Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold362
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: 374504
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 2 of 3
Found at i:88741 original size:37 final size:33
Alignment explanation
Indices: 88547--88720 Score: 263
Period size: 32 Copynumber: 5.5 Consensus size: 33
88537 CCAGCTATAT
88547 TGGGC-TTAGAAG--GGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
* *
88577 TGGGCTTTA-AAGAGGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
*
88609 TGGGCTTTAG-AGAAGGTTGCCGCCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
88641 TGGGCTTTAGAAG--GGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
88672 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
88705 TGGGCTTTGAGAAGAA
1 TGGGCTTT-AGAAGAA
88721 AAAGGTTGCC
Statistics
Matches: 131, Mismatches: 5, Indels: 12
0.89 0.03 0.08
Matches are distributed among these distances:
30 8 0.06
31 33 0.25
32 55 0.42
33 28 0.21
34 7 0.05
ACGTcount: A:0.20, C:0.18, G:0.35, T:0.28
Consensus pattern (33 bp):
TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
Found at i:88760 original size:28 final size:27
Alignment explanation
Indices: 88720--88780 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
88710 TTTGAGAAGA
* *
88720 AAAAGGTTGCCACGGAA-TTGTGGGCTTT
1 AAAAGGGTGCCAC-GAAGTTGTGGAC-TT
88748 AAAAGGGTGCCACGAAGTTGTGGACTT
1 AAAAGGGTGCCACGAAGTTGTGGACTT
88775 AAAAGG
1 AAAAGG
88781 AACAAGGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 11 0.37
28 19 0.63
ACGTcount: A:0.31, C:0.13, G:0.33, T:0.23
Consensus pattern (27 bp):
AAAAGGGTGCCACGAAGTTGTGGACTT
Found at i:88875 original size:66 final size:66
Alignment explanation
Indices: 88790--89199 Score: 482
Period size: 66 Copynumber: 6.3 Consensus size: 66
88780 GAACAAGGTT
88790 CCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAT
1 CCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAT
88855 G
66 G
*
88856 CCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGAGCTTTGAAAAGAAGAT
1 CCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAT
88921 G
66 G
* * * * * *
88922 CCACGGAGTTGTGGACTTTGAAA-GGAACAAG-GTGCCACGGGGTTGTGGAC-TTAAAAAGAAAA
1 CCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAG--AA
*
88984 GGTG
63 GATG
* * * * *
88988 CCACGGAGTGGTGGGCTTTGAAAA--GAAAAAG-GTACCACGGAGTTGTGAGC-TT-AAAAG--G
1 CCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAG
*
89046 GTG
64 ATG
* **
89049 CCACGGAATCATGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAT
1 CCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAT
89114 G
66 G
* * *
89115 CCACGGAGTTGTGGACTTAGAAGGGAAAAAGAGTGCCACGGTGTTGTGGGCTTTGAAGAA-AAGG
1 CCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAA-AAGAA-G
89179 ATG
64 ATG
* *
89182 CCACTGAGTCGTGGACTT
1 CCACGGAGTTGTGGACTT
89200 TGAAGAAAAA
Statistics
Matches: 298, Mismatches: 33, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
59 4 0.01
60 2 0.01
61 23 0.08
62 16 0.05
63 2 0.01
64 12 0.04
65 20 0.07
66 189 0.63
67 30 0.10
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (66 bp):
CCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAT
G
Found at i:89066 original size:193 final size:198
Alignment explanation
Indices: 88748--89203 Score: 595
Period size: 193 Copynumber: 2.3 Consensus size: 198
88738 TGTGGGCTTT
* * * * *
88748 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGAACAAGGTTCCACGGAGTTGTGGAC-TT-AAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA-AAGGTGCCACGGAGTCGTGGACTTTGAAA
* * * **
88811 AGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGATGCCACGGAGTTGTGGACTTAA
65 A-GGAAAAAGAGTACCACAGAGTTGTGAGCTTTGAAAAG-AGATGCCACGGAATCATGGACTTAA
*
88876 AAGGGAAAAAGAGTGCCACAGAGTTGTGAGCTTTGAAAAGAAGATGCCACGGAGTTGTGGACTTT
128 AAGGGAAAAAGAGTGCCACAGAGTTGTGAGCTTTGAAAAGAAGATGCCACGGAGTTGTGGACTTA
88941 GAAAGG
193 GAAAGG
* * * *
88947 AACAAGGTGCCACGGGGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTCGTGGACTTTGAAAA
* *
89012 -GAAAAAG-GTACCACGGAGTTGTGAGC-TT-AAAAG-GGTGCCACGGAATCATGGACTTAAAAG
66 GGAAAAAGAGTACCACAGAGTTGTGAGCTTTGAAAAGAGATGCCACGGAATCATGGACTTAAAAG
*
89072 GGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGATGCCACGGAGTTGTGGACTTAGAA
131 GGAAAAAGAGTGCCACAGAGTTGTGAGCTTTGAAAAGAAGATGCCACGGAGTTGTGGACTTAGAA
*
89137 GGG
196 AGG
* * ** *
89140 AAAAAGAGTGCCACGGTGTTGTGGGCTT-TGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAA
1 AAAAAG-GTGCCACGGAGTTGTGGACTTAAAAAGAAAAGG-TGCCACGGAGTCGTGGACTTTGAA
89204 GAAAAAATGC
Statistics
Matches: 227, Mismatches: 26, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
193 102 0.45
194 40 0.18
195 5 0.02
196 2 0.01
197 16 0.07
198 26 0.11
199 32 0.14
200 4 0.02
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (198 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTCGTGGACTTTGAAAA
GGAAAAAGAGTACCACAGAGTTGTGAGCTTTGAAAAGAGATGCCACGGAATCATGGACTTAAAAG
GGAAAAAGAGTGCCACAGAGTTGTGAGCTTTGAAAAGAAGATGCCACGGAGTTGTGGACTTAGAA
AGG
Found at i:89139 original size:93 final size:93
Alignment explanation
Indices: 88867--89139 Score: 311
Period size: 93 Copynumber: 2.9 Consensus size: 93
88857 CACGGAGTTG
*
88867 TGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGAGCTTTGAAAAGAAGATGCCACGGAGTT
1 TGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGATGCCACGGAGTT
* ** **
88932 GTGGACTTTGAAAGGAACAAGGTGCCACGGGGTTG
66 GTGGAC-TT---A-G-A-AGGGTGCCACGGAATCA
* * * * *
88967 TGGACTTAAAA-AG-AAAAG-GTGCCACGGAGTGGTGGGCTTTGAAAAGAAAAAGGTACCACGGA
1 TGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAG---AAGATGCCACGGA
*
89029 GTTGT-GAGCTTAAAAGGGTGCCACGGAATCA
63 GTTGTGGA-CTTAGAAGGGTGCCACGGAATCA
89060 TGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGATGCCACGGAGTT
1 TGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGATGCCACGGAGTT
89125 GTGGACTTAGAAGGG
66 GTGGACTTAGAAGGG
89140 AAAAAGAGTG
Statistics
Matches: 147, Mismatches: 18, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
93 48 0.33
94 4 0.03
95 5 0.03
96 27 0.18
97 25 0.17
98 5 0.03
99 5 0.03
100 28 0.19
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.19
Consensus pattern (93 bp):
TGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGATGCCACGGAGTT
GTGGACTTAGAAGGGTGCCACGGAATCA
Found at i:89201 original size:32 final size:31
Alignment explanation
Indices: 88816--89364 Score: 273
Period size: 31 Copynumber: 17.2 Consensus size: 31
88806 TTAAAAGGGA
* * *
88816 AAAAGAGTGCCACAGAGTTGTGGGCTTTGAA-
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAAG
* * **
88847 AAGAAGATGCCACGGAGTTGTGGACTTAAAAGGG
1 AA-AAGATGCCACTGAGTCGTGGACTTTGAA--G
* *
88881 AAAAAGAGTGCCACAGAGTTGT-GAGCTTTGAA-
1 -AAAAGA-TGCCACTGAGTCGTGGA-CTTTGAAG
* *
88913 AAGAAGATGCCACGGAGTTGTGGACTTTGAAAGG
1 AA-AAGATGCCACTGAGTCGTGGACTTTG-AA-G
* * * * **
88947 AACAAGGTGCCACGGGGTTGTGGACTTAAAAAG
1 AA-AAGATGCCACTGAGTCGTGGACTT-TGAAG
* * * *
88980 AAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG--AAG
* * * *
89013 AAAAAGGTACCACGGAGTTGT-GAGC-TT--A-
1 -AAAAGATGCCACTGAGTCGTGGA-CTTTGAAG
* * * * * **
89041 AAAGGGTGCCACGGAATCATGGACTTAAAAGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAA--G
* * *
89074 AAAAAGAGTGCCACAGAGTTGTGGGCTTTGAA-
1 -AAAAGA-TGCCACTGAGTCGTGGACTTTGAAG
* * *
89106 AAGAAGATGCCACGGAGTTGTGGACTTAGAAGGG
1 AA-AAGATGCCACTGAGTCGTGGACTTTGAA--G
* * * *
89140 AAAAAGAGTGCCACGGTGTTGTGGGCTTTGAAG
1 -AAAAGA-TGCCACTGAGTCGTGGACTTTGAAG
89173 AAAAGGATGCCACTGAGTCGTGGACTTTGAAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAAG
*
89205 AAAAAATGCCACTGAGTCGTGGACTTTG-AG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
*
89235 ACAAA-ATGCCACTGAGTCAGTGGACTTTAAAG
1 A-AAAGATGCCACTGAGTC-GTGGACTTTGAAG
*
89267 AAAATGATGCCACTAAGTCGTGGACTTTGAAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAAG
*
89299 AAAAGGATGCCACTGAATCGTGGACTTTG-AG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAAG
* *
89330 AAGAA-ATTGCCATTGAGTCGTAGACTTT-AA-
1 AA-AAGA-TGCCACTGAGTCGTGGACTTTGAAG
89360 AAAAG
1 AAAAG
89365 TATTTGAAGA
Statistics
Matches: 420, Mismatches: 56, Indels: 85
0.75 0.10 0.15
Matches are distributed among these distances:
27 16 0.04
28 3 0.01
29 3 0.01
30 20 0.05
31 126 0.30
32 109 0.26
33 24 0.06
34 59 0.14
35 60 0.14
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (31 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAAG
Found at i:89210 original size:66 final size:64
Alignment explanation
Indices: 88790--89328 Score: 445
Period size: 66 Copynumber: 8.3 Consensus size: 64
88780 GAACAAGGTT
* **
88790 CCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAT
1 CCACGGAGTCGTGGACTTTGAA-GGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAA-AAGAT
88855 G
64 G
* ** *
88856 CCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGAGCTTTGAAAAGAAGAT
1 CCACGGAGTCGTGGACTTTGAA-GGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAA-AAGAT
88921 G
64 G
* * * * * ** *
88922 CCACGGAGTTGTGGACTTTGAAAGGAACAAG-GTGCCACGGGGTTGTGGACTTAAAAAGAAAAGG
1 CCACGGAGTCGTGGACTTTG-AAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT-TGAA-AAAAGA
88986 TG
63 TG
* * * * * * * *
88988 CCACGGAGTGGTGGGCTTTGAAAAGAAAAAG-GTACCACGGAGTTGTGAGC-TT--AAAAGGGTG
1 CCACGGAGTCGTGGACTTTG-AAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAAAGATG
* * **
89049 CCACGGAATCATGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAT
1 CCACGGAGTCGTGGACTTTGAA-GGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAA-AAGAT
89114 G
64 G
* * * *
89115 CCACGGAGTTGTGGACTTAGAAGGGAAAAAGAGTGCCACGGTGTTGTGGGCTTTGAAGAAAAGGA
1 CCACGGAGTCGTGGACTTTGAA-GGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAA-AAAA-GA
89180 TG
63 TG
* * * * *
89182 CCACTGAGTCGTGGACTTTGAA-GAAAAA-A-TGCCACTGAGTCGTGGACTTTGAGACAAA-ATG
1 CCACGGAGTCGTGGACTTTGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGA-AAAAAGATG
* * * * *
89243 CCACTGAGTCAGTGGACTTT-AAAGAAAATGA-TGCCACTA-AGTCGTGGACTTTGAAGAAAAGG
1 CCACGGAGTC-GTGGACTTTGAAGGAAAAAGAGTGCCAC-AGAGTTGTGGGCTTTGAA-AAAA-G
89305 ATG
62 ATG
* *
89308 CCACTGAATCGTGGACTTTGA
1 CCACGGAGTCGTGGACTTTGA
89329 GAAGAAATTG
Statistics
Matches: 402, Mismatches: 51, Indels: 41
0.81 0.10 0.08
Matches are distributed among these distances:
60 2 0.00
61 43 0.11
62 32 0.08
63 49 0.12
64 11 0.03
65 40 0.10
66 196 0.49
67 29 0.07
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.21
Consensus pattern (64 bp):
CCACGGAGTCGTGGACTTTGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAAAGATG
Found at i:89277 original size:63 final size:62
Alignment explanation
Indices: 89082--89364 Score: 249
Period size: 63 Copynumber: 4.5 Consensus size: 62
89072 GGAAAAAGAG
* * * * *
89082 TGCCACAGAGTTGTGGGCTTTGAA-AAGAAGATGCCACGGAGTTGTGGAC-TTAGAAGGGAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAA-AAGATGCCACTGAGTCGTGGACTTTA-AA--G-AAAA
*
89145 GA
61 TA
* * * * * *
89147 GTGCCACGGTGTTGTGGGCTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAGAAAAAA
1 -TGCCACTGAGTCGTGGACTTTGAAGAAAA-GATGCCACTGAGTCGTGGACTTTAAAGAAAATA
89211 TGCCACTGAGTCGTGGACTTTG-AGACAAA-ATGCCACTGAGTCAGTGGACTTTAAAGAAAATGA
1 TGCCACTGAGTCGTGGACTTTGAAGA-AAAGATGCCACTGAGTC-GTGGACTTTAAAGAAAAT-A
* *
89274 TGCCACTAAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAATCGTGGACTTTGAGAAG-AAAT-
1 TGCCACTGAGTCGTGGACTTTGAAGAAAA-GATGCCACTGAGTCGTGGACTTT-A-AAGAAAATA
* *
89337 TGCCATTGAGTCGTAGACTTT-AA-AAAAG
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAG
89365 TATTTGAAGA
Statistics
Matches: 189, Mismatches: 17, Indels: 28
0.81 0.07 0.12
Matches are distributed among these distances:
60 1 0.01
61 17 0.09
62 21 0.11
63 64 0.34
64 17 0.09
65 18 0.10
66 27 0.14
67 22 0.12
68 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (62 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTAAAGAAAATA
Found at i:89310 original size:193 final size:191
Alignment explanation
Indices: 88748--89325 Score: 512
Period size: 193 Copynumber: 3.0 Consensus size: 191
88738 TGTGGGCTTT
* ** * * * *
88748 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGAACAAGGTTCCACGGAGTTGTGGAC-TTAAAA
1 AAAAAGGTGCCACGGGGTTGTGGACTTAAAAAGAA-AAGGTGCCACGGAGTCGTGGACTTTGAAA
