAAAATGACTATCG
1 CAACGCGAAAC-TAAAATCGCAACG-GAAAAATGAAAATCG
* *
469885 CAACGCGAAA-T-GAATCGCAAC-GAGAAATGAAAATCG
1 CAACGCGAAACTAAAATCGCAACGGAAAAATGAAAATCG
469921 CAACGCGAAACTAAAATCGCAACGCGAAA
1 CAACGCGAAACTAAAATCGCAACG-GAAA
469950 CTATAATCGC
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
36 22 0.42
37 1 0.02
38 17 0.32
39 1 0.02
40 3 0.06
41 9 0.17
ACGTcount: A:0.47, C:0.22, G:0.18, T:0.13
Consensus pattern (39 bp):
CAACGCGAAACTAAAATCGCAACGGAAAAATGAAAATCG
Found at i:469966 original size:19 final size:19
Alignment explanation
Indices: 469881--469959 Score: 101
Period size: 19 Copynumber: 4.3 Consensus size: 19
469871 AAAAATGACT
*
469881 ATCGCAACGCGAAA-T-GA
1 ATCGCAACGCGAAACTAAA
*
469898 ATCGCAACGAGAAA-TGAAA
1 ATCGCAACGCGAAACT-AAA
469917 ATCGCAACGCGAAACTAAA
1 ATCGCAACGCGAAACTAAA
*
469936 ATCGCAACGCGAAACTATA
1 ATCGCAACGCGAAACTAAA
469955 ATCGC
1 ATCGC
469960 GTTGCGATTT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
17 14 0.25
19 40 0.73
20 1 0.02
ACGTcount: A:0.44, C:0.24, G:0.19, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAACTAAA
Found at i:470019 original size:20 final size:20
Alignment explanation
Indices: 469994--470060 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
469984 GATTCTCTCG
*
469994 TTGCGATAGTCATTTTTGCA
1 TTGCGATAGTCATTTTCGCA
470014 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
470034 TTACGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
470054 TTGCGAT
1 TTGCGAT
470061 TTTAAGTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:470635 original size:21 final size:21
Alignment explanation
Indices: 470544--470648 Score: 86
Period size: 21 Copynumber: 5.0 Consensus size: 21
470534 GACTCACCTG
*
470544 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
* *
470566 T-ATCGTTCAATAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
470586 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
470607 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
470628 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
470649 CCAACATTAT
Statistics
Matches: 61, Mismatches: 21, Indels: 3
0.72 0.25 0.04
Matches are distributed among these distances:
20 3 0.05
21 57 0.93
22 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.18, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:470641 original size:42 final size:42
Alignment explanation
Indices: 470541--470651 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 42
470531 CCTGACTCAC
* * * * *
470541 CTGTCATCGTTCAAGAGGCCTCC-CCTATCGTTCAATAGGCCC
1 CTGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAGAGGCCA
* **
470583 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
*
470625 CTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CTGTCATCGTTCAAGA-GTCCCCTCCCA
470652 ACATTATAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.04
42 51 0.93
43 2 0.04
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
Found at i:472024 original size:14 final size:14
Alignment explanation
Indices: 472005--472040 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
471995 ATTGTTTAAT
472005 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
472019 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
472033 TGATTTGT
1 TGATTTGT
472041 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:472243 original size:33 final size:33
Alignment explanation
Indices: 472186--472319 Score: 160
Period size: 33 Copynumber: 3.8 Consensus size: 33
472176 ATCGCTTTCG
472186 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCACT
*
472220 CGTTGCGATTTTCATTTCGCATTGCGATTTTCATTT
1 CGTTGCGATTTTCATTTCGCATTGCGA--TTCA-CT
*
472256 CGCATTGCGATTTTCATTTCGCATTGCGATTCGCT
1 CG--TTGCGATTTTCATTTCGCATTGCGATTCACT
** *
472291 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
472320 AGTCAATTCC
Statistics
Matches: 88, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
33 26 0.30
34 24 0.27
35 7 0.08
36 6 0.07
38 25 0.28
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:472246 original size:19 final size:19
Alignment explanation
Indices: 472181--472286 Score: 150
Period size: 19 Copynumber: 5.8 Consensus size: 19
472171 AGAGAATCGC
*
472181 TTTCGCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
472200 TTTTCGCATTGCGA--TTCA
1 -TTTCGCATTGCGATTTTCA
*
472218 -CTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
472234 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
472253 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
472272 TTTCGCATTGCGATT
1 TTTCGCATTGCGATT
472287 CGCTCGTTGC
Statistics
Matches: 78, Mismatches: 3, Indels: 11
0.85 0.03 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 3 0.04
18 4 0.05
19 46 0.59
20 12 0.15
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:472298 original size:71 final size:73
Alignment explanation
Indices: 472181--472348 Score: 223
Period size: 71 Copynumber: 2.3 Consensus size: 73
472171 AGAGAATCGC
* **
472181 TTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATTT-CGCATTGC
1 TTTCGCATTGCGATTTTCA-TTTCGCATTGCGATTCACTCGTTGCGATAGTCATTTCCGCATTGC
**
472245 GATTTTC-A
65 GATAGTCAA
* *
472253 TTTCGCATTGCGATTTTCATTTCGCATTGCGATTCGCTCGTTGCGATAGTCATTTCCGCGTTGCG
1 TTTCGCATTGCGATTTTCATTTCGCATTGCGATTCACTCGTTGCGATAGTCATTTCCGCATTGCG
472318 ATAGTCAA
66 ATAGTCAA
* **
472326 TTCCGCATTGCGATAGTCATTTC
1 TTTCGCATTGCGATTTTCATTTC
472349 CGTGTTGCGA
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
71 33 0.39
72 30 0.36
73 21 0.25
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.42
Consensus pattern (73 bp):
TTTCGCATTGCGATTTTCATTTCGCATTGCGATTCACTCGTTGCGATAGTCATTTCCGCATTGCG
ATAGTCAA
Found at i:472316 original size:20 final size:20
Alignment explanation
Indices: 472291--472384 Score: 145
Period size: 20 Copynumber: 4.7 Consensus size: 20
472281 GCGATTCGCT
472291 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
472311 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
472331 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
472351 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
472371 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
472385 AATGAATGTC
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
20 65 0.97
21 2 0.03
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:474832 original size:24 final size:24
Alignment explanation
Indices: 474798--474851 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
474788 CTGAAAAATC
474798 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
474822 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
474846 ATCAAA
1 ATCAAA
474852 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:474865 original size:24 final size:24
Alignment explanation
Indices: 474798--474865 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
474788 CTGAAAAATC
* * *
474798 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
