Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 62 of 297
Found at i:21948443 original size:22 final size:22
Alignment explanation
Indices: 21948418--21948482 Score: 58
Period size: 25 Copynumber: 2.8 Consensus size: 22
21948408 CTTTTTTTTC
21948418 ATTATTCTATTTTAATTTTAAT
1 ATTATTCTATTTTAATTTTAAT
* *
21948440 ATTATTCATAGTATTATATTTTAGT
1 ATTATTC-TA-TTTTA-ATTTTAAT
* * *
21948465 ATTGTTATATTTTTATTT
1 ATTATTCTATTTTAATTT
21948483 ATTAACACCT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
22 11 0.32
23 5 0.15
24 6 0.18
25 12 0.35
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (22 bp):
ATTATTCTATTTTAATTTTAAT
Found at i:21950348 original size:22 final size:22
Alignment explanation
Indices: 21950287--21950351 Score: 58
Period size: 25 Copynumber: 2.8 Consensus size: 22
21950277 GAGGGTTAAT
* * *
21950287 AAATAAAAATATAACAATACTA
1 AAATTAAAATAGAATAATACTA
* *
21950309 AAATATAATACTATGAATAATATTA
1 AAAT-TAA-AATA-GAATAATACTA
21950334 AAATTAAAATAGAATAAT
1 AAATTAAAATAGAATAAT
21950352 GAAAAAAAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
22 11 0.32
23 5 0.15
24 6 0.18
25 12 0.35
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (22 bp):
AAATTAAAATAGAATAATACTA
Found at i:21954468 original size:6 final size:6
Alignment explanation
Indices: 21954457--21954488 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
21954447 CTTTCTCTCC
21954457 TATACA TATACA TATACA TATACA TATACA TA
1 TATACA TATACA TATACA TATACA TATACA TA
21954489 AGCTCACTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
TATACA
Found at i:21959327 original size:53 final size:53
Alignment explanation
Indices: 21959269--21959375 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
21959259 GAAGGCCAAA
21959269 TTTAGGTCTACGTGAAAGTCCAGAGAAAAATTGGGGTTCGAGAGTCAGTTACG
1 TTTAGGTCTACGTGAAAGTCCAGAGAAAAATTGGGGTTCGAGAGTCAGTTACG
*
21959322 TTTAGGTCTACGTGAAAGTCCAGAGAAAAATTGGGGTTCGGGAGTCAGTTACG
1 TTTAGGTCTACGTGAAAGTCCAGAGAAAAATTGGGGTTCGAGAGTCAGTTACG
21959375 T
1 T
21959376 GCGAGGAAGG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (53 bp):
TTTAGGTCTACGTGAAAGTCCAGAGAAAAATTGGGGTTCGAGAGTCAGTTACG
Found at i:21960644 original size:59 final size:59
Alignment explanation
Indices: 21960551--21960664 Score: 203
Period size: 59 Copynumber: 1.9 Consensus size: 59
21960541 GAAAGAAAAT
21960551 CCGGCCAAGGGGGGGCCGGTCACCAGTCGATCGTCGGTCGCCGCCTATCGCTGGCCACCG
1 CCGGCCAAGGGGGGGCCGGTCACCAGTCGATCGTCGGTCGCCGCCTA-CGCTGGCCACCG
*
21960611 CCGGCCAA-GGGGGGCCGGTCACCAGTCGATCGTCGGTCGCCGCCTACGGTGGCC
1 CCGGCCAAGGGGGGGCCGGTCACCAGTCGATCGTCGGTCGCCGCCTACGCTGGCC
21960665 GGAAAAGGTA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
58 7 0.13
59 38 0.72
60 8 0.15
ACGTcount: A:0.11, C:0.38, G:0.38, T:0.13
Consensus pattern (59 bp):
CCGGCCAAGGGGGGGCCGGTCACCAGTCGATCGTCGGTCGCCGCCTACGCTGGCCACCG
Found at i:21961051 original size:18 final size:19
Alignment explanation
Indices: 21961024--21961068 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
21961014 AGGGTTTCTT
21961024 GGTTTGTTTTTT-GGGGTTA
1 GGTTT-TTTTTTGGGGGTTA
21961043 -G-TTTTTTTTGGGGGTTA
1 GGTTTTTTTTTGGGGGTTA
21961060 GGTTTTTTT
1 GGTTTTTTT
21961069 GGGGGGGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 6 0.26
17 9 0.39
18 2 0.09
19 6 0.26
ACGTcount: A:0.04, C:0.00, G:0.33, T:0.62
Consensus pattern (19 bp):
GGTTTTTTTTTGGGGGTTA
Found at i:21961056 original size:17 final size:17
Alignment explanation
Indices: 21961030--21961073 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
21961020 TCTTGGTTTG
*
21961030 TTTTTT-GGGGTTAGTT
1 TTTTTTGGGGGTTAGGT
21961046 TTTTTTGGGGGTTAGGT
1 TTTTTTGGGGGTTAGGT
21961063 TTTTTTGGGGG
1 TTTTTTGGGGG
21961074 GGGCTTAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 6 0.23
17 20 0.77
ACGTcount: A:0.05, C:0.00, G:0.39, T:0.57
Consensus pattern (17 bp):
TTTTTTGGGGGTTAGGT
Found at i:21961073 original size:18 final size:17
Alignment explanation
Indices: 21961036--21961074 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
21961026 TTTGTTTTTT
*
21961036 GGGGTTAGTTTTTTTTG
1 GGGGTTAGTTTTTTTGG
21961053 GGGGTTAGGTTTTTTTGG
1 GGGGTTA-GTTTTTTTGG
21961071 GGGG
1 GGGG
21961075 GGCTTAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.05, C:0.00, G:0.46, T:0.49
Consensus pattern (17 bp):
GGGGTTAGTTTTTTTGG
Found at i:21961985 original size:78 final size:78
Alignment explanation
Indices: 21961846--21962063 Score: 246
Period size: 78 Copynumber: 2.8 Consensus size: 78
21961836 ATATGTGACT
* * *
21961846 CAAGGCTCAACTCACCTCTCGCAATATGAGTTG---TTTTTTGAAAAATATAAATTGAAAAAAAT
1 CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTG---AAAAT
* * * *
21961908 ACCTCCGTGTGTAATC
63 ACCTCAGCGCGTAAGC
* *
21961924 TGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATAG
1 -CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATAC
*
21961988 CTCAGCGCGTGAGC
65 CTCAGCGCGTAAGC
** *
21962002 CAAGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTTTTTGAAAGGCAGAAATTGAAAA
1 CAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTGAAAGACAGAAATTGAAAA
21962064 ACGAAAATTG
Statistics
Matches: 120, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
77 2 0.02
78 72 0.60
79 28 0.23
81 18 0.15
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (78 bp):
CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACC
TCAGCGCGTAAGC
Found at i:21962210 original size:76 final size:75
Alignment explanation
Indices: 21962067--21962209 Score: 225
Period size: 74 Copynumber: 1.9 Consensus size: 75
21962057 TTGAAAAACG
* *
21962067 AAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTT
1 AAAATTGAAAATACCTCGGCGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTCGATTT
21962132 TTTTGACAACA
65 TTTTGACAACA
* * *
21962143 AAAATTGAAATTACCTCTGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTT
1 AAAATTGAAAATACCTCGGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTCGATTTT
21962207 TTT
66 TTT
21962210 TAAAAGGTAG
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 40 0.65
76 22 0.35
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (75 bp):
AAAATTGAAAATACCTCGGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTCGATTTT
TTTGACAACA
Found at i:21962254 original size:166 final size:167
Alignment explanation
Indices: 21961903--21962468 Score: 857
Period size: 166 Copynumber: 3.4 Consensus size: 167
21961893 TAAATTGAAA
* * * * * * *
21961903 AAAATACCTCCGTGTGTAATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGA
1 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGA-TTTTTTTGA
* * * * *
21961968 AAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAG
65 CA-ACAGAAATTGAAATTACCTCA--GCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
21962032 TCAATTTTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTG
126 TCGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTG
21962074 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGAC
1 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGAC
* *
21962139 AACAAAAATTGAAATTACCTCTGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGA-
66 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGAT
* * *
21962203 TTTTTTTTAAAAGGTAGAAATTGAAAAACGGAAATTG
131 TTTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTG
*
21962240 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTTTGAC
1 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGAC
* *
21962305 AACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGAT
21962370 TTTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTG
131 TTTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTG
* * *
21962407 AAAATACCTCGGCGTGTGACCTGAGACTCAACTTGCCTCTCGCAATACGGGTTGATTTTTTT
1 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTT
21962469 TTGAAAATAC
Statistics
Matches: 363, Mismatches: 30, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
166 160 0.44
167 128 0.35
169 17 0.05
170 10 0.03
171 48 0.13
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (167 bp):
AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGAC
AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGAT
TTTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTG
Found at i:21962313 original size:90 final size:89
Alignment explanation
Indices: 21962144--21962318 Score: 235
Period size: 92 Copynumber: 1.9 Consensus size: 89
21962134 TTGACAACAA
* * * *
21962144 AAATTGAAATTACCTCTGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTT
1 AAATTGAAAATACCTCGGCGTGTCCTGAGGCTCAACTCACCGCTCGCAATACGAGTCGATTTTTT
* *
21962209 TTAAAAGGTAGAAATTGAAAAACGG
66 TGAAAA-GCAGAAATTGAAAAACGG
* *
21962234 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTT
1 AAATTGAAAATACCTCGGCGTGT--CCTGAGGCTCAACTCACCGCTCGCAATACGAGTCGATTTT
*
21962299 TTTGACAA-CAGAAATTGAAA
64 TTTGAAAAGCAGAAATTGAAA
21962319 TTACCTCAGT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
90 32 0.43
92 42 0.57
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (89 bp):
AAATTGAAAATACCTCGGCGTGTCCTGAGGCTCAACTCACCGCTCGCAATACGAGTCGATTTTTT
TGAAAAGCAGAAATTGAAAAACGG
Found at i:21962356 original size:74 final size:75
Alignment explanation
Indices: 21962233--21962375 Score: 216
Period size: 74 Copynumber: 1.9 Consensus size: 75
21962223 TTGAAAAACG
* *
21962233 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTC-GAGTGTGACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTT
21962298 TTTTGACAACA
65 TTTTGACAACA
* * * *
21962309 GAAATTGAAATTACCTC-AGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCGAGTGTGACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
21962373 TTT
66 TTT
21962376 TTGAAAGGCA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 45 0.74
76 16 0.26
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGAGTGTGACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
TTTGACAACA
Found at i:21962645 original size:62 final size:62
Alignment explanation
Indices: 21962541--21962800 Score: 333
Period size: 62 Copynumber: 4.1 Consensus size: 62
21962531 AAAACAGAAA
* * * * *
21962541 TTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACATCTCGTAATATGAGTTGATTTTTT
1 TTGAAAATACCTCAGCGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
* * *
21962603 TTTAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAACATACAAA
1 TTGAAAATACCTCAGCGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A-AT----T
***
21962668 AAA
60 TTT
* *
21962671 TTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
1 TTGAAAATACCTCAGCGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
*
21962733 TTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA-TTTT
1 TTGAAAATACCTCAGCGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
21962794 TTGAAAA
