Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 108 of 125
Found at i:32915325 original size:41 final size:41
Alignment explanation
Indices: 32915278--32915373 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
32915268 AAATTTTATT
* * *
32915278 TTAACAAGAATTCTAGTCACCTAATTCTAACAATTTTCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
32915319 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
* *
32915360 TTGACAAAAATTCT
1 TTAACAAGAATTCT
32915374 CTACGAACAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (41 bp):
TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
Found at i:32915339 original size:21 final size:21
Alignment explanation
Indices: 32915278--32915339 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 21
32915268 AAATTTTATT
32915278 TTAACAAGAATTCTAGTCACC
1 TTAACAAGAATTCTAGTCACC
*
32915299 -TAATTCTAACAATT-T--TCACC
1 TTAA--C-AAGAATTCTAGTCACC
32915319 TTAACAAGAATTCTAGTCACC
1 TTAACAAGAATTCTAGTCACC
32915340 CAATTCTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
18 6 0.19
19 2 0.06
20 8 0.25
21 8 0.25
22 2 0.06
23 6 0.19
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (21 bp):
TTAACAAGAATTCTAGTCACC
Found at i:32923277 original size:58 final size:56
Alignment explanation
Indices: 32923159--32923277 Score: 134
Period size: 58 Copynumber: 2.1 Consensus size: 56
32923149 AATTCTTTTC
* ***
32923159 AACATTATCCTTTAAAATATATATGTAATAAAAATATTAATTTTAACTTTGGTCTC
1 AACATTACCCTTTAAAATATATATGTAATAAAAATATTAATTTTAACTTTGGTAAA
* *
32923215 AACATTACCCTTTAAAATATATATATGTAATAAAAAGATATTATTTTTAA-TTT-TTAAA
1 AACATTACCCTTT-AAA-ATATATATGTAAT-AAAA-ATATTAATTTTAACTTTGGTAAA
32923273 AACAT
1 AACAT
32923278 CAATTAATGA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
56 12 0.23
57 3 0.06
58 19 0.36
59 7 0.13
60 12 0.23
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (56 bp):
AACATTACCCTTTAAAATATATATGTAATAAAAATATTAATTTTAACTTTGGTAAA
Found at i:32930146 original size:16 final size:17
Alignment explanation
Indices: 32930127--32930167 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
32930117 TTATTTTAGA
32930127 AAATTTTAAATT-TTTT
1 AAATTTTAAATTATTTT
*
32930143 AAATTTTAACTTATTTT
1 AAATTTTAAATTATTTT
32930160 ATAATTTT
1 A-AATTTT
32930168 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.50
17 5 0.23
18 6 0.27
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
AAATTTTAAATTATTTT
Found at i:32930199 original size:18 final size:19
Alignment explanation
Indices: 32930178--32930213 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32930168 TTTTAAAAAA
32930178 TATAA-ATTTTGAATTTTT
1 TATAATATTTTGAATTTTT
*
32930196 TATAATTTTTTGAATTTT
1 TATAATATTTTGAATTTT
32930214 AAAAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (19 bp):
TATAATATTTTGAATTTTT
Found at i:32930225 original size:19 final size:19
Alignment explanation
Indices: 32930183--32930245 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
32930173 AAAAATATAA
* *
32930183 ATTTTGAATTTTTTATAATT
1 ATTTTGAA-TTTTAAAAATT
32930203 -TTTTGAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
* *
32930221 ATTTTAAATTCTTGAAAATT
1 ATTTTGAATT-TTAAAAATT
32930241 ATTTT
1 ATTTT
32930246 TATTTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 9 0.24
19 15 0.41
20 13 0.35
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.59
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:32931763 original size:33 final size:33
Alignment explanation
Indices: 32931721--32931783 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
32931711 GAAGCTCTTA
*
32931721 TTGATTCTTCAGTTGCTGCTACTGTCACTGCCC
1 TTGATTCTTCAGTGGCTGCTACTGTCACTGCCC
32931754 TTGATTCTTCAGTGGCTGCTACTGTCACTG
1 TTGATTCTTCAGTGGCTGCTACTGTCACTG
32931784 TAATCTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.13, C:0.27, G:0.21, T:0.40
Consensus pattern (33 bp):
TTGATTCTTCAGTGGCTGCTACTGTCACTGCCC
Found at i:32935320 original size:17 final size:16
Alignment explanation
Indices: 32935298--32935354 Score: 62
Period size: 17 Copynumber: 3.5 Consensus size: 16
32935288 AAAAAAGGGA
32935298 AAAGAAAGAGAGGAAAG
1 AAAGAAAGA-AGGAAAG
*
32935315 AAAGAAAGAAGGAGAGG
1 AAAGAAAGAAGGA-AAG
* *
32935332 AAAGAAAGAA-TAAGG
1 AAAGAAAGAAGGAAAG
32935347 AAAGAAAG
1 AAAGAAAG
32935355 GTAATGTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
15 11 0.30
16 5 0.14
17 21 0.57
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (16 bp):
AAAGAAAGAAGGAAAG
Found at i:32935322 original size:21 final size:21
Alignment explanation
Indices: 32935298--32935341 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
32935288 AAAAAAGGGA
32935298 AAAGAAAGAGAGGAAAGAAAG
1 AAAGAAAGAGAGGAAAGAAAG
*
32935319 AAAGAAGGAGAGGAAAGAAAG
1 AAAGAAAGAGAGGAAAGAAAG
32935340 AA
1 AA
32935342 TAAGGAAAGA
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:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (21 bp):
AAAGAAAGAGAGGAAAGAAAG
Found at i:32938582 original size:21 final size:21
Alignment explanation
Indices: 32938556--32938602 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
32938546 TTAGGGTCCA
* *
32938556 ATTGCCCTGGAGGAGTAGAGT
1 ATTGCCCGGGAGGAGTAAAGT
32938577 ATTGCCCGGGAGGAGTAAAGT
1 ATTGCCCGGGAGGAGTAAAGT
32938598 ATTGC
1 ATTGC
32938603 GGTGGCTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.23
Consensus pattern (21 bp):
ATTGCCCGGGAGGAGTAAAGT
Found at i:32940566 original size:30 final size:30
Alignment explanation
Indices: 32940466--32940567 Score: 82
Period size: 30 Copynumber: 3.4 Consensus size: 30
32940456 TTAAATACCA
32940466 AAATATGTTATTTACTAAAATGGTACAAAAT
1 AAATAT-TTATTTACTAAAATGGTACAAAAT
* * * * * * *
32940497 ATATTTTTATATACCAAAATAGTATCCACA-
1 AAATATTTATTTACTAAAATGGTA-CAAAAT
* **
32940527 CACCA-TTATTTACTAAAATGGTACAAAAT
1 AAATATTTATTTACTAAAATGGTACAAAAT
32940556 AAATATTTATTT
1 AAATATTTATTT
32940568 TGTATTATTT
Statistics
Matches: 48, Mismatches: 20, Indels: 7
0.64 0.27 0.09
Matches are distributed among these distances:
28 3 0.06
29 17 0.35
30 21 0.44
31 7 0.15
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (30 bp):
AAATATTTATTTACTAAAATGGTACAAAAT
Found at i:32940621 original size:16 final size:16
Alignment explanation
Indices: 32940600--32940649 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
32940590 TGATGGGGGT
32940600 ATTATTTTGATAATTA
1 ATTATTTTGATAATTA
*
32940616 ATTATTTT-TTATATT-
1 ATTATTTTGATA-ATTA
*
32940631 A-TATTTTGGTAATTA
1 ATTATTTTGATAATTA
32940646 ATTA
1 ATTA
32940650 GCTAGGTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 13 0.46
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (16 bp):
ATTATTTTGATAATTA
Found at i:32940999 original size:44 final size:44
Alignment explanation
Indices: 32940851--32940999 Score: 122
Period size: 44 Copynumber: 3.3 Consensus size: 44
32940841 TAAAATTACT
* *
32940851 AACTAATTTTTTAAACATTATTAAATTTTAAATCAATAAATATA
1 AACTAAGTTTTTAAACATTATTAAATTTTAAATCATTAAATATA
* * * * * * * *
32940895 AACAAAGTTTTT-TAC-TTACTACTACTATTAACAACAAAATAAAATTATT
1 AACTAAGTTTTTAAACATTATTA--AATTTTAA-ATC---ATTAAA-TATA
*
32940944 AACTAATTTTTTAAACATTATTAAATTTTAAATCATTAAATATA
1 AACTAAGTTTTTAAACATTATTAAATTTTAAATCATTAAATATA
32940988 AACTAAGTTTTT
1 AACTAAGTTTTT
32941000 TACTTACTAC
Statistics
Matches: 76, Mismatches: 20, Indels: 18
0.67 0.18 0.16
Matches are distributed among these distances:
42 5 0.07
43 2 0.03
44 30 0.39
45 7 0.09
48 6 0.08
49 19 0.25
50 2 0.03
51 5 0.07
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.42
Consensus pattern (44 bp):
AACTAAGTTTTTAAACATTATTAAATTTTAAATCATTAAATATA
Found at i:32941111 original size:94 final size:93
Alignment explanation
Indices: 32940783--32941133 Score: 623
Period size: 93 Copynumber: 3.8 Consensus size: 93
32940773 TATATTATTT
*
32940783 TTTTAAATCAATAAATATGAACAAAGTTTTTTACTTACTACTACTACTAACAACAAAATAAAATT
1 TTTTAAATCAATAAATATAAACAAAGTTTTTTACTTACTACTACTACTAACAACAAAATAAAATT
32940848 ACTAACTAATTTTTTAAACATTATTAAA
66 ACTAACTAATTTTTTAAACATTATTAAA
*
32940876 TTTTAAATCAATAAATATAAACAAAGTTTTTTACTTACTACTACTATTAACAACAAAATAAAATT
1 TTTTAAATCAATAAATATAAACAAAGTTTTTTACTTACTACTACTACTAACAACAAAATAAAATT
*
32940941 ATTAACTAATTTTTTAAACATTATTAAA
66 ACTAACTAATTTTTTAAACATTATTAAA
* *
32940969 TTTTAAATCATTAAATATAAACTAAGTTTTTTACTTACTACTACTACTAACAACAAAATAAAATT
1 TTTTAAATCAATAAATATAAACAAAGTTTTTTACTTACTACTACTACTAACAACAAAATAAAATT
32941034 ACTAACTAATTTTTTTAAACATTATTAAA
66 ACTAACTAA-TTTTTTAAACATTATTAAA
*
32941063 -TTTAAATCAATAAATATAAACAAAGTTTTTTTACTTACTACTATTACTAACAACAAAATAAAAT
1 TTTTAAATCAATAAATATAAACAAAG-TTTTTTACTTACTACTACTACTAACAACAAAATAAAAT
32941127 TACTAAC
65 TACTAAC
32941134 ATAAATATAA
Statistics
Matches: 246, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
93 183 0.74
94 63 0.26
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (93 bp):
TTTTAAATCAATAAATATAAACAAAGTTTTTTACTTACTACTACTACTAACAACAAAATAAAATT
ACTAACTAATTTTTTAAACATTATTAAA
Found at i:32941144 original size:62 final size:60
Alignment explanation
Indices: 32941072--32941193 Score: 208
Period size: 62 Copynumber: 2.0 Consensus size: 60
32941062 ATTTAAATCA
*
32941072 ATAAATATAAACAAAGTTTTTTTACTTACTACTATTACTAACAACAAAATAAAATTACTAAC
1 ATAAATATAAACAAAGTTTTTTTACTTACTACTACTACTAACAACAAAAT--AATTACTAAC
*
32941134 ATAAATATAAACAATGTTTTTTTACTTACTACTACTACTAACAACAAAATAATTACTAAC
1 ATAAATATAAACAAAGTTTTTTTACTTACTACTACTACTAACAACAAAATAATTACTAAC
32941194 TAATTTTTTA
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
60 10 0.17
62 48 0.83
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (60 bp):
