Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 64 of 193
Found at i:20565886 original size:43 final size:43
Alignment explanation
Indices: 20565815--20566231 Score: 454
Period size: 43 Copynumber: 9.7 Consensus size: 43
20565805 AGAACATGAC
** * *
20565815 CTTTAGCGGCGC-TTACCCATAAGCGCCGCTGAAGGCCGTGTT
1 CTTTAGCGGCGCATTATTCACAAGCGCCGCTGAAGGCCATGTT
* * ** *
20565857 CTTTATCGACGCAGGATTAACAAGCGCCGCTGAAGGCCATGTT
1 CTTTAGCGGCGCATTATTCACAAGCGCCGCTGAAGGCCATGTT
* * * * *
20565900 CTTTAGCGGCACTTTCTCCAGAAGCGCCGCTGAAGGCCATGTT
1 CTTTAGCGGCGCATTATTCACAAGCGCCGCTGAAGGCCATGTT
*
20565943 CTTTAGCGGCGC-TTTTTCCACAAGCGCCGCTGAAGGCCATGTT
1 CTTTAGCGGCGCATTATT-CACAAGCGCCGCTGAAGGCCATGTT
* * *
20565986 CTTTAGCGGCGCTTTCTTCAGAAGCGCCGCTGAAGGCCATGTT
1 CTTTAGCGGCGCATTATTCACAAGCGCCGCTGAAGGCCATGTT
* * *
20566029 CTTCAGCGGCGC-TTCATCCAAAAGCGCCGCTGAAGGCCATGTT
1 CTTTAGCGGCGCATT-ATTCACAAGCGCCGCTGAAGGCCATGTT
* *
20566072 CTTTAGCGGTGC-TTTTTCCACAAGCGCCGCTGAAGGCCATGTT
1 CTTTAGCGGCGCATTATT-CACAAGCGCCGCTGAAGGCCATGTT
* * *
20566115 CTTTAGC-G-GCATTTTTTCCACAAGCGCCGCTGAAGGACATATT
1 CTTTAGCGGCGCA-TTATT-CACAAGCGCCGCTGAAGGCCATGTT
*
20566158 CTTTAGCGGCGC-TTTTTCCACAAGCGCCGCTGAAGGCCATGTT
1 CTTTAGCGGCGCATTATT-CACAAGCGCCGCTGAAGGCCATGTT
* *
20566201 CTTTAGCGGCAC-TTTTTCCACAAGCGCCGCT
1 CTTTAGCGGCGCATTATT-CACAAGCGCCGCT
20566232 AATATAACAG
Statistics
Matches: 327, Mismatches: 39, Indels: 17
0.85 0.10 0.04
Matches are distributed among these distances:
41 2 0.01
42 17 0.05
43 301 0.92
44 5 0.02
45 2 0.01
ACGTcount: A:0.19, C:0.29, G:0.25, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGCATTATTCACAAGCGCCGCTGAAGGCCATGTT
Found at i:20565943 original size:86 final size:87
Alignment explanation
Indices: 20565815--20566231 Score: 535
Period size: 86 Copynumber: 4.9 Consensus size: 87
20565805 AGAACATGAC
* * * * * **
20565815 CTTTAGCGGCGCTTAC-CCATAAGCGCCGCTGAAGGCCGTGTTCTTTATCGACGCAGGATT-AAC
1 CTTTAGCGGCGCTTTCTCCACAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCATTATTCAAC
20565878 AAGCGCCGCTGAAGGCCATGTT
66 AAGCGCCGCTGAAGGCCATGTT
* * * *
20565900 CTTTAGCGGCACTTTCTCCAGAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGC-TTTTTCCAC
1 CTTTAGCGGCGCTTTCTCCACAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCATTATTCAAC
20565964 AAGCGCCGCTGAAGGCCATGTT
66 AAGCGCCGCTGAAGGCCATGTT
* * * *
20565986 CTTTAGCGGCGCTTTCTTCAGAAGCGCCGCTGAAGGCCATGTTCTTCAGCGGCGC-TTCATCCAA
1 CTTTAGCGGCGCTTTCTCCACAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCATT-ATTCAA
20566050 -AAGCGCCGCTGAAGGCCATGTT
65 CAAGCGCCGCTGAAGGCCATGTT
* * * *
20566072 CTTTAGCGGTGCTTTTTCCACAAGCGCCGCTGAAGGCCATGTTCTTTAGC-G-GCATTTTTTCCA
1 CTTTAGCGGCGCTTTCTCCACAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCA-TTATTCAA
* *
20566135 CAAGCGCCGCTGAAGGACATATT
65 CAAGCGCCGCTGAAGGCCATGTT
* * * *
20566158 CTTTAGCGGCGCTTTTTCCACAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCAC-TTTTTCCAC
1 CTTTAGCGGCGCTTTCTCCACAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCATTATTCAAC
20566222 AAGCGCCGCT
66 AAGCGCCGCT
20566232 AATATAACAG
Statistics
Matches: 296, Mismatches: 28, Indels: 15
0.87 0.08 0.04
Matches are distributed among these distances:
84 2 0.01
85 20 0.07
86 269 0.91
87 4 0.01
88 1 0.00
ACGTcount: A:0.19, C:0.29, G:0.25, T:0.27
Consensus pattern (87 bp):
CTTTAGCGGCGCTTTCTCCACAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCATTATTCAAC
AAGCGCCGCTGAAGGCCATGTT
Found at i:20566011 original size:129 final size:129
Alignment explanation
Indices: 20565791--20566231 Score: 591
Period size: 129 Copynumber: 3.4 Consensus size: 129
20565781 GTTTATGCGA
* ** ** ** * *
20565791 AAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGC-TTACCCATAAGCGCCGCTGAAGGCCGTG
1 AAAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTTTCCACAAGCGCCGCTGAAGGCCATG
* * *** * *
20565855 TTCTTTATCGACGCAGGATTAACAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCACTTTCTCC
66 TTCTTTAGCGGCGCTTTATTCACAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTCTCC
*
20565919 AGAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTTTCCACAAGCGCCGCTGAAGGCCATG
1 AAAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTTTCCACAAGCGCCGCTGAAGGCCATG
* * *
20565984 TTCTTTAGCGGCGCTTTCTTCAGAAGCGCCGCTGAAGGCCATGTTCTTCAGCGGCGC-TTCATCC
66 TTCTTTAGCGGCGCTTTATTCACAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTC-TCC
*
20566048 AAAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGTGCTTTTTCCACAAGCGCCGCTGAAGGCCATG
1 AAAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTTTCCACAAGCGCCGCTGAAGGCCATG
* * * * *
20566113 TTCTTTAGCGGC-ATTTTTTCCACAAGCGCCGCTGAAGGACATATTCTTTAGCGGCGCTTTTTCC
66 TTCTTTAGCGGCGCTTTATT-CACAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTCTCC
* *
20566177 ACAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCACTTTTTCCACAAGCGCCGCT
1 AAAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTTTCCACAAGCGCCGCT
20566232 AATATAACAG
Statistics
Matches: 277, Mismatches: 32, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
128 38 0.14
129 237 0.86
130 2 0.01
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.26
Consensus pattern (129 bp):
AAAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTTTCCACAAGCGCCGCTGAAGGCCATG
TTCTTTAGCGGCGCTTTATTCACAAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTCTCC
Found at i:20566665 original size:66 final size:66
Alignment explanation
Indices: 20566559--20566706 Score: 210
Period size: 66 Copynumber: 2.2 Consensus size: 66
20566549 CTCGCTGCTG
*
20566559 CCTCCACTTTAAGTTGTATGTGGAGTTCTTCATATTTTTTTTGAGACTCTGCTTCTCTCACTGCA
1 CCTCCTCTTTAAGTTGTATGTGGAGTTCTTCATATTTTTTTTGAGACTCTGCTTCTCTCACTGCA
20566624 A
66 A
* * **
20566625 CCTCCTCTTTAAGTTTTA-GATGGAGTT-TATCATATTTTTTTTGAGCCTCTGCTTCTCTCGTTG
1 CCTCCTCTTTAAGTTGTATG-TGGAGTTCT-TCATATTTTTTTTGAGACTCTGCTTCTCTCACTG
*
20566688 CAG
64 CAA
20566691 CCTCCTCTTTAAGTTG
1 CCTCCTCTTTAAGTTG
20566707 AGCAATTTGC
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 2 0.03
66 71 0.97
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.45
Consensus pattern (66 bp):
CCTCCTCTTTAAGTTGTATGTGGAGTTCTTCATATTTTTTTTGAGACTCTGCTTCTCTCACTGCA
A
Found at i:20572188 original size:48 final size:48
Alignment explanation
Indices: 20572131--20572581 Score: 307
Period size: 48 Copynumber: 9.1 Consensus size: 48
20572121 TAATTAAATA
* *
20572131 ATTAGTTACTTTAATATCATTAAATAATTAAATCTTTTAACTTTATAT
1 ATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTTATAT
*
20572179 ATTATTTACTTTAATATAATTAAATAATTAAAT-ATTTAA-TTTAATAT
1 ATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTT-ATAT
* * *
20572226 AATTATTTACTTTAGTATAATTAAATGATTAAATCTTTTAACTTAATAT
1 -ATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTTATAT
*
20572275 AATCATTTACTTT-ATATAATTAAATAATTAAATCTTTTAAC-TTA-A-
1 -ATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTTATAT
* ** * * * *
20572320 A-TATTTAAC--TAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAA
1 ATTATTT-ACTTTAAT--ATAAT-TAAATAATTAAAT-C-T--TTTAACTTTA-TAT
* * * * * *
20572374 ATAATTTAATATAATCATTTAGTTTAATATAATTAAATAATTATATCTTTTAAATTAATAT
1 ATTATTTACTTTAAT-A--TA-ATTAA-ATAA-T---T-A--A-ATCTTTTAACTTTATAT
* *
20572435 ACTATTTACTTTAATATAATTAAATAATTAAAT-ATTTAA-TTTAATAT
1 ATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTT-ATAT
* * *
20572482 AATTATTTACTTTAGTATAATTAAATGATTAAATCTTTTAACTTAATAT
1 -ATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTTATAT
* * *
20572531 AATCATTTACTTTAATATAATTAAATAATTAAATC-GTTAAC-TTAAAT
1 -ATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTTATAT
20572578 ATTA
1 ATTA
20572582 ACTAATCGAT
Statistics
Matches: 320, Mismatches: 47, Indels: 74
0.73 0.11 0.17
Matches are distributed among these distances:
42 1 0.00
43 6 0.02
44 3 0.01
45 4 0.01
46 20 0.06
47 25 0.08
48 126 0.39
49 63 0.20
50 9 0.03
51 3 0.01
52 1 0.00
53 1 0.00
54 2 0.01
55 6 0.02
56 8 0.03
57 7 0.02
58 7 0.02
59 1 0.00
60 1 0.00
61 13 0.04
62 7 0.02
63 1 0.00
64 1 0.00
65 2 0.01
66 2 0.01
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.47
Consensus pattern (48 bp):
ATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTTATAT
Found at i:20572232 original size:18 final size:18
Alignment explanation
Indices: 20572166--20572248 Score: 65
Period size: 18 Copynumber: 5.0 Consensus size: 18
20572156 AATTAAATCT
20572166 TTTAACTTT-ATAT-ATTA
1 TTTAA-TTTAATATAATTA
*
20572183 TTTACTTTAATATAATTA
1 TTTAATTTAATATAATTA
*
20572201 ---AA--TAAT-TAAATA
1 TTTAATTTAATATAATTA
20572213 TTTAATTTAATATAATTA
1 TTTAATTTAATATAATTA
* *
20572231 TTTACTTTAGTATAATTA
1 TTTAATTTAATATAATTA
20572249 AATGATTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
12 5 0.10
13 4 0.08
15 3 0.06
16 3 0.06
17 12 0.23
18 25 0.48
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (18 bp):
TTTAATTTAATATAATTA
Found at i:20572488 original size:18 final size:18
Alignment explanation
Indices: 20572375--20572553 Score: 79
Period size: 18 Copynumber: 10.9 Consensus size: 18
20572365 CATGATTAAA
*
20572375 TAATTTAATATAATCATT
1 TAATTTAATATAATTATT
* **
20572393 TAGTTTAATATAATTAAA
1 TAATTTAATATAATTATT
*
20572411 TAA-TT-ATAT--CT-TT
1 TAATTTAATATAATTATT
* *
20572424 TAAATTAATAT-ACTATT
1 TAATTTAATATAATTATT
*
20572441 TACTTTAATATAATTA--
1 TAATTTAATATAATTATT
*
20572457 -AA--TAAT-TAAATATT
1 TAATTTAATATAATTATT
20572471 TAATTTAATATAATTATT
1 TAATTTAATATAATTATT
* *
20572489 TACTTTAGTATAATTA--
1 TAATTTAATATAATTATT
* *
20572505 -AA-TGATTA-AATCT-TT
1 TAATTTAATATAAT-TATT
* *
20572520 TAACTTAATATAATCATT
1 TAATTTAATATAATTATT
*
20572538 TACTTTAATATAATTA
1 TAATTTAATATAATTA
20572554 AATAATTAAA
Statistics
Matches: 118, Mismatches: 25, Indels: 36
0.66 0.14 0.20
Matches are distributed among these distances:
12 5 0.04
13 10 0.08
14 8 0.07
15 8 0.07
16 8 0.07
17 21 0.18
18 58 0.49
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (18 bp):
TAATTTAATATAATTATT
Found at i:20572577 original size:256 final size:257
Alignment explanation
Indices: 20572115--20573268 Score: 1063
Period size: 256 Copynumber: 4.6 Consensus size: 257
20572105 TATGGTTACT
* * * * *
20572115 TTAATATAA-TTAA-ATAATTAGTTACTTTAATATCATTAAATAATTAAATCTTTTAACTTTATA
1 TTAA-ATAATTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATA
20572178 TATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTACTTTAGTA
65 TATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTACTTTAGTA
20572243 TAATTAAATGATTAAATCTTTTAACTTAATATAATCATTTACTTT-ATATAATTAAATAATTAAA
130 TAATTAAATGATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAA
*
20572307 TCTTTTAACTTAAATATTTAACTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGA
195 TCTTTTAACTTAAATATTTAACTAATCGATAGTATTTATAATTAAATACATAATTAAACATGA
* *
20572370 TTAAATAATTTAATATAATCATTTAGTTTAATATAATTAAATAATTATATCTTTTAAATTAATAT
1 TTAAATAATTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATAT
*
20572435 ACTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTACTTTAGTAT
66 ATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTACTTTAGTAT
20572500 AATTAAATGATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAAT
131 AATTAAATGATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAAT
*
20572565 C-GTTAACTTAAATA-TTAACTAATCGATAGTATTTATAAATTAAATACATAATTAAACATGA
196 CTTTTAACTTAAATATTTAACTAATCGATAGTATTTAT-AATTAAATACATAATTAAACATGA
* *
20572626 TTAAATAATTTAATATAATCATTTAGTTTAATATAATTAAATAATTATATCTTTTAAATTAATAT
1 TTAAATAATTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATAT
* ** * *
20572691 AATTATTTAATTTAATATAATTATTTAATTTAATA--TAA-TTAA-ATAATTAAATT--TTT--T
66 -ATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATT-ATTTACTTTAGT
* * * ** * * * * *
20572748 A-ACTT-AAT-A-T-AATCATTT-ACTTTAATATAATTAAATAATTAAATCT-TTTAACTTAA-T
129 ATAATTAAATGATTAAATCTTTTAAC-TTAATATAATCATTTACTTTAATATAATTAA-ATAATT
* * * * * * *
20572805 ATAATCATTT-ACTTAATATAATTAAATAAT-TA-AATCTTT-TAACTTAATATA-ATTAA--AT
192 A-AATCTTTTAACTTAA-ATATTTAACTAATCGATAGTATTTATAA-TTAA-ATACA-TAATTAA
*
20572863 A-ATTA
252 ACATGA
*** * *
20572868 TTTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTT-A-AT
1 TTAAATAATTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATAT
* * * *
20572931 A-TA---A--TTAA-AT-ATT--A-AA-T--CT-TTTAACTTAATATAATCATTTACTTTAATAT
66 ATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTACTTTAGTAT
*
20572981 AATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAAT
131 AATTAAATGATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAAT
* * * * * * *
20573046 CTTTTACCTTAAATATAATTAAATAAT-TA-AATCTTT-TAACTTAATATA-ATCATT-TAC-T-