1 TTGAAAA
21962801 ACAGAAGTTG
Statistics
Matches: 170, Mismatches: 22, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
61 11 0.06
62 103 0.61
63 1 0.01
64 1 0.01
66 2 0.01
67 1 0.01
68 51 0.30
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (62 bp):
TTGAAAATACCTCAGCGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
Found at i:21962724 original size:130 final size:134
Alignment explanation
Indices: 21962390--21963019 Score: 632
Period size: 130 Copynumber: 4.6 Consensus size: 134
21962380 AAGGCAGAAA
* * * ** *
21962390 TTGAAAAACGAAAATTGAAAATACCTCGGCGTGTGACCTGAGACTCAACTTGCCTCTCGCAATAC
1 TTGAAAAAC--AAATTGAAAATACCTCAGCGTGT-ACCCGAGGCTCAACTCACCTCTCGCAATAT
* * * * **
21962455 GGGTTGATTTTTTTTTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
63 GAGTTGATTTTTTTTT-AAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
21962520 GTTGAATT
127 GTTGAATT
* * * *
21962528 TTGAAAACAGAAATTGAAATTACCTCAGCGTGT-CCCGAGGCTCAACTCACATCTCGTAATATGA
1 TTGAAAA-ACAAATTGAAAATACCTCAGCGTGTACCCGAGGCTCAACTCACCTCTCGCAATATGA
21962592 GTTGATTTTTTTTTAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
65 GTTGATTTTTTTTTAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
21962657 GAA-C
130 GAATT
* * *
21962661 AT-ACAAA-AAATTGACAATACCTCAGCGTGT-CCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAAACAAATTGAAAATACCTCAGCGTGTACCCGAGGCTCAACTCACCTCTCGCAATATGAG
* *
21962723 TTGAATTTTTTTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
66 TTGATTTTTTTTTAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
21962788 AATTTT
131 AA--TT
* *
21962794 TTGAAAAACAGAAGTTGAAAACACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACA-AA-TTGAAAATACCTCAGCGTGT-ACCCGAGGCTCAACTCACCTCTCGCAATAT
* *
21962859 GAGTTGATTTTTTTGACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCC-AAGGCTCAACTC
63 GAGTTGATTTTTTT------------TT--AAAATACCTCAGCGCGT---CCTGAGGCTCAACTC
* * *
21962923 ATCTCTCGCAATATAAGTTGATTTT
111 ACCTCTCGCAATATGAGTTGA-ATT
* * *
21962948 TTGAAAAACAGAAATTGAAAACACCTCAGCATGT----GAGGCTCAACTTACCTCTCGCAATATG
1 TTGAAAAAC--AAATTGAAAATACCTCAGCGTGTACCCGAGGCTCAACTCACCTCTCGCAATATG
21963009 AGTTGATTTTT
64 AGTTGATTTTT
21963020 GAAAAACATA
Statistics
Matches: 422, Mismatches: 40, Indels: 49
0.83 0.08 0.10
Matches are distributed among these distances:
130 116 0.27
131 1 0.00
132 3 0.01
133 2 0.00
134 53 0.13
135 38 0.09
136 2 0.00
137 39 0.09
138 7 0.02
139 42 0.10
149 37 0.09
151 1 0.00
153 16 0.04
154 30 0.07
155 32 0.08
156 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (134 bp):
TTGAAAAACAAATTGAAAATACCTCAGCGTGTACCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTTTAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
AATT
Found at i:21962845 original size:77 final size:75
Alignment explanation
Indices: 21962733--21963035 Score: 404
Period size: 77 Copynumber: 4.1 Consensus size: 75
21962723 TTGAATTTTT
* *
21962733 TTGAAAATACCTCAGCGCGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTG
1 TTGAAAACACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTG
*
21962797 AAAAACAGAAG
65 AAAAACAGAAA
21962808 TTGAAAACACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAACACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT
*
21962873 GACAAACAGAAA
64 GAAAAACAGAAA
* * * *
21962885 TTGAAAAATACCTCAGCGTGTAAGCC-AAGGCTCAACTCATCTCTCGCAATATAAGTTGATTTTT
1 TTG-AAAACACCTCAGCGTGT--GCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
21962949 TGAAAAACAGAAA
63 TGAAAAACAGAAA
* *
21962962 TTGAAAACACCTCAGC--ATG--TGAGGCTCAACTTACCTCTCGCAATATGAGTTGA-TTTTTGA
1 TTGAAAACACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA
*
21963022 AAAACATAAA
66 AAAACAGAAA
21963032 TTGA
1 TTGA
21963036 GCAGAAATTG
Statistics
Matches: 205, Mismatches: 16, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
70 20 0.10
71 29 0.14
72 1 0.00
74 1 0.00
75 18 0.09
76 13 0.06
77 74 0.36
78 46 0.22
79 2 0.01
80 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (75 bp):
TTGAAAACACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA
AAAACAGAAA
Found at i:21963203 original size:71 final size:71
Alignment explanation
Indices: 21963087--21963222 Score: 236
Period size: 71 Copynumber: 1.9 Consensus size: 71
21963077 AAAAAAATAA
*
21963087 AAATTGAAAATACCTCAATGGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAATGGGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
21963152 GATGAT
66 GATGAT
* * *
21963158 AAATTGAAAATGCCTCAATGTGACTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAATGGGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
21963223 AAATTAAAAC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (71 bp):
AAATTGAAAATACCTCAATGGGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GATGAT
Found at i:21963346 original size:88 final size:86
Alignment explanation
Indices: 21963181--21963347 Score: 228
Period size: 88 Copynumber: 1.9 Consensus size: 86
21963171 CTCAATGTGA
* * *
21963181 CTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAATTAAAACAGAAATTGAAAAT
1 CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTT--ATTAAAACAGAAATTAAAAAA
*
21963246 AGAAATGGAAAACACCTCAGCGT
64 AGAAATGAAAAACACCTCAGCGT
*
21963269 CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTT-TTAAACACATAAATTAAAAAAA
1 CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTATTAAA-ACAGAAATT--AAAAA
*
21963333 AAGAAATTAAAAACA
63 AAGAAATGAAAAACA
21963348 GAATTTGAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
85 5 0.07
86 8 0.11
88 57 0.81
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (86 bp):
CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTATTAAAACAGAAATTAAAAAAAG
AAATGAAAAACACCTCAGCGT
Found at i:21963471 original size:75 final size:74
Alignment explanation
Indices: 21963342--21963656 Score: 354
Period size: 77 Copynumber: 4.2 Consensus size: 74
21963332 AAAGAAATTA
* ** *
21963342 AAAACAGAATTTGAAAGGACCTC-GACGTGTGGCCCGAGACTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAG-CGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
21963406 TTGATTCTTTTG
63 TTGATTTTTTTG
21963418 AAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
21963483 GATTTTTTTG
65 GATTTTTTTG
* * * *
21963493 ATAAAAATAGAATTTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 ---AAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
21963558 TTGA--TTTTTG
63 TTGATTTTTTTG
* * * ** * *
21963568 ACAAACAAAAATTGAAATTACCTCAGC--ATCTTGAGGCTCAACTCGCTTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
21963631 GATTTTTTTG
65 GATTTTTTTG
* *
21963641 -AAACATAAATTAAAAA
1 AAAACAGAAATTGAAAA
21963657 AATAAAAATT
Statistics
Matches: 210, Mismatches: 21, Indels: 21
0.83 0.08 0.08
Matches are distributed among these distances:
71 47 0.22
72 1 0.00
73 26 0.12
75 48 0.23
76 4 0.02
77 79 0.38
78 5 0.02
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (74 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTG
Found at i:21963544 original size:77 final size:77
Alignment explanation
Indices: 21963381--21963743 Score: 410
Period size: 77 Copynumber: 4.7 Consensus size: 77
21963371 TGGCCCGAGA
* **
21963381 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTG--AAAAGCAGAAATTGAAAATACCTCAG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAATAGAAATTGAAAATACCTCAG
*
21963444 CGTGTCCCGAGG
66 CGTGTCCTGAGG
* *
21963456 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAATAGAATTTGAAAATATCTCAG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAATAGAAATTGAAAATACCTCAG
21963521 CGTGTCCTGAGG
66 CGTGTCCTGAGG
* * *
21963533 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACA-A-AAATTGAAATTACCTCAG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAATAGAAATTGAAAATACCTCAG
* *
21963594 C--ATCTTGAGG
66 CGTGTCCTGAGG
* * *
21963604 CTCAACTCGCTTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTAAAAAAATAAAAATTGA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG--------A-T--AAAAATAGAAATTGA
21963669 AAATACCTCAGCGTGTCCTGAGG
55 AAATACCTCAGCGTGTCCTGAGG
21963692 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG--AAAAATAGAAATT-AAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAATAGAAATTGAAAA
21963744 GTAGAAATTG
Statistics
Matches: 246, Mismatches: 23, Indels: 41
0.79 0.07 0.13
Matches are distributed among these distances:
71 34 0.14
72 4 0.02
73 34 0.14
74 1 0.00
75 47 0.19
77 62 0.25
81 1 0.00
84 4 0.02
85 1 0.00
86 24 0.10
88 34 0.14
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.30
Consensus pattern (77 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAATAGAAATTGAAAATACCTCAG
CGTGTCCTGAGG
Found at i:21963603 original size:416 final size:407
Alignment explanation
Indices: 21963079--21963899 Score: 1037
Period size: 416 Copynumber: 2.0 Consensus size: 407
21963069 CATAAATTAA
* *
21963079 AAAAATAAAAATTGAAAATACCTCAATGGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAATAAAAATTGAAAATACCTCAACGGGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
** * * * *
21963144 GATTTTTTGATGATAAATTGAAAATGCCTCAATGTGACTTGAGGTTCAACTCACCTCTCGCAATA
66 GATTTTTTGAACAAAAATTGAAAATACCTCAATGTCACTTGAGGCTCAACTCACCTCTCGCAATA
* * *
21963209 TGAGTTGATTTTTTAAATTAAAACAGAAATT-GAAAATAGAAATGGAAAACACCTCAGC-GTCTT
131 TGAGTTGA-TTTTT---TTAAAACAGAAATTAAAAAATAAAAATGGAAAACACCTCAGCGGTCCT
* * * *
21963272 GAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTTAAACACATAAATTAAAAAAAAAGA
192 GAGGCTCAACTCACCTCTCGCAATATGAGCTGA--TTTTTGAAAAACAGAAATT--AAAAAAAGA
** * *
21963337 AATT-AAAAACAG-AATTTGAAAGGACCTCGACGTGTGGCCCGAGACTCAACTCACCTCTCGCAA
253 AATTGAAAAACAGAAATTAAAAAGG-CCTCG--GCGTGCCCCGAGACTCAACTCACCTCTCGCAA
21963400 TATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCA
315 TATGAGTTGA-T-TTTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCA
*
21963465 CCTCTCGCAATATGAGTTGATTTTTTTGAT
378 CCTCTCACAATATGAGTTGATTTTTTTGAT
* * * * *
21963495 AAAAATAGAATTTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAATAAAAATTGAAAATACCTCAACGGGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
21963560 GA-TTTTTGACAAACAAAAATTGAAATTACCTC-A-G-CATCTTGAGGCTCAACTCGCTTCTCGC
66 GATTTTTTG---AACAAAAATTGAAAATACCTCAATGTCA-CTTGAGGCTCAACTCACCTCTCGC
* * * *
21963621 AATATGAGTTGATTTTTTTGAAACATAAATTAAAAAAATAAAAATTGAAAATACCTCAGCGTGTC
127 AATATGAGTTGATTTTTTTAAAACAGAAATT-AAAAAATAAAAATGGAAAACACCTCAGCG-GTC
* * **
21963686 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGTAGAAA
190 CTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAACAGAAATTAAAAAAAGAAA
* * *
21963751 TTGAAAAACAGAAATTAAAAATGCCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGA
255 TTGAAAAACAGAAATTAAAAAGGCCTCGGCGTGCCCCGAGACTCAACTCACCTCTCGCAATATGA
* * *
21963816 GTTGATTTTTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCA
320 GTTGATTTTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCA
21963881 CAATATGAGTTGATTTTTT
385 CAATATGAGTTGATTTTTT
21963900 GAAAAGCATA
Statistics
Matches: 353, Mismatches: 42, Indels: 27
0.84 0.10 0.06
Matches are distributed among these distances:
409 74 0.21
410 1 0.00
411 38 0.11
412 23 0.07
413 13 0.04
414 46 0.13
415 12 0.03
416 129 0.37
417 1 0.00
418 16 0.05
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (407 bp):
AAAAATAAAAATTGAAAATACCTCAACGGGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTGAACAAAAATTGAAAATACCTCAATGTCACTTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTTAAAACAGAAATTAAAAAATAAAAATGGAAAACACCTCAGCGGTCCTGAGG
CTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAACAGAAATTAAAAAAAGAAATTGAAA
AACAGAAATTAAAAAGGCCTCGGCGTGCCCCGAGACTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATAT
GAGTTGATTTTTTTGAT
Found at i:21963739 original size:88 final size:85
Alignment explanation
Indices: 21963574--21963743 Score: 234
Period size: 88 Copynumber: 2.0 Consensus size: 85
21963564 TTTGACAAAC
* * * *
21963574 AAAAATTGAAATTACCTCAGCATCTTGAGGCTCAACTCGCTTCTCGCAATATGAGTTGATTTTTT
1 AAAAATTGAAAATACCTCAGCATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
*
21963639 TGAAACATAAATTAAAAAAAT
65 TGAAAAATAAATTAAAAAAAT
*
21963660 AAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
1 AAAAATTGAAAATACCTCAGC--ATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
21963724 TTGAAAAATAGAAATTAAAA
64 TTGAAAAAT--AAATTAAAA
21963744 GTAGAAATTG
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
86 31 0.42
88 43 0.58
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (85 bp):
AAAAATTGAAAATACCTCAGCATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAAATAAATTAAAAAAAT
Found at i:21963753 original size:86 final size:84
Alignment explanation
Indices: 21963574--21963757 Score: 228
Period size: 86 Copynumber: 2.1 Consensus size: 84
21963564 TTTGACAAAC
* * * *
21963574 AAAAATTGAAATTACCTCAGCATCTTGAGGCTCAACTCGCTTCTCGCAATATGAGTTGATTTTTT
1 AAAAATTGAAAATACCTCAGCATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
*
21963639 TGAAACATAAATTAAAAAAAT
65 TGAAAAATAAATT-AAAAAAT
*
21963660 AAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
1 AAAAATTGAAAATACCTCAGC--ATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
21963724 TTGAAAAATAGAAATT-AAAAGT
64 TTGAAAAAT--AAATTAAAAAAT
*
21963746 AGAAATTGAAAA
1 AAAAATTGAAAA
21963758 ACAGAAATTA
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
86 47 0.55
88 39 0.45
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (84 bp):
AAAAATTGAAAATACCTCAGCATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAAATAAATTAAAAAAT
Found at i:21963763 original size:14 final size:13
Alignment explanation
Indices: 21963727--21963772 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
21963717 TTGATTTTTG
21963727 AAAAATAGAAATT
1 AAAAATAGAAATT
*
21963740 AAAAGTAGAAATT
1 AAAAATAGAAATT
*
21963753 GAAAAACAGAAATT
1 -AAAAATAGAAATT
21963767 AAAAAT
1 AAAAAT
21963773 GCCTCGGCGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.67, C:0.02, G:0.11, T:0.20
Consensus pattern (13 bp):
AAAAATAGAAATT
Found at i:21963874 original size:73 final size:74
Alignment explanation
Indices: 21963751--21963918 Score: 239
Period size: 73 Copynumber: 2.3 Consensus size: 74
21963741 AAAGTAGAAA
* * * * * * *
21963751 TTGAAAAACAGAAATTAAAAATGCCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGA
21963816 GTTGA-TTT
66 GTTGATTTT
* * *
21963824 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGA
21963889 GTTGATTTT
66 GTTGATTTT
21963898 TTGAAAAGCATAAATTGAAAA
1 TTGAAAAGCATAAATTGAAAA
21963919 AACGGAAATT
Statistics
Matches: 83, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
73 60 0.72
74 23 0.28
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (74 bp):
TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGA
GTTGATTTT
Found at i:21971455 original size:49 final size:49
Alignment explanation
Indices: 21971383--21971480 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
21971373 TTGCTCACAG
*
21971383 AATGCTGATGCCAAGTCCTTCCAAGATCGGATCCTTTCCCTACTAAGCT
1 AATGCTGATGCCAAGTCCTTCCAAGATCGGATCATTTCCCTACTAAGCT
21971432 AATGCTGATGCCAAGTCCTTCCAAGATCGGATCATTTCCCTACTAAGCT
1 AATGCTGATGCCAAGTCCTTCCAAGATCGGATCATTTCCCTACTAAGCT
21971481 GGTTGTACCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.29
Consensus pattern (49 bp):
AATGCTGATGCCAAGTCCTTCCAAGATCGGATCATTTCCCTACTAAGCT
Found at i:21973655 original size:119 final size:117
Alignment explanation
Indices: 21973472--21973722 Score: 457
Period size: 119 Copynumber: 2.1 Consensus size: 117
21973462 GAGTCGCCAC
21973472 CGATCCTTTTTTGTAGATGTGATCGGACACCTATAAAATTATTTAAAACAAAAAGAAGGCCAAAT
1 CGATCCTTTTTTGTAGATGTGATCGGACACCTATAAAATTATTTAAAACAAAAAGAAGGCCAAAT
21973537 TTAGGTCTACGTGAAAGTCCAGAGAAAAATTGGGGTTCGAGAGTCAGTTACG
66 TTAGGTCTACGTGAAAGTCCAGAGAAAAATTGGGGTTCGAGAGTCAGTTACG
* *
21973589 TGATCCTTTTTTGTAGGTGTGATCGGACACCCTATAAAATTATTTTAAAACAAAAAGAAGGCCAA
1 CGATCCTTTTTTGTAGATGTGATCGGACA-CCTATAAAATTA-TTTAAAACAAAAAGAAGGCCAA
*
21973654 ATTTAGGTCTACGTGAAAGTCCAGAGAAAAATTGGGGTTCGGGAGTCAGTTACG
64 ATTTAGGTCTACGTGAAAGTCCAGAGAAAAATTGGGGTTCGAGAGTCAGTTACG
21973708 CGATCCTTTTTTGTA
1 CGATCCTTTTTTGTA
21973723 NNNNNNNNNN
Statistics
Matches: 128, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
117 27 0.21
118 12 0.09
119 89 0.70
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.29
Consensus pattern (117 bp):
CGATCCTTTTTTGTAGATGTGATCGGACACCTATAAAATTATTTAAAACAAAAAGAAGGCCAAAT
TTAGGTCTACGTGAAAGTCCAGAGAAAAATTGGGGTTCGAGAGTCAGTTACG
Found at i:21977622 original size:16 final size:19
Alignment explanation
Indices: 21977586--21977621 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
21977576 ATTGTTTGGA
21977586 TATTGTATAATATTTGTTT
1 TATTGTATAATATTTGTTT
21977605 TATTGT-TAAT-TTTGTTT
1 TATTGTATAATATTTGTTT
21977622 AGAGACATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 4 0.24
19 6 0.35
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (19 bp):
TATTGTATAATATTTGTTT
Found at i:21978232 original size:102 final size:102
Alignment explanation
Indices: 21978112--21978321 Score: 404
Period size: 102 Copynumber: 2.1 Consensus size: 102
21978102 AATTTCACTA
21978112 TTTT-AATAGCTTATATTTTTATAATTTTAAAGAATTAAAATAAATTTTTTATTATTTTTAAAGG
1 TTTTAAATAGCTTATATTTTTATAATTTTAAAGAATTAAAATAAATTTTTTATTATTTTTAAAGG
21978176 TGATTAAAGTAATTTTATTTTAACTAATTTAAAAATT
66 TGATTAAAGTAATTTTATTTTAACTAATTTAAAAATT
21978213 TTTTAAATAGCTTATATTTTTATAATTTTAAAGAATTAAAATAAATTTTTTATTATTTTTAAAGG
1 TTTTAAATAGCTTATATTTTTATAATTTTAAAGAATTAAAATAAATTTTTTATTATTTTTAAAGG
*
21978278 TGATTAAAGTAATTTTATTTTTACTAATTTAAAAATT
66 TGATTAAAGTAATTTTATTTTAACTAATTTAAAAATT
21978315 TTTTAAA
1 TTTTAAA
21978322 AATTAAATAG
Statistics
Matches: 107, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
101 4 0.04
102 103 0.96
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (102 bp):
TTTTAAATAGCTTATATTTTTATAATTTTAAAGAATTAAAATAAATTTTTTATTATTTTTAAAGG
TGATTAAAGTAATTTTATTTTAACTAATTTAAAAATT
Found at i:21978671 original size:20 final size:20
Alignment explanation
Indices: 21978631--21978668 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
21978621 AATTTGGAGT
21978631 AATTAATATTTTAAAATTTA
1 AATTAATATTTTAAAATTTA
*
21978651 AATTAA-ATTTTATAATTT
1 AATTAATATTTTAAAATTT
21978669 TAAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AATTAATATTTTAAAATTTA
Found at i:21978687 original size:23 final size:23
Alignment explanation
Indices: 21978650--21978693 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
21978640 TTTAAAATTT
* * *
21978650 AAATTAAATTTTATAATTTTAAG
1 AAATTAAAATATATAAATTTAAG
21978673 AAATTAAAATATATAAATTTA
1 AAATTAAAATATATAAATTTA
21978694 TTATATATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATTAAAATATATAAATTTAAG
Found at i:21998523 original size:39 final size:40
Alignment explanation
Indices: 21998478--21998609 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
21998468 GCTCCTCGTT
* * *
21998478 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
21998518 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
21998557 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
21998597 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
21998610 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 34 0.43
40 46 0.57
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:21998671 original size:41 final size:41
Alignment explanation
Indices: 21998594--21998671 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
21998584 TTAGTATCTC
* * *
21998594 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
21998635 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
21998672 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:22000282 original size:22 final size:21
Alignment explanation
Indices: 22000257--22000299 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
22000247 TTTTTTCTCT
*
22000257 CATTTTTTCTCTTGCCAAACAC
1 CATTTTTTCTCTT-CAAAACAC
*
22000279 CATTTTTTTTCTTCAAAACAC
1 CATTTTTTCTCTTCAAAACAC
22000300 ATGGTCTGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.26, C:0.28, G:0.02, T:0.44
Consensus pattern (21 bp):
CATTTTTTCTCTTCAAAACAC
Found at i:22001460 original size:66 final size:67
Alignment explanation
Indices: 22001371--22001497 Score: 204
Period size: 66 Copynumber: 1.9 Consensus size: 67
22001361 CTTGTAGATG
* *
22001371 AAATGAGCGAACCATATGTTTTGAAGAAGAAAAA-TGGTGTTTGGCAAGAGAGAAAATGAGATAA
1 AAATGAGCAAACCATATATTTTGAAGAA-AAAAAGTGGTGTTTGGCAAGAGAGAAAATGAGATAA
22001435 AGA
65 AGA
*
22001438 AAATG-GCAAACCATGTATTTTGAAGAAAAAAAGTGGTGTTTGGCAAGAGAGAAAATGAGA
1 AAATGAGCAAACCATATATTTTGAAGAAAAAAAGTGGTGTTTGGCAAGAGAGAAAATGAGA
22001498 GAAAAAATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
65 5 0.09
66 46 0.82
67 5 0.09
ACGTcount: A:0.46, C:0.06, G:0.27, T:0.21
Consensus pattern (67 bp):
AAATGAGCAAACCATATATTTTGAAGAAAAAAAGTGGTGTTTGGCAAGAGAGAAAATGAGATAAA
GA
Found at i:22016074 original size:40 final size:40
Alignment explanation
Indices: 22015892--22016114 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
22015882 TCCTCGTTCA
* * * * *
22015892 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
22015931 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
22015971 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
22016011 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
22016051 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
22016091 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
22016115 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:22016123 original size:41 final size:41