ATAAATATAAACAAAGTTTTTTTACTTACTACTACTACTAACAACAAAATAATTACTAAC
Found at i:32941216 original size:153 final size:154
Alignment explanation
Indices: 32940980--32941286 Score: 505
Period size: 153 Copynumber: 2.0 Consensus size: 154
32940970 TTTAAATCAT
32940980 TAAATATAAACTAAGTTTTTTACTTACTACTACTACTAACAACAAAATAAAATTACTAACTAATT
1 TAAATATAAACTAAGTTTTTTACTTACTACTACTACTAACAACAAAAT-AAATTACTAACTAATT
* *
32941045 TTTTTAAACATTATTAAA-TTTAAATCAATAAATATAAACAAAGTTTTTTTACTTACTACTATTA
65 TTTTTAAACATTATTAAATTTTAAATCAATAAATATAAACAAAG-TTTTTTACTTACTAATACTA
32941109 CTAACAACAAAATAAAATTACTAACA
129 CTAACAACAAAATAAAATTACTAACA
32941135 TAAATATAAAC-AATGTTTTTTTACTTACTACTACTACTAACAACAAAAT-AATTACTAACTAA-
1 TAAATATAAACTAA-G-TTTTTTACTTACTACTACTACTAACAACAAAATAAATTACTAACTAAT
* *
32941197 TTTTTTAAATATTATTAAATTTTAAATCAATAAATATAAACAATGTTTTTTACTTACTAATACTA
64 TTTTTTAAACATTATTAAATTTTAAATCAATAAATATAAACAAAGTTTTTTACTTACTAATACTA
*
32941262 CTACCAACAAAATAAAATTACTAAC
129 CTAACAACAAAATAAAATTACTAAC
32941287 TAATTTTTTT
Statistics
Matches: 144, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
153 60 0.42
154 39 0.27
155 12 0.08
156 33 0.23
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (154 bp):
TAAATATAAACTAAGTTTTTTACTTACTACTACTACTAACAACAAAATAAATTACTAACTAATTT
TTTTAAACATTATTAAATTTTAAATCAATAAATATAAACAAAGTTTTTTACTTACTAATACTACT
AACAACAAAATAAAATTACTAACA
Found at i:32941310 original size:94 final size:93
Alignment explanation
Indices: 32941134--32941382 Score: 405
Period size: 94 Copynumber: 2.7 Consensus size: 93
32941124 AATTACTAAC
32941134 ATAAATATAAACAATGTTTTTTTACTTACTACTACTACTAACAACAAAAT--AATTACTAACTAA
1 ATAAATATAAACAATG-TTTTTTACTTACTACTACTACTAACAACAAAATAAAATTACTAACTAA
*
32941197 TTTTTTAAATATTATTAAATTTTAAATCA
65 TTTTTTAAACATTATTAAATTTTAAATCA
* *
32941226 ATAAATATAAACAATGTTTTTTACTTACTAATACTACTACCAACAAAATAAAATTACTAACTAAT
1 ATAAATATAAACAATGTTTTTTACTTACTACTACTACTAACAACAAAATAAAATTACTAACTAA-
32941291 TTTTTTAAACATTATTAAATTTTAAATCA
65 TTTTTTAAACATTATTAAATTTTAAATCA
* *
32941320 ATAAATATAAACAAAGTTTTTTACTTACTACTACTATTAACAACAAAA-AAAAGTTACTAACTA
1 ATAAATATAAACAATGTTTTTTACTTACTACTACTACTAACAACAAAATAAAA-TTACTAACTA
32941383 GCAAAATTAA
Statistics
Matches: 146, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
91 31 0.21
92 16 0.11
93 17 0.12
94 82 0.56
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (93 bp):
ATAAATATAAACAATGTTTTTTACTTACTACTACTACTAACAACAAAATAAAATTACTAACTAAT
TTTTTAAACATTATTAAATTTTAAATCA
Found at i:32941342 original size:247 final size:247
Alignment explanation
Indices: 32940886--32941380 Score: 836
Period size: 247 Copynumber: 2.0 Consensus size: 247
32940876 TTTTAAATCA
* *
32940886 ATAAATATAAACAAAGTTTTTTACTTACTACTACTATTAACAACAAAATAAAATTATTAACTAAT
1 ATAAATATAAACAAAGTTTTTTACTTACTACTACTACTAACAACAAAAT-AAATTACTAACTAAT
* *
32940951 TTTTTAAACATTATTAAATTTTAAATCATTAAATATAAACTAAGTTTTTTACTTACTACTACTAC
65 TTTTTAAACATTATTAAATTTTAAATCAATAAATATAAACTAAGTTTTTTACTTACTAATACTAC
32941016 TAACAACAAAATAAAATTACTAACTAATTTTTTTAAACATTATTAAATTTAAATCAATAAATATA
130 TAACAACAAAATAAAATTACTAACTAATTTTTTTAAACATTATTAAATTTAAATCAATAAATATA
*
32941081 AACAAAGTTTTTTTACTTACTACTATTACTAACAACAAAATAAAA-TTACTAAC
195 AACAAAGTTTTTTTACTTACTACTACTACTAACAACAAAA-AAAAGTTACTAAC
*
32941134 ATAAATATAAACAATGTTTTTTTACTTACTACTACTACTAACAACAAAAT-AATTACTAACTAAT
1 ATAAATATAAACAAAG-TTTTTTACTTACTACTACTACTAACAACAAAATAAATTACTAACTAAT
*
32941198 TTTTTAAATATTATTAAATTTTAAATCAATAAATATAAAC-AATGTTTTTTACTTACTAATACTA
65 TTTTTAAACATTATTAAATTTTAAATCAATAAATATAAACTAA-GTTTTTTACTTACTAATACTA
*
32941262 CTACCAACAAAATAAAATTACTAACTAATTTTTTTAAACATTATTAAATTTTAAATCAATAAATA
129 CTAACAACAAAATAAAATTACTAACTAATTTTTTTAAACATTATTAAA-TTTAAATCAATAAATA
*
32941327 TAAACAAAG-TTTTTTACTTACTACTACTATTAACAACAAAAAAAAGTTACTAAC
193 TAAACAAAGTTTTTTTACTTACTACTACTACTAACAACAAAAAAAAGTTACTAAC
32941381 TAGCAAAATT
Statistics
Matches: 234, Mismatches: 9, Indels: 9
0.93 0.04 0.04
Matches are distributed among these distances:
246 6 0.03
247 156 0.67
248 40 0.17
249 32 0.14
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (247 bp):
ATAAATATAAACAAAGTTTTTTACTTACTACTACTACTAACAACAAAATAAATTACTAACTAATT
TTTTAAACATTATTAAATTTTAAATCAATAAATATAAACTAAGTTTTTTACTTACTAATACTACT
AACAACAAAATAAAATTACTAACTAATTTTTTTAAACATTATTAAATTTAAATCAATAAATATAA
ACAAAGTTTTTTTACTTACTACTACTACTAACAACAAAAAAAAGTTACTAAC
Found at i:32941759 original size:24 final size:24
Alignment explanation
Indices: 32941732--32941780 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
32941722 CTTTTTTTTT
32941732 TTTCTCCTTCTTCCTTCTTCTTTC
1 TTTCTCCTTCTTCCTTCTTCTTTC
* * * *
32941756 TTTCTCTTTTTTCTTTCTTTTTTC
1 TTTCTCCTTCTTCCTTCTTCTTTC
32941780 T
1 T
32941781 CTCAATTTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTCTCCTTCTTCCTTCTTCTTTC
Found at i:32941763 original size:20 final size:20
Alignment explanation
Indices: 32941740--32941782 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
32941730 TTTTTCTCCT
32941740 TCTTCCTTC-TTCTTTCTTTC
1 TCTTCCTTCTTTCTTT-TTTC
**
32941760 TCTTTTTTCTTTCTTTTTTC
1 TCTTCCTTCTTTCTTTTTTC
32941780 TCT
1 TCT
32941783 CAATTTTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (20 bp):
TCTTCCTTCTTTCTTTTTTC
Found at i:32948883 original size:27 final size:27
Alignment explanation
Indices: 32948848--32948899 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
32948838 GTACGTGGCC
*
32948848 GCTCCAAAGGGGCATCTGAGAGTAGTG
1 GCTCCAAAGGGACATCTGAGAGTAGTG
* *
32948875 GCTCCAAAGGGACCTCTGAGCGTAG
1 GCTCCAAAGGGACATCTGAGAGTAG
32948900 AGCAAGGCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.23, G:0.35, T:0.17
Consensus pattern (27 bp):
GCTCCAAAGGGACATCTGAGAGTAGTG
Found at i:32950773 original size:24 final size:24
Alignment explanation
Indices: 32950743--32950797 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
32950733 ATTGACTTCC
32950743 GCTGCTGTGGCAATA-GCAGCAGCT
1 GCTGCTGTGGCAA-AGGCAGCAGCT
* *
32950767 GCTGCTGTTGCAAAGGCTGCAGCT
1 GCTGCTGTGGCAAAGGCAGCAGCT
*
32950791 GCGGCTG
1 GCTGCTG
32950798 CCATGGTTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.16, C:0.25, G:0.36, T:0.22
Consensus pattern (24 bp):
GCTGCTGTGGCAAAGGCAGCAGCT
Found at i:32964137 original size:140 final size:141
Alignment explanation
Indices: 32963966--32964247 Score: 476
Period size: 141 Copynumber: 2.0 Consensus size: 141
32963956 AATTTCTTTA
*
32963966 AACTTTTGAGTCAAGTTGTAAATAAAAAAAATATCTTTAA-AATTTTCTGAAATAATATTTTTAT
1 AACTTTTGAGTCAAGTTGTAAATAAAAAAAATATCTCTAACAATTTTCTGAAATAATATTTTTAT
* *
32964030 ATAGGGAGAGTTTAGAGAGTTCAATTATGATTAATCTTAATCACTTTAATATTAAATTAATATAA
66 ATAGGGAGAGTTTAAAGAGTTCAACTATGATTAATCTTAATCACTTTAATATTAAATTAATATAA
32964095 AATTTATCAAG
131 AATTTATCAAG
* * *
32964106 AACTTTTGAGTCAAGTTGTAAATAATAAAAATATCTCTAACATTTTTTTGAAATAATATTTTTAT
1 AACTTTTGAGTCAAGTTGTAAATAAAAAAAATATCTCTAACAATTTTCTGAAATAATATTTTTAT
* *
32964171 ATAGGGAGAGTTTAAATAGTTCAACTATGATTAATCTTAATCATTTTAATATTAAATTAATATAA
66 ATAGGGAGAGTTTAAAGAGTTCAACTATGATTAATCTTAATCACTTTAATATTAAATTAATATAA
*
32964236 TATTTATCAAG
131 AATTTATCAAG
32964247 A
1 A
32964248 TAAATATTAA
Statistics
Matches: 132, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
140 38 0.29
141 94 0.71
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (141 bp):
AACTTTTGAGTCAAGTTGTAAATAAAAAAAATATCTCTAACAATTTTCTGAAATAATATTTTTAT
ATAGGGAGAGTTTAAAGAGTTCAACTATGATTAATCTTAATCACTTTAATATTAAATTAATATAA
AATTTATCAAG
Found at i:32964287 original size:17 final size:16
Alignment explanation
Indices: 32964218--32964276 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
32964208 TAATCATTTT
32964218 AATATTAAATTAA-TA
1 AATATTAAATTAATTA
* * *
32964233 TAATATT-TATCAAGATA
1 -AATATTAAATTAA-TTA
32964250 AATATTAAATTAAATTA
1 AATATTAAATT-AATTA
32964267 AATATTAAAT
1 AATATTAAAT
32964277 CTATTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
15 4 0.12
16 12 0.35
17 16 0.47
18 2 0.06
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (16 bp):
AATATTAAATTAATTA
Found at i:32967113 original size:28 final size:29
Alignment explanation
Indices: 32967080--32967135 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
32967070 ATTAATTATA
*
32967080 ATTTTAA-AA-ACTTAAAAATATATAAATT
1 ATTTTAAGAAGACATAAAAATATA-AAATT
32967108 ATTTTAAGAAGACATAAAAATATAAAAT
1 ATTTTAAGAAGACATAAAAATATAAAAT
32967136 ATTAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 7 0.28
29 6 0.24
30 12 0.48
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (29 bp):
ATTTTAAGAAGACATAAAAATATAAAATT
Found at i:32968557 original size:18 final size:18
Alignment explanation
Indices: 32968507--32968568 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
32968497 AAATTATATT
* *
32968507 AAAAAAATGGAGAAAGAAGG
1 AAAAAAATGGA-AGAGTA-G
*
32968527 AAAACAAAAGGAAGAGTAG
1 AAAA-AAATGGAAGAGTAG
32968546 AAAAAAATGGAAGA-TAAG
1 AAAAAAATGGAAGAGT-AG
32968564 AAAAA
1 AAAAA
32968569 GTTAGAAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 1 0.03
18 16 0.44
19 5 0.14
20 8 0.22
21 6 0.17
ACGTcount: A:0.68, C:0.02, G:0.24, T:0.06
Consensus pattern (18 bp):
AAAAAAATGGAAGAGTAG
Found at i:32973834 original size:61 final size:60
Alignment explanation
Indices: 32973736--32973866 Score: 144
Period size: 62 Copynumber: 2.1 Consensus size: 60
32973726 TTGGTCTAAT
* *
32973736 AATAAA-TTTAATTCTCTAATATTTATACATTCTATCA-TTTAATT-ATAAATATAAAAAAATTC
1 AATAAATTTTACTT-TC-AATATTTATAAATTCTATCATTTTAATTGA-AAAT-T-AAAAAATTC
* *
32973798 AGTAAATTTTACTTTCAATATTTATAAAATT-TATCATTTTAATTGAAAATTTAAAAATTC
1 AATAAATTTTACTTTCAATATTTAT-AAATTCTATCATTTTAATTGAAAATTAAAAAATTC
32973858 AATAAATTT
1 AATAAATTT
