Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 10629029
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 51
Found at i:4947144 original size:19 final size:19
Alignment explanation
Indices: 4947120--4947215 Score: 85
Period size: 19 Copynumber: 5.3 Consensus size: 19
4947110 ATGCTTGAAG
4947120 AAAAAAAAAGAAAGAAGAA
1 AAAAAAAAAGAAAGAAGAA
* *
4947139 AAAAAAAAAAAAAAAAG-A
1 AAAAAAAAAGAAAGAAGAA
* *
4947157 AAAAGAAGAGAAAGAA-AA
1 AAAAAAAAAGAAAGAAGAA
*
4947175 GAAAAGAAAAGAAAG--GAA
1 -AAAAAAAAAGAAAGAAGAA
* *
4947193 AAGAAGAAAGAAA-AAGAA
1 AAAAAAAAAGAAAGAAGAA
4947211 AAAAA
1 AAAAA
4947216 GGGGTCAAGG
Statistics
Matches: 61, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
17 10 0.16
18 23 0.38
19 28 0.46
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAGAAAGAAGAA
Found at i:4947168 original size:5 final size:5
Alignment explanation
Indices: 4947117--4947212 Score: 79
Period size: 5 Copynumber: 18.4 Consensus size: 5
4947107 ATTATGCTTG
* * * *
4947117 AAGAA AAAAA AAGAAA GAAGAA AA-AA AAAAA AAAAA AAGAA AA-AG AAGAGA
1 AAGAA AAGAA AAG-AA -AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGA-A
*
4947168 AAGAA AAGAA AAGAA AAGAA AGGAA AAGAAGA AAGAAA AAGAA AA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAG-A-A AAG-AA AAGAA AA
4947213 AAAGGGGTCA
Statistics
Matches: 77, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
4 7 0.09
5 48 0.62
6 13 0.17
7 9 0.12
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:4947169 original size:47 final size:46
Alignment explanation
Indices: 4947116--4947210 Score: 115
Period size: 47 Copynumber: 2.1 Consensus size: 46
4947106 TATTATGCTT
4947116 GAAGA-AAAAAAAAGAAAGAAGAAAA-AAA-AAAAAAAAAAAGAAAAA
1 GAAGAGAAAAAAAAG-AA-AAGAAAAGAAAGAAAAAAAAAAAGAAAAA
* * *
4947161 GAAGAGAAAGAAAAGAAAAGAAAAGAAAGGAAAAGAAGAAAGAAAAA
1 GAAGAGAAAAAAAAGAAAAGAAAAGAAA-GAAAAAAAAAAAGAAAAA
4947208 GAA
1 GAA
4947211 AAAAAGGGGT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
44 7 0.16
45 10 0.23
46 8 0.19
47 18 0.42
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (46 bp):
GAAGAGAAAAAAAAGAAAAGAAAAGAAAGAAAAAAAAAAAGAAAAA
Found at i:4948522 original size:196 final size:201
Alignment explanation
Indices: 4948122--4948703 Score: 980
Period size: 196 Copynumber: 3.0 Consensus size: 201
4948112 ATATGTGCTC
*
4948122 AATAGCATCTT-TGAAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTG
*
4948186 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAATAGCATCTTCT-GAAAGTTCTTTGAGT
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAATAGCATCTTCTGGAAGGTTCTTTGAGT
4948250 TATTGATCTGGTTAGAAGAAC-TAGCATCTTCTGGAAGTGTTCTTTGAG--ATCTGATCTGGTTA
131 TATTGATCTGGTTAGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTA
4948312 GACAGA
196 GACAGA
4948318 ACATAGCATCTTCTGGAAGTGTTC-TTGAGTTATCTGATCTGGTTAGACAGAACATAGCATC-T-
1 A-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAACATAGCATCTTC
4948380 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAATAGCATCTTCTGGAAGGTTC-TTGA
64 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAATAGCATCTTCTGGAAGGTTCTTTGA
4948444 GTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGGAAGTGTTC-TTGAGTTATCTGATCTGG
129 GTTAT-TGATCTGGTTAGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
4948508 TTAGA-AG-
193 TTAGACAGA
*
4948515 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAATATAGCATCTTCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTG
4948580 GAAG-GTTC-TTGAGTTATCTGATCTGGTTAGAAGAACATAGCATC-TCTGGAAGTGTTCTTTGA
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAA-ATAGCATCTTCTGGAAG-GTTCTTTGA
4948642 GTTA-TGATCTGGTTAGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
129 GTTATTGATCTGGTTAGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
4948704 ATGGACAGAA
Statistics
Matches: 368, Mismatches: 3, Indels: 29
0.92 0.01 0.07
Matches are distributed among these distances:
196 170 0.46
197 122 0.33
198 60 0.16
199 16 0.04
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (201 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTG
GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAATAGCATCTTCTGGAAGGTTCTTTGAGT
TATTGATCTGGTTAGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTA
GACAGA
Found at i:4948721 original size:99 final size:100
Alignment explanation
Indices: 4948122--4948703 Score: 946
Period size: 99 Copynumber: 5.9 Consensus size: 100
4948112 ATATGTGCTC
*
4948122 AATAGCATCTT-TGAAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT-TGATCTGGTTAGAAGAACATAGCATCTTCTG
4948186 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGA
65 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGA
*
4948222 AATAGCATCTTCT-GAA-AGTTCTTTGAGTTATTGATCTGGTTAGAAGAAC-TAGCATCTTCTGG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTGATCTGGTTAGAAGAACATAGCATCTTCTGG
4948284 AAGTGTTCTTTGAG--ATCTGATCTGGTTAGACAGA
66 AAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGA
4948318 ACATAGCATCTTCTGGAAGTGTTC-TTGAGTTATCTGATCTGGTTAGACAGAACATAGCATC-T-
1 A-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT-TGATCTGGTTAGA-AGAACATAGCATCTTC
4948380 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGA
63 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGA
4948418 AATAGCATCTTCTGGAAG-GTTC-TTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT-TGATCTGGTTAGAAGAACATAGCATCTTCTG
4948481 GAAGTGTTC-TTGAGTTATCTGATCTGGTTAGAAG-
65 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGA
*
4948515 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAATATAGCATCTTCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT-TGATCTGGTTAGAAGAACATAGCATCTTCTG
4948580 GAAG-GTTC-TTGAGTTATCTGATCTGGTTAGAAGA
65 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGA
4948614 ACATAGCATC-TCTGGAAGTGTTCTTTGAGTTA-TGATCTGGTTAGAAGAACATAGCATCTTCTG
1 A-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTGATCTGGTTAGAAGAACATAGCATCTTCTG
4948677 GAAGTGTTCTTTGAGTTATCTGATCTG
65 GAAGTGTTCTTTGAGTTATCTGATCTG
4948704 ATGGACAGAA
Statistics
Matches: 459, Mismatches: 5, Indels: 37
0.92 0.01 0.07
Matches are distributed among these distances:
95 16 0.03
96 4 0.01
97 104 0.23
98 120 0.26
99 160 0.35
100 31 0.07
101 24 0.05
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (100 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTGATCTGGTTAGAAGAACATAGCATCTTCTGG
AAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGA
Found at i:4948721 original size:148 final size:149
Alignment explanation
Indices: 4948122--4948703 Score: 942
Period size: 148 Copynumber: 3.9 Consensus size: 149
4948112 ATATGTGCTC
*
4948122 AATAGCATCTT-TGAAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTG
*
4948186 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAATAGCATCTTCT-GAA-AGTTCTTTGAG
66 GAAGTGTTC-TTGAGTTA-CTGATCTGGTTAGAAGAAATAGCATCTTCTGGAAGTGTTCTTTGAG
4948249 TTAT-TGATCTGGTTAGAAGA
129 TTATCTGATCTGGTTAGAAGA
*
4948269 ACTAGCATCTTCTGGAAGTGTTCTTTGAG--ATCTGATCTGGTTAGACAGAACATAGCATCTTCT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAACATAGCATCTTCT
4948332 GGAAGTGTTCTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATC-T-TGGAAGTGTTCTTTG
65 GGAAGTGTTCTTGAGTTA-CTGATCTGGTTAGA-AGAA-ATAGCATCTTCTGGAAGTGTTCTTTG
4948395 AGTTATCTGATCTGGTTAGAAGA
127 AGTTATCTGATCTGGTTAGAAGA
4948418 AATAGCATCTTCTGGAAG-GTTC-TTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTG
4948481 GAAGTGTTCTTGAGTTATCTGATCTGGTTAGAAG-AATAGCATCTTCTGGAAGTGTTCTTTGAGT
66 GAAGTGTTCTTGAGTTA-CTGATCTGGTTAGAAGAAATAGCATCTTCTGGAAGTGTTCTTTGAGT
4948545 TATCTGATCTGGTTAGAAGA
130 TATCTGATCTGGTTAGAAGA
4948565 ATATAGCATCTTCTGGAAG-GTTC-TTGAGTTATCTGATCTGGTTAGAAGAACATAGCATC-TCT
1 A-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCT
4948627 GGAAGTGTTCTTTGAGTTA-TGATCTGGTTAGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGA
65 GGAAGTGTTC-TTGAGTTACTGATCTGGTTAGAAGAA-ATAGCATCTTCTGGAAGTGTTCTTTGA
4948691 GTTATCTGATCTG
128 GTTATCTGATCTG
4948704 ATGGACAGAA
Statistics
Matches: 416, Mismatches: 4, Indels: 29
0.93 0.01 0.06
Matches are distributed among these distances:
145 8 0.02
146 57 0.14
147 105 0.25
148 197 0.47
149 49 0.12
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (149 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTG
GAAGTGTTCTTGAGTTACTGATCTGGTTAGAAGAAATAGCATCTTCTGGAAGTGTTCTTTGAGTT
ATCTGATCTGGTTAGAAGA
Found at i:4949603 original size:229 final size:224
Alignment explanation
Indices: 4949052--4950052 Score: 1525
Period size: 229 Copynumber: 4.5 Consensus size: 224
4949042 GCAAGATTCA
* *
4949052 AATTCATCATTTGATGGATCATCATTACAGAGAAAG-TCATAATGAGAAGAACTCATCTGAAGAA
1 AATTCATCATTTGATGGATCATCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
* * * *
4949116 GGAAGAAGAAGTT-ATAATGAGAAGAACTTGTTCAACCTTTGCTTGAATTCATCA-CT--T-GAT
66 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGTTTAAATTCATCATTTGATGGAT
4949176 CAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
131 CAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
*
4949241 TGAGAAGAACTTGTTCAACC-TTTGCCTG
196 TGAGAAGAACTTGTTCAACCTTTTGCTTG
* *
4949269 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAA-TCATCTGAAGA
1 AATTCATCATTTGATGGATCATC-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
4949333 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGG
65 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-TTTTGTTTAAATTCATCATTTGATGG
4949398 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTT
129 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTT
4949463 CATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
191 CATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
*
4949497 AATTCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATTCATCATTTGATGGATCATC-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
4949562 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGG
65 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-TTTTGTTTAAATTCATCATTTGATGG
4949627 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTT
129 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTT
4949692 CATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
191 CATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* *
4949726 AATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATTCATCATTTGATGGATCATC-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* ** * *
4949791 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCT-GA---ATCATTTGGTGG
65 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGTTTAAATTCATCATTTGATGG
* *
4949852 ATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
129 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* *
4949917 AATGAGAAGAACTTGTTCAA-CTTTTGTTTA
194 AATGAGAAGAACTTGTTCAACCTTTTGCTTG
** *
4949947 AATTC-TCATTTGATGGA-CA--TGGCCAAAGAAAGTTCATGAATGAGAAGAACTCATCTG-AGA
1 AATTCATCATTTGATGGATCATCTTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAGA
* *
4950007 AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTT
65 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGTTT
4950053 GATATCATCT
Statistics
Matches: 737, Mismatches: 32, Indels: 32
0.92 0.04 0.04
Matches are distributed among these distances:
215 6 0.01
216 53 0.07
217 40 0.05
218 36 0.05
219 40 0.05
220 26 0.04
221 14 0.02
222 48 0.07
223 2 0.00
224 37 0.05
225 45 0.06
226 1 0.00
227 50 0.07
228 60 0.08
229 278 0.38
230 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (224 bp):
AATTCATCATTTGATGGATCATCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGTTTAAATTCATCATTTGATGGAT
CAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTTGCTTG
Found at i:4949614 original size:113 final size:112
Alignment explanation
Indices: 4949051--4950049 Score: 1476
Period size: 116 Copynumber: 9.0 Consensus size: 112
4949041 AGCAAGATTC
* *
4949051 AAATTCATCATTTGATGGATCATCA-TTACAGAGAAAG-TCATAATGAGAAGAACTCATCTGAAG
1 AAATTCATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
4949114 AAGGAAGAAGAAGTT-ATAATGAGAAGAACTTGTTCAACCTTTGCTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGCTT
* *
4949160 GAATTCATCA-CT--T-GATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATTCATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
4949221 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTGCCT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGCTT
* * * * *
4949268 GAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAA-TCATCTGAAG
1 AAATTCATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
4949332 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-TTTTGCTT
4949380 AAATTCATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAA--C-TCATCTG
4949445 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
63 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGCTT
* * * *
4949496 GAATTCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATTCATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
4949561 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-TTTTGCTT
4949609 AAATTCATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAA--C-TCATCTG
4949674 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
63 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGCTT
* *
4949725 GAATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATTCATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
4949790 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGCTT
* * * *
4949838 -GA---ATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATTCATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
4949899 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGTTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGCTT
** *
4949946 AAATTC-TCATTTGATGG----ACATGGCCAAAGAAAGTTCATGAATGAGAAGAACTCATCTG-A
1 AAATTCATCATTTGATGGATCAACATTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAA
* *
4950005 GAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTG
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTG
4950050 TTTGATATCA
Statistics
Matches: 818, Mismatches: 49, Indels: 48
0.89 0.05 0.05
Matches are distributed among these distances:
105 7 0.01
106 12 0.01
107 101 0.12
108 66 0.08
109 103 0.13
111 60 0.07
112 91 0.11
113 161 0.20
114 2 0.00
115 1 0.00
116 212 0.26
117 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (112 bp):
AAATTCATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGCTT
Found at i:4950352 original size:3 final size:3
Alignment explanation
Indices: 4950333--4950431 Score: 90
Period size: 3 Copynumber: 34.7 Consensus size: 3
4950323 AATTTATCCA
4950333 TAT TAT ATAT T-T TAT TAT TA- TAT TAT TAT TA- TAT T-T ATAT ATAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT
*
4950377 TAT TAT TA- TAT TA- TAT TAT TAT TA- TAT TAT TAA TAT TAAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT
4950420 T-T T-T TAT TAT TA
1 TAT TAT TAT TAT TA
4950432 AATATATTAA
Statistics
Matches: 83, Mismatches: 2, Indels: 22
0.78 0.02 0.21
Matches are distributed among these distances:
2 17 0.20
3 55 0.66
4 11 0.13
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:4950398 original size:37 final size:35
Alignment explanation
Indices: 4950336--4950440 Score: 121
Period size: 37 Copynumber: 3.0 Consensus size: 35
4950326 TTATCCATAT
4950336 TATATATT-TTA-TTATTATATTATTATTATATTTA
1 TATATATTATTATTTATTATATTATTATTATA-TTA
4950370 TATATATTATTATTATATTATATTATTATTATATTA
1 TATATATTATTATT-TATTATATTATTATTATATTA
*
4950406 T-TAATATTAATTATTT-TT-TATTATTAAATATATTA
1 TAT-ATATT-ATTATTTATTATATTATT-ATTATATTA
4950441 AATACAAACC
Statistics
Matches: 64, Mismatches: 1, Indels: 11
0.84 0.01 0.14
Matches are distributed among these distances:
34 15 0.23
35 14 0.22
36 11 0.17
37 24 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (35 bp):
TATATATTATTATTTATTATATTATTATTATATTA
Found at i:4951215 original size:13 final size:13
Alignment explanation
Indices: 4951197--4951225 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4951187 ACCACCGTTA
4951197 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
4951210 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
4951223 CGG
1 CGG
4951226 AGTACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:4951772 original size:19 final size:19
Alignment explanation
Indices: 4951750--4951786 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
4951740 CAATTTAGTC
4951750 ATTT-ATTTTATATTTGTTA
1 ATTTAATTTTAT-TTTGTTA
4951769 ATTTAATTTTATTTTGTT
1 ATTTAATTTTATTTTGTT
4951787 TAGTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (19 bp):
ATTTAATTTTATTTTGTTA
Found at i:4951805 original size:11 final size:11
Alignment explanation
Indices: 4951789--4951831 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
4951779 ATTTTGTTTA
4951789 GTTTTATATAT
1 GTTTTATATAT
4951800 GTTTTATAT-T
1 GTTTTATATAT
4951810 GTTTTAATATATT
1 GTTTT-ATATA-T
4951823 GTTTTATAT
1 GTTTTATAT
4951832 TATTCTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 6 0.21
11 13 0.45
12 4 0.14
13 6 0.21
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (11 bp):
GTTTTATATAT
Found at i:4951835 original size:13 final size:13
Alignment explanation
Indices: 4951804--4951828 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4951794 ATATATGTTT
4951804 TATATTGTTTTAA
1 TATATTGTTTTAA
4951817 TATATTGTTTTA
1 TATATTGTTTTA
4951829 TATTATTCTT
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TATATTGTTTTAA
Found at i:4951848 original size:23 final size:23
Alignment explanation
Indices: 4951790--4951835 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
4951780 TTTTGTTTAG
*
4951790 TTTT-ATATA-TGTTTTATATTG
1 TTTTAATATATTGTTTTATATTA
4951811 TTTTAATATATTGTTTTATATTA
1 TTTTAATATATTGTTTTATATTA
4951834 TT
1 TT
4951836 CTTATTATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.18
22 5 0.23
23 13 0.59
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (23 bp):
TTTTAATATATTGTTTTATATTA
Found at i:4961071 original size:32 final size:32
Alignment explanation
Indices: 4961022--4961102 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 32
4961012 TATTGGATAG
*
4961022 GTTG-TTTTTCGGTTCGGACCAATATCAAATCA
1 GTTGATTTTT-GGGTCGGACCAATATCAAATCA
** * * **
4961054 GTTGATTTTTGGGTCGGATTAATATCGATTTG
1 GTTGATTTTTGGGTCGGACCAATATCAAATCA
4961086 GTTGATTTTTGGGTCGG
1 GTTGATTTTTGGGTCGG
4961103 GTTAACACCA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
32 36 0.88
33 5 0.12
ACGTcount: A:0.19, C:0.11, G:0.27, T:0.43
Consensus pattern (32 bp):
GTTGATTTTTGGGTCGGACCAATATCAAATCA
Found at i:4961895 original size:32 final size:31
Alignment explanation
Indices: 4961847--4962014 Score: 108
Period size: 32 Copynumber: 5.2 Consensus size: 31
4961837 AAGATTCTTA
*
4961847 CTTTCAGTTTGGGTTAATTTTCGTTCGGATTG
1 CTTTCAGGTTGGGTTAA-TTTCGTTCGGATTG
* *
4961879 CTTTCAGGTTGAGTTAAATTCGGTTCAGG-TTG
1 CTTTCAGGTTGGGTTAATTTC-GTTC-GGATTG
* * * * * * *
4961911 CTTT-TGAATCTTGATAAAATTTGGTTCGGATTT
1 CTTTCAG-GT-TGGGT-TAATTTCGTTCGGATTG
* *
4961944 CTTTC-GGTTCGGGTTAATTTTAGTTCGGGTTG
1 CTTTCAGGTT-GGGTTAA-TTTCGTTCGGATTG
**
4961976 CTTTCAATTTGGGTTAATTTCGGTTCGGATTG
1 CTTTCAGGTTGGGTTAATTTC-GTTCGGATTG
4962008 CTTTCAG
1 CTTTCAG
4962015 TTTCACTAAA
Statistics
Matches: 101, Mismatches: 24, Indels: 22
0.69 0.16 0.15
Matches are distributed among these distances:
31 10 0.10
32 70 0.69
33 17 0.17
34 4 0.04
ACGTcount: A:0.16, C:0.12, G:0.25, T:0.46
Consensus pattern (31 bp):
CTTTCAGGTTGGGTTAATTTCGTTCGGATTG
Found at i:4962012 original size:16 final size:16
Alignment explanation
Indices: 4961933--4962003 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 16
4961923 GATAAAATTT
* *
4961933 GGTTCGGATTTCTTTC
1 GGTTCGGGTTACTTTC
* *
4961949 GGTTCGGGTTAATTTT
1 GGTTCGGGTTACTTTC
* *
4961965 AGTTCGGGTTGCTTTC
1 GGTTCGGGTTACTTTC
** * *
4961981 AATTTGGGTTAATTTC
1 GGTTCGGGTTACTTTC
4961997 GGTTCGG
1 GGTTCGG
4962004 ATTGCTTTCA
Statistics
Matches: 40, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.11, C:0.13, G:0.30, T:0.46
Consensus pattern (16 bp):
GGTTCGGGTTACTTTC
Found at i:4962776 original size:21 final size:21
Alignment explanation
Indices: 4962734--4962778 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4962724 TCAATATTTT
* *
4962734 TTTTTATTTTTTTATTTCTTA
1 TTTTTATTCTTTTATTTATTA
4962755 TTTTTA-TCTTTTATTTGATTA
1 TTTTTATTCTTTTATTT-ATTA
4962776 TTT
1 TTT
4962779 AATTATAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTTTATTCTTTTATTTATTA
Found at i:4962944 original size:21 final size:21
Alignment explanation
Indices: 4962920--4962959 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4962910 AATATTATTT
*
4962920 TGAATTTATTATTTAAATTAA
1 TGAATATATTATTTAAATTAA
4962941 TGAATATATTATTTAAATT
1 TGAATATATTATTTAAATT
4962960 TATTTTGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TGAATATATTATTTAAATTAA
Found at i:4966871 original size:121 final size:122
Alignment explanation
Indices: 4966723--4967004 Score: 363
Period size: 121 Copynumber: 2.3 Consensus size: 122
4966713 AAGGCGTGTT
** * * *
4966723 CCATCCCATCCAACATATGTAGTGTTGACGAGAATAGTATCCAAATAACAACATCTAAAAGGAAA
1 CCATCCCATCCAACATATACAATGTTGACG-GAATAGTATCCAAACAACAACATCTAAAAGAAAA
*
4966788 TGCGCGTTCTATGGGAAACA-CTTTTTTT-CAGAGAATGTCTGCCAGGTCATAGTT-TC
65 TGCGCGTTCTATGGGAAACATCTTTTTTTCCAGAGAATCTCTGCCAGGTCATA-TTATC
* ** * *
4966844 CCATCCCATCCAACATATACAATGTTGACGGCAATAGTCTCTGACCGACAACATCTAAAAGAAAA
1 CCATCCCATCCAACATATACAATGTTGACGG-AATAGTATCCAAACAACAACATCTAAAAGAAAA
* * *
4966909 TGTGCGTTCTATGGGAAACATTTTTTTTTCCAGAGAATCTCTGCCATGTCATATTATC
65 TGCGCGTTCTATGGGAAACATCTTTTTTTCCAGAGAATCTCTGCCAGGTCATATTATC
* *
4966967 TCATCCCATCCAACATATACAATATTGACGGGAATAGT
1 CCATCCCATCCAACATATACAATGTTGAC-GGAATAGT
4967005 TCATATAATT
Statistics
Matches: 140, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
120 1 0.01
121 72 0.51
122 9 0.06
123 56 0.40
124 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (122 bp):
CCATCCCATCCAACATATACAATGTTGACGGAATAGTATCCAAACAACAACATCTAAAAGAAAAT