196 CTTTTAACTTAAATAT--TTAACTAATCGATAGTATTTATAA-TTAA-ATACATAATTAAACATG
20573104 -
257 A
* * * ** * * * *
20573104 TTAATATAATTAAATAATTAAATCTTTTAAC-TTAATATAATCATTTACTTTAATATAATTAAA-
1 TTAA-ATAATTTAAT-A-T-AATCATTT-ACTTTAATATAATTAAATAATTAAATCT-TTTAAAT
* * * * *
20573167 TAATTAAATCT-TTTAACTTAAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTT
60 TAA-TATAT-TATTT-ACTTTAATATAATTAAATAATTAAAT-ATTTAATTTAATATAATTATTT
* * *
20573231 ACTTTAATATAATTAAATAATTAAATCTTTTACCTTAA
121 ACTTTAGTATAATTAAATGATTAAATCTTTTAACTTAA
20573269 ATATTTAATT
Statistics
Matches: 759, Mismatches: 76, Indels: 123
0.79 0.08 0.13
Matches are distributed among these distances:
225 1 0.00
226 3 0.00
227 8 0.01
228 7 0.01
229 3 0.00
231 5 0.01
232 5 0.01
233 7 0.01
234 1 0.00
235 2 0.00
236 41 0.05
237 22 0.03
238 37 0.05
239 2 0.00
240 29 0.04
241 8 0.01
242 56 0.07
243 6 0.01
244 14 0.02
245 51 0.07
246 7 0.01
247 9 0.01
248 4 0.01
249 3 0.00
250 5 0.01
251 2 0.00
252 6 0.01
253 6 0.01
254 12 0.02
255 34 0.04
256 254 0.33
257 50 0.07
258 1 0.00
260 58 0.08
ACGTcount: A:0.45, C:0.06, G:0.01, T:0.47
Consensus pattern (257 bp):
TTAAATAATTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATAT
ATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTACTTTAGTAT
AATTAAATGATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAAT
CTTTTAACTTAAATATTTAACTAATCGATAGTATTTATAATTAAATACATAATTAAACATGA
Found at i:20572579 original size:49 final size:49
Alignment explanation
Indices: 20572136--20573194 Score: 628
Period size: 49 Copynumber: 20.9 Consensus size: 49
20572126 AAATAATTAG
* * *
20572136 TTACTTTAATATCATTAAATAATTAAATCTTTTAACTTTATAT-ATTAT
1 TTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCAT
* * *
20572184 TTACTTTAATATAATTAAATAATTAAAT-ATTTAATTTAATATAATTAT
1 TTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCAT
* *
20572232 TTACTTTAGTATAATTAAATGATTAAATCTTTTAACTTAATATAATCAT
1 TTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCAT
*
20572281 TTACTTT-ATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAACTAAT
1 TTACTTTAATATAATTAAATAATTAAATCTTTTAACTT-AATA--TAA-TCAT
* * * * * *
20572333 CGATAGTGTTTATAATTAAATACATAATTAAA-CATGATTAAATAATTTAATATAATCAT
1 --TTACT-TTAAT-A-TAATTAAATAATTAAATC-T--TT---TAACTTAATATAATCAT
* * * *
20572392 TTAGTTTAATATAATTAAATAATTATATCTTTTAAATTAATATACT-AT
1 TTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCAT
* * *
20572440 TTACTTTAATATAATTAAATAATTAAAT-ATTTAATTTAATATAATTAT
1 TTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCAT
* *
20572488 TTACTTTAGTATAATTAAATGATTAAATCTTTTAACTTAATATAATCAT
1 TTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCAT
*
20572537 TTACTTTAATATAATTAAATAATTAAATC-GTTAACTTAAATATTAACTAATCGAT
1 TTACTTTAATATAATTAAATAATTAAATCTTTTAACTT--A-A-T-A-TAATC-AT
* * * * *
20572592 AGTA-TTTATAAATTAAATACATAATTAAA-CATGATTAAATAATTTAATATAATCAT
1 -TTACTTTA-ATA-TAATTAAATAATTAAATC-T--TT---TAACTTAATATAATCAT
* * * *
20572648 TTAGTTTAATATAATTAAATAATTATATCTTTTAAATTAATATAATTAT
1 TTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCAT
* ** * * * * **
20572697 TTAATTTAATATAATTATTTAATTTAATATAATTAA-ATAAT-TAAATTTT
1 TTACTTTAATATAATTAAATAATTAAATCT-TTTAACTTAATAT-AATCAT
* ** * * * * * *
20572746 TTAAC-TTAATATAATCATTTACTTTAATATAATTAA-ATAAT-TAAATCTT
1 TT-ACTTTAATATAATTAAATAATTAAATCT-TTTAACTTAATAT-AATCAT
* ** * ** * *
20572795 TTAAC-TTAATATAATCATTTACTTAATAT-AATTAA-ATAAT-TAAATCTT
1 TT-ACTTTAATATAATTAAATAATTAA-ATCTTTTAACTTAATAT-AATCAT
*
20572843 TTAAC-TTAATATAATTAAATAATT--ATTTTTTAACTTAATATAATCAT
1 TT-ACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCAT
* *
20572890 TTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTAA
1 TTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCAT
* * * * * * * *
20572939 ATA-TTAAATCT-TTTAACTTAA-TATAATCATTT-ACTTTAATATAATTAA
1 TTACTTTAATATAATTAA-ATAATTA-AATCTTTTAAC-TTAATATAATCAT
* * * * * * * *
20572987 ATAATTAAATCT-TTTAACTTAA-TATAATCATTT-ACTTTAATATAATTAAAT
1 TTACTTTAATATAATTAA-ATAATTA-AATCTTTTAAC-TTAATATAA-T-CAT
* *
20573038 AATTAAATCTTTTACCT-TAAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCAT
1 --TT--A-C-TTTA-ATAT-AAT-TAA--ATA--ATTAAATCTTTTAACTTAATATAATCAT
20573099 TTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCAT
1 TTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCAT
20573148 TTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATAAT
1 TTACTTTAATATAATTAAATAATTAAATCTTTTAACTT-AATATAAT
20573195 TAAATAATTA
Statistics
Matches: 841, Mismatches: 97, Indels: 144
0.78 0.09 0.13
Matches are distributed among these distances:
45 2 0.00
46 6 0.01
47 63 0.07
48 221 0.26
49 329 0.39
50 17 0.02
51 7 0.01
52 8 0.01
53 5 0.01
54 40 0.05
55 21 0.02
56 18 0.02
57 30 0.04
58 17 0.02
59 7 0.01
60 10 0.01
61 4 0.00
62 5 0.01
63 27 0.03
64 4 0.00
ACGTcount: A:0.45, C:0.06, G:0.01, T:0.47
Consensus pattern (49 bp):
TTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCAT
Found at i:20572604 original size:97 final size:96
Alignment explanation
Indices: 20572401--20573045 Score: 315
Period size: 97 Copynumber: 6.7 Consensus size: 96
20572391 TTTAGTTTAA
* *
20572401 TATAATTAAATAATTATATCTTTTAAATTAATATACTATTTACTTTAATATAATTAAATAATTAA
1 TATAATTAAATAATTAAATCTTTTAAATTAATATAATATTTACTTTAATATAATTAAATAATTAA
* * * * **
20572466 ATATTTAATTTAATATAATTATTTACTTTAG
66 ATAGTTAATTAAATATAACTATATACGATAG
* *
20572497 TATAATTAAATGATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTA
1 TATAATTAAATAATTAAATCTTTTAAATTAATATAAT-ATTTACTTTAATATAATTAAATAATTA
*
20572562 AATCGTTAACTTAAATATTAACTA-AT-CGATAG
65 AATAGTTAA-TTAAATA-TAACTATATACGATAG
* * * * * * ** *
20572594 TAT--TTATA-AATTAAATACATAATTAAACATGAT-TAA-A--TAATTTAATATAATCATTTAG
1 TATAATTAAATAATTAAAT-C-T-TTTAAA-TTAATATAATATTTACTTTAATATAATTAAATAA
* * **
20572652 TTTAATA--TAATT-AA-ATAATTATAT-C--TTT
62 TTAAATAGTTAATTAAATATAACTATATACGATAG
* *
20572680 TA-AATT-AAT-A-T-AAT-TATTTAATTTAATATAATTATTTAATTTAATATAATTAAATAATT
1 TATAATTAAATAATTAAATCT-TTTAAATTAATATAA-TATTTACTTTAATATAATTAAATAATT
** * ** *
20572739 AAATTTTTTAACTT-AATATAA-TCATTTACTTTAA
64 AAA-TAGTTAA-TTAAATATAACT-ATATACGATAG
*
20572773 TATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTAC-TTAATATAATTAAATAATTA
1 TATAATTAAATAATTAAATCTTTTAAATTAATATAAT-ATTTACTTTAATATAATTAAATAATTA
** * * ** **
20572837 AATCTTTTAACTT-AATATAATTAAATAATTATTT
65 AAT-AGTTAA-TTAAATATAACTATAT-ACGATAG
* * ** *
20572871 TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC-TTAATATAA
1 TATAA-TTAA-ATAATTAAAT-CTTT--TA-AATT-AAT-A-T-AAT-ATTT-ACTTTAATATAA
** * ** *
20572935 TTAAAT-ATTAAATCTTTTAACTT-AATATAA-TCATTTACTTTAA
54 TTAAATAATTAAAT-AGTTAA-TTAAATATAACT-ATATACGATAG
*
20572978 TATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTA
1 TATAATTAAATAATTAAATCTTTTAAATTAATATAAT-ATTTACTTTAATATAATTAAATAATTA
20573043 AAT
65 AAT
20573046 CTTTTACCTT
Statistics
Matches: 433, Mismatches: 67, Indels: 96
0.73 0.11 0.16
Matches are distributed among these distances:
80 3 0.01
81 9 0.02
83 1 0.00
84 3 0.01
85 22 0.05
86 6 0.01
87 7 0.02
88 7 0.02
89 7 0.02
90 9 0.02
91 4 0.01
93 24 0.06
94 11 0.03
95 9 0.02
96 38 0.09
97 112 0.26
98 48 0.11
99 11 0.03
100 10 0.02
101 7 0.02
102 2 0.00
103 2 0.00
104 7 0.02
105 10 0.02
106 5 0.01
107 9 0.02
108 33 0.08
109 17 0.04
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.47
Consensus pattern (96 bp):
TATAATTAAATAATTAAATCTTTTAAATTAATATAATATTTACTTTAATATAATTAAATAATTAA
ATAGTTAATTAAATATAACTATATACGATAG
Found at i:20572657 original size:18 final size:18
Alignment explanation
Indices: 20572631--20572826 Score: 104
Period size: 18 Copynumber: 11.8 Consensus size: 18
20572621 CATGATTAAA
20572631 TAATTTAATATAATCATT
1 TAATTTAATATAATCATT
*
20572649 TAGTTTAATAT-A--A-T
1 TAATTTAATATAATCATT
* *
20572663 TAA-ATAAT-TATATCTTT
1 TAATTTAATATA-ATCATT
* *
20572680 TAAATTAATATAATTATT
1 TAATTTAATATAATCATT
*
20572698 TAATTTAATATAATTATT
1 TAATTTAATATAATCATT
* **
20572716 TAATTTAATATAATTAAA
1 TAATTTAATATAATCATT
*
20572734 TAA-TTAA-AT--T-TTT
1 TAATTTAATATAATCATT
*
20572747 TAACTTAATATAATCATT
1 TAATTTAATATAATCATT
*
20572765 TACTTTAATAT-A--A-T
1 TAATTTAATATAATCATT
* *
20572779 TAA-ATAAT-TAAATCTTT
1 TAATTTAATAT-AATCATT
*
20572796 TAACTTAATATAATCATT
1 TAATTTAATATAATCATT
*
20572814 T-ACTTAATATAAT
1 TAATTTAATATAAT
20572827 TAAATAATTA
Statistics
Matches: 138, Mismatches: 21, Indels: 39
0.70 0.11 0.20
Matches are distributed among these distances:
12 2 0.01
13 11 0.08
14 13 0.09
15 4 0.03
16 2 0.01
17 27 0.20
18 76 0.55
19 3 0.02
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.49
Consensus pattern (18 bp):
TAATTTAATATAATCATT
Found at i:20572691 original size:31 final size:31
Alignment explanation
Indices: 20572653--20572760 Score: 108
Period size: 31 Copynumber: 3.3 Consensus size: 31
20572643 ATCATTTAGT
*
20572653 TTAATATAATTAAATAATTATATCTTTTAAA
1 TTAATATAATTAAATAATTATATCTTTTAAC
** * *
20572684 TTAATATAATTATTTAATTTAATATAATTATTTAAT
1 TTAATATAATTAAATAA-TT-ATAT--CT-TTTAAC
* *
20572720 TTAATATAATTAAATAATTAAATTTTTTAAC
1 TTAATATAATTAAATAATTATATCTTTTAAC
20572751 TTAATATAAT
1 TTAATATAAT
20572761 CATTTACTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
31 30 0.47
32 4 0.06
33 4 0.06
34 3 0.05
35 3 0.05
36 20 0.31
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (31 bp):
TTAATATAATTAAATAATTATATCTTTTAAC
Found at i:20572850 original size:31 final size:29
Alignment explanation
Indices: 20572815--20573225 Score: 177
Period size: 23 Copynumber: 15.4 Consensus size: 29
20572805 ATAATCATTT
20572815 ACTTAATATAATTAAATAATTAAATCTTTTA
1 ACTTAATATAATTAAATAATT--ATCTTTTA
*
20572846 ACTTAATATAATTAAATAATTATTTTTTA
1 ACTTAATATAATTAAATAATTATCTTTTA
*
20572875 ACTTAATATAA-T-CAT--TTA-C-TTTA
1 ACTTAATATAATTAAATAATTATCTTTTA
* *
20572898 A-TATAAT-TAAATAATTAA--ATCTTTTA
1 ACT-TAATATAATTAAATAATTATCTTTTA
20572924 ACTTAATATAATTAAAT-ATTAAATCTTTTA
1 ACTTAATATAATTAAATAATT--ATCTTTTA
*
20572954 ACTTAATATAA-T-CAT--TTA-C-TTTA
1 ACTTAATATAATTAAATAATTATCTTTTA
* *
20572977 A-TATAAT-TAAATAATTAA--ATCTTTTA
1 ACT-TAATATAATTAAATAATTATCTTTTA
*
20573003 ACTTAATATAA-T-CAT--TTA-C-TTTA
1 ACTTAATATAATTAAATAATTATCTTTTA
* *
20573026 A-TATAAT-TAAATAATTAA--ATCTTTTA
1 ACT-TAATATAATTAAATAATTATCTTTTA
*
20573052 CCTTAAATATAATTAAATAATTAAATCTTTTA
1 ACTT-AATATAATTAAATAATT--ATCTTTTA
*
20573084 ACTTAATATAA-T-CAT--TTA-C-TTTA
1 ACTTAATATAATTAAATAATTATCTTTTA
* *
20573107 A-TATAAT-TAAATAATTAA--ATCTTTTA
1 ACT-TAATATAATTAAATAATTATCTTTTA
*
20573133 ACTTAATATAA-T-CAT--TTA-C-TTTA
1 ACTTAATATAATTAAATAATTATCTTTTA
* *
20573156 A-TATAAT-TAAATAATTAA--ATCTTTTA
1 ACT-TAATATAATTAAATAATTATCTTTTA
20573182 ACTTAAATATAATTAAATAATTAAATCTTTTA
1 ACTT-AATATAATTAAATAATT--ATCTTTTA
20573214 ACTTAATATAAT
1 ACTTAATATAAT
20573226 CATTTACTTT
Statistics
Matches: 290, Mismatches: 27, Indels: 126
0.65 0.06 0.28
Matches are distributed among these distances:
22 20 0.07
23 50 0.17
24 14 0.05
25 14 0.05
26 41 0.14
27 30 0.10
28 21 0.07
29 21 0.07
30 20 0.07
31 36 0.12
32 23 0.08
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (29 bp):
ACTTAATATAATTAAATAATTATCTTTTA
Found at i:20572865 original size:79 final size:80
Alignment explanation
Indices: 20572769--20573095 Score: 486
Period size: 79 Copynumber: 4.1 Consensus size: 80
20572759 ATCATTTACT
20572769 TTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTAC-TTAATATAATTAAATA
1 TTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATA
20572833 ATTAAATCTTTTAAC
66 ATTAAATCTTTTAAC
*
20572848 TTAATATAATTAAATAATT--ATTTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATA
1 TTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATA
20572911 ATTAAATCTTTTAAC
66 ATTAAATCTTTTAAC
20572926 TTAATATAATTAAAT-ATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATA
1 TTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATA
20572990 ATTAAATCTTTTAAC
66 ATTAAATCTTTTAAC
* ** * * * * * * *
20573005 TTAATATAATCATTTACTTTAATATAATTAA-ATAAT-TAAATCTTTTACCTTAAATATAATTAA
1 TTAATATAATTAAATAATTAAATCT-TTTAACTTAATAT-AATCATTTA-CTTTAATATAATTAA
20573068 ATAATTAAATCTTTTAAC
63 ATAATTAAATCTTTTAAC
20573086 TTAATATAAT
1 TTAATATAAT
20573096 CATTTACTTT
Statistics
Matches: 229, Mismatches: 12, Indels: 12
0.91 0.05 0.05
Matches are distributed among these distances:
77 29 0.13
78 46 0.20
79 90 0.39
80 18 0.08
81 46 0.20
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (80 bp):
TTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATA
ATTAAATCTTTTAAC
Found at i:20572947 original size:30 final size:31
Alignment explanation
Indices: 20572895--20572965 Score: 135