Alignment explanation
Indices: 22016046--22016123 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
22016036 TTAGTATCTC
* * *
22016046 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
22016087 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
22016124 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:22018960 original size:27 final size:27
Alignment explanation
Indices: 22018922--22018984 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
22018912 ACGCTTGCTA
*
22018922 GGCACGAAGGCCCGAATACACATCATT
1 GGCACGAAGGCCCGAATACACATCATC
22018949 GGCACGAAGGCCCGAATACACATCATC
1 GGCACGAAGGCCCGAATACACATCATC
22018976 GGCACGAAG
1 GGCACGAAG
22018985 CCTACTAGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.33, C:0.30, G:0.25, T:0.11
Consensus pattern (27 bp):
GGCACGAAGGCCCGAATACACATCATC
Found at i:22019052 original size:43 final size:43
Alignment explanation
Indices: 22018949--22019052 Score: 163
Period size: 43 Copynumber: 2.4 Consensus size: 43
22018939 ACACATCATT
*
22018949 GGCACGAAGGCCCGAATACACATCATCGGCACGAAGCCTACTA
1 GGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTACTA
*** *
22018992 GGCACGAAGGATTGAATACACATCACCGGCACGAAGCCTGCTA
1 GGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTACTA
22019035 GGCACGAAGGCCCGAATA
1 GGCACGAAGGCCCGAATA
22019053 TAATTCCAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.33, C:0.30, G:0.26, T:0.12
Consensus pattern (43 bp):
GGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTACTA
Found at i:22019187 original size:38 final size:38
Alignment explanation
Indices: 22019045--22019177 Score: 171
Period size: 38 Copynumber: 3.5 Consensus size: 38
22019035 GGCACGAAGG
* * *
22019045 CCCGAATATAATT-CCAGCACTAGGCCTACGGGATTTAA
1 CCCGAATAT-ATTACCAGCACGAAGCCTGCGGGATTTAA
* * *
22019083 CCCGGATATATTACCAGCACGAAGCCTGCAGTATTTAA
1 CCCGAATATATTACCAGCACGAAGCCTGCGGGATTTAA
22019121 CCCGAATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
22019159 CCCGGATATAATT-CCAGCA
1 CCCGAATAT-ATTACCAGCA
22019178 TATAGCCTGC
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
37 3 0.04
38 77 0.93
39 3 0.04
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.23
Consensus pattern (38 bp):
CCCGAATATATTACCAGCACGAAGCCTGCGGGATTTAA
Found at i:22028159 original size:27 final size:27
Alignment explanation
Indices: 22028129--22028212 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
22028119 ATGCAAATTG
*
22028129 TATTTACCAATGGCTATGTGCCTATCA
1 TATTTACCAATGGCTATGTGCCAATCA
* * * * *
22028156 TATTTATCGA-GGCTCTGTGTCGATCA
1 TATTTACCAATGGCTATGTGCCAATCA
* * *
22028182 TATTTACCCATGGCTGTGTGCCAATTA
1 TATTTACCAATGGCTATGTGCCAATCA
22028209 TATT
1 TATT
22028213 ACCTTCGCTA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 21 0.47
27 24 0.53
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (27 bp):
TATTTACCAATGGCTATGTGCCAATCA
Found at i:22028776 original size:6 final size:7
Alignment explanation
Indices: 22028758--22028782 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22028748 GCTTACTTGT
22028758 ATTTTTG
1 ATTTTTG
22028765 ATTTTTG
1 ATTTTTG
22028772 ATTTTTG
1 ATTTTTG
22028779 ATTT
1 ATTT
22028783 CTGGTTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (7 bp):
ATTTTTG
Found at i:22041581 original size:15 final size:15
Alignment explanation
Indices: 22041561--22041614 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
22041551 TGATCTGAAG
22041561 GAACAAAATATACAA
1 GAACAAAATATACAA
* * *
22041576 GAACAACATCAAAAGAA
1 GAACAAAAT--ATACAA
22041593 GGAACAAAATATACAA
1 -GAACAAAATATACAA
22041609 GAACAA
1 GAACAA
22041615 CGTCAAAACA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
15 14 0.47
16 4 0.13
17 4 0.13
18 8 0.27
ACGTcount: A:0.65, C:0.15, G:0.11, T:0.09
Consensus pattern (15 bp):
GAACAAAATATACAA
Found at i:22041594 original size:33 final size:33
Alignment explanation
Indices: 22041557--22041622 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
22041547 GCAATGATCT
22041557 GAAGGAACAAAATATACAAGAACAACATCAAAA
1 GAAGGAACAAAATATACAAGAACAACATCAAAA
*
22041590 GAAGGAACAAAATATACAAGAACAACGTCAAAA
1 GAAGGAACAAAATATACAAGAACAACATCAAAA
22041623 CAGATACCCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.62, C:0.15, G:0.14, T:0.09
Consensus pattern (33 bp):
GAAGGAACAAAATATACAAGAACAACATCAAAA
Found at i:22042547 original size:2 final size:2
Alignment explanation
Indices: 22042531--22042669 Score: 50
Period size: 2 Copynumber: 73.5 Consensus size: 2
22042521 CTCTAATAAG
* *
22042531 TA TA TA T- TA TG TA TA TA TA T- TT TA -A TA CTA TA T- TGA GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA T-A -TA
* * * *
22042570 TA TA T- TT TA TA TA T- TA TA TA TA TT TT TA -A TA T- TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
22042608 TT TA TA T- TT TA -A TA CTA TA T- TA TG TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
22042648 TA TA TA TA T- TA TG TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
22042670 TTTCTAATAT
Statistics
Matches: 104, Mismatches: 17, Indels: 32
0.68 0.11 0.21
Matches are distributed among these distances:
1 12 0.12
2 86 0.83
3 5 0.05
4 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (2 bp):
TA
Found at i:22042549 original size:13 final size:13
Alignment explanation
Indices: 22042531--22042698 Score: 73
Period size: 13 Copynumber: 12.8 Consensus size: 13
22042521 CTCTAATAAG
22042531 TATATATTATGTA
1 TATATATTATGTA
22042544 TATATATT-T-TAA
1 TATATATTATGT-A
22042556 TACTATATTGA-GTA
1 TA-TATATT-ATGTA
* *
22042570 TATATTTTATATA
1 TATATATTATGTA
* *
22042583 T-TATATATATTTT
1 TATATAT-TATGTA
* *
22042596 TA-ATATTATATT
1 TATATATTATGTA
*
22042608 TTTATATT-T-TAA
1 TATATATTATGT-A
22042620 TACTATATTATGTA
1 TA-TATATTATGTA
*
22042634 TATATATTTATATATA
1 TATATA--T-TATGTA
22042650 TATATATTATGTA
1 TATATATTATGTA
* * *
22042663 CATATATTTTCTA
1 TATATATTATGTA
* *
22042676 -ATATTATTATTTT
1 TATA-TATTATGTA
22042689 TATATATTAT
1 TATATATTAT
22042699 CATGTATATA
Statistics
Matches: 120, Mismatches: 17, Indels: 36
0.69 0.10 0.21
Matches are distributed among these distances:
11 2 0.02
12 20 0.17
13 73 0.61
14 11 0.09
15 3 0.03
16 11 0.09
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (13 bp):
TATATATTATGTA
Found at i:22042589 original size:16 final size:16
Alignment explanation
Indices: 22042568--22042698 Score: 94
Period size: 16 Copynumber: 8.2 Consensus size: 16
22042558 CTATATTGAG
22042568 TATATATTTTATATAT
1 TATATATTTTATATAT
*
22042584 TATATATATTTTTAATAT
1 TATATAT-TTTAT-ATAT
*
22042602 TATAT-TTTTATATTT
1 TATATATTTTATATAT
* *
22042617 TA-ATACTATAT-TAT
1 TATATATTTTATATAT
22042631 GTATATATATTTATATA-
1 -TATATAT-TTTATATAT
* *
22042648 TATATATATTATGTA-
1 TATATATTTTATATAT
* *
22042663 CATATATTTTCTAATAT
1 TATATATTTTAT-ATAT
22042680 TAT-TATTTTTATATAT
1 TATATA-TTTTATATAT
22042696 TAT
1 TAT
22042699 CATGTATATA
Statistics
Matches: 89, Mismatches: 16, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
14 4 0.04
15 26 0.29
16 32 0.36
17 16 0.18
18 11 0.12
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (16 bp):
TATATATTTTATATAT
Found at i:22042708 original size:16 final size:15
Alignment explanation
Indices: 22042628--22042709 Score: 52
Period size: 14 Copynumber: 5.7 Consensus size: 15
22042618 AATACTATAT
22042628 TATGTATATATATT-
1 TATGTATATATATTA
*
22042642 TATATATATATA-TA
1 TATGTATATATATTA
*
22042656 TTATGTACATATATT-
1 -TATGTATATATATTA
*
22042671 T-TCTA-ATATTATTA
1 TATGTATATA-TATTA
*
22042685 T-T-TTTATATATTA
1 TATGTATATATATTA
22042698 TCATGTATATAT
1 T-ATGTATATAT
22042710 TTTAATATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
12 3 0.06
13 15 0.28
14 17 0.32
15 11 0.21
16 7 0.13
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (15 bp):
TATGTATATATATTA
Found at i:22042728 original size:22 final size:23
Alignment explanation
Indices: 22042686--22042807 Score: 71
Period size: 23 Copynumber: 5.4 Consensus size: 23
22042676 ATATTATTAT
22042686 TTTTATATATTATCATGTATATA
1 TTTTATATATTATCATGTATATA
* * *
22042709 TTTTAATATTATTAGTTATATATATT
1 TTTT-ATA-TATTA-TCATGTATATA
*
22042735 TTTTATACTATT-TCGTGTATATA
1 TTTTATA-TATTATCATGTATATA
** *
22042758 TACT-TATATTATCCT-TAT-TA
1 TTTTATATATTATCATGTATATA
*
22042778 --TTAT-TATTATTAT-TATATA
1 TTTTATATATTATCATGTATATA
22042797 TTTTATTATAT
1 TTTTA-TATAT
22042808 ACGTATAGAC
Statistics
Matches: 75, Mismatches: 14, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
18 11 0.15
19 3 0.04
20 2 0.03
21 10 0.13
22 6 0.08
23 16 0.21
24 3 0.04
25 12 0.16
26 12 0.16
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (23 bp):
TTTTATATATTATCATGTATATA
Found at i:22042755 original size:25 final size:24
Alignment explanation
Indices: 22042685--22042758 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
22042675 AATATTATTA
*
22042685 TTTTTATATATTATCATGTATATA-
1 TTTTTATATATT-TCGTGTATATAT
* * *
22042709 TTTTAATAT-TATTAGTTATATATAT
1 TTTTTATATAT-TTCG-TGTATATAT
22042734 TTTTTATACTATTTCGTGTATATAT
1 TTTTTATA-TATTTCGTGTATATAT
22042759 ACTTATATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
23 2 0.05
24 16 0.42
25 15 0.39
26 4 0.11
27 1 0.03
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.59
Consensus pattern (24 bp):
TTTTTATATATTTCGTGTATATAT
Found at i:22042780 original size:3 final size:3
Alignment explanation
Indices: 22042772--22042805 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
22042762 TATATTATCC
22042772 TTA TTA TTA TTA TTA TTA TTA TATA TT- TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T
22042806 ATACGTATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22043066 original size:21 final size:18
Alignment explanation
Indices: 22043042--22043086 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
22043032 ACATTTCTAA
22043042 TATGTATTTCTAATACTATAT
1 TATGTATTTC--ATA-TATAT
22043063 TATGT-TTTCATATATAT
1 TATGTATTTCATATATAT
22043080 TATGTAT
1 TATGTAT
22043087 ATACTTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.43
18 4 0.17
20 4 0.17
21 5 0.22
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (18 bp):
TATGTATTTCATATATAT
Found at i:22046620 original size:46 final size:46
Alignment explanation
Indices: 22046567--22046742 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
22046557 TATTTGGGCA
22046567 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *** * * ** *
22046613 TCCGAACTCGTTGAGTTGAGTCCAAGTTCGAGAGATGTA-ACTAGGTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAATG
* * * *
22046660 TCCGAGCTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
22046706 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22046743 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 25, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