GCGCGTTCTATGGGAAACATCTTTTTTTCCAGAGAATCTCTGCCAGGTCATATTATC
Found at i:4966995 original size:123 final size:121
Alignment explanation
Indices: 4966770--4967004 Score: 364
Period size: 123 Copynumber: 1.9 Consensus size: 121
4966760 TATCCAAATA
* *
4966770 ACAACATCTAAAAGGAAATGCGCGTTCTATGGGAAACACTTTTTTTCAGAGAATGTCTGCCAGGT
1 ACAACATCTAAAAGAAAATGCGCGTTCTATGGGAAACACTTTTTTTCAGAGAATCTCTGCCAGGT
*
4966835 CATAGTTTCCCATCCCATCCAACATATACAATGTTGACGGCAATAGTCTCTGACCG
66 CATAGTTTCCCATCCCATCCAACATATACAATATTGACGGCAATAGTCTCTGACCG
* * *
4966891 ACAACATCTAAAAGAAAATGTGCGTTCTATGGGAAACATTTTTTTTTCCAGAGAATCTCTGCCAT
1 ACAACATCTAAAAGAAAATGCGCGTTCTATGGGAAACA-CTTTTTTT-CAGAGAATCTCTGCCAG
* *
4966956 GTCATA-TTATCTCATCCCATCCAACATATACAATATTGACGGGAATAGT
64 GTCATAGTT-TCCCATCCCATCCAACATATACAATATTGACGGCAATAGT
4967005 TCATATAATT
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
121 36 0.35
122 9 0.09
123 58 0.56
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (121 bp):
ACAACATCTAAAAGAAAATGCGCGTTCTATGGGAAACACTTTTTTTCAGAGAATCTCTGCCAGGT
CATAGTTTCCCATCCCATCCAACATATACAATATTGACGGCAATAGTCTCTGACCG
Found at i:4967074 original size:8 final size:8
Alignment explanation
Indices: 4967063--4967123 Score: 77
Period size: 8 Copynumber: 7.6 Consensus size: 8
4967053 ATAAATTCTA
4967063 AAACTCTC
1 AAACTCTC
*
4967071 AAACTCTT
1 AAACTCTC
* *
4967079 ATACTCTT
1 AAACTCTC
*
4967087 AAACTTTC
1 AAACTCTC
4967095 AAACTCTC
1 AAACTCTC
4967103 AAACTCTC
1 AAACTCTC
*
4967111 AAACACTC
1 AAACTCTC
4967119 AAACT
1 AAACT
4967124 AAAAAAAATG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 45 1.00
ACGTcount: A:0.39, C:0.31, G:0.00, T:0.30
Consensus pattern (8 bp):
AAACTCTC
Found at i:4967084 original size:16 final size:16
Alignment explanation
Indices: 4967045--4967123 Score: 72
Period size: 16 Copynumber: 4.9 Consensus size: 16
4967035 CCTCAATATA
*
4967045 TTAAACTCAT-AAATTC
1 TTAAACTC-TCAAACTC
*
4967061 TAAAACTCTCAAACTC
1 TTAAACTCTCAAACTC
* *
4967077 TTATACTCTTAAACT-
1 TTAAACTCTCAAACTC
4967092 TTCAAACTCTCAAACTC
1 TT-AAACTCTCAAACTC
* *
4967109 TCAAACACTCAAACT
1 TTAAACTCTCAAACT
4967124 AAAAAAAATG
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
15 3 0.06
16 47 0.92
17 1 0.02
ACGTcount: A:0.41, C:0.28, G:0.00, T:0.32
Consensus pattern (16 bp):
TTAAACTCTCAAACTC
Found at i:4974498 original size:4 final size:3
Alignment explanation
Indices: 4974498--4974536 Score: 53
Period size: 3 Copynumber: 12.7 Consensus size: 3
4974488 TTTTATTTAT
4974498 TTA TTTA TTA TTA TTA TTA TTA TTA TTTA TT- TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT
4974537 TTTGTAGGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 2 0.06
3 25 0.76
4 6 0.18
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:4974510 original size:3 final size:3
Alignment explanation
Indices: 4974502--4974536 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
4974492 ATTTATTTAT
4974502 TTA TTA TTA TTA TTA TTA TTA TTTA TT- TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT
4974537 TTTGTAGGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:4974537 original size:12 final size:12
Alignment explanation
Indices: 4974487--4974537 Score: 59
Period size: 12 Copynumber: 4.0 Consensus size: 12
4974477 CTACAAAAAC
4974487 ATTTTATTTATTT
1 ATTTTA-TTATTT
4974500 A-TTTATTATTATT
1 ATTTTATTA-T-TT
4974513 ATTATTATTATTT
1 ATT-TTATTATTT
4974526 ATTTTATTATTT
1 ATTTTATTATTT
4974538 TTGTAGGCCC
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 3 0.09
12 14 0.41
13 9 0.26
14 2 0.06
15 6 0.18
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
ATTTTATTATTT
Found at i:4974627 original size:33 final size:33
Alignment explanation
Indices: 4974590--4974672 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 33
4974580 GAAAATAAAT
4974590 CAACGTATTTGAGTCCTATTGAAACACTAAAAC
1 CAACGTATTTGAGTCCTATTGAAACACTAAAAC
*
4974623 CAACGTATTTGAGTCCTATTGAAACATTAAAAC
1 CAACGTATTTGAGTCCTATTGAAACACTAAAAC
4974656 CGAA-GTATTTTGAGTCC
1 C-AACGTA-TTTGAGTCC
4974673 AAGTAGGACT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
33 36 0.77
34 11 0.23
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (33 bp):
CAACGTATTTGAGTCCTATTGAAACACTAAAAC
Found at i:4975037 original size:2 final size:2
Alignment explanation
Indices: 4975030--4975100 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
4975020 TTTACATTGT
4975030 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
4975072 TA TA 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 T
4975101 TTTATTATTC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4975136 original size:12 final size:12
Alignment explanation
Indices: 4975116--4975149 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
4975106 TATTCTTTTC
*
4975116 TCATTTTTATTT
1 TCATGTTTATTT
4975128 TCATGTTTATTT
1 TCATGTTTATTT
4975140 TCATGTTTAT
1 TCATGTTTAT
4975150 AATCCAACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.68
Consensus pattern (12 bp):
TCATGTTTATTT
Found at i:4987057 original size:111 final size:106
Alignment explanation
Indices: 4986671--4987045 Score: 457
Period size: 106 Copynumber: 3.5 Consensus size: 106
4986661 GACAAAAGAG
*
4986671 CTTCCCAGTTTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACTCAAGACAACACAATC
1 CTTCCCAGTTTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACTCAAGACAACACAAGC
* * * *
4986736 TCAACTTCACAATGAAGGGGCGACTGGTTGTCGACAAACAA
66 TCAACTTCACAACGAAGGGGCGGCTGATTGTCAACAAACAA
* * * *
4986777 CTTCCCAGTTTCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGATAGCACAAGC
1 CTTCCCAGTTTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACTCAAGACAACACAAGC
* *
4986842 TCAACTTCACAACGAAGGGGAGGCTGACTGTCAACAAACAA
66 TCAACTTCACAACGAAGGGGCGGCTGATTGTCAACAAACAA
** * * * * *
4986883 CTTCTTTAGTTTTATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACA
1 CTTC-CCAG---T-TTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACTCAAGACAACA
* * *
4986948 CAAGCTCAACTTCACAGCGAAGGGGCGGCTGATTGTAAACAAATAA
61 CAAGCTCAACTTCACAACGAAGGGGCGGCTGATTGTCAACAAACAA
* * *
4986994 TTTCCCAG-CTCTAGAGCCAATTTCAACTTCAT-GACGGAGGATATTGGACTCA
1 CTTCCCAGTTTC-AGAGCCAATTTCAACTTCATAG-CGAAGGATATTGGACTCA
4987046 GAGCAATACA
Statistics
Matches: 227, Mismatches: 35, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
105 2 0.01
106 132 0.58
107 2 0.01
110 3 0.01
111 88 0.39
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (106 bp):
CTTCCCAGTTTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACTCAAGACAACACAAGC
TCAACTTCACAACGAAGGGGCGGCTGATTGTCAACAAACAA
Found at i:4987835 original size:23 final size:23
Alignment explanation
Indices: 4987790--4987863 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 23
4987780 TCAAATGTTA
4987790 CTATATTATATAATATATGTTTATAT
1 CTATATTATAT-ATATA--TTTATAT
*
4987816 -TATATTATATACTATATTTATCT
1 CTATATTATATA-TATATTTATAT
* * *
4987839 CTATATAATATATTTATTTACAT
1 CTATATTATATATATATTTATAT
4987862 CT
1 CT
4987864 TTTTTTTTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
23 16 0.39
24 11 0.27
25 14 0.34
ACGTcount: A:0.36, C:0.08, G:0.01, T:0.54
Consensus pattern (23 bp):
CTATATTATATATATATTTATAT
Found at i:4989117 original size:40 final size:37
Alignment explanation
Indices: 4989073--4989152 Score: 108
Period size: 40 Copynumber: 2.1 Consensus size: 37
4989063 TTTTCCATTA
*
4989073 TATATATATATATATTTTA-TTTTATTATTATTATTTTACT
1 TATATATATATATA-TTTACTCTT-TT-TTA-TATTTTACT
4989113 TATATATATATATATTTACTCTTTTTTATATTTTACT
1 TATATATATATATATTTACTCTTTTTTATATTTTACT
4989150 TAT
1 TAT
4989153 TTATTTATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
37 12 0.32
38 3 0.08
39 6 0.16
40 17 0.45
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (37 bp):
TATATATATATATATTTACTCTTTTTTATATTTTACT
Found at i:4989233 original size:17 final size:17
Alignment explanation
Indices: 4989210--4989251 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
4989200 TTTATCTTCC
*
4989210 TTTTATTTGCTTTATTCA
1 TTTTATTTGCATTA-TCA
4989228 -TTTATTTGCATTATCA
1 TTTTATTTGCATTATCA
4989244 TTTTATTT
1 TTTTATTT
4989252 TTATTTAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.19, C:0.10, G:0.05, T:0.67
Consensus pattern (17 bp):
TTTTATTTGCATTATCA
Found at i:4997599 original size:19 final size:19
Alignment explanation
Indices: 4997575--4997613 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
4997565 ACAAGTATAG
4997575 TCATGAACATGAGAGTACA
1 TCATGAACATGAGAGTACA
4997594 TCATGAACATGAGAGTACA
1 TCATGAACATGAGAGTACA
4997613 T
1 T
4997614 TCAATACACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (19 bp):
TCATGAACATGAGAGTACA
Found at i:5003251 original size:2 final size:2
Alignment explanation
Indices: 5003244--5003278 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5003234 TCAATCTACA
5003244 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5003279 ATTTACGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5003495 original size:15 final size:13
Alignment explanation
Indices: 5003456--5003499 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
5003446 TAAAAGAGAA
*
5003456 TCATAAATGTGTG
1 TCATAAATGCGTG
5003469 TCATAAATGCGTG
1 TCATAAATGCGTG
*
5003482 TCATAAATGCGCG
1 TCATAAATGCGTG
5003495 TCATA
1 TCATA
5003500 GATTTATGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATAAATGCGTG
Found at i:5007479 original size:46 final size:46
Alignment explanation
Indices: 5007412--5007524 Score: 156
Period size: 46 Copynumber: 2.5 Consensus size: 46
5007402 CAATGCCAAC
5007412 AATACATATCAATTGATTGAACCAAAAACTTTAACT-AATGTAAAAT
1 AATACATATCAATTGATTGAACCAAAAACTTTAACTAAAT-TAAAAT
* ** * *
5007458 AATACATATCATTTGATTGAACCTGAAATTTTAATTAAATTAAAAT
1 AATACATATCAATTGATTGAACCAAAAACTTTAACTAAATTAAAAT
*
5007504 AACACATATCAATTGATTGAA
1 AATACATATCAATTGATTGAA
5007525 ACGTTTAGTG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
46 56 0.95
47 3 0.05
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.34
Consensus pattern (46 bp):
AATACATATCAATTGATTGAACCAAAAACTTTAACTAAATTAAAAT
Found at i:5009095 original size:14 final size:16
Alignment explanation
Indices: 5009062--5009098 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
5009052 ATGGTGAGCT
5009062 CACAAGCTCAGTGCCA
1 CACAAGCTCAGTGCCA
5009078 CACAAGCTCAGTGCCA
1 CACAAGCTCAGTGCCA
5009094 CACAA
1 CACAA
5009099 ATAACTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.38, G:0.16, T:0.11
Consensus pattern (16 bp):
CACAAGCTCAGTGCCA
Found at i:5018889 original size:28 final size:28
Alignment explanation
Indices: 5018849--5019005 Score: 242
Period size: 28 Copynumber: 5.6 Consensus size: 28
5018839 ACATAGAATT
* *
5018849 TGTCCCGAGGGACCACTTATAACACATA
1 TGTCCCAAAGGACCACTTATAACACATA
* *
5018877 TGTCCTAAAGGACCACTTATAACAAATA
1 TGTCCCAAAGGACCACTTATAACACATA
5018905 TGTCCCAAAGGACCACTTATAACACATA
1 TGTCCCAAAGGACCACTTATAACACATA
*
5018933 TGTCCCGAAGGACCACTTATAACACATA
1 TGTCCCAAAGGACCACTTATAACACATA
* *
5018961 TGTCCCGAAGGACCACTTATAAAACATA
1 TGTCCCAAAGGACCACTTATAACACATA
*
5018989 TGTCCCAAATGACCACT
1 TGTCCCAAAGGACCACT