Period size: 30 Copynumber: 2.3 Consensus size: 31
20572885 ATCATTTACT
20572895 TTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTAAATAATTAAATCTTTTAAC
20572926 TTAATATAATTAAAT-ATTAAATCTTTTAAC
1 TTAATATAATTAAATAATTAAATCTTTTAAC
20572956 TTAATATAAT
1 TTAATATAAT
20572966 CATTTACTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 25 0.62
31 15 0.38
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (31 bp):
TTAATATAATTAAATAATTAAATCTTTTAAC
Found at i:20573111 original size:81 final size:79
Alignment explanation
Indices: 20572486--20573281 Score: 444
Period size: 81 Copynumber: 10.3 Consensus size: 79
20572476 TAATATAATT
* *
20572486 ATTTACTTTAGTATAATTAAATGATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAA
1 ATTTAC-TTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAA
20572551 TTAAATAATTAAATC
65 TTAAATAATTAAATC
* * * * * * * * *
20572566 GTTAACTTAA-AT-ATTAACTAATCGATAGTATTTATAAATTAA-ATACATAATTAAACATGATT
1 ATTTACTTAATATAATTAAATAAT-TA-AATCTTT-TAACTTAATATA-ATCATT-TAC-T--TT
*
20572628 AA-ATAATTTAAT-A-T-AATC
58 AATATAATTAAATAATTAAATC
* * * * *
20572646 ATTTAGTTTAATATAATTAAATAATTATATCTTTTAAATTAATATAATTATTTAATTTAATATAA
1 ATTTA-CTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAA
20572711 TT--AT--TT--A--
65 TTAAATAATTAAATC
*
20572718 A--T--TTAATATAATTAAATAATTAAATTTTTTAACTTAATATAATCATTTACTTTAATATAAT
1 ATTTACTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAAT
20572779 TAAATAATTAAATC
66 TAAATAATTAAATC
* * ** * ** * *
20572793 TTTTAACTTAATATAATCATTTACTTAATAT-AATTAA-ATAAT-TAAATCTTTTAAC-TTAATA
1 ATTT-ACTTAATATAATTAAATAATTAA-ATCTTTTAACTTAATAT-AATCATTT-ACTTTAATA
*
20572854 TAATTAAATAATT--ATT
62 TAATTAAATAATTAAATC
* * ** * * * * * *
20572870 TTTTAACTTAATATAATCATTTACTTTAATATAATTAA-ATAAT-TAAATCTTTTAAC-TTAATA
1 ATTT-ACTTAATATAATTAAATAATTAAATCT-TTTAACTTAATAT-AATCATTT-ACTTTAATA
20572932 TAATTAAAT-ATTAAATC
62 TAATTAAATAATTAAATC
* * ** * * * * * *
20572949 TTTTAACTTAATATAATCATTTACTTTAATATAATTAA-ATAAT-TAAATCTTTTAAC-TTAATA
1 ATTT-ACTTAATATAATTAAATAATTAAATCT-TTTAACTTAATAT-AATCATTT-ACTTTAATA
*
20573011 TAA-T-CAT--TT--A-C
62 TAATTAAATAATTAAATC
* * ** * * * *
20573022 ---T--TTAATATAATTAAATAATTAAATCTTTTACCTTAAATATAATTAAATAATTAAATCT-T
1 ATTTACTTAATATAATTAAATAATTAAATCTTTTAACTT-AATATAATCATTTACTTTAATATAA
*
20573081 TTAACTTAA-TATAATC
65 TTAA-ATAATTA-AATC
20573097 ATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAA
1 ATTTAC-TTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAA
20573162 TTAAATAATTAAATC
65 TTAAATAATTAAATC
*
20573177 TTTTAACTTAAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATA
1 ATTT-ACTT-AATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATA
20573242 ATTAAATAATTAAATC
64 ATTAAATAATTAAATC
* * *
20573258 TTTTACCTTAA-ATATTTAATTAAT
1 ATTTA-CTTAATATAATTAAATAAT
20573282 CGATAGTGTT
Statistics
Matches: 585, Mismatches: 73, Indels: 117
0.75 0.09 0.15
Matches are distributed among these distances:
66 3 0.01
67 76 0.13
68 13 0.02
69 3 0.01
70 3 0.01
71 3 0.01
72 1 0.00
73 2 0.00
74 3 0.01
75 4 0.01
76 8 0.01
77 49 0.08
78 45 0.08
79 120 0.21
80 91 0.16
81 134 0.23
82 5 0.01
83 18 0.03
84 4 0.01
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.47
Consensus pattern (79 bp):
ATTTACTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAAT
TAAATAATTAAATC
Found at i:20573129 original size:130 final size:129
Alignment explanation
Indices: 20572696--20573268 Score: 917
Period size: 130 Copynumber: 4.5 Consensus size: 129
20572686 AATATAATTA
* * * *
20572696 TTTAATTTAATATAATTATTTAATTTAATATAATTAAATAATTAAATTTTTTAACTTAATATAAT
1 TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAAT
* ** * *
20572761 CATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTAATAT-A
66 CATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTAAATAATTAA-ATCT
* * * *
20572825 ATTAA-ATAAT-TAAATCTTTTAAC-TTAATATAATTAAATAATT--ATTTTTTAACTTAATATA
1 TTTAACTTAATAT-AATCATTT-ACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATA
20572885 ATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTAAAT-ATTAAATC
64 ATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTAAATAATTAAATC
20572949 T
129 T
20572950 TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAAT
1 TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAAT
*
20573015 CATTTACTTTAATATAATTAAATAATTAAATCTTTTACCTTAAATATAATTAAATAATTAAATCT
66 CATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTT-AATATAATTAAATAATTAAATCT
20573080 TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAAT
1 TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAAT
20573145 CATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATAATTAAATAATTAAATCT
66 CATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTT-AATATAATTAAATAATTAAATCT
*
20573210 TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTACCTTAA
1 TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAA
20573269 ATATTTAATT
Statistics
Matches: 417, Mismatches: 17, Indels: 19
0.92 0.04 0.04
Matches are distributed among these distances:
124 2 0.00
125 10 0.02
126 101 0.24
127 2 0.00
128 88 0.21
129 18 0.04
130 196 0.47
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (129 bp):
TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAAT
CATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTAAATAATTAAATCT
Found at i:20573259 original size:49 final size:50
Alignment explanation
Indices: 20573173--20573268 Score: 158
Period size: 49 Copynumber: 1.9 Consensus size: 50
20573163 TAAATAATTA
*
20573173 AATCTTTTAACTTAAATATAATTAAATAATTAAATCTTTTAACTTAATAT
1 AATCATTTAACTTAAATATAATTAAATAATTAAATCTTTTAACTTAATAT
* *
20573223 AATCATTT-ACTTTAATATAATTAAATAATTAAATCTTTTACCTTAA
1 AATCATTTAACTTAAATATAATTAAATAATTAAATCTTTTAACTTAA
20573269 ATATTTAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
49 36 0.84
50 7 0.16
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.46
Consensus pattern (50 bp):
AATCATTTAACTTAAATATAATTAAATAATTAAATCTTTTAACTTAATAT
Found at i:20573339 original size:18 final size:18
Alignment explanation
Indices: 20573318--20573369 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
20573308 ATTAAACATG
20573318 ATTAAATAATTTAATATA
1 ATTAAATAATTTAATATA
** *
20573336 ATTATTTAGTTTAATATA
1 ATTAAATAATTTAATATA
20573354 ATTAAATAATTATAAT
1 ATTAAATAATT-TAAT
20573370 CAAGCTGATA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
ATTAAATAATTTAATATA
Found at i:20577947 original size:42 final size:41
Alignment explanation
Indices: 20577821--20578388 Score: 384
Period size: 41 Copynumber: 13.8 Consensus size: 41
20577811 TTTAAATAAA
** * *
20577821 TTAGCGGCGC-TTATGGGAAAGCGCCGCTAAT-TCAC-ACCT
1 TTAGCGGCGCTTTA-GATAAAGCGCCGCTAATGACCCGACCT
* ** * *
20577860 TTAGCGACGCTTATTTATAAAAGCGCCGCTAATAACCTGACCT
1 TTAGCGGCGCTT-TAGAT-AAAGCGCCGCTAATGACCCGACCT
* *
20577903 TTAGCGGCGCTTTATATATAAGCGCCGCTAATGACCCGAACT
1 TTAGCGGCGCTTTAGATA-AAGCGCCGCTAATGACCCGACCT
* * *
20577945 TTAGCGACACTTGAGGA-AAAGCGCCGCTAATGACCCGACCTT
1 TTAGCGGCGCTTTA-GATAAAGCGCCGCTAATGACCCGACC-T
* *
20577987 TTAGCGGCGC--TAGAATGAAAGCGCTGCTAAATGACCCTACCT
1 TTAGCGGCGCTTTAG-AT-AAAGCGCCGCT-AATGACCCGACCT
* ** *
20578029 TTAGCGGCGCTTGAGGGAAAGCGTCGCTAATGACCCGACCCT
1 TTAGCGGCGCTTTAGATAAAGCGCCGCTAATGACCCGA-CCT
* * * ** * * **
20578071 TTCGTGGCGCTTCAGGGAAAGCACCGCTAATGATCATACCT
1 TTAGCGGCGCTTTAGATAAAGCGCCGCTAATGACCCGACCT
* * * * * * *
20578112 TTAGCGGCGCTTGAGTTAAAGCGCTGTTAATTACCTGGCCT
1 TTAGCGGCGCTTTAGATAAAGCGCCGCTAATGACCCGACCT
* ** * * *
20578153 TTAGCGGCGCTTGAGGGAAAGCGCCGTTAATTACCCTACCT
1 TTAGCGGCGCTTTAGATAAAGCGCCGCTAATGACCCGACCT
** * ** *
20578194 TTAGCGGCG-TATTAGAGGAAGCGCTGCTAATGACTTGAACT
1 TTAGCGGCGCT-TTAGATAAAGCGCCGCTAATGACCCGACCT
*
20578235 TTAGCGGCGCTTGT-GATAAAGCGCCGCTAATGACCCCACCT
1 TTAGCGGCGCTT-TAGATAAAGCGCCGCTAATGACCCGACCT
* * * *
20578276 TTAGCGGCGCTTGTGGGTAAAGCGCCGCTAATGACCCCACTT
1 TTAGCGGCGCTT-TAGATAAAGCGCCGCTAATGACCCGACCT
* * ***
20578318 TTAGCGGCGCTTTTG-TTAAGCGCCGCTAATG-CTTTACCT
1 TTAGCGGCGCTTTAGATAAAGCGCCGCTAATGACCCGACCT
* * *
20578357 TTTGCGGTGCATTAAGA-AAAGCGCCGCTAATG
1 TTAGCGGCGC-TTTAGATAAAGCGCCGCTAATG
20578389 CTTTACCTTT
Statistics
Matches: 422, Mismatches: 86, Indels: 41
0.77 0.16 0.07
Matches are distributed among these distances:
39 22 0.05
40 36 0.09
41 187 0.44
42 148 0.35
43 27 0.06
44 2 0.00
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (41 bp):
TTAGCGGCGCTTTAGATAAAGCGCCGCTAATGACCCGACCT
Found at i:20577976 original size:41 final size:41
Alignment explanation
Indices: 20577878--20578329 Score: 392
Period size: 41 Copynumber: 10.9 Consensus size: 41
20577868 GCTTATTTAT
* * * *
20577878 AAAAGCGCCGCTAATAACCTGACCTTTAGCGGCGCTTTA-T
1 AAAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTGAGG
* * *
20577918 ATATAAGCGCCGCTAATGACCCGAACTTTAGCGACACTTGAGG
1 A-A-AAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTGAGG
* *
20577961 AAAAGCGCCGCTAATGACCCGACCTTTTAGCGGCGCTAGAATG
1 AAAAGCGCCGCTAATGACCCGACC-TTTAGCGGCGCTTG-AGG
* *
20578004 -AAAGCGCTGCTAAATGACCCTACCTTTAGCGGCGCTTGAGG
1 AAAAGCGCCGCT-AATGACCCGACCTTTAGCGGCGCTTGAGG
* * * * *
20578045 GAAAGCGTCGCTAATGACCCGACCCTTTCGTGGCGCTTCAGG
1 AAAAGCGCCGCTAATGACCCGA-CCTTTAGCGGCGCTTGAGG
* * * ** *
20578087 GAAAGCACCGCTAATGATCATACCTTTAGCGGCGCTTGAGT
1 AAAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTGAGG
* * * * * *
20578128 TAAAGCGCTGTTAATTACCTGGCCTTTAGCGGCGCTTGAGG
1 AAAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTGAGG
* * * * *
20578169 GAAAGCGCCGTTAATTACCCTACCTTTAGCGGCGTATTAGAGG
1 AAAAGCGCCGCTAATGACCCGACCTTTAGCGGCG-CTT-GAGG
* ** * *
20578212 --AAGCGCTGCTAATGACTTGAACTTTAGCGGCGCTTG-TG
1 AAAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTGAGG
* *
20578250 ATAAAGCGCCGCTAATGACCCCACCTTTAGCGGCGCTTGTGGG
1 A-AAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTG-AGG
* * *
20578293 TAAAGCGCCGCTAATGACCCCACTTTTAGCGGCGCTT
1 AAAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTT
20578330 TTGTTAAGCG
Statistics
Matches: 333, Mismatches: 64, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 3 0.01
41 164 0.49
42 145 0.44
43 19 0.06
ACGTcount: A:0.24, C:0.27, G:0.26, T:0.24
Consensus pattern (41 bp):
AAAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTGAGG
Found at i:20578193 original size:82 final size:82
Alignment explanation
Indices: 20577821--20578329 Score: 429
Period size: 82 Copynumber: 6.1 Consensus size: 82
20577811 TTTAAATAAA
* * * **
20577821 TTAGCGGCGCTT-ATGGGAAAGCGCCGCTAAT-TCAC-ACCTTTAGCGACGCTT-ATTTATAAAA
1 TTAGCGGCGCTTGA-GGGAAAGCGCCGCTAATGACCCTACCTTTAGCGGCGCTTGA--GGT-AAA
* *
20577882 GCGCCGCTAATAACCTGACCT
62 GCGCTGCTAATGACCTGACCT
* *** * * * * *
20577903 TTAGCGGCGCTTTATATATAAGCGCCGCTAATGACCCGAACTTTAGCGACACTTGAGGAAAAGCG
1 TTAGCGGCGCTTGAGGGA-AAGCGCCGCTAATGACCCTACCTTTAGCGGCGCTTGAGGTAAAGCG
* *
20577968 CCGCTAATGACCCGACCTT
65 CTGCTAATGACCTGACC-T
* ** * *
20577987 TTAGCGGCGCTAGAATGAAAGCGCTGCTAAATGACCCTACCTTTAGCGGCGCTTGAGGGAAAGCG
1 TTAGCGGCGCTTGAGGGAAAGCGCCGCT-AATGACCCTACCTTTAGCGGCGCTTGAGGTAAAGCG
*
20578052 -TCGCTAATGACCCGACCCT
65 CT-GCTAATGACCTGA-CCT
* * * * * * *
20578071 TTCGTGGCGCTTCAGGGAAAGCACCGCTAATGATCATACCTTTAGCGGCGCTTGAGTTAAAGCGC
1 TTAGCGGCGCTTGAGGGAAAGCGCCGCTAATGACCCTACCTTTAGCGGCGCTTGAGGTAAAGCGC
* * *
20578136 TGTTAATTACCTGGCCT
66 TGCTAATGACCTGACCT
* * *
20578153 TTAGCGGCGCTTGAGGGAAAGCGCCGTTAATTACCCTACCTTTAGCGGCGTATTAGAGG--AAGC
1 TTAGCGGCGCTTGAGGGAAAGCGCCGCTAATGACCCTACCTTTAGCGGCG-CTT-GAGGTAAAGC
* *
20578216 GCTGCTAATGACTTGAACT
64 GCTGCTAATGACCTGACCT
* ** * *
20578235 TTAGCGGCGCTTGTGATAAAGCGCCGCTAATGACCCCACCTTTAGCGGCGCTTGTGGGTAAAGCG
1 TTAGCGGCGCTTGAGGGAAAGCGCCGCTAATGACCCTACCTTTAGCGGCGCTTG-AGGTAAAGCG
* ** *
20578300 CCGCTAATGACCCCACTT
65 CTGCTAATGACCTGACCT
20578318 TTAGCGGCGCTT
1 TTAGCGGCGCTT
20578330 TTGTTAAGCG
Statistics
Matches: 343, Mismatches: 69, Indels: 29
0.78 0.16 0.07
Matches are distributed among these distances:
80 1 0.00
81 4 0.01
82 120 0.35
83 116 0.34
84 85 0.25
85 16 0.05
86 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.24
Consensus pattern (82 bp):
TTAGCGGCGCTTGAGGGAAAGCGCCGCTAATGACCCTACCTTTAGCGGCGCTTGAGGTAAAGCGC
TGCTAATGACCTGACCT
Found at i:20578359 original size:40 final size:41
Alignment explanation
Indices: 20578212--20578409 Score: 158
Period size: 40 Copynumber: 4.9 Consensus size: 41
20578202 GTATTAGAGG
* * * *
20578212 AAGCGCTGCTAATGACTTGAAC-TTTAGCGGCGCTTGTGATA
1 AAGCGCCGCTAATGACTTCACCTTTTAGCGGCGCTTTTG-TA
** *
20578253 AAGCGCCGCTAATGACCCCACC-TTTAGCGGCGCTTGTGGGTA
1 AAGCGCCGCTAATGACTTCACCTTTTAGCGGCGCTT-T-TGTA
** *
20578295 AAGCGCCGCTAATGACCCCA-CTTTTAGCGGCGCTTTTGTT