* * * * * **
88812 GGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGATGCCACGGAGTTGTGGACTTAAA
65 --GAAAAAGA-TACCACGGAGTCGTGAGC-TT-AAAAG-A-ATGCCACGGAATCATGGACTTAAA
* *
88877 AGGGAAAAAGAGTGCCACAGAGTTGT-GAGCTTTGAAAAGAAGATGCCACGGAGTTGTGGACTTT
123 A-GGAAAAAGAGTGCCACAGAGTCGTGGA-CTTTGAAAAGAAGATGCCACGGAGTTGTGGACTTA
88941 GAAAGG
186 GAAAGG
* * *
88947 AACAAGGTGCCACGGGGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAA
1 AAAAAGGTGCCACGGGGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTCGTGGACTTTG-AAA
* * **
89012 GAAAAAGGTACCACGGAGTTGTGAGCTTAAAAGGGTGCCACGGAATCATGGACTTAAAAGGGAAA
65 GAAAAAGATACCACGGAGTCGTGAGCTTAAAAGAATGCCACGGAATCATGGACTTAAAA-GGAAA
* * *
89077 AAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGATGCCACGGAGTTGTGGACTTAGAAGGG
129 AAGAGTGCCACAGAGTCGTGGACTTTGAAAAGAAGATGCCACGGAGTTGTGGACTTAGAAAGG
* * ** *
89140 AAAAAGAGTGCCACGGTGTTGTGGGCTT-TGAAGAAAAGGATGCCACTGAGTCGTGGACTTTG-A
1 AAAAAG-GTGCCACGGGGTTGTGGACTTAAAAAGAAAAGG-TGCCACGGAGTCGTGGACTTTGAA
* * * * *
89203 AGAAAAA-ATGCCACTGAGTCGTG-GACTTTGAGACAA-AATGCCACTGAGTCAGTGGACTTTAA
64 AGAAAAAGATACCACGGAGTCGTGAG-C-TT-A-A-AAGAATGCCACGGAATCA-TGGACTTAAA
* * * *
89265 A-GAAAATGA-TGCCACTA-AGTCGTGGACTTTGAAGAA-AAGGATGCCACTGAATCGTGGACTT
123 AGGAAAAAGAGTGCCAC-AGAGTCGTGGACTTTGAA-AAGAA-GATGCCACGGAGTTGTGGACTT
89326 TGAGAAGAAA
Statistics
Matches: 321, Mismatches: 44, Indels: 34
0.80 0.11 0.09
Matches are distributed among these distances:
190 1 0.00
191 13 0.04
192 32 0.10
193 129 0.40
194 51 0.16
195 17 0.05
196 2 0.01
197 15 0.05
198 26 0.08
199 32 0.10
200 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.21
Consensus pattern (191 bp):
AAAAAGGTGCCACGGGGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTCGTGGACTTTGAAAG
AAAAAGATACCACGGAGTCGTGAGCTTAAAAGAATGCCACGGAATCATGGACTTAAAAGGAAAAA
GAGTGCCACAGAGTCGTGGACTTTGAAAAGAAGATGCCACGGAGTTGTGGACTTAGAAAGG
Found at i:89325 original size:259 final size:257
Alignment explanation
Indices: 88790--89325 Score: 663
Period size: 259 Copynumber: 2.1 Consensus size: 257
88780 GAACAAGGTT
* *
88790 CCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAT
1 CCACGGAATCGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAT
88855 GCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGAGCTTTGAAAAGAAGA
66 GCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGAGCTTTGAAAAGAAGA
* ** * * *
88920 TGCCACGGAGTTGTGGACTTTGAAAGGAACAAGGTGCCACGGGGTTGTGGACTTAAAAAGAAAAG
131 TGCCACGGAGTCGTGGACTTTGAAAGGAACAAAATGCCACGGAGTCGTGGACTTAAAAACAAAA-
* * * * * *
88985 GTGCCACGGAGTGGTGGGCTTTGAAAAGAAAAAGGTACCACGGAGTTGTGAGCTTAAAAGGGTG
195 GTGCCACGGAGTAGTGGACTTT-AAAAGAAAAAGATACCACGAAGTCGTGAGCTTAAAAGGATG
*
89049 CCACGGAATCATGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAT
1 CCACGGAATCGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAT
* * * *
89114 GCCACGGAGTTGTGGACTTAGAAGGGAAAAAGAGTGCCACGGTGTTGTGGGCTTTGAAGAA-AAG
66 GCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGAGCTTTGAA-AAGAA-
* * ** *
89178 GATGCCACTGAGTCGTGGACTTTG-AA-GAA-AAAATGCCACTGAGTCGTGGACTTTGAGACAAA
129 GATGCCACGGAGTCGTGGACTTTGAAAGGAACAAAATGCCACGGAGTCGTGGACTTAAAAACAAA
* * * *
89240 A-TGCCACTGAGTCAGTGGACTTT-AAAGAAAATGATGCCACTAAGTCGTG-GACTTTGAAGAAA
194 AGTGCCACGGAGT-AGTGGACTTTAAAAGAAAAAGATACCACGAAGTCGTGAG-C-TT----AAA
89302 AGGATG
252 AGGATG
*
89308 CCACTGAATCGTGGACTT
1 CCACGGAATCGTGGACTT
89326 TGAGAAGAAA
Statistics
Matches: 238, Mismatches: 30, Indels: 18
0.83 0.10 0.06
Matches are distributed among these distances:
253 1 0.00
254 21 0.09
255 12 0.05
256 8 0.03
257 25 0.11
258 3 0.01
259 144 0.61
260 24 0.10
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.21
Consensus pattern (257 bp):
CCACGGAATCGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAT
GCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGAGCTTTGAAAAGAAGA
TGCCACGGAGTCGTGGACTTTGAAAGGAACAAAATGCCACGGAGTCGTGGACTTAAAAACAAAAG
TGCCACGGAGTAGTGGACTTTAAAAGAAAAAGATACCACGAAGTCGTGAGCTTAAAAGGATG
Found at i:89493 original size:16 final size:17
Alignment explanation
Indices: 89462--89499 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
89452 GATGCAAATA
* *
89462 ATGATGTTATTGATGTT
1 ATGATGTCATTGATGTC
89479 ATGATGTCA-TGATGTC
1 ATGATGTCATTGATGTC
89495 ATGAT
1 ATGAT
89500 TACAGCACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (17 bp):
ATGATGTCATTGATGTC
Found at i:97622 original size:13 final size:13
Alignment explanation
Indices: 97604--97628 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
97594 CAAAGATCAG
97604 TGTATCGATACAA
1 TGTATCGATACAA
97617 TGTATCGATACA
1 TGTATCGATACA
97629 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:97696 original size:20 final size:20
Alignment explanation
Indices: 97667--97724 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
97657 GCAGTAGCTT
97667 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
*
97686 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAAAA
***
97706 CTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
97725 TCGTTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:98629 original size:13 final size:14
Alignment explanation
Indices: 98611--98639 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
98601 TGAAAAAGGG
98611 TTTTTC-CTTTTTT
1 TTTTTCTCTTTTTT
98624 TTTTTCTCTTTTTT
1 TTTTTCTCTTTTTT
98638 TT
1 TT
98640 ATCAAGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTCTCTTTTTT
Found at i:99039 original size:11 final size:11
Alignment explanation
Indices: 99025--99079 Score: 65
Period size: 12 Copynumber: 4.7 Consensus size: 11
99015 TTTTTCATCA
99025 TTTTTTTTGTT
1 TTTTTTTTGTT
*
99036 TTTTGTTTTTTT
1 TTTT-TTTTGTT
99048 TTTGTTTTTGTT
1 TTT-TTTTTGTT
*
99060 TTTTTTGTGTT
1 TTTTTTTTGTT
99071 ATTTTTTTT
1 -TTTTTTTT
99080 TGTGTTTGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 11 0.30
12 25 0.68
13 1 0.03
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.87
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:99046 original size:15 final size:17
Alignment explanation
Indices: 99025--99086 Score: 85
Period size: 17 Copynumber: 3.8 Consensus size: 17
99015 TTTTTCATCA
99025 TTTTTTTTGT-TTTTTG
1 TTTTTTTTGTGTTTTTG
*
99041 TTTTTTTTTTGTTTTTG
1 TTTTTTTTGTGTTTTTG
*
99058 TTTTTTTTGTG-TTAT-
1 TTTTTTTTGTGTTTTTG
99073 TTTTTTTTGTGTTT
1 TTTTTTTTGTGTTT
99087 GTACTTTTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
15 11 0.27
16 14 0.34
17 16 0.39
ACGTcount: A:0.02, C:0.00, G:0.13, T:0.85
Consensus pattern (17 bp):
TTTTTTTTGTGTTTTTG
Found at i:99085 original size:26 final size:26
Alignment explanation
Indices: 99034--99086 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
99024 ATTTTTTTTG
* *
99034 TTTTTTGTTTTTTTTTTGTTTTTGTT
1 TTTTTTGTTTATTTTTTGTTTGTGTT
99060 TTTTTTGTGTTATTTTTT-TTTGTGTT
1 TTTTTTGT-TTATTTTTTGTTTGTGTT
99086 T
1 T
99087 GTACTTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.02, C:0.00, G:0.13, T:0.85
Consensus pattern (26 bp):
TTTTTTGTTTATTTTTTGTTTGTGTT
Found at i:99094 original size:17 final size:15
Alignment explanation
Indices: 99043--99088 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
99033 GTTTTTTGTT
*
99043 TTTTTTTTGTTTTTG
1 TTTTTTTTGTGTTTG
99058 TTTTTTTTGTGTTAT-
1 TTTTTTTTGTGTT-TG
99073 TTTTTTTTGTGTTTG
1 TTTTTTTTGTGTTTG
99088 T
1 T
99089 ACTTTTGAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 1 0.04
15 26 0.93
16 1 0.04
ACGTcount: A:0.02, C:0.00, G:0.15, T:0.83
Consensus pattern (15 bp):
TTTTTTTTGTGTTTG
Found at i:106213 original size:13 final size:13
Alignment explanation
Indices: 106195--106222 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
106185 CATTATTCAA
106195 TGTATCGATACAT
1 TGTATCGATACAT
106208 TGTATCGATACAT
1 TGTATCGATACAT
106221 TG
1 TG
106223 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:109408 original size:18 final size:18
Alignment explanation
Indices: 109385--109433 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
109375 CGCTGCGACA
109385 CTAGTGACGATATTGATG
1 CTAGTGACGATATTGATG
* *
109403 CTAGTGAAGCTATTGATG
1 CTAGTGACGATATTGATG
*
109421 ATAGTGACGATAT
1 CTAGTGACGATAT
109434 CGATCGTGAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.33
Consensus pattern (18 bp):
CTAGTGACGATATTGATG
Found at i:110318 original size:16 final size:16
Alignment explanation
Indices: 110297--110347 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
110287 TTTCTAGTAT
110297 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
*
110313 TTTATTTACTAGCATA
1 TTTATTTACTAGCGTA
*
110329 TTCATTTACTAGCGTA
1 TTTATTTACTAGCGTA
110345 TTT
1 TTT
110348 GCTCTTTCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (16 bp):
TTTATTTACTAGCGTA
Found at i:111403 original size:24 final size:21
Alignment explanation
Indices: 111335--111383 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
111325 TGAGTTAGAA
*
111335 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
111356 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
111377 AAAAAGA
1 AAAAAGA
111384 AATGAAGTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.57, C:0.10, G:0.22, T:0.10
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:116160 original size:14 final size:16
Alignment explanation
Indices: 116129--116175 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
116119 CGAAAAAGTC
116129 AAAA-GCAAAAGCACAA
1 AAAATGCAAAAGCA-AA
116145 AAAATG-AAAAG-AAA
1 AAAATGCAAAAGCAAA
*
116159 AAAGTGCAAAAGCAAA
1 AAAATGCAAAAGCAAA
116175 A
1 A
116176 TAAAAAAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 7 0.26
15 6 0.22
16 13 0.48
17 1 0.04
ACGTcount: A:0.70, C:0.11, G:0.15, T:0.04
Consensus pattern (16 bp):
AAAATGCAAAAGCAAA
Found at i:117621 original size:27 final size:28
Alignment explanation
Indices: 117519--117732 Score: 218
Period size: 27 Copynumber: 7.6 Consensus size: 28
117509 AATGGCATTT
* * *
117519 CTTTTCAAAGCCCACAACTCCATGGCATC
1 CTTTT-AAAGTCCACAACTCCGTGGCACC
* *
117548 TTTTTAAAGTCCACAACTCCTGTGGCATC
1 CTTTTAAAGTCCACAACTCC-GTGGCACC
117577 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* * *
117605 CTTTT-AAGTCCATAACTCCGTGGTACT
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* *
117632 CTTTTAAAGTCCACCACTTCGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* ** *
117660 CTTTT-AAGTCCATAACTTTGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
*
117687 CTTTT-AAGTCCACAACTCTGTGGCAGCAC
1 CTTTTAAAGTCCACAACTCCGTGGCA-C-C
*
117716 CATTTTAAAGCCCACAA
1 C-TTTTAAAGTCCACAA
117733 GTTAGTGGCA
Statistics
Matches: 158, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
27 65 0.41
28 48 0.30
29 32 0.20
30 4 0.03
31 9 0.06
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (28 bp):
CTTTTAAAGTCCACAACTCCGTGGCACC
Found at i:117655 original size:55 final size:56
Alignment explanation
Indices: 117519--117711 Score: 241
Period size: 55 Copynumber: 3.5 Consensus size: 56
117509 AATGGCATTT
* * * * *
117519 CTTTTCAAAGCCCACAACTCCATGGCATCTTTTTAAAGTCCACAACTCCTGTGGCATC
1 CTTTT-AAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCATAACTCCTGTGGCATC
*
117577 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCC-GTGGTA-C
1 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCTGTGGCATC
* * *
117631 TCTTTTAAAGTCCACCACTTCGTGGCACCCTTTTAAGTCCATAACT-TTGTGGCATC
1 -CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCTGTGGCATC
*
117687 CTTTT-AAGTCCACAACTCTGTGGCA
1 CTTTTAAAGTCCACAACTCCGTGGCA
117712 GCACCATTTT
Statistics
Matches: 119, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
54 18 0.15
55 58 0.49
56 14 0.12
57 24 0.20
58 5 0.04
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.32
Consensus pattern (56 bp):
CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCTGTGGCATC
Found at i:117691 original size:82 final size:84
Alignment explanation
Indices: 117530--117709 Score: 231
Period size: 82 Copynumber: 2.2 Consensus size: 84
117520 TTTTCAAAGC
* * *
117530 CCACAACTCCATGGCA-TCTTTTTAAAGTCCACAACTCCTGTGGCATCCTTTTAAAGTCCACAAC
1 CCACAACTCCGTGGTACTC-TTTTAAAGTCCACAACTCCTGTGGCACCCTTTTAAAGTCCACAAC
117594 TCCGTGGCACCCTTTTAAGT
65 TCCGTGGCACCCTTTTAAGT
* * * *