474822 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
474846 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
474866 TAGAACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:475749 original size:20 final size:20
Alignment explanation
Indices: 475713--475758 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
475703 CAGAATCTCG
*
475713 TTGCGATTTATAGATTCGCA
1 TTGCGATTTATAGATTCACA
*
475733 TTGCGATTTA-CGTATTCACA
1 TTGCGATTTATAG-ATTCACA
475753 TTGCGA
1 TTGCGA
475759 ATTAGGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (20 bp):
TTGCGATTTATAGATTCACA
Found at i:475781 original size:21 final size:21
Alignment explanation
Indices: 475755--475800 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
475745 TATTCACATT
475755 GCGAATTAGGA-AAATCGCAAC
1 GCGAATT-GGAGAAATCGCAAC
* *
475776 GCGAATTTGAGAAATCGCAAT
1 GCGAATTGGAGAAATCGCAAC
475797 GCGA
1 GCGA
475801 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTGGAGAAATCGCAAC
Found at i:475895 original size:20 final size:20
Alignment explanation
Indices: 475851--476043 Score: 160
Period size: 20 Copynumber: 9.6 Consensus size: 20
475841 TATCGGAGAT
*
475851 CGCGTTGCGAATTATC-GAT-
1 CGCGTTGCGATTTA-CGGATA
475870 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
475890 CGCGTTGCAATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
* *
475910 TGTCGTTGCGATTTACAGATA
1 CG-CGTTGCGATTTACGGATA
* * *
475931 CACGTTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* *
475951 CTCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
475971 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
* **
475991 TGTTATTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
476012 CGCATTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
476033 CTCGTTGCGAT
1 CGCGTTGCGAT
476044 AGTCAGAATC
Statistics
Matches: 138, Mismatches: 27, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
18 1 0.01
19 16 0.12
20 73 0.53
21 48 0.35
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:475920 original size:41 final size:41
Alignment explanation
Indices: 475872--476104 Score: 242
Period size: 41 Copynumber: 5.7 Consensus size: 41
475862 TTATCGATCG
* *
475872 CGTTGCGATTTACGGATACGCGTTGCAATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
475913 CGTTGCGATTTACAGATACACGTTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
475953 CATTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
** * * *
475994 TATTGCGATTTACGGATACGCATTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* * *
476035 CGTTGCGATAGT-CAGA-ATCGCGTTGCGATTTATA--TATTCG
1 CGTTGCGAT-TTACGGATA-CGCGTTGCGATTT-TACGTATTCT
* ** *
476075 CGTTGCGATTTTCATATTCGCGTTGCGATT
1 CGTTGCGATTTACGGATACGCGTTGCGATT
476105 CTGGGAACTG
Statistics
Matches: 162, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 64 0.40
41 94 0.58
42 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
Found at i:475969 original size:81 final size:82
Alignment explanation
Indices: 475874--476043 Score: 252
Period size: 81 Copynumber: 2.1 Consensus size: 82
475864 ATCGATCGCG
* *
475874 TTGCGATTTACGGATACGCGTTGCAATTTTACGTATTGTCGTTGCGATTTACAGATACACGTTGC
1 TTGCGATTTACGGATACGCGTTGCAATTTTACGTATTGTCATTGCGATTTACAGATACACATTGC
* *
475939 GA-TTTACGTATTCTCA
66 GATTTTACGGATACTCA
* * * *
475955 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTTATTGCGATTTACGGATACGCATTGC
1 TTGCGATTTACGGATACGCGTTGCAATTTTACGTATTGTCATTGCGATTTACAGATACACATTGC
*
476020 GATTTTACGGATACTCG
66 GATTTTACGGATACTCA
476037 TTGCGAT
1 TTGCGAT
476044 AGTCAGAATC
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 61 0.77
82 18 0.23
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (82 bp):
TTGCGATTTACGGATACGCGTTGCAATTTTACGTATTGTCATTGCGATTTACAGATACACATTGC
GATTTTACGGATACTCA
Found at i:476038 original size:122 final size:122
Alignment explanation
Indices: 475874--476104 Score: 295
Period size: 122 Copynumber: 1.9 Consensus size: 122
475864 ATCGATCGCG
* * ** *
475874 TTGCGATTTACGGATACGCGTTGCAATTTTACGTATTGTCGTTGCGAT-TTACAG-ATACACGTT
1 TTGCGATTTACGGATACGCATTGCAATTTTACGGATACTCGTTGCGATAGT-CAGAAT-CACGTT
* * *
475937 GCGATTTACGTATTCTCATTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTTA
64 GCGATTTACATATTCGCATTGCGATTTACAGATACGCGTTGCGATTTTACGTATTGTTA
* *
475996 TTGCGATTTACGGATACGCATTGCGATTTTACGGATACTCGTTGCGATAGTCAGAATCGCGTTGC
1 TTGCGATTTACGGATACGCATTGCAATTTTACGGATACTCGTTGCGATAGTCAGAATCACGTTGC
* * * * *
476061 GATTTATATATTCGCGTTGCGATTTTCATATTCGCGTTGCGATT
66 GATTTACATATTCGCATTGCGATTTACAGATACGCGTTGCGATT
476105 CTGGGAACTG
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
122 89 0.97
123 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.39
Consensus pattern (122 bp):
TTGCGATTTACGGATACGCATTGCAATTTTACGGATACTCGTTGCGATAGTCAGAATCACGTTGC
GATTTACATATTCGCATTGCGATTTACAGATACGCGTTGCGATTTTACGTATTGTTA
Found at i:476075 original size:20 final size:20
Alignment explanation
Indices: 476052--476104 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
476042 ATAGTCAGAA
476052 TCGCGTTGCGATTTAT-ATAT
1 TCGCGTTGCGATTT-TCATAT
476072 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
476092 TCGCGTTGCGATT
1 TCGCGTTGCGATT
476105 CTGGGAACTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.15, C:0.19, G:0.23, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:476144 original size:20 final size:19
Alignment explanation
Indices: 476092--476144 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
476082 ATTTTCATAT
476092 TCGCGTTGCGATTCTGGGA
1 TCGCGTTGCGATTCTGGGA
* ** *
476111 ACTGATTTGTGATTCTGGAGA
1 TC-GCGTTGCGATTCTGG-GA
476132 TCGCGTTGCGATT
1 TCGCGTTGCGATT
476145 TTTATTTCGC
Statistics
Matches: 24, Mismatches: 8, Indels: 3
0.69 0.23 0.09
Matches are distributed among these distances:
19 1 0.04
20 20 0.83
21 3 0.12
ACGTcount: A:0.15, C:0.17, G:0.32, T:0.36
Consensus pattern (19 bp):
TCGCGTTGCGATTCTGGGA
Found at i:477050 original size:18 final size:18
Alignment explanation
Indices: 477019--477059 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
477009 AGACGACCAG
*
477019 CAGCCCACAGCAAAACAA
1 CAGCCCACAACAAAACAA
*
477037 CAGCCTACAACAAAACAA
1 CAGCCCACAACAAAACAA
477055 CAGCC
1 CAGCC
477060 GCCAGGACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.39, G:0.10, T:0.02
Consensus pattern (18 bp):
CAGCCCACAACAAAACAA
Found at i:478119 original size:16 final size:16
Alignment explanation
Indices: 478098--478129 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
478088 TCAATTTACT
*
478098 TCTGATCTTGTCAACC
1 TCTGATATTGTCAACC
478114 TCTGATATTGTCAACC
1 TCTGATATTGTCAACC
478130 AAAGGAAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.38
Consensus pattern (16 bp):
TCTGATATTGTCAACC
Found at i:481102 original size:22 final size:21
Alignment explanation
Indices: 481072--481112 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
481062 CCCTAACCCC
* *
481072 TATTTCAACGTAGACCTTTGCG
1 TATTCCAACATAGA-CTTTGCG