1 AAGCGCCGCTAATGACTTCACCTTTTAGCGGCGCTTTTGTA
* * ** *
20578335 AAGCGCCGCTAATG-CTTTACCTTTT-GCGGTGCATTAAGAA
1 AAGCGCCGCTAATGACTTCACCTTTTAGCGGCGC-TTTTGTA
* *
20578375 AAGCGCCGCTAATG-CTTTACCTTTT-GCGGCACTTT
1 AAGCGCCGCTAATGACTTCACCTTTTAGCGGCGCTTT
20578410 GTTTCCAAAC
Statistics
Matches: 132, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
39 10 0.08
40 54 0.41
41 32 0.24
42 35 0.27
43 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (41 bp):
AAGCGCCGCTAATGACTTCACCTTTTAGCGGCGCTTTTGTA
Found at i:20586090 original size:30 final size:28
Alignment explanation
Indices: 20586030--20586090 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 28
20586020 GAATGAAAAA
* *
20586030 AAAAGAAAAAAATAGAGCATGTGTACTC
1 AAAAGAAAAAAAAAGAGCATGTGCACTC
*
20586058 AAAAGAAAAAGGAAAAGAGCATGTGCATTC
1 AAAAGAAAAA--AAAAGAGCATGTGCACTC
20586088 AAA
1 AAA
20586091 GTTCAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 10 0.36
30 18 0.64
ACGTcount: A:0.56, C:0.10, G:0.20, T:0.15
Consensus pattern (28 bp):
AAAAGAAAAAAAAAGAGCATGTGCACTC
Found at i:20587516 original size:12 final size:12
Alignment explanation
Indices: 20587499--20587524 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20587489 TGTTATCATG
20587499 ATGAATGCTATT
1 ATGAATGCTATT
20587511 ATGAATGCTATT
1 ATGAATGCTATT
20587523 AT
1 AT
20587525 TTCTTTAATT
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:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:20597579 original size:12 final size:11
Alignment explanation
Indices: 20597558--20597606 Score: 57
Period size: 10 Copynumber: 4.5 Consensus size: 11
20597548 CAATCACTTG
20597558 AAAAAGA-AAA
1 AAAAAGAGAAA
*
20597568 AAAATGAGAAA
1 AAAAAGAGAAA
20597579 AAGAAAGAGAAGA
1 AA-AAAGAGAA-A
20597592 AAAAA-AGAAA
1 AAAAAGAGAAA
20597602 AAAAA
1 AAAAA
20597607 TTATTACTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 12 0.35
11 9 0.26
12 10 0.29
13 3 0.09
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (11 bp):
AAAAAGAGAAA
Found at i:20597589 original size:24 final size:25
Alignment explanation
Indices: 20597557--20597605 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
20597547 TCAATCACTT
* *
20597557 GAAAAAGAA-AAAAAATGAGAAAAA
1 GAAAAAGAAGAAAAAAAGAAAAAAA
*
20597581 GAAAGAGAAGAAAAAAAGAAAAAAA
1 GAAAAAGAAGAAAAAAAGAAAAAAA
20597606 ATTATTACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (25 bp):
GAAAAAGAAGAAAAAAAGAAAAAAA
Found at i:20599728 original size:25 final size:25
Alignment explanation
Indices: 20599668--20599823 Score: 125
Period size: 25 Copynumber: 6.2 Consensus size: 25
20599658 TGCATAACAT
* * **
20599668 TCACTAGCTCAAAGCCTACTAAGTCA
1 TCACTGGCTCAAAGCCTGCTAA-AAA
* *
20599694 TCACTAGCTCAAAGCCTGTTAAAAA
1 TCACTGGCTCAAAGCCTGCTAAAAA
* * * *
20599719 TCATTGGCTCTAAGCCTGCTATATAG
1 TCACTGGCTCAAAGCCTGCTA-AAAA
* *
20599745 TCACCGACTCAAAGCCTGCTAAAAA
1 TCACTGGCTCAAAGCCTGCTAAAAA
20599770 TCACCT-GCTCAAAGCCTGCTAAAAA
1 TCA-CTGGCTCAAAGCCTGCTAAAAA
* * * **
20599795 TCACTGTCTCGATGCCTATTAAAAA
1 TCACTGGCTCAAAGCCTGCTAAAAA
20599820 TCAC
1 TCAC
20599824 CTCACATTTC
Statistics
Matches: 104, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
24 2 0.02
25 62 0.60
26 40 0.38
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (25 bp):
TCACTGGCTCAAAGCCTGCTAAAAA
Found at i:20613464 original size:18 final size:18
Alignment explanation
Indices: 20613415--20613467 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
20613405 CTAACTTAAC
*
20613415 AAAAATGCAATGATAAAAT
1 AAAAATGC-ATGAAAAAAT
* *
20613434 AAAAGTGAAATGAAAAAAT
1 AAAAATG-CATGAAAAAAT
20613453 AAAAATGCATGAAAA
1 AAAAATGCATGAAAA
20613468 CTATCTACAG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.66, C:0.04, G:0.13, T:0.17
Consensus pattern (18 bp):
AAAAATGCATGAAAAAAT
Found at i:20622887 original size:12 final size:12
Alignment explanation
Indices: 20622870--20622904 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
20622860 CAGCTTTTGT
*
20622870 TTTTATTTTCTA
1 TTTTATTTTATA
*
20622882 TTTTATTTTATC
1 TTTTATTTTATA
20622894 TTTTATTTTAT
1 TTTTATTTTAT
20622905 GCTCTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTATTTTATA
Found at i:20622892 original size:17 final size:17
Alignment explanation
Indices: 20622870--20622904 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20622860 CAGCTTTTGT
20622870 TTTTAT-TTTCTATTTTA
1 TTTTATCTTT-TATTTTA
20622887 TTTTATCTTTTATTTTA
1 TTTTATCTTTTATTTTA
20622904 T
1 T
20622905 GCTCTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTATCTTTTATTTTA
Found at i:20624867 original size:19 final size:19
Alignment explanation
Indices: 20624843--20624879 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
20624833 AACATTTTCA
*
20624843 GGGTTGGTCGTGACATAGG
1 GGGTTGGTCGTAACATAGG
*
20624862 GGGTTGGTTGTAACATAG
1 GGGTTGGTCGTAACATAG
20624880 ACATGCTATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.43, T:0.30
Consensus pattern (19 bp):
GGGTTGGTCGTAACATAGG
Found at i:20642436 original size:2 final size:2
Alignment explanation
Indices: 20642429--20642474 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
20642419 GCGTATTAGA
20642429 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
20642471 AT AT
1 AT AT
20642475 GATGTTATGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20646802 original size:27 final size:25
Alignment explanation
Indices: 20646772--20646833 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 25
20646762 ATTGATTCTC
20646772 TTTTGCTTTAATAAAA-TTCTCTTTGAG
1 TTTT-CTTTAA-AAAATTTCTC-TTGAG
*
20646799 TTTTTCTCTTCAAAAATTTCTCTTGAG
1 -TTTTCT-TTAAAAAATTTCTCTTGAG
20646826 TTTTCTTT
1 TTTTCTTT
20646834 TAGAAGAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
25 2 0.06
26 6 0.19
27 11 0.35
28 12 0.39
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.56
Consensus pattern (25 bp):
TTTTCTTTAAAAAATTTCTCTTGAG
Found at i:20650665 original size:11 final size:11
Alignment explanation
Indices: 20650649--20650705 Score: 69
Period size: 11 Copynumber: 4.9 Consensus size: 11
20650639 AAATTTAAAT
20650649 TTTATATTATA
1 TTTATATTATA
20650660 TTTATATTATTAAA
1 TTTATATTA-T--A
**
20650674 TAAATATTATA
1 TTTATATTATA
20650685 TTTATATTATA
1 TTTATATTATA
20650696 TTTATATTAT
1 TTTATATTAT
20650706 TAAATAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
11 29 0.74
12 1 0.03
13 1 0.03
14 8 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTATATTATA
Found at i:20650666 original size:36 final size:36
Alignment explanation
Indices: 20650626--20650731 Score: 123
Period size: 36 Copynumber: 3.0 Consensus size: 36
20650616 TATTTTCAAA
20650626 TATATATAAT-AATAAAT-TTAAATTTTATATTATATT
1 TATAT-TAATAAATAAATATTAAA-TTTATATTATATT
* *
20650662 TATATTATTAAATAAATATTATATTTATATTATATT
1 TATATTAATAAATAAATATTAAATTTATATTATATT
*
20650698 TATATTATTAAATAAATA-T-AA-TTATATTAATATT
1 TATATTAATAAATAAATATTAAATTTATATT-ATATT
20650732 AAATAAAATA
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
33 7 0.11
34 6 0.09
35 4 0.06
36 43 0.67
37 4 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (36 bp):
TATATTAATAAATAAATATTAAATTTATATTATATT
Found at i:20650706 original size:25 final size:25
Alignment explanation
Indices: 20650688--20650738 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
20650678 TATTATATTT
20650688 ATATTATATTTATATTATTAAATAA
1 ATATTATATTTATATTATTAAATAA
*
20650713 ATA-TA-ATTATATTAATATTAAATAA
1 ATATTATATT-TA-TATTATTAAATAA
20650738 A
1 A
20650739 ATAAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 3 0.13
24 4 0.17
25 16 0.70
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATTATATTTATATTATTAAATAA
Found at i:20650924 original size:10 final size:10
Alignment explanation
Indices: 20650911--20650936 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
20650901 TATTTATGTA
20650911 TTTTTATATT
1 TTTTTATATT
20650921 TTTTTATATT
1 TTTTTATATT
20650931 TTTTTA
1 TTTTTA
20650937 GAACTTGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTATATT
Found at i:20657496 original size:18 final size:20
Alignment explanation
Indices: 20657466--20657503 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
20657456 TATCAAAATA
20657466 ATTTATATATTTT-AATAAT
1 ATTTATATATTTTAAATAAT
20657485 ATTTAT-TATTTTAAATAAT
1 ATTTATATATTTTAAATAAT
20657504 GATTACATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTTATATATTTTAAATAAT
Found at i:20657721 original size:11 final size:11
Alignment explanation
Indices: 20657675--20657729 Score: 51
Period size: 11 Copynumber: 4.8 Consensus size: 11
20657665 TTGAATAATG
20657675 AATTAAAAATT
1 AATTAAAAATT
20657686 AATTACAATAATT
1 AATTA-AA-AATT
20657699 AA--AAAGACATT
1 AATTAAA-A-ATT
*
20657710 ATTTAAAAATT
1 AATTAAAAATT
20657721 AATTAAAAA
1 AATTAAAAA
20657730 ATAAATGTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
10 3 0.08
11 21 0.58
12 3 0.08
13 9 0.25
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (11 bp):
AATTAAAAATT
Found at i:20658010 original size:2 final size:2
Alignment explanation
Indices: 20658003--20658033 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
20657993 AAAGATAAAT
20658003 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20658034 AAAAACTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20667788 original size:12 final size:12
Alignment explanation
Indices: 20667768--20667802 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
20667758 TCCGATGCTG
20667768 ACACAAATGCCA
1 ACACAAATGCCA
* *
20667780 TCACCAATGCCA
1 ACACAAATGCCA
20667792 ACACAAATGCC
1 ACACAAATGCC
20667803 GACATCAATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.43, C:0.37, G:0.09, T:0.11
Consensus pattern (12 bp):
ACACAAATGCCA
Found at i:20669340 original size:22 final size:22
Alignment explanation
Indices: 20669292--20669340 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
20669282 ACTGAAACAT
*
20669292 CACCATACAACCACAATATCAC
1 CACCATACAACCACAATAGCAC
* *
20669314 CACCATGCAACCACCATAGCAC
1 CACCATACAACCACAATAGCAC
*
20669336 TACCA
1 CACCA
20669341 CACCACCGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.43, G:0.04, T:0.12
Consensus pattern (22 bp):
CACCATACAACCACAATAGCAC
Found at i:20674127 original size:25 final size:25
Alignment explanation
Indices: 20674053--20674120 Score: 136
Period size: 25 Copynumber: 2.7 Consensus size: 25
20674043 TTTCGAAAAC
20674053 GAAATGAAAATAACTAAAGCTTAAA
1 GAAATGAAAATAACTAAAGCTTAAA
20674078 GAAATGAAAATAACTAAAGCTTAAA
1 GAAATGAAAATAACTAAAGCTTAAA
20674103 GAAATGAAAATAACTAAA
1 GAAATGAAAATAACTAAA
20674121 ACCTAAATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.62, C:0.07, G:0.12, T:0.19
Consensus pattern (25 bp):
GAAATGAAAATAACTAAAGCTTAAA
Found at i:20697457 original size:23 final size:23
Alignment explanation
Indices: 20697427--20697486 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
20697417 TAATAGGGAT
20697427 TTTCAATTTACAATTCA-TATCAC
1 TTTCAATTT-CAATTCACTATCAC
* *
20697450 TTTCAATTCCAATTCACTTTCAC
1 TTTCAATTTCAATTCACTATCAC
*
20697473 TTTCACTTTCAATT
1 TTTCAATTTCAATT
20697487 TTGATCACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 7 0.22
23 25 0.78
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTCAATTTCAATTCACTATCAC
Found at i:20703042 original size:93 final size:91
Alignment explanation
Indices: 20702792--20703819 Score: 657
Period size: 93 Copynumber: 11.0 Consensus size: 91
20702782 AGTAAATGGT
* * ** * * * *
20702792 AAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTAAAAAACAGATCTCAATCTGCTTAAGGTT
1 AAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTAAAAAGTAAATCTCAATCTCCCTGAGGTT
* *
20702857 ATAGTGGAAT--G-G-AGTAAGCACC
66 ACAGTGGAATAAGTGAAGTAAACACC
* * * * *
20702879 AAATCTTATATCCC-TAAAGTTGTAGTGGATTGGATTAAAATGAGTAACGGATCTCAATCTCCCT
1 AAATCCTATA-CCCTTGAAGTTGCAGTGGGTCGGATTAAAA--AGTAA---ATCTCAATCTCCCT
**
20702943 GAGGTTACAGTGGAATGAAGTGAAGTATAACATT
60 GAGGTTACAGTGGAAT-AAGTGAAGTA-AACACC
* *
20702977 AAATCCTATACCCTTGAAGTTGCAGTGAGTCGGATTAAAAAGTAAATCTCAATCTCTCTGAGGTT
1 AAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTAAAAAGTAAATCTCAATCTCCCTGAGGTT
20703042 ACAGTGG---AAG-GAAGTAAAGCACC
66 ACAGTGGAATAAGTGAAGTAAA-CACC
* * * ** *
20703065 AAATCCTATATCCTTGAAGTTACCGTGTATCGGATTAAAATGAGTAACATATCTCAATCTCCTTG
1 AAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTAAAA--AGT-A-A-ATCTCAATCTCCCTG
* * *
20703130 AGGTTAGAATGGAATGGAGTGAAGTACAACACC
61 AGGTTACAGTGGAAT-AAGTGAAGTA-AACACC
* * ** * * * * *
20703163 AAATCCTATACCCTTGAAGTTACAATGGGTCAAATTAAGAAGCAGATCTCAATCTCCTTAAGGTT
1 AAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTAAAAAGTAAATCTCAATCTCCCTGAGGTT