117614 CCATAACTCCGTGGTACTCTTTTAAAGTCCACCACTTC-GTGGCACCCTTTT-AAGTCCATAACT
1 CCACAACTCCGTGGTACTCTTTTAAAGTCCACAACTCCTGTGGCACCCTTTTAAAGTCCACAACT
** *
117677 TTGTGGCATCCTTTTAAGT
66 CCGTGGCACCCTTTTAAGT
*
117696 CCACAACTCTGTGG
1 CCACAACTCCGTGG
117710 CAGCACCATT
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
82 39 0.47
83 12 0.14
84 30 0.36
85 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.32
Consensus pattern (84 bp):
CCACAACTCCGTGGTACTCTTTTAAAGTCCACAACTCCTGTGGCACCCTTTTAAAGTCCACAACT
CCGTGGCACCCTTTTAAGT
Found at i:117797 original size:32 final size:30
Alignment explanation
Indices: 117716--118297 Score: 486
Period size: 28 Copynumber: 19.5 Consensus size: 30
117706 GTGGCAGCAC
* **
117716 CATTTTAAAGCCCACAAGTTAGTGGC-A-T
1 CATTTCAAAGCCCACAAGTCGGTGGCAACT
117744 CATTTCAAAGCCCACAAGTCGGTGGCAACT
1 CATTTCAAAGCCCACAAGTCGGTGGCAACT
117774 CATTTCAAAGCCCACACAAGTCGGTGGCAACT
1 CATTTCAAAG-CC-CACAAGTCGGTGGCAACT
* * *
117806 CATTTGAAAGCCCACACAAGTCGGCGGCAACC
1 CATTTCAAAG-CC-CACAAGTCGGTGGCAACT
*
117838 CATTTCAAAGCCCACAGAAGTCGGTGGCAACC
1 CATTTCAAAGCCCAC--AAGTCGGTGGCAACT
**
117870 CATTTCAAAGCCCACAAGTCAATGGC-A-T
1 CATTTCAAAGCCCACAAGTCGGTGGCAACT
* * **
117898 CCTTTTAAAGCCCACAAGTCAATGGC-A-T
1 CATTTCAAAGCCCACAAGTCGGTGGCAACT
*
117926 CATTTCAAAGCCCACAAGTTGGTGGCAACT
1 CATTTCAAAGCCCACAAGTCGGTGGCAACT
* *
117956 CATTTGAAAGCCCACACAAGCCGGTGGCAACT
1 CATTTCAAAG-CC-CACAAGTCGGTGGCAACT
* * *
117988 CATTTGAAAGCCCACATAAGTTGGTGGTAA-T
1 CATTTCAAAGCCCAC--AAGTCGGTGGCAACT
*
118019 CCATTTCAAAGTCCACACAAGTCGGTGGCAACC
1 -CATTTCAAAG-CC-CACAAGTCGGTGGCAACT
* *
118052 CATTTCAAAGCTCACAAGTCAGTGGC-A-T
1 CATTTCAAAGCCCACAAGTCGGTGGCAACT
* * **
118080 CCTTTCAAAGCCCATAAGTCTATGGC-AC-
1 CATTTCAAAGCCCACAAGTCGGTGGCAACT
* * *
118108 CCTTTTAAAGCCCACAAGTCAGTGGC-AC-
1 CATTTCAAAGCCCACAAGTCGGTGGCAACT
* * **
118136 CCTTCCAAAGCCCACAAGTTAGTGGC-AC-
1 CATTTCAAAGCCCACAAGTCGGTGGCAACT
* *
118164 CCTTTCAAAGCCCACAAGTCAGTGGCATAC-
1 CATTTCAAAGCCCACAAGTCGGTGGCA-ACT
* *
118194 CCTTTCAAAGCCCACAAGAT-AGTGGC-A-T
1 CATTTCAAAGCCCACAAG-TCGGTGGCAACT
* *
118222 CTTTTCAAAGCCCACAAGTCAGTGGC-A-T
1 CATTTCAAAGCCCACAAGTCGGTGGCAACT
*
118250 CATTTCAAAGCCCACTCAAGTCGGTTGCAACT
1 CATTTCAAAGCCCA--CAAGTCGGTGGCAACT
* *
118282 CTTTTCAAAGCTCACA
1 CATTTCAAAGCCCACA
118298 TAAGTTAGTG
Statistics
Matches: 477, Mismatches: 51, Indels: 50
0.83 0.09 0.09
Matches are distributed among these distances:
27 1 0.00
28 204 0.43
29 4 0.01
30 87 0.18
31 12 0.03
32 164 0.34
33 2 0.00
34 3 0.01
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.22
Consensus pattern (30 bp):
CATTTCAAAGCCCACAAGTCGGTGGCAACT
Found at i:117836 original size:64 final size:62
Alignment explanation
Indices: 117743--118297 Score: 480
Period size: 64 Copynumber: 9.3 Consensus size: 62
117733 GTTAGTGGCA
117743 TCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * *
117805 TCATTTGAAAGCCCACACAAGTCGGCGGCAACCCATTTCAAAGCCCACAGAAGTCGGTGGCAAC
1 TCATTTCAAAG-CC-CACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* ** * * **
117869 CCATTTCAAAGCCCACAAGTCAATGGC-A-TCCTTTTAAAG-CC-CACAAGTCAATGGC-A-
1 TCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
117925 TCATTTCAAAGCCCACAAGTTGGTGGCAACTCATTTGAAAGCCCACACAAGCCGGTGGCAAC
1 TCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * *
117987 TCATTTGAAAGCCCACATAAGTTGGTGGTAA-TCCATTTCAAAGTCCACACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCAC--AAGTCGGTGGCAACT-CATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * * * **
118051 CCATTTCAAAGCTCACAAGTCAGTGGC-A-TCCTTTCAAAG-CC-CATAAGTCTATGGC-AC
1 TCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * * * **
118108 -CCTTTTAAAGCCCACAAGTCAGTGGC-AC-CCTTCCAAAG-CC-CACAAGTTAGTGGC-AC
1 TCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * *
118164 -CCTTTCAAAGCCCACAAGTCAGTGGCATAC-CCTTTCAAAG-CC-CACAAGAT-AGTGGC-A-
1 TCATTTCAAAGCCCACAAGTCGGTGGCA-ACTCATTTCAAAGCCCACACAAG-TCGGTGGCAAC
* * * *
118221 TCTTTTCAAAGCCCACAAGTCAGTGGC-A-TCATTTCAAAGCCCACTCAAGTCGGTTGCAAC
1 TCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
118281 TCTTTTCAAAGCTCACA
1 TCATTTCAAAGCCCACA
118298 TAAGTTAGTG
Statistics
Matches: 416, Mismatches: 55, Indels: 46
0.80 0.11 0.09
Matches are distributed among these distances:
56 105 0.25
57 7 0.02
58 91 0.22
59 8 0.02
60 44 0.11
61 4 0.01
62 44 0.11
63 5 0.01
64 108 0.26
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (62 bp):
TCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
Found at i:118025 original size:182 final size:182
Alignment explanation
Indices: 117718--118264 Score: 654
Period size: 182 Copynumber: 3.1 Consensus size: 182
117708 GGCAGCACCA
* *
117718 TTTTAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTCAAA
1 TTTTAAAGCCCACAAGTCAATGGCATCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTCAAA
*
117783 GCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCACACAAGTCGGCGGCAACCCATTTCAAAG
66 GCCCACACAAGCCGGTGGCAACTCATTTGAAAGCCCACACAAGTCGGCGGCAACCCATTTCAAAG
*
117848 CCCACAGAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCAATGGCATCC
131 CCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCAATGGCATCC
* *
117900 TTTTAAAGCCCACAAGTCAATGGCATCATTTCAAAGCCCACAAGTTGGTGGCAACTCATTTGAAA
1 TTTTAAAGCCCACAAGTCAATGGCATCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTCAAA
* * * * *
117965 GCCCACACAAGCCGGTGGCAACTCATTTGAAAGCCCACATAAGTTGGTGGTAATCCATTTCAAAG
66 GCCCACACAAGCCGGTGGCAACTCATTTGAAAGCCCACACAAGTCGGCGGCAACCCATTTCAAAG
* * *
118030 TCCACACAAGTCGGTGGCAACCCATTTCAAAGCTCACAAGTCAGTGGCATCC
131 CCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCAATGGCATCC
* * * * * * * * *
118082 TTTCAAAGCCCATAAGTCTATGGCACCCTTTTAAAGCCCACAAGTCAGTGGC-AC-CCTTCCAAA
1 TTTTAAAGCCCACAAGTCAATGGCATCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTCAAA
*** * * * *
118145 G-CC-CACAAGTTAGTGGC-AC-CCTTTCAAAG-CC-CACAAGTCAGTGGCATACCC-TTTCAAA
66 GCCCACACAAGCCGGTGGCAACTCATTTGAAAGCCCACACAAGTCGGCGGCA-ACCCATTTCAAA
* * * * *
118203 G-CC-CACAAGAT-AGTGGC-A-TCTTTTCAAAGCCCACAAGTCAGTGGCATCA
130 GCCCACACAAG-TCGGTGGCAACCCATTTCAAAGCCCACAAGTCAATGGCATCC
*
118252 TTTCAAAGCCCAC
1 TTTTAAAGCCCAC
118265 TCAAGTCGGT
Statistics
Matches: 322, Mismatches: 41, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
170 39 0.12
171 1 0.00
172 11 0.03
173 3 0.01
174 19 0.06
175 5 0.02
176 8 0.02
177 2 0.01
178 11 0.03
179 2 0.01
180 7 0.02
181 2 0.01
182 212 0.66
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (182 bp):
TTTTAAAGCCCACAAGTCAATGGCATCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTCAAA
GCCCACACAAGCCGGTGGCAACTCATTTGAAAGCCCACACAAGTCGGCGGCAACCCATTTCAAAG
CCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCAATGGCATCC
Found at i:118441 original size:45 final size:48
Alignment explanation
Indices: 118386--118500 Score: 128
Period size: 48 Copynumber: 2.5 Consensus size: 48
118376 TCCGATATCA
* * *
118386 CTAGCATTGAATCAACATATTGT-CA-TTTT-TATTAGCTCAATGTCG
1 CTAGCCTTGAATCAACACATTGTCCACTTTTCCATTAGCTCAATGTCG
* * *
118431 CTAGCCTTGAATTAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCG
1 CTAGCCTTGAATCAACACATTGTCCACTTTTCCATTAGCTCAATGTCG
* * *
118479 CTAGCCTTAAATTAGCACATTG
1 CTAGCCTTGAATCAACACATTG
118501 GCACTCCTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
45 19 0.32
46 2 0.03
47 4 0.07
48 35 0.58
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (48 bp):
CTAGCCTTGAATCAACACATTGTCCACTTTTCCATTAGCTCAATGTCG
Found at i:118444 original size:25 final size:25
Alignment explanation
Indices: 118416--118494 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
118406 TGTCATTTTT
*
118416 ATTAGCTCAATGTCGCTAGCCTTGA
1 ATTAGCTCAATGTCGCTAGCCTTAA
* * * **
118441 ATTAGCACATTGTC-C-A-CTTTTCC
1 ATTAGCTCAATGTCGCTAGC-CTTAA
*
118464 CTTAGCTCAATGTCGCTAGCCTTAA
1 ATTAGCTCAATGTCGCTAGCCTTAA
118489 ATTAGC
1 ATTAGC
118495 ACATTGGCAC
Statistics
Matches: 38, Mismatches: 12, Indels: 8
0.66 0.21 0.14
Matches are distributed among these distances:
22 1 0.03
23 14 0.37
24 2 0.05
25 20 0.53
26 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (25 bp):
ATTAGCTCAATGTCGCTAGCCTTAA
Found at i:119596 original size:12 final size:12
Alignment explanation
Indices: 119579--119603 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
119569 AGAAAGGGAG
119579 AAAAAGAAAAAA
1 AAAAAGAAAAAA
119591 AAAAAGAAAAAA
1 AAAAAGAAAAAA
119603 A
1 A
119604 CATATGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:125459 original size:16 final size:16
Alignment explanation
Indices: 125438--125471 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
125428 CCTATATTCG
*
125438 TTTGCATTGACTTGCA
1 TTTGCATTCACTTGCA
*
125454 TTTGCATTCATTTGCA
1 TTTGCATTCACTTGCA
125470 TT
1 TT
125472 CCTATTCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.50
Consensus pattern (16 bp):
TTTGCATTCACTTGCA
Found at i:125494 original size:25 final size:25
Alignment explanation
Indices: 125461--125523 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
125451 GCATTTGCAT
*
125461 TCATTTGCATTCCTATTCGCACAGA
1 TCATATGCATTCCTATTCGCACAGA
*
125486 TCATATGCATTCCTATTCGCACAGC
1 TCATATGCATTCCTATTCGCACAGA
*
125511 TCATGTGCATTCC
1 TCATATGCATTCC
125524 CACTTATGTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.35
Consensus pattern (25 bp):
TCATATGCATTCCTATTCGCACAGA
Found at i:126288 original size:24 final size:24
Alignment explanation
Indices: 126261--126309 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
126251 TTTTTAAAGA
126261 TATTTCAA-CAAAACCTCCAAAGCC
1 TATTTCAAGCAAAACC-CCAAAGCC
* *
126285 TATTTCAAGCATATCCCCAAAGCC
1 TATTTCAAGCAAAACCCCAAAGCC
126309 T
1 T
126310 CTCTTAAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.37, C:0.33, G:0.06, T:0.24
Consensus pattern (24 bp):
TATTTCAAGCAAAACCCCAAAGCC
Found at i:130252 original size:20 final size:21
Alignment explanation
Indices: 130201--130252 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 21
130191 CAGGCTCCAA
130201 TATCGATACA-TTCACTCATG
1 TATCGATACATTTCACTCATG
* * * *
130221 TAACAATGCATTTC-CTTATG
1 TATCGATACATTTCACTCATG
130241 TATCGATACATT
1 TATCGATACATT
130253 AAGTTGTATC
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (21 bp):
TATCGATACATTTCACTCATG
Found at i:132938 original size:157 final size:158
Alignment explanation
Indices: 132565--132939 Score: 517
Period size: 157 Copynumber: 2.4 Consensus size: 158
132555 TTTAAAAACT
* * * * * **
132565 TTTTATACCCCTACGGACCCCCATTGGAATATAAAACATTAAAAAA-ATGAA-AGTTTCTCTCGG
1 TTTTATACTCCTACGGACCCCCATAGGAATATAAAACATTAAAAAAGATTAATA-TTTATTTCAA
* *
132628 TTATGAAAGTATTAATTTAATTTTATTTATTTTTGAAAAATATCATTTCATACCATAATGGAAAC
65 TTACGAAAGTATTAATTTAATTTTATTTATTTTTGAAAAATATCATTTCATACCATAATGAAAAC
**
132693 TTAAAAAGATACGAAAAGTTTTTGAAATC
130 CCAAAAAGATACGAAAAGTTTTTGAAATC
* * *
132722 TTTTACACTCCTACGGACCCCCATAGGAATATAAAAGATTAAAAATGATTAATATTTATTTCAAT
1 TTTTATACTCCTACGGACCCCCATAGGAATATAAAACATTAAAAAAGATTAATATTTATTTCAAT
* * * *
132787 TACGAAAGTATTAATTTAATTTTATTTATTTTTGAAAGATA-C-TATTCGTACCTTGATGAAAAC
66 TACGAAAGTATTAATTTAATTTTATTTATTTTTGAAAAATATCAT-TTCATACCATAATGAAAAC
132850 CCAAAAAGATACGAAAAGTTTTTGAAATC
130 CCAAAAAGATACGAAAAGTTTTTGAAATC
*
132879 TTTTATACTCCTACGGA-CCCCATAGGAATATAAAATATTAAAAAAGGATTAATATTTATTT
1 TTTTATACTCCTACGGACCCCCATAGGAATATAAAACATTAAAAAA-GATTAATATTTATTT
132940 TTACTACTAA
Statistics
Matches: 193, Mismatches: 21, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
156 27 0.14
157 115 0.60
158 50 0.26
159 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (158 bp):
TTTTATACTCCTACGGACCCCCATAGGAATATAAAACATTAAAAAAGATTAATATTTATTTCAAT
TACGAAAGTATTAATTTAATTTTATTTATTTTTGAAAAATATCATTTCATACCATAATGAAAACC
CAAAAAGATACGAAAAGTTTTTGAAATC
Found at i:134681 original size:167 final size:166
Alignment explanation
Indices: 134352--134827 Score: 570
Period size: 167 Copynumber: 2.9 Consensus size: 166
134342 TGACATAATT
* * * * * ** * **
134352 TGAATTTTTTAAAAATGATTTAATATGAATTTAATGACAATATTAGATGAATTCTAAAA-TTTTA
1 TGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTTATGAATTTTAAAAGTTAAA
*** * * * *
134416 AATTGA-GAAAAATCCTACTAAAAAAA-TTACAGAGAAGAAAACTCAATTTTTCGAAAAAAGAGA
66 AACCAATG-AAAATCCTCCCAAAAAAATTTACAGAGAAGAAAACTCTATATTTCGAAAAAAGAGA