32973867 ATCGCTCAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
60 16 0.27
61 15 0.25
62 22 0.37
63 7 0.12
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.45
Consensus pattern (60 bp):
AATAAATTTTACTTTCAATATTTATAAATTCTATCATTTTAATTGAAAATTAAAAAATTC
Found at i:32974579 original size:57 final size:57
Alignment explanation
Indices: 32974510--32974626 Score: 209
Period size: 57 Copynumber: 2.1 Consensus size: 57
32974500 CGAGTCCCTC
*
32974510 AACACACCTCCAATCGACGCATTTGCATTATTAGATGACATTG-TCTCATCCGTATTA
1 AACACACCTCCAATCGACGCATTTACATTATTAGATGACATTGCT-TCATCCGTATTA
32974567 AACACACCTCCAATCGACGCATTTACATTATTAGATGACATTGCTTCATCCGTATTA
1 AACACACCTCCAATCGACGCATTTACATTATTAGATGACATTGCTTCATCCGTATTA
32974624 AAC
1 AAC
32974627 TTAATCCATC
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
57 57 0.98
58 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.31
Consensus pattern (57 bp):
AACACACCTCCAATCGACGCATTTACATTATTAGATGACATTGCTTCATCCGTATTA
Found at i:32976196 original size:55 final size:55
Alignment explanation
Indices: 32976123--32976280 Score: 226
Period size: 55 Copynumber: 2.9 Consensus size: 55
32976113 TCTTCTTAAT
*
32976123 TGTTGGAATACTGCTTCTTTTGAATCGATTTTTTATATGTTTAAATCGATTATCA
1 TGTTGGAATACTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTATCA
* * * * *
32976178 TGTTTGAATACTGTTTCTTTTGAATCGATTGTTTATATGTTTAAATCGATTGTTA
1 TGTTGGAATACTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTATCA
* * * *
32976233 TATTGGAATATTGCTTATTTTGAATCAATTATTTATATGTTTAAATCG
1 TGTTGGAATACTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCG
32976281 GTTTTTATAT
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.51
Consensus pattern (55 bp):
TGTTGGAATACTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTATCA
Found at i:32979340 original size:2 final size:2
Alignment explanation
Indices: 32979333--32979361 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
32979323 GTTGTATACA
32979333 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 A
32979362 ACCTTCCGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32983976 original size:30 final size:31
Alignment explanation
Indices: 32983937--32984000 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
32983927 ATTTTGCATA
* *
32983937 TAAATTTGATATTTTTT-TTAATTTCGTACT
1 TAAAATTGATATTTTTTCTTAAGTTCGTACT
* *
32983967 TAAAATTGATTTTTTTTCTTAAGTTGGTACT
1 TAAAATTGATATTTTTTCTTAAGTTCGTACT
32983998 TAA
1 TAA
32984001 TCTTTTGGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 15 0.52
31 14 0.48
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.56
Consensus pattern (31 bp):
TAAAATTGATATTTTTTCTTAAGTTCGTACT
Found at i:32984079 original size:26 final size:26
Alignment explanation
Indices: 32984032--32984092 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
32984022 ATATCTAAAT
32984032 TTAATTATTTTTTTCTTAATTTGGTAC
1 TTAATT-TTTTTTTCTTAATTTGGTAC
*
32984059 TTAATTTTTTTTGT-TTTATTTGGTAC
1 TTAATTTTTTTT-TCTTAATTTGGTAC
32984085 TTGAATTT
1 TT-AATTT
32984093 GTCAAACATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 19 0.61
27 12 0.39
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.66
Consensus pattern (26 bp):
TTAATTTTTTTTTCTTAATTTGGTAC
Found at i:32984238 original size:24 final size:24
Alignment explanation
Indices: 32984193--32984239 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
32984183 ATTTTTTATT
* *
32984193 TTTTTATTTTATATGTTCAATTAC
1 TTTTAATTTTATATATTCAATTAC
* *
32984217 TTTTAATTTTATTTATTTAATTA
1 TTTTAATTTTATATATTCAATTA
32984240 AATATTTTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTTAATTTTATATATTCAATTAC
Found at i:32984600 original size:15 final size:16
Alignment explanation
Indices: 32984580--32984610 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
32984570 TTTTGTAGTG
32984580 TTTTAAATATA-ATAT
1 TTTTAAATATATATAT
32984595 TTTTAAATATATATAT
1 TTTTAAATATATATAT
32984611 AAATTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTAAATATATATAT
Found at i:32987187 original size:2 final size:2
Alignment explanation
Indices: 32987180--32987210 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
32987170 AGCACTGGTT
32987180 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
32987211 GCAACTGCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:32988049 original size:27 final size:26
Alignment explanation
Indices: 32988005--32988062 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
32987995 AATATTAAAT
* *
32988005 TATTTATATAATTTTATTATATATTA
1 TATTTTTAAAATTTTATTATATATTA
* *
32988031 TATTTTTAAAATTTGTATTTTTTATTA
1 TATTTTTAAAATTT-TATTATATATTA
32988058 T-TTTT
1 TATTTT
32988063 AATCGTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (26 bp):
TATTTTTAAAATTTTATTATATATTA
Found at i:32989248 original size:19 final size:20
Alignment explanation
Indices: 32989193--32989261 Score: 86
Period size: 19 Copynumber: 3.4 Consensus size: 20
32989183 TATATTGTTA
32989193 TTTTGGTGCTATTTTTTTACTG
1 TTTTGGTGC--TTTTTTTACTG
*
32989215 TTTTGATTGCTTTTTTTACTG
1 TTTTG-GTGCTTTTTTTACTG
*
32989236 TTTTGGTGC-TTTTTTATTG
1 TTTTGGTGCTTTTTTTACTG
32989255 TTTTGGT
1 TTTTGGT
32989262 TATTATTTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
19 16 0.37
20 3 0.07
21 16 0.37
22 5 0.12
23 3 0.07
ACGTcount: A:0.07, C:0.07, G:0.19, T:0.67
Consensus pattern (20 bp):
TTTTGGTGCTTTTTTTACTG
Found at i:32989276 original size:20 final size:20
Alignment explanation
Indices: 32989253--32989290 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32989243 GCTTTTTTAT
32989253 TGTTTTGGTTATTATTTTCG
1 TGTTTTGGTTATTATTTTCG
* *
32989273 TGTTTTTGTTGTTATTTT
1 TGTTTTGGTTATTATTTT
32989291 TATTACTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.08, C:0.03, G:0.18, T:0.71
Consensus pattern (20 bp):
TGTTTTGGTTATTATTTTCG
Found at i:32989346 original size:24 final size:24
Alignment explanation
Indices: 32989319--32989377 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
32989309 ATTTTTGTTG
32989319 TTTTTAATGTTGTTTTGCTTATTA
1 TTTTTAATGTTGTTTTGCTTATTA
** * *
32989343 TTTTTGCTGCTGTTTTGGTTATTA
1 TTTTTAATGTTGTTTTGCTTATTA
*
32989367 TTTTTATTGTT
1 TTTTTAATGTT
32989378 TGGATGTTAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.12, C:0.05, G:0.15, T:0.68
Consensus pattern (24 bp):
TTTTTAATGTTGTTTTGCTTATTA
Found at i:32989519 original size:11 final size:11
Alignment explanation
Indices: 32989503--32989538 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
32989493 ATATACAATT
*
32989503 TTTTAAATGTA
1 TTTTAAATTTA
32989514 TTTTAAATTTA
1 TTTTAAATTTA
32989525 TTTTAAATTTA
1 TTTTAAATTTA
32989536 TTT
1 TTT
32989539 ATTTTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
TTTTAAATTTA
Found at i:32990286 original size:29 final size:30
Alignment explanation
Indices: 32990245--32990313 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
32990235 TATGAAGCGC
32990245 AATCTAAAATTCATGTATACAAA-TGC-ATTA
1 AATCTAAAATTCAT-TAT-CAAATTGCAATTA
*
32990275 AATC-AAATTTCATTATCAAATTGCAATTA
1 AATCTAAAATTCATTATCAAATTGCAATTA
32990304 AAT-TAAAATT
1 AATCTAAAATT
32990314 TATAATTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
27 4 0.12
28 6 0.18
29 20 0.59
30 4 0.12
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.36
Consensus pattern (30 bp):
AATCTAAAATTCATTATCAAATTGCAATTA
Found at i:32991982 original size:20 final size:18
Alignment explanation
Indices: 32991948--32991986 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
32991938 CTTACCTTAT
32991948 ATATCATATCAATAAATA
1 ATATCATATCAATAAATA
32991966 ATATCCATATCATATAAATA
1 ATAT-CATATCA-ATAAATA
32991986 A
1 A
32991987 ACAAAGTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (18 bp):
ATATCATATCAATAAATA
Found at i:32993699 original size:47 final size:46
Alignment explanation
Indices: 32993646--32993739 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 46
32993636 CTTAATGGTG
32993646 AGCTCCAAGCTTGCAC-CAAAAATTTCAAGCTCATACCAAAATATCTA
1 AGCTCCAAGC-T-CACGCAAAAATTTCAAGCTCATACCAAAATATCTA
* * *
32993693 AGCTCCAAGCTCACGTCAAAATTTTCAAGTTTATACCAAAATATCTA
1 AGCTCCAAGCTCACG-CAAAAATTTCAAGCTCATACCAAAATATCTA
32993740 GAATGCATGC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
45 3 0.07
46 1 0.02
47 38 0.90
ACGTcount: A:0.39, C:0.26, G:0.09, T:0.27
Consensus pattern (46 bp):
AGCTCCAAGCTCACGCAAAAATTTCAAGCTCATACCAAAATATCTA
Found at i:32997284 original size:16 final size:17
Alignment explanation
Indices: 32997265--32997298 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32997255 ACCCGCAAAA
32997265 ATTTGA-GTTCAATTTT
1 ATTTGATGTTCAATTTT
32997281 ATTTGATTGTTCAATTTT
1 ATTTGA-TGTTCAATTTT
32997299 TATTGATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
18 10 0.62
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.59
Consensus pattern (17 bp):
ATTTGATGTTCAATTTT
Found at i:32997301 original size:19 final size:17
Alignment explanation
Indices: 32997271--32997306 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 17
32997261 AAAAATTTGA
32997271 GTTCAATTTTATTTGATT
1 GTTCAATTTTA-TTGATT
32997289 GTTCAATTTTTATTGATT
1 GTTCAA-TTTTATTGATT
32997307 TGAATCTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.22, C:0.06, G:0.11, T:0.61
Consensus pattern (17 bp):
GTTCAATTTTATTGATT
Found at i:32998195 original size:18 final size:18
Alignment explanation
Indices: 32998158--32998195 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
32998148 TAAATTTTCG
* *
32998158 AATTCGAATAACTCGGAT
1 AATTCGAATAAATCGAAT
32998176 AATTCGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