481094 TATTCCAACATAGACTTTG
1 TATTCCAACATAGACTTTG
481113 AGGCAGTCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (21 bp):
TATTCCAACATAGACTTTGCG
Found at i:505364 original size:2 final size:2
Alignment explanation
Indices: 505357--505388 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
505347 ATACATGTGA
505357 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
505389 TAATCCCTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:514054 original size:19 final size:19
Alignment explanation
Indices: 514002--514055 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
513992 TGACCTCATT
* * *
514002 GGTCACCAAATGCTTCATA
1 GGTCGCCAAGTGCTCCATA
514021 GGTCGCCAAGTGCTCCATA
1 GGTCGCCAAGTGCTCCATA
514040 GGTCGCCAAGTGCTCC
1 GGTCGCCAAGTGCTCC
514056 TTGCGACAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.22
Consensus pattern (19 bp):
GGTCGCCAAGTGCTCCATA
Found at i:514168 original size:19 final size:19
Alignment explanation
Indices: 514112--514170 Score: 109
Period size: 19 Copynumber: 3.1 Consensus size: 19
514102 GCTGTTGCAG
*
514112 CTCCATAGGTCGCCAAGTG
1 CTCCATAGGTCGCCAAGTA
514131 CTCCATAGGTCGCCAAGTA
1 CTCCATAGGTCGCCAAGTA
514150 CTCCATAGGTCGCCAAGTA
1 CTCCATAGGTCGCCAAGTA
514169 CT
1 CT
514171 TCTGGAGACC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.24, C:0.32, G:0.22, T:0.22
Consensus pattern (19 bp):
CTCCATAGGTCGCCAAGTA
Found at i:516628 original size:21 final size:23
Alignment explanation
Indices: 516593--516640 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 23
516583 ACATTTTTAA
516593 TTATATTTAAATTTAAAAT-TTT
1 TTATATTTAAATTTAAAATATTT
516615 TTATATTT-AATTTAAAATATTT
1 TTATATTTAAATTTAAAATATTT
516637 TTAT
1 TTAT
516641 TCCAAATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTATATTTAAATTTAAAATATTT
Found at i:516648 original size:22 final size:21
Alignment explanation
Indices: 516601--516648 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
516591 AATTATATTT
*
516601 AAATTTAAAATTTTTTATATT
1 AAATTTAAAATTTTTTATATC
*
516622 TAATTTAAAATATTTTTAT-TCC
1 AAATTTAAAAT-TTTTTATAT-C
516644 AAATT
1 AAATT
516649 CATTTGCGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (21 bp):
AAATTTAAAATTTTTTATATC
Found at i:518210 original size:223 final size:224
Alignment explanation
Indices: 517822--518270 Score: 882
Period size: 223 Copynumber: 2.0 Consensus size: 224
517812 AGACAAGGGA
517822 CCCTGCAAGGACACCTGAGAGAGTTTCCACGCCGAAAAAGATCCCAACAAGGGGTGTGAGAATAA
1 CCCTGCAAGGACACCTGAGAGAGTTTCCACGCCGAAAAAGATCCCAACAAGGGGTGTGAGAATAA
517887 CAAGAGCACCCGGGGGGATCATTTCTTTGATGGAGTCGTCGGTCGAGATCTTTACACAGGTAGCC
66 CAAGAGCACCCGGGGGGATCATTTCTTTGATGGAGTCGTCGGTCGAGATCTTTACACAGGTAGCC
517952 TAGTCAGGCTTAGCAGTGCCTTCCATGAGACCAGGGATTGAGTTGAACTG-TGCGCACTTCTTCG
131 TAGTCAGGCTTAGCAGTGCCTTCCATGAGACCAGGGATTGAGTTGAACTGCTGCGCACTTCTTCG
518016 ACCATCTTCAGAGCTGCACTTCGCACACT
196 ACCATCTTCAGAGCTGCACTTCGCACACT
518045 CCCTGCAAGGACACCTGAGAGAGTTTCCACGCCGAAAAAGATCCCAACAAGGGGTGTGAGAATAA
1 CCCTGCAAGGACACCTGAGAGAGTTTCCACGCCGAAAAAGATCCCAACAAGGGGTGTGAGAATAA
518110 CAAGAGCACCCGGGGGGATCATTTCTTTGATGGAGTCGTCGGTCGAGATCTTTACACAGGTAGCC
66 CAAGAGCACCCGGGGGGATCATTTCTTTGATGGAGTCGTCGGTCGAGATCTTTACACAGGTAGCC
518175 TAGTCAGGCTTAGCAGTGCCTTCCATGAGACCAGGGATTGAGTTGAACTGTCTGCGCACTTCTTC
131 TAGTCAGGCTTAGCAGTGCCTTCCATGAGACCAGGGATTGAGTTGAACTG-CTGCGCACTTCTTC
518240 GACCATCTTCAGAGCTGCACTTCGCACACT
195 GACCATCTTCAGAGCTGCACTTCGCACACT
518270 C
1 C
518271 TTCATGGTCA
Statistics
Matches: 224, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
223 180 0.80
225 44 0.20
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.22
Consensus pattern (224 bp):
CCCTGCAAGGACACCTGAGAGAGTTTCCACGCCGAAAAAGATCCCAACAAGGGGTGTGAGAATAA
CAAGAGCACCCGGGGGGATCATTTCTTTGATGGAGTCGTCGGTCGAGATCTTTACACAGGTAGCC
TAGTCAGGCTTAGCAGTGCCTTCCATGAGACCAGGGATTGAGTTGAACTGCTGCGCACTTCTTCG
ACCATCTTCAGAGCTGCACTTCGCACACT
Found at i:538830 original size:42 final size:41
Alignment explanation
Indices: 538782--538904 Score: 176
Period size: 42 Copynumber: 2.9 Consensus size: 41
538772 TATATATATT
* *
538782 TCTGTTTCCTAAACTTGTTTGAATGGGGTAATCTTTTAACTA
1 TCTGTTTCCTAAGCTTGTTT-AATGGGGTAATCTTTTAACCA
538824 TCTGTTTCCTAAGCTTGTTTTAATGGGGGTAATCTTTT-ACCA
1 TCTGTTTCCTAAGCTTG-TTTAAT-GGGGTAATCTTTTAACCA
*
538866 TCTGTTTCCTAAGCTTGTATTAATGGGATAATCTTTTAA
1 TCTGTTTCCTAAGCTTGT-TTAATGGGGTAATCTTTTAA
538905 TTAAGTTAAC
Statistics
Matches: 74, Mismatches: 3, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
41 13 0.18
42 45 0.61
43 16 0.22
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.46
Consensus pattern (41 bp):
TCTGTTTCCTAAGCTTGTTTAATGGGGTAATCTTTTAACCA
Found at i:546817 original size:22 final size:21
Alignment explanation
Indices: 546778--546818 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
546768 GAGAAAATTC
* *
546778 CTAAAATTGAGAATAAAAAAT
1 CTAAAATTGAAAACAAAAAAT
546799 CTAAAATATGAAAACAAAAA
1 CTAAAAT-TGAAAACAAAAA
546819 GAAAAACCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.20
Consensus pattern (21 bp):
CTAAAATTGAAAACAAAAAAT
Found at i:555771 original size:191 final size:194
Alignment explanation
Indices: 555544--555928 Score: 733
Period size: 192 Copynumber: 2.0 Consensus size: 194
555534 AATATAATCA
555544 TCTTATGAAATTGTTTAACATCTTGTACGAATAAATCAAGGATTTAAAA-TAAAATGTAACTGAA
1 TCTTATGAAATTGTTTAACATCTTGTACGAATAAATCAAGGATTTAAAATTAAAATGTAACTGAA
555608 TGGTATTTATCTTGA-TTTATAAACACCCAGCCAATGACCCATCCATCATTGCAAATTGAGAGAA
66 TGGTATTTATCTTGATTTTATAAACACCCAGCCAATGACCCATCCATCATTGCAAATTGAGAGAA
555672 TAATAAAAAATACCAACCAAGCTTTGCATGGCTGATCACATCATCTCAACGTACGATCAA-GGGG
131 TAAT-AAAAATACCAACCAAGCTTTGCATGGCTGATCACATCATCTCAACGTACGATCAATGGGG
555736 TCTTATGAAA-TGTTTAACATCTTGTACGAATAAATCAAGGATTTAAAATTAAAATGTAACTGAA
1 TCTTATGAAATTGTTTAACATCTTGTACGAATAAATCAAGGATTTAAAATTAAAATGTAACTGAA
555800 TGGTATTTATCTTGATTTTATAAACACCCAGCCAATGACCCATCCATCATTGCAAATTGAGAGAA
66 TGGTATTTATCTTGATTTTATAAACACCCAGCCAATGACCCATCCATCATTGCAAATTGAGAGAA
555865 TAATAAAAATACCAACCAAGCTTTGCATGGCTGATCACATCATCTCAACGTACGATCAATGGGG
131 TAATAAAAATACCAACCAAGCTTTGCATGGCTGATCACATCATCTCAACGTACGATCAATGGGG
555929 ATGAAACTAT
Statistics
Matches: 190, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
191 38 0.20
192 95 0.50
193 57 0.30
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (194 bp):
TCTTATGAAATTGTTTAACATCTTGTACGAATAAATCAAGGATTTAAAATTAAAATGTAACTGAA
TGGTATTTATCTTGATTTTATAAACACCCAGCCAATGACCCATCCATCATTGCAAATTGAGAGAA
TAATAAAAATACCAACCAAGCTTTGCATGGCTGATCACATCATCTCAACGTACGATCAATGGGG
Found at i:557918 original size:12 final size:12
Alignment explanation
Indices: 557889--557921 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
557879 TCTTTTACAA
557889 ATTCTTTATTAT
1 ATTCTTTATTAT
*
557901 -TTCTTTATTTT
1 ATTCTTTATTAT
557912 ATTCTTTATT
1 ATTCTTTATT
557922 GATTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (12 bp):
ATTCTTTATTAT
Found at i:561377 original size:12 final size:12