*
20703228 ACAGTGGAAT-A---AAGTAAAGCATC
66 ACAGTGGAATAAGTGAAGTAAA-CACC
* * * *
20703251 AAATCCTATA-TCTCTGAAGTTGTAGTGGATTGGATTAAAATGAGTAACAGATCTCAATCTCCCT
1 AAATCCTATACCCT-TGAAGTTGCAGTGGGTCGGATTAAAA--AGT-A-A-ATCTCAATCTCCCT
* * * **
20703315 AAGTTTACAGTGGAATAGAGTGAAGTACAATAGA
60 GAGGTTACAGTGGAATA-AGTGAAGTA-AACACC
* * * * *
20703349 AAATCCTATACCCCTGAAGTTACAGTGGGTCGGATTAAAAAGCAGATCTCAATCTCCTTGAGGTT
1 AAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTAAAAAGTAAATCTCAATCTCCCTGAGGTT
20703414 ACAGTGGAAT--G-GAA-TAAAGCACC
66 ACAGTGGAATAAGTGAAGTAAA-CACC
* * * *
20703437 AAATCCTATATCCTTGGAGTTGCAGTGGATTGGATTAAAATGAGTAACGGATCTCAATCTCCCTG
1 AAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTAAAA--AGTAA---ATCTCAATCTCCCTG
*
20703502 AGGTTACAATGGAATGAAGTGAAGTACAACACC
61 AGGTTACAGTGGAAT-AAGTGAAGTA-AACACC
** * * * * * *
20703535 AAATTTTATACCCCTAAAGTTACAGTGGGTCAGATTAAAAAGCAGATCTCAATCTCCCTGAGGTT
1 AAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTAAAAAGTAAATCTCAATCTCCCTGAGGTT
*
20703600 ACAATGGAATAAAGTGAAG----CACC
66 ACAGTGGAAT-AAGTGAAGTAAACACC
* ***
20703623 AAAT-CT-TACCTTCTTGAAGTTGTAGTGAAAC-GATTTAAAATAAGTAACGGATCTCAATCTCC
1 AAATCCTATACC--CTTGAAGTTGCAGTGGGTCGGA-TT-AAA-AAGTAA---ATCTCAATCTCC
* * * *
20703685 CTGAGGTTATAATGGAATGGAGTAAAGTTACAACACC
58 CTGAGGTTACAGTGGAAT-AAGTGAAG-TA-AACACC
* * * * * * * * * * *
20703722 AAATCTTATACCCCTAAAATTACATTAGGTCGGACTAAAATGTAGATCTCAATCTCCTTGAGGTT
1 AAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTAAAAAGTAAATCTCAATCTCCCTGAGGTT
* * *
20703787 TCAATGGAATGAAGTGAAGCTACAACAAC
66 ACAGTGGAAT-AAGTGAAG-TA-AACACC
20703816 AAAT
1 AAAT
20703820 TTTATCTCTT
Statistics
Matches: 736, Mismatches: 137, Indels: 129
0.73 0.14 0.13
Matches are distributed among these distances:
86 4 0.01
87 41 0.06
88 141 0.19
89 11 0.01
90 13 0.02
91 3 0.00
92 27 0.04
93 232 0.32
94 46 0.06
95 4 0.01
96 14 0.02
97 16 0.02
98 152 0.21
99 25 0.03
100 3 0.00
101 4 0.01
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (91 bp):
AAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTAAAAAGTAAATCTCAATCTCCCTGAGGTT
ACAGTGGAATAAGTGAAGTAAACACC
Found at i:20703134 original size:186 final size:186
Alignment explanation
Indices: 20702792--20703806 Score: 1216
Period size: 186 Copynumber: 5.5 Consensus size: 186
20702782 AGTAAATGGT
* * * *
20702792 AAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTAAAAAACAGATCTCAATCTGCTTAAGGTT
1 AAATCCTATACCCCTGAAGTTACAGTGGGTCAGATTAAAAAGCAGATCTCAATCTCCTTGAGGTT
* * * *
20702857 ATAGTGGAATGG-AGT-AAGCACCAAATCTTATATCCCTAAAGTTGTAGTGGATTGGATTAAAAT
66 ACAGTGGAA-GGAAGTAAAGCACCAAATCCTATATCCTTGAAGTTGTAGTGGATTGGATTAAAAT
* * **
20702920 GAGTAACGGATCTCAATCTCCCTGAGGTTACAGTGGAATGAAGTGAAGTATAACATT
130 GAGTAACGGATCTCAATCTCCCTGAGGTTACAATGGAATGAAGTGAAGTACAACACC
* * * * * *
20702977 AAATCCTATACCCTTGAAGTTGCAGTGAGTCGGATTAAAAAGTAAATCTCAATCT-CTCTGAGGT
1 AAATCCTATACCCCTGAAGTTACAGTGGGTCAGATTAAAAAGCAGATCTCAATCTCCT-TGAGGT
*** * *
20703041 TACAGTGGAAGGAAGTAAAGCACCAAATCCTATATCCTTGAAGTTACCGTGTATCGGATTAAAAT
65 TACAGTGGAAGGAAGTAAAGCACCAAATCCTATATCCTTGAAGTTGTAGTGGATTGGATTAAAAT
** * * *
20703106 GAGTAACATATCTCAATCTCCTTGAGGTTAGAATGGAATGGAGTGAAGTACAACACC
130 GAGTAACGGATCTCAATCTCCCTGAGGTTACAATGGAATGAAGTGAAGTACAACACC
* * * * *
20703163 AAATCCTATACCCTTGAAGTTACAATGGGTCAAATTAAGAAGCAGATCTCAATCTCCTTAAGGTT
1 AAATCCTATACCCCTGAAGTTACAGTGGGTCAGATTAAAAAGCAGATCTCAATCTCCTTGAGGTT
** *
20703228 ACAGTGGAATAAAGTAAAGCATCAAATCCTATAT-CTCTGAAGTTGTAGTGGATTGGATTAAAAT
66 ACAGTGGAAGGAAGTAAAGCACCAAATCCTATATCCT-TGAAGTTGTAGTGGATTGGATTAAAAT
* * * * * **
20703292 GAGTAACAGATCTCAATCTCCCTAAGTTTACAGTGGAAT-AGAGTGAAGTACAATAGA
130 GAGTAACGGATCTCAATCTCCCTGAGGTTACAATGGAATGA-AGTGAAGTACAACACC
*
20703349 AAATCCTATACCCCTGAAGTTACAGTGGGTCGGATTAAAAAGCAGATCTCAATCTCCTTGAGGTT
1 AAATCCTATACCCCTGAAGTTACAGTGGGTCAGATTAAAAAGCAGATCTCAATCTCCTTGAGGTT
* *
20703414 ACAGTGGAATGGAA-TAAAGCACCAAATCCTATATCCTTGGAGTTGCAGTGGATTGGATTAAAAT
66 ACAGTGGAA-GGAAGTAAAGCACCAAATCCTATATCCTTGAAGTTGTAGTGGATTGGATTAAAAT
20703478 GAGTAACGGATCTCAATCTCCCTGAGGTTACAATGGAATGAAGTGAAGTACAACACC
130 GAGTAACGGATCTCAATCTCCCTGAGGTTACAATGGAATGAAGTGAAGTACAACACC
** * *
20703535 AAATTTTATACCCCTAAAGTTACAGTGGGTCAGATTAAAAAGCAGATCTCAATCTCCCTGAGGTT
1 AAATCCTATACCCCTGAAGTTACAGTGGGTCAGATTAAAAAGCAGATCTCAATCTCCTTGAGGTT
* ** * * ** * ***
20703600 ACAATGGAATAAAGTGAAGCACCAAATCTTACCTTCTTGAAGTTGTAGT-GAAACGATTTAAAAT
66 ACAGTGGAAGGAAGTAAAGCACCAAATCCTATATCCTTGAAGTTGTAGTGGATTGGA-TTAAAAT
* * * *
20703664 AAGTAACGGATCTCAATCTCCCTGAGGTTATAATGGAATGGAGTAAAGTTACAACACC
130 GAGTAACGGATCTCAATCTCCCTGAGGTTACAATGGAATGAAGTGAAG-TACAACACC
* * * * * * * * *
20703722 AAATCTTATACCCCTAAAATTACATTAGGTCGGACTAAAATGTAGATCTCAATCTCCTTGAGGTT
1 AAATCCTATACCCCTGAAGTTACAGTGGGTCAGATTAAAAAGCAGATCTCAATCTCCTTGAGGTT
* * * *
20703787 TCAATGGAATGAAGTGAAGC
66 ACAGTGGAAGGAAGTAAAGC
20703807 TACAACAACA
Statistics
Matches: 715, Mismatches: 103, Indels: 22
0.85 0.12 0.03
Matches are distributed among these distances:
184 4 0.01
185 74 0.10
186 547 0.77
187 90 0.13
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (186 bp):
AAATCCTATACCCCTGAAGTTACAGTGGGTCAGATTAAAAAGCAGATCTCAATCTCCTTGAGGTT
ACAGTGGAAGGAAGTAAAGCACCAAATCCTATATCCTTGAAGTTGTAGTGGATTGGATTAAAATG
AGTAACGGATCTCAATCTCCCTGAGGTTACAATGGAATGAAGTGAAGTACAACACC
Found at i:20704108 original size:21 final size:21
Alignment explanation
Indices: 20704082--20704127 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
20704072 CGGGCCCAAC
*
20704082 TAAAAACCAAACAAAAAAATA
1 TAAAAAACAAACAAAAAAATA
*
20704103 TAAAAAATAAACAAAAAAATA
1 TAAAAAACAAACAAAAAAATA
20704124 -AAAA
1 TAAAA
20704128 CATTTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (21 bp):
TAAAAAACAAACAAAAAAATA
Found at i:20705821 original size:21 final size:22
Alignment explanation
Indices: 20705767--20705822 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
20705757 TAAGTTTTCC
*
20705767 CCTTTTATT-TTTTTAAATTTT
1 CCTTTTATTATTTTAAAATTTT
*
20705788 -ATTTTATTCATTTTAAAATTTT
1 CCTTTTATT-ATTTTAAAATTTT
20705810 CCTTTT-TTATTTT
1 CCTTTTATTATTTT
20705823 TGTTAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.24
21 5 0.17
22 13 0.45
23 4 0.14
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (22 bp):
CCTTTTATTATTTTAAAATTTT
Found at i:20710710 original size:9 final size:9
Alignment explanation
Indices: 20710677--20710719 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
20710667 AAATTCTGAT
*
20710677 ATTTTCATA
1 ATTTTTATA
*
20710686 ATTTTTAGA
1 ATTTTTATA
* *
20710695 ATGTTTATT
1 ATTTTTATA
20710704 ATTTTTATA
1 ATTTTTATA
20710713 ATTTTTA
1 ATTTTTA
20710720 GGAAAATTCT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (9 bp):
ATTTTTATA
Found at i:20711282 original size:20 final size:20
Alignment explanation
Indices: 20711253--20711291 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
20711243 TTTTTGAACG
*
20711253 TAAAATAATT-TTATATATTA
1 TAAAAAAATTATTA-ATATTA
20711273 TAAAAAAATTATTAATATT
1 TAAAAAAATTATTAATATT
20711292 TTTCTTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAAAAAATTATTAATATTA
Found at i:20719174 original size:1 final size:1
Alignment explanation
Indices: 20719168--20719194 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
20719158 CCCCTGCCAG
20719168 CCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCC
20719195 AACAGATACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:20729248 original size:24 final size:24
Alignment explanation
Indices: 20729154--20729239 Score: 136
Period size: 24 Copynumber: 3.6 Consensus size: 24
20729144 ACTGGTTAAT
*
20729154 CATTCTGGGCTCGTAACAGCTAAC
1 CATTCTGGGCTCGTAAGAGCTAAC
*
20729178 CATTCTGGGCTTGTAAGAGCTAAC
1 CATTCTGGGCTCGTAAGAGCTAAC
*
20729202 CATTCTAGGCTCGTAAGAGCTAAC
1 CATTCTGGGCTCGTAAGAGCTAAC
*
20729226 CATTTTGGGCTCGT
1 CATTCTGGGCTCGT
20729240 GTGGGCTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.29
Consensus pattern (24 bp):
CATTCTGGGCTCGTAAGAGCTAAC
Found at i:20731795 original size:24 final size:23
Alignment explanation
Indices: 20731768--20731821 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
20731758 GATTTAGTTG
* *
20731768 ATTTTCATAACTGTTTTAAAAGAA
1 ATTTGCATAACTATTTTAAAA-AA
*
20731792 ATTTGCATAACTATTTTACAAAA
1 ATTTGCATAACTATTTTAAAAAA
20731815 A-TTGCAT
1 ATTTGCAT
20731822 TGCATGATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 6 0.22
23 3 0.11
24 18 0.67
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (23 bp):
ATTTGCATAACTATTTTAAAAAA
Found at i:20740493 original size:14 final size:14
Alignment explanation
Indices: 20740474--20740535 Score: 81
Period size: 14 Copynumber: 4.4 Consensus size: 14
20740464 AACCCAACCT
**
20740474 GTTGACCATTGACC
1 GTTGACCATTGATA
20740488 GTTGACCATTGATA
1 GTTGACCATTGATA
*
20740502 GTTGACCGA-TGATT
1 GTTGACC-ATTGATA
20740516 GTTGACCATTGATA
1 GTTGACCATTGATA
20740530 GTTGAC
1 GTTGAC
20740536 TGTTGACCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
13 1 0.02
14 40 0.95
15 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (14 bp):
GTTGACCATTGATA
Found at i:20740506 original size:21 final size:21
Alignment explanation
Indices: 20740482--20740548 Score: 62
Period size: 28 Copynumber: 2.9 Consensus size: 21
20740472 CTGTTGACCA
20740482 TTGACCGTTGACCATTGATAG
1 TTGACCGTTGACCATTGATAG
20740503 TTGACCGATGATTGTTGACCATTGATAG
1 TTGACC-------GTTGACCATTGATAG
*
20740531 TTGACTGTTGACCATTGA
1 TTGACCGTTGACCATTGA
20740549 CTTTTTGGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
21 18 0.47
28 20 0.53
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (21 bp):
TTGACCGTTGACCATTGATAG
Found at i:20740561 original size:19 final size:19
Alignment explanation
Indices: 20740537--20740573 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
20740527 ATAGTTGACT
*
20740537 GTTGACCATTGACTTTTTG
1 GTTGACCACTGACTTTTTG
*
20740556 GTTGACCGCTGACTTTTT
1 GTTGACCACTGACTTTTT
20740574 TCGAGAATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.19, G:0.22, T:0.46
Consensus pattern (19 bp):
GTTGACCACTGACTTTTTG
Found at i:20747308 original size:5 final size:5
Alignment explanation
Indices: 20747298--20747337 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
20747288 GTTCCGTCTT
20747298 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
20747338 AATATCCTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:20749579 original size:15 final size:15
Alignment explanation
Indices: 20749547--20749575 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
20749537 CTACGCGACG
20749547 CTTTTTCTTCCTCCT
1 CTTTTTCTTCCTCCT
20749562 CTTTTTC-TCCTCCT
1 CTTTTTCTTCCTCCT
20749576 TCTTGCGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (15 bp):
CTTTTTCTTCCTCCT
Found at i:20753896 original size:10 final size:10
Alignment explanation
Indices: 20753881--20753907 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
20753871 CTTTTGCCTT
20753881 TCTCTGCTTG
1 TCTCTGCTTG
20753891 TCTCTGCTTG
1 TCTCTGCTTG
20753901 TCTCTGC
1 TCTCTGC
20753908 CTCATTCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.33, G:0.19, T:0.48
Consensus pattern (10 bp):
TCTCTGCTTG
Found at i:20768743 original size:15 final size:15
Alignment explanation
Indices: 20768725--20768761 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
20768715 GAAGAAAATA
20768725 CTGAGAAAGAAGATG
1 CTGAGAAAGAAGATG
**
20768740 CTGAGAAAGAATCTG
1 CTGAGAAAGAAGATG
20768755 CTGAGAA
1 CTGAGAA
20768762 CACTGTCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.30, T:0.16
Consensus pattern (15 bp):
CTGAGAAAGAAGATG
Found at i:20789347 original size:17 final size:17
Alignment explanation
Indices: 20789317--20789357 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
20789307 AAACTAAAAG
20789317 GAATGCAGTGACAATTAA
1 GAATGCAGTGACAA-TAA
20789335 -AATGCAG-GCACAATAA
1 GAATGCAGTG-ACAATAA
20789351 GAATGCA
1 GAATGCA
20789358 TGAAAACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (17 bp):
GAATGCAGTGACAATAA
Found at i:20799496 original size:82 final size:82
Alignment explanation
Indices: 20799359--20799517 Score: 300
Period size: 82 Copynumber: 1.9 Consensus size: 82
20799349 CGGATGCCTC
* *
20799359 CAGATAATTCTGCCATTACTTCATTTTGTTGAAGTCTGACACCTGGCAATGCTTTTCTTTGTTGA
1 CAGATAACTCTGCCATCACTTCATTTTGTTGAAGTCTGACACCTGGCAATGCTTTTCTTTGTTGA
20799424 TAAGCATGAATTTTTAT
66 TAAGCATGAATTTTTAT
20799441 CAGATAACTCTGCCATCACTTCATTTTGTTGAAGTCTGACACCTGGCAATGCTTTTCTTTGTTGA
1 CAGATAACTCTGCCATCACTTCATTTTGTTGAAGTCTGACACCTGGCAATGCTTTTCTTTGTTGA
20799506 TAAGCATGAATT
66 TAAGCATGAATT
20799518 CTTCCGGATT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 75 1.00