32998194 AA
1 AA
32998196 AACTATATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.26
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:32999097 original size:29 final size:27
Alignment explanation
Indices: 32999057--32999111 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 27
32999047 TACATTTGAA
32999057 ATTTTAAAATTTAATC-CTCCAACTTTT
1 ATTTTAAAATTTAATCTCT-CAACTTTT
32999084 ATTTTCAAGAATTTAATCTCTCAACTTT
1 ATTTT-AA-AATTTAATCTCTCAACTTT
32999112 GTGGATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 5 0.20
28 2 0.08
29 16 0.64
30 2 0.08
ACGTcount: A:0.33, C:0.18, G:0.02, T:0.47
Consensus pattern (27 bp):
ATTTTAAAATTTAATCTCTCAACTTTT
Found at i:32999451 original size:29 final size:30
Alignment explanation
Indices: 32999419--32999477 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
32999409 TATGGTTTAA
32999419 TGTGTAATTTTACACAT-AAATTTTGATTT
1 TGTGTAATTTTACACATGAAATTTTGATTT
* *
32999448 TGTGTAATTTTATATATGAAATTTTGATTT
1 TGTGTAATTTTACACATGAAATTTTGATTT
32999478 GATCTAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.54
Consensus pattern (30 bp):
TGTGTAATTTTACACATGAAATTTTGATTT
Found at i:32999486 original size:30 final size:29
Alignment explanation
Indices: 32999423--32999486 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
32999413 GTTTAATGTG
*
32999423 TAATTTTACACATAAATTTTGATTTTGTG
1 TAATTTTACACATAAATTTTGATTTTGTC
* *
32999452 TAATTTTATATATGAAATTTTGA-TTTGATC
1 TAATTTTACACAT-AAATTTTGATTTTG-TC
32999482 TAATT
1 TAATT
32999487 ATTGTAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 15 0.50
30 15 0.50
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (29 bp):
TAATTTTACACATAAATTTTGATTTTGTC
Found at i:33018353 original size:7 final size:7
Alignment explanation
Indices: 33018341--33018369 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
33018331 CACAACTAGA
33018341 TTTCGAC
1 TTTCGAC
33018348 TTTCGAC
1 TTTCGAC
33018355 TTTCGAC
1 TTTCGAC
33018362 TTTCGAC
1 TTTCGAC
33018369 T
1 T
33018370 ATCTTTTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TTTCGAC
Found at i:33032474 original size:21 final size:22
Alignment explanation
Indices: 33032448--33032498 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
33032438 TAACTTGATG
*
33032448 AATTTTTATTTGTTT-TCATAA
1 AATTTTTATTTGTTTATCAAAA
* *
33032469 AATTTTAATTTTTTTATCAAAA
1 AATTTTTATTTGTTTATCAAAA
33032491 AATATTTT
1 AAT-TTTT
33032499 TAAATAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 13 0.54
22 8 0.33
23 3 0.12
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (22 bp):
AATTTTTATTTGTTTATCAAAA
Found at i:33044063 original size:8 final size:9
Alignment explanation
Indices: 33044044--33044112 Score: 63
Period size: 9 Copynumber: 7.7 Consensus size: 9
33044034 TAAAATATAA
33044044 TTTTAATAT
1 TTTTAATAT
33044053 TTTTAAT-T
1 TTTTAATAT
33044061 TTTTAATAT
1 TTTTAATAT
*
33044070 TTATAATA-
1 TTTTAATAT
33044078 TTTTAATAAT
1 TTTTAAT-AT
*
33044088 TAAATTAA-AT
1 T--TTTAATAT
*
33044098 TTTTATTAT
1 TTTTAATAT
33044107 TTTTAA
1 TTTTAA
33044113 AGTTAATGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
8 17 0.35
9 23 0.48
10 4 0.08
12 4 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTTAATAT
Found at i:33044066 original size:17 final size:17
Alignment explanation
Indices: 33044043--33044085 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
33044033 ATAAAATATA
*
33044043 ATTTTAATATTTTTAAT
1 ATTTTAATATTTATAAT
*
33044060 TTTTTAATATTTATAAT
1 ATTTTAATATTTATAAT
33044077 ATTTTAATA
1 ATTTTAATA
33044086 ATTAAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTTTAATATTTATAAT
Found at i:33044099 original size:28 final size:28
Alignment explanation
Indices: 33044008--33044109 Score: 74
Period size: 28 Copynumber: 3.8 Consensus size: 28
33043998 TGAGTGGTTG
33044008 AAATTAAA-TTATAAT-TTTTATGATAA-T
1 AAATTAAATTTATAATATTTTA--ATAATT
*
33044035 AAAATATAATTT-TAATATTTT--TAATT
1 AAATTA-AATTTATAATATTTTAATAATT
**
33044061 -TTTTAATATTTATAATATTTTAATAATT
1 AAATTAA-ATTTATAATATTTTAATAATT
* *
33044089 AAATTAAATTTTTATTATTTT
1 AAATTAAATTTATAATATTTT
33044110 TAAAGTTAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
24 1 0.02
25 9 0.16
26 10 0.17
27 5 0.09
28 23 0.40
29 10 0.17
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (28 bp):
AAATTAAATTTATAATATTTTAATAATT
Found at i:33044164 original size:8 final size:9
Alignment explanation
Indices: 33044139--33044180 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
33044129 TATTTTTATT
33044139 AATTT-AAA
1 AATTTAAAA
*
33044147 ATTTTAAAA
1 AATTTAAAA
33044156 AATTTAAAA
1 AATTTAAAA
33044165 AATTTAAAAA
1 AATTT-AAAA
33044175 AATTTA
1 AATTTA
33044181 TTTTAAGGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
8 4 0.13
9 17 0.57
10 9 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
AATTTAAAA
Found at i:33044168 original size:19 final size:19
Alignment explanation
Indices: 33044144--33044180 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
33044134 TTATTAATTT
*
33044144 AAAATTTTAAAAAATTTAA
1 AAAATTTAAAAAAATTTAA
33044163 AAAATTTAAAAAAATTTA
1 AAAATTTAAAAAAATTTA
33044181 TTTTAAGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATTTAAAAAAATTTAA
Found at i:33044180 original size:10 final size:10
Alignment explanation
Indices: 33044144--33044180 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
33044134 TTATTAATTT
*
33044144 AAAATTTTAA
1 AAAATTTAAA
33044154 AAAATTT-AA
1 AAAATTTAAA
33044163 AAAATTTAAA
1 AAAATTTAAA
33044173 AAAATTTA
1 AAAATTTA
33044181 TTTTAAGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:33054136 original size:19 final size:20
Alignment explanation
Indices: 33054112--33054150 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
33054102 TGTTTTCTTC
*
33054112 TTTTAAAG-GTGAAATTTTG
1 TTTTAAAGAGTGAAACTTTG
33054131 TTTTAAAGAGTGAAACTTTG
1 TTTTAAAGAGTGAAACTTTG
33054151 GATGTTTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.44
Consensus pattern (20 bp):
TTTTAAAGAGTGAAACTTTG
Found at i:33057525 original size:22 final size:23
Alignment explanation
Indices: 33057500--33057543 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
33057490 TTTTAAGGGG
*
33057500 TTAAAGTATAATTTTAT-TTTTA
1 TTAAAGTAAAATTTTATATTTTA
**
33057522 TTAATTTAAAATTTTATATTTT
1 TTAAAGTAAAATTTTATATTTT
33057544 TTTATAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TTAAAGTAAAATTTTATATTTTA
Found at i:33058961 original size:2 final size:2
Alignment explanation
Indices: 33058954--33059001 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
33058944 AAATAAAAGA
*
33058954 AT AT AT AT AA 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
33058996 AT AT AT
1 AT AT AT
33059002 TATTTTTAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33059064 original size:25 final size:22
Alignment explanation
Indices: 33058997--33059064 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 22
33058987 TATATATATA
33058997 TATATTATTTTTAGTTTTTTAAT
1 TATATTATTTTTA-TTTTTTAAT
* * *
33059020 TATATATATATTTGAATTTTGAACT
1 TATAT-TAT-TTTTATTTTTTAA-T
33059045 TATATGTATTTTTATTTTTT
1 TATAT-TATTTTTATTTTTT
33059065 TTTAGATTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
23 5 0.14
24 17 0.49
25 13 0.37
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.65
Consensus pattern (22 bp):
TATATTATTTTTATTTTTTAAT
Found at i:33068725 original size:2 final size:2
Alignment explanation
Indices: 33068718--33068745 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
33068708 TAATATGGTC
33068718 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
33068746 CATTTACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33072429 original size:17 final size:17
Alignment explanation
Indices: 33072390--33072429 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
33072380 ATTTAAAAAT
* *
33072390 AAAAAATCCAAAATTCA
1 AAAAAATCAAAAATTAA
33072407 AAAAAATCAAAAATTAA
1 AAAAAATCAAAAATTAA
33072424 AAAAAA
1 AAAAAA
33072430 AACATTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.75, C:0.10, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAATCAAAAATTAA
Found at i:33075858 original size:25 final size:26
Alignment explanation
Indices: 33075814--33075863 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
33075804 CAATTATAGT
* * *
33075814 TAAATTTTTAAAACTGAAAA-AAAAC
1 TAAATTCTTAAAAATAAAAATAAAAC
33075839 TAAATTCTTAAAAATAAAAATAAAA
1 TAAATTCTTAAAAATAAAAATAAAA
33075864 TAATTAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (26 bp):
TAAATTCTTAAAAATAAAAATAAAAC
Found at i:33076637 original size:29 final size:30
Alignment explanation
Indices: 33076576--33076641 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
33076566 AATATGCATG
* *
33076576 ATTGAATTAAATTAAAGTTTCATGTATATA
1 ATTGCATTAAATTAAAGCTTCATGTATATA
*
33076606 ATTGCATTAAATTAATGCTT-ATGTATCA-A
1 ATTGCATTAAATTAAAGCTTCATGTAT-ATA
33076635 ATTGCAT
1 ATTGCAT
33076642 ATTGAATCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (30 bp):
ATTGCATTAAATTAAAGCTTCATGTATATA
Found at i:33077885 original size:23 final size:23
Alignment explanation
Indices: 33077859--33077932 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
33077849 AGAAATCGAA
33077859 ATTAAATTATATATTTTTATAAT
1 ATTAAATTATATATTTTTATAAT
* * *
33077882 ATTAAA-AATATAATTTTATTAT
1 ATTAAATTATATATTTTTATAAT
* *
33077904 TTTAATATT-TATATCTTTATAAT
1 ATTAA-ATTATATATTTTTATAAT
*
33077927 TTTAAA
1 ATTAAA
33077933 AAATTAAATT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
22 18 0.44
23 23 0.56