Alignment explanation
Indices: 561360--561385 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
561350 TGTTCCACAA
561360 GATGGTGAGATG
1 GATGGTGAGATG
561372 GATGGTGAGATG
1 GATGGTGAGATG
561384 GA
1 GA
561386 AGGAAATGAA
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:0.27, C:0.00, G:0.50, T:0.23
Consensus pattern (12 bp):
GATGGTGAGATG
Found at i:566784 original size:13 final size:13
Alignment explanation
Indices: 566766--566792 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
566756 CCTCTTCCAT
566766 TCCTTGTAGTTGG
1 TCCTTGTAGTTGG
566779 TCCTTGTAGTTGG
1 TCCTTGTAGTTGG
566792 T
1 T
566793 GCAGTTAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (13 bp):
TCCTTGTAGTTGG
Found at i:580946 original size:21 final size:21
Alignment explanation
Indices: 580917--580960 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
580907 AATATGTAAA
580917 TCGCATTGCGATTTTTCAAAT
1 TCGCATTGCGATTTTTCAAAT
*
580938 TCGCGTTGCGATTTTTCAAAT
1 TCGCATTGCGATTTTTCAAAT
580959 TC
1 TC
580961 ACAACGCGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.43
Consensus pattern (21 bp):
TCGCATTGCGATTTTTCAAAT
Found at i:580969 original size:21 final size:21
Alignment explanation
Indices: 580924--580970 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
580914 AAATCGCATT
* ***
580924 GCGATTTTTCAAATTCGCGTT
1 GCGATTTTTCAAATTCACAAC
580945 GCGATTTTTCAAATTCACAAC
1 GCGATTTTTCAAATTCACAAC
580966 GCGAT
1 GCGAT
580971 AGTCAAATTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (21 bp):
GCGATTTTTCAAATTCACAAC
Found at i:581017 original size:19 final size:20
Alignment explanation
Indices: 580852--581043 Score: 126
Period size: 20 Copynumber: 9.6 Consensus size: 20
580842 AAATGACCAA
580852 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACGCGAATTT
* * *
580872 CAATTTCGCAAC-CCAGTTT
1 CAAATTCGCAACGCGAATTT
*
580891 CCAATTTCGCAACGCGAATATGT
1 -CAAATTCGCAACGCGAAT-T-T
** *
580914 -AAA-TCGCATTGCGATTTTT
1 CAAATTCGCAACGCGA-ATTT
*** *
580933 CAAATTCGCGTTGCGATTTTT
1 CAAATTCGCAACGCGA-ATTT
* *
580954 CAAATTCACAACGCG-ATAGT
1 CAAATTCGCAACGCGAAT-TT
* **
580974 CAAATTCGTAACGCGAAAGT
1 CAAATTCGCAACGCGAATTT
*
580994 CAAATTCGCAAC-TGAATTT
1 CAAATTCGCAACGCGAATTT
581013 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACGCGAATTT
*
581033 -AATTTCGCAAC
1 CAAATTCGCAAC
581044 AGGTTTTAGT
Statistics
Matches: 137, Mismatches: 25, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
19 33 0.24
20 69 0.50
21 33 0.24
22 1 0.01
23 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.29
Consensus pattern (20 bp):
CAAATTCGCAACGCGAATTT
Found at i:581962 original size:24 final size:24
Alignment explanation
Indices: 581934--581989 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
581924 GTGAGTACTA
**
581934 GTCAATATTCGAAATTTGATCTTG
1 GTCAATACCCGAAATTTGATCTTG
* *
581958 GTCAATACCCGGACTTTGATCTTG
1 GTCAATACCCGAAATTTGATCTTG
581982 GTCAATAC
1 GTCAATAC
581990 TAGGATTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (24 bp):
GTCAATACCCGAAATTTGATCTTG
Found at i:581999 original size:24 final size:24
Alignment explanation
Indices: 581948--582001 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
581938 ATATTCGAAA
*
581948 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCAGGAC
* *
581972 TTTGATCTTGGTCAATACTAGGAT
1 TTTGATCTTGGTCAATACCAGGAC
581996 TTTGAT
1 TTTGAT
582002 GATGTGATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCAGGAC
Found at i:583435 original size:20 final size:20
Alignment explanation
Indices: 583410--583447 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
583400 GCAACGCTTA
583410 TTTCGCGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
583430 TTTCGCGTTGCGAATTTG
1 TTTCGCGTTGCGAATTTG
583448 TACCTTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.18, G:0.26, T:0.42
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTGAC
Found at i:585023 original size:21 final size:21
Alignment explanation
Indices: 584999--585097 Score: 82
Period size: 21 Copynumber: 4.7 Consensus size: 21
584989 GCGGGCGGGA
584999 CCTCTTGAATGATGACGG-GGG
1 CCTCTTGAATGATGA-GGAGGG
* *
585020 CCTCTTGAACGGTG-GGAGGG
1 CCTCTTGAATGATGAGGAGGG
*
585040 ACTTCTTCG-ATGATGA-GAGGGG
1 -CCTCTT-GAATGATGAGGA-GGG
*
585062 CCTCTTGAACGAT-AGGAGGTG
1 CCTCTTGAATGATGAGGAGG-G
585083 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
585098 TAGGTGCATC
Statistics
Matches: 61, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
19 2 0.03
20 7 0.11
21 47 0.77
22 5 0.08
ACGTcount: A:0.21, C:0.18, G:0.35, T:0.25
Consensus pattern (21 bp):
CCTCTTGAATGATGAGGAGGG
Found at i:585041 original size:42 final size:42
Alignment explanation
Indices: 584979--585097 Score: 145
Period size: 42 Copynumber: 2.8 Consensus size: 42
584969 ATGCATCAGG
* *
584979 CTCTTGAACGGCGGGCGGGACCTCTTGAATGATGACG-GGGGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAATGATGA-GAGGGGC
*
585021 CTCTTGAACGGTGGGAGGGACTTCTTCG-ATGATGAGAGGGGC
1 CTCTTGAACGGTGGGAGGGACCTCTT-GAATGATGAGAGGGGC
* *
585063 CTCTTGAACGATAGGAGGTG-CCTCTTGAATGATGA
1 CTCTTGAACGGTGGGAGG-GACCTCTTGAATGATGA
585098 TAGGTGCATC
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
41 2 0.03
42 63 0.94
43 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.37, T:0.24
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGACCTCTTGAATGATGAGAGGGGC
Found at i:587303 original size:20 final size:19
Alignment explanation
Indices: 587262--587304 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
587252 AAATCGCAAC
*
587262 GCGATTTTAGTTTCGCGCT
1 GCGATTTTAGTTTCACGCT
* *
587281 GCGATTTTCATTTTCACGTT
1 GCGATTTT-AGTTTCACGCT
587301 GCGA
1 GCGA
587305 ATTTGGTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.14, C:0.21, G:0.23, T:0.42
Consensus pattern (19 bp):
GCGATTTTAGTTTCACGCT
Found at i:587592 original size:22 final size:22
Alignment explanation
Indices: 587564--587610 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
587554 GAGATAGACG
587564 GATTTCGTCGGAAATGGGGACA
1 GATTTCGTCGGAAATGGGGACA
*
587586 GATTTCGTCGGAGATGGGGACA
1 GATTTCGTCGGAAATGGGGACA
587608 GAT
1 GAT
587611 GTCGCCGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.38, T:0.23
Consensus pattern (22 bp):
GATTTCGTCGGAAATGGGGACA
Found at i:587763 original size:20 final size:20
Alignment explanation
Indices: 587738--587818 Score: 119
Period size: 20 Copynumber: 4.0 Consensus size: 20
587728 GCGTAAAAAC
587738 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
587758 ATTTGAC-TTCTGTGTTGCGA
1 ATTTGACTTTC-GCGTTGCGA
587778 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
**
587798 ATTTGACAATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
587818 A
1 A
587819 ATTGGAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
19 3 0.05
20 49 0.89
21 3 0.05
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:587916 original size:20 final size:20
Alignment explanation