* * * *
134479 ATTTCAAGGATAAAATTCAAAAACTGATGAAAATGAA
130 GTTTCAAGGAAAAAATTCAAAAACTCATAAAAATGAA
* *
134516 TGAATTTTTGAAAACTGATTTAATATGAATTAAATAATGATATTTTATGAATTTTAAAAATTTAA
1 TGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTTATGAATTTT-AAAAGTTAA
* * *
134581 AAACCAATGAAAATCCTCCCAAAAAAATTTACGGAGAAGAAAACTCTATAATTCGGAAAAACGAT
65 AAACCAATGAAAATCCTCCCAAAAAAATTTACAGAGAAGAAAACTCTATATTTC-GAAAAAAGA-
134646 G-GTTTC-AGGAAAAAATTCAAAAA-TCCATAAAAATGAA
128 GAGTTTCAAGGAAAAAATTCAAAAACT-CATAAAAATGAA
*
134683 TGAATTTTTGAAAATTGATTTAATATGAATTAAATAATAATATTTTATGAATTTTAAAAGTTAAA
1 TGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTTATGAATTTTAAAAGTTAAA
* * * *
134748 AACCAATGAAAATTCTCCC-AAAAAATTTATAGAGAAGAAAACTTTATATTTCAAAAAAATGAGA
66 AACCAATGAAAATCCTCCCAAAAAAATTTACAGAGAAGAAAACTCTATATTTCGAAAAAA-GAGA
134812 GTTTCAAGGAAAAAAT
130 GTTTCAAGGAAAAAAT
134828 GGGGTTGGAG
Statistics
Matches: 267, Mismatches: 35, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
164 52 0.19
165 40 0.15
166 60 0.22
167 102 0.38
168 12 0.04
169 1 0.00
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (166 bp):
TGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTTATGAATTTTAAAAGTTAAA
AACCAATGAAAATCCTCCCAAAAAAATTTACAGAGAAGAAAACTCTATATTTCGAAAAAAGAGAG
TTTCAAGGAAAAAATTCAAAAACTCATAAAAATGAA
Found at i:134962 original size:78 final size:78
Alignment explanation
Indices: 134826--135102 Score: 288
Period size: 79 Copynumber: 3.5 Consensus size: 78
134816 CAAGGAAAAA
** * *
134826 ATGGGGTTGGAGTATCTTCGATGGTGAAAAATCGATAATTTGAAAATAAAAACGAGGTTAGAGTA
1 ATGGGGTTGGAGTATCCCCGATAGTGAAAAATCGATAATTTGGAAATAAAAACGAGGTT-GAGTA
* *
134891 TCCCCTCGGAAATG
65 TCCCTTCGAAAATG
*
134905 ATGGGGTTGGAGTATCCCCGATAGTG-AAAATCGATAATTTGGAAATAAAAACAAGGTTGGAGTA
1 ATGGGGTTGGAGTATCCCCGATAGTGAAAAATCGATAATTTGGAAATAAAAACGAGGTT-GAGTA
* *
134969 TCTCTTCGAAAATA
65 TCCCTTCGAAAATG
* ** * * * * * * *
134983 ATGGAGTTAAAATATTCCCGATTA-TGAAAAATTGGTAATTGGGAAATAAAAATGGGGTTGAAGT
1 ATGGGGTTGGAGTATCCCCGA-TAGTGAAAAATCGATAATTTGGAAATAAAAACGAGGTTG-AGT
135047 ATCCCTTCGAAAATG
64 ATCCCTTCGAAAATG
* ** * *
135062 ATGGCGTTGGAGTATCCCTAATGGTGAAAAATTGATAATTT
1 ATGGGGTTGGAGTATCCCCGATAGTGAAAAATCGATAATTT
135103 TTTTATGAAG
Statistics
Matches: 161, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
78 65 0.40
79 96 0.60
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (78 bp):
ATGGGGTTGGAGTATCCCCGATAGTGAAAAATCGATAATTTGGAAATAAAAACGAGGTTGAGTAT
CCCTTCGAAAATG
Found at i:137228 original size:19 final size:19
Alignment explanation
Indices: 137204--137240 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
137194 TTTATACATA
137204 TATTGATACATTCACTATG
1 TATTGATACATTCACTATG
137223 TATTGATACATTCACTAT
1 TATTGATACATTCACTAT
137241 TTGTATCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.43
Consensus pattern (19 bp):
TATTGATACATTCACTATG
Found at i:137252 original size:21 final size:19
Alignment explanation
Indices: 137209--137253 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
137199 ACATATATTG
**
137209 ATACATTCACTATGTATTG
1 ATACATTCACTATGTATCA
137228 ATACATTCACTATTTGTATCA
1 ATACATTCACTA--TGTATCA
137249 ATACA
1 ATACA
137254 AATTGTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.55
21 10 0.45
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.40
Consensus pattern (19 bp):
ATACATTCACTATGTATCA
Found at i:137847 original size:28 final size:29
Alignment explanation
Indices: 137771--138519 Score: 565
Period size: 28 Copynumber: 25.9 Consensus size: 29
137761 ATTTGACCTC
* *
137771 GATGCCACTAACTTGTGAGCTTTGAAAGG
1 GATGCCACTGACTTGTGGGCTTTGAAAGG
* * *
137800 AGATGCCACTAACTTTTGGGCTTTGAAATG
1 -GATGCCACTGACTTGTGGGCTTTGAAAGG
137830 G-TGCCACTGACTTGTGGGCTTTGAAAGG
1 GATGCCACTGACTTGTGGGCTTTGAAAGG
* * *
137858 AGATGCCACTAACATGTGGGCTTTAAAAGG
1 -GATGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
137888 G-TGCCACTAACTTATGGGCTTTAAAAAGA
1 GATGCCACTGACTTGTGGGCTTT-GAAAGG
*
137917 GATGCCACTAACTTGTGGGCTTTGAAAGGG
1 GATGCCACTGACTTGTGGGCTTTGAAA-GG
*
137947 GATGCCA-TCGACTTATGGGCTTTGAAAGG
1 GATGCCACT-GACTTGTGGGCTTTGAAAGG
* * * * * *
137976 AGATACCATTGACATGTGGGCTTTTAGAGT
1 -GATGCCACTGACTTGTGGGCTTTGAAAGG
* * *
138006 G-TGCCAATGACTTGTGGACATT-AAGAGG
1 GATGCCACTGACTTGTGGGCTTTGAA-AGG
138034 G-TGCCACTGACTTGTGGGCTTTGAAAGG
1 GATGCCACTGACTTGTGGGCTTTGAAAGG
* *
138062 GATGCCA-TCGACTTATGGGCTTTGAAAGCA
1 GATGCCACT-GACTTGTGGGCTTTGAAAG-G
* *
138092 GATGCCACTAACTTGTGGGCTTTGAAAGA
1 GATGCCACTGACTTGTGGGCTTTGAAAGG
* * *
138121 G-TACCACTGACTTGTGGGTTTTAAAAGGG
1 GATGCCACTGACTTGTGGGCTTTGAAA-GG
* *
138150 GATG-CAATCGACTTATGGGCTTT-AAGAGG
1 GATGCCACT-GACTTGTGGGCTTTGAA-AGG
* * * *
138179 G-TGCCATTAACTTTTTGGCTTT-AATAGG
1 GATGCCACTGACTTGTGGGCTTTGAA-AGG
* * * *
138207 G-TGCCACTAACTTATAGGCTTTGATAGGG
1 GATGCCACTGACTTGTGGGCTTTGA-AAGG
* **
138236 GATGCCACCGACTTGTAAGCTTTGAAAGG
1 GATGCCACTGACTTGTGGGCTTTGAAAGG
* *
138265 AAATGCCAC-GACTCGTGGGCTTTGAGAA-G
1 -GATGCCACTGACTTGTGGGCTTTGA-AAGG
* *
138294 G-TGCCAATAACTTGTGGGCTTT-AAGAGG
1 GATGCCACTGACTTGTGGGCTTTGAA-AGG
* *
138322 G-TGCCACTAACTTATGGGCTTTGAAAGG
1 GATGCCACTGACTTGTGGGCTTTGAAAGG
*
138350 AGATGCCACTGAACTTGTGGGCTAT-AAGAGG
1 -GATGCCACTG-ACTTGTGGGCTTTGAA-AGG
* *
138381 G-TGCCAATGACTTATGGGCTTT--AAGAG
1 GATGCCACTGACTTGTGGGCTTTGAAAG-G
* * * * *
138408 GATGCAACTGACTTATAGGCTTCGATAGG
1 GATGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
138437 AATGCCACAGATTTGTGGGCTTTGAGAGG
1 GATGCCACTGACTTGTGGGCTTTGAAAGG
* *
138466 G-TACCACTGACTTGTGGGCTTTAAAAGG
1 GATGCCACTGACTTGTGGGCTTTGAAAGG
*
138494 G-TGCCACTGATTTGTGGGCTTTGAAA
1 GATGCCACTGACTTGTGGGCTTTGAAA
138520 AGAGATTTGG
Statistics
Matches: 585, Mismatches: 98, Indels: 74
0.77 0.13 0.10
Matches are distributed among these distances:
26 3 0.01
27 11 0.02
28 252 0.43
29 109 0.19
30 194 0.33
31 16 0.03
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (29 bp):
GATGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:137863 original size:58 final size:58
Alignment explanation
Indices: 137773--138519 Score: 586
Period size: 58 Copynumber: 12.9 Consensus size: 58
137763 TTGACCTCGA
* * * *
137773 TGCCACTAACTTGTGAGCTTTGAAAGGAGATGCCACTAACTTTTGGGCTTTGAAATGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAGATGCCACTAACTTGTGGGCTTTGAAAGGG
* *
137831 TGCCACTGACTTGTGGGCTTTGAAAGGAGATGCCACTAACATGTGGGCTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAGATGCCACTAACTTGTGGGCTTTGAAAGGG
* * * *
137889 TGCCACTAACTTATGGGCTTTAAAAAGAGATGCCACTAACTTGTGGGCTTTGAAAGGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAGATGCCACTAACTTGTGGGCTTTGAAA-GGG
* * * * * * * *
137948 ATGCCA-TCGACTTATGGGCTTTGAAAGGAGATACCATTGACATGTGGGCTTTTAGAGTG
1 -TGCCACT-GACTTGTGGGCTTTGAAAGGAGATGCCACTAACTTGTGGGCTTTGAAAGGG
* * * *
138007 TGCCAATGACTTGTGGACATT-AAGAGG-G-TGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAA-AGGAGATGCCACTAACTTGTGGGCTTTGAAAGGG
* * *
138063 ATGCCA-TCGACTTATGGGCTTTGAAAGCAGATGCCACTAACTTGTGGGCTTTGAAAGAG
1 -TGCCACT-GACTTGTGGGCTTTGAAAGGAGATGCCACTAACTTGTGGGCTTTGAAAGGG
* * * * * * *
138122 TACCACTGACTTGTGGGTTTTAAAAGGGGATG-CAATCGACTTATGGGCTTT-AAGAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAGATGCCACT-AACTTGTGGGCTTTGAA-AGGG
* * * * * * *
138180 TGCCATTAACTTTTTGGCTTT-AATAGG-G-TGCCACTAACTTATAGGCTTTGATAGGGG
1 TGCCACTGACTTGTGGGCTTTGAA-AGGAGATGCCACTAACTTGTGGGCTTTGA-AAGGG
* ** * * *
138237 ATGCCACCGACTTGTAAGCTTTGAAAGGAAATGCCAC-GACTCGTGGGCTTTGAGAA-GG
1 -TGCCACTGACTTGTGGGCTTTGAAAGGAGATGCCACTAACTTGTGGGCTTTGA-AAGGG
* * *
138295 TGCCAATAACTTGTGGGCTTT-AAGAGG-G-TGCCACTAACTTATGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAA-AGGAGATGCCACTAACTTGTGGGCTTTGAAAGG-G
* * * * *
138352 ATGCCACTGAACTTGTGGGCTAT-AAGAGG-G-TGCCAATGACTTATGGGCTTT-AAGAGGA
1 -TGCCACTG-ACTTGTGGGCTTTGAA-AGGAGATGCCACTAACTTGTGGGCTTTGAA-AGGG
* * * * * * *
138410 TGCAACTGACTTATAGGCTTCGATAGGA-ATGCCAC-AGATTTGTGGGCTTTGAGAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAGATGCCACTA-ACTTGTGGGCTTTGAAAGGG
* * * *
138467 TACCACTGACTTGTGGGCTTTAAAAGG-G-TGCCACTGATTTGTGGGCTTTGAAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGAGATGCCACTAACTTGTGGGCTTTGAAA
138520 AGAGATTTGG
Statistics
Matches: 548, Mismatches: 106, Indels: 72
0.75 0.15 0.10
Matches are distributed among these distances:
55 8 0.01
56 87 0.16
57 103 0.19
58 210 0.38
59 90 0.16
60 50 0.09
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (58 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGAGATGCCACTAACTTGTGGGCTTTGAAAGGG
Found at i:138109 original size:115 final size:114
Alignment explanation
Indices: 137773--138519 Score: 617
Period size: 115 Copynumber: 6.5 Consensus size: 114
137763 TTGACCTCGA
* * * * * *
137773 TGCCACTAACTTGTGAGCTTTGAAAGGAGATGCCACTAACTTTTGGGCTTTGAAATGGTGCCA-C
1 TGCCACTGACTTGTGGGCTTTAAAAGG-G-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCATC
* * *
137837 TGACTTGTGGGCTTTGAAAGGAGATGCCACTAACATGTGGGCTTTAAAAGGG
64 -GACTTATGGGCTTTGAAAGGAGATGCCACTAACTTGTGGGCTTTGAAAGGG
* * * *
137889 TGCCACTAACTTATGGGCTTTAAAAAGAGATGCCACTAACTTGTGGGCTTTGAAAGGGGATGCCA
1 TGCCACTGACTTGTGGGCTTT-AAAAG-GGTGCCACTGACTTGTGGGCTTTGAAA-GGG-TGCCA
* * * * * * *
137954 TCGACTTATGGGCTTTGAAAGGAGATACCATTGACATGTGGGCTTTTAGAGTG
62 TCGACTTATGGGCTTTGAAAGGAGATGCCACTAACTTGTGGGCTTTGAAAGGG
* * * *
138007 TGCCAATGACTTGTGGACATTAAGAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGATGCCATCG
1 TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG-TGCCATCG
* *
138072 ACTTATGGGCTTTGAAAGCAGATGCCACTAACTTGTGGGCTTTGAAAGAG
65 ACTTATGGGCTTTGAAAGGAGATGCCACTAACTTGTGGGCTTTGAAAGGG
* * * *
138122 TACCACTGACTTGTGGGTTTTAAAAGGGGATG-CAATCGACTTATGGGCTTT-AAGAGGGTGCCA
1 TGCCACTGACTTGTGGGCTTTAAAA-GGG-TGCCACT-GACTTGTGGGCTTTGAA-AGGGTGCCA
** * * * * *
138185 TTAACTTTTTGGCTTT-AATAGG-G-TGCCACTAACTTATAGGCTTTGATAGGGG
62 TCGACTTATGGGCTTTGAA-AGGAGATGCCACTAACTTGTGGGCTTTGA-AAGGG
* ** * * *
138237 ATGCCACCGACTTGTAAGCTTTGAAAGGAAATGCCAC-GACTCGTGGGCTTTGAGAA-GGTGCCA
1 -TGCCACTGACTTGTGGGCTTTAAAAGG--GTGCCACTGACTTGTGGGCTTTGA-AAGGGTGCC-
* * *
138300 AT-AACTTGTGGGCTTT-AAGAGG-G-TGCCACTAACTTATGGGCTTTGAAAGGAG
61 ATCGACTTATGGGCTTTGAA-AGGAGATGCCACTAACTTGTGGGCTTTGAAAGG-G
* * * * * *
138352 ATGCCACTGAACTTGTGGGCTATAAGAGGGTGCCAATGACTTATGGGCTTT-AAGAGGATG-CAA
1 -TGCCACTG-ACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAA-AGGGTGCCAT
* * * * *
138415 CTGACTTATAGGCTTCGATAGGA-ATGCCAC-AGATTTGTGGGCTTTGAGAGGG
63 C-GACTTATGGGCTTTGAAAGGAGATGCCACTA-ACTTGTGGGCTTTGAAAGGG
* *
138467 TACCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGATTTGTGGGCTTTGAAA
1 TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
138520 AGAGATTTGG
Statistics
Matches: 514, Mismatches: 87, Indels: 63
0.77 0.13 0.09
Matches are distributed among these distances:
113 39 0.08
114 41 0.08
115 178 0.35
116 157 0.31
117 32 0.06
118 66 0.13
119 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (114 bp):
TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCATCGA
CTTATGGGCTTTGAAAGGAGATGCCACTAACTTGTGGGCTTTGAAAGGG
Found at i:139921 original size:15 final size:14
Alignment explanation
Indices: 139888--139919 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
139878 ATCTGGGCCC
139888 TTTTTCTTTTCTCT
1 TTTTTCTTTTCTCT
139902 TTTTTCTTTT-TCT
1 TTTTTCTTTTCTCT
139915 TTTTT
1 TTTTT
139920 TTGATTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTCTTTTCTCT
Found at i:149684 original size:17 final size:18
Alignment explanation
Indices: 149662--149715 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 18
149652 TATGGGCGGG
* *
149662 AAAGAAAG-AAGGAAGAT
1 AAAGAAAGAAAGAAAGAA
149679 AAAG-AAGAAAGAAAGAA
1 AAAGAAAGAAAGAAAGAA
*
149696 AAAGAAA-AAAAAAAGAA
1 AAAGAAAGAAAGAAAGAA
149713 AAA
1 AAA
149716 ATATGAAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 3 0.09
17 27 0.84
18 2 0.06
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (18 bp):
AAAGAAAGAAAGAAAGAA
Found at i:150267 original size:22 final size:24
Alignment explanation
Indices: 150241--150290 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
150231 AGAAAAGTTC
* *
150241 AAAATTTATGTTT-TTT-TTTTAA
1 AAAATTGATCTTTATTTGTTTTAA
150263 AAAA-TGATCTTTATTTGTTTTAA