5019006 CCTTAATGAC
Statistics
Matches: 119, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 119 1.00
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.22
Consensus pattern (28 bp):
TGTCCCAAAGGACCACTTATAACACATA
Found at i:5019079 original size:21 final size:21
Alignment explanation
Indices: 5019053--5019103 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
5019043 AATAGGTGTA
* *
5019053 CCAAAGTACTGCATATATGTT
1 CCAAAGGACTACATATATGTT
*
5019074 CCAAAGGATTACATATATG-T
1 CCAAAGGACTACATATATGTT
5019094 CCTAAAGGAC
1 CC-AAAGGAC
5019104 CACGTAGAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (21 bp):
CCAAAGGACTACATATATGTT
Found at i:5019244 original size:15 final size:15
Alignment explanation
Indices: 5019220--5019249 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5019210 CACATAGGCT
*
5019220 CATAGTTTCTTATCA
1 CATAGCTTCTTATCA
5019235 CATAGCTTCTTATCA
1 CATAGCTTCTTATCA
5019250 TATCATTCAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (15 bp):
CATAGCTTCTTATCA
Found at i:5021360 original size:18 final size:18
Alignment explanation
Indices: 5021330--5021364 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
5021320 TTAACATTAC
5021330 TTGCATAAACCTTATTCT
1 TTGCATAAACCTTATTCT
5021348 TTGC-TAAATCCTTATTC
1 TTGCATAAA-CCTTATTC
5021365 GAATCATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.46
Consensus pattern (18 bp):
TTGCATAAACCTTATTCT
Found at i:5022602 original size:16 final size:17
Alignment explanation
Indices: 5022577--5022610 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
5022567 CTGAAATATC
5022577 ACATTAACTTTT-CAAA
1 ACATTAACTTTTACAAA
*
5022593 ACATTTACTTTTACAAA
1 ACATTAACTTTTACAAA
5022610 A
1 A
5022611 TAATGAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (17 bp):
ACATTAACTTTTACAAA
Found at i:5023342 original size:21 final size:21
Alignment explanation
Indices: 5023316--5023356 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
5023306 AATAGGTGTA
* *
5023316 CCAAAGTACTGCATATATGTT
1 CCAAAGGACTACATATATGTT
*
5023337 CCAAAGGATTACATATATGT
1 CCAAAGGACTACATATATGT
5023357 CCTGAAGGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.32
Consensus pattern (21 bp):
CCAAAGGACTACATATATGTT
Found at i:5028552 original size:82 final size:82
Alignment explanation
Indices: 5028394--5028554 Score: 193
Period size: 82 Copynumber: 2.0 Consensus size: 82
5028384 TACTGCAGAG
* ** *
5028394 AGGGTATTGATACTGTAAGGCCAATATCGATACCAAGGGTATGATTTGAGCTTTAAAGAATGAGT
1 AGGGTATCGATACTGTAAGGCCAATATCGATACCAAGGGTATGAAATGAGCTTTAAAGAATGAGA
*
5028459 AAGTGTAGAGGTAAGCA
66 AAGTATAGAGGTAAGCA
* * *
5028476 AGGGTATCGATATTGTAAGGCCAATATCGATACCAAGGTTGA-GAAATGGGCTTT-AAGTCAA-G
1 AGGGTATCGATACTGTAAGGCCAATATCGATACCAAGGGT-ATGAAATGAGCTTTAAAG--AATG
*
5028538 AGAAAGTATTGAGGTAA
63 AGAAAGTATAGAGGTAA
5028555 TTGAGGTTTC
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
81 3 0.04
82 61 0.91
83 3 0.04
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (82 bp):
AGGGTATCGATACTGTAAGGCCAATATCGATACCAAGGGTATGAAATGAGCTTTAAAGAATGAGA
AAGTATAGAGGTAAGCA
Found at i:5033811 original size:2 final size:2
Alignment explanation
Indices: 5033804--5033848 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
5033794 ACAATTAAAA
5033804 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5033846 AT A
1 AT A
5033849 CTAAAACTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5034110 original size:43 final size:43
Alignment explanation
Indices: 5034062--5034147 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
5034052 ATTAGCGACT
* *
5034062 CGAAAATTTTGTAACTATAAGATTTAATGATTGAATTTGATAC
1 CGAAAATTTTGTAACTATAAAATTTAAAGATTGAATTTGATAC
5034105 CGAAAATTTTGTAACTATAAAATTTAAAGATTGAATTTGATAC
1 CGAAAATTTTGTAACTATAAAATTTAAAGATTGAATTTGATAC
5034148 TTTTAGTGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (43 bp):
CGAAAATTTTGTAACTATAAAATTTAAAGATTGAATTTGATAC
Found at i:5037389 original size:21 final size:23
Alignment explanation
Indices: 5037365--5037415 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
5037355 TTAATAATTT
5037365 TTTATAAACA-TTTTAA-ATATA
1 TTTATAAACAGTTTTAATATATA
* *
5037386 TTTATCAATAGTTTTAATATATA
1 TTTATAAACAGTTTTAATATATA
*
5037409 TTAATAA
1 TTTATAA
5037416 TTAATAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 8 0.33
22 6 0.25
23 10 0.42
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTATAAACAGTTTTAATATATA
Found at i:5057264 original size:18 final size:18
Alignment explanation
Indices: 5057228--5057283 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
5057218 GGTCACAACT
* *
5057228 CGACCCGACCCGTTGACC
1 CGACCCGACCAGTTTACC
* *
5057246 CGATCCGACTAGTTTACC
1 CGACCCGACCAGTTTACC
*
5057264 CGACCCGACCCGTTTACC
1 CGACCCGACCAGTTTACC
5057282 CG
1 CG
5057284 TTGACCGTTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.18, C:0.45, G:0.20, T:0.18
Consensus pattern (18 bp):
CGACCCGACCAGTTTACC
Found at i:5057284 original size:8 final size:8
Alignment explanation
Indices: 5057270--5057314 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
5057260 TACCCGACCC
5057270 GACCCGTT
1 GACCCGTT
*
5057278 TACCCGTT
1 GACCCGTT
5057286 GA-CCGTT
1 GACCCGTT
5057293 GACCCGTT
1 GACCCGTT
5057301 GACCGTCGTT
1 GACC--CGTT
5057311 GACC
1 GACC
5057315 ATTGTTGACC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 7 0.22
8 17 0.53
10 8 0.25
ACGTcount: A:0.13, C:0.36, G:0.24, T:0.27
Consensus pattern (8 bp):
GACCCGTT
Found at i:5057297 original size:15 final size:15
Alignment explanation
Indices: 5057273--5057306 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
5057263 CCGACCCGAC
*
5057273 CCGTTTACCCGTTGA
1 CCGTTGACCCGTTGA
5057288 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
5057303 CCGT
1 CCGT
5057307 CGTTGACCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.35, G:0.24, T:0.29
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:5062439 original size:18 final size:18
Alignment explanation
Indices: 5062418--5062453 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
5062408 CAACCCAATT
*
5062418 ACCCGACCCGTTGACCCG
1 ACCCGACCCATTGACCCG
5062436 ACCCGACCCATTGACCCG
1 ACCCGACCCATTGACCCG
5062454 TTGACCGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.50, G:0.19, T:0.11
Consensus pattern (18 bp):
ACCCGACCCATTGACCCG
Found at i:5062463 original size:7 final size:8
Alignment explanation
Indices: 5062440--5062484 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
5062430 GACCCGACCC
*
5062440 GACCCATT
1 GACCCGTT
5062448 GACCCGTT
1 GACCCGTT
5062456 GA-CCGTT
1 GACCCGTT
5062463 GACCCGTT
1 GACCCGTT
5062471 GACCGTCGTT
1 GACC--CGTT
5062481 GACC
1 GACC
5062485 ATTGTTGACC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
7 7 0.21
8 18 0.55
10 8 0.24
ACGTcount: A:0.16, C:0.36, G:0.24, T:0.24
Consensus pattern (8 bp):
GACCCGTT
Found at i:5062466 original size:15 final size:15
Alignment explanation
Indices: 5062446--5062476 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
5062436 ACCCGACCCA
5062446 TTGACCCGTTGACCG
1 TTGACCCGTTGACCG
5062461 TTGACCCGTTGACCG
1 TTGACCCGTTGACCG
5062476 T
1 T
5062477 CGTTGACCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.32, G:0.26, T:0.29
Consensus pattern (15 bp):
TTGACCCGTTGACCG
Found at i:5063788 original size:18 final size:18
Alignment explanation
Indices: 5063762--5063796 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5063752 TCGAAAGGAC
*
5063762 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
5063780 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
5063797 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:5069706 original size:27 final size:24
Alignment explanation
Indices: 5069647--5069707 Score: 61
Period size: 27 Copynumber: 2.4 Consensus size: 24
5069637 TTATTCCCTA
5069647 AATATATTAATATTTTAAATAAAT
1 AATATATTAATATTTTAAATAAAT
* *
5069671 -ATAGGATTATTCATATTTATAATAAAT
1 AATA-TATTAAT-AT-TTTA-AATAAAT
5069698 AATATATTAA
1 AATATATTAA
5069708 GTAGTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
23 3 0.11
24 5 0.18
25 2 0.07
26 4 0.14
27 11 0.39
28 3 0.11
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (24 bp):
AATATATTAATATTTTAAATAAAT
Found at i:5071958 original size:22 final size:23
Alignment explanation
Indices: 5071905--5071958 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
5071895 ACTATTTTCT
* *
5071905 AAAATTTAAAATTTACAATGAGAC
1 AAAA-TTAAAATTTACAAAGAAAC
**
5071929 AATTTTAAAATTTA-AAAGAAAC
1 AAAATTAAAATTTACAAAGAAAC
5071951 AAAATTAA
1 AAAATTAA
5071959 TAGAAGAGAG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
22 12 0.50
23 10 0.42
24 2 0.08
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.30
Consensus pattern (23 bp):
AAAATTAAAATTTACAAAGAAAC
Found at i:5073097 original size:22 final size:21
Alignment explanation
Indices: 5073059--5073102 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
5073049 TTTATATTTT
*
5073059 ATTAAAATTAATCAATTAATAA
1 ATTAAAATAAATCAATT-ATAA
5073081 ATTAAATATAAAT-AATTATAA
1 ATTAAA-ATAAATCAATTATAA
5073102 A
1 A
5073103 AGAAATAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 10 0.50
23 5 0.25
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
ATTAAAATAAATCAATTATAA
Found at i:5078832 original size:31 final size:31
Alignment explanation
Indices: 5078797--5078859 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
5078787 AGATTTTACC
* * *
5078797 ACTTTCGTTTCATTTTAATTAAGATTTGGTT
1 ACTTTCATTCCATTTTAATTAAGATGTGGTT
*
5078828 ACTTTCATTCCGTTTTAATTAAGATGTGGTT
1 ACTTTCATTCCATTTTAATTAAGATGTGGTT
5078859 A
1 A
5078860 TTAAAGGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.24, C:0.11, G:0.14, T:0.51
Consensus pattern (31 bp):
ACTTTCATTCCATTTTAATTAAGATGTGGTT
Found at i:5079667 original size:23 final size:23
Alignment explanation
Indices: 5079641--5079707 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
5079631 AAAATGGATA
5079641 AATTGAAATGTTATCACTAAACT
1 AATTGAAATGTTATCACTAAACT
*
5079664 AATTTG-AA--TT-TCA-TCAA-T
1 AA-TTGAAATGTTATCACTAAACT
5079682 AAATTGAAATGTTATCACTAAACT
1 -AATTGAAATGTTATCACTAAACT
5079706 AA
1 AA
5079708 ATCGTTTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
18 4 0.12
19 7 0.21
20 3 0.09
21 4 0.12
22 3 0.09
23 9 0.26
24 4 0.12
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (23 bp):
AATTGAAATGTTATCACTAAACT
Found at i:5079822 original size:31 final size:31
Alignment explanation
Indices: 5079757--5079830 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
5079747 TTCAACGTTC
*
5079757 AAGTGATCAAAACTTAATAAAACAAGAACAT
1 AAGTGACCAAAACTTAATAAAACAAGAACAT
** * *
5079788 AAGTGACCAAAACTTAATAAAATGATAACGT
1 AAGTGACCAAAACTTAATAAAACAAGAACAT
5079819 AAGTGACCAAAA
1 AAGTGACCAAAA
5079831 GTGTATTGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.55, C:0.14, G:0.12, T:0.19
Consensus pattern (31 bp):
AAGTGACCAAAACTTAATAAAACAAGAACAT
Found at i:5080513 original size:19 final size:20
Alignment explanation
Indices: 5080475--5080524 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
