Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000467.1 Hibiscus syriacus cultivar Beakdansim tig00000865_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: 84295
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:998 original size:80 final size:81
Alignment explanation
Indices: 842--1074 Score: 339
Period size: 80 Copynumber: 2.9 Consensus size: 81
832 TTTTAAGGTG
* *
842 AAAGATTAAA-GCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
1 AAAGATTAAATGCCTAGCTGTGCATTTGACAAAAAGGTGTCAATTATGCAAGTTAGATGAAAGGT
*
906 TAAATATC-TTGAGTT
66 TAAATACCTTTGAGTT
* * * *
921 AAAGATTAAATGCCTAGTTGTGCATTTGACATAAAGGTG-CAATTATGAAAGTTAGATAAAAGGT
1 AAAGATTAAATGCCTAGCTGTGCATTTGACAAAAAGGTGTCAATTATGCAAGTTAGATGAAAGGT
985 TAAATACCTTTGAGTT
66 TAAATACCTTTGAGTT
* * *
1001 AAAGATTAAATGACTAGCTATGCATTTGACAAAAAAGTGTCAATTATGCCAA-TTAGATGAAAGG
1 AAAGATTAAATGCCTAGCTGTGCATTTGACAAAAAGGTGTCAATTATG-CAAGTTAGATGAAAGG
1065 TTAAATACCT
65 TTAAATACCT
1075 AGATGTGCAT
Statistics
Matches: 137, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 39 0.28
80 67 0.49
81 29 0.21
82 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (81 bp):
AAAGATTAAATGCCTAGCTGTGCATTTGACAAAAAGGTGTCAATTATGCAAGTTAGATGAAAGGT
TAAATACCTTTGAGTT
Found at i:1087 original size:59 final size:58
Alignment explanation
Indices: 1021--1132 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
1011 TGACTAGCTA
*
1021 TGCATTTGACAAAAAAGTGTCAATTATGCCAATTAGATGAAAGGTTAAATACCTAGATG
1 TGCATTTGA-AAAAAAGTGTCAATTATACCAATTAGATGAAAGGTTAAATACCTAGATG
* * * * *
1080 TGCATTTGATAGAAAGTGTCAATTATACTAGTTAGATGAAATGTTAAATACCT
1 TGCATTTGAAAAAAAGTGTCAATTATACCAATTAGATGAAAGGTTAAATACCT
1133 TTGAGTTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
58 38 0.81
59 9 0.19
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (58 bp):
TGCATTTGAAAAAAAGTGTCAATTATACCAATTAGATGAAAGGTTAAATACCTAGATG
Found at i:1180 original size:139 final size:138
Alignment explanation
Indices: 921--1212 Score: 426
Period size: 139 Copynumber: 2.1 Consensus size: 138
911 ATCTTGAGTT
* * * *
921 AAAGATTAAATGCCTAGTTGTGCATTTGACATAAAGGTGCAATTATGAAAGTTAGATAAAAGGTT
1 AAAGGTTAAATACCTAGATGTGCATTTGACAGAAAGGTGCAATTATGAAAGTTAGATAAAAGGTT
986 AAATACCTTTGAGTTAAAGATTAAATGACTAGCTATGCATTTGACAAAAAAGTGTCAATTATGCC
66 AAATACCTTTGAGTTAAAGATTAAATGACTAGCTATGCATTTGACAAAAAAGTGTCAATTATG-C
1051 AATTAGATG
130 AATTAGATG
* * * *
1060 AAAGGTTAAATACCTAGATGTGCATTTGATAGAAA-GTGTCAATTAT-ACTAGTTAGATGAAATG
1 AAAGGTTAAATACCTAGATGTGCATTTGACAGAAAGGTG-CAATTATGA-AAGTTAGATAAAAGG
* * * *
1123 TTAAATACCTTTGAGTTAAAGATTAAATGTCTAGCTGTGCATTTGACATAAAGGTGTCAATTATG
64 TTAAATACCTTTGAGTTAAAGATTAAATGACTAGCTATGCATTTGACAAAAAAGTGTCAATTATG
*
1188 CAGTTAGATG
129 CAATTAGATG
1198 AAAGGTTAAATACCT
1 AAAGGTTAAATACCT
1213 TTGAGTTAAA
Statistics
Matches: 138, Mismatches: 13, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
138 28 0.20
139 110 0.80
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (138 bp):
AAAGGTTAAATACCTAGATGTGCATTTGACAGAAAGGTGCAATTATGAAAGTTAGATAAAAGGTT