1 AAAATTGATCTTTATTTGTTTTAA
150286 AAAAT
1 AAAAT
150291 AAAAAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 6 0.26
22 7 0.30
23 10 0.43
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (24 bp):
AAAATTGATCTTTATTTGTTTTAA
Found at i:156208 original size:36 final size:35
Alignment explanation
Indices: 156128--156208 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 35
156118 TCAAAATGAC
* *
156128 AAAAAAAAAAGTCAAAAGCAAAAGCACAAAAAATG
1 AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAGG
* *
156163 AAAAGAAAAAGTGCAAAAGCAAAA-TA-AAAAAAGGG
1 AAAACAAAAAGT-CAAAAGCAAAAGCACAAAAAA-GG
156198 AACAACAAAAA
1 AA-AACAAAAA
156209 TAAAAAAACG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
34 6 0.15
35 15 0.38
36 18 0.46
ACGTcount: A:0.72, C:0.10, G:0.14, T:0.05
Consensus pattern (35 bp):
AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAGG
Found at i:157581 original size:27 final size:27
Alignment explanation
Indices: 157538--158329 Score: 1181
Period size: 27 Copynumber: 28.9 Consensus size: 27
157528 GTGGCATTTT
* *
157538 CTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
157566 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
157593 CTTTTAAAGTCCACAACTCCGTGGTACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
157621 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
157648 CTTTTAAAATCCACAACTCCGTGGTACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
157676 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
157703 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
157730 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
157757 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
** *
157784 CTTTTAAGTCCACAACTCTATGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
157812 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
157839 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
157866 CTTTTAAGTCCACAAATCTGTGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
157894 CTTTTAA-TACCACAACTCCGTGGCACC
1 CTTTTAAGT-CCACAACTCCGTGGCACC
157921 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
157948 CTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
157975 CTTTTAAGTCCATAACTCCATGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
158003 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
158030 CTTTTAAGACCACAACTCCGTAGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
158057 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
158084 CTTTTAAGTCCACAACTCTGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
158112 TTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
158139 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
158167 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
158194 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
158222 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
158250 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
158277 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* * * *
158305 CTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCCGTGGCA
158330 ACCCATTCCA
Statistics
Matches: 701, Mismatches: 52, Indels: 22
0.90 0.07 0.03
Matches are distributed among these distances:
27 448 0.64
28 253 0.36
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:157606 original size:55 final size:54
Alignment explanation
Indices: 157538--158329 Score: 1181
Period size: 55 Copynumber: 14.5 Consensus size: 54
157528 GTGGCATTTT
* * *
157538 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
157593 CTTTTAAAGTCCACAACTCCGTGGTACCCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
157648 CTTTTAAAATCCACAACTCCGTGGTACCCTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
157703 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
** *
157757 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
157812 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
157866 CTTTTAAGTCCACAAATCTGTGGCATTCCTTTTAA-TACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT-CCACAACTCCGTGGCACC
*
157921 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
157975 CTTTTAAGTCCATAACTCCATGGCATCCCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* *
158030 CTTTTAAGACCACAACTCCGTAGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* ** *
158084 CTTTTAAGTCCACAACTCTGTGGCATCTTTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* *
158139 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
158194 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCA-CC
158250 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* * * *
158305 CTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCCGTGGCA
158330 ACCCATTCCA
Statistics
Matches: 679, Mismatches: 49, Indels: 18
0.91 0.07 0.02
Matches are distributed among these distances:
54 236 0.35
55 397 0.58
56 46 0.07
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:157638 original size:82 final size:81
Alignment explanation
Indices: 157538--158329 Score: 1183
Period size: 82 Copynumber: 9.6 Consensus size: 81
157528 GTGGCATTTT
*
157538 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTT-AAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
*
157603 CCACAACTCCGTGGTACC
64 CCACAACTCCGTGGCACC
* * * *
157621 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAATCCACAACTCCGTGGTACCCTTTTTAGTC
1 CTTTTAAGTCCACAACTCTGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
157686 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
*
157703 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
157768 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
*
157784 CTTTTAAGTCCACAACTCTATGGCATTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCTGTGGCA-TCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
157849 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
*
157866 CTTTTAAGTCCACAAATCTGTGGCATTCCTTTTAA-TACCACAACTCCGTGGCACCCTTTTAAGT
1 CTTTTAAGTCCACAACTCTGTGGCA-TCCTTTTAAGT-CCACAACTCCGTGGCACCCTTTTAAGT
157930 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
* * *
157948 CTTTTAAGTCCACAACTCCGTGGCA-CTCTTTTAAGTCCATAACTCCATGGCATCCCTTTTAAGT
1 CTTTTAAGTCCACAACTCTGTGGCATC-CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT
*
158012 CCACAACTCTGTGGCACC
64 CCACAACTCCGTGGCACC
* * * *
158030 CTTTTAAGACCACAACTCCGTAGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
158095 ACAACTCTGTGGCATCT
66 ACAACTCCGTGGCA-CC
* * *
158112 TTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTC
1 CTTTTAAGTCCACAACTCTGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
158177 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
*
158194 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGT
1 CTTTTAAGTCCACAACTCTGTGGCAT-CCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT
158259 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
* * * * *
158277 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCTGTGGCAT-CCTTTTAAGTCCACAACTCCGTGGCA
158330 ACCCATTCCA
Statistics
Matches: 658, Mismatches: 40, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
80 1 0.00
81 118 0.18
82 381 0.58
83 158 0.24
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:158357 original size:32 final size:32
Alignment explanation
Indices: 158315--158725 Score: 671
Period size: 32 Copynumber: 12.8 Consensus size: 32
158305 CTTTTAAATT
* *
158315 CACAAATCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
158347 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
158379 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
158411 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
158443 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
158475 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
158507 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
158539 CACAAGTCGGTGGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
*
158571 CACAAGTAGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** *
158603 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
158635 CAGAAGTTGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
158667 CGCAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
158699 CGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
158726 TCACCATTTT
Statistics
Matches: 358, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
31 3 0.01
32 352 0.98
33 3 0.01
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.16
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:159983 original size:17 final size:17
Alignment explanation
Indices: 159963--159998 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
159953 AAGGAAGATG
* *
159963 AAGAAGAAAGAAAGAAA
1 AAGAAAAAAAAAAGAAA
159980 AAGAAAAAAAAAAGAAA
1 AAGAAAAAAAAAAGAAA
159997 AA
1 AA
159999 ATATGAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAAGAAA
Found at i:166489 original size:36 final size:35
Alignment explanation
Indices: 166409--166489 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 35
166399 TCAAAATGAC
* *
166409 AAAAAAAAAAGTCAAAAGCAAAAGCACAAAAAATG
1 AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAGG
* *
166444 AAAAGAAAAAGTGCAAAAGCAAAA-TA-AAAAAAGGG
1 AAAACAAAAAGT-CAAAAGCAAAAGCACAAAAAA-GG
166479 AACAACAAAAA
1 AA-AACAAAAA
166490 TAAAAAAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
34 6 0.15
35 15 0.38
36 18 0.46
ACGTcount: A:0.72, C:0.10, G:0.14, T:0.05
Consensus pattern (35 bp):
AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAGG
Found at i:167862 original size:27 final size:27
Alignment explanation
Indices: 167819--168610 Score: 1181
Period size: 27 Copynumber: 28.9 Consensus size: 27
167809 GTGGCATTTT
* *
167819 CTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
167847 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
167874 CTTTTAAAGTCCACAACTCCGTGGTACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
167902 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
167929 CTTTTAAAATCCACAACTCCGTGGTACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
167957 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
167984 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
168011 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
168038 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
** *
168065 CTTTTAAGTCCACAACTCTATGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
168093 CTTTTAAGTCCACAACTCCATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
168120 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
168147 CTTTTAAGTCCACAACTCTGTGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
168175 CTTTTAA-TACCACAACTCCGTGGCACC
1 CTTTTAAGT-CCACAACTCCGTGGCACC
168202 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
168229 CTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
168256 CTTTTAAGTCCATAACTCCATGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
168284 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
168311 CTTTTAAGACCACAACTCCGTAGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
168338 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
168365 CTTTTAAGTCCATAACTCTGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
168393 TTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
168420 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
168448 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
168475 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
168503 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
168531 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
168558 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* * * *
168586 CTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCCGTGGCA
168611 ACCCATTCCA
Statistics
Matches: 703, Mismatches: 50, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
27 448 0.64
28 255 0.36
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:167887 original size:55 final size:54
Alignment explanation
Indices: 167819--168610 Score: 1181
Period size: 55 Copynumber: 14.5 Consensus size: 54
167809 GTGGCATTTT
* * *
167819 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