5080465 GTAAAATTTT
*
5080475 GAAACTCTTGAGATAGTTTC
1 GAAACTCTTGAGAAAGTTTC
5080495 GAAACTCTTGA-AAAGTTTC
1 GAAACTCTTGAGAAAGTTTC
5080514 GAAACTTCTTG
1 GAAAC-TCTTG
5080525 TCAAAATACT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (20 bp):
GAAACTCTTGAGAAAGTTTC
Found at i:5083123 original size:19 final size:20
Alignment explanation
Indices: 5083077--5083129 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
5083067 AACTTTAGGT
5083077 AAAGTTTCAAAACTCTTGAG
1 AAAGTTTCAAAACTCTTGAG
* *
5083097 ATAGTTTCGAAACTCTTGA-
1 AAAGTTTCAAAACTCTTGAG
5083116 AAAGTTTCAAAACT
1 AAAGTTTCAAAACT
5083130 TCTGGTCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (20 bp):
AAAGTTTCAAAACTCTTGAG
Found at i:5083984 original size:3 final size:3
Alignment explanation
Indices: 5083976--5084035 Score: 63
Period size: 3 Copynumber: 20.3 Consensus size: 3
5083966 CATCCGGATT
*
5083976 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTT TTA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
5084020 TATA TTA GTA -TA TTA T
1 T-TA TTA TTA TTA TTA T
5084036 ATTTTTTGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
2 6 0.12
3 37 0.74
4 7 0.14
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:5084013 original size:32 final size:32
Alignment explanation
Indices: 5083974--5084041 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
5083964 TTCATCCGGA
* *
5083974 TTTTATTAT-TAT-TATTATTATTATTATTTTAT
1 TTTTATTATATATATA-TATTAGTA-TATTATAT
5084006 TTTTATTATATATATATATTAGTATATTATAT
1 TTTTATTATATATATATATTAGTATATTATAT
5084038 TTTT
1 TTTT
5084042 TGAAAATGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 20 0.62
33 10 0.31
34 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (32 bp):
TTTTATTATATATATATATTAGTATATTATAT
Found at i:5084134 original size:37 final size:36
Alignment explanation
Indices: 5084076--5084521 Score: 404
Period size: 37 Copynumber: 12.4 Consensus size: 36
5084066 TTTGAAATCA
* **
5084076 TTTTTAAAACATTTCAAAAACTTATATAATATATAG
1 TTTTGAAAACATTTTGAAAACTTATATAATATATAG
*
5084112 TTTTGAAATCATTTTGAAAAACTTATATAATATATAG
1 TTTTGAAAACATTTTG-AAAACTTATATAATATATAG
*
5084149 TTTTGAAATCATTTTGAAAAACTTATATAATATATAG
1 TTTTGAAAACATTTTG-AAAACTTATATAATATATAG
* *
5084186 TTTTGAAATCATTTTGAAAACTTATATAATATATAAT
1 TTTTGAAAACATTTTGAAAACTTATATAATATAT-AG
* *
5084223 TTTTTAAAACATTTTGAAAA-TATATATAATATATAAA
1 TTTTGAAAACATTTTGAAAACT-TATATAATATAT-AG
* * *
5084260 TTTTTAAAACATGTTGAAAACTTATGTAATATATA-
1 TTTTGAAAACATTTTGAAAACTTATATAATATATAG
5084295 ----G------TTTTGAAAACTTATATAATATATAG
1 TTTTGAAAACATTTTGAAAACTTATATAATATATAG
* *
5084321 TTTTTTAAAACATTTTGAAAA-TATATATAATATATAT
1 -TTTTGAAAACATTTTGAAAACT-TATATAATATATAG
**
5084358 TTTTTCAAACATTTTGAAAACTTATATAATATATAG
1 TTTTGAAAACATTTTGAAAACTTATATAATATATAG
* * *
5084394 TTTTTAAAAACATTTTTTGGAAACTTATATAATATATAATTT
1 -TTTTGAAAACA--TTTTGAAAACTTATATAATATAT-A--G
* * * *
5084436 TTTTAAAAAATCATTTT-AAAA-ATATATATTATATAAT
1 TTTT-GAAAA-CATTTTGAAAACTTATATAATATAT-AG
*
5084473 TTTTAAAAACATTTTGAAAAC-TATATAATATATAG
1 TTTTGAAAACATTTTGAAAACTTATATAATATATAG
*
5084508 TTTTAAAAAC-TTTT
1 TTTTGAAAACATTTT
5084522 AATTTTATAT
Statistics
Matches: 356, Mismatches: 26, Indels: 58
0.81 0.06 0.13
Matches are distributed among these distances:
25 22 0.06
34 4 0.01
35 17 0.05
36 85 0.24
37 173 0.49
38 1 0.00
39 35 0.10
40 4 0.01
41 8 0.02
42 5 0.01
43 2 0.01
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (36 bp):
TTTTGAAAACATTTTGAAAACTTATATAATATATAG
Found at i:5084300 original size:99 final size:98
Alignment explanation
Indices: 5084197--5084519 Score: 364
Period size: 99 Copynumber: 3.1 Consensus size: 98
5084187 TTTGAAATCA
5084197 TTTTGAAAACTTATATAATATATAATTTTTTAAAACATTTTGAAAATATATATAATATATAAATT
1 TTTTGAAAACTTATATAATATATAATTTTTTAAAACATTTTGAAAATATATATAATATAT-AATT
*
5084262 TTTAAAACATGTTGAAAACTTATGTAATATATAG
65 TTTAAAACATGTTGAAAACTTATATAATATATAG
* *
5084296 TTTTGAAAACTTATATAATATATAGTTTTTTAAAACATTTTGAAAATATATATAATATATATTTT
1 TTTTGAAAACTTATATAATATATAATTTTTTAAAACATTTTGAAAATATATATAATATATAATTT
* *
5084361 TTCAAACATTTTGAAAACTTATATAATATATAG
66 TTAAAACATGTTGAAAACTTATATAATATATAG
*
5084394 TTTTTAAAAACATTTTTTGGAAACTTATATAATATATAATTTTTTTAAAAAATCATTTT-AAAA-
1 --------------TTTTGAAAACTTATATAATATATAA-TTTTTT--AAAA-CATTTTGAAAAT
* *
5084457 ATATATATTATATAATTTTTAAAAACATTTTGAAAAC-TATATAATATATAG
48 ATATATAATATATAATTTTT-AAAACATGTTGAAAACTTATATAATATATAG
*
5084508 TTTTAAAAACTT
1 TTTTGAAAACTT
5084520 TTAATTTTAT
Statistics
Matches: 193, Mismatches: 12, Indels: 37
0.80 0.05 0.15
Matches are distributed among these distances:
98 34 0.18
99 59 0.31
100 10 0.05
112 23 0.12
113 6 0.03
114 32 0.17
115 23 0.12
116 6 0.03
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.45
Consensus pattern (98 bp):
TTTTGAAAACTTATATAATATATAATTTTTTAAAACATTTTGAAAATATATATAATATATAATTT
TTAAAACATGTTGAAAACTTATATAATATATAG
Found at i:5084315 original size:172 final size:175
Alignment explanation
Indices: 5084123--5084443 Score: 476
Period size: 172 Copynumber: 1.8 Consensus size: 175
5084113 TTTGAAATCA
*
5084123 TTTTGAAAAACTTATATAATATATAG-TTTTGAAATCATTTTGAAAA-ACTTATATAATATATA-
1 TTTTGAAAAACTTATATAATATATAGTTTTTGAAAACATTTTGAAAATA--TATATAATATATAT
* *
5084185 GTTTTGAAATCATTTTGAAAACTTATATAATATATAATTTTTTAAAACA-TTTT-GAAAATATAT
64 GTTTTCAAA-CATTTTGAAAACTTATATAATATATAATTTTTAAAAACATTTTTGGAAAAT-TAT
5084248 ATAATATATAA-ATTTTTAAAACATGTTGAAAACTTATGTAATATATAG
127 ATAATATATAATATTTTTAAAACATGTTGAAAACTTATGTAATATATAG
* *
5084296 TTTTG-AAAACTTATATAATATATAGTTTTTTAAAACATTTTGAAAATATATATAATATATATTT
1 TTTTGAAAAACTTATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATATGT
* *
5084360 TTTCAAACATTTTGAAAACTTATATAATATATAGTTTTTAAAAACATTTTTTGGAAACTTATATA
66 TTTCAAACATTTTGAAAACTTATATAATATATAATTTTTAAAAACA-TTTTTGGAAAATTATATA
*
5084425 ATATATAATTTTTTTAAAA
130 ATATATAATATTTTTAAAA
5084444 AATCATTTTA
Statistics
Matches: 133, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
172 70 0.53
173 30 0.23
174 19 0.14
175 14 0.11
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (175 bp):
TTTTGAAAAACTTATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATATGT
TTTCAAACATTTTGAAAACTTATATAATATATAATTTTTAAAAACATTTTTGGAAAATTATATAA
TATATAATATTTTTAAAACATGTTGAAAACTTATGTAATATATAG
Found at i:5084326 original size:27 final size:25
Alignment explanation
Indices: 5084273--5084324 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
5084263 TTAAAACATG
*
5084273 TTGAAAACTTATGTAATATATAGTT
1 TTGAAAACTTATATAATATATAGTT
5084298 TTGAAAACTTATATAATATATAGTT
1 TTGAAAACTTATATAATATATAGTT
5084323 TT
1 TT
5084325 TTAAAACATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (25 bp):
TTGAAAACTTATATAATATATAGTT
Found at i:5084368 original size:36 final size:36
Alignment explanation
Indices: 5084296--5084544 Score: 247
Period size: 36 Copynumber: 6.8 Consensus size: 36
5084286 TAATATATAG
5084296 TTTTGAAAACTTATATAATATATAGTTTTTTAAAACA
1 TTTTGAAAA-TTATATAATATATAGTTTTTTAAAACA
*
5084333 TTTTGAAAATATATATAATATATA-TTTTTTCAAACA
1 TTTTGAAAAT-TATATAATATATAGTTTTTTAAAACA
*
5084369 TTTTGAAAACTTATATAATATATAGTTTTTAAAAACA
1 TTTTGAAAA-TTATATAATATATAGTTTTTTAAAACA
* *
5084406 TTTTTTGGAAACTTATATAATATATAATTTTTTTAAAAAATCA
1 --TTTT-GAAAATTATATAATATAT-AGTTTTTT--AAAA-CA
* * * *
5084449 TTTT-AAAAATATATATTATATAATTTTTAAAAACA
1 TTTTGAAAATTATATAATATATAGTTTTTTAAAACA
* *
5084484 TTTTGAAAACTATATAATATATAG-TTTTAAAAAC-
1 TTTTGAAAATTATATAATATATAGTTTTTTAAAACA
** * *
5084518 TTTT-AATTTTATATAATAGATGGTTTT
1 TTTTGAAAATTATATAATATATAGTTTT
5084545 AAAATCTTAT
Statistics
Matches: 181, Mismatches: 19, Indels: 27
0.80 0.08 0.12
Matches are distributed among these distances:
33 14 0.08
34 7 0.04
35 16 0.09
36 54 0.30
37 33 0.18
38 6 0.03
39 31 0.17
40 10 0.06
41 4 0.02
42 4 0.02
43 2 0.01
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (36 bp):
TTTTGAAAATTATATAATATATAGTTTTTTAAAACA
Found at i:5084559 original size:3 final size:3
Alignment explanation
Indices: 5084551--5084602 Score: 58
Period size: 3 Copynumber: 18.0 Consensus size: 3
5084541 TTTTAAAATC
5084551 TTA TTA TTA TTA TTA TTA TTAA TTA TT- TTA TT- TTA TTTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA -TTA TTA TTA
5084595 TT- TTA TTA
1 TTA TTA TTA
5084603 ATTGTGGTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
2 8 0.19
3 29 0.67
4 6 0.14
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:5084562 original size:6 final size:6
Alignment explanation
Indices: 5084551--5084602 Score: 58
Period size: 5 Copynumber: 9.0 Consensus size: 6
5084541 TTTTAAAATC
5084551 TTATTA TTATTA TTATTA TTAATTA TT-TTA TT-TTA TTTATT- TTATT-
1 TTATTA TTATTA TTATTA TT-ATTA TTATTA TTATTA -TTATTA TTATTA
5084597 TTATTA
1 TTATTA
5084603 ATTGTGGTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
5 18 0.43
6 16 0.38
7 8 0.19
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTATTA
Found at i:5084592 original size:14 final size:14
Alignment explanation
Indices: 5084557--5084601 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
5084547 AATCTTATTA
*
5084557 TTATTATTATTATTAA
1 TTATT-TTATT-TTAT
5084573 TTATTTTATTTTAT
1 TTATTTTATTTTAT
5084587 TTATTTTATTTTAT
1 TTATTTTATTTTAT
5084601 T
1 T
5084602 AATTGTGGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 18 0.64
15 5 0.18
16 5 0.18
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTATTTTATTTTAT
Found at i:5085612 original size:11 final size:11
Alignment explanation
Indices: 5085590--5085637 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
5085580 GGACCATTTG
5085590 TTTTAA-TTTA
1 TTTTAATTTTA
5085600 TTTTAATTTTA
1 TTTTAATTTTA
5085611 --TT-A-TTTA
1 TTTTAATTTTA
*
5085618 GTTTAATTTTA
1 TTTTAATTTTA
5085629 TTTTAATTT
1 TTTTAATTT
5085638 AGCCATTAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
7 4 0.12
8 1 0.03
9 4 0.12
10 7 0.22
11 16 0.50
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (11 bp):
TTTTAATTTTA
Found at i:5085622 original size:18 final size:18
Alignment explanation
Indices: 5085595--5085630 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
5085585 ATTTGTTTTA
*
5085595 ATTTATTTTAATTTTATT
1 ATTTAGTTTAATTTTATT
5085613 ATTTAGTTTAATTTTATT
1 ATTTAGTTTAATTTTATT
5085631 TTAATTTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
ATTTAGTTTAATTTTATT
Found at i:5085672 original size:20 final size:21
Alignment explanation
Indices: 5085626--5085677 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
5085616 TAGTTTAATT
*
5085626 TTATTTTAATTTAGCCATTAG
1 TTATTTTAATTTAGCCACTAG
*
5085647 TT-TTTTGATTTAGCCACT-G
1 TTATTTTAATTTAGCCACTAG
5085666 TTATTTTAATTT
1 TTATTTTAATTT
5085678 TTGCATTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 3 0.11
20 22 0.81
21 2 0.07
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.58
Consensus pattern (21 bp):
TTATTTTAATTTAGCCACTAG
Found at i:5085770 original size:3 final size:3
Alignment explanation
Indices: 5085762--5085842 Score: 50
Period size: 3 Copynumber: 29.0 Consensus size: 3