AAATACCTTTGAGTTAAAGATTAAATGACTAGCTATGCATTTGACAAAAAAGTGTCAATTATGCA
ATTAGATG
Found at i:1198 original size:80 final size:81
Alignment explanation
Indices: 1060--1623 Score: 755
Period size: 80 Copynumber: 7.2 Consensus size: 81
1050 CAATTAGATG
* * * * * * *
1060 AAAGGTTAAATACCTAGATGTGCATTTGATAGAAA-GTGTCAATTATACTAGTTAGATGAAATGT
1 AAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
1124 TAAATACCTTTGAGTT
66 TAAATACCTTTGAGTT
* *
1140 AAAGATTAAATGTCTAGCTGTGCATTTGACATAAAGGTGTCAATTATG-CAGTTAGATGAAAGGT
1 AAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
1204 TAAATACCTTTGAGTT
66 TAAATACCTTTGAGTT
* *
1220 AAAGATTAAATGCCTAG-T-T--A--T-ATA-AAA-GTGTCAA-TATGCCAATTAGATG-AAGGT
1 AAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
1274 TAAATACCTTTGAGTT
66 TAAATACCTTTGAGTT
* * * *
1290 AAAGATTAAATG-CTAGCTGTGCATTTCACAAAAAGGTGTTAATTATGCCAGTTAGGTGAAAGGT
1 AAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
1354 TAAATACCTTTGAGTT
66 TAAATACCTTTGAGTT
* *
1370 AAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAAATGT
1 AAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
*
1435 TAAATACTTTTGAGTT
66 TAAATACCTTTGAGTT
* * *
1451 AAAGATTAAATGCCTAGCTGCGCA-TTGATAGAAAGGTGTCAATTATGCAAGTTAGATGAAAGGT
1 AAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
1515 T-AATACCTTTGAGTT
66 TAAATACCTTTGAGTT
* * * *
1530 AAAGATTAAATGCCTAGCCGTGCATTTGGCAGAAAGGTGCCAATCATGCCAGTTAGATGAAAGGT
1 AAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
* * *
1595 TAAATGCCTATGAGTA
66 TAAATACCTTTGAGTT
*
1611 AAAGTTTAAATGC
1 AAAGATTAAATGC
1624 TTAACAGTGA
Statistics
Matches: 428, Mismatches: 40, Indels: 31
0.86 0.08 0.06
Matches are distributed among these distances:
69 4 0.01
70 38 0.09
71 17 0.04
72 3 0.01
73 3 0.01
74 1 0.00
75 1 0.00
76 3 0.01
77 3 0.01
78 7 0.02
79 49 0.11
80 181 0.42
81 118 0.28
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (81 bp):
AAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
TAAATACCTTTGAGTT
Found at i:1437 original size:81 final size:81
Alignment explanation
Indices: 1247--1623 Score: 548
Period size: 81 Copynumber: 4.7 Consensus size: 81
1237 TTATATAAAA
*
1247 GTGTCAA-TATGCCAATTAGATG-AAGGTTAAATACCTTTGAGTTAAAGATTAAATG-CTAGCTG
1 GTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTTAAAGATTAAATGCCTAGCTG
* *
1309 TGCATTTCACAAAAAG
66 TGCATTTGACAGAAAG
* *
1325 GTGTTAATTATGCCAGTTAGGTGAAAGGTTAAATACCTTTGAGTTAAAGATTAAATGCCTAGCTG
1 GTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTTAAAGATTAAATGCCTAGCTG
1390 TGCATTTGACAGAAAG
66 TGCATTTGACAGAAAG
* * *
1406 ATGTCAATTATGCCAGTTAGATGAAATGTTAAATACTTTTGAGTTAAAGATTAAATGCCTAGCTG
1 GTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTTAAAGATTAAATGCCTAGCTG
* *
1471 CGCA-TTGATAGAAAG
66 TGCATTTGACAGAAAG
* *
1486 GTGTCAATTATGCAAGTTAGATGAAAGGTT-AATACCTTTGAGTTAAAGATTAAATGCCTAGCCG
1 GTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTTAAAGATTAAATGCCTAGCTG
*
1550 TGCATTTGGCAGAAAG
66 TGCATTTGACAGAAAG
* * * * * *
1566 GTGCCAATCATGCCAGTTAGATGAAAGGTTAAATGCCTATGAGTAAAAGTTTAAATGC