167874 CTTTTAAAGTCCACAACTCCGTGGTACCCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
167929 CTTTTAAAATCCACAACTCCGTGGTACCCTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
167984 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
** *
168038 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
*
168093 CTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
168147 CTTTTAAGTCCACAACTCTGTGGCATTCCTTTTAA-TACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT-CCACAACTCCGTGGCACC
*
168202 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
168256 CTTTTAAGTCCATAACTCCATGGCATCCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* *
168311 CTTTTAAGACCACAACTCCGTAGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * ** *
168365 CTTTTAAGTCCATAACTCTGTGGCATCTTTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* *
168420 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
168475 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCA-CC
168531 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* * * *
168586 CTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCCGTGGCA
168611 ACCCATTCCA
Statistics
Matches: 679, Mismatches: 49, Indels: 18
0.91 0.07 0.02
Matches are distributed among these distances:
54 236 0.35
55 398 0.59
56 45 0.07
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:167919 original size:82 final size:81
Alignment explanation
Indices: 167819--168610 Score: 1183
Period size: 82 Copynumber: 9.6 Consensus size: 81
167809 GTGGCATTTT
*
167819 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTT-AAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
*
167884 CCACAACTCCGTGGTACC
64 CCACAACTCCGTGGCACC
* * * *
167902 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAATCCACAACTCCGTGGTACCCTTTTTAGTC
1 CTTTTAAGTCCACAACTCTGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
167967 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
*
167984 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
168049 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
* *
168065 CTTTTAAGTCCACAACTCTATGGCATTCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCTGTGGCA-TCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
168130 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
168147 CTTTTAAGTCCACAACTCTGTGGCATTCCTTTTAA-TACCACAACTCCGTGGCACCCTTTTAAGT
1 CTTTTAAGTCCACAACTCTGTGGCA-TCCTTTTAAGT-CCACAACTCCGTGGCACCCTTTTAAGT
168211 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
* * *
168229 CTTTTAAGTCCACAACTCCGTGGCA-CTCTTTTAAGTCCATAACTCCATGGCATCCCTTTTAAGT
1 CTTTTAAGTCCACAACTCTGTGGCATC-CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT
168293 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
* * * *
168311 CTTTTAAGACCACAACTCCGTAGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* * *
168376 ATAACTCTGTGGCATCT
66 ACAACTCCGTGGCA-CC
* * *
168393 TTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTC
1 CTTTTAAGTCCACAACTCTGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
168458 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
*
168475 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGT
1 CTTTTAAGTCCACAACTCTGTGGCAT-CCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT
168540 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
* * * * *
168558 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCTGTGGCAT-CCTTTTAAGTCCACAACTCCGTGGCA
168611 ACCCATTCCA
Statistics
Matches: 656, Mismatches: 42, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
80 1 0.00
81 116 0.18
82 382 0.58
83 157 0.24
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:168679 original size:32 final size:32
Alignment explanation
Indices: 168596--169066 Score: 772
Period size: 32 Copynumber: 14.8 Consensus size: 32
168586 CTTTTAAATT
* *
168596 CACAAATCGGTGGCAACCCATTCCAAAG-CCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
168627 CACAAGTCGGT-GCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
168658 CACAAGTCGGTGGCAACCCA-TTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
168689 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
168721 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
168753 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
168785 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
168817 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
168849 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
168881 CACAAGTCGGTGGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
*
168913 CACAAGTAGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
168945 CACAAGTCGGTGGCAA-CCTTTTCAAAGCCCC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
168976 CAGAAGTTGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
169008 CGCAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
169040 CGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
169067 TCACCATTTT
Statistics
Matches: 417, Mismatches: 17, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
30 16 0.04
31 84 0.20
32 314 0.75
33 3 0.01
ACGTcount: A:0.32, C:0.34, G:0.19, T:0.16
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:170326 original size:17 final size:17
Alignment explanation
Indices: 170306--170341 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
170296 AAGGAAGATG
* *
170306 AAGAAGAAAGAAAGAAA
1 AAGAAAAAAAAAAGAAA
170323 AAGAAAAAAAAAAGAAA
1 AAGAAAAAAAAAAGAAA
170340 AA
1 AA
170342 ATATGAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAAGAAA
Found at i:170716 original size:2 final size:2
Alignment explanation
Indices: 170703--170733 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
170693 TTTATTTATT
*
170703 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
170734 TTTTGAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:175877 original size:78 final size:77
Alignment explanation
Indices: 175738--175977 Score: 236
Period size: 79 Copynumber: 3.1 Consensus size: 77
175728 TTTTGGGTTG
* * *
175738 AAAAACAGGGTTGGAGTAT-CTCCTCAAAAATGATAGGGTTGGAGTATCCCCAACGATGAAAAAT
1 AAAAAC-GGGTTGGAGTATCCT-CTC-AAAATGATAGGGTTGGAGTATCCCTAATGGTGAAAAAT
*
175802 TAATATTTTGAAAAT
63 CAATATTTTGAAAAT
* *
175817 -CAAACGGGATTGGAGTATCCTCTCAAAAGTGATAGGGTTGGAGTATCCCTAATGGCGAAAAATC
1 AAAAACGGG-TTGGAGTATCCTCTCAAAA-TGATAGGGTTGGAGTATCCCTAATGGTGAAAAATC
* * *
175881 GATAATTTGGAAAT
64 AATATTTTGAAAAT
* * * * *
175895 AAAAACGAGGTTAGAGTACCCTCTTGAAAATGAT-GGGTTTGGAGTATCCATGATGGTGAAAAAT
1 AAAAACG-GGTTGGAGTATCCTC-TCAAAATGATAGGG-TTGGAGTATCCCTAATGGTGAAAAAT
*
175959 CAAT-TATTTGGAAAT
63 CAATAT-TTTGAAAAT
175974 AAAA
1 AAAA
175978 TGAGGTTAGA
Statistics
Matches: 135, Mismatches: 18, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
77 7 0.05
78 60 0.44
79 61 0.45
80 7 0.05
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (77 bp):
AAAAACGGGTTGGAGTATCCTCTCAAAATGATAGGGTTGGAGTATCCCTAATGGTGAAAAATCAA
TATTTTGAAAAT
Found at i:175943 original size:79 final size:77
Alignment explanation
Indices: 175764--175990 Score: 251
Period size: 78 Copynumber: 2.9 Consensus size: 77
175754 TATCTCCTCA
* * * * * * *
175764 AAAATGATAGGGTTGGAGTATCCCCAACGATGAAAAATTAATATTTTGAAAATCAAACG-GGATT
1 AAAATGATAGGGTTGGAGTATCCCTAATGGTGAAAAATCAATAATTTGGAAATAAAACGAGG-TT
* *
175828 GGAGTATCCTCTC
65 AGAGTACCCTCTC
* *
175841 AAAAGTGATAGGGTTGGAGTATCCCTAATGGCGAAAAATCGATAATTTGGAAATAAAAACGAGGT
1 AAAA-TGATAGGGTTGGAGTATCCCTAATGGTGAAAAATCAATAATTTGGAAAT-AAAACGAGGT
*
175906 TAGAGTACCCTCTTG
64 TAGAGTACCCTC-TC
* * * *
175921 AAAATGAT-GGGTTTGGAGTATCCATGATGGTGAAAAATCAATTATTTGGAAATAAAATGAGGTT
1 AAAATGATAGGG-TTGGAGTATCCCTAATGGTGAAAAATCAATAATTTGGAAATAAAACGAGGTT
175985 AGAGTA
65 AGAGTA
175991 TCTCTGATGG
Statistics
Matches: 127, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
77 4 0.03
78 60 0.47
79 56 0.44
80 7 0.06
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (77 bp):
AAAATGATAGGGTTGGAGTATCCCTAATGGTGAAAAATCAATAATTTGGAAATAAAACGAGGTTA
GAGTACCCTCTC
Found at i:176027 original size:129 final size:129
Alignment explanation
Indices: 175852--176088 Score: 334
Period size: 129 Copynumber: 1.8 Consensus size: 129
175842 AAAGTGATAG
* * *
175852 GGTTGGAGTATCCCTAATGGCGAAAAATCGATAATTTGGAAATAAAAACGAGGTTAGAGTA-CCC
1 GGTTAGAGTATCCCTAATGGCGAAAAATCGATAATTGGGAAATAAAAAAGAGGTTAGAGTATCCC
* *
175916 TCTTGAAAATGA-TGGGTTTGGAGTATCCATGATGGTGAAAAATCAATTATTTGGAAATAAAATG
66 T-TTGAAAATGATTGGG-TTGGAGAATCCATAATGGTGAAAAATCAATTATTTGGAAATAAAATG
175980 A
129 A
* * * * *
175981 GGTTAGAGTATCTCTGATGGTGAAAAATCGATAATTGGGAAATAAAAAAGGGGTTGGAGTATCCC
1 GGTTAGAGTATCCCTAATGGCGAAAAATCGATAATTGGGAAATAAAAAAGAGGTTAGAGTATCCC
* *
176046 TTTGGAAATGATTGGGTTGGAGAATCCCTAATGGTGAAAAATC
66 TTTGAAAATGATTGGGTTGGAGAATCCATAATGGTGAAAAATC
176089 GATAATTTTT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
129 86 0.91
130 8 0.09
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (129 bp):
GGTTAGAGTATCCCTAATGGCGAAAAATCGATAATTGGGAAATAAAAAAGAGGTTAGAGTATCCC
TTTGAAAATGATTGGGTTGGAGAATCCATAATGGTGAAAAATCAATTATTTGGAAATAAAATGA
Found at i:177835 original size:22 final size:22
Alignment explanation
Indices: 177810--177851 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
177800 CTAAAATGAC
*
177810 TTTTGGCCTT-TTCTAAATTTGG
1 TTTTGGACTTGTT-TAAATTTGG
177832 TTTTGGACTTGTTTAAATTT
1 TTTTGGACTTGTTTAAATTT
177852 AATTACGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.17, C:0.10, G:0.17, T:0.57
Consensus pattern (22 bp):
TTTTGGACTTGTTTAAATTTGG
Found at i:184310 original size:11 final size:11
Alignment explanation
Indices: 184294--184332 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
184284 CAATTTATAG
184294 ATTTATATTAT
1 ATTTATATTAT
184305 ATTTATATTA-
1 ATTTATATTAT
184315 ATTTTATATTAT
1 A-TTTATATTAT
*
184327 AATTAT
1 ATTTAT
184333 GTTTAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
10 1 0.04
11 23 0.92
12 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTTATATTAT
Found at i:184357 original size:20 final size:20
Alignment explanation
Indices: 184320--184358 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
184310 TATTAATTTT
*
184320 ATATTATAATTATGTTTAAA
1 ATATTATAATTATATTTAAA
* *
184340 ATATTATATTTTTATTTAA
1 ATATTATAATTATATTTAA
184359 TTAAAAAAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
ATATTATAATTATATTTAAA
Found at i:184644 original size:2 final size:2
Alignment explanation
Indices: 184603--184634 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
184593 CAAGGGTGAA
*
184603 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
184635 GGAATATATA
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:185479 original size:5 final size:5
Alignment explanation
Indices: 185465--185532 Score: 54
Period size: 5 Copynumber: 14.0 Consensus size: 5
185455 AGATAAGGAA
* *
185465 AATAT TATAT AATAT AA-AT TAT-T AATA- AAT-T AAATAT AATTAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT -AATAT AA-TAT AATAT
* *
185513 AAAAT AATAA AATAT AATAT
1 AATAT AATAT AATAT AATAT
185533 CATGCAACTA
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
4 9 0.18
5 34 0.69
6 6 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:185531 original size:13 final size:13
Alignment explanation
Indices: 185471--185531 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
185461 GGAAAATATT
185471 ATATAAT-ATAAA
1 ATATAATAATAAA
* *
185483 TTATTAATAAATTAA
1 ATA-TAAT-AATAAA
* *
185498 ATATAATTATAAT
1 ATATAATAATAAA
*
185511 ATAAAATAATAAA
1 ATATAATAATAAA
185524 ATATAATA
1 ATATAATA
185532 TCATGCAACT
Statistics
Matches: 36, Mismatches: 10, Indels: 5
0.71 0.20 0.10
Matches are distributed among these distances:
12 2 0.06
13 24 0.67
14 4 0.11
15 6 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATAATAATAAA
Found at i:185928 original size:5 final size:5
Alignment explanation
Indices: 185885--185920 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
185875 TAATTATTTA
185885 TAAA- TAAAT TAAAT TAAAT TAAAT T-AAT T-AAT TAAA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAA
185921 AATTAAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 12 0.40