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTAAATTATATATTTTTATAAT
Found at i:33077909 original size:14 final size:16
Alignment explanation
Indices: 33077890--33077930 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
33077880 ATATTAAAAA
33077890 TATAATTTTAT-TATT
1 TATAATTTTATATATT
*
33077905 T-TAATATTTATATCTT
1 TATAAT-TTTATATATT
33077921 TATAATTTTA
1 TATAATTTTA
33077931 AAAAATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 4 0.18
15 6 0.27
16 8 0.36
17 4 0.18
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TATAATTTTATATATT
Found at i:33077970 original size:30 final size:29
Alignment explanation
Indices: 33077926--33077991 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
33077916 ATCTTTATAA
*
33077926 TTTTAAAAAATTAAATTA-AATTATTATTAT
1 TTTTAAAAAATTAAAATATAATT-TTATT-T
* *
33077956 TTTTAAAGAGTTAAAATATAATTTTATTT
1 TTTTAAAAAATTAAAATATAATTTTATTT
33077985 TTATTAA
1 TT-TTAA
33077992 TTTAATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 3 0.10
30 24 0.77
31 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (29 bp):
TTTTAAAAAATTAAAATATAATTTTATTT
Found at i:33078004 original size:81 final size:81
Alignment explanation
Indices: 33077857--33078006 Score: 200
Period size: 82 Copynumber: 1.9 Consensus size: 81
33077847 TTAGAAATCG
* *
33077857 AAATTAAATTATATATTTTTATAATATTAAAAATATAATTTTATTATTTTAATATTTATATCTTT
1 AAATTAAATTATATATTTTTATAAGATTAAAAATATAATTTTATTATTTTAATATTAATATCTTT
33077922 ATAATTTTAAAAAATT
66 ATAATTTTAAAAAATT
*
33077938 AAATTAAATTATTATTATTTTTA-AAGAGTT-AAAATATAATTTTATTTTTATTAAT-TTAAT-T
1 AAATTAAATTA-TA-TATTTTTATAAGA-TTAAAAATATAATTTTATTATT-TTAATATTAATAT
*
33077999 TTTTATAA
62 CTTTATAA
33078007 AATATAAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
81 19 0.31
82 27 0.44
83 15 0.25
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (81 bp):
AAATTAAATTATATATTTTTATAAGATTAAAAATATAATTTTATTATTTTAATATTAATATCTTT
ATAATTTTAAAAAATT
Found at i:33078016 original size:81 final size:81
Alignment explanation
Indices: 33077857--33078025 Score: 193
Period size: 82 Copynumber: 2.0 Consensus size: 81
33077847 TTAGAAATCG
* *
33077857 AAATTAAATTATATATTTTTATAATATTAAAAATATAATTTTATTATTTTAATATTTATATCTTT
1 AAATTAAATTATATATTTTTATAAGATTAAAAATATAATTTTATTATTTTAATATTAATATCTTT
* *
33077922 ATAATTTTAAAAAATT
66 ATAAATATAAAAAATT
*
33077938 AAATTAAATTATTATTATTTTTA-AAGAGTT-AAAATATAATTTTATTTTTATTAAT-TTAAT-T
1 AAATTAAATTA-TA-TATTTTTATAAGA-TTAAAAATATAATTTTATTATT-TTAATATTAATAT
*
33077999 TTTTATAAAATATAAAAAGACTT
62 CTTTAT-AAATATAAAAA-A-TT
33078022 AAAT
1 AAAT
33078026 AAAAACAAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 11
0.82 0.07 0.12
Matches are distributed among these distances:
81 17 0.23
82 36 0.48
83 16 0.21
84 6 0.08
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (81 bp):
AAATTAAATTATATATTTTTATAAGATTAAAAATATAATTTTATTATTTTAATATTAATATCTTT
ATAAATATAAAAAATT
Found at i:33080461 original size:15 final size:16
Alignment explanation
Indices: 33080433--33080470 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
33080423 AAAAATGTAT
33080433 ATTT-ATATTATTTTA
1 ATTTAATATTATTTTA
33080448 ATTTAATATT-TTTTA
1 ATTTAATATTATTTTA
*
33080463 ATTCAATA
1 ATTTAATA
33080471 AAATTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTAATATTATTTTA
Found at i:33092648 original size:25 final size:23
Alignment explanation
Indices: 33092620--33092665 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
33092610 GTTGGATCCA
33092620 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAA-TCTAAAAA-ATAATTTG
*
33092645 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
33092666 CCCTAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTTG
Found at i:33096056 original size:25 final size:25
Alignment explanation
Indices: 33096003--33096048 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
33095993 GTTGGATCCA
33096003 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAATTCTAAAAAGATAATTTG
*
33096028 AATTAAA-TCTAAACA-ATAATT
1 AATTAAATTCTAAAAAGATAATT
33096049 CCTTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (25 bp):
AATTAAATTCTAAAAAGATAATTTG
Found at i:33121371 original size:17 final size:17
Alignment explanation
Indices: 33121348--33121403 Score: 85
Period size: 17 Copynumber: 3.3 Consensus size: 17
33121338 ACCAAACCAT
33121348 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
33121365 ATTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
33121382 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
33121399 TTTAA
1 TTTAA
33121404 TTAAAGGTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:33122040 original size:22 final size:23
Alignment explanation
Indices: 33122013--33122078 Score: 82
Period size: 22 Copynumber: 2.9 Consensus size: 23
33122003 ATTTATAATG
* *
33122013 ATTTAATATCTTTATATA-AGGT
1 ATTTAATATATATATATATAGGT
33122035 ATTTAATATATATATATATAGGT
1 ATTTAATATATATATATATAGGT
33122058 A-TTAAGGTATATATATATATA
1 ATTTAA--TATATATATATATA
33122079 TATTATGTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
22 20 0.51
23 5 0.13
24 14 0.36
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (23 bp):
ATTTAATATATATATATATAGGT
Found at i:33122052 original size:24 final size:24
Alignment explanation
Indices: 33122013--33122078 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
33122003 ATTTATAATG
*
33122013 ATTTAATATCT-T-TATATAAGGT
1 ATTTAATATATATATATATAAGGT
33122035 ATTTAATATATATATATAT-AGGT
1 ATTTAATATATATATATATAAGGT
33122058 A-TTAAGGTATATATATATATA
1 ATTTAA--TATATATATATATA
33122079 TATTATGTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
22 14 0.37
23 6 0.16
24 18 0.47
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (24 bp):
ATTTAATATATATATATATAAGGT
Found at i:33123484 original size:58 final size:58
Alignment explanation
Indices: 33123379--33123749 Score: 301
Period size: 58 Copynumber: 6.3 Consensus size: 58
33123369 CCCTAAACTT
* * * * *
33123379 TTCCAAAAATTACATTTTTGACCTTAAAACTTCTAAAAATTACATTTTTACCCTCGAAC
1 TTCCAAAAATTCCATTTTTAACCCTAAAACTTCCAAAAATTATA-TTTTACCCTCGAAC
* *
33123438 TTCCAAAAATTCCA-TTTTAACCCTGAAACTTCCAAAAATTATATTTTTA-CCTCTAAAC
1 TTCCAAAAATTCCATTTTTAACCCTAAAACTTCCAAAAATTATA-TTTTACCCTC-GAAC
* * *
33123496 TTCCAAAATTTTCATTTTTAACCCTAAAACTTCTAAAAATT-TCCATTTTACCCTCGAAC
1 TTCCAAAAATTCCATTTTTAACCCTAAAACTTCCAAAAATTAT--ATTTTACCCTCGAAC
* * * * *
33123555 TTCC-AAAATTCCATTTTTAACCTTGAAACTTTCAAAAATTACTATTTTACCCCCG-AT
1 TTCCAAAAATTCCATTTTTAACCCTAAAACTTCCAAAAATTA-TATTTTACCCTCGAAC
* * * * ** * * *
33123612 TATCCGAAAACTCTATTTTTTACCCCGAAACTTCTAAAAATTACCATTTTACCC-CTAAAC
1 T-TCCAAAAATTCCATTTTTAACCCTAAAACTTCCAAAAATTA-TATTTTACCCTC-GAAC
* * * * *
33123672 TTCC-AAAATTCTATTTTTAACCCCAAAACTTTCAAAAATTACCATTTTACCC-CTG-AT
1 TTCCAAAAATTCCATTTTTAACCCTAAAACTTCCAAAAATTA-TATTTTACCCTC-GAAC
*
33123729 TATCCAAAAACTCCATTTTTA
1 T-TCCAAAAATTCCATTTTTA
33123750 TCCTTATTTT
Statistics
Matches: 260, Mismatches: 39, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
57 8 0.03
58 139 0.53
59 105 0.40
60 8 0.03
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.37
Consensus pattern (58 bp):
TTCCAAAAATTCCATTTTTAACCCTAAAACTTCCAAAAATTATATTTTACCCTCGAAC
Found at i:33123562 original size:117 final size:116
Alignment explanation
Indices: 33123343--33123712 Score: 381
Period size: 117 Copynumber: 3.1 Consensus size: 116
33123333 GGAGGTCCTT
* ** * * *
33123343 AAACTGTCCAGAAATTATATTTTGGCCCCTAAACTTTTCCAAAAATTACATTTTTGACCTTAAAA
1 AAACT-TCCAAAAATTATATTTT-TACCCTAAAC--TTCCAAAAATTTCATTTTTAACCCTAAAA
*
33123408 CTTCTAAAAA-TTACATTTTTACCCTCGAACTTCCAAAAATTCCA-TTTTAACCCTG
62 CTTCTAAAAATTTCCA-TTTTACCCTCGAACTTCC-AAAATTCCATTTTTAACCCTG
*
33123463 AAACTTCCAAAAATTATATTTTTACCTCTAAACTTCCAAAATTTTCATTTTTAACCCTAAAACTT
1 AAACTTCCAAAAATTATATTTTTACC-CTAAACTTCCAAAAATTTCATTTTTAACCCTAAAACTT
*
33123528 CTAAAAATTTCCATTTTACCCTCGAACTTCCAAAATTCCATTTTTAACCTTG
65 CTAAAAATTTCCATTTTACCCTCGAACTTCCAAAATTCCATTTTTAACCCTG
* *** * * * * **
33123580 AAACTTTCAAAAATTACTA-TTTTACCCCCGATTATCCGAAAA-CTCTATTTTTTACCCCGAAAC
1 AAACTTCCAAAAATTA-TATTTTTACCCTAAACT-TCCAAAAATTTC-ATTTTTAACCCTAAAAC
* * * **
33123643 TTCTAAAAATTACCATTTTACCC-CTAAACTTCCAAAATTCTATTTTTAACCCCA
63 TTCTAAAAATTTCCATTTTACCCTC-GAACTTCCAAAATTCCATTTTTAACCCTG
*
33123697 AAACTTTCAAAAATTA
1 AAACTTCCAAAAATTA
33123713 CCATTTTACC
Statistics
Matches: 217, Mismatches: 26, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
116 15 0.07
117 167 0.77
118 8 0.04
119 22 0.10
120 5 0.02
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.36
Consensus pattern (116 bp):
AAACTTCCAAAAATTATATTTTTACCCTAAACTTCCAAAAATTTCATTTTTAACCCTAAAACTTC
TAAAAATTTCCATTTTACCCTCGAACTTCCAAAATTCCATTTTTAACCCTG
Found at i:33123666 original size:29 final size:29
Alignment explanation
Indices: 33123405--33123724 Score: 164
Period size: 29 Copynumber: 11.0 Consensus size: 29
33123395 TTTGACCTTA
33123405 AAACTTCTAAAAATTA-CATTTTTACCCTCG
1 AAACTTCTAAAAATTACCA-TTTTACCC-CG
* *
33123435 -AACTTCCAAAAATT-CCATTTTAACCCTG
1 AAACTTCTAAAAATTACCATTTT-ACCCCG
* * * *
33123463 AAACTTCCAAAAATTA-TATTTTTACCTCT
1 AAACTTCTAAAAATTACCA-TTTTACCCCG
* ** **
33123492 AAACTTC-CAAAATTTTCATTTTTAACCCTA
1 AAACTTCTAAAAATTACCA-TTTT-ACCCCG
*
33123522 AAACTTCTAAAAATTTCCATTTTACCCTCG
1 AAACTTCTAAAAATTACCATTTTACCC-CG
* **
33123552 -AACTTC-CAAAATT-CCATTTTTAACCTTG
1 AAACTTCTAAAAATTACCA-TTTT-ACCCCG
*
33123580 AAACTT-TCAAAAATTACTATTTTACCCCCG
1 AAACTTCT-AAAAATTACCATTTTA-CCCCG
* * * * **
33123610 ATTA-TCCGAAAACTCTA-TTTTTTACCCCG
1 A-AACTTCTAAAAAT-TACCATTTTACCCCG
*
33123639 AAACTTCTAAAAATTACCATTTTACCCCT