1 GTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTTAAAGATTAAATGC
1624 TTAACAGTGA
Statistics
Matches: 267, Mismatches: 27, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
78 6 0.02
79 48 0.18
80 106 0.40
81 107 0.40
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (81 bp):
GTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTTAAAGATTAAATGCCTAGCTG
TGCATTTGACAGAAAG
Found at i:4224 original size:65 final size:63
Alignment explanation
Indices: 4146--4305 Score: 205
Period size: 65 Copynumber: 2.5 Consensus size: 63
4136 AATTAAATTG
*
4146 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCACCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACA-ACCATGCACCGATGCACTGAGGATATTT-TG-
4210 A
63 A
* * ** *
4211 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTTTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAACCATGCACCGATGCACTGAGGATATTTTGA
* *
4275 AACATCGAATACACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
4306 GCTTAGTGTA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
63 1 0.01
64 29 0.34
65 50 0.59
66 5 0.06
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAACCATGCACCGATGCACTGAGGATATTTTGA
Found at i:10135 original size:24 final size:24
Alignment explanation
Indices: 10103--10183 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 24
10093 ACACTTAATA
10103 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCATCCCTTTGAAT
* *
10127 GTGCATCGATTCAT-CATGTTG-A-
1 GTGCATCGATGCATCCCT-TTGAAT
*
10149 -TGCACCGATGCA-CGCC-TTGAAT
1 GTGCATCGATGCATC-CCTTTGAAT
10171 GTGCATCGATGCA
1 GTGCATCGATGCA
10184 CCTGGTCATG
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
20 3 0.07
21 11 0.24
22 1 0.02
23 14 0.31
24 16 0.36
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (24 bp):
GTGCATCGATGCATCCCTTTGAAT
Found at i:12931 original size:65 final size:64
Alignment explanation
Indices: 12751--12960 Score: 230
Period size: 65 Copynumber: 3.2 Consensus size: 64
12741 TTTTTCAGAG
* **
12751 TGATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGAATTAAATTG-AACATCGAATGCA
1 TGATGCATCGATGCACCAA-CCATGCATCGATGCACTC-TGAA-TATTTTGAAACATCGAATGCA
12814 TT
63 TT
* * **
12816 TCATGCATCGATGCA-CATACCATGCACCGATGCACTGAGAAT-TTTATGAAAACATCGAATGCA
1 TGATGCATCGATGCACCA-ACCATGCATCGATGCACTCTGAATATTT-TG-AAACATCGAATGCA
12879 TT
63 TT
** * *
12881 TGATGCATCGATGCACCAACCATGCATCGATGCACTCTGGCTATTTTGAAACATAGAATGCACT
1 TGATGCATCGATGCACCAACCATGCATCGATGCACTCTGAATATTTTGAAACATCGAATGCATT
*
12945 TGATCCATCGATGCAC
1 TGATGCATCGATGCAC
12961 GCTTAGTGCA
Statistics
Matches: 122, Mismatches: 16, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
62 1 0.01
63 3 0.02
64 49 0.40
65 64 0.52
66 5 0.04
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (64 bp):
TGATGCATCGATGCACCAACCATGCATCGATGCACTCTGAATATTTTGAAACATCGAATGCATT
Found at i:16433 original size:18 final size:19
Alignment explanation
Indices: 16400--16438 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
16390 TTAGGGAAAT
*