5085752 TTTGTTTTAT
* * *
5085762 TTA TTA TTA TT- TTA TTA TT- TT- TTA TTT TTA TTA TTA TTC TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
5085807 CTA -AA TT- TTA TTTA TT- TTA ATA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
5085843 ATATCTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
2 13 0.21
3 45 0.74
4 3 0.05
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:5085776 original size:15 final size:15
Alignment explanation
Indices: 5085756--5085822 Score: 56
Period size: 14 Copynumber: 4.7 Consensus size: 15
5085746 TTCTATTTTG
5085756 TTTTATTTATTATTA
1 TTTTATTTATTATTA
5085771 TTTTA-TTATT-TT-
1 TTTTATTTATTATTA
5085783 TTATT-TTTATTATTA
1 TT-TTATTTATTATTA
* *
5085798 TTCTT-TTTACTA-AA
1 TT-TTATTTATTATTA
5085812 TTTTATTTATT
1 TTTTATTTATT
5085823 TTAATATTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
12 2 0.05
13 11 0.26
14 15 0.35
15 15 0.35
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTATTTATTATTA
Found at i:5086205 original size:2 final size:2
Alignment explanation
Indices: 5086198--5086256 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
5086188 CGGCTGCGAC
5086198 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5086240 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
5086257 ACAAGTTGAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5086618 original size:22 final size:22
Alignment explanation
Indices: 5086601--5086644 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
5086591 GCAACTAATT
*
5086601 TACTAA-TAATTGCTAACTAAC
1 TACTAACTAATTGATAACTAAC
5086622 TACTAACTAATTGATAAC-AAC
1 TACTAACTAATTGATAACTAAC
5086643 TA
1 TA
5086645 ACAAACTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (22 bp):
TACTAACTAATTGATAACTAAC
Found at i:5091152 original size:22 final size:21
Alignment explanation
Indices: 5091113--5091157 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
5091103 TCAAATGGTT
**
5091113 TACTAACTAATTGTTAACTAAC
1 TACTAACTAATTAATAAC-AAC
5091135 TACTAACTAATTAATAACAAC
1 TACTAACTAATTAATAACAAC
5091156 TA
1 TA
5091158 ACAAACTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (21 bp):
TACTAACTAATTAATAACAAC
Found at i:5091164 original size:22 final size:22
Alignment explanation
Indices: 5091117--5091164 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
5091107 ATGGTTTACT
** *
5091117 AACTAATTGTTAACTAACTACT
1 AACTAATTAATAACTAACTACA
5091139 AACTAATTAATAAC-AACTAACA
1 AACTAATTAATAACTAACT-ACA
5091161 AACT
1 AACT
5091165 TTCCAAAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.50, C:0.19, G:0.02, T:0.29
Consensus pattern (22 bp):
AACTAATTAATAACTAACTACA
Found at i:5094967 original size:21 final size:21
Alignment explanation
Indices: 5094943--5095039 Score: 78
Period size: 21 Copynumber: 5.3 Consensus size: 21
5094933 TATTGTTTTG
5094943 ATTTTACTTTTTACTTGTATC
1 ATTTTACTTTTTACTTGTATC
*
5094964 ATTTTA-TTGTT--TTG----
1 ATTTTACTTTTTACTTGTATC
5094978 ATTTTACTTTTTACTTGTATC
1 ATTTTACTTTTTACTTGTATC
*
5094999 ATTTTA-TTGTT--TTG----
1 ATTTTACTTTTTACTTGTATC
5095013 ATTTTACTTTTTACTTGTATC
1 ATTTTACTTTTTACTTGTATC
5095034 ATTTTA
1 ATTTTA
5095040 TTAAATTGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 28
0.64 0.04 0.31
Matches are distributed among these distances:
14 12 0.21
15 8 0.14
17 6 0.10
18 6 0.10
20 8 0.14
21 18 0.31
ACGTcount: A:0.19, C:0.09, G:0.07, T:0.65
Consensus pattern (21 bp):
ATTTTACTTTTTACTTGTATC
Found at i:5095049 original size:35 final size:35
Alignment explanation
Indices: 5094932--5095041 Score: 220
Period size: 35 Copynumber: 3.1 Consensus size: 35
5094922 ATTCAATGAG
5094932 TTATTGTTTTGATTTTACTTTTTACTTGTATCATT
1 TTATTGTTTTGATTTTACTTTTTACTTGTATCATT
5094967 TTATTGTTTTGATTTTACTTTTTACTTGTATCATT
1 TTATTGTTTTGATTTTACTTTTTACTTGTATCATT
5095002 TTATTGTTTTGATTTTACTTTTTACTTGTATCATT
1 TTATTGTTTTGATTTTACTTTTTACTTGTATCATT
5095037 TTATT
1 TTATT
5095042 AAATTGATGC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 75 1.00
ACGTcount: A:0.17, C:0.08, G:0.08, T:0.66
Consensus pattern (35 bp):
TTATTGTTTTGATTTTACTTTTTACTTGTATCATT
Found at i:5097287 original size:124 final size:123
Alignment explanation
Indices: 5097060--5097288 Score: 327
Period size: 124 Copynumber: 1.9 Consensus size: 123
5097050 TCCAATAGTG
* * *
5097060 GATAAAGATCCATTTGCAATCTTGACATGGGATTGAGACAATATTTTTGAAAAGCTTAAAATAAC
1 GATAAAGATCCATTTGAAATCTTCACATGGGATTGAGACAATATTTCTGAAAAGCTTAAAATAAC
* * *
5097125 TGCAATCTTAATATTTTGGGCTTTTTGAAATGATTGATTCATGGAGAACCTAATCTAA
66 TGCAATATTAATATTTTAGGCTTTTTGAAATGACTGATTCATGGAGAACCTAATCTAA
* *
5097183 GATAAAGATCCATTTGAAATCTTCACATGGGATTGAGGCAATACTTTCTGAAAAGCTTGAAATAA
1 GATAAAGATCCATTTGAAATCTTCACATGGGATTGAGACAATA-TTTCTGAAAAGCTTAAAATAA
* *
5097248 TTGTAATATTAATATTTTAAGG-TTTTTGAAA-GAACTGATTC
65 CTGCAATATTAATATTTT-AGGCTTTTTGAAATG-ACTGATTC
5097289 CCGGGGAGCC
Statistics
Matches: 93, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
123 41 0.44
124 50 0.54
125 2 0.02
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.35
Consensus pattern (123 bp):
GATAAAGATCCATTTGAAATCTTCACATGGGATTGAGACAATATTTCTGAAAAGCTTAAAATAAC
TGCAATATTAATATTTTAGGCTTTTTGAAATGACTGATTCATGGAGAACCTAATCTAA
Found at i:5100431 original size:84 final size:84
Alignment explanation
Indices: 5100143--5100877 Score: 756
Period size: 84 Copynumber: 8.7 Consensus size: 84
5100133 CTGAATGAAA
* * * * * * * * * *
5100143 TCGAACTCGATGGT-TTTTATTGACAGATAGCCCTTCTTGCCTTGAGCTAAGCTGTAAATGACGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* *
5100207 GCCTTTGAGCTGAGTGTAA
66 GCCTTTGAGCTGAGCGTAG
* * * ** * *
5100226 TCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCTCTCCTTAAGCTATGCTGCAAATGAT
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAACCC-T-TCTAGCCTTGAGTTATGCTGCAAATGAT
* *
5100291 GTGCCTTTGAGCTGAGTGTAA
64 GTGCCTTTGAGCTGAGCGTAG
*
5100312 TCGAACTCGAAGGTCTTTTGTTGG-AAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGATG
1 TCGAACTCGAAGGTCTTTTGTTGGCAA-ATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATG
*
5100376 TGCCTTGGAGCTGAGCGTAG
65 TGCCTTTGAGCTGAGCGTAG
* * * * * * * * *
5100396 TCGAACTAGAAGGTCTTATATTGGTAAATAGCCCTTCTTGCCTTCAGCTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
*
5100461 GCC-TTGAAGCTGAGCATAG
66 GCCTTTG-AGCTGAGCGTAG
** * * * * * *
5100480 TTTAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTATAGGCTTGAGTTATGTTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* *
5100545 GCATTTGAGCTAAGCGTAG
66 GCCTTTGAGCTGAGCGTAG
* * * * * * * * *
5100564 TCAAACTCAAAGGTCTTTGGATGGCAGATAACCCTTATAGCTTTGAGTTATGCTACAAATGATAT
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
5100629 GCCTTTGAGCTGAGCGTAG
66 GCCTTTGAGCTGAGCGTAG
* * ** * * * *
5100648 TCGAGCTCGAAGGTCTTTTGTTAGCAAATAGTCCTTCTTGCCTTGAGCTATGTTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
*
5100713 GCCTTGGAGCTGAGCGTAG
66 GCCTTTGAGCTGAGCGTAG
* * * * *
5100732 TCGAACTTGAAGGTTTTTTGTTGGTAGATAACCCTTCTAGTCTTGAGTTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* *
5100797 GCCTTAGTGCTGAGCGTAG
66 GCCTTTGAGCTGAGCGTAG
* * * * *
5100816 TCGAACTCGAAGGTGTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGTTATGTTACAAATGA
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGA
5100878 ACACGATATC
Statistics
Matches: 543, Mismatches: 102, Indels: 13
0.83 0.16 0.02
Matches are distributed among these distances:
83 15 0.03
84 448 0.83
85 8 0.01
86 72 0.13
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
GCCTTTGAGCTGAGCGTAG
Found at i:5100642 original size:252 final size:251
Alignment explanation
Indices: 5100169--5100877 Score: 896
Period size: 252 Copynumber: 2.8 Consensus size: 251
5100159 TTATTGACAG
* * * * *
5100169 ATAGCCCTTCTTGCCTTGAGCTAAGCTGTAAATGACGTGCCTTTGAGCTGAGTGTAATCGAACTC
1 ATAGCCCTTCTTGCCTTGAGCTATGTTGTAAATGATGTGCC-TTGAGCTGAGCGTAGTCGAACTC
* ** * *
5100234 GAAGGTCTTTGGTTGACAGATAACCCTTCTCTCTCCTTAAGCTATGCTGCAAATGATGTGCCTTT
65 GAAGGTCTTTGGTTGGCAGATAACCC-T-TCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTT
* * * *
5100299 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGAAGATAACCCTTCTAGCCTTGAGTTATA
128 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
* * * *
5100364 CTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTAGAAGGTCTTATATTGGTAA
193 CTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTAGAAGGTCTTATATTAGCAA
* * * **
5100423 ATAGCCCTTCTTGCCTTCAGCTATGTTGCAAATGATGTGCCTTGAAGCTGAGCATAGTTTAACTC
1 ATAGCCCTTCTTGCCTTGAGCTATGTTGTAAATGATGTGCCTTG-AGCTGAGCGTAGTCGAACTC
* * * * *
5100488 GAAGGTCTTTGGTTGGCAGATAACCCTTATAGGCTTGAGTTATGTTGCAAATGATATGCATTTGA
65 GAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGA
* * * * * * *
5100553 GCTAAGCGTAGTCAAACTCAAAGGTCTTTGGATGGCAGATAACCCTTATAGCTTTGAGTTATGCT
130 GCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCT
* * * * *
5100618 ACAAATGATATGCCTTTGAGCTGAGCGTAGTCGAGCTCGAAGGTCTTTTGTTAGCAA
195 ACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTAGAAGGTCTTATATTAGCAA
* *
5100675 ATAGTCCTTCTTGCCTTGAGCTATGTTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTT
1 ATAGCCCTTCTTGCCTTGAGCTATGTTGTAAATGATGTGCCTT-GAGCTGAGCGTAGTCGAACTC
* * * * * *
5100740 GAAGGTTTTTTGTTGGTAGATAACCCTTCTAGTCTTGAGTTATGCTGCAAATGATGTGCCTTAGT
65 GAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGA
* * * * *
5100805 GCTGAGCGTAGTCGAACTCGAAGGTGTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGTTATGTT
130 GCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCT
5100870 ACAAATGA
195 ACAAATGA
5100878 ACACGATATC
Statistics
Matches: 384, Mismatches: 69, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
252 303 0.79
253 5 0.01
254 76 0.20
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (251 bp):
ATAGCCCTTCTTGCCTTGAGCTATGTTGTAAATGATGTGCCTTGAGCTGAGCGTAGTCGAACTCG
AAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAG
CTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTA
CAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTAGAAGGTCTTATATTAGCAA
Found at i:5101087 original size:124 final size:122
Alignment explanation
Indices: 5100879--5101244 Score: 556
Period size: 124 Copynumber: 3.0 Consensus size: 122
5100869 TACAAATGAA
* * *
5100879 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGAGGGCCTCTTCGTTGTGAAGTTGAGCCTTGA
1 CACGAT-TCCTTCGTCGTGAAGTTGAAACCGTGGATGGCC-CTTCGTTGTGAAGTTGGGCCTTGA
* *
5100944 ATTGGATA-TACTTCGTCGTGAAGTTGAAATCCAATCTGAAGATGAATGTTGCTGGTGGG
64 ATTGGATATTA-TTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAG
5101003 CACGATTCCTTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGGGCCTTGA
1 CACGATTCC-TTCGTCGTGAAGTTGAAACCGTGGATGGCCC-TTCGTTGTGAAGTTGGGCCTTGA
*
5101068 ATTGGATATTATTCATCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTAG-TGGTGAG
64 ATTGGATATTATTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTT-GCTGGTGAG
* * *
5101127 CACGATTCCCTTCATCGTGAAGTTAAAACCATGGATGGCCCCTTCGTTGTGAAGTTGGGCCTTGA
1 CACGATT-CCTTCGTCGTGAAGTTGAAACCGTGGATGG-CCCTTCGTTGTGAAGTTGGGCCTTGA
*