46 68 0.67
47 34 0.33
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:22049088 original size:21 final size:21
Alignment explanation
Indices: 22049064--22049111 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
22049054 GACACATAAA
*
22049064 GTGCTTGAAACGACACACGAG
1 GTGCCTGAAACGACACACGAG
*
22049085 GTGCCTGACACGACACACGAG
1 GTGCCTGAAACGACACACGAG
22049106 GTGCCT
1 GTGCCT
22049112 AAAATACGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.15
Consensus pattern (21 bp):
GTGCCTGAAACGACACACGAG
Found at i:22050320 original size:23 final size:22
Alignment explanation
Indices: 22050270--22050322 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
22050260 AAATTAGTTA
*
22050270 TTTTATTACAAGTGTACATATC
1 TTTTATTACAAATGTACATATC
22050292 TATTTATTACAAATGTACCAATAT-
1 T-TTTATTACAAATGTA-C-ATATC
22050316 TTTTATT
1 TTTTATT
22050323 GCAATTGTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 1 0.04
23 20 0.74
24 2 0.07
25 4 0.15
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (22 bp):
TTTTATTACAAATGTACATATC
Found at i:22050592 original size:55 final size:55
Alignment explanation
Indices: 22050508--22050619 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
22050498 ACAATTGTCT
*
22050508 ACTATTTAATTTATTTAATAATACTACCAATTAAATAATTATAACTTAATATGAA
1 ACTATTTAATTTATTTAATAATAATACCAATTAAATAATTATAACTTAATATGAA
22050563 ACTATTTAATTTATTTAATAATAATACCAATTAAATAATTATAACTTAATATGAA
1 ACTATTTAATTTATTTAATAATAATACCAATTAAATAATTATAACTTAATATGAA
22050618 AC
1 AC
22050620 CATAATAATA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (55 bp):
ACTATTTAATTTATTTAATAATAATACCAATTAAATAATTATAACTTAATATGAA
Found at i:22055850 original size:21 final size:22
Alignment explanation
Indices: 22055826--22055875 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
22055816 CTCTAGCACA
**
22055826 GGCGTGT-CCTAGGGTCACACG
1 GGCGTGTCCCTAGGACCACACG
*
22055847 GGCGTGTCCCTTGGACCACACG
1 GGCGTGTCCCTAGGACCACACG
22055869 GGCGTGT
1 GGCGTGT
22055876 GAGCCCTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.12, C:0.30, G:0.38, T:0.20
Consensus pattern (22 bp):
GGCGTGTCCCTAGGACCACACG
Found at i:22060690 original size:22 final size:22
Alignment explanation
Indices: 22060665--22060708 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
22060655 CCCGATACTG
22060665 ATACAACATGGCCCAGAAAACT
1 ATACAACATGGCCCAGAAAACT
22060687 ATACAACATGGCCCAGAAAACT
1 ATACAACATGGCCCAGAAAACT
22060709 GACTTCGCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.27, G:0.14, T:0.14
Consensus pattern (22 bp):
ATACAACATGGCCCAGAAAACT
Found at i:22061291 original size:30 final size:29
Alignment explanation
Indices: 22061257--22061316 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
22061247 CAACTTAACA
22061257 AGCAAATCCCTCTAAAATAATAACAAAATT
1 AGCAAATCCCTCTAAAATAATAA-AAAATT
** *
22061287 AGCAAATGTCTTTAAAATAATAAAAAATT
1 AGCAAATCCCTCTAAAATAATAAAAAATT
22061316 A
1 A
22061317 ACAATAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.27
Consensus pattern (29 bp):
AGCAAATCCCTCTAAAATAATAAAAAATT
Found at i:22070937 original size:17 final size:17
Alignment explanation
Indices: 22070917--22070949 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22070907 GTATAAGCAA
*
22070917 ATTTTGTGTATTTTGTG
1 ATTTTGTGAATTTTGTG
22070934 ATTTTGTGAATTTTGT
1 ATTTTGTGAATTTTGT
22070950 AAATTAGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.64
Consensus pattern (17 bp):
ATTTTGTGAATTTTGTG
Found at i:22070939 original size:8 final size:9
Alignment explanation
Indices: 22070916--22070954 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
22070906 TGTATAAGCA
22070916 AATTTTGTG
1 AATTTTGTG
*
22070925 TATTTTGTG
1 AATTTTGTG
22070934 -ATTTTGTG
1 AATTTTGTG
*
22070942 AATTTTGTA
1 AATTTTGTG
22070951 AATT
1 AATT
22070955 AGGAACTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
8 8 0.30
9 19 0.70
ACGTcount: A:0.23, C:0.00, G:0.18, T:0.59
Consensus pattern (9 bp):
AATTTTGTG
Found at i:22073548 original size:56 final size:56
Alignment explanation
Indices: 22073396--22073548 Score: 238
Period size: 55 Copynumber: 2.8 Consensus size: 56
22073386 ATGTATATGA
*
22073396 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGATTTATACGTT
1 GGCATCGATATGTGACTTCGATATATGTGTGCGAGTAAGACCACGATTTATACGTT
* * * *
22073452 AGCATCGATATGTGAC-TCGATATATGTGTACGAGTAAGACCA-TATTTTATATGTT
1 GGCATCGATATGTGACTTCGATATATGTGTGCGAGTAAGACCACGA-TTTATACGTT
22073507 GGCATCGATATGTGACTTCGATATATGTGTGCGAGTAAGACC
1 GGCATCGATATGTGACTTCGATATATGTGTGCGAGTAAGACC
22073549 CTATCTGGGA
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
54 1 0.01
55 48 0.55
56 39 0.44
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (56 bp):
GGCATCGATATGTGACTTCGATATATGTGTGCGAGTAAGACCACGATTTATACGTT
Found at i:22073566 original size:56 final size:55
Alignment explanation
Indices: 22073396--22073576 Score: 215
Period size: 56 Copynumber: 3.3 Consensus size: 55
22073386 ATGTATATGA
* *
22073396 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGATTTATAC-GTT
1 GGCATCGATATGTGACTTCGATATATGTGTGCGAGTAAGACC-CTA-TTATACAGTT
* * * * *
22073452 AGCATCGATATGTGAC-TCGATATATGTGTACGAGTAAGACCATATTTTATATGTT
1 GGCATCGATATGTGACTTCGATATATGTGTGCGAGTAAGACCCTATTATACA-GTT
**
22073507 GGCATCGATATGTGACTTCGATATATGTGTGCGAGTAAGACCCTATCTGGGACAG-T
1 GGCATCGATATGTGACTTCGATATATGTGTGCGAGTAAGACCCTAT-T-ATACAGTT
22073563 GGCATCGATATGTG
1 GGCATCGATATGTG
22073577 GTTACATGTA
Statistics
Matches: 107, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
53 4 0.04
54 1 0.01
55 41 0.38
56 57 0.53
57 2 0.02
58 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (55 bp):
GGCATCGATATGTGACTTCGATATATGTGTGCGAGTAAGACCCTATTATACAGTT
Found at i:22076746 original size:30 final size:30
Alignment explanation
Indices: 22076686--22076748 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
22076676 ATTTTCAGAC
* *
22076686 TTAGGGGTAAAATGGTAATTTTGTAAAATT
1 TTAGGGGCAAAATGGTAATTTTGCAAAATT
* **
22076716 TTAGGGGCAAAATGGTCATTTTGCCCAATT
1 TTAGGGGCAAAATGGTAATTTTGCAAAATT
22076746 TTA
1 TTA
22076749 AATTATTGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (30 bp):
TTAGGGGCAAAATGGTAATTTTGCAAAATT
Found at i:22077339 original size:50 final size:47
Alignment explanation
Indices: 22077067--22077337 Score: 231
Period size: 46 Copynumber: 5.8 Consensus size: 47
22077057 TTGGGTCATT
* * * * *
22077067 TGTGCGCTAGTATAAGA-CATGTTTGGGACAT-GCATCGGCCAC-ATTA
1 TGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGA-GA
* * *
22077113 TGAGAGCCAGTGTAAGACCATGTCT-GGACATGGCATCAGCATTGAGA
1 TGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCA-CGAGA
* * * * *
22077160 CGAGAGCTAGTGTAAGA-CATGTCTGAGACAT-ACATCAGCCTCGAGA
1 TGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGAGA
* *
22077206 TGTAAGCTAGTGTAAGA-CATGTCTGGGATAT-GCATCTA-CTACGAGA
1 TGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-AGC-ACGAGA
* *
22077252 TGTG-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGAGA
1 TGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-GAGA
22077298 TGTGGGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 TGT--GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
22077338 GGTATTACAC
Statistics
Matches: 183, Mismatches: 26, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
44 9 0.05
45 17 0.09
46 89 0.49
47 35 0.19
48 2 0.01
49 1 0.01
50 30 0.16
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
TGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGAGA
Found at i:22082061 original size:146 final size:147
Alignment explanation
Indices: 22081884--22082163 Score: 445
Period size: 146 Copynumber: 1.9 Consensus size: 147
22081874 TAGGGGTTAA
*
22081884 CGAATATGTTTAGGAGCAGTGAGGTTTTCATTAAAGTTAACATTTAACTTATTGGAATTTTCAAT
1 CGAATATGTTTAGGAGCAGTGAGGTTTTCATTAAAGTTAACAGTTAACTTATTGGAATTTTCAAT
* *
22081949 AGGGAACAATAGTTTTTCCAATAATCCTATTCGAAATTTTACTTGTGTGACAACGTCC-TACCAC
66 AAGGAACAATAGTTTTTCCAATAATCCTATTCGAAATTTTACTTGTGCGACAACGTCCGTACCAC
22082013 TGTTAACTTATTAGGGG
131 TGTTAACTTATTAGGGG
* * * *
22082030 CGAATATGTTTAGGAGCAGTGGGGTTTTCATTGAAGTTAACAGTTAGCTTATTGGAATTTTCGAT
1 CGAATATGTTTAGGAGCAGTGAGGTTTTCATTAAAGTTAACAGTTAACTTATTGGAATTTTCAAT
* * * * *
22082095 AAGGAACAATAGTTTTTCCAGTAATCCTATTTGGAATTTTACTTGTGCGTCAAGGTCCGTACCAC
66 AAGGAACAATAGTTTTTCCAATAATCCTATTCGAAATTTTACTTGTGCGACAACGTCCGTACCAC
22082160 TGTT
131 TGTT
22082164 CCCCAGATTT
Statistics
Matches: 121, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
146 111 0.92
147 10 0.08
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (147 bp):
CGAATATGTTTAGGAGCAGTGAGGTTTTCATTAAAGTTAACAGTTAACTTATTGGAATTTTCAAT
AAGGAACAATAGTTTTTCCAATAATCCTATTCGAAATTTTACTTGTGCGACAACGTCCGTACCAC
TGTTAACTTATTAGGGG
Found at i:22098901 original size:13 final size:13
Alignment explanation
Indices: 22098883--22098908 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22098873 CCTTCTCCAC
22098883 ATTTATTTTCTTT
1 ATTTATTTTCTTT
22098896 ATTTATTTTCTTT
1 ATTTATTTTCTTT
22098909 CTTTCCTTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTTATTTTCTTT
Found at i:22099923 original size:40 final size:38
Alignment explanation
Indices: 22099878--22099974 Score: 104
Period size: 40 Copynumber: 2.5 Consensus size: 38
22099868 ACAGTACTTT
*
22099878 ATGGTGTGTAGGGTTGGATAGGTCGATTTTATCCCCAT
1 ATGGTGTGTAGGGTTGGATAGGTCGATTTTATCCCCAC
* ** * * *
22099916 ATTTGGTGTGCAAAGATGGGTGGGTCGATTTTATCCCCAC
1 A--TGGTGTGTAGGGTTGGATAGGTCGATTTTATCCCCAC
*
22099956 ATGGTGTGTTGGGTTGGAT
1 ATGGTGTGTAGGGTTGGAT
22099975 GGAGCTGGTG
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
38 13 0.30
40 31 0.70
ACGTcount: A:0.18, C:0.12, G:0.34, T:0.36
Consensus pattern (38 bp):
ATGGTGTGTAGGGTTGGATAGGTCGATTTTATCCCCAC
Found at i:22107002 original size:43 final size:43
Alignment explanation
Indices: 22106920--22107067 Score: 158
Period size: 43 Copynumber: 3.5 Consensus size: 43
22106910 TGAGACATCG
* * * *
22106920 TGTAAGACCGTGTCTGGGACACAGGCCTCGAT-TGAGATTTACA
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATAT-TGATTTACA
* * ** *
22106963 TATAAGATCATGTCTGGGACATCGGCATC-ATATCTGATTT-CG
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATAT-TGATTTACA
* *
22107005 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGATTTACA
22107048 TGTAAGACCATGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
22107068 GTCAGCATTG
Statistics
Matches: 85, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
42 32 0.38
43 53 0.62
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGATTTACA
Found at i:22112890 original size:30 final size:30
Alignment explanation
Indices: 22112856--22112952 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
22112846 TAAACTAAAA
*