5 18 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAAAT
Found at i:186443 original size:25 final size:26
Alignment explanation
Indices: 186413--186471 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
186403 TTTTACTGAC
*
186413 ATAATAAATATT-ATTGTAAATAATT-
1 ATAATAAATATTCATTATAAAT-ATTA
*
186438 ATAATAAATATTCATTATTAATATTA
1 ATAATAAATATTCATTATAAATATTA
186464 ATAATAAA
1 ATAATAAA
186472 AAAAATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 15 0.50
26 15 0.50
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (26 bp):
ATAATAAATATTCATTATAAATATTA
Found at i:187118 original size:16 final size:16
Alignment explanation
Indices: 187097--187137 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
187087 TATTATTATG
*
187097 ATTAATTTTGATATAT
1 ATTAATTTTGATAAAT
*
187113 ATTAATTTTTATAAAT
1 ATTAATTTTGATAAAT
187129 ATTAATTTT
1 ATTAATTTT
187138 AAATATTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
ATTAATTTTGATAAAT
Found at i:189299 original size:2 final size:2
Alignment explanation
Indices: 189292--189320 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
189282 TTACTAATAC
189292 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
189321 AATAGTTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:189528 original size:18 final size:17
Alignment explanation
Indices: 189507--189578 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 17
189497 ATTCATATAG
*
189507 ATTTTGATATTTTAATAT
1 ATTTT-ATATTTTATTAT
189525 ATTTATATATTTATATTATT
1 ATTT-TATATTT-TATTA-T
* *
189545 TTTTTATATTATATTAT
1 ATTTTATATTTTATTAT
189562 ATTTTA-ATTTT-TTAT
1 ATTTTATATTTTATTAT
189577 AT
1 AT
189579 CATATTAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
15 6 0.13
16 4 0.09
17 6 0.13
18 15 0.33
19 11 0.24
20 4 0.09
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (17 bp):
ATTTTATATTTTATTAT
Found at i:189595 original size:18 final size:17
Alignment explanation
Indices: 189513--189595 Score: 50
Period size: 18 Copynumber: 5.1 Consensus size: 17
189503 ATAGATTTTG
* *
189513 ATATTTTAATA-TATTT
1 ATATATTAATATTATAT
*
189529 ATATATTTATATTAT-T
1 ATATATTAATATTATAT
*
189545 -T-T-TTTATATTATATT
1 ATATATTAATATTATA-T
* * *
189560 ATATTTTAATTTTTTAT
1 ATATATTAATATTATAT
189577 ATCATATTAATATTATAT
1 AT-ATATTAATATTATAT
189595 A
1 A
189596 ATTATATTGT
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
13 10 0.19
14 1 0.02
15 2 0.04
16 11 0.21
17 7 0.13
18 21 0.40
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (17 bp):
ATATATTAATATTATAT
Found at i:190267 original size:28 final size:28
Alignment explanation
Indices: 190236--190295 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
190226 TCTCTATAAT
190236 TAAATTGATTTAATT-AGATCTGCACAAA
1 TAAATTGATTTAATTGA-ATCTGCACAAA
* * *
190264 TAAATTGGTTTAATTGAATGTGCATAAA
1 TAAATTGATTTAATTGAATCTGCACAAA
190292 TAAA
1 TAAA
190296 ATGGTTTCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (28 bp):
TAAATTGATTTAATTGAATCTGCACAAA
Found at i:191875 original size:2 final size:2
Alignment explanation
Indices: 191868--191895 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
191858 TTTTTGTGGC
191868 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
191896 CTTCTTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:192202 original size:13 final size:15
Alignment explanation
Indices: 192174--192205 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
192164 TTTAATTTTC
192174 TTATCATATGTTATA
1 TTATCATATGTTATA
192189 TTAT-ATAT-TTATA
1 TTATCATATGTTATA
192202 TTAT
1 TTAT
192206 GAAATCGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 4 0.24
15 4 0.24
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (15 bp):
TTATCATATGTTATA
Found at i:196179 original size:17 final size:16
Alignment explanation
Indices: 196157--196203 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
196147 GATTTATTTG
196157 ATTTAATTTAAATAATT
1 ATTTAATTTAAATAA-T
196174 ATTTAATTAATAAA-AAT
1 ATTTAATT--TAAATAAT
*
196191 ATTTTATTTAAAT
1 ATTTAATTTAAAT
196204 TTAATTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 4 0.15
17 16 0.62
18 2 0.08
19 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTTAAATAAT
Found at i:196224 original size:21 final size:21
Alignment explanation
Indices: 196199--196239 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
196189 ATATTTTATT
196199 TAAAT-TTAATTATAAAATATA
1 TAAATATTAA-TATAAAATATA
196220 TAAATATTAATATAAAATAT
1 TAAATATTAATATAAAATAT
196240 TTTTATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAATATTAATATAAAATATA
Found at i:197207 original size:22 final size:24
Alignment explanation
Indices: 197165--197210 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
197155 AAAATATTTT
*
197165 TATTTATATTTAATTATAAAAATA
1 TATTAATATTTAATTATAAAAATA
197189 TATTAATA-TTAA-TATAAAAATA
1 TATTAATATTTAATTATAAAAATA
197211 ATTTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
23 4 0.19
24 7 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TATTAATATTTAATTATAAAAATA
Found at i:198471 original size:14 final size:15
Alignment explanation
Indices: 198452--198482 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
198442 TTTAATAAGA
198452 TTAAAATTTA-AATT
1 TTAAAATTTATAATT
198466 TTAAAATTTATAATT
1 TTAAAATTTATAATT
198481 TT
1 TT
198483 TTTACATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAAAATTTATAATT
Found at i:199517 original size:40 final size:40
Alignment explanation
Indices: 199473--199559 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
199463 GAAAAATATA
*
199473 TATATAAAAATTATATAAAAATAA-AT-TAATTTAATTAATT
1 TATATAAAAATTATA-AAAAATAATATCTAA-TAAATTAATT
* * *
199513 TATATAATATTTTTAAAAAATAATATCTAATAAATTAATT
1 TATATAAAAATTATAAAAAATAATATCTAATAAATTAATT
199553 TATATAA
1 TATATAA
199560 TATTTTTATG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 8 0.20
40 30 0.73
41 3 0.07
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (40 bp):
TATATAAAAATTATAAAAAATAATATCTAATAAATTAATT
Found at i:199560 original size:40 final size:39
Alignment explanation
Indices: 199489--199567 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 39
199479 AAAATTATAT
*
199489 AAAAATAAATTAATTTAATTAATTTATATAATATTTTTA
1 AAAAATAAATTAATTAAATTAATTTATATAATATTTTTA
199528 AAAAATAATATCTAA-TAAATTAATTTATATAATATTTTTA
1 AAAAATAA-AT-TAATTAAATTAATTTATATAATATTTTTA
199568 TGAGGGAACA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
39 8 0.22
40 26 0.70
41 3 0.08
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (39 bp):
AAAAATAAATTAATTAAATTAATTTATATAATATTTTTA
Found at i:202508 original size:20 final size:21
Alignment explanation
Indices: 202483--202532 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
202473 GAGGCCTAAC
* *
202483 AAAAAAAATAATGCAAAA-CT
1 AAAAAAAATAAAGCAAAACCG
*
202503 AAAAAAAATAAAGTAAAACCG
1 AAAAAAAATAAAGCAAAACCG
202524 AAAAAAAAT
1 AAAAAAAAT
202533 TATAAAGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.74, C:0.08, G:0.06, T:0.12
Consensus pattern (21 bp):
AAAAAAAATAAAGCAAAACCG
Found at i:203741 original size:18 final size:18
Alignment explanation
Indices: 203720--203760 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
203710 AAATAGAGAT
203720 AAAATAAATTAATTTATA
1 AAAATAAATTAATTTATA
*
203738 AAAATAAATTAATTTATT
1 AAAATAAATTAATTTATA
203756 AAAAT
1 AAAAT
203761 TTCATATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATAAATTAATTTATA
Found at i:203820 original size:19 final size:19
Alignment explanation
Indices: 203793--203842 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
203783 TTGTTATTTT
*
203793 AAATGTTTTATATTTAATA
1 AAATATTTTATATTTAATA
* *
203812 AAATATTTTTTATTTTATA
1 AAATATTTTATATTTAATA
203831 AATATTATTTTA
1 AA-A-TATTTTA
203843 ATTGATATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 1 0.04
21 6 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
AAATATTTTATATTTAATA
Found at i:203824 original size:21 final size:19
Alignment explanation
Indices: 203798--203842 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
203788 ATTTTAAATG
203798 TTTTATATTTAATAAAATATT-
1 TTTTAT-TTT-AT-AAATATTA
203819 TTTTATTTTATAAATATTA
1 TTTTATTTTATAAATATTA
203838 TTTTA
1 TTTTA
203843 ATTGATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 7 0.30
19 7 0.30
20 3 0.13
21 6 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTATTTTATAAATATTA
Found at i:206082 original size:22 final size:22
Alignment explanation
Indices: 206041--206085 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
206031 TTCAGTTCGA
206041 TTAATTTAAATTATAAATAATT
1 TTAATTTAAATTATAAATAATT
*
206063 TTAATATTAAATT-TAGATAATT
1 TTAAT-TTAAATTATAAATAATT
206085 T
1 T
206086 ATAAGTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TTAATTTAAATTATAAATAATT
Found at i:206112 original size:16 final size:18
Alignment explanation
Indices: 206081--206114 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
206071 AAATTTAGAT
206081 AATTTATAAGTTTTATTA
1 AATTTATAAGTTTTATTA
206099 AATTTAT-A-TTTTATTA
1 AATTTATAAGTTTTATTA
206115 TATATTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 1 0.06
18 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
AATTTATAAGTTTTATTA
Found at i:206201 original size:24 final size:24
Alignment explanation
Indices: 206146--206210 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
206136 AAACTCAAAT
*
206146 TTAAATAATTAAATTTATGATTGA
1 TTAAATAATTAAATTTATGATTAA
* * *
206170 GTATATAATTAAAATTTAT-TTTAA
1 TTAAATAATT-AAATTTATGATTAA
*
206194 TTAAATAAATAAATTTA
1 TTAAATAATTAAATTTA
206211 ATTAAAATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
23 7 0.21
24 18 0.55
25 8 0.24
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (24 bp):
TTAAATAATTAAATTTATGATTAA
Found at i:208731 original size:2 final size:2
Alignment explanation
Indices: 208726--208768 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
208716 TGTGTGTATC
208726 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
208768 T
1 T
208769 GTGTGTGTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:215421 original size:6 final size:6
Alignment explanation
Indices: 215410--215439 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
215400 AAAAAGGAAA
215410 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG
215440 CGAAGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:215653 original size:29 final size:27
Alignment explanation
Indices: 215615--215711 Score: 88
Period size: 28 Copynumber: 3.3 Consensus size: 27
215605 AAATTTAAGG
215615 TAAAAAATATTTATTTTTTAAAAGTTTCA
1 TAAAAAATATTTATTTTTTAAAA-TTT-A
*
215644 TAAAAAATATATTTATTTTTTTAACATTTA
1 T-AAAAA-ATATTTA-TTTTTTAAAATTTA
* *
215674 -AAAATACTCACTTATTTTTTAAAATTTGA
1 TAAAA-AAT-ATTTATTTTTTAAAATTT-A
215703 TAAAAAATA
1 TAAAAAATA
215712 CACTTATCTT
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
28 18 0.32
29 9 0.16
30 10 0.18
31 10 0.18
32 9 0.16
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (27 bp):
TAAAAAATATTTATTTTTTAAAATTTA
Found at i:215716 original size:30 final size:29
Alignment explanation
Indices: 215625--215726 Score: 93
Period size: 29 Copynumber: 3.4 Consensus size: 29
215615 TAAAAAATAT
* *
215625 TTATTTTTTAAAAGTTTCATAAAAAATATAT
1 TTATTTTTTAAAA-TTT-ATAAAAAATACAC
* *
215656 TTATTTTTTTAACATTTA-AAAATACT-CAC
1 TTA-TTTTTTAAAATTTATAAAA-AATACAC
215685 TTATTTTTTAAAATTTGATAAAAAATACAC
1 TTATTTTTTAAAATTT-ATAAAAAATACAC
*
215715 TTA-TCTTTAAAA
1 TTATTTTTTAAAA
215727 CTATTATTCT
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
28 12 0.20
29 19 0.32
30 13 0.22
31 6 0.10
32 9 0.15
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (29 bp):
TTATTTTTTAAAATTTATAAAAAATACAC
Found at i:215818 original size:15 final size:15
Alignment explanation
Indices: 215800--215831 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
215790 ATTTTTTATT
215800 ATTTTTAATTAAAAA
1 ATTTTTAATTAAAAA
*
215815 ATTTTTAATTATAAA
1 ATTTTTAATTAAAAA
215830 AT
1 AT
215832 AATGAGAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTTTAATTAAAAA
Found at i:219661 original size:12 final size:12
Alignment explanation
Indices: 219644--219677 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