5101192 ATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCT
64 ATTGGATATTATTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCT
5101245 TCGAGTCTAA
Statistics
Matches: 224, Mismatches: 11, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
123 5 0.02
124 211 0.94
125 8 0.04
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (122 bp):
CACGATTCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCTTCGTTGTGAAGTTGGGCCTTGAAT
TGGATATTATTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAG
Found at i:5102621 original size:95 final size:94
Alignment explanation
Indices: 5102427--5102686 Score: 326
Period size: 95 Copynumber: 2.7 Consensus size: 94
5102417 TAGCTGGATG
* * * *
5102427 CATAAAGCCTGGGCATTTAACTAATTGCTCTAGAGGGACAACTCAATATCATTGTA-TATATATT
1 CATAAAGCC-GGGCTTTTAACCAATTGCTCTAGAGGGACAACTC-A-AGC-TT-TATTGTATATT
5102491 ATAATCACCTTTATCAGGCTAGCTGAATATTATC
61 ATAATCACCTTTATCAGGCTAGCTGAATATTATC
5102525 CATAAAGCCGAGGCTTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTATAA
1 CATAAAGCCG-GGCTTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTATAA
* * *
5102590 TCGCCTTTATCATGCTAGCTGAATCTTATC
65 TCACCTTTATCAGGCTAGCTGAATATTATC
* * * *
5102620 CATAAAGCCGGAG-TGTTTAACCAATTGTTTTAGAGAGACAGCTCAAGCTTTATTGTATATATAT
1 CATAAAGCCGG-GCT-TTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAT-TAT
5102684 AAT
63 AAT
5102687 ATTATAACCT
Statistics
Matches: 146, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
94 4 0.03
95 92 0.63
96 8 0.05
97 2 0.01
98 40 0.27
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (94 bp):
CATAAAGCCGGGCTTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTATAAT
CACCTTTATCAGGCTAGCTGAATATTATC
Found at i:5110627 original size:14 final size:15
Alignment explanation
Indices: 5110594--5110631 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
5110584 TTAAAAAATT
5110594 TATTTAAAATAAAAA
1 TATTTAAAATAAAAA
* *
5110609 TATTTAAAAT-TATA
1 TATTTAAAATAAAAA
5110623 TATTTAAAA
1 TATTTAAAA
5110632 AACTCTAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TATTTAAAATAAAAA
Found at i:5111161 original size:561 final size:570
Alignment explanation
Indices: 5110020--5111265 Score: 1351
Period size: 573 Copynumber: 2.2 Consensus size: 570
5110010 TACATTCATG
* *
5110020 TAAAATAAAAATA--AAAATTTATTTATTTAAAAAACACTAAAATTTTCAAAAATA--TTAAAAA
1 TAAAATAAAAATATTAAAA-TTATATATTTAAAAAACTCTAAAATTTT-AAAAATATTTTAAAAA
* * * * * *
5110081 ATTATCCAAACTTTAAAAATCCTAAATCTAATCCCTAAATCACCCGGATCTTTTTATTATTTATC
64 AATACCCAAACTTTGAAAATCCTAAATATAATCCCTAAATCACCC-GATCGTCTTA-TATTTATC
* * * * *
5110146 ATGTATGTGTTTGATACGTATTGTTTTGTGTATTACTGCATTTATTTTAGGAATAATTTACATAA
127 A-GTATGTGATT-ACACGTATTATTTTGTGTATTACTACATTTAGTTTAGGAATAATTTACATAA
* * * *
5110211 AAAATATATTATAATTTTATGTTTTTCATTAATTGTATATTGATATAATATTTTGTTGTACAATT
190 AAAATATAATATAATTTTATGTTTTTCATTAATTGTATATTGATATAACATCTTGTGGTACAATT
* * * *
5110276 CATACATGTTATATAAACAAATTAAAAAAATATATAGAATAAACACATAGTTACACCGATTGGGG
255 CATACATGTTATATAAACAAATTAAAAAAATATAGAGAATAAACACATAGTTACACAGATCGAGG
* * * *
5110341 TATGTGTATCCTAACATCGCAATACTTAAAAGTAGAGCATTCTTATACTAGTGTAAGTATACTTC
320 TATGTATATCCTAACATCACAATACTTAAAAGTAGAGCATTCTTATACAAGTGTAAATATACTTC
* ** *
5110406 TATTTTGTCTTAATTAGAAAACAAGGTCTCAAACTATACCACTTTCCCAAATAGGTATCTAAACT
385 TATTTTGTCATAATTAGAAAACAAAATCTCAAACTATAACACTTTCCCAAATAGGTATCTAAACT
* * *
5110471 TTTTTTCGATTCATTCAGGTGCCTAATGTTACAAATGTTACCATTTTAGGTGTCCGAACCGTTAT
450 TTTTTTCGATTCATCCAAGTGCCTAATGTTACAAACGTTACCATTTTAGGTGTCCGAACCGTTAT
* * * * *
5110536 AACCATTATATTCTAACTTTAAAGGATATATGTTGCTTTCATGTAATTTTAAAAAATTTATT
515 -ACC---AGAGTCTAA--TTAAAGGAAACATGTTGCGTTCATGTAATTTTAAAAAATTTATT
*
5110598 TAAAATAAAAATATTTAAAATTATATATTTAAAAAACTCTAACATTTTAAAAAATATTTTAAAAA
1 TAAAATAAAAATA-TTAAAATTATATATTTAAAAAACTCTAAAATTTT-AAAAATATTTTAAAAA
* * *
5110663 AATACCCAAACTTTGAAAATCCTAAATGTAATCCTTAAATCACCC-ATGGTCTTA-ATTTATC-G
64 AATACCCAAACTTTGAAAATCCTAAATATAATCCCTAAATCACCCGATCGTCTTATATTTATCAG
* * *
5110725 T-T-TGATT-CACGTATTATTTTGTGTTTTATTACATTTAGTTTAGGAATAATTTCCAT-AAAAA
129 TATGTGATTACACGTATTATTTTGTGTATTACTACATTTAGTTTAGGAATAATTTACATAAAAAA
* * *
5110786 TATAATAT-A-TTTATTTTTTTCATTAATTGTCATATATTTTGATGTAGCATCTTGTGGTACAAT
194 TATAATATAATTTTATGTTTTTCATTAATTG---TATA--TTGATATAACATCTTGTGGTACAAT
* * * * * *
5110849 TCATACGTGTTGTATAAATAAATTAAAAAAATGTAGA-AATAAACACATAGTTACACATATCGAT
254 TCATACATGTTATATAAACAAATTAAAAAAATATAGAGAATAAACACATAGTTACACAGATCGAG
* ** *
5110913 GTATGTATATCTCCTAATATCATGATACTTAAAAGTTGAGACATAT-TTATACAAGTGTAAATAT
319 GTATGTATA--TCCTAACATCACAATACTTAAAAGTAGAG-CAT-TCTTATACAAGTGTAAATAT
* * * * * * * *
5110977 ATTTCTGTTTTTTCATAATTAGAAAATAAAATCTCAAACTATAACGCTTTCTCAAATAGTTGTCT
380 ACTTCTATTTTGTCATAATTAGAAAACAAAATCTCAAACTATAACACTTTCCCAAATAGGTATCT
* * * * *
5111042 -AA-TTTTTTT-TATTTATCCAAGTGTCTAACT-TTACAAACGTTATCATTTTAGGTGTCCTAAC
445 AAACTTTTTTTCGATTCATCCAAGTGCCTAA-TGTTACAAACGTTACCATTTTAGGTGTCCGAAC
* **
5111103 CG-T-T-GC-GAGTCT-A-TAAAGGAAACATGTTGCGTTCATGTAATTTTAAAATTTTTATT
509 CGTTATACCAGAGTCTAATTAAAGGAAACATGTTGCGTTCATGTAATTTTAAAAAATTTATT
* *
5111159 TAAAATAAAAA-ATTAAAATTATATATTTAAGAAAACTCTAAAATTTT-CAATTATCTTT-AAAA
1 TAAAATAAAAATATTAAAATTATATATTTAA-AAAACTCTAAAATTTTAAAAATAT-TTTAAAAA
* * **
5111221 TATGCCCAAGTTTTGAAAATCCTAAATATAATCCCTAAATCACCC
64 AATACCCAAACTTTGAAAATCCTAAATATAATCCCTAAATCACCC
5111266 TTTGTTGTCT
Statistics
Matches: 569, Mismatches: 82, Indels: 54
0.81 0.12 0.08
Matches are distributed among these distances:
558 48 0.08
559 21 0.04
560 16 0.03
561 49 0.09
564 1 0.00
565 4 0.01
569 20 0.04
570 1 0.00
571 13 0.02
572 47 0.08
573 74 0.13
574 64 0.11
575 27 0.05
576 74 0.13
577 1 0.00
578 20 0.04
580 38 0.07
581 4 0.01
582 47 0.08
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.40
Consensus pattern (570 bp):
TAAAATAAAAATATTAAAATTATATATTTAAAAAACTCTAAAATTTTAAAAATATTTTAAAAAAA
TACCCAAACTTTGAAAATCCTAAATATAATCCCTAAATCACCCGATCGTCTTATATTTATCAGTA
TGTGATTACACGTATTATTTTGTGTATTACTACATTTAGTTTAGGAATAATTTACATAAAAAATA
TAATATAATTTTATGTTTTTCATTAATTGTATATTGATATAACATCTTGTGGTACAATTCATACA
TGTTATATAAACAAATTAAAAAAATATAGAGAATAAACACATAGTTACACAGATCGAGGTATGTA
TATCCTAACATCACAATACTTAAAAGTAGAGCATTCTTATACAAGTGTAAATATACTTCTATTTT
GTCATAATTAGAAAACAAAATCTCAAACTATAACACTTTCCCAAATAGGTATCTAAACTTTTTTT
CGATTCATCCAAGTGCCTAATGTTACAAACGTTACCATTTTAGGTGTCCGAACCGTTATACCAGA
GTCTAATTAAAGGAAACATGTTGCGTTCATGTAATTTTAAAAAATTTATT
Found at i:5112823 original size:13 final size:13
Alignment explanation
Indices: 5112805--5112901 Score: 78
Period size: 13 Copynumber: 7.5 Consensus size: 13
5112795 GTCATGAATC
5112805 TATGACGGACATT
1 TATGACGGACATT
5112818 TATGAC--ACGTATT
1 TATGACGGAC--ATT
* *
5112831 TATGATGCACATT
1 TATGACGGACATT
5112844 TATGACGCG-CATT
1 TATGACG-GACATT
*
5112857 TATGACACG-CATT
1 TATGAC-GGACATT
*
5112870 TATGACGCACATT
1 TATGACGGACATT
5112883 TATGACGTG-CATT
1 TATGACG-GACATT
5112896 TATGAC
1 TATGAC
5112902 ACTCATTGCG
Statistics
Matches: 69, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
11 2 0.03
13 65 0.94
15 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (13 bp):
TATGACGGACATT
Found at i:5112842 original size:26 final size:26
Alignment explanation
Indices: 5112805--5112908 Score: 109
Period size: 26 Copynumber: 4.0 Consensus size: 26
5112795 GTCATGAATC
* *
5112805 TATGACGGACATTTATGACACGTATT
1 TATGACGCACATTTATGACACGCATT
* *
5112831 TATGATGCACATTTATGACGCGCATT
1 TATGACGCACATTTATGACACGCATT
* * * *
5112857 TATGACACGCATTTATGACGCACATT
1 TATGACGCACATTTATGACACGCATT
** *
5112883 TATGACGTGCATTTATGACACTCATT
1 TATGACGCACATTTATGACACGCATT
5112909 GCGCGTCATT
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 66 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (26 bp):
TATGACGCACATTTATGACACGCATT
Found at i:5112848 original size:39 final size:39
Alignment explanation
Indices: 5112805--5112908 Score: 156
Period size: 39 Copynumber: 2.7 Consensus size: 39
5112795 GTCATGAATC
* *
5112805 TATGACG-GACATTTATGACACGTATTTATGATGCACATT
1 TATGACGCG-CATTTATGACACGCATTTATGACGCACATT
5112844 TATGACGCGCATTTATGACACGCATTTATGACGCACATT
1 TATGACGCGCATTTATGACACGCATTTATGACGCACATT
* *
5112883 TATGACGTGCATTTATGACACTCATT
1 TATGACGCGCATTTATGACACGCATT
5112909 GCGCGTCATT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
39 59 0.98
40 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (39 bp):
TATGACGCGCATTTATGACACGCATTTATGACGCACATT
Found at i:5113000 original size:85 final size:85
Alignment explanation
Indices: 5112905--5113093 Score: 249
Period size: 85 Copynumber: 2.2 Consensus size: 85
5112895 TTATGACACT
** *
5112905 CATTGCGCGTCATTGAAGACC-CCGTCATAAAT-TAAG-ATGACACACATTTGTATGTCATAAAT
1 CATTGCGCGTCATTGAAG-CCTCCACCATAAATCT--GTATGACACACATTTCTATGTCATAAAT
5112967 TTATGACACGCATGTATAACTTA
63 TTATGACACGCATGTATAACTTA
* * * *
5112990 CATTGAGCGTCATTGAAGCCTCCACCATAAATCTGTTTGACATACATTTCTGTGTCATAAATTTA
1 CATTGCGCGTCATTGAAGCCTCCACCATAAATCTGTATGACACACATTTCTATGTCATAAATTTA
*
5113055 TGACACGCATGTATGACTTA
66 TGACACGCATGTATAACTTA
*
5113075 CATTGCGTGTCATTGAAGC
1 CATTGCGCGTCATTGAAGC
5113094 ACACATCATT
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
84 3 0.03
85 87 0.96
86 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (85 bp):
CATTGCGCGTCATTGAAGCCTCCACCATAAATCTGTATGACACACATTTCTATGTCATAAATTTA
TGACACGCATGTATAACTTA
Found at i:5116987 original size:15 final size:15
Alignment explanation
Indices: 5116967--5117008 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
5116957 TTCTTTTTCC
*
5116967 TTCTTTGATATTTTA
1 TTCTTTGACATTTTA
*
5116982 TTCTTTGACATTTTC
1 TTCTTTGACATTTTA
*
5116997 TTCTTAGACATT
1 TTCTTTGACATT
5117009 GTCTTCTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.19, C:0.14, G:0.07, T:0.60
Consensus pattern (15 bp):
TTCTTTGACATTTTA
Found at i:5117013 original size:15 final size:15
Alignment explanation
Indices: 5116982--5117017 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
5116972 TGATATTTTA
* *
5116982 TTCTTTGACATTTTC
1 TTCTTAGACATTGTC
5116997 TTCTTAGACATTGTC
1 TTCTTAGACATTGTC
5117012 TTCTTA
1 TTCTTA
5117018 CCCCATGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.19, G:0.08, T:0.56
Consensus pattern (15 bp):
TTCTTAGACATTGTC
Found at i:5119576 original size:20 final size:21
Alignment explanation
Indices: 5119546--5119590 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
5119536 CCCTTATAAA
*
5119546 ATTTCCTTAACTTATTATTAT
1 ATTTCCTTAACTTAATATTAT
5119567 ATTT-CTTAACTTAATATTAT
1 ATTTCCTTAACTTAATATTAT
5119587 ATTT
1 ATTT
5119591 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTCCTTAACTTAATATTAT
Found at i:5122365 original size:15 final size:14
Alignment explanation
Indices: 5122330--5122368 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
5122320 TTTTTGACTA
*
5122330 TTTTTCACTGTTTTT
1 TTTTTC-CTTTTTTT
5122345 TTTTTCCTTTTTTT
1 TTTTTCCTTTTTTT
5122359 TTGTTTCCTT
1 TT-TTTCCTT
5122369 GACATCATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.77
Consensus pattern (14 bp):
TTTTTCCTTTTTTT