Indices: 587867--587920 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
587857 CGATTTACAT
587867 ATTCGCGTTGCGAAATTGGA
1 ATTCGCGTTGCGAAATTGGA
* *
587887 A-ACTGGGTTGCGAAATTGGA
1 ATTC-GCGTTGCGAAATTGGA
587907 ATTCGCGTTGCGAA
1 ATTCGCGTTGCGAA
587921 TTTGTTGGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (20 bp):
ATTCGCGTTGCGAAATTGGA
Found at i:592529 original size:13 final size:13
Alignment explanation
Indices: 592511--592536 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
592501 CATTAACCGC
592511 CGTTAATATGCGT
1 CGTTAATATGCGT
592524 CGTTAATATGCGT
1 CGTTAATATGCGT
592537 GACAGAATGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
CGTTAATATGCGT
Found at i:592851 original size:24 final size:24
Alignment explanation
Indices: 592819--592866 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
592809 CGTCAAAAGA
592819 ATGCATAAATTTACTTAAATTATT
1 ATGCATAAATTTACTTAAATTATT
* * *
592843 ATGCGTAAATTTGCTTGAATTATT
1 ATGCATAAATTTACTTAAATTATT
592867 CTTAATGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.46
Consensus pattern (24 bp):
ATGCATAAATTTACTTAAATTATT
Found at i:594730 original size:36 final size:35
Alignment explanation
Indices: 594703--594781 Score: 110
Period size: 33 Copynumber: 2.3 Consensus size: 35
594693 ATAAGGGTAA
594703 AATTTGAATTTGATTAGCTACTGAAGATAAGGCTGG
1 AATTTGAATTTGATTAGCTACTGAAGATAAGGCT-G
* *
594739 AATTTGAATTTTATT---TGCTGAAGATAAGGCTG
1 AATTTGAATTTGATTAGCTACTGAAGATAAGGCTG
594771 AATTTGAATTT
1 AATTTGAATTT
594782 TAAATAAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
32 12 0.29
33 15 0.37
36 14 0.34
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (35 bp):
AATTTGAATTTGATTAGCTACTGAAGATAAGGCTG
Found at i:598811 original size:32 final size:34
Alignment explanation
Indices: 598765--598832 Score: 95
Period size: 32 Copynumber: 2.0 Consensus size: 34
598755 TTAAACGATT
*
598765 TTATAATAATTCTTAATGTT-A-TCAATTTAAGA
1 TTATAATAACTCTTAATGTTGAGTCAATTTAAGA
*
598797 TTATAATGACTCTTAATGTTGATGTCAATTTAAGA
1 TTATAATAACTCTTAATGTTGA-GTCAATTTAAGA
598832 T
1 T
598833 CACGTTGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 18 0.58
33 1 0.03
35 12 0.39
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (34 bp):
TTATAATAACTCTTAATGTTGAGTCAATTTAAGA
Found at i:604644 original size:34 final size:34
Alignment explanation
Indices: 604599--604683 Score: 143
Period size: 34 Copynumber: 2.5 Consensus size: 34
604589 TATGATTGAT
*
604599 CTCTCGTCGTCTTCAGTTGGATTCTTCATAGGAA
1 CTCTCGGCGTCTTCAGTTGGATTCTTCATAGGAA
*
604633 CTCTCGGCGTCTTCAGTTGGATTCTTCGTAGGAA
1 CTCTCGGCGTCTTCAGTTGGATTCTTCATAGGAA
*
604667 ATCTCGGCGTCTTCAGT
1 CTCTCGGCGTCTTCAGT
604684 GCTGTGCATG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.15, C:0.25, G:0.24, T:0.36
Consensus pattern (34 bp):
CTCTCGGCGTCTTCAGTTGGATTCTTCATAGGAA
Found at i:604780 original size:23 final size:23
Alignment explanation
Indices: 604753--604801 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
604743 CACGGGTCCT
*
604753 GGGTCCTGCAGGGCTGCATGTGG
1 GGGTCCTGCACGGCTGCATGTGG
*
604776 GGGTCCTGCACGTCTGCATGTGG
1 GGGTCCTGCACGGCTGCATGTGG
604799 GGG
1 GGG
604802 CATGCAACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.08, C:0.22, G:0.47, T:0.22
Consensus pattern (23 bp):
GGGTCCTGCACGGCTGCATGTGG
Found at i:605545 original size:172 final size:173
Alignment explanation
Indices: 605258--605616 Score: 578
Period size: 172 Copynumber: 2.1 Consensus size: 173
605248 TTGTAAAGTT
* * *
605258 TTAGGGACCGTTTTGTAAAATTTAAGGAATTTAAGGAATAAGAGTAAATTATTAAAAGTTGCTAT
1 TTAGGGATCGTTTTGCAAAATTTAAGGAATTTAAGGAATAAGAGTAAATTATAAAAAGTTGCTAT
*
605323 ACTATGCTGGAATTTAGTATTAGTATGCTTAATTGGTTAAATTAGAAAGAATTTA-AAATTTA-T
66 ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
*
605386 GGATTAAATTGCTAACTTTGAAAATGTTGAGAACCAAATAGTAA
131 -GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
* * *
605430 TTAGGGATCGTTTTGCAAAATTTGAGGAATTTAAGGAATTAGAGTAAATTATAAAAAGTTGGTAT
1 TTAGGGATCGTTTTGCAAAATTTAAGGAATTTAAGGAATAAGAGTAAATTATAAAAAGTTGCTAT
* *
605495 ACTATGCTTGAATTTAGTATTAATATGCTTAATTGGTTAAATTTGAAAGAATTTATAAATTTAGT
66 ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
* *
605560 GATTAAATTGCAAAGTTTGAAAATGTTGAGAAGCAAATAGTAA
131 GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
*
605603 TTAGGGATCATTTT
1 TTAGGGATCGTTTT
605617 ATATTTGATG
Statistics
Matches: 172, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
172 111 0.65
173 60 0.35
174 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.19, T:0.37
Consensus pattern (173 bp):
TTAGGGATCGTTTTGCAAAATTTAAGGAATTTAAGGAATAAGAGTAAATTATAAAAAGTTGCTAT
ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
Found at i:605719 original size:42 final size:41
Alignment explanation
Indices: 605670--606299 Score: 381
Period size: 37 Copynumber: 15.7 Consensus size: 41
605660 ATATATTTAC
* *
605670 TATTATTATATCAGT-AAATATAAATCATTAAAGTCAAGTAAT
1 TATTATTAAATCATTAAAAT-TAAATCATTAAAGT-AAGTAAT
*
605712 TATTATTAAATCATTAAAATTAAATCATTAAAATTAAGTAAT
1 TATTATTAAATCATTAAAATTAAATCATT-AAAGTAAGTAAT
*
605754 TATTATTAAATTATTAAAATTAAATCATT--A--AAGTAAT
1 TATTATTAAATCATTAAAATTAAATCATTAAAGTAAGTAAT
605791 TATTATTAAATCATTAAATCATTAAATCATT--A--AAGTAAT
1 TATTATTAAATCATTAAA--ATTAAATCATTAAAGTAAGTAAT
*
605830 TATTATTAAAGCATTAAAATTAAATCATT--A--AAGTAAT
1 TATTATTAAATCATTAAAATTAAATCATTAAAGTAAGTAAT
* * * * *
605867 TATTATTAAATCATTAAATCATTAAAGTAATTATTATTAAATCAT
1 TATTATTAAATCATTAAA--ATTAAA-TCATTA-AAGTAAGTAAT
* * * * *
605912 TAAATCATTAAATCATT-AAAGTAATTATTATTAAA-TCATTAAAGT
1 T--ATTATTAAATCATTAAAATTAA--ATCATTAAAGTAAGT-AA-T
*
605957 TAAATCATTAAATCATTAAAATTAAATCATT--A--AAGTAAT
1 T--ATTATTAAATCATTAAAATTAAATCATTAAAGTAAGTAAT
605996 TATTATTAAATCATTAAAATTAAATCATT--A--AAGTAAT
1 TATTATTAAATCATTAAAATTAAATCATTAAAGTAAGTAAT
* *
606033 TATTATTAAATCATTAAAGTTATATCATT--A--AAGTAAT
1 TATTATTAAATCATTAAAATTAAATCATTAAAGTAAGTAAT
* * * * * *
606070 TATTATTAAATCATTAAAGTTAAATAATTATTATTAAATCAT
1 TATTATTAAATCATTAAAATTAAATCATTA-AAGTAAGTAAT
* * * * *
606112 TA-AAGTTAAATCATT-AAAGTAATTATTATTAAA-TCATTAA-
1 TATTA-TTAAATCATTAAAATTAA--ATCATTAAAGTAAGTAAT
* * * * *
606152 -ATCATTAAATCATT-AAAGTAATTATTATTAAA-TCATTAAAGT
1 TATTATTAAATCATTAAAATTAA--ATCATTAAAGTAAGT-AA-T
*
606194 TAAATCATTAAATCATTAAAATTAAATCATT--A--AAGTAAT
1 T--ATTATTAAATCATTAAAATTAAATCATTAAAGTAAGTAAT
*
606233 TATTATTAAATCATTAAAGTTAAATCATT--A--AAGTAAT
1 TATTATTAAATCATTAAAATTAAATCATTAAAGTAAGTAAT
* *
606270 TATTATTAAATCATTAAAGTTAAATAATTA
1 TATTATTAAATCATTAAAATTAAATCATTA
606300 TTATTAAATC
Statistics
Matches: 508, Mismatches: 44, Indels: 76
0.81 0.07 0.12
Matches are distributed among these distances:
37 219 0.43
39 81 0.16
40 12 0.02
41 14 0.03
42 77 0.15
43 18 0.04
44 16 0.03
45 43 0.08
46 15 0.03
47 13 0.03
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (41 bp):
TATTATTAAATCATTAAAATTAAATCATTAAAGTAAGTAAT
Found at i:605727 original size:14 final size:14