16400 CTGATGTGCGGTATCGATA
1 CTGATGTGCAGTATCGATA
*
16419 CTGATGTG-AGTATCGTTA
1 CTGATGTGCAGTATCGATA
16437 CT
1 CT
16439 ATGAGAAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.36
Consensus pattern (19 bp):
CTGATGTGCAGTATCGATA
Found at i:17079 original size:81 final size:81
Alignment explanation
Indices: 16936--17335 Score: 543
Period size: 81 Copynumber: 4.9 Consensus size: 81
16926 TTTTAAGATG
* * * * *
16936 AAAGATTAAATGCCTAGCTGTGCCTTTGATATAAAGGTGTCAATTATGCCAGTTAGAAGAAAGGT
1 AAAGATTAAATGCCTAGATGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGT
* *
17001 TAAATAACTTTGAGAT
66 TAAATACCTTTGAGTT
* *
17017 AAATATTAAATGCCTAGATGTGCATTTGACA-AATATGTGTCAATTATGCCAGTTAGATGAAAGG
1 AAAGATTAAATGCCTAGATGTGCATTTGATAGAA-ATGTGTCAATTATGCCAGTTAGATGAAAGG
* *
17081 TTAACTACCATTGAGTT
65 TTAAATACCTTTGAGTT
17098 AAAGATTAAATGCCTA-ACTGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTAGATGAAAGG
1 AAAGATTAAATGCCTAGA-TGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTAGATGAAAGG
17162 TTAAATACCTTTGAGTT
65 TTAAATACCTTTGAGTT
* * * * * * * * *
17179 AAATATTAAATCCCTTGTTATGTATTTGACAGAAATATGTCAATTATGCCAGTTAGATGAAATGT
1 AAAGATTAAATGCCTAGATGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGT
*
17244 TAAATACATTTGAGTT
66 TAAATACCTTTGAGTT
* * *
17260 AAAGATTAAATGTCTAGCTGTGCATTTGATAGAAATGTGTCAATTATGCCAATTAGATGAAAGGT
1 AAAGATTAAATGCCTAGATGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGT
*
17325 CAAATACCTTT
66 TAAATACCTTT
17336 ACCTAGTTGT
Statistics
Matches: 278, Mismatches: 37, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
80 3 0.01
81 273 0.98
82 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (81 bp):
AAAGATTAAATGCCTAGATGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGT
TAAATACCTTTGAGTT
Found at i:17208 original size:162 final size:162
Alignment explanation
Indices: 16936--17580 Score: 815
Period size: 162 Copynumber: 4.1 Consensus size: 162
16926 TTTTAAGATG
* * *
16936 AAAGATTAAATGCCTAGCTGTGCCTTTGATATAAAGGTGTCAATTATGCCAGTTAGAAGAAAGGT
1 AAAGATTAAATGCCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
* * * *
17001 TAAATAACTTTGAGATAAATATTAAATGCCTAGATGTGCATTTGACA-AATATGTGTCAATTATG
66 TAAATACCTTTGAGTTAAATATTAAATGCCTAGTTGTGTATTTGACAGAA-ATGTGTCAATTATG
*
17065 CCAGTTAGATGAAAGGTTAACTACCATTGAGTT
130 CCAGTTAGATGAAAGGTTAAATACCATTGAGTT
* *
17098 AAAGATTAAATGCCTAACTGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGT
1 AAAGATTAAATGCCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
* * * *
17163 TAAATACCTTTGAGTTAAATATTAAATCCCTTGTTATGTATTTGACAGAAATATGTCAATTATGC
66 TAAATACCTTTGAGTTAAATATTAAATGCCTAGTTGTGTATTTGACAGAAATGTGTCAATTATGC
*
17228 CAGTTAGATGAAATGTTAAATA-CATTTGAGTT
131 CAGTTAGATGAAAGGTTAAATACCA-TTGAGTT
* * *
17260 AAAGATTAAATGTCTAGCTGTGCATTTGATAGAAATGTGTCAATTATGCCAATTAGATGAAAGGT
1 AAAGATTAAATGCCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
* *
17325 CAAATACC-----------T-TT--A--CCTAGTTGTGTATTTGACA-AAAAGATGTCAATTATG
66 TAAATACCTTTGAGTTAAATATTAAATGCCTAGTTGTGTATTTGACAGAAATG-TGTCAATTATG