22112856 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
22112886 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
22112916 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
22112945 ATGAGCTA
1 -TGAGCTA
22112953 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:22115148 original size:12 final size:12
Alignment explanation
Indices: 22115133--22115163 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
22115123 TTCTTTTTGC
22115133 TTTTCAAAGGCT
1 TTTTCAAAGGCT
22115145 TTTTCAAAGGCT
1 TTTTCAAAGGCT
22115157 TTTTCAA
1 TTTTCAA
22115164 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:22115240 original size:6 final size:6
Alignment explanation
Indices: 22115224--22115273 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
22115214 TTTCTTTTTA
*
22115224 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
22115273 T
1 T
22115274 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:22115256 original size:37 final size:37
Alignment explanation
Indices: 22115213--22115283 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
22115203 CTTGCCTCTC
22115213 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGCT
*
22115250 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
22115284 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGCT
Found at i:22115284 original size:16 final size:16
Alignment explanation
Indices: 22115209--22115269 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
22115199 GCCTCTTGCC
*
22115209 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
22115225 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
22115241 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
22115257 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
22115270 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:22116250 original size:13 final size:12
Alignment explanation
Indices: 22116202--22116246 Score: 83
Period size: 12 Copynumber: 3.8 Consensus size: 12
22116192 GATTTTTCGA
22116202 TTTTTTT-AATT
1 TTTTTTTCAATT
22116213 TTTTTTTCAATT
1 TTTTTTTCAATT
22116225 TTTTTTTCAATT
1 TTTTTTTCAATT
22116237 TTTTTTTCAA
1 TTTTTTTCAA
22116247 ATTTCCTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 7 0.21
12 26 0.79
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTTTCAATT
Found at i:22116273 original size:24 final size:24
Alignment explanation
Indices: 22116209--22116273 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 24
22116199 CGATTTTTTT
** *
22116209 AATTTTTTTTTCAATTTTTTTTTC
1 AATTTTTTTTTCAATTTCCTCTTC
22116233 AATTTTTTTTTCAAATTTCCTCTTC
1 AATTTTTTTTTC-AATTTCCTCTTC
**
22116258 TCTTTTTTTTTCAATT
1 AATTTTTTTTTCAATT
22116274 ACAATATGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 16 0.46
25 19 0.54
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (24 bp):
AATTTTTTTTTCAATTTCCTCTTC
Found at i:22117968 original size:30 final size:30
Alignment explanation
Indices: 22117934--22118030 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
22117924 TAAACTAAAA
* *
22117934 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCATGAGCTAAAGT
* * * * * * *
22117964 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCATGAGCTAAAGT
22117994 TGAGCTAAGGTTTAGCTCATGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCATGAGCTAAAGT
22118023 ATGAGCTA
1 -TGAGCTA
22118031 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCATGAGCTAAAGT
Found at i:22121078 original size:43 final size:42
Alignment explanation
Indices: 22121031--22121163 Score: 133
Period size: 42 Copynumber: 3.1 Consensus size: 42
22121021 CCTCGATTGA
* * *
22121031 GATTTACGTATAAGACCATGTCTGGGACATCGGCATCGTATCT
1 GATTTACATGTAAGACCATGTCTGGGACATCGGCATAGTAT-T
* **
22121074 GATTT-CATGTAAGACCTTGTCTGGGACAGAGGCATAGATATT
1 GATTTACATGTAAGACCATGTCTGGGACATCGGCATAG-TATT
* * * * *
22121116 GAATCACATGTAAGACCAAGTCTGGGACGTCGGCATTGTATT
1 GATTTACATGTAAGACCATGTCTGGGACATCGGCATAGTATT
*
22121158 TATTTA
1 GATTTA
22121164 TGAGCATCTA
Statistics
Matches: 71, Mismatches: 17, Indels: 5
0.76 0.18 0.05
Matches are distributed among these distances:
42 37 0.52
43 34 0.48
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (42 bp):
GATTTACATGTAAGACCATGTCTGGGACATCGGCATAGTATT
Found at i:22121096 original size:42 final size:42
Alignment explanation
Indices: 22121041--22121157 Score: 128
Period size: 43 Copynumber: 2.8 Consensus size: 42
22121031 GATTTACGTA
* **
22121041 TAAGACCATGTCTGGGACATCGGCATCGTATCTG-ATTTCATG
1 TAAGACCATGTCTGGGACATCGGCATAGTAT-TGAATCACATG
* **
22121083 TAAGACCTTGTCTGGGACAGAGGCATAGATATTGAATCACATG
1 TAAGACCATGTCTGGGACATCGGCATAG-TATTGAATCACATG
* * *
22121126 TAAGACCAAGTCTGGGACGTCGGCATTGTATT
1 TAAGACCATGTCTGGGACATCGGCATAGTATT
22121158 TATTTATGAG
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 30 0.49
43 31 0.51
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATCGGCATAGTATTGAATCACATG
Found at i:22127407 original size:27 final size:27
Alignment explanation
Indices: 22127377--22127532 Score: 222
Period size: 27 Copynumber: 5.8 Consensus size: 27
22127367 ATTACCAAAG
* *
22127377 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
22127404 TACCCTCGATTTACAGAATTACAATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
22127431 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
22127458 TACCCTCGATTTACAGAATTATCGTCT
1 TACCCTCGATTTACAGAATTACCATTT
*
22127485 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
22127512 TACCCTCGATTTACAAAATTA
1 TACCCTCGATTTACAGAATTA
22127533 TTGAAATACT
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:22127476 original size:81 final size:81
Alignment explanation
Indices: 22127350--22127532 Score: 242
Period size: 81 Copynumber: 2.3 Consensus size: 81
22127340 ATTATTGAAA
* * *
22127350 TACCCTCAATTTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTA-CTATTTTACCCTCGAT
1 TACCCTCAATTTATAAAATTACCAAAGTACCCTCGATTTACAGAATTATC-ATCTTACCCTCGAT
22127414 TTACAGAATTACAATTT
65 TTACAGAATTACAATTT
* *** *
22127431 TACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTATCGTCTTACCCTCGATT
1 TACCCTCAATTTATAAAATTACCAAAGTACCCTCGATTTACAGAATTATCATCTTACCCTCGATT
**
22127496 TACAGAATTACCGTTT
66 TACAGAATTACAATTT
* *
22127512 TACCCTCGATTTACAAAATTA
1 TACCCTCAATTTATAAAATTA
22127533 TTGAAATACT
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 87 0.99
82 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (81 bp):
TACCCTCAATTTATAAAATTACCAAAGTACCCTCGATTTACAGAATTATCATCTTACCCTCGATT
TACAGAATTACAATTT
Found at i:22127552 original size:54 final size:54
Alignment explanation
Indices: 22127350--22127562 Score: 198
Period size: 54 Copynumber: 3.9 Consensus size: 54
22127340 ATTATTGAAA
* ** * * *
22127350 TACCCTCAATTTGTAAAATTA-CCAAAGTACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTATCGAAA-TACCCTCGATTTACAGAATTACCATTT
* * * *
22127404 TACCCTCGATTTACAGAATTA-C-AATTTTACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTATCGAA--ATACCCTCGATTTACAGAATTACCATTT
* *** *
22127458 TACCCTCGATTTACAGAATTATCGTCTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTATCGAAATACCCTCGATTTACAGAATTACCATTT
* * * * *
22127512 TACCCTCGATTTACAAAATTATTGAAATACTCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTACAAAATTATCGAAATACCCTCGATTTACAGAATTACCA
22127563 AAATACCCTC
Statistics
Matches: 133, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
53 2 0.02
54 130 0.98
55 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTATCGAAATACCCTCGATTTACAGAATTACCATTT
Found at i:22127566 original size:27 final size:27
Alignment explanation
Indices: 22127536--22127680 Score: 175
Period size: 27 Copynumber: 5.4 Consensus size: 27
22127526 AAAATTATTG
* * *
22127536 AAATACTCTTGGTTTACAAAATTACCA
1 AAATACCCCTGGTTTATAAAATTACCA
* * *
22127563 AAATA-CCCTCGATCAGTAAAATTACCA
1 AAATACCCCTGGTTTA-TAAAATTACCA
* *
22127590 AAATACCCCTGGTTTGTAAAATTACTA
1 AAATACCCCTGGTTTATAAAATTACCA
*
22127617 AAATACCCCTGGTTTGTAAAATTACCA
1 AAATACCCCTGGTTTATAAAATTACCA
* *
22127644 AAATACCCCTGGCTTGTAAAATTACCA
1 AAATACCCCTGGTTTATAAAATTACCA
22127671 AAATACCCCT
1 AAATACCCCT
22127681 AATTTGTGAA
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 5 0.05
27 92 0.89
28 6 0.06
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.28
Consensus pattern (27 bp):
AAATACCCCTGGTTTATAAAATTACCA
Found at i:22127687 original size:27 final size:27
Alignment explanation
Indices: 22127553--22127787 Score: 201
Period size: 27 Copynumber: 8.7 Consensus size: 27
22127543 CTTGGTTTAC
**
22127553 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GATTTGT
*
22127580 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* *
22127607 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
**
22127634 AAAATTACCAAAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
*
22127661 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * * *
22127688 GAAATTATCGAAATA-CTCTCGATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* * **
22127715 AAAA-TATCGAAATACCCCTG-TAGGGT
1 AAAATTACCAAAATACCCCTGAT-TTGT
* * **
22127741 AGAATTACTAAAATACCCCT-ATAAGGT
1 AAAATTACCAAAATACCCCTGAT-TTGT
* *
22127768 AGAATTACCGAAATACCCCT
1 AAAATTACCAAAATACCCCT
22127788 ATAGGGTAGA
Statistics
Matches: 177, Mismatches: 25, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
25 1 0.01
26 19 0.11
27 153 0.86
28 4 0.02
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:22127702 original size:81 final size:81
Alignment explanation
Indices: 22127526--22127787 Score: 228
Period size: 81 Copynumber: 3.2 Consensus size: 81
22127516 CTCGATTTAC
* * * ** *
22127526 AAAATTATTGAAATACTCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCA
1 AAAATTATCGAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGAT-AGTAAAATTACCA
**
22127590 AAATACCCCTGGTTTGT
65 AAATACCCCTAATTTGT
* * *
22127607 AAAATTA-CTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACCA
1 AAAATTATC-GAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGATAGTAAAATTACCA
22127671 AAATACCCCTAATTTGT
65 AAATACCCCTAATTTGT
* * * * * * ** * *
22127688 GAAATTATCGAAATA-CTCTCGATTTGTAAAA-TATCGAAATACCCCTGTAGGGTAGAATTACTA
1 AAAATTATCGAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCCTGGATAGTAAAATTACCA
**
22127751 AAATACCCCT-ATAAGGT
65 AAATACCCCTAAT-TTGT
* *
22127768 AGAATTACCGAAATACCCCT
1 AAAATTATCGAAATACCCCT
22127788 ATAGGGTAGA
Statistics
Matches: 146, Mismatches: 29, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
79 2 0.01
80 51 0.35
81 86 0.59
82 7 0.05
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (81 bp):
AAAATTATCGAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGATAGTAAAATTACCAA
AATACCCCTAATTTGT
Found at i:22127786 original size:54 final size:54
Alignment explanation
Indices: 22127722--22127910 Score: 279