Alignment explanation
Indices: 605710--606350 Score: 138
Period size: 14 Copynumber: 44.9 Consensus size: 14
605700 AAGTCAAGTA
605710 ATTATTATTAAATC
1 ATTATTATTAAATC
**
605724 ATTAAAATTAAATC
1 ATTATTATTAAATC
** * *
605738 ATTAAAATTAAGTA
1 ATTATTATTAAATC
*
605752 ATTATTATTAAATT
1 ATTATTATTAAATC
**
605766 ATTAAAATTAAATC
1 ATTATTATTAAATC
* * *
605780 ATTA-AAGTAATTATT
1 ATTATTATTAA--ATC
*
605795 ATTAAATCATTAAATC
1 ATT--ATTATTAAATC
* *
605811 ATTAAATCATTAAAGTA
1 ATT--ATTATTAAA-TC
*
605828 ATTATTATTAAAGC
1 ATTATTATTAAATC
**
605842 ATTAAAATTAAATC
1 ATTATTATTAAATC
* *
605856 ---ATTA--AAGTA
1 ATTATTATTAAATC
605865 ATTATTATTAAATC
1 ATTATTATTAAATC
* *
605879 ATTAAATCATTAAAGTA
1 ATT--ATTATTAAA-TC
605896 ATTATTATTAAATC
1 ATTATTATTAAATC
*
605910 ATTAAATCATTAAATC
1 ATT--ATTATTAAATC
* *
605926 ---ATTA--AAGTA
1 ATTATTATTAAATC
605935 ATTATTATTAAATC
1 ATTATTATTAAATC
*
605949 ATTA-AAGTTAAATC
1 ATTATTA-TTAAATC
*
605963 ATTAAATCATTAAA--
1 ATT--ATTATTAAATC
* *
605977 ATTAAATCATTAAAGTA
1 ATT--ATTATTAAA-TC
605994 ATTATTATTAAATC
1 ATTATTATTAAATC
**
606008 ATTAAAATTAAATC
1 ATTATTATTAAATC
* * *
606022 ATTA-AAGTAATTATT
1 ATTATTATTAA--ATC
* *
606037 ATTAAATCATTAAAGTT
1 ATT--ATTATTAAA-TC
* *
606054 A-TATCATTAAAGTA
1 ATTATTATTAAA-TC
606068 ATTATTATTAAATC
1 ATTATTATTAAATC
* *
606082 ATTA-AAGTTAAATA
1 ATTATTA-TTAAATC
606096 ATTATTATTAAATC
1 ATTATTATTAAATC
*
606110 ATTA-AAGTTAAATC
1 ATTATTA-TTAAATC
* * *
606124 ATTA-AAGTAATTATT
1 ATTATTATTAA--ATC
*
606139 ATTAAATCATTAAATC
1 ATT--ATTATTAAATC
* *
606155 ATTAAATCATTAAAGTA
1 ATT--ATTATTAAA-TC
606172 ATTATTATTAAATC
1 ATTATTATTAAATC
*
606186 ATTA-AAGTTAAATC
1 ATTATTA-TTAAATC
*
606200 ATTAAATCATTAAA--
1 ATT--ATTATTAAATC
* *
606214 ATTAAATCATTAAAGTA
1 ATT--ATTATTAAA-TC
606231 ATTATTATTAAATC
1 ATTATTATTAAATC
*
606245 ATTA-AAGTTAAATC
1 ATTATTA-TTAAATC
* *
606259 ---ATTA--AAGTA
1 ATTATTATTAAATC
606268 ATTATTATTAAATC
1 ATTATTATTAAATC
* *
606282 ATTA-AAGTTAAATA
1 ATTATTA-TTAAATC
606296 ATTATTATTAAATC
1 ATTATTATTAAATC
* *
606310 ATTA-AAGTTAAATA
1 ATTATTA-TTAAATC
* *
606324 ATTA-AATTTAAATA
1 ATTATTA-TTAAATC
606338 ATTATTATTAAAT
1 ATTATTATTAAAT
606351 ATGTACTCGA
Statistics
Matches: 482, Mismatches: 83, Indels: 124
0.70 0.12 0.18
Matches are distributed among these distances:
9 9 0.02
11 6 0.01
12 13 0.03
13 20 0.04
14 265 0.55
15 67 0.14
16 64 0.13
17 26 0.05
18 12 0.02
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.41
Consensus pattern (14 bp):
ATTATTATTAAATC
Found at i:605775 original size:9 final size:8
Alignment explanation
Indices: 605713--606350 Score: 158
Period size: 8 Copynumber: 83.2 Consensus size: 8
605703 TCAAGTAATT
605713 ATTATTAA
1 ATTATTAA
*
605721 ATCATTAA
1 ATTATTAA
605729 A--ATTAA
1 ATTATTAA
*
605735 ATCATTAAA
1 ATTATT-AA
*
605744 ATTAAGTAA
1 ATT-ATTAA
605753 TTATTATTAA
1 --ATTATTAA
605763 ATTATTAA
1 ATTATTAA
605771 A--ATTAA
1 ATTATTAA
*
605777 ATCATTAA
1 ATTATTAA
*
605785 AGTAATT--
1 A-TTATTAA
605792 ATTATTAA
1 ATTATTAA
*
605800 ATCATTAA
1 ATTATTAA
*
605808 ATCATTAA
1 ATTATTAA
*
605816 ATCATTAA
1 ATTATTAA
*
605824 AGTAATT--
1 A-TTATTAA
605831 ATTATTAA
1 ATTATTAA
**
605839 AGCATTAA
1 ATTATTAA
605847 A--ATTAA
1 ATTATTAA
*
605853 ATCATTAA
1 ATTATTAA
*
605861 AGTAATT--
1 A-TTATTAA
605868 ATTATTAA
1 ATTATTAA
*
605876 ATCATTAA
1 ATTATTAA
*
605884 ATCATTAA
1 ATTATTAA
*
605892 AGTAATT--
1 A-TTATTAA
605899 ATTATTAA
1 ATTATTAA
*
605907 ATCATTAA
1 ATTATTAA
*
605915 ATCATTAA
1 ATTATTAA
*
605923 ATCATTAA
1 ATTATTAA
*
605931 AGTAATT--
1 A-TTATTAA
605938 ATTATTAA
1 ATTATTAA
*
605946 ATCATTAA
1 ATTATTAA
*
605954 A--GTTAA
1 ATTATTAA
*
605960 ATCATTAA
1 ATTATTAA
*
605968 ATCATTAA
1 ATTATTAA
605976 A--ATTAA
1 ATTATTAA
*
605982 ATCATTAA
1 ATTATTAA
*
605990 AGTAATT--
1 A-TTATTAA
605997 ATTATTAA
1 ATTATTAA
*
606005 ATCATTAA
1 ATTATTAA
606013 A--ATTAA
1 ATTATTAA
*
606019 ATCATTAA
1 ATTATTAA
*
606027 AGTAATT--
1 A-TTATTAA
606034 ATTATTAA
1 ATTATTAA
*
606042 ATCATTAA
1 ATTATTAA
606050 AGTTA-T--
1 A-TTATTAA
*
606056 ATCATTAA
1 ATTATTAA
*
606064 AGTAATT--
1 A-TTATTAA
606071 ATTATTAA
1 ATTATTAA
*
606079 ATCATTAA
1 ATTATTAA
*
606087 AGTTAAATAA
1 A-TT-ATTAA
606097 TTATTATTAA
1 --ATTATTAA
*
606107 ATCATTAA
1 ATTATTAA
*
606115 A--GTTAA
1 ATTATTAA
*
606121 ATCATTAA
1 ATTATTAA
*
606129 AGTAATT--
1 A-TTATTAA
606136 ATTATTAA
1 ATTATTAA
*
606144 ATCATTAA
1 ATTATTAA
*
606152 ATCATTAA
1 ATTATTAA
*
606160 ATCATTAA
1 ATTATTAA
*
606168 AGTAATT--
1 A-TTATTAA
606175 ATTATTAA
1 ATTATTAA
*
606183 ATCATTAA
1 ATTATTAA
*
606191 A--GTTAA
1 ATTATTAA
*
606197 ATCATTAA
1 ATTATTAA
*
606205 ATCATTAA
1 ATTATTAA
606213 A--ATTAA
1 ATTATTAA
*
606219 ATCATTAA
1 ATTATTAA
*
606227 AGTAATT--
1 A-TTATTAA
606234 ATTATTAA
1 ATTATTAA
*
606242 ATCATTAA
1 ATTATTAA
*
606250 A--GTTAA
1 ATTATTAA
*
606256 ATCATTAA
1 ATTATTAA
*
606264 AGTAATT--
1 A-TTATTAA
606271 ATTATTAA
1 ATTATTAA
*
606279 ATCATTAA
1 ATTATTAA
*
606287 AGTTAAATAA
1 A-TT-ATTAA
606297 TTATTATTAA
1 --ATTATTAA
*
606307 ATCATTAA
1 ATTATTAA
*
606315 A--GTTAA
1 ATTATTAA
*
606321 ATAATTAA
1 ATTATTAA
606329 A-T-TTAA
1 ATTATTAA
*
606335 ATAATT--
1 ATTATTAA
606341 ATTATTAA
1 ATTATTAA
606349 AT
1 AT
606351 ATGTACTCGA
Statistics
Matches: 488, Mismatches: 64, Indels: 156
0.69 0.09 0.22
Matches are distributed among these distances:
5 2 0.00
6 121 0.25
7 12 0.02
8 264 0.54
9 58 0.12
10 22 0.05
11 7 0.01
12 2 0.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.41
Consensus pattern (8 bp):
ATTATTAA
Found at i:605797 original size:37 final size:37
Alignment explanation
Indices: 605747--606227 Score: 489
Period size: 37 Copynumber: 12.7 Consensus size: 37
605737 CATTAAAATT
*
605747 AAGTAATTATTATTAAATTATTAAAATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
605784 AAGTAATTATTATTAAATCATTAAATCATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAA--ATTAAATCATTA
*
605823 AAGTAATTATTATTAAAGCATTAAAATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
605860 AAGTAATTATTATTAAATC------ATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
605891 AAGTAATTATTATTAAATCATTAAATCATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAA--ATTAAATCATTA
*
605930 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
* **
605967 AA-TCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAA
1 AAGTAATTATTATTAAATCA-T----TAA--A--ATTAAATCATT-A
* * * **
606013 AATTAA--ATCATTAAAGTAATTATTATTAAATCATTA
1 AAGTAATTATTATTAAA-TCATTAAAATTAAATCATTA
* * * **
606049 AAGTTA-TATCATTAAAGTAATTATTATTAAATCATTA
1 AAGTAATTATTATTAAA-TCATTAAAATTAAATCATTA
*
606086 AAGTTAAATAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAG-----TAATTATTATTAAATCATTAAAATTAAATCATTA
606128 AAGTAATTATTATTAAATCATTAAATCATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAA--ATTAAATCATTA
*
606167 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
* **
606204 AA-TCATTAAAATTAAATCATTAAA
1 AAGTAATTATTATTAAATCATTAAA