219634 TTAAATTTAA
219644 ATATTATATATG
1 ATATTATATATG
*
219656 ATATTAAATATG
1 ATATTATATATG
*
219668 ATAATATATA
1 ATATTATATA
219678 AATTCCTTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (12 bp):
ATATTATATATG
Found at i:220593 original size:2 final size:2
Alignment explanation
Indices: 220586--220613 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
220576 GCAAGTCGCC
220586 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
220614 TGGTAGACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:223944 original size:35 final size:35
Alignment explanation
Indices: 223884--223968 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 35
223874 GAATATTAAG
*
223884 TTAAAATATGTATATATAATAAATAATTAAAATTTA
1 TTAAAATATATATATATAATAAATAA-TAAAATTTA
* * *
223920 TTAAAAT-TATATTTATATTAAATAATAAAATATAA
1 TTAAAATATATATATATAATAAATAATAAAAT-TTA
*
223955 TATATAATATATAT
1 T-TAAAATATATAT
223969 TTTTTGTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
34 6 0.15
35 18 0.44
36 12 0.29
37 5 0.12
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (35 bp):
TTAAAATATATATATATAATAAATAATAAAATTTA
Found at i:224803 original size:12 final size:12
Alignment explanation
Indices: 224786--224811 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
224776 TATAAATTAA
224786 TTAAATTAAATT
1 TTAAATTAAATT
224798 TTAAATTAAATT
1 TTAAATTAAATT
224810 TT
1 TT
224812 TTAACTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TTAAATTAAATT
Found at i:225021 original size:22 final size:21
Alignment explanation
Indices: 224991--225031 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
224981 AATTTTTATT
224991 TAAATTTAAT-TATAAAATATA
1 TAAATTTAATAT-TAAAATATA
225012 TAAATATTAATATTAAAATA
1 TAAAT-TTAATATTAAAATA
225032 AATTTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 12 0.67
23 1 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAATTTAATATTAAAATATA
Found at i:225223 original size:27 final size:27
Alignment explanation
Indices: 225187--225242 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
225177 GAAAAGAAGT
225187 AAAAATTTCTTATAAAATATATACATA
1 AAAAATTTCTTATAAAATATATACATA
225214 AAAAATTTCTTATAAAATATATACATA
1 AAAAATTTCTTATAAAATATATACATA
225241 AA
1 AA
225243 TTAATATAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (27 bp):
AAAAATTTCTTATAAAATATATACATA
Found at i:226173 original size:15 final size:17
Alignment explanation
Indices: 226153--226184 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
226143 ATAGTATCAA
226153 TTAAAT-TTA-ATAATT
1 TTAAATATTATATAATT
226168 TTAAATATTATATAATT
1 TTAAATATTATATAATT
226185 ATATACACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAATATTATATAATT
Found at i:226271 original size:6 final size:6
Alignment explanation
Indices: 226260--226349 Score: 53
Period size: 6 Copynumber: 14.5 Consensus size: 6
226250 GATGATGTCA
**
226260 AAATAT AAATAT AAA-AT AAATTATT AATATTAT AAA-AT TTATAT AAATAT
1 AAATAT AAATAT AAATAT AAA-TA-T AA-A-TAT AAATAT AAATAT AAATAT
* *
226310 -AATAT AAATAT -AATTT AAATACACT AAATAA AAATAT AAA
1 AAATAT AAATAT AAATAT AAAT--A-T AAATAT AAATAT AAA
226350 CACCAAATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
5 17 0.26
6 31 0.47
7 3 0.05
8 6 0.09
9 9 0.14
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (6 bp):
AAATAT
Found at i:226314 original size:11 final size:11
Alignment explanation
Indices: 226261--226330 Score: 62
Period size: 11 Copynumber: 6.9 Consensus size: 11
226251 ATGATGTCAA
226261 AATATAAATAT
1 AATATAAATAT
*
226272 AAAATAAAT-T
1 AATATAAATAT
226282 -AT-T-AATAT
1 AATATAAATAT
*
226290 TATA-AAAT-T
1 AATATAAATAT
*
226299 TATATAAATAT
1 AATATAAATAT
226310 AATATAAATAT
1 AATATAAATAT
*
226321 AATTTAAATA
1 AATATAAATA
226331 CACTAAATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
7 3 0.06
8 2 0.04
9 8 0.16
10 8 0.16
11 28 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATAAATAT
Found at i:226326 original size:26 final size:26
Alignment explanation
Indices: 226295--226348 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
226285 AATATTATAA
* *
226295 AATTTATATA-AATATAATATAAATAT
1 AATTTAAATACAATA-AATAAAAATAT
*
226321 AATTTAAATACACTAAATAAAAATAT
1 AATTTAAATACAATAAATAAAAATAT
226347 AA
1 AA
226349 ACACCAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (26 bp):
AATTTAAATACAATAAATAAAAATAT
Found at i:227137 original size:25 final size:25
Alignment explanation
Indices: 227108--227160 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
227098 CAACCGCACC
227108 TTTTTAAG-AGTAAATAATTTTATTA
1 TTTTTAAGTAGTAAA-AATTTTATTA
* **
227133 TTTTTATGTTTTAAAAATTTTATTA
1 TTTTTAAGTAGTAAAAATTTTATTA
227158 TTT
1 TTT
227161 AATGTATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (25 bp):
TTTTTAAGTAGTAAAAATTTTATTA
Found at i:227205 original size:28 final size:29
Alignment explanation
Indices: 227166--227228 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
227156 TATTTAATGT
*
227166 ATATTTT-TAAT-AT-TTAAATTTATTAAA
1 ATATTTTATAATAATATTAAATAT-TTAAA
227193 ATATTTTATAATAATATTAAATATTTAAA
1 ATATTTTATAATAATATTAAATATTTAAA
227222 AT-TTTTA
1 ATATTTTA
227229 AACTATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 7 0.22
28 9 0.28
29 9 0.28
30 7 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
ATATTTTATAATAATATTAAATATTTAAA
Found at i:227451 original size:17 final size:17
Alignment explanation
Indices: 227425--227462 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
227415 ATATGTCTTG
227425 AATATCTAAATATATTA
1 AATATCTAAATATATTA
* *
227442 AATATGTAAATTTATTA
1 AATATCTAAATATATTA
227459 AATA
1 AATA
227463 ATTTTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (17 bp):
AATATCTAAATATATTA
Found at i:227530 original size:12 final size:12
Alignment explanation
Indices: 227496--227534 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
227486 AATTTAATAA
227496 AAATTAAATATGT
1 AAATTAAATAT-T
*
227509 AAA-TATATATT
1 AAATTAAATATT
227520 AAATTAAATATT
1 AAATTAAATATT
227532 AAA
1 AAA
227535 ATTGCTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 4 0.17
12 16 0.70
13 3 0.13
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (12 bp):
AAATTAAATATT
Found at i:232108 original size:24 final size:24
Alignment explanation
Indices: 232081--232128 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
232071 GTGCATTAAA
*
232081 TACTTTATCTACATCATATTTGTG
1 TACTTTATCCACATCATATTTGTG
*
232105 TACTTTATCCATATCATATTTGTG
1 TACTTTATCCACATCATATTTGTG
232129 GCCTTTGCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.50
Consensus pattern (24 bp):
TACTTTATCCACATCATATTTGTG
Found at i:232134 original size:24 final size:24
Alignment explanation
Indices: 232082--232134 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
232072 TGCATTAAAT
* *
232082 ACTTTATCTACATCATATTTGTGT
1 ACTTTATCCACATCATATTTGTGG
*
232106 ACTTTATCCATATCATATTTGTGG
1 ACTTTATCCACATCATATTTGTGG
*
232130 CCTTT
1 ACTTT
232135 GCTACGGTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.49
Consensus pattern (24 bp):
ACTTTATCCACATCATATTTGTGG
Found at i:232435 original size:24 final size:24
Alignment explanation
Indices: 232403--232450 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
232393 GTGCATTAAA
*
232403 TACTTTATCTACATCATATTTGTG
1 TACTTTATCCACATCATATTTGTG
*
232427 TACTTTATCCATATCATATTTGTG
1 TACTTTATCCACATCATATTTGTG
232451 GCCTTTGCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.50
Consensus pattern (24 bp):
TACTTTATCCACATCATATTTGTG
Found at i:232456 original size:24 final size:24
Alignment explanation
Indices: 232404--232456 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
232394 TGCATTAAAT
* *
232404 ACTTTATCTACATCATATTTGTGT
1 ACTTTATCCACATCATATTTGTGG
*
232428 ACTTTATCCATATCATATTTGTGG
1 ACTTTATCCACATCATATTTGTGG
*
232452 CCTTT
1 ACTTT
232457 GCTACGGTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.49
Consensus pattern (24 bp):
ACTTTATCCACATCATATTTGTGG
Found at i:232524 original size:322 final size:322
Alignment explanation
Indices: 231939--232581 Score: 1196
Period size: 322 Copynumber: 2.0 Consensus size: 322
231929 AGAAAGTTTG
* *
231939 GCCACGATAACCATCTGCTAATTAAGCTACGAGTTAGATTCATTAGACTTGGCAATTCGTGTATT
1 GCCACGATAACCATCTGCTAATTAAGCTACGAGTTAGATTCATTAGACCTGACAATTCGTGTATT
* * *
232004 CTGTCATGTCATAATCGTGTTTAAAGTATTTTACATTTATATTGATTTTGATACATGTATTCACG
66 CTGTCATGTCATAATCCTGTTTAAAGTATTTTACATTTATATAGATTTTGAGACATGTATTCACG
232069 TTGTGCATTAAATACTTTATCTACATCATATTTGTGTACTTTATCCATATCATATTTGTGGCCTT
131 TTGTGCATTAAATACTTTATCTACATCATATTTGTGTACTTTATCCATATCATATTTGTGGCCTT
*
232134 TGCTACGGTGGTTTCTGTTTGATCTGGTATGGATTTGTTTACTTTTTAGTTAGAATTGCAGATGA
196 TGCTACGGTGGTTTCTGTTTGATCTGGTATGGATTTGTTTACTTTTTAGTTAGAATTCCAGATGA
232199 ATCCAAGATAGGTTGTAATTAAGTTACATAAATATAAGCACCTAAAACTTCTGAACTGATCT
261 ATCCAAGATAGGTTGTAATTAAGTTACATAAATATAAGCACCTAAAACTTCTGAACTGATCT
*
232261 GCCACGATAACCATCTGCTAATTAAGCTGCGAGTTAGATTCATTAGACCTGACAATTCGTGTATT
1 GCCACGATAACCATCTGCTAATTAAGCTACGAGTTAGATTCATTAGACCTGACAATTCGTGTATT
* *
232326 CTGTCATGTCATAATCCTGTTTAAAGTATTTTATATTTATATAGATTTTGAGACATGTATTTACG
66 CTGTCATGTCATAATCCTGTTTAAAGTATTTTACATTTATATAGATTTTGAGACATGTATTCACG
232391 TTGTGCATTAAATACTTTATCTACATCATATTTGTGTACTTTATCCATATCATATTTGTGGCCTT
131 TTGTGCATTAAATACTTTATCTACATCATATTTGTGTACTTTATCCATATCATATTTGTGGCCTT
*
232456 TGCTACGGTGGTTTCTGTTTGATCTGGTATGGTTTTGTTTACTTTTTAGTTAGAATTCCAGATGA
196 TGCTACGGTGGTTTCTGTTTGATCTGGTATGGATTTGTTTACTTTTTAGTTAGAATTCCAGATGA
232521 ATCCAAGATAGGTTGTAATTAAGTTACATAAATATAAGCACCTAAAACTTCTGAACTGATC
261 ATCCAAGATAGGTTGTAATTAAGTTACATAAATATAAGCACCTAAAACTTCTGAACTGATC
232582 CCACCATATT
Statistics
Matches: 311, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
322 311 1.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (322 bp):
GCCACGATAACCATCTGCTAATTAAGCTACGAGTTAGATTCATTAGACCTGACAATTCGTGTATT
CTGTCATGTCATAATCCTGTTTAAAGTATTTTACATTTATATAGATTTTGAGACATGTATTCACG
TTGTGCATTAAATACTTTATCTACATCATATTTGTGTACTTTATCCATATCATATTTGTGGCCTT
TGCTACGGTGGTTTCTGTTTGATCTGGTATGGATTTGTTTACTTTTTAGTTAGAATTCCAGATGA
ATCCAAGATAGGTTGTAATTAAGTTACATAAATATAAGCACCTAAAACTTCTGAACTGATCT
Found at i:236471 original size:20 final size:21
Alignment explanation
Indices: 236441--236487 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
236431 TGTCAATTAA
**
236441 TAATATATTAAATTTTAAATT
1 TAATATATTAAAAATTAAATT
236462 TAAT-TATTAAAAATTAAATTT
1 TAATATATTAAAAATTAAA-TT
236483 TAATA
1 TAATA
236488 ATTTCAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAATATATTAAAAATTAAATT
Found at i:236479 original size:27 final size:30
Alignment explanation
Indices: 236447--236504 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
236437 TTAATAATAT
*
236447 ATTAAATTTT-A-AATTT-AATTATTAAAA
1 ATTAAATTTTAATAATTTCAAATATTAAAA
236474 ATTAAATTTTAATAATTTCAAATATTAAAA
1 ATTAAATTTTAATAATTTCAAATATTAAAA
236504 A
1 A
236505 AATTAATCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 10 0.37
28 1 0.04
29 5 0.19
30 11 0.41
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (30 bp):
ATTAAATTTTAATAATTTCAAATATTAAAA
Found at i:236496 original size:21 final size:20
Alignment explanation
Indices: 236441--236490 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
236431 TGTCAATTAA
**
236441 TAATATATTAAATTTTAAATT
1 TAATA-ATTAAAAATTAAATT
*
236462 TAATTATTAAAAATTAAATTT
1 TAATAATTAAAAATTAAA-TT
236483 TAATAATT
1 TAATAATT
236491 TCAAATATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATAATTAAAAATTAAATT
Found at i:241632 original size:6 final size:6
Alignment explanation
Indices: 241594--241623 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
241584 AAACATAATT
*
241594 ATATTA ATATTA ATATTA ATATTA AAATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA
241624 TTAAAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
ATATTA
Found at i:241769 original size:6 final size:7
Alignment explanation
Indices: 241752--241776 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
241742 ATATTATAAT
241752 TTTTTTA
1 TTTTTTA
241759 TTTTTTA
1 TTTTTTA
241766 TTTTTTA
1 TTTTTTA
241773 TTTT
1 TTTT
241777 AAATTGATTT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Done.