Period size: 54 Copynumber: 3.5 Consensus size: 54
22127712 TGTAAAATAT
*
22127722 CGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTAC
* * *
22127776 CGAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTAC
* *
22127830 CGAAATACCCTTGTAGGGTAGAAATACTAAAATACCCCTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTAC
* * * * *
22127884 TGAGATACCCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
22127911 CATTTTGCCC
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 121 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (54 bp):
CGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTAC
Found at i:22127910 original size:27 final size:27
Alignment explanation
Indices: 22127723--22127893 Score: 245
Period size: 27 Copynumber: 6.3 Consensus size: 27
22127713 GTAAAATATC
*
22127723 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTATAGGGTAGAATTACT
* * *
22127750 AAAATACCCCTATAAGGTAGAATTACC
1 GAAATACCCCTATAGGGTAGAATTACT
22127777 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTATAGGGTAGAATTACT
22127804 GAAATACCCCTATAGGGTAGAATTA-T
1 GAAATACCCCTATAGGGTAGAATTACT
* * *
22127830 CGAAATACCCTTGTAGGGTAGAAATACT
1 -GAAATACCCCTATAGGGTAGAATTACT
*
22127858 AAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTATAGGGTAGAATTACT
*
22127885 GAGATACCC
1 GAAATACCC
22127894 TTGTGGGGTA
Statistics
Matches: 126, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 124 0.98
28 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTATAGGGTAGAATTACT
Found at i:22128152 original size:25 final size:25
Alignment explanation
Indices: 22128114--22128183 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
22128104 AGGAAGTGTT
* *
22128114 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
22128139 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
22128164 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
22128184 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:22128196 original size:24 final size:24
Alignment explanation
Indices: 22128112--22128208 Score: 97
Period size: 25 Copynumber: 3.9 Consensus size: 24
22128102 GGAGGAAGTG
22128112 TTAAAAGGGCTATGCCCCAGTTTA
1 TTAAAAGGGCTATGCCCCAGTTTA
** *
22128136 CCGAAAAGGGCTTTGCCCCAGTTTA
1 -TTAAAAGGGCTATGCCCCAGTTTA
* *
22128161 TCAAAAAGGGCTTTGCCCCAG-TTA
1 T-TAAAAGGGCTATGCCCCAGTTTA
*
22128185 TTAAAAGAGGCTAGGCCTCCAGTT
1 TTAAAAG-GGCTATGCC-CCAGTT
22128209 ATATAATAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (24 bp):
TTAAAAGGGCTATGCCCCAGTTTA
Found at i:22128207 original size:50 final size:50
Alignment explanation
Indices: 22128114--22128208 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
22128104 AGGAAGTGTT
**
22128114 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
22128164 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
22128209 ATATAATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:22128440 original size:31 final size:31
Alignment explanation
Indices: 22128395--22128456 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
22128385 GGGCCATACC
*
22128395 ATTTATAGTAAAGGCTTCGGCCCAGTGATATG
1 ATTTATAGAAAAGGCTTCGGCCCAGT-ATATG
22128427 ATTTAT-GAAAAGGCTTCGGCCCAGTATATG
1 ATTTATAGAAAAGGCTTCGGCCCAGTATATG
22128457 TCGAGAATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 5 0.17
31 18 0.62
32 6 0.21
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (31 bp):
ATTTATAGAAAAGGCTTCGGCCCAGTATATG
Found at i:22133019 original size:32 final size:32
Alignment explanation
Indices: 22132978--22133041 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
22132968 AACAAAATCA
22132978 GGTACAATTTAAGGACTGGATGTACTATTTAT
1 GGTACAATTTAAGGACTGGATGTACTATTTAT
*
22133010 GGTACAATTTAAGGATTGGATGTACTATTTAT
1 GGTACAATTTAAGGACTGGATGTACTATTTAT
22133042 TTGACAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (32 bp):
GGTACAATTTAAGGACTGGATGTACTATTTAT
Found at i:22136556 original size:11 final size:11
Alignment explanation
Indices: 22136531--22136564 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
22136521 GAACCCCAAG
22136531 CTTTCTCTATTT
1 CTTTCTCT-TTT
22136543 CTTTCTCTTTT
1 CTTTCTCTTTT
*
22136554 CTTTTTCTTTT
1 CTTTCTCTTTT
22136565 GGCCAAGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (11 bp):
CTTTCTCTTTT
Found at i:22138454 original size:51 final size:51
Alignment explanation
Indices: 22138377--22138517 Score: 230
Period size: 51 Copynumber: 2.8 Consensus size: 51
22138367 ACGGTGGCCT
*
22138377 TCACATAGTACCACCCTTGTAG-CCAAAGCTATTTGATTCACAAAGTAGCCC
1 TCACATAGTACCACCCTTGT-GTCCAAAGCTATTTTATTCACAAAGTAGCCC
* * *
22138428 TCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTGGCCT
1 TCACATAGTACCACCCTTGTGTCCAAAGCTATTTTATTCACAAAGTAGCCC
22138479 TCACATAGTACCACCCTTGTGTCCAAAGCTATTTTATTC
1 TCACATAGTACCACCCTTGTGTCCAAAGCTATTTTATTC
22138518 CTAAGGTTCA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
50 1 0.01
51 83 0.99
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (51 bp):
TCACATAGTACCACCCTTGTGTCCAAAGCTATTTTATTCACAAAGTAGCCC
Found at i:22138597 original size:52 final size:52
Alignment explanation
Indices: 22138541--22138659 Score: 202
Period size: 52 Copynumber: 2.3 Consensus size: 52
22138531 GGGAAATTTC
* *
22138541 TCACTTAGCACAATGCCGTGGACTTATTTCACTTAGATGTCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
* *
22138593 TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGCCATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
22138645 TCACTTAGCACAATG
1 TCACTTAGCACAATG
22138660 TCATATCCTA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (52 bp):
TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
Found at i:22138621 original size:28 final size:27
Alignment explanation
Indices: 22138541--22138656 Score: 145
Period size: 24 Copynumber: 4.4 Consensus size: 27
22138531 GGGAAATTTC
*
22138541 TCACTTAGCACAATGCCGTGGACTTATT
1 TCACTTAGCAC-ATGCCATGGACTTATT
*
22138569 TCACTTAG---ATGTCATGGACTTATT
1 TCACTTAGCACATGCCATGGACTTATT
22138593 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
*
22138621 TCACTTAG---ATGCCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
22138645 TCACTTAGCACA
1 TCACTTAGCACA
22138657 ATGTCATATC
Statistics
Matches: 77, Mismatches: 4, Indels: 15
0.80 0.04 0.16
Matches are distributed among these distances:
24 44 0.57
25 1 0.01
27 2 0.03
28 30 0.39
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:22141089 original size:46 final size:48
Alignment explanation
Indices: 22140999--22141314 Score: 260
Period size: 46 Copynumber: 6.7 Consensus size: 48
22140989 GTTATAGTGG
* * *
22140999 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGAGA
*
22141047 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATG-AGA
* * * * *
22141093 GCCAGTGTAAGA-CATGTCTAGGATAT-GCATCAG-CTACGAGAT--GT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGAGA
* * *
22141137 GTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGA--TGAGA
* ** *
22141187 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTTGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGAGA
* * * * * *
22141236 GTTAGTGAAAGACCATGTCTGAGACATGGCAT-TGACT--TGATGGATGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT-GA-GA
* *
22141283 GCCAGTGTAAGGCCATGTCTGGGACATGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAT
22141315 TGGCATTATA
Statistics
Matches: 217, Mismatches: 36, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
44 10 0.05
45 15 0.07
46 62 0.29
47 42 0.19
48 17 0.08
49 33 0.15
50 37 0.17
51 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGAGA
Found at i:22143300 original size:21 final size:21
Alignment explanation
Indices: 22143276--22143315 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
22143266 TGTTTCATGG
*
22143276 GAAAATTTCCTAAGTTTTCCT
1 GAAAATTTCCAAAGTTTTCCT
* *
22143297 GAAACTTTTCAAAGTTTTC
1 GAAAATTTCCAAAGTTTTC
22143316 GGTTTAGTCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (21 bp):
GAAAATTTCCAAAGTTTTCCT
Found at i:22147166 original size:28 final size:29
Alignment explanation
Indices: 22147094--22147191 Score: 77
Period size: 28 Copynumber: 3.6 Consensus size: 29
22147084 TACAAATGAT
22147094 TAAATA-T-TAAAAAAAT-TAAAAATAT-
1 TAAATATTATAAAAAAATATAAAAATATC
* * *
22147119 GAAA-ATTAATATAAACATATAAAAAT-TC
1 TAAATATT-ATAAAAAAATATAAAAATATC
22147147 TAAATATTATAAAAAAATATAAAAGA-ATC
1 TAAATATTATAAAAAAATATAAAA-ATATC
*
22147176 TAATAAATTA-AAAAAA
1 TAA-ATATTATAAAAAA
22147192 TAAAATTAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
24 1 0.02
25 4 0.07
27 8 0.14
28 24 0.42
29 15 0.26
30 5 0.09
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (29 bp):
TAAATATTATAAAAAAATATAAAAATATC
Found at i:22147241 original size:73 final size:73
Alignment explanation
Indices: 22147103--22147264 Score: 170
Period size: 73 Copynumber: 2.2 Consensus size: 73
22147093 TTAAATATTA
* **
22147103 AAAAAATTAAAAATATGAAAATTAATATAAACATATAAAAATTCTAAATATTATAAAAAAATATA
1 AAAAAATTAAAAAAATGAAAATTAATATAAACATATAAAAATTCTAAATACCATAAAAAAATAT-
22147168 AAAGAATC-T
65 AAA-AATCAT
* * * ***
22147177 AATAAATTAAAAAAAT-AAAATTAATA-AAACATATTTAAAATTTTAAA-ACCATTAAAATTCTA
1 AAAAAATTAAAAAAATGAAAATTAATATAAACATA-TAAAAATTCTAAATACCA-TAAAAAAATA
22147239 TAAAAATCAT
64 TAAAAATCAT
22147249 AAAAAATATAAAAAAA
1 AAAAAAT-TAAAAAAA
22147265 ATTATAAAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
71 4 0.05
72 19 0.26
73 37 0.50
74 14 0.19
ACGTcount: A:0.65, C:0.05, G:0.01, T:0.28
Consensus pattern (73 bp):
AAAAAATTAAAAAAATGAAAATTAATATAAACATATAAAAATTCTAAATACCATAAAAAAATATA
AAAATCAT
Found at i:22147264 original size:21 final size:21
Alignment explanation
Indices: 22147240--22147283 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
22147230 AAAATTCTAT
22147240 AAAAATCATAAAAAATATAAA
1 AAAAATCATAAAAAATATAAA
* * *
22147261 AAAAATTATAAAAAGTATTAA
1 AAAAATCATAAAAAATATAAA
22147282 AA
1 AA
22147284 TTGATATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAAATCATAAAAAATATAAA
Found at i:22147473 original size:14 final size:14
Alignment explanation
Indices: 22147436--22147479 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
22147426 TTGAACCATT
22147436 TTTTAAAATTTTTA
1 TTTTAAAATTTTTA
* * *
22147450 ATATATAATTTTTA
1 TTTTAAAATTTTTA
22147464 TTTTAAAA-TTTTA
1 TTTTAAAATTTTTA
22147477 TTT
1 TTT
22147480 AATTGAACTA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTAAAATTTTTA
Found at i:22147872 original size:19 final size:19
Alignment explanation
Indices: 22147841--22147909 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 19
22147831 TTTAAATAAA
22147841 TTTTATTAA-ATTTATAATT
1 TTTTA-TAATATTTATAATT
* *
22147860 TTTTATATTATTT-T-ATGA
1 TTTTATAATATTTATAAT-T
* *
22147878 TTTTATAATATGTATAAGT
1 TTTTATAATATTTATAATT