606228 GTAATTATTA
Statistics
Matches: 386, Mismatches: 27, Indels: 63
0.81 0.06 0.13
Matches are distributed among these distances:
31 31 0.08
36 38 0.10
37 147 0.38
39 109 0.28
41 5 0.01
42 21 0.05
43 10 0.03
45 18 0.05
46 5 0.01
47 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (37 bp):
AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
Found at i:606113 original size:65 final size:66
Alignment explanation
Indices: 606023--606329 Score: 407
Period size: 65 Copynumber: 4.6 Consensus size: 66
606013 AATTAAATCA
*
606023 TTAAAGTAATTATTATTAAATCATTAAAGTTATATCATTAAAGTAATTATTATTAAATCATTAAA
1 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAA
606088 G
66 G
606089 TTAAA-TAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAA
1 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGT-A--ATTA-T---T-ATTAAA
*
606153 TCATTAAATCA
58 TCATTAAA--G
* **
606164 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAA-TCATTAAAATTAAATC-----A
1 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAA
606223 -
66 G
606223 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAA
1 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAA
606288 G
66 G
*
606289 TTAAA-TAATTATTATTAAATCATTAAAGTTAAATAATTAAA
1 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAA
606330 TTTAAATAAT
Statistics
Matches: 214, Mismatches: 9, Indels: 37
0.82 0.03 0.14
Matches are distributed among these distances:
59 42 0.20
60 13 0.06
62 1 0.00
65 73 0.34
66 11 0.05
67 8 0.04
68 4 0.02
69 1 0.00
72 5 0.02
73 14 0.07
75 6 0.03
76 36 0.17
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (66 bp):
TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAA
G
Found at i:606170 original size:237 final size:238
Alignment explanation
Indices: 605716--606350 Score: 968
Period size: 237 Copynumber: 2.6 Consensus size: 238
605706 AGTAATTATT
*
605716 ATTAAATCATTAAAATTAAATCATTAAAATTAAGTAATTATTATTAAATTATTAAAATTAAATCA
1 ATTAAATCATTAAAATTAAATCATT---A--AAGTAATTATTATTAAATCATTAAAATTAAATCA
* *
605781 TTAAAGTAATTATTATTAAATCATTAAATCATTAAATCATTAAAGTAATTATTATTAAAGCATTA
61 TTAAAGTAATTATTATTAAATCATTAAA--GTTAAATCATTAAAGTAATTATTATTAAATCATTA
* * * *
605846 AAATTAAATCATTA-AAGTAATTATTATTAAATCATTAAATCATTAAAGTAATTATTATTAAATC
124 AAATTAAATAATTATTATTAA--ATCATTAAA-CATTAAATCATTAAAGTAATTATTATTAAATC
605910 ATTAAATCATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATC
186 ATTAAATCATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATC
605963 ATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTAAATCATTAAA
1 ATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTAAATCATTAAA
* *
606028 GTAATTATTATTAAATCATTAAAGTTATATCATTAAAGTAATTATTATTAAATCATTAAAGTTAA
66 GTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTAA
*
606093 ATAATTATTATTAAATCATTAAA-GTTAAATCATTAAAGTAATTATTATTAAATCATTAAATCAT
131 ATAATTATTATTAAATCATTAAACATTAAATCATTAAAGTAATTATTATTAAATCATTAAATCAT
606157 TAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATC
196 TAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATC
*
606200 ATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAA
1 ATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTAAATCATTAAA
* * * * *
606265 GTAATTATTATTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAAATAATTAAA
66 GTAATTATTATTAAATCATTAAAGTTAAATCATTA-AAGT-AATTATT--A-TTAAATCATTAAA
*
606330 TTTAAATAATTATTATTAAAT
126 ATTAAATAATTATTATTAAAT
606351 ATGTACTCGA
Statistics
Matches: 364, Mismatches: 18, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
237 180 0.49
238 2 0.01
239 14 0.04
240 44 0.12
241 5 0.01
242 93 0.26
244 1 0.00
247 25 0.07
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (238 bp):
ATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTAAATCATTAAA
GTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTAA
ATAATTATTATTAAATCATTAAACATTAAATCATTAAAGTAATTATTATTAAATCATTAAATCAT
TAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATC
Found at i:606208 original size:200 final size:197
Alignment explanation
Indices: 605758--606329 Score: 912
Period size: 200 Copynumber: 2.8 Consensus size: 197
605748 AGTAATTATT
*
605758 ATTAAATTATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAATCATTAAATCATTA
1 ATTAAATAATTAAAATTAAATCATTAAAGTAA-TATTATTAAATCATTAAA--ATTAAATCATTA
* * *
605823 AAGTAATTATTATTAAAGCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAATCA
63 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAA--G
*
605888 TTAAAGTAATTATTATTAAATCATTAAATCATTAAATCATTAAAGTAATTATTATTAAATCATTA
126 TTAAA-TAATTATTATTAAATCATTAAA--GTTAAATCATTAAAGTAATTATTATTAAATCATTA
*
605953 AAGTTAAATC
188 AAATTAAATC
*
605963 ATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTAAATCATTAAA
1 ATTAAATAATTAAAATTAAATCATTAAAGTAA-TATTATTAAATCATTAAAATTAAATCATTAAA
*
606028 GTAATTATTATTAAATCATTAAAGTTATATCATTAAAGTAATTATTATTAAATCATTAAAGTTAA
65 GTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAA
606093 ATAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAATCATT
130 ATAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAA--ATT
606158 AAATC
193 AAATC
** *
606163 ATTAAAGTAATTATTATTAAATCATTAAAGTTAA-ATCATTAAATCATTAAAATTAAATCATTAA
1 ATTAAA-TAATTAAAATTAAATCATTAAAG-TAATATTATTAAATCATTAAAATTAAATCATTAA
606227 AGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTA
64 AGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTA
*
606292 AATAATTATTATTAAATCATTAAAGTTAAATAATTAAA
129 AATAATTATTATTAAATCATTAAAGTTAAATCATTAAA
606330 TTTAAATAAT
Statistics
Matches: 350, Mismatches: 13, Indels: 13
0.93 0.03 0.03
Matches are distributed among these distances:
198 36 0.10
200 165 0.47
201 25 0.07
202 3 0.01
203 71 0.20
205 50 0.14
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (197 bp):
ATTAAATAATTAAAATTAAATCATTAAAGTAATATTATTAAATCATTAAAATTAAATCATTAAAG
TAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAA
TAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTAAA
TC
Found at i:609787 original size:18 final size:18
Alignment explanation
Indices: 609764--609812 Score: 98
Period size: 18 Copynumber: 2.7 Consensus size: 18
609754 GCATACAACA
609764 AATCTCACGCTTCAGACG
1 AATCTCACGCTTCAGACG
609782 AATCTCACGCTTCAGACG
1 AATCTCACGCTTCAGACG
609800 AATCTCACGCTTC
1 AATCTCACGCTTC
609813 GGCCACAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (18 bp):
AATCTCACGCTTCAGACG
Found at i:612785 original size:25 final size:25
Alignment explanation
Indices: 612757--612809 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
612747 ATAATATATT
* *
612757 TAATTGACACAATTAATTTTCTTAA
1 TAATTAACACAATTAATTATCTTAA
* * *
612782 TAATTAACGCAGTTAATTATCTTCA
1 TAATTAACACAATTAATTATCTTAA
612807 TAA
1 TAA
612810 AGATGCTAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.42
Consensus pattern (25 bp):
TAATTAACACAATTAATTATCTTAA
Found at i:613599 original size:16 final size:16
Alignment explanation