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (82 bp):
CAGATAACTCTGCCATCACTTCATTTTGTTGAAGTCTGACACCTGGCAATGCTTTTCTTTGTTGA
TAAGCATGAATTTTTAT
Found at i:20801704 original size:15 final size:16
Alignment explanation
Indices: 20801680--20801712 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
20801670 ATCCTAAGAA
*
20801680 TTCTATCTCTAT-TTT
1 TTCTAGCTCTATCTTT
20801695 TTCTAGCTCTATCTTT
1 TTCTAGCTCTATCTTT
20801711 TT
1 TT
20801713 AGGGCTAAGT
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:0.12, C:0.21, G:0.03, T:0.64
Consensus pattern (16 bp):
TTCTAGCTCTATCTTT
Found at i:20806524 original size:82 final size:82
Alignment explanation
Indices: 20806378--20806533 Score: 276
Period size: 82 Copynumber: 1.9 Consensus size: 82
20806368 ATGCCTCCAA
* * *
20806378 ATAATTCTGCCATTACTTCATTTTGTTGAAGTCTGACACCTGGCAATGCTTTTCTTTGTTGATAA
1 ATAACTCTGCCATCACTTCATTTTGTTGAAGTCTGACACCTGGCAATGCTTTTCTTTGTCGATAA
20806443 GCATGAATTTTTATCAG
66 GCATGAATTTTTATCAG
20806460 ATAACTCTGCCATCACTTCATTTTGTTGAAGTCTGACACCTGGCAATGCTTTTCTTTGTCGATAA
1 ATAACTCTGCCATCACTTCATTTTGTTGAAGTCTGACACCTGGCAATGCTTTTCTTTGTCGATAA
*
20806525 GTATGAATT
66 GCATGAATT
20806534 CTTCTGGATT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 70 1.00
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (82 bp):
ATAACTCTGCCATCACTTCATTTTGTTGAAGTCTGACACCTGGCAATGCTTTTCTTTGTCGATAA
GCATGAATTTTTATCAG
Found at i:20809738 original size:11 final size:11
Alignment explanation
Indices: 20809722--20809755 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
20809712 TCGAAGCTTC
20809722 ACTTTTAGCTA
1 ACTTTTAGCTA
20809733 ACTTTTAGCTA
1 ACTTTTAGCTA
*
20809744 ATTTTTAGCTA
1 ACTTTTAGCTA
20809755 A
1 A
20809756 AAGTTGCCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (11 bp):
ACTTTTAGCTA
Found at i:20814591 original size:13 final size:13
Alignment explanation
Indices: 20814573--20814600 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
20814563 TAGCTGTCAC
20814573 ATGAATTAAATTA
1 ATGAATTAAATTA
20814586 ATGAATTAAATTA
1 ATGAATTAAATTA
20814599 AT
1 AT
20814601 TGTTGAATTA
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:0.00, G:0.07, T:0.39
Consensus pattern (13 bp):
ATGAATTAAATTA
Found at i:20815033 original size:138 final size:133
Alignment explanation
Indices: 20814685--20815039 Score: 464
Period size: 138 Copynumber: 2.6 Consensus size: 133
20814675 ACATTGATAA
* * *
20814685 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACAGAATATGTTAATA
1 AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACAGAATTTATTAATA
* ** * * *
20814750 T-AAA-TAGTT-ATATTTCGCTCAAAATATAAAAGGCATGGAAATTAATATTCTTTTGGAAAGAA
66 TAAAATTAATTAATATTTCGCTCAAAATATAAAAGAAATAGAAATTAATATTATTTTGAAAAGAA
20814812 TAT
131 TAT
* * *
20814815 AATTAATATATGAATTTTATTCATACACAATATTAATTGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACAGAATTTATTAATA
*
20814880 TAAATAGTTACATTAATGAATTTCGGTCAAAATATAAAAGAAATAGAAATTAATATTATTTTGAA
66 TAAA-A-TTA-ATTAAT--ATTTCGCTCAAAATATAAAAGAAATAGAAATTAATATTATTTTGAA
20814945 AAGAATAT
126 AAGAATAT
* **
20814953 AATTAATATATGAATTTAATTCATAAAAAATATTAATTGTATATATTTTATTGAATTTATTAATA
1 AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACAGAATTTATTAATA
20815018 TAGACAATTATATTAATTATTT
66 TA-A-AATTA-ATTAA-TATTT
20815040 TTTTTGTGAA
Statistics
Matches: 196, Mismatches: 18, Indels: 15
0.86 0.08 0.07
Matches are distributed among these distances:
130 61 0.31
131 2 0.01
132 1 0.01
134 2 0.01
135 2 0.01
136 2 0.01
137 4 0.02
138 118 0.60
139 3 0.02
140 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (133 bp):
AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACAGAATTTATTAATA
TAAAATTAATTAATATTTCGCTCAAAATATAAAAGAAATAGAAATTAATATTATTTTGAAAAGAA
TAT
Found at i:20834639 original size:16 final size:15
Alignment explanation
Indices: 20834614--20834649 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
20834604 ATCATAATTT
*
20834614 TTTTTCTTCTTTTTC
1 TTTTTCTTCTCTTTC
20834629 TTTTTCTTTCTCTTTC
1 TTTTTC-TTCTCTTTC
20834645 TTTTT
1 TTTTT
20834650 ATGTGACTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTCTTCTCTTTC
Found at i:20839300 original size:367 final size:367
Alignment explanation
Indices: 20838627--20839730 Score: 2118
Period size: 367 Copynumber: 3.0 Consensus size: 367
20838617 ATGCGTCGAC
*
20838627 ATCTCTGGCCTCATTTCCAAGCTATAATTGTGGCTGCATCTTTGACTCCTTTCTAGCATCAATCT
1 ATCTCTGGCCTCATTTCCAAGCTATACTTGTGGCTGCATCTTTGACTCCTTTCTAGCATCAATCT
20838692 ATTGAGATGGATCCCTGCACTGACATTTTTAAAACGCAATATATATGCTGCAAGTGGCGACATTA
66 ATTGAGATGGATCCCTGCACTGACATTTTTAAAACGCAATATATATGCTGCAAGTGGCGACATTA
20838757 GTGCATAAAAAGAGATAAAATAACAAGAATGTAAACCAAACAACAATGAGTTAGAAAATATAAAA
131 GTGCATAAAAAGAGATAAAATAACAAGAATGTAAACCAAACAACAATGAGTTAGAAAATATAAAA
* * ** *
20838822 ACTAAGTATGTAATGCCTATTATGCATGCTAAATATGTTACAAAAGAGACAATTAATACACAAAT
196 ACTAAGTATGTAATGCCTATTATGCATGCTGAATATGCTACAAAAGAGACAAGCAATAGACAAAT
20838887 TTAGGGAGAAAATAGGTGTCATTTCTAATTCTATCAATGGATAATTCTCGAAAGAATGGTCATCC
261 TTAGGGAGAAAATAGGTGTCATTTCTAATTCTATCAATGGATAATTCTCGAAAGAATGGTCATCC
*
20838952 GCACATACACGTAGGAAACAACTTCAAACTGACTTGGTGATT
326 CCACATACACGTAGGAAACAACTTCAAACTGACTTGGTGATT
20838994 ATCTCTGGCCTCATTTCCAAGCTATACTTGTGGCTGCATCTTTGACTCCTTTCTAGCATCAATCT
1 ATCTCTGGCCTCATTTCCAAGCTATACTTGTGGCTGCATCTTTGACTCCTTTCTAGCATCAATCT
20839059 ATTGAGATGGATCCCTGCACTGACATTTTTAAAACGCAATATATATGCTGCAAGTGGCGACATTA
66 ATTGAGATGGATCCCTGCACTGACATTTTTAAAACGCAATATATATGCTGCAAGTGGCGACATTA
20839124 GTGCATAAAAAGAGATAAAATAACAAGAATGTAAACCAAACAACAATGAGTTAGAAAATATAAAA
131 GTGCATAAAAAGAGATAAAATAACAAGAATGTAAACCAAACAACAATGAGTTAGAAAATATAAAA
20839189 ACTAAGTATGTAATGCCTATTATGCATGCTGAATATGCTACAAAAGAGACAAGCAATAGACAAAT
196 ACTAAGTATGTAATGCCTATTATGCATGCTGAATATGCTACAAAAGAGACAAGCAATAGACAAAT
20839254 TTAGGGAGAAAATAGGTGTCATTTCTAATTCTATCAATGGATAATTCTCGAAAGAATGGTCATCC
261 TTAGGGAGAAAATAGGTGTCATTTCTAATTCTATCAATGGATAATTCTCGAAAGAATGGTCATCC
20839319 CCACATACACGTAGGAAACAACTTCAAACTGACTTGGTGATT
326 CCACATACACGTAGGAAACAACTTCAAACTGACTTGGTGATT
20839361 ATCTCTGGCCTCATTTCCAAGCTATACTTGTGGCTGCATCTTTGACTCCTTTCTAGCATCAATCT
1 ATCTCTGGCCTCATTTCCAAGCTATACTTGTGGCTGCATCTTTGACTCCTTTCTAGCATCAATCT
20839426 ATTGAGATGGATCCCTGCACTGACATTTTTAAAACGCAATATATATGCTGCAAGTGGCGACATTA
66 ATTGAGATGGATCCCTGCACTGACATTTTTAAAACGCAATATATATGCTGCAAGTGGCGACATTA
20839491 GTGCATAAAAAGAGATAAAATAACAAGAATGTAAACCAAACAACAATGAGTTAGAAAATATATAA
131 GTGCATAAAAAGAGATAAAATAACAAGAATGTAAACCAAACAACAATGAGTTAG-AAA-ATATAA
20839556 AAACTAAGTATGTAATGCCTATTATGCATGCTGAATATGCTACAAAAGAGACAAGCAATAGACAA
194 AAACTAAGTATGTAATGCCTATTATGCATGCTGAATATGCTACAAAAGAGACAAGCAATAGACAA
20839621 ATTTAGGGAGAAAATAGGTGTCATTTCTAATTCTATCAATGGATAATTCTCGAAAGAATGGTCAT
259 ATTTAGGGAGAAAATAGGTGTCATTTCTAATTCTATCAATGGATAATTCTCGAAAGAATGGTCAT
*
20839686 CCCCACATACACGTAGGAAACAACTTCAAAATGACTTGGTGATT
324 CCCCACATACACGTAGGAAACAACTTCAAACTGACTTGGTGATT
20839730 A
1 A
20839731 AGCTGCAAAA
Statistics
Matches: 727, Mismatches: 8, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
367 544 0.75
368 3 0.00
369 180 0.25
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (367 bp):
ATCTCTGGCCTCATTTCCAAGCTATACTTGTGGCTGCATCTTTGACTCCTTTCTAGCATCAATCT
ATTGAGATGGATCCCTGCACTGACATTTTTAAAACGCAATATATATGCTGCAAGTGGCGACATTA
GTGCATAAAAAGAGATAAAATAACAAGAATGTAAACCAAACAACAATGAGTTAGAAAATATAAAA
ACTAAGTATGTAATGCCTATTATGCATGCTGAATATGCTACAAAAGAGACAAGCAATAGACAAAT
TTAGGGAGAAAATAGGTGTCATTTCTAATTCTATCAATGGATAATTCTCGAAAGAATGGTCATCC
CCACATACACGTAGGAAACAACTTCAAACTGACTTGGTGATT
Found at i:20842396 original size:22 final size:24
Alignment explanation
Indices: 20842370--20842415 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
20842360 TAATCAACCC
*
20842370 AATTAATGAA-ATAATTT-ATGCT
1 AATTAATAAATATAATTTCATGCT
20842392 AATTAATAAATATAATTTCATGCT
1 AATTAATAAATATAATTTCATGCT
20842416 TTTAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.43
23 7 0.33
24 5 0.24
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (24 bp):
AATTAATAAATATAATTTCATGCT
Found at i:20849619 original size:15 final size:12
Alignment explanation
Indices: 20849573--20849612 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
20849563 TTTCCATCTA
**
20849573 TCTTCTTTATCA
1 TCTTCTTTATTT
20849585 TCTTCTTTATTT
1 TCTTCTTTATTT
20849597 TCTTCTTTATTGT
1 TCTTCTTTATT-T
20849610 TCT
1 TCT
20849613 AATCTTTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 21 0.84
13 4 0.16
ACGTcount: A:0.10, C:0.20, G:0.03, T:0.68
Consensus pattern (12 bp):
TCTTCTTTATTT
Found at i:20851994 original size:50 final size:50
Alignment explanation
Indices: 20851821--20851994 Score: 197
Period size: 51 Copynumber: 3.4 Consensus size: 50
20851811 AACAAATGAG
* * * * *
20851821 TTACTTAATGTATGACTTTATTTAAGATGCAAACTTTAACTATCATGAGAA
1 TTACATAATGCATGACATTATTTATGATGCAAAC-TTAACTAACATGAGAA
* * * *
20851872 TTACATAATGCATGTCATAATTTTTTATGCAAACTTAACTAATCATGAGAA
1 TTACATAATGCATGACATTATTTATGATGCAAACTTAACTAA-CATGAGAA
* *
20851923 TTACATAATGCATGTCATTATTTATGATGCATACTTAACTAACATGA-AA
1 TTACATAATGCATGACATTATTTATGATGCAAACTTAACTAACATGAGAA
* *
20851972 GTTAAATAATGCATGACTTTATT
1 -TTACATAATGCATGACATTATT
20851995 AAATGCAGAA
Statistics
Matches: 105, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
49 2 0.02
50 31 0.30
51 72 0.69
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.39
Consensus pattern (50 bp):
TTACATAATGCATGACATTATTTATGATGCAAACTTAACTAACATGAGAA
Found at i:20857452 original size:21 final size:21
Alignment explanation
Indices: 20857413--20857453 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
20857403 TGATCCAGGT
* *
20857413 TATAATTTTTAGTATATTATC
1 TATAATTTTTAATACATTATC
*
20857434 TATAATTTTTAATGCATTAT
1 TATAATTTTTAATACATTAT
20857454 AATAGAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
TATAATTTTTAATACATTATC
Found at i:20860907 original size:23 final size:25
Alignment explanation
Indices: 20860869--20860914 Score: 78
Period size: 23 Copynumber: 1.9 Consensus size: 25
20860859 CAAACTAATA
20860869 CCCAACTTCAAACCCAAACCTTTAT
1 CCCAACTTCAAACCCAAACCTTTAT
20860894 CCCAAC-T-AAACCCAAACCTTT
1 CCCAACTTCAAACCCAAACCTTT
20860915 CTACCCAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 14 0.67
24 1 0.05
25 6 0.29
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (25 bp):
CCCAACTTCAAACCCAAACCTTTAT
Found at i:20864625 original size:15 final size:15
Alignment explanation
Indices: 20864605--20864644 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
20864595 CTCCTGTGTT
*
20864605 AATGACACCTTATCG
1 AATGACACCTTACCG
20864620 AATGACACCTTACCG
1 AATGACACCTTACCG
20864635 AATGACACCT
1 AATGACACCT
20864645 AAGGAACTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.35, C:0.30, G:0.12, T:0.23
Consensus pattern (15 bp):
AATGACACCTTACCG
Found at i:20866939 original size:19 final size:19
Alignment explanation
Indices: 20866915--20866952 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
20866905 CCAATTTGAA
*
20866915 GCATTATGAGATTGAGTTT
1 GCATTAAGAGATTGAGTTT
20866934 GCATTAAGAGATTGAGTTT
1 GCATTAAGAGATTGAGTTT
20866953 AGTGTGGGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.26, T:0.39
Consensus pattern (19 bp):
GCATTAAGAGATTGAGTTT
Found at i:20868159 original size:25 final size:24
Alignment explanation
Indices: 20868114--20868167 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
20868104 TGCCTAAGCC
20868114 CAAACCTCAAACCAATACCCAACTT
1 CAAACCTCAAACCAATACCCAA-TT
**
20868139 CAAACC-CAAACCCTTAGCCCAATT
1 CAAACCTCAAACCAATA-CCCAATT
20868163 -AAACC
1 CAAACC
20868168 AAAAACTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 5 0.19
24 10 0.38
25 11 0.42
ACGTcount: A:0.43, C:0.41, G:0.02, T:0.15
Consensus pattern (24 bp):
CAAACCTCAAACCAATACCCAATT
Found at i:20868359 original size:28 final size:28
Alignment explanation
Indices: 20868314--20868373 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
20868304 ACTGTTAACT
* *
20868314 TTGATCGTTGACCTTTGACAGTTGACTA
1 TTGATCGTTGACCGTTGACAGTTGACCA
* *
20868342 TTGATCGTTGGCCGTTGACTGTTGACCA
1 TTGATCGTTGACCGTTGACAGTTGACCA
20868370 TTGA
1 TTGA
20868374 CTTATGGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.38
Consensus pattern (28 bp):
TTGATCGTTGACCGTTGACAGTTGACCA
Found at i:20868375 original size:14 final size:14
Alignment explanation
Indices: 20868320--20868375 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
20868310 AACTTTGATC
* *
20868320 GTTGACCTTTGACA
1 GTTGACCATTGACT
*
20868334 GTTGACTATTGA-T
1 GTTGACCATTGACT
* *
20868347 CGTTGGCCGTTGACT
1 -GTTGACCATTGACT
20868362 GTTGACCATTGACT
1 GTTGACCATTGACT