22147897 TTTTATAAT-TTTA
1 TTTTATAATATTTA
22147910 ATAAGTTTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
17 2 0.05
18 17 0.44
19 19 0.49
20 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (19 bp):
TTTTATAATATTTATAATT
Found at i:22147943 original size:8 final size:8
Alignment explanation
Indices: 22147932--22147999 Score: 50
Period size: 8 Copynumber: 8.5 Consensus size: 8
22147922 CAATTTAAAA
22147932 TTTTAATT
1 TTTTAATT
22147940 TTTTAATTT
1 TTTTAA-TT
22147949 TTTTAA-T
1 TTTTAATT
*
22147956 ATTTAA-T
1 TTTTAATT
* *
22147963 ATTTAATA
1 TTTTAATT
*
22147971 TTTAATATT
1 TTTTA-ATT
*
22147980 TTTTTATT
1 TTTTAATT
*
22147988 TTTTTATT
1 TTTTAATT
22147996 TTTT
1 TTTT
22148000 TATAATTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
7 13 0.26
8 24 0.48
9 13 0.26
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTAATT
Found at i:22147967 original size:14 final size:14
Alignment explanation
Indices: 22147950--22147980 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
22147940 TTTTAATTTT
22147950 TTTAATATTTAATA
1 TTTAATATTTAATA
22147964 TTTAATATTTAATA
1 TTTAATATTTAATA
22147978 TTT
1 TTT
22147981 TTTTATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTAATATTTAATA
Found at i:22148000 original size:16 final size:17
Alignment explanation
Indices: 22147932--22148012 Score: 62
Period size: 16 Copynumber: 4.9 Consensus size: 17
22147922 CAATTTAAAA
22147932 TTTTA-ATTTTTTAATTT
1 TTTTATATTTTTT-ATTT
* * *
22147949 TTTTA-A-TATTTAATA
1 TTTTATATTTTTTATTT
* **
22147964 TTTAATATTTAATATTT
1 TTTTATATTTTTTATTT
22147981 TTTTAT-TTTTTTATTT
1 TTTTATATTTTTTATTT
22147997 TTTTATAATTTTTTAT
1 TTTTAT-ATTTTTTAT
22148013 GATTTTCAAG
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
15 6 0.12
16 19 0.40
17 15 0.31
18 8 0.17
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATATTTTTTATTT
Found at i:22148012 original size:10 final size:9
Alignment explanation
Indices: 22147932--22148010 Score: 54
Period size: 9 Copynumber: 8.3 Consensus size: 9
22147922 CAATTTAAAA
22147932 TTTTAA-TT
1 TTTTAATTT
22147940 TTTTAATTT
1 TTTTAATTT
*
22147949 TTTTAA-TA
1 TTTTAATTT
*
22147957 TTTAATATTT
1 TTTTA-ATTT
22147967 AATATTTAATATT
1 --T-TTTAAT-TT
*
22147980 TTTTTATTT
1 TTTTAATTT
*
22147989 TTTTATTTT
1 TTTTAATTT
22147998 TTTATAATTT
1 TTT-TAATTT
22148008 TTT
1 TTT
22148011 ATGATTTTCA
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
8 11 0.20
9 21 0.38
10 14 0.25
11 1 0.02
12 3 0.05
13 5 0.09
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTAATTT
Found at i:22148018 original size:10 final size:8
Alignment explanation
Indices: 22147976--22148012 Score: 56
Period size: 8 Copynumber: 4.4 Consensus size: 8
22147966 TAATATTTAA
22147976 TATTTTTT
1 TATTTTTT
22147984 TATTTTTT
1 TATTTTTT
22147992 TATTTTTT
1 TATTTTTT
22148000 TATAATTTTT
1 TAT--TTTTT
22148010 TAT
1 TAT
22148013 GATTTTCAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 19 0.70
10 8 0.30
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (8 bp):
TATTTTTT
Found at i:22150336 original size:39 final size:39
Alignment explanation
Indices: 22150292--22150368 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
22150282 ATTATATTAT
*
22150292 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACAAAGCCTGCGGGACTTTAACCCGAATACATTTC
* * *
22150331 CAGCACGAAGCCTGCGGGACTTTAGCCCGAATATATTT
1 CAGCACAAAGCCTGCGGGACTTTAACCCGAATACATTT
22150369 TCAGTGTCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (39 bp):
CAGCACAAAGCCTGCGGGACTTTAACCCGAATACATTTC
Found at i:22160253 original size:59 final size:59
Alignment explanation
Indices: 22160161--22160357 Score: 394
Period size: 59 Copynumber: 3.3 Consensus size: 59
22160151 TTGCAACGGG
22160161 ATTACCAATCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGTTTGGATCTGA
1 ATTACCAATCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGTTTGGATCTGA
22160220 ATTACCAATCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGTTTGGATCTGA
1 ATTACCAATCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGTTTGGATCTGA
22160279 ATTACCAATCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGTTTGGATCTGA
1 ATTACCAATCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGTTTGGATCTGA
22160338 ATTACCAATCCAGGCTAAAT
1 ATTACCAATCCAGGCTAAAT
22160358 TCAGACCCTA
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 138 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (59 bp):
ATTACCAATCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGTTTGGATCTGA
Found at i:22161764 original size:84 final size:85
Alignment explanation
Indices: 22161629--22161793 Score: 296
Period size: 84 Copynumber: 2.0 Consensus size: 85
22161619 CAAATTAAAA
22161629 CTTTAATTTCATTCTATTTCATCAAAAAACTTACAGAACTCAACCATGGTGACTTTCAATTTCAT
1 CTTTAATTTCATTCTATTTCATCAAAAAACTTACAGAACTCAACCATGGTGACTTTCAATTTCAT
22161694 CCATGAAATCAAAAACAAAT
66 CCATGAAATCAAAAACAAAT
* **
22161714 CTTTAATTTCATTCTATTTCATC-ATAAACTTACATCACTCAACCATGGTGACTTTCAATTTCAT
1 CTTTAATTTCATTCTATTTCATCAAAAAACTTACAGAACTCAACCATGGTGACTTTCAATTTCAT
22161778 CCATGAAATCAAAAAC
66 CCATGAAATCAAAAAC
22161794 TAATGAATTT
Statistics
Matches: 77, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
84 54 0.70
85 23 0.30
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (85 bp):
CTTTAATTTCATTCTATTTCATCAAAAAACTTACAGAACTCAACCATGGTGACTTTCAATTTCAT
CCATGAAATCAAAAACAAAT
Found at i:22165148 original size:27 final size:26
Alignment explanation
Indices: 22165100--22165159 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
22165090 GCGAGGCTAC
*
22165100 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
22165127 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
22165153 CATATAT
1 CAGATAT
22165160 ATATATGTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:22165170 original size:2 final size:2
Alignment explanation
Indices: 22165165--22165196 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
22165155 TATATATATA
*
22165165 TG TG TG TG TG TG TG TG TG TG TA TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
22165197 GCGAAGCCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:22176978 original size:21 final size:21
Alignment explanation
Indices: 22176938--22176993 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
22176928 GTTCATATCT
22176938 TAAATATTAAATAAAAAATAC
1 TAAATATTAAATAAAAAATAC
* * *
22176959 TAAATGTTAAATAGACAATA-
1 TAAATATTAAATAAAAAATAC
*
22176979 TATATATTAAA-AAAA
1 TAAATATTAAATAAAA
22176994 CATAATATTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 2 0.07
20 9 0.32
21 17 0.61
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (21 bp):
TAAATATTAAATAAAAAATAC
Found at i:22181081 original size:17 final size:17
Alignment explanation
Indices: 22181061--22181107 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
22181051 TTTTGTTTTT
*
22181061 TTTTTAATTTTATGAAC
1 TTTTTATTTTTATGAAC
*
22181078 TTTTTATTTTTTATGAAT
1 TTTTTA-TTTTTATGAAC
22181096 TTTTTATTTTTA
1 TTTTTATTTTTA
22181108 CAGATTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.70
Consensus pattern (17 bp):
TTTTTATTTTTATGAAC
Found at i:22181089 original size:18 final size:18
Alignment explanation
Indices: 22181068--22181106 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
22181058 TTTTTTTTAA
22181068 TTTTATGAACTTTTTATT
1 TTTTATGAACTTTTTATT
*
22181086 TTTTATGAATTTTTTATT
1 TTTTATGAACTTTTTATT
22181104 TTT
1 TTT
22181107 ACAGATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.72
Consensus pattern (18 bp):
TTTTATGAACTTTTTATT
Found at i:22184898 original size:39 final size:39
Alignment explanation
Indices: 22184844--22184921 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
22184834 TCAGTATCCG
22184844 GACCCACATTACGTATAACATTTATCTCATGAAATCAGA
1 GACCCACATTACGTATAACATTTATCTCATGAAATCAGA
22184883 GACCCACATTACGTATAACATTTATCTCATGAAATCAGA
1 GACCCACATTACGTATAACATTTATCTCATGAAATCAGA
22184922 CATAACTCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.28
Consensus pattern (39 bp):
GACCCACATTACGTATAACATTTATCTCATGAAATCAGA
Found at i:22193420 original size:40 final size:39
Alignment explanation
Indices: 22193330--22193554 Score: 224
Period size: 40 Copynumber: 5.6 Consensus size: 39
22193320 TTGAATGATG
* * *
22193330 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAT
* *
22193369 ATCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
22193410 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
*
22193449 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTGAA-
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACT-AAT
* *
22193489 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGAATTACT-AT
1 TCCGGGCTAAGTC-CGAAGGCATTTGTGCGAGTTACTAAT
* *
22193528 AACCGGGCTATGTCTCGAAGGCATTTG
1 -TCCGGGCTAAGTC-CGAAGGCATTTG
22193555 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
38 1 0.01
39 36 0.22
40 111 0.69
41 12 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:22193568 original size:40 final size:40
Alignment explanation
Indices: 22193411--22193573 Score: 104
Period size: 40 Copynumber: 4.1 Consensus size: 40
22193401 GTTACTAATT
* * **
22193411 CCGGGCTAAG-CCCGAAGGCATTGGTGCG-AGTTACTA-AA
1 CCGGGCTAAGTCTCGAAGGCATTTGAACGAAG-TACTATAA
* * ** *
22193449 TCCGGGTTAAGTCCCGAAGGCATTTGTGCG-AGTTACTGA-AT
1 -CCGGGCTAAGTCTCGAAGGCATTTGAACGAAG-TACT-ATAA
* ** *
22193490 CCGGGTTAAGTCTCGAAGGCATTTGTGCGAATTACTATAA
1 CCGGGCTAAGTCTCGAAGGCATTTGAACGAAGTACTATAA
* *
22193530 CCGGGCTATGTCTCGAAGGCATTTGAACG-AGTAGCTATAT
1 CCGGGCTAAGTCTCGAAGGCATTTGAACGAAGTA-CTATAA
22193570 CCGG
1 CCGG
22193574 TTAAATTCTG
Statistics
Matches: 107, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
39 13 0.12
40 91 0.85
41 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCTCGAAGGCATTTGAACGAAGTACTATAA
Found at i:22193967 original size:62 final size:62
Alignment explanation
Indices: 22193891--22194122 Score: 455
Period size: 62 Copynumber: 3.7 Consensus size: 62
22193881 CTTACTAAGC
*
22193891 ATAAATTGCTTACTCCGTTTCTTTGTTTCTCTGTTTTATAGATTTTATTCCGAATAAAATCT
1 ATAAATTGCATACTCCGTTTCTTTGTTTCTCTGTTTTATAGATTTTATTCCGAATAAAATCT
22193953 ATAAATTGCATACTCCGTTTCTTTGTTTCTCTGTTTTATAGATTTTATTCCGAATAAAATCT
1 ATAAATTGCATACTCCGTTTCTTTGTTTCTCTGTTTTATAGATTTTATTCCGAATAAAATCT
22194015 ATAAATTGCATACTCCGTTTCTTTGTTTCTCTGTTTTATAGATTTTATTCCGAATAAAATCT
1 ATAAATTGCATACTCCGTTTCTTTGTTTCTCTGTTTTATAGATTTTATTCCGAATAAAATCT
22194077 ATAAATTGCATACTCCGTTTCTTTGTTTCTCTGTTTTATAGATTTT
1 ATAAATTGCATACTCCGTTTCTTTGTTTCTCTGTTTTATAGATTTT
22194123 GGCTCGTCAG
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 169 1.00
ACGTcount: A:0.24, C:0.16, G:0.10, T:0.50
Consensus pattern (62 bp):
ATAAATTGCATACTCCGTTTCTTTGTTTCTCTGTTTTATAGATTTTATTCCGAATAAAATCT
Done.