Found at i:5122568 original size:21 final size:21
Alignment explanation
Indices: 5122542--5122600 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
5122532 AAAGGAGTGG
5122542 AAATAGATGAATTACCTTGGA
1 AAATAGATGAATTACCTTGGA
*
5122563 AAATAGATGAATTACCTTGGT
1 AAATAGATGAATTACCTTGGA
* * *
5122584 TAGTAGATGAAATACCT
1 AAATAGATGAATTACCT
5122601 GGTAAGTGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.31
Consensus pattern (21 bp):
AAATAGATGAATTACCTTGGA
Found at i:5122887 original size:19 final size:21
Alignment explanation
Indices: 5122863--5122904 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
5122853 TGGTATGTAC
5122863 AAATGAGA-G-TGTTGTGGAA
1 AAATGAGAGGATGTTGTGGAA
5122882 AAATGAGATGGATGTTGTGGAA
1 AAATGAGA-GGATGTTGTGGAA
5122904 A
1 A
5122905 TGAAATGGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
21 1 0.05
22 11 0.55
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (21 bp):
AAATGAGAGGATGTTGTGGAA
Found at i:5122907 original size:20 final size:21
Alignment explanation
Indices: 5122863--5122912 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
5122853 TGGTATGTAC
5122863 AAATGAGAGTGTTGTGGAAAAATG
1 AAATG-GA-TGTTGTGG-AAAATG
*
5122887 AGATGGATGTTGTGG-AAATG
1 AAATGGATGTTGTGGAAAATG
5122907 AAATGG
1 AAATGG
5122913 TGGTATGGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 10 0.42
22 8 0.33
23 2 0.08
24 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (21 bp):
AAATGGATGTTGTGGAAAATG
Found at i:5135768 original size:42 final size:42
Alignment explanation
Indices: 5135722--5135803 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
5135712 AACGAGAATT
* **
5135722 CAAGGAAGAAGAAGTATGTAAAATCTTTTAATCCTACTAATG
1 CAAGGAAGAAAAAGTATACAAAATCTTTTAATCCTACTAATG
5135764 CAAGGAAGAAAAAGTATACAAAATCTTTTAATCCTACTAA
1 CAAGGAAGAAAAAGTATACAAAATCTTTTAATCCTACTAA
5135804 AACAAGGATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.27
Consensus pattern (42 bp):
CAAGGAAGAAAAAGTATACAAAATCTTTTAATCCTACTAATG
Found at i:5153590 original size:2 final size:2
Alignment explanation
Indices: 5153583--5153614 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5153573 GATTATTAGA
5153583 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5153615 TGAAACAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5159203 original size:23 final size:24
Alignment explanation
Indices: 5159150--5159204 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
5159140 AAAATCAGCA
*
5159150 AAGAAAAGTCAAGCACTCCAAAAG
1 AAGAAAAGTCAAGCACTCAAAAAG
*
5159174 AAGAAAAGTTAAGCACTCAAAAAG
1 AAGAAAAGTCAAGCACTCAAAAAG
*
5159198 AAAAAAA
1 AAGAAAA
5159205 AAGAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.62, C:0.15, G:0.15, T:0.09
Consensus pattern (24 bp):
AAGAAAAGTCAAGCACTCAAAAAG
Found at i:5159211 original size:9 final size:10
Alignment explanation
Indices: 5159192--5159231 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
5159182 TTAAGCACTC
5159192 AAAAAGAAAA
1 AAAAAGAAAA
5159202 AAAAAGAAAA
1 AAAAAGAAAA
5159212 AAAAA-AGAAA
1 AAAAAGA-AAA
*
5159222 AGAAAGAAAA
1 AAAAAGAAAA
5159232 GTTGAAGCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 1 0.04
10 25 0.93
11 1 0.04
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:5159212 original size:11 final size:11
Alignment explanation
Indices: 5159192--5159222 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
5159182 TTAAGCACTC
5159192 AAAAAG-AAAA
1 AAAAAGAAAAA
5159202 AAAAAGAAAAA
1 AAAAAGAAAAA
5159213 AAAAAGAAAA
1 AAAAAGAAAA
5159223 GAAAGAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.30
11 14 0.70
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:5159231 original size:16 final size:15
Alignment explanation
Indices: 5159194--5159231 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
5159184 AAGCACTCAA
5159194 AAAG-AAAAAAAAAG
1 AAAGAAAAAAAAAAG
*
5159208 AAAAAAAAAAGAAAAG
1 AAAGAAAAAA-AAAAG
5159224 AAAGAAAA
1 AAAGAAAA
5159232 GTTGAAGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 3 0.15
15 5 0.25
16 12 0.60
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAAAAG
Found at i:5164401 original size:21 final size:21
Alignment explanation
Indices: 5164338--5164401 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
5164328 AAAGTATAAG
*
5164338 GAAACTAGCTCGAGAGTAGCT
1 GAAACTAGCTGGAGAGTAGCT
* * * *
5164359 G-AAGTAGTTGAACG-GGAGCT
1 GAAACTAGCTGGA-GAGTAGCT
5164379 GAAACTAGCTGGAGAGTAGCT
1 GAAACTAGCTGGAGAGTAGCT
5164400 GA
1 GA
5164402 GGAGCTCGTA
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.33, C:0.14, G:0.34, T:0.19
Consensus pattern (21 bp):
GAAACTAGCTGGAGAGTAGCT
Found at i:5165697 original size:19 final size:21
Alignment explanation
Indices: 5165673--5165720 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
5165663 GATAATTTAA
5165673 AAATAA-T-ATTATTTCAAAT
1 AAATAATTAATTATTTCAAAT
5165692 AAATAATTAAAATTATTTCAAAT
1 AAATAATT--AATTATTTCAAAT
5165715 AAATAA
1 AAATAA
5165721 ATAACATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.24
20 1 0.04
23 18 0.72
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATAATTAATTATTTCAAAT
Found at i:5165743 original size:21 final size:20
Alignment explanation
Indices: 5165718--5165756 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5165708 TTCAAATAAA
5165718 TAAATAACATATTTTAAAAAT
1 TAAAT-ACATATTTTAAAAAT
*
5165739 TAAATAGATATTTTAAAA
1 TAAATACATATTTTAAAA
5165757 CATCTTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
TAAATACATATTTTAAAAAT
Found at i:5165749 original size:20 final size:20
Alignment explanation
Indices: 5165652--5165756 Score: 63
Period size: 23 Copynumber: 5.2 Consensus size: 20
5165642 AATATTATTT
* *
5165652 AAAATTAAATAGATAATTT-
1 AAAAATAAATAGATATTTTA
* *
5165671 AAAAAT-AATA-TTATTTCA
1 AAAAATAAATAGATATTTTA
* * *
5165689 AATAAATAATTAAAATTATTTCA
1 AA-AAATAAAT-AGA-TATTTTA
*
5165712 AATAAATAAATAACATATTTTA
1 AA-AAATAAAT-AGATATTTTA
*
5165734 AAAATTAAATAGATATTTTA
1 AAAAATAAATAGATATTTTA
5165754 AAA
1 AAA
5165757 CATCTTCATA
Statistics
Matches: 69, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
17 4 0.06
18 6 0.09
19 9 0.13
20 14 0.20
21 8 0.12
22 8 0.12
23 20 0.29
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAAATAAATAGATATTTTA
Found at i:5166462 original size:19 final size:19
Alignment explanation
Indices: 5166420--5166467 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
5166410 TTCAAATTTT
*
5166420 ATTTTTAAAATTATAAATAT
1 ATTTTT-AAATTATAAATAA
**
5166440 ATTTTTAAATTATATTTAA
1 ATTTTTAAATTATAAATAA
*
5166459 ATTTATAAA
1 ATTTTTAAA
5166468 ACAAATCTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTTTAAATTATAAATAA
Found at i:5167095 original size:5 final size:6
Alignment explanation
Indices: 5167078--5167103 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
5167068 ACTCCTTTTG
5167078 CTCCCC CTCCCC CTCCCC CTCCCC CT
1 CTCCCC CTCCCC CTCCCC CTCCCC CT
5167104 TCTTTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.81, G:0.00, T:0.19
Consensus pattern (6 bp):
CTCCCC
Found at i:5174832 original size:14 final size:15
Alignment explanation
Indices: 5174800--5174837 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
5174790 CCCTGTTTTA
*
5174800 TTTAATTTTTGTATG
1 TTTAATTTTAGTATG
5174815 TTTAATTTTAGTAT-
1 TTTAATTTTAGTATG
5174829 TTT-ATTTTA
1 TTTAATTTTA
5174838 TGATATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.27
14 3 0.14
15 13 0.59
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (15 bp):
TTTAATTTTAGTATG
Found at i:5174844 original size:15 final size:14
Alignment explanation
Indices: 5174798--5174857 Score: 54
Period size: 14 Copynumber: 4.3 Consensus size: 14
5174788 CTCCCTGTTT
*
5174798 TATTTAATTTT-TG
1 TATTTTATTTTATG
5174811 TATGTTTAATTTTA-G
1 TAT-TTT-ATTTTATG
5174826 TATTTTATTTTATG
1 TATTTTATTTTATG
*
5174840 -ATATTTATTTCATG
1 TAT-TTTATTTTATG
5174854 TATT
1 TATT
5174858 CCATATTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
13 11 0.28
14 17 0.44
15 11 0.28
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.65
Consensus pattern (14 bp):
TATTTTATTTTATG
Found at i:5183890 original size:19 final size:19
Alignment explanation
Indices: 5183845--5183882 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
5183835 TTTTGTTATA
5183845 AAGTAATGTCGTTTGGATT
1 AAGTAATGTCGTTTGGATT
5183864 AAGTAATGTCGTTTGGATT
1 AAGTAATGTCGTTTGGATT
5183883 GAAGAATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.42
Consensus pattern (19 bp):
AAGTAATGTCGTTTGGATT
Found at i:5186607 original size:8 final size:8
Alignment explanation
Indices: 5186594--5186812 Score: 159
Period size: 7 Copynumber: 29.0 Consensus size: 8
5186584 GAAGAAAAGG
*
5186594 AAAAATTA
1 AAAAATGA
5186602 AAAAATGA
1 AAAAATGA
5186610 AAAAATG-
1 AAAAATGA
5186617 AAAAATG-
1 AAAAATGA
5186624 AAAAATG-
1 AAAAATGA
5186631 AAAAATG-
1 AAAAATGA
5186638 AAAAATGA
1 AAAAATGA
5186646 AAAAA-GA
1 AAAAATGA
5186653 AGAAAATG-
1 A-AAAATGA
5186661 AAAAATGTA
1 AAAAATG-A
*
5186670 AAGAAT-A
1 AAAAATGA
5186677 AAAAA-G-
1 AAAAATGA
* * *
5186683 GAAAAGGG
1 AAAAATGA
5186691 AAAAAT-A
1 AAAAATGA
*
5186698 AAAAA-GG
1 AAAAATGA
**
5186705 AAAAGGGAA
1 AAAAATG-A
5186714 AAAAATGA
1 AAAAATGA
5186722 AAAAATGA
1 AAAAATGA
5186730 AAAAA--A
1 AAAAATGA
**
5186736 AAATTTGAA
1 AAAAATG-A
5186745 AAAAATGA
1 AAAAATGA
5186753 AAAAATG-
1 AAAAATGA
5186760 AAAAA--A
1 AAAAATGA
*
5186766 AAAATTGAA
1 AAAAATG-A
5186775 AAAAATGA
1 AAAAATGA
5186783 AAAAATGA
1 AAAAATGA
5186791 AAAAA-GA
1 AAAAATGA
*
5186798 AGAAA-GA
1 AAAAATGA
5186805 AAAAATGA
1 AAAAATGA
5186813 TGAAAAAAAG
Statistics
Matches: 172, Mismatches: 20, Indels: 38
0.75 0.09 0.17
Matches are distributed among these distances:
6 12 0.07
7 69 0.40
8 67 0.39
9 24 0.14
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (8 bp):
AAAAATGA
Found at i:5186629 original size:30 final size:30
Alignment explanation
Indices: 5186588--5186833 Score: 160
Period size: 30 Copynumber: 8.4 Consensus size: 30
5186578 CTTGAAGAAG
*
5186588 AAAAGGAAAAATTAAAAAATGAAAAAATGA
1 AAAAAGAAAAATTAAAAAATGAAAAAATGA
* *
5186618 AAAATGAAAAA-TGAAAAATG-AAAAATGA
1 AAAAAGAAAAATTAAAAAATGAAAAAATGA
* * *
5186646 AAAAAGAAGAAAATGAAAAATGTAAAGAAT-A
1 AAAAAGAA-AAATTAAAAAATG-AAAAAATGA
* ***
5186677 AAAAAGGAAAAGGGAAAAAT-AAAAAA-G-
1 AAAAAGAAAAATTAAAAAATGAAAAAATGA
* **
5186704 GAAAAG--GGA--AAAAAATGAAAAAATGA
1 AAAAAGAAAAATTAAAAAATGAAAAAATGA
*
5186730 AAAAA-AAAATTTGAAAAAAATGAAAAAATG-
1 AAAAAGAAAAATT--AAAAAATGAAAAAATGA
5186760 AAAAA-AAAAATTGAAAAAAATGAAAAAATGA
1 AAAAAGAAAAATT--AAAAAATGAAAAAATGA
** *
5186791 AAAAAGAAGAAAGAAAAAATGATGAAAAAAAG-
1 AAAAAGAA-AAATTAAAAA--ATGAAAAAATGA
5186823 AAAAAGAAAAA
1 AAAAAGAAAAA
5186834 GAAATAAAAG
Statistics
Matches: 177, Mismatches: 20, Indels: 37
0.76 0.09 0.16
Matches are distributed among these distances:
23 6 0.03
24 6 0.03
25 2 0.01
26 4 0.02
27 5 0.03
28 20 0.11
29 11 0.06
30 58 0.33
31 37 0.21
32 15 0.08
33 13 0.07
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (30 bp):
AAAAAGAAAAATTAAAAAATGAAAAAATGA
Done.