20868376 TATGGGTTGA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
14 31 0.97
15 1 0.03
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.38
Consensus pattern (14 bp):
GTTGACCATTGACT
Found at i:20881539 original size:22 final size:23
Alignment explanation
Indices: 20881498--20881554 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
20881488 TAGTCTTAGA
* *
20881498 TTAACTTAATTAAGCTTAATTAT
1 TTAACTTAATTAAACATAATTAT
20881521 TTAAC-TAATTAAACATAATT-T
1 TTAACTTAATTAAACATAATTAT
*
20881542 CTAAGCTTAATTA
1 TTAA-CTTAATTA
20881555 GTCATAATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 4 0.14
22 14 0.48
23 11 0.38
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.44
Consensus pattern (23 bp):
TTAACTTAATTAAACATAATTAT
Found at i:20882479 original size:17 final size:17
Alignment explanation
Indices: 20882447--20882489 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
20882437 AGGAAAAAGT
*
20882447 AGTTACAAGAATATGAAA
1 AGTTA-AAGAAGATGAAA
20882465 AGTTAAAGAAGATGAAA
1 AGTTAAAGAAGATGAAA
*
20882482 GGTTAAAG
1 AGTTAAAG
20882490 GTCAAGGGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.53, C:0.02, G:0.23, T:0.21
Consensus pattern (17 bp):
AGTTAAAGAAGATGAAA
Found at i:20887795 original size:17 final size:17
Alignment explanation
Indices: 20887760--20887801 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
20887750 GGAAAAAGTA
*
20887760 GTTACAAGAATATGAAAG
1 GTTA-AAGAAGATGAAAG
*
20887778 GTTAAAGAAGATGGAAG
1 GTTAAAGAAGATGAAAG
20887795 GTTAAAG
1 GTTAAAG
20887802 GTCAAGGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.29, T:0.21
Consensus pattern (17 bp):
GTTAAAGAAGATGAAAG
Found at i:20888441 original size:40 final size:40
Alignment explanation
Indices: 20888393--20888517 Score: 171
Period size: 40 Copynumber: 3.1 Consensus size: 40
20888383 TTTGTAACAG
*
20888393 AGTCGTGAGATCAGCTCGCACATATCAGAATCATGAACTA
1 AGTCGTGAGATCAGCTCACACATATCAGAATCATGAACTA
*
20888433 AGTTGTGAGATCAGCTCACACATATCAGAATCATGAA-TA
1 AGTCGTGAGATCAGCTCACACATATCAGAATCATGAACTA
* * * * *
20888472 GAGTCATAAGATTAGCTCACACATATCAAAATCATGAACAA
1 -AGTCGTGAGATCAGCTCACACATATCAGAATCATGAACTA
20888513 AGTCG
1 AGTCG
20888518 GCAATAGGTC
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.03
40 71 0.96
41 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (40 bp):
AGTCGTGAGATCAGCTCACACATATCAGAATCATGAACTA
Found at i:20894441 original size:18 final size:19
Alignment explanation
Indices: 20894410--20894446 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
20894400 ATTTGGCCAC
*
20894410 AAAAATCACTTTTTCACTT
1 AAAAATCACATTTTCACTT
20894429 AAAAATCA-ATTTTCACTT
1 AAAAATCACATTTTCACTT
20894447 TAGCATGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAATCACATTTTCACTT
Found at i:20898768 original size:23 final size:22
Alignment explanation
Indices: 20898737--20898792 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
20898727 AAATTAATCA
* *
20898737 ATTTCTGTGACATTTTTTGA-AT
1 ATTTTTGTGACA-GTTTTGAGAT
20898759 ATTTTTTGTGAC-GTTTTGAGAT
1 A-TTTTTGTGACAGTTTTGAGAT
20898781 ATTTTTGTGACA
1 ATTTTTGTGACA
20898793 CTTTCCATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 16 0.55
22 4 0.14
23 9 0.31
ACGTcount: A:0.21, C:0.07, G:0.18, T:0.54
Consensus pattern (22 bp):
ATTTTTGTGACAGTTTTGAGAT
Found at i:20898777 original size:21 final size:21
Alignment explanation
Indices: 20898751--20898791 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
20898741 CTGTGACATT
20898751 TTTTGA-ATATTTTTTGTGACG
1 TTTTGAGATA-TTTTTGTGACG
20898772 TTTTGAGATATTTTTGTGAC
1 TTTTGAGATATTTTTGTGAC
20898792 ACTTTCCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.20, C:0.05, G:0.20, T:0.56
Consensus pattern (21 bp):
TTTTGAGATATTTTTGTGACG
Found at i:20898978 original size:20 final size:20
Alignment explanation
Indices: 20898955--20898995 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
20898945 CCTTTGACCA
*
20898955 TTAGATTTAATGGTTAACTG
1 TTAGATTTAACGGTTAACTG
*
20898975 TTAGATTTAACGGTTGACTG
1 TTAGATTTAACGGTTAACTG
20898995 T
1 T
20898996 CAAGTTCCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.44
Consensus pattern (20 bp):
TTAGATTTAACGGTTAACTG
Found at i:20900664 original size:28 final size:28
Alignment explanation
Indices: 20900633--20900725 Score: 75
Period size: 28 Copynumber: 3.3 Consensus size: 28
20900623 AAACACCGAA
20900633 AAACTCTAGAAAGGTAAACCTTTGTGAC
1 AAACTCTAGAAAGGTAAACCTTTGTGAC
* * *
20900661 AAAC-CTTTGAAAGG-AAATTCCTCTAT-AGC
1 AAACTC-TAGAAAGGTAAA--CCTTTGTGA-C
* *
20900690 AAACTCTAGAAAGGTAAGCCTTTGTGGC
1 AAACTCTAGAAAGGTAAACCTTTGTGAC
*
20900718 AATCTCTA
1 AAACTCTA
20900726 TTAAAGGAAC
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
27 4 0.08
28 25 0.51
29 17 0.35
30 3 0.06
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (28 bp):
AAACTCTAGAAAGGTAAACCTTTGTGAC
Found at i:20904009 original size:4 final size:4
Alignment explanation
Indices: 20904000--20904044 Score: 74
Period size: 4 Copynumber: 11.5 Consensus size: 4
20903990 TATCACCCCA
*
20904000 CATT CATT CATT CATT CATT CATT CATT TATT CATT CATT -ATT CA
1 CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT CA
20904045 CTTTTGAGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 3 0.08
4 35 0.92
ACGTcount: A:0.27, C:0.22, G:0.00, T:0.51
Consensus pattern (4 bp):
CATT
Found at i:20918453 original size:18 final size:18
Alignment explanation
Indices: 20918432--20918486 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
20918422 CATGCTCACC
*
20918432 ATCATGATCATGACCATG
1 ATCATCATCATGACCATG
* * *
20918450 ATCATCACCATCACCATC
1 ATCATCATCATGACCATG
* *
20918468 ATCATCATGATGAACATG
1 ATCATCATCATGACCATG
20918486 A
1 A
20918487 GCATAAACAT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.36, C:0.27, G:0.11, T:0.25
Consensus pattern (18 bp):
ATCATCATCATGACCATG
Found at i:20932405 original size:12 final size:12
Alignment explanation
Indices: 20932390--20932439 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
20932380 AGAGGTGATC
*
20932390 AAGAGAAGGATG
1 AAGAGAAGGAAG
* *
20932402 AAGAAAAAGAAG
1 AAGAGAAGGAAG
20932414 AAG-GAAAGGAAG
1 AAGAG-AAGGAAG
20932426 AAGAGAAGGAAG
1 AAGAGAAGGAAG
20932438 AA
1 AA
20932440 ACTGAACCTG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 30 0.97
13 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (12 bp):
AAGAGAAGGAAG
Found at i:20936529 original size:18 final size:19
Alignment explanation
Indices: 20936506--20936541 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
20936496 CAACTAAAAC
20936506 ACTAAGTACAAAC-AATTA
1 ACTAAGTACAAACTAATTA
20936524 ACTAAGTACAAACTAATT
1 ACTAAGTACAAACTAATT
20936542 CCATTTCCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.53, C:0.17, G:0.06, T:0.25
Consensus pattern (19 bp):
ACTAAGTACAAACTAATTA
Found at i:20937671 original size:20 final size:21
Alignment explanation
Indices: 20937605--20937673 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
20937595 TCACTTCGTT
20937605 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
20937626 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
20937647 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
20937668 -CTTTTT
1 TCTTTTT
20937674 TCTTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:20942597 original size:23 final size:23
Alignment explanation
Indices: 20942567--20942898 Score: 475
Period size: 23 Copynumber: 14.4 Consensus size: 23
20942557 TTCTTATATC
20942567 TGTGCTTAAATATTAATGTGATT
1 TGTGCTTAAATATTAATGTGATT
*
20942590 TGTGCTTAAATATTAATATGATT
1 TGTGCTTAAATATTAATGTGATT
* * *
20942613 TGTGCTTAAGTATTAATATGATC
1 TGTGCTTAAATATTAATGTGATT
* *
20942636 TGTGCTCAAATATTAATATGATT
1 TGTGCTTAAATATTAATGTGATT
* *
20942659 TGTGCTCAAATATTAATGTCATT
1 TGTGCTTAAATATTAATGTGATT
* *
20942682 TTTTCTTAAATATTAATGTGATT
1 TGTGCTTAAATATTAATGTGATT
*
20942705 TGTGCTTAAATATTAATGTTATT
1 TGTGCTTAAATATTAATGTGATT
*
20942728 TGTGCTTAAATATTAATATGATT
1 TGTGCTTAAATATTAATGTGATT
*
20942751 TGTGCTCAAATATTAATGTGATT
1 TGTGCTTAAATATTAATGTGATT
* *
20942774 TTTGCTTAAATATTAATGTAATT
1 TGTGCTTAAATATTAATGTGATT
* *
20942797 TATACTTAAATATTAATGTGATT
1 TGTGCTTAAATATTAATGTGATT
*
20942820 TGTGCTTAAATATTAATGTTATT
1 TGTGCTTAAATATTAATGTGATT
* *
20942843 TGTGCTTAAATGTTAATATGATT
1 TGTGCTTAAATATTAATGTGATT
*
20942866 TGTGCTCAAATATTAATGTGATT
1 TGTGCTTAAATATTAATGTGATT
20942889 TGTGCTTAAA
1 TGTGCTTAAA
20942899 CAATTAAGAT
Statistics
Matches: 274, Mismatches: 35, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 274 1.00
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (23 bp):
TGTGCTTAAATATTAATGTGATT
Found at i:20942895 original size:115 final size:115
Alignment explanation
Indices: 20942571--20942898 Score: 557
Period size: 115 Copynumber: 2.9 Consensus size: 115
20942561 TATATCTGTG
* * * *
20942571 CTTAAATATTAATGTGATTTGTGCTTAAATATTAATATGATTTGTGCTTAAGTATTAATATGATC
1 CTTAAATATTAATGTGATTTGTGCTTAAATATTAATGTTATTTGTGCTTAAATATTAATATGATT
* * * * *
20942636 TGTGCTCAAATATTAATATGATTTGTGCTCAAATATTAATGTCATTTTTT
66 TGTGCTCAAATATTAATGTGATTTGTGCTTAAATATTAATGTAATTTATA
20942686 CTTAAATATTAATGTGATTTGTGCTTAAATATTAATGTTATTTGTGCTTAAATATTAATATGATT
1 CTTAAATATTAATGTGATTTGTGCTTAAATATTAATGTTATTTGTGCTTAAATATTAATATGATT
*
20942751 TGTGCTCAAATATTAATGTGATTTTTGCTTAAATATTAATGTAATTTATA
66 TGTGCTCAAATATTAATGTGATTTGTGCTTAAATATTAATGTAATTTATA
*
20942801 CTTAAATATTAATGTGATTTGTGCTTAAATATTAATGTTATTTGTGCTTAAATGTTAATATGATT
1 CTTAAATATTAATGTGATTTGTGCTTAAATATTAATGTTATTTGTGCTTAAATATTAATATGATT
20942866 TGTGCTCAAATATTAATGTGATTTGTGCTTAAA
66 TGTGCTCAAATATTAATGTGATTTGTGCTTAAA
20942899 CAATTAAGAT
Statistics
Matches: 201, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
115 201 1.00
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (115 bp):
CTTAAATATTAATGTGATTTGTGCTTAAATATTAATGTTATTTGTGCTTAAATATTAATATGATT
TGTGCTCAAATATTAATGTGATTTGTGCTTAAATATTAATGTAATTTATA
Found at i:20955651 original size:5 final size:5
Alignment explanation
Indices: 20955641--20955682 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
20955631 ATCGATTAAC
*
20955641 TAATA TAATA TAATA TAACA TAATA TAATA TAATA TAATA TA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA
20955683 TAACTATTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
TAATA
Found at i:20955703 original size:39 final size:39
Alignment explanation
Indices: 20955658--20955758 Score: 121
Period size: 42 Copynumber: 2.5 Consensus size: 39
20955648 ATATAATATA
20955658 ACATAATATAATATAATATAATATATAACTATTACTAAT
1 ACATAATATAATATAATATAATATATAACTATTACTAAT
* * * *
20955697 ACATAATATAATAATATATTATAATGTATTAGTATTACTATT
1 ACATAATATAAT-ATA-A-TATAATATATAACTATTACTAAT
* *
20955739 ACATAAAATAATAAAATATA
1 ACATAATATAATATAATATA
20955759 TTATTACTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
39 16 0.30
40 4 0.08
41 3 0.06
42 30 0.57
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (39 bp):
ACATAATATAATATAATATAATATATAACTATTACTAAT
Found at i:20955712 original size:42 final size:42
Alignment explanation
Indices: 20955665--20955752 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
20955655 ATAACATAAT
*
20955665 ATAATATAATATAATATATAACTATTACTAATACATAATATA
1 ATAATATAATATAATATATAACTATTACTAATACATAAAATA
* * * * *
20955707 ATAATATATTATAATGTATTAGTATTACTATTACATAAAATA
1 ATAATATAATATAATATATAACTATTACTAATACATAAAATA
20955749 ATAA
1 ATAA
20955753 AATATATTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (42 bp):
ATAATATAATATAATATATAACTATTACTAATACATAAAATA
Found at i:20966281 original size:17 final size:17
Alignment explanation
Indices: 20966247--20966300 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
20966237 GGTACATTTT
* *
20966247 TTTTTATGTTTTAATGCA
1 TTTTTAT-TATTACTGCA
20966265 TTTTTATTATTACTGCA
1 TTTTTATTATTACTGCA
* *
20966282 TTTTATGTTATCACTGCA
1 TTTT-TATTATTACTGCA
20966300 T
1 T
20966301 CATTTTGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 12 0.39
18 19 0.61
ACGTcount: A:0.22, C:0.11, G:0.09, T:0.57
Consensus pattern (17 bp):
TTTTTATTATTACTGCA
Found at i:20966297 original size:18 final size:18
Alignment explanation
Indices: 20966248--20966300 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 18
20966238 GTACATTTTT
*
20966248 TTTTATGTT-TTAATGCA
1 TTTTATGTTATTACTGCA
*
20966265 TTTT-TATTATTACTGCA
1 TTTTATGTTATTACTGCA
*
20966282 TTTTATGTTATCACTGCA
1 TTTTATGTTATTACTGCA
20966300 T
1 T
20966301 CATTTTGTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 3 0.10
17 15 0.50
18 12 0.40
ACGTcount: A:0.23, C:0.11, G:0.09, T:0.57
Consensus pattern (18 bp):
TTTTATGTTATTACTGCA
Found at i:20969629 original size:43 final size:43
Alignment explanation