1 AAACTTCTAAAAATTACCATTTTACCCCG
* * *
33123668 AAACTTC-CAAAATT-CTATTTTTAACCCCA
1 AAACTTCTAAAAATTACCA-TTTT-ACCCCG
33123697 AAACTT-TCAAAAATTACCATTTTACCCC
1 AAACTTCT-AAAAATTACCATTTTACCCC
33123725 TGATTATCCA
Statistics
Matches: 224, Mismatches: 40, Indels: 53
0.71 0.13 0.17
Matches are distributed among these distances:
27 5 0.02
28 35 0.16
29 114 0.51
30 54 0.24
31 16 0.07
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.36
Consensus pattern (29 bp):
AAACTTCTAAAAATTACCATTTTACCCCG
Found at i:33123713 original size:117 final size:116
Alignment explanation
Indices: 33123404--33123749 Score: 414
Period size: 117 Copynumber: 3.0 Consensus size: 116
33123394 TTTTGACCTT
33123404 AAAACTTCTAAAAATTA-CATTTTTACCCTCGAACTTCCAAAAATTCCA-TTTTAACCCTGAAAC
1 AAAACTTCTAAAAATTACCA-TTTTACCCTCGAACTTCC-AAAATTCCATTTTTAACCCTGAAAC
* * * * * * *
33123467 TTCCAAAAATTA-TATTTTTACCTCTAAACT-TCCAAAATTTTCATTTTTAACCCT
64 TTTCAAAAATTACTA-TTTTACC-CCAGATTATCCAAAACTCT-ATTTTTAACCCC
* *
33123521 AAAACTTCTAAAAATTTCCATTTTACCCTCGAACTTCCAAAATTCCATTTTTAACCTTGAAACTT
1 AAAACTTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAATTCCATTTTTAACCCTGAAACTT
* *
33123586 TCAAAAATTACTATTTTACCCCCGATTATCCGAAAACTCTATTTTTTACCCC
66 TCAAAAATTACTATTTTACCCCAGATTATCC-AAAACTCTATTTTTAACCCC
* * * **
33123638 GAAACTTCTAAAAATTACCATTTTACCC-CTAAACTTCCAAAATTCTATTTTTAACCCCAAAACT
1 AAAACTTCTAAAAATTACCATTTTACCCTC-GAACTTCCAAAATTCCATTTTTAACCCTGAAACT
* * *
33123702 TTCAAAAATTACCATTTTACCCCTGATTATCCAAAAACTCCATTTTTA
65 TTCAAAAATTACTATTTTACCCCAGATTATCC-AAAACTCTATTTTTA
33123750 TCCTTATTTT
Statistics
Matches: 200, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
116 13 0.06
117 177 0.88
118 10 0.05
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.36
Consensus pattern (116 bp):
AAAACTTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAATTCCATTTTTAACCCTGAAACTT
TCAAAAATTACTATTTTACCCCAGATTATCCAAAACTCTATTTTTAACCCC
Found at i:33123736 original size:29 final size:29
Alignment explanation
Indices: 33123704--33123883 Score: 77
Period size: 29 Copynumber: 6.2 Consensus size: 29
33123694 CCAAAACTTT
33123704 CAAAAATTACCATTTTACCCCTGATTATC
1 CAAAAATTACCATTTTACCCCTGATTATC
* * * * *
33123733 CAAAAACT-CCATTTTTA-TCCTTATTTTTT
1 CAAAAATTACCA-TTTTACCCCTGA-TTATC
** * *
33123762 TTAAAATTACCGTTTTA-CCCTCGAATAT-
1 CAAAAATTACCATTTTACCCCT-GATTATC
* * * ** *
33123790 CTAAAATT-TCATTTTTAACACCAAATTCTC
1 CAAAAATTACCA-TTTT-ACCCCTGATTATC
* *
33123820 CTAAAATTACCATTTTACCCCTCGA-GAGTC
1 CAAAAATTACCATTTTACCCCT-GATTA-TC
**
33123850 C-AAAATTACCATTTTACCCCTGGGTATC
1 CAAAAATTACCATTTTACCCCTGATTATC
33123878 CAAAAA
1 CAAAAA
33123884 GTTTCATTTT
Statistics
Matches: 109, Mismatches: 29, Indels: 26
0.66 0.18 0.16
Matches are distributed among these distances:
27 1 0.01
28 22 0.20
29 63 0.58
30 21 0.19
31 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (29 bp):
CAAAAATTACCATTTTACCCCTGATTATC
Found at i:33123767 original size:117 final size:116
Alignment explanation
Indices: 33123405--33123841 Score: 397
Period size: 117 Copynumber: 3.7 Consensus size: 116
33123395 TTTGACCTTA
* *
33123405 AAACTTCTAAAAATTA-CATTTTTACCCTCGAACTTCCAAAAATTCCA-TTTTAACCCTGAAACT
1 AAACTTCTAAAAATTACCA-TTTTACCCTCGAACTTCC-AAAATTCTATTTTTAACCC-CAAACT
* * * * * ** * * **
33123468 TCCAAAAATTA-TATTTTTACCTCTAAACT-TCCAAAATTTTCATTTTTAACCCTA
63 TTCAAAAATTACCA-TTTTACCCCT-GATTATCCAAAAACTCCATTTTTTACCCCG
* * **
33123522 AAACTTCTAAAAATTTCCATTTTACCCTCGAACTTCCAAAATTCCATTTTTAACCTTGAAACTTT
1 AAACTTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAATTCTATTTTTAACC-CCAAACTTT
* * * *
33123587 CAAAAATTACTATTTTACCCCCGATTATCCGAAAACTCTATTTTTTACCCCG
65 CAAAAATTACCATTTTACCCCTGATTATCCAAAAACTCCATTTTTTACCCCG
*
33123639 AAACTTCTAAAAATTACCATTTTACCC-CTAAACTTCCAAAATTCTATTTTTAACCCCAAAACTT
1 AAACTTCTAAAAATTACCATTTTACCCTC-GAACTTCCAAAATTCTATTTTTAACCCC-AAACTT
* **
33123703 TCAAAAATTACCATTTTACCCCTGATTATCCAAAAACTCCA-TTTTTATCCTT
64 TCAAAAATTACCATTTTACCCCTGATTATCCAAAAACTCCATTTTTTACCCCG
*** * * * * *
33123755 ATTTTTTTTAAAATTACCGTTTTACCCTCGAA-TATCTAAAATT-TCATTTTTAACACCAAA-TT
1 AAACTTCTAAAAATTACCATTTTACCCTCGAACT-TCCAAAATTCT-ATTTTTAACCCCAAACTT
*
33123817 CTCCTAAAATTACCATTTTACCCCT
64 -T-CAAAAATTACCATTTTACCCCT
33123842 CGAGAGTCCA
Statistics
Matches: 271, Mismatches: 37, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
114 2 0.01
115 6 0.02
116 83 0.31
117 176 0.65
118 4 0.01
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.38
Consensus pattern (116 bp):
AAACTTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAATTCTATTTTTAACCCCAAACTTTC
AAAAATTACCATTTTACCCCTGATTATCCAAAAACTCCATTTTTTACCCCG
Found at i:33129043 original size:3 final size:3
Alignment explanation
Indices: 33129035--33129060 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33129025 ACCTATAAAA
33129035 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
33129061 ATCCATGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:33135381 original size:15 final size:16
Alignment explanation
Indices: 33135361--33135390 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
33135351 ATAACAATAA
33135361 TTTAATCATT-AAATC
1 TTTAATCATTCAAATC
33135376 TTTAATCATTCAAAT
1 TTTAATCATTCAAAT
33135391 ATCATGCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTAATCATTCAAATC
Found at i:33140001 original size:20 final size:22
Alignment explanation
Indices: 33139976--33140017 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
33139966 AAATAATTTT
33139976 AATAATTTT-AT-ATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
33139996 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
33140018 TCATTACTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATAATTTTAATAATTTTAAAA
Found at i:33140005 original size:29 final size:31
Alignment explanation
Indices: 33139942--33140014 Score: 114
Period size: 29 Copynumber: 2.4 Consensus size: 31
33139932 ATTAAAATTA
*
33139942 TTTAATAAATTTATTATTTCAAAAAAATAAT
1 TTTAATAATTTTATTATTTCAAAAAAATAAT
*
33139973 TTTAATAATTTTA-TATTT-TAAAAAATAAT
1 TTTAATAATTTTATTATTTCAAAAAAATAAT
33140002 TTTAATAATTTTA
1 TTTAATAATTTTA
33140015 AAATCATTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
29 23 0.57
30 5 0.12
31 12 0.30
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (31 bp):
TTTAATAATTTTATTATTTCAAAAAAATAAT
Found at i:33144109 original size:55 final size:54
Alignment explanation
Indices: 33143985--33144110 Score: 146
Period size: 56 Copynumber: 2.3 Consensus size: 54
33143975 TGGGTGGTTG
* *
33143985 TAAAAAATA-TTTTTATTTAAAAAAAAAGTGATGATCATGACTTGACAAGCATC
1 TAAAAAATATTTTTTATTTAAAAAAAAAGTGATGACCATGACTTGACAAGCACC
* ** * * * *
33144038 AAAAAAATATTTTTTTATTTGAAAAAAAGGGTGATGACCATGGCTTGGCCATCACC
1 TAAAAAATA-TTTTTTATTT-AAAAAAAAAGTGATGACCATGACTTGACAAGCACC
33144094 TAAAAAATATTTTTTAT
1 TAAAAAATATTTTTTAT
33144111 CTAGCTATCA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
53 8 0.13
55 17 0.28
56 35 0.58
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (54 bp):
TAAAAAATATTTTTTATTTAAAAAAAAAGTGATGACCATGACTTGACAAGCACC
Found at i:33144123 original size:85 final size:84
Alignment explanation
Indices: 33144034--33144194 Score: 243
Period size: 85 Copynumber: 1.9 Consensus size: 84
33144024 ACTTGACAAG
* * * * *
33144034 CATCAAAAAAATATTTTTTTATTTGAAAAAA-AGGGTGATGACCATGGCTTGGCCATCACCTAAA
1 CATCAAAAAAATATTTTTTTATTTGAAAAAAGA-AGTGATG-CCATGGCTTGACAAACACCCAAA
33144098 AAATATTTTTTATCTAGCTAT
64 AAATATTTTTTATCTAGCTAT
*
33144119 CATCAAAAAAATATTTTTTTATTTGAAAAAAGAAGTGATGCTATGGCTTGACAAACACCCAAAAA
1 CATCAAAAAAATATTTTTTTATTTGAAAAAAGAAGTGATGCCATGGCTTGACAAACACCCAAAAA
33144184 ATATTTTTTAT
66 ATATTTTTTAT
33144195 TTGATAATGG
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
84 31 0.45
85 37 0.54
86 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (84 bp):
CATCAAAAAAATATTTTTTTATTTGAAAAAAGAAGTGATGCCATGGCTTGACAAACACCCAAAAA
ATATTTTTTATCTAGCTAT
Found at i:33144183 original size:84 final size:85
Alignment explanation
Indices: 33144034--33144194 Score: 245
Period size: 84 Copynumber: 1.9 Consensus size: 85
33144024 ACTTGACAAG
* * * * *
33144034 CATCAAAAAAATATTTTTTTATTTGAAAAAAAGGGTGATGACCATGGCTTGGCCATCACCTAAAA
1 CATCAAAAAAATATTTTTTTATTTGAAAAAAAGAGTGATGACCATGGCTTGACAAACACCCAAAA
33144099 AATATTTTTTATCTAGCTAT
66 AATATTTTTTATCTAGCTAT
*
33144119 CATCAAAAAAATATTTTTTTATTTG-AAAAAAGAAGTGATG-CTATGGCTTGACAAACACCCAAA
1 CATCAAAAAAATATTTTTTTATTTGAAAAAAAG-AGTGATGACCATGGCTTGACAAACACCCAAA
33144182 AAATATTTTTTAT
65 AAATATTTTTTAT
33144195 TTGATAATGG
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
84 38 0.55
85 31 0.45
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (85 bp):
CATCAAAAAAATATTTTTTTATTTGAAAAAAAGAGTGATGACCATGGCTTGACAAACACCCAAAA
AATATTTTTTATCTAGCTAT
Found at i:33144251 original size:35 final size:35
Alignment explanation
Indices: 33144172--33144254 Score: 105
Period size: 35 Copynumber: 2.4 Consensus size: 35
33144162 TGGCTTGACA
* **
33144172 AACACCCAAAAAATATTTTTTATTTGATAATGGTC
1 AACACCAAAAAAATATTTTTTATCAGATAATGGTC
*
33144207 AACACCAAAAAAATATTTTTTATCAGATATTGG-C
1 AACACCAAAAAAATATTTTTTATCAGATAATGGTC
*
33144241 GACACTCAAAAAAA
1 AACAC-CAAAAAAA
33144255 AAATTTTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 5 0.12
35 37 0.88
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.30
Consensus pattern (35 bp):
AACACCAAAAAAATATTTTTTATCAGATAATGGTC
Found at i:33145389 original size:18 final size:19
Alignment explanation
Indices: 33145366--33145404 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
33145356 TACTTTTTTT