Indices: 613580--613634 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
613570 TTTATGTTAG
613580 TATTTTTTTAAATAAT
1 TATTTTTTTAAATAAT
*
613596 TATTTTTTTATATTAA-
1 TATTTTTTTA-AATAAT
* *
613612 TATTTATGTAAAT-AT
1 TATTTTTTTAAATAAT
613627 TATTTTTT
1 TATTTTTT
613635 ATTAAAATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
14 1 0.03
15 8 0.26
16 18 0.58
17 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
TATTTTTTTAAATAAT
Found at i:613612 original size:17 final size:15
Alignment explanation
Indices: 613580--613648 Score: 57
Period size: 16 Copynumber: 4.3 Consensus size: 15
613570 TTTATGTTAG
613580 TATTTTTTTAAATAA
1 TATTTTTTTAAATAA
*
613595 TTATTTTTTTATATTAA
1 -TATTTTTTTA-AATAA
* * *
613612 TATTTATGTAAATAT
1 TATTTTTTTAAATAA
613627 TATTTTTTATTAAAATAA
1 TA-TTTTT-TT-AAATAA
613645 TATT
1 TATT
613649 ATATATTATT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
15 5 0.12
16 22 0.54
17 7 0.17
18 7 0.17
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (15 bp):
TATTTTTTTAAATAA
Found at i:613616 original size:32 final size:31
Alignment explanation
Indices: 613564--613634 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 31
613554 GTGGTAAGAA
* * * *
613564 ATTTATTTTATGTTAGTATTTTTTTAAATAATT
1 ATTT-TTTTATATTAATATTTATGTAAAT-ATT
613597 ATTTTTTTATATTAATATTTATGTAAATATT
1 ATTTTTTTATATTAATATTTATGTAAATATT
613628 ATTTTTT
1 ATTTTTT
613635 ATTAAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 10 0.29
32 20 0.59
33 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (31 bp):
ATTTTTTTATATTAATATTTATGTAAATATT
Found at i:615357 original size:8 final size:8
Alignment explanation
Indices: 615344--615384 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
615334 TCACAATCTT
615344 TCAAATTC
1 TCAAATTC
615352 TCAAATTC
1 TCAAATTC
* *
615360 CCAAACTC
1 TCAAATTC
615368 T-AAATTC
1 TCAAATTC
615375 TCAAATTC
1 TCAAATTC
615383 TC
1 TC
615385 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:620834 original size:22 final size:22
Alignment explanation
Indices: 620806--620850 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
620796 AGGTCTTGGG
*
620806 ACTGTTCAGACTATTCAAAATC
1 ACTGTTCAAACTATTCAAAATC
620828 ACTGTTCAAACTATTCAAAATC
1 ACTGTTCAAACTATTCAAAATC
620850 A
1 A
620851 TGCCTTGTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (22 bp):
ACTGTTCAAACTATTCAAAATC
Found at i:623855 original size:2 final size:2
Alignment explanation
Indices: 623848--623886 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
623838 ATTATGTGCA
623848 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT A
623887 CGGATTTGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:627867 original size:16 final size:16
Alignment explanation
Indices: 627846--627877 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
627836 CTTCAACTAG
627846 TTGTTGTCTTATTTTA
1 TTGTTGTCTTATTTTA
627862 TTGTTGTCTTATTTTA
1 TTGTTGTCTTATTTTA
627878 CTGGACTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.12, T:0.69
Consensus pattern (16 bp):
TTGTTGTCTTATTTTA
Found at i:628384 original size:2 final size:2
Alignment explanation
Indices: 628379--628414 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
628369 AAGTTAAAAT
628379 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
628415 ACATAAACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:629681 original size:11 final size:11
Alignment explanation
Indices: 629665--629727 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
629655 AAAATTACAT
629665 TATTAAAAATA
1 TATTAAAAATA
629676 TATTAAAAATA
1 TATTAAAAATA
* ***
629687 CATTATTGATA
1 TATTAAAAATA
629698 -ATTATAAAAT-
1 TATTA-AAAATA
629708 T-TTAAAAATA
1 TATTAAAAATA
629718 TATTAAAAAT
1 TATTAAAAAT
629728 TCTATAATAA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
9 5 0.12
10 8 0.20
11 28 0.68
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:629955 original size:19 final size:20
Alignment explanation
Indices: 629911--629959 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
629901 CTTGGCAGCG
*
629911 TAGAAAAATAAAATAAAAAA
1 TAGAAAAATAAAACAAAAAA
*
629931 TAAGAAAAA-AAAACAAACAA
1 T-AGAAAAATAAAACAAAAAA
629951 TAGAAAAAT
1 TAGAAAAAT
629960 TGAAAATGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 7 0.28
20 11 0.44
21 7 0.28
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.12
Consensus pattern (20 bp):
TAGAAAAATAAAACAAAAAA
Found at i:630489 original size:2 final size:2
Alignment explanation
Indices: 630482--630539 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
630472 TTCTGAGAAA
630482 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
630524 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
630540 GTTTGTACAC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:631134 original size:15 final size:16
Alignment explanation
Indices: 631108--631140 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
631098 AAACAGAGGC
*
631108 AAATATATATAAAGTA
1 AAATATATATAAAATA
631124 AAATA-ATATAAAATA
1 AAATATATATAAAATA
631139 AA
1 AA
631141 GGGGAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (16 bp):
AAATATATATAAAATA
Found at i:632626 original size:2 final size:2
Alignment explanation
Indices: 632619--632663 Score: 53
Period size: 2 Copynumber: 24.0 Consensus size: 2
632609 ATAAATAAAT
632619 TA TA TA TA TA TA TA T- TA TA -A TA TGA TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
632659 -A TA TA
1 TA TA TA
632664 ACGTTAGAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
1 4 0.11
2 32 0.84
3 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:632697 original size:39 final size:39
Alignment explanation
Indices: 632654--632731 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
632644 TAATATATAT
*
632654 ATATAATATAACGTTAGAGGACGAATTTGAGTGTCTTCA
1 ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
632693 ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
1 ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
632732 CATAGGGAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.33
Consensus pattern (39 bp):
ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
Found at i:639843 original size:26 final size:25
Alignment explanation
Indices: 639801--639856 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
639791 AAAATTTTAG
639801 TTTTATTTTAAAAATTAAATATAAT
1 TTTTATTTTAAAAATTAAATATAAT
* * **
639826 TTTTATTTATTAATATTACTTATAAT
1 TTTTATTT-TAAAAATTAAATATAAT
639852 TTTTA
1 TTTTA
639857 AACATTTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTTATTTTAAAAATTAAATATAAT
Found at i:645138 original size:2 final size:2
Alignment explanation
Indices: 645131--645161 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
645121 AAATATTGGA
*
645131 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
645162 CAATTGAAAA
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:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Done.