Indices: 20969465--20969627 Score: 186
Period size: 43 Copynumber: 3.8 Consensus size: 43
20969455 TGAATTAACA
** **
20969465 TTATGCTCCCACCGAGTTATAAGTTCTTCCATTTACA-ATAATC
1 TTATGCTCTTACCGAGACATAAG-TCTTCCATTTACATATAATC
20969508 TTATGCTCTTACCGAGACATAAGTTCTTCCATTTACAT-TAATC
1 TTATGCTCTTACCGAGACATAAG-TCTTCCATTTACATATAATC
* * *
20969551 TTATGCTCTTACTGAGACAAAAGTCTTCCATTTATATATAATC
1 TTATGCTCTTACCGAGACATAAGTCTTCCATTTACATATAATC
* * * * *
20969594 TCATGCTCATCCCGAGATATGAGTCTTCCATTTA
1 TTATGCTCTTACCGAGACATAAGTCTTCCATTTA
20969628 TACATCAAGT
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
42 13 0.12
43 91 0.88
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.38
Consensus pattern (43 bp):
TTATGCTCTTACCGAGACATAAGTCTTCCATTTACATATAATC
Found at i:20972554 original size:27 final size:27
Alignment explanation
Indices: 20972522--20972579 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
20972512 GAACTGAATA
20972522 ACTGAATCTGTATTAACTTTCGTGACT
1 ACTGAATCTGTATTAACTTTCGTGACT
20972549 ACTGAATCTGTATTAACTTTCGTGACT
1 ACTGAATCTGTATTAACTTTCGTGACT
20972576 ACTG
1 ACTG
20972580 TTACCCCCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.40
Consensus pattern (27 bp):
ACTGAATCTGTATTAACTTTCGTGACT
Found at i:20973852 original size:20 final size:20
Alignment explanation
Indices: 20973812--20973852 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
20973802 TAGCTGAGAA
*
20973812 AGTTCTACCTATACAAGTAT
1 AGTTCTACCGATACAAGTAT
20973832 AGTTACTACCGATACAA-TAT
1 AGTT-CTACCGATACAAGTAT
20973852 A
1 A
20973853 CACTTTTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (20 bp):
AGTTCTACCGATACAAGTAT
Found at i:20984016 original size:155 final size:155
Alignment explanation
Indices: 20983734--20984201 Score: 909
Period size: 155 Copynumber: 3.0 Consensus size: 155
20983724 AAAAAATTCA
20983734 TTCAAATTCCACTATTAATGGCCGGCCACCCATTGAAGAAGCTTGAAGAGACTAAACCTCTCTAT
1 TTCAAATTCCACTATTAATGGCCGGCCACCCATTGAAGAAGCTTGAAGAGACTAAACCTCTCTAT
20983799 TTTTAGCAAACTACTTTCCTCTCCTCACCTATAAATAAGACCCCATTTCACCATTCCAAATCATC
66 TTTTAGCAAACTACTTTCCTCTCCTCACCTATAAATAAGACCCCATTTCACCATTCCAAATCATC
20983864 CCTCAAACATTCAACATTCTCTGTT
131 CCTCAAACATTCAACATTCTCTGTT
*
20983889 TTCAAATTCCACTATTAATGGTCGGCCACCCATTGAAGAAGCTTGAAGAGACTAAACCTCTCTAT
1 TTCAAATTCCACTATTAATGGCCGGCCACCCATTGAAGAAGCTTGAAGAGACTAAACCTCTCTAT
*
20983954 TTTTAGCAAACTACTTTCCTCTCCTCACCTATAAATAAGACCCCATTTCACCATTCCAAATCACC
66 TTTTAGCAAACTACTTTCCTCTCCTCACCTATAAATAAGACCCCATTTCACCATTCCAAATCATC
20984019 CCTCAAACATTCAACATTCTCTGTT
131 CCTCAAACATTCAACATTCTCTGTT
20984044 TTCAAATTCCACTATTAATGGCCGGCCACCCATTGAAGAAGCTTGAAGAGACTAAACCTCTCTAT
1 TTCAAATTCCACTATTAATGGCCGGCCACCCATTGAAGAAGCTTGAAGAGACTAAACCTCTCTAT
*
20984109 TTTCAGCAAACTACTTTCCTCTCCTCACCTATAAATAAGACCCCATTTCACCATTCCAAATCATC
66 TTTTAGCAAACTACTTTCCTCTCCTCACCTATAAATAAGACCCCATTTCACCATTCCAAATCATC
20984174 CCTCAAACATTCAACATTCTCTGTT
131 CCTCAAACATTCAACATTCTCTGTT
20984199 TTC
1 TTC
20984202 TCTCAATTCT
Statistics
Matches: 308, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
155 308 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.30
Consensus pattern (155 bp):
TTCAAATTCCACTATTAATGGCCGGCCACCCATTGAAGAAGCTTGAAGAGACTAAACCTCTCTAT
TTTTAGCAAACTACTTTCCTCTCCTCACCTATAAATAAGACCCCATTTCACCATTCCAAATCATC
CCTCAAACATTCAACATTCTCTGTT
Found at i:20985617 original size:63 final size:63
Alignment explanation
Indices: 20985476--20985620 Score: 218
Period size: 63 Copynumber: 2.3 Consensus size: 63
20985466 ATCAACCTCA
* *
20985476 CCCTGACCCTCAACACCCTCAACACCTTCACTAACAGCACCCTTACCCGAACCCTCACCACCT
1 CCCTCACCCTCAACACCCTCAACACCTTCACTAACAGCAACCTTACCCGAACCCTCACCACCT
** * * *
20985539 CCCTCATTCTTAACACCCTCAACACCTTCACTAACAGCAATCTTACCCGAACCTTCACCACCT
1 CCCTCACCCTCAACACCCTCAACACCTTCACTAACAGCAACCTTACCCGAACCCTCACCACCT
*
20985602 CCCTTACCCTCAACACCCT
1 CCCTCACCCTCAACACCCT
20985621 TACTCGAACC
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 71 1.00
ACGTcount: A:0.27, C:0.50, G:0.03, T:0.20
Consensus pattern (63 bp):
CCCTCACCCTCAACACCCTCAACACCTTCACTAACAGCAACCTTACCCGAACCCTCACCACCT
Found at i:20985650 original size:39 final size:39
Alignment explanation
Indices: 20985580--20985657 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
20985570 TAACAGCAAT
* * *
20985580 CTTACCCGAACCTTCACCACCTCCCTTACCCTCAACACC
1 CTTACCCGAACCCTCACCACCACCCTCACCCTCAACACC
* * * *
20985619 CTTACTCGAACCCTCACCTCCACTCTCACCCTCACCACC
1 CTTACCCGAACCCTCACCACCACCCTCACCCTCAACACC
20985658 TCCCAAACTC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.22, C:0.55, G:0.03, T:0.21
Consensus pattern (39 bp):
CTTACCCGAACCCTCACCACCACCCTCACCCTCAACACC
Found at i:20985731 original size:6 final size:6
Alignment explanation
Indices: 20985720--20985773 Score: 74
Period size: 6 Copynumber: 9.0 Consensus size: 6
20985710 GCACCCTCAA
* *
20985720 CACCCT CACCCT TACCCT CACCCT CACCCT CACCCT CACCAC- CACCAT
1 CACCCT CACCCT CACCCT CACCCT CACCCT CACCCT CACC-CT CACCCT
20985768 CACCCT
1 CACCCT
20985774 TACGACCTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 41 0.98
7 1 0.02
ACGTcount: A:0.20, C:0.63, G:0.00, T:0.17
Consensus pattern (6 bp):
CACCCT
Found at i:20987449 original size:23 final size:23
Alignment explanation
Indices: 20987423--20987471 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
20987413 AAAATCCCAA
20987423 AAATCTCC-AAATCTTTAAAACCT
1 AAATCTCCAAAAT-TTTAAAACCT
*
20987446 AAATCTCCAAAATTTTGAAACCT
1 AAATCTCCAAAATTTTAAAACCT
20987469 AAA
1 AAA
20987472 ACCTGAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.29
Consensus pattern (23 bp):
AAATCTCCAAAATTTTAAAACCT
Found at i:20987505 original size:31 final size:32
Alignment explanation
Indices: 20987438--20987503 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
20987428 TCCAAATCTT
*
20987438 TAAAACCT--AAATCTCCAAAATTTTGAAACC
1 TAAAACCTGAAAATCCCCAAAATTTTGAAACC
* *
20987468 TAAAACCTGAAAATCCCCAAATTTTTTAAACC
1 TAAAACCTGAAAATCCCCAAAATTTTGAAACC
20987500 TAAA
1 TAAA
20987504 CCAACATCTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 8 0.26
32 23 0.74
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (32 bp):
TAAAACCTGAAAATCCCCAAAATTTTGAAACC
Found at i:20988294 original size:14 final size:13
Alignment explanation
Indices: 20988263--20988301 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
20988253 TTCAACTAGT
20988263 ATAATA-ATAAATA
1 ATAATATAT-AATA
20988276 ATAATATATAATA
1 ATAATATATAATA
20988289 AGTAATATATAAT
1 A-TAATATATAAT
20988302 GTACTACTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (13 bp):
ATAATATATAATA
Found at i:20988335 original size:20 final size:19
Alignment explanation
Indices: 20988262--20988335 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 19
20988252 TTTCAACTAG
* *
20988262 TATAATAATAAATAATAATA
1 TATAATAGTATAT-ATAATA
*
20988282 TATAATAAGTAATATATAATG
1 TATAAT-AGT-ATATATAATA
* *
20988303 TACTACTATTATATATAACTA
1 TA-TAATAGTATATATAA-TA
20988324 TATAATAGTATA
1 TATAATAGTATA
20988336 GATTATAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
20 22 0.52
21 14 0.33
22 6 0.14
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (19 bp):
TATAATAGTATATATAATA
Found at i:20988398 original size:2 final size:2
Alignment explanation
Indices: 20988391--20988430 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
20988381 TCATTTATGC
20988391 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
20988431 CTAGGAGGCC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:20988522 original size:14 final size:14
Alignment explanation
Indices: 20988505--20988538 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
20988495 AAAAATAAAC
20988505 AATAATAGATAATA
1 AATAATAGATAATA
*
20988519 AATAATATATAATA
1 AATAATAGATAATA
*
20988533 TATAAT
1 AATAAT
20988539 GCACTACTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
AATAATAGATAATA
Found at i:20988624 original size:225 final size:227
Alignment explanation
Indices: 20988332--20988870 Score: 614
Period size: 232 Copynumber: 2.4 Consensus size: 227
20988322 TATATAATAG
* * * *
20988332 TATAGATTATAATAAAAAATATAGTATTGCATGATATTATAATATCTAATCATTTATGCATATAT
1 TATAGATTATAATAAAAGATATAGTATTGCATGATATTATAATGTTTAATCATTGATGCATATAT
* *
20988397 ATATA-TA-T-ATATA-TATATA-TATAT-ATATGATAT-AC-T-AGGAGGCCTAACATTGAAAT
66 ATAAACTATTAATATATTATATACTATATGATATGATATAACATAAGGAGGCCTAACATTCAAAT
* * * * * *
20988453 GTATGAAAAGTACT-AAGATTTAGAATATATTTCAATCAATATAAAAATAAACAATAATAGATAA
131 GTACGAAAACTA-TAAAGACTTAGAACATATTTCAACCAACATAAAAATAAACAATAATAGATAA
*
20988517 TAAATAATATATAATATATAATGCACTACTATTATTATAT
195 T-AAT-A-AT-TAATATATAATG---TACTACTATTATAT
* * * *
20988557 TATAGATTATAATAAAAGATATTGTATTACATGATATTATAATGTTTAATTATTGATACATATAT
1 TATAGATTATAATAAAAGATATAGTATTGCATGATATTATAATGTTTAATCATTGATGCATATAT
* *
20988622 ATAAACTATTAATATATTATATACTATATGATATGATATAACATTATAGAAGGAGGGCTAACTTT
66 ATAAACTATTAATATATTATATACTATATGATATGATATAAC---AT--AAGGAGGCCTAACATT
* * * * * *
20988687 CAAATGTACGAAAACTATAAAGACTTAGAGCATATTTCAACCAGCATAACAATAGATAATAATAT
126 CAAATGTACGAAAACTATAAAGACTTAGAACATATTTCAACCAACATAAAAATAAACAATAATAG
* *
20988752 ATGATAATAATTAATATATAATGTACTGCTATTATAT
191 ATAATAATAATTAATATATAATGTACTACTATTATAT
* *
20988789 TATAAAATATAATAAAAGATATAGTATTGCATGATATTATAA-GATTTAATCATTGATGCATATA
1 TATAGATTATAATAAAAGATATAGTATTGCATGATATTATAATG-TTTAATCATTGATGCATATA
20988853 TATAAACTATTAATATAT
65 TATAAACTATTAATATAT
20988871 AGTAGTACAT
Statistics
Matches: 265, Mismatches: 33, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
225 61 0.23
226 2 0.01
227 1 0.00
228 5 0.02
229 6 0.02
230 5 0.02
231 10 0.04
232 88 0.33
235 12 0.05
236 3 0.01
237 1 0.00
238 4 0.02
239 67 0.25
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (227 bp):
TATAGATTATAATAAAAGATATAGTATTGCATGATATTATAATGTTTAATCATTGATGCATATAT
ATAAACTATTAATATATTATATACTATATGATATGATATAACATAAGGAGGCCTAACATTCAAAT
GTACGAAAACTATAAAGACTTAGAACATATTTCAACCAACATAAAAATAAACAATAATAGATAAT
AATAATTAATATATAATGTACTACTATTATAT
Found at i:20988638 original size:17 final size:18
Alignment explanation
Indices: 20988616--20988662 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
20988606 TTATTGATAC
20988616 ATATATATAAACTAT-TA
1 ATATATATAAACTATATA
* *
20988633 ATATATTATATACTATATG
1 ATATA-TATAAACTATATA
20988652 ATATGATATAA
1 ATAT-ATATAA
20988663 CATTATAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 5 0.21
18 9 0.38
19 9 0.38
20 1 0.04
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (18 bp):
ATATATATAAACTATATA
Found at i:20989750 original size:23 final size:22
Alignment explanation
Indices: 20989723--20989769 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
20989713 TTTTGTTTTC
*
20989723 TTTATTTATCTATGTTTTGAATT
1 TTTATTTATCTAT-TCTTGAATT
* *
20989746 TTTATTTTTTTATTCTTGAATT
1 TTTATTTATCTATTCTTGAATT
20989768 TT
1 TT
20989770 CTTTTAGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.70
Consensus pattern (22 bp):
TTTATTTATCTATTCTTGAATT
Found at i:20990129 original size:19 final size:17
Alignment explanation
Indices: 20990104--20990155 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
20990094 AAAGAAAAAG
20990104 AAAAAAATTGAAAAATCA
1 AAAAAAATTGAAAAA-CA
* *
20990122 AGAAAAAAATGAAAAAGA
1 A-AAAAAATTGAAAAACA
20990140 AAAAAAATATGAAAAA
1 AAAAAAAT-TGAAAAA
20990156 GAATTCAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 6 0.21
18 10 0.34
19 13 0.45
ACGTcount: A:0.77, C:0.02, G:0.10, T:0.12
Consensus pattern (17 bp):
AAAAAAATTGAAAAACA
Found at i:20990156 original size:18 final size:18
Alignment explanation
Indices: 20990097--20990158 Score: 76
Period size: 18 Copynumber: 3.5 Consensus size: 18
20990087 CCAACAAAAA
20990097 GAAAAAG-AAAAAAAT-T
1 GAAAAAGAAAAAAAATAT
*
20990113 GAAAAATCAAGAAAAAA-AT
1 GAAAAA-GAA-AAAAAATAT
20990132 GAAAAAGAAAAAAAATAT
1 GAAAAAGAAAAAAAATAT
20990150 GAAAAAGAA
1 GAAAAAGAA
20990159 TTCAAGTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 6 0.15
17 6 0.15
18 14 0.36
19 13 0.33
ACGTcount: A:0.76, C:0.02, G:0.13, T:0.10
Consensus pattern (18 bp):
GAAAAAGAAAAAAAATAT
Found at i:21007310 original size:33 final size:33
Alignment explanation
Indices: 21007262--21007327 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
21007252 TGAATAGATT
*
21007262 GCTCCCCCTTAATAAAAGTCATTTTCAATTTAA
1 GCTCCCCCTTAATAAAAATCATTTTCAATTTAA
21007295 GCTCCCCC-TATATAAAAATCATTTTCAATTTAA
1 GCTCCCCCTTA-ATAAAAATCATTTTCAATTTAA
21007328 TGCATAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 2 0.06
33 29 0.94
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.36
Consensus pattern (33 bp):
GCTCCCCCTTAATAAAAATCATTTTCAATTTAA
Done.