33145366 AATATTAAAAT-ATTAAAA
1 AATATTAAAATAATTAAAA
* *
33145384 AATATTTAATTAATTAAAA
1 AATATTAAAATAATTAAAA
33145403 AA
1 AA
33145405 CGGATATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AATATTAAAATAATTAAAA
Found at i:33145520 original size:10 final size:10
Alignment explanation
Indices: 33145480--33145536 Score: 60
Period size: 10 Copynumber: 5.7 Consensus size: 10
33145470 CAGGCGACAC
* *
33145480 CCTGCTGCTT
1 CCTGCTACTG
33145490 CCTGCTACTG
1 CCTGCTACTG
* *
33145500 TCTGCTGCTG
1 CCTGCTACTG
33145510 CCTGCTACTG
1 CCTGCTACTG
*
33145520 CTTGCTACTG
1 CCTGCTACTG
*
33145530 GCTGCTA
1 CCTGCTA
33145537 ACACCCGGTT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 38 1.00
ACGTcount: A:0.07, C:0.35, G:0.23, T:0.35
Consensus pattern (10 bp):
CCTGCTACTG
Found at i:33145525 original size:20 final size:20
Alignment explanation
Indices: 33145481--33145519 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
33145471 AGGCGACACC
*
33145481 CTGCTGCTTCCTGCTACTGT
1 CTGCTGCTGCCTGCTACTGT
33145501 CTGCTGCTGCCTGCTACTG
1 CTGCTGCTGCCTGCTACTG
33145520 CTTGCTACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.36, G:0.23, T:0.36
Consensus pattern (20 bp):
CTGCTGCTGCCTGCTACTGT
Found at i:33146259 original size:207 final size:206
Alignment explanation
Indices: 33145806--33146513 Score: 1117
Period size: 201 Copynumber: 3.5 Consensus size: 206
33145796 TTGTTTGTGT
* *
33145806 TTGATTTTTATTTAAATGTTATTTAAATTTAAATTTTATCTATATAATTTGATCTTAGTTAGTCT
1 TTGATTTTTATTTAAATGTTATTTAAATTTAAATTTTATCTATTTAATTTGATCTTAGTTAGTGT
* * * * *
33145871 AAACCTTGAAATTTAACATTAATTTATTTGAAATAAAAAAAATAATGATTCACAAAATTACAATA
66 AAACCTTAAAATTTAACATTAATTTATTTG-AATTAAAAAAATTATGATTCATAAAATTATAATA
*
33145936 GTGCTAAAATGGTCCCCAAAATT--AAAAAATTATTAAATAAAAATTAAAACTTTATTTTGATAC
130 GTGTTAAAATGGTCCCCAAAATTAAAAAAAATTATTAAATAAAAATTAAAACTTTATTTTGATAC
* * *
33145999 AAAATTTTAAGA
195 AAAGTTTTAGGG
*
33146011 CTGATTTTTATTTAAATGTTATTTAAATTTAAATTTTATCTATTTAATTTGATCTTAGTTAGTGT
1 TTGATTTTTATTTAAATGTTATTTAAATTTAAATTTTATCTATTTAATTTGATCTTAGTTAGTGT
* *
33146076 AAACAATTAAAATTTAACATTAATTTATTTGAATTAAAAAAATTATGATTCATAAAATTATTATA
66 AAAC-CTTAAAATTTAACATTAATTTATTTGAATTAAAAAAATTATGATTCATAAAATTATAATA
*
33146141 GTGTTAAAATGATCCCCAAAATTAAAAAAAATTATTAAATAAAAATTAAAACTTTATTTTGATAC
130 GTGTTAAAATGGTCCCCAAAATTAAAAAAAATTATTAAATAAAAATTAAAACTTTATTTTGATAC
33146206 AAAGTTTTAGGG
195 AAAGTTTTAGGG
* * *
33146218 TTGATTTTTATTTAAATATTATTTCAATTTAAATCTTATCTATTTAATTTGATC----TT-GTGT
1 TTGATTTTTATTTAAATGTTATTTAAATTTAAATTTTATCTATTTAATTTGATCTTAGTTAGTGT
* * *
33146278 AAATCCTTAAAATTTAACATTAATTTATTTAAAAT-AAAAAATTATAATTCATAAAATTATAATA
66 AAA-CCTTAAAATTTAACATTAATTTATTTGAATTAAAAAAATTATGATTCATAAAATTATAATA
33146342 GTGTTAAAATGGTCCCCAAAATTAAAAAAAATTATTAAATAAAAATTAAAACTTTATTTTGATAC
130 GTGTTAAAATGGTCCCCAAAATTAAAAAAAATTATTAAATAAAAATTAAAACTTTATTTTGATAC
33146407 AAAGTTTTAGGG
195 AAAGTTTTAGGG
33146419 TTGATTTTTATTTAAATGTTATTTAAATTTAAATTTTATCTATTTAATTTGATCTTAGTTAGTGT
1 TTGATTTTTATTTAAATGTTATTTAAATTTAAATTTTATCTATTTAATTTGATCTTAGTTAGTGT
* *
33146484 ATACACTTGAAATTTAACATTAATTTATTT
66 AAAC-CTTAAAATTTAACATTAATTTATTT
33146514 AAAAAATGTA
Statistics
Matches: 463, Mismatches: 30, Indels: 19
0.90 0.06 0.04
Matches are distributed among these distances:
201 154 0.33
202 34 0.07
203 3 0.01
205 119 0.26
206 54 0.12
207 99 0.21
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.44
Consensus pattern (206 bp):
TTGATTTTTATTTAAATGTTATTTAAATTTAAATTTTATCTATTTAATTTGATCTTAGTTAGTGT
AAACCTTAAAATTTAACATTAATTTATTTGAATTAAAAAAATTATGATTCATAAAATTATAATAG
TGTTAAAATGGTCCCCAAAATTAAAAAAAATTATTAAATAAAAATTAAAACTTTATTTTGATACA
AAGTTTTAGGG
Found at i:33147954 original size:30 final size:30
Alignment explanation
Indices: 33147920--33147994 Score: 141
Period size: 30 Copynumber: 2.5 Consensus size: 30
33147910 CTTGAGCCTG
33147920 AGCCTGAGCCTGAGCCGGAGCACTATCCGA
1 AGCCTGAGCCTGAGCCGGAGCACTATCCGA
33147950 AGCCTGAGCCTGAGCCGGAGCACTATCCGA
1 AGCCTGAGCCTGAGCCGGAGCACTATCCGA
*
33147980 AGCCTGAGCCCGAGC
1 AGCCTGAGCCTGAGC
33147995 TCATGCCTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.23, C:0.35, G:0.31, T:0.12
Consensus pattern (30 bp):
AGCCTGAGCCTGAGCCGGAGCACTATCCGA
Found at i:33147988 original size:18 final size:18
Alignment explanation
Indices: 33147932--33147988 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 18
33147922 CCTGAGCCTG
33147932 AGCCGGAGCACTATCCGA
1 AGCCGGAGCACTATCCGA
*
33147950 AGCCTGAGC-C--T--G-
1 AGCCGGAGCACTATCCGA
33147962 AGCCGGAGCACTATCCGA
1 AGCCGGAGCACTATCCGA
*
33147980 AGCCTGAGC
1 AGCCGGAGC
33147989 CCGAGCTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 12
0.67 0.07 0.27
Matches are distributed among these distances:
12 8 0.27
13 2 0.07
15 2 0.07
17 2 0.07
18 16 0.53
ACGTcount: A:0.25, C:0.33, G:0.30, T:0.12
Consensus pattern (18 bp):
AGCCGGAGCACTATCCGA
Found at i:33147989 original size:6 final size:6
Alignment explanation
Indices: 33147903--33147970 Score: 68
Period size: 6 Copynumber: 11.3 Consensus size: 6
33147893 ACTTTCAGCC
* * *
33147903 GCCTGA GCTTGA GCCTGA GCCTGA GCCTGA GCCGGA GCACT-A TCC-GAA
1 GCCTGA GCCTGA GCCTGA GCCTGA GCCTGA GCCTGA GC-CTGA GCCTG-A
*
33147951 GCCTGA GCCTGA GCCGGA GC
1 GCCTGA GCCTGA GCCTGA GC
33147971 ACTATCCGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
5 1 0.02
6 48 0.94
7 2 0.04
ACGTcount: A:0.19, C:0.32, G:0.34, T:0.15
Consensus pattern (6 bp):
GCCTGA
Found at i:33148635 original size:15 final size:15
Alignment explanation
Indices: 33148613--33148782 Score: 54
Period size: 14 Copynumber: 11.2 Consensus size: 15
33148603 CAAAACCTTG
33148613 AAAT-CTAAAACTTT
1 AAATCCTAAAACTTT
33148627 AAATCCT--AACTTT
1 AAATCCTAAAACTTT
*
33148640 AAA-CCTTAAACCCTAATT
1 AAATCC-TAAA-ACT--TT
* *
33148658 AAAACCCTTAAAATTTT
1 -AAATCC-TAAAACTTT
* * *
33148675 AAAACCTTAAATCCT-
1 AAATCC-TAAAACTTT
33148690 AAATCCTAAAATCTTT
1 AAATCCTAAAA-CTTT
*
33148706 AAA-CCATTAAAACATTA
1 AAATCC--TAAAAC-TTT
*
33148723 AAATCCT-AAACCTT
1 AAATCCTAAAACTTT
* *
33148737 AAA-CCTTAAACCTT
1 AAATCCTAAAACTTT
*
33148751 AAATCCT-AAACTCT
1 AAATCCTAAAACTTT
*
33148765 AAA-CCATAAAACTCT
1 AAATCC-TAAAACTTT
33148780 AAA
1 AAA
33148783 CTATAAAGCT
Statistics
Matches: 122, Mismatches: 15, Indels: 37
0.70 0.09 0.21
Matches are distributed among these distances:
12 2 0.02
13 15 0.12
14 31 0.25
15 29 0.24
16 18 0.15
17 12 0.10
18 4 0.03
19 4 0.03
20 7 0.06
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATCCTAAAACTTT
Found at i:33148648 original size:20 final size:19
Alignment explanation
Indices: 33148618--33148669 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
33148608 CCTTGAAATC
* *
33148618 TAAAACTTTAAATCCTAACT
1 TAAAACCTTAAACCCTAA-T
*
33148638 TTAAACCTTAAACCCTAAT
1 TAAAACCTTAAACCCTAAT
33148657 TAAAACCCTTAAA
1 TAAAA-CCTTAAA
33148670 ATTTTAAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAACCTTAAACCCTAAT
Found at i:33148684 original size:8 final size:8
Alignment explanation
Indices: 33148656--33148753 Score: 64
Period size: 7 Copynumber: 12.6 Consensus size: 8
33148646 TAAACCCTAA
33148656 TTAAAACCC
1 TTAAAA-CC
**
33148665 TTAAAATT
1 TTAAAACC
33148673 TTAAAACC
1 TTAAAACC
*
33148681 TTAAATCC
1 TTAAAACC
*
33148689 -TAAATCC
1 TTAAAACC
*
33148696 -TAAAATC
1 TTAAAACC
*
33148703 TTTAAACC
1 TTAAAACC
*
33148711 ATTAAAACA
1 -TTAAAACC
33148720 TTAAAATCC
1 TTAAAA-CC
33148729 -T-AAACC
1 TTAAAACC
33148735 TT-AAACC
1 TTAAAACC
33148742 TT-AAACC
1 TTAAAACC
33148749 TTAAA
1 TTAAA
33148754 TCCTAAACTC
Statistics
Matches: 72, Mismatches: 12, Indels: 11
0.76 0.13 0.12
Matches are distributed among these distances:
6 2 0.03
7 30 0.42
8 27 0.38
9 13 0.18
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (8 bp):
TTAAAACC
Found at i:33148700 original size:39 final size:38
Alignment explanation
Indices: 33148640--33148746 Score: 96
Period size: 39 Copynumber: 2.8 Consensus size: 38
33148630 TCCTAACTTT
* **
33148640 AAACCTTAAACCCT-AAT--TAAAACCCTTAAAATTTTA
1 AAACCTTAAATCCTAAATCCTAAAA-CCTTAAAACATTA
* *
33148676 AAACCTTAAATCCTAAATCCTAAAATCTTTAAACCATTA
1 AAACCTTAAATCCTAAATCCTAAAA-CCTTAAAACATTA
* *
33148715 AAACATTAAAATCCTAAA-CCTTAAACCTTAAA
1 AAACCTT-AAATCCTAAATCCTAAAACCTTAAA
33148747 CCTTAAATCC
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
36 13 0.22
37 3 0.05
38 6 0.10
39 26 0.45
40 10 0.17
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (38 bp):
AAACCTTAAATCCTAAATCCTAAAACCTTAAAACATTA
Found at i:33148741 original size:7 final size:7
Alignment explanation
Indices: 33148676--33148796 Score: 54
Period size: 7 Copynumber: 16.4 Consensus size: 7
33148666 TAAAATTTTA
33148676 AAACCTT
1 AAACCTT
33148683 AAATCC-T
1 AAA-CCTT
*
33148690 AAATCCTA
1 AAA-CCTT
*
33148698 AAATCTTT
1 AAA-CCTT
33148706 AAACCATT
1 AAACC-TT
*
33148714 AAAACATT
1 -AAACCTT
33148722 AAAATCC-T
1 -AAA-CCTT
33148730 AAACCTT
1 AAACCTT
33148737 AAACCTT
1 AAACCTT
33148744 AAACCTT
1 AAACCTT
33148751 AAATCC-T
1 AAA-CCTT
33148758 AAA-CTCT
1 AAACCT-T
*
33148765 AAACCAT
1 AAACCTT
*
33148772 AAAACTCT
1 AAACCT-T
33148780 AAA-CTAT
1 AAACCT-T
*
33148787 AAAGCTT
1 AAACCTT
33148794 AAA
1 AAA
33148797 AATTTAAAAC
Statistics
Matches: 92, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
5 1 0.01
6 2 0.02
7 55 0.60
8 29 0.32
9 5 0.05
ACGTcount: A:0.49, C:0.23, G:0.01, T:0.27
Consensus pattern (7 bp):
AAACCTT
Found at i:33148783 original size:15 final size:15
Alignment explanation
Indices: 33148758--33148789 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33148748 CTTAAATCCT
33148758 AAACTCTAAACCATA
1 AAACTCTAAACCATA
*
33148773 AAACTCTAAACTATA
1 AAACTCTAAACCATA
33148788 AA
1 AA
33148790 GCTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (15 bp):
AAACTCTAAACCATA
Found at i:33148796 original size:22 final size:21
Alignment explanation
Indices: 33148730--33148797 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
33148720 TTAAAATCCT
33148730 AAACCTTAAACCT-TAAACCTTA
1 AAACC-TAAA-CTATAAACCTTA
* * *
33148752 AATCCTAAACTCTAAACCATA
1 AAACCTAAACTATAAACCTTA
*
33148773 AAACTCTAAACTATAAAGCTTA
1 AAAC-CTAAACTATAAACCTTA
33148795 AAA
1 AAA
33148798 ATTTAAAACC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
20 2 0.05
21 15 0.39
22 21 0.55
ACGTcount: A:0.50, C:0.24, G:0.01, T:0.25
Consensus pattern (21 bp):
AAACCTAAACTATAAACCTTA
Found at i:33149487 original size:106 final size:106
Alignment explanation
Indices: 33149302--33149521 Score: 440
Period size: 106 Copynumber: 2.1 Consensus size: 106
33149292 CCCCTTCCCT
33149302 CTATCGGGGATGATGCAAATATTATCGTTATGAATAACATACCTCCGCAGGTTTGTCAAGAAGAC
1 CTATCGGGGATGATGCAAATATTATCGTTATGAATAACATACCTCCGCAGGTTTGTCAAGAAGAC
33149367 TTCCCATGATTCCATATCTTCTTTGTCCACAATAGCAAATG
66 TTCCCATGATTCCATATCTTCTTTGTCCACAATAGCAAATG
33149408 CTATCGGGGATGATGCAAATATTATCGTTATGAATAACATACCTCCGCAGGTTTGTCAAGAAGAC
1 CTATCGGGGATGATGCAAATATTATCGTTATGAATAACATACCTCCGCAGGTTTGTCAAGAAGAC
33149473 TTCCCATGATTCCATATCTTCTTTGTCCACAATAGCAAATG
66 TTCCCATGATTCCATATCTTCTTTGTCCACAATAGCAAATG
33149514 CTATCGGG
1 CTATCGGG
33149522 AGCACGTTTT
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 114 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (106 bp):
CTATCGGGGATGATGCAAATATTATCGTTATGAATAACATACCTCCGCAGGTTTGTCAAGAAGAC
TTCCCATGATTCCATATCTTCTTTGTCCACAATAGCAAATG
Found at i:33151673 original size:27 final size:27
Alignment explanation
Indices: 33151603--33151666 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
33151593 GGCTTGGTGT
33151603 CGCCTGTCAGGATGGCACATTCGATGC
1 CGCCTGTCAGGATGGCACATTCGATGC
33151630 CGCCTGTCAGGATGGCACATTCGATGC
1 CGCCTGTCAGGATGGCACATTCGATGC
*
33151657 CGCCTATCAG
1 CGCCTGTCAG
33151667 ATAGGCATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.19, C:0.31, G:0.28, T:0.22
Consensus pattern (27 bp):
CGCCTGTCAGGATGGCACATTCGATGC
Found at i:33155395 original size:29 final size:30
Alignment explanation
Indices: 33155345--33155403 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
33155335 AATTAGTAAA
* *
33155345 GATAAAATTATACTTGATCCC-TTAAAAAT
1 GATAAAATTATAATTGAACCCTTTAAAAAT
* *
33155374 GATAAAATTTTAATTTAACCCTTTAAAAAT
1 GATAAAATTATAATTGAACCCTTTAAAAAT
33155404 TGTACTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (30 bp):
GATAAAATTATAATTGAACCCTTTAAAAAT
Found at i:33162196 original size:40 final size:40
Alignment explanation
Indices: 33162136--33162236 Score: 141
Period size: 40 Copynumber: 2.5 Consensus size: 40
33162126 TTGCATTGGG
* * *
33162136 GAATATATTCCCTGACACACATTATTGCAAATTTGAAAGA
1 GAATTTATTCCCTGACACACATTAATACAAATTTGAAAGA
* *
33162176 GAATTTATTCCCTGACACACACTAATACAAATTTGAAAGG
1 GAATTTATTCCCTGACACACATTAATACAAATTTGAAAGA
*
33162216 GAATTTATTCCCTTA-ACACAT
1 GAATTTATTCCCTGACACACAT
33162237 ACAACTATGG
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 5 0.09
40 49 0.91
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.31
Consensus pattern (40 bp):
GAATTTATTCCCTGACACACATTAATACAAATTTGAAAGA
Found at i:33162699 original size:19 final size:19
Alignment explanation
Indices: 33162660--33162701 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
33162650 CCTTTGAAAA
* *
33162660 GACAATTCAGTAAGGATGT
1 GACAATTAAGTAAGGAGGT
*
33162679 GACAATTAAGTAAGTAGGT
1 GACAATTAAGTAAGGAGGT
33162698 GACA
1 GACA
33162702 CATGTCAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (19 bp):
GACAATTAAGTAAGGAGGT
Found at i:33164843 original size:37 final size:37
Alignment explanation
Indices: 33164802--33164898 Score: 99
Period size: 37 Copynumber: 2.6 Consensus size: 37
33164792 ACGTCGCTTC
* *
33164802 GTAGATCCAATAGATCATTTAT-TAAAGATGCCACCCT
1 GTAGATCCAATAGATCATTTATCT-AAGATACCACCAT
* * *
33164839 GTAGAGT-CACTAGATCATTTATCTAAGATATCACTAT
1 GTAGA-TCCAATAGATCATTTATCTAAGATACCACCAT
* *
33164876 GTAGAGCCAGTAGATCATTTATC
1 GTAGATCCAATAGATCATTTATC
33164899 CAACCAACTC
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
37 48 0.96
38 2 0.04
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (37 bp):
GTAGATCCAATAGATCATTTATCTAAGATACCACCAT
Found at i:33167451 original size:21 final size:21
Alignment explanation
Indices: 33167412--33167451 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
33167402 CTTACATTTT
*
33167412 TTAAAGTTAAAAGGCAAACCA
1 TTAAAGTTAAAAGGAAAACCA
33167433 TTAAA-TTAAAAGGTAAAAC
1 TTAAAGTTAAAAGG-AAAAC
33167452 TACGTCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (21 bp):
TTAAAGTTAAAAGGAAAACCA
Found at i:33167526 original size:28 final size:27
Alignment explanation
Indices: 33167495--33167554 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
33167485 TAAGAGGAAA
*
33167495 AATCATTATA-TTGTTTATGTAGTTAAAT
1 AATC-TTATACTTGTCTAT-TAGTTAAAT
*
33167523 AATCTTGTACTTTGTCTATTAGTTAAAT
1 AATCTTATAC-TTGTCTATTAGTTAAAT
33167551 AATC
1 AATC
33167555 GGTCTATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.14
28 17 0.61
29 7 0.25
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.48
Consensus pattern (27 bp):
AATCTTATACTTGTCTATTAGTTAAAT
Found at i:33176229 original size:28 final size:29
Alignment explanation
Indices: 33176174--33176233 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
33176164 ACAAGAGGAT
*
33176174 CAAATCAAAATTTTATGTAAAAATTTACA
1 CAAATCAAAATTTCATGTAAAAATTTACA
*
33176203 CAAATCAAAA-TTCATGTATACAA-TTACA
1 CAAATCAAAATTTCATGTA-AAAATTTACA
33176231 CAA
1 CAA
33176234 TAAACCGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 15 0.54
29 13 0.46
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.30
Consensus pattern (29 bp):
CAAATCAAAATTTCATGTAAAAATTTACA
Found at i:33177468 original size:57 final size:57
Alignment explanation
Indices: 33177406--33177521 Score: 178
Period size: 57 Copynumber: 2.0 Consensus size: 57
33177396 TTTACGTCCT
* * * *
33177406 GTATCACGTGGCTCAGCTCAAGGAGTATCGGAGAAAACTAGCGGGATTTGGGCCGGC
1 GTATCACGTGGCCCAGCTCAAGGAGTATCAGAGAAAACGAGCGGGATTAGGGCCGGC
* *
33177463 GTATCACGTGGCCCGGCTCAAGGAGTATCAGAGAAAACGAGCGGGATTAGGGCTGGC
1 GTATCACGTGGCCCAGCTCAAGGAGTATCAGAGAAAACGAGCGGGATTAGGGCCGGC
33177520 GT
1 GT
33177522 CCCCGGGAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.25, C:0.21, G:0.36, T:0.18
Consensus pattern (57 bp):
GTATCACGTGGCCCAGCTCAAGGAGTATCAGAGAAAACGAGCGGGATTAGGGCCGGC
Found at i:33180499 original size:6 final size:6
Alignment explanation
Indices: 33180490--33180515 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
33180480 ATCTGCATCC
33180490 GCAGGT GCAGGT GCAGGT GCAGGT GC
1 GCAGGT GCAGGT GCAGGT GCAGGT GC
33180516 CACCTTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.19, G:0.50, T:0.15
Consensus pattern (6 bp):
GCAGGT
Found at i:33182090 original size:3 final size:3
Alignment explanation
Indices: 33182082--33182135 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
33182072 TACATCCCAA
33182082 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33182130 AA- AAT A
1 AAT AAT A
33182136 GAATAGAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:33183206 original size:20 final size:20
Alignment explanation
Indices: 33183181--33183243 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
33183171 GTTTTTTGAA
33183181 AAAGTCAACGGTCAACGGTC
1 AAAGTCAACGGTCAACGGTC
33183201 AAAGTCAACGGTCAACGGTC
1 AAAGTCAACGGTCAACGGTC
*
33183221 AACAGTCAACGGTCAACAGTC
1 AA-AGTCAACGGTCAACGGTC
33183242 AA
1 AA
33183244 TCAACACCGG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
20 22 0.54
21 19 0.46
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.14
Consensus pattern (20 bp):
AAAGTCAACGGTCAACGGTC
Found at i:33183229 original size:21 final size:21
Alignment explanation
Indices: 33183183--33183262 Score: 110
Period size: 21 Copynumber: 3.9 Consensus size: 21
33183173 TTTTTGAAAA
33183183 AGTCAACGGTCAACGGTCAA-
1 AGTCAACGGTCAACGGTCAAC
33183203 AGTCAACGGTCAACGGTCAAC
1 AGTCAACGGTCAACGGTCAAC
*
33183224 AGTCAACGGTCAACAGTCAATC
1 AGTCAACGGTCAACGGTCAA-C
* *
33183246 A-ACACCGGTCAACGGTC
1 AGTCAACGGTCAACGGTC
33183263 GGTCAACGCC
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
20 20 0.37
21 32 0.59
22 2 0.04
ACGTcount: A:0.34, C:0.29, G:0.23, T:0.15
Consensus pattern (21 bp):
AGTCAACGGTCAACGGTCAAC
Found at i:33183262 original size:7 final size:7
Alignment explanation
Indices: 33183184--33183243 Score: 86
Period size: 7 Copynumber: 8.7 Consensus size: 7
33183174 TTTTGAAAAA
33183184 GTCAACG
1 GTCAACG
33183191 GTCAACG
1 GTCAACG
*
33183198 GTCAA-A
1 GTCAACG
33183204 GTCAACG
1 GTCAACG
33183211 GTCAACG
1 GTCAACG
*
33183218 GTCAACA
1 GTCAACG
33183225 GTCAACG
1 GTCAACG
*
33183232 GTCAACA
1 GTCAACG
33183239 GTCAA
1 GTCAA
33183244 TCAACACCGG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 5 0.11
7 42 0.89
ACGTcount: A:0.35, C:0.27, G:0.23, T:0.15
Consensus pattern (7 bp):
GTCAACG
Found at i:33183345 original size:15 final size:15
Alignment explanation
Indices: 33183325--33183354 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
33183315 TGGTTCATTT
33183325 GGTTTGGTTTAAATG
1 GGTTTGGTTTAAATG
33183340 GGTTTGGTTTAAATG
1 GGTTTGGTTTAAATG
33183355 AATTTGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (15 bp):
GGTTTGGTTTAAATG
Done.