* * *
17373 CTAGTTAGATGAAAGGTTAAGTACCTTTGAGTT
130 CCAGTTAGATGAAAGGTTAAATACCATTGAGTT
*
17406 AAAGATTAAATGCCTAGCTGTGCATTTGATAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
1 AAAGATTAAATGCCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
* * ** * * *
17471 TAAATACCTTTGAGTTAAAGATTAAATGCCTAGCTGTGTATTTGGTAGAAAGGTGCCAATCATGC
66 TAAATACCTTTGAGTTAAATATTAAATGCCTAGTTGTGTATTTGACAGAAATGTGTCAATTATGC
* * * *
17536 CAGTTAGATAAAAGGTTAAATGCCTTTGAGTA
131 CAGTTAGATGAAAGGTTAAATACCATTGAGTT
17568 AAAGATTAAATGC
1 AAAGATTAAATGC
17581 TTAACAGTGT
Statistics
Matches: 418, Mismatches: 44, Indels: 42
0.83 0.09 0.08
Matches are distributed among these distances:
145 3 0.01
146 123 0.29
147 1 0.00
148 1 0.00
150 2 0.00
151 1 0.00
158 2 0.00
160 1 0.00
161 2 0.00
162 276 0.66
163 6 0.01
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (162 bp):
AAAGATTAAATGCCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
TAAATACCTTTGAGTTAAATATTAAATGCCTAGTTGTGTATTTGACAGAAATGTGTCAATTATGC
CAGTTAGATGAAAGGTTAAATACCATTGAGTT
Found at i:17463 original size:146 final size:146
Alignment explanation
Indices: 17199--17481 Score: 467
Period size: 146 Copynumber: 1.9 Consensus size: 146
17189 TCCCTTGTTA
* * *
17199 TGTATTTGACAGAAATATGTCAATTATGCCAGTTAGATGAAATGTTAAATACATTTGAGTTAAAG
1 TGTATTTGACAAAAAGATGTCAATTATGCCAGTTAGATGAAAGGTTAAATACATTTGAGTTAAAG
* * *
17264 ATTAAATGTCTAGCTGTGCATTTGATAGAAATGTGTCAATTATGCCAATTAGATGAAAGGTCAAA
66 ATTAAATGCCTAGCTGTGCATTTGATAAAAAGGTGTCAATTATGCCAATTAGATGAAAGGTCAAA
17329 TACCTTTACCTAGTTG
131 TACCTTTACCTAGTTG
* * *
17345 TGTATTTGACAAAAAGATGTCAATTATGCTAGTTAGATGAAAGGTTAAGTACCTTTGAGTTAAAG
1 TGTATTTGACAAAAAGATGTCAATTATGCCAGTTAGATGAAAGGTTAAATACATTTGAGTTAAAG
* *
17410 ATTAAATGCCTAGCTGTGCATTTGATAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAA
66 ATTAAATGCCTAGCTGTGCATTTGATAAAAAGGTGTCAATTATGCCAATTAGATGAAAGGTCAAA
17475 TACCTTT
131 TACCTTT
17482 GAGTTAAAGA
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
146 126 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (146 bp):
TGTATTTGACAAAAAGATGTCAATTATGCCAGTTAGATGAAAGGTTAAATACATTTGAGTTAAAG
ATTAAATGCCTAGCTGTGCATTTGATAAAAAGGTGTCAATTATGCCAATTAGATGAAAGGTCAAA
TACCTTTACCTAGTTG
Found at i:17472 original size:81 final size:81
Alignment explanation
Indices: 17337--17580 Score: 371
Period size: 81 Copynumber: 3.0 Consensus size: 81
17327 AATACCTTTA
* * * * *
17337 CCTAGTTGTGTATTTGACAAAAAGATGTCAATTATGCTAGTTAGATGAAAGGTTAAGTACCTTTG
1 CCTAGCTGTGTATTTGATAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTG
17402 AGTTAAAGATTAAATG
66 AGTTAAAGATTAAATG
*
17418 CCTAGCTGTGCATTTGATAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTG
1 CCTAGCTGTGTATTTGATAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTG
17483 AGTTAAAGATTAAATG
66 AGTTAAAGATTAAATG
* * * * * *
17499 CCTAGCTGTGTATTTGGTAGAAAGGTGCCAATCATGCCAGTTAGATAAAAGGTTAAATGCCTTTG
1 CCTAGCTGTGTATTTGATAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTG
*
17564 AGTAAAAGATTAAATG
66 AGTTAAAGATTAAATG
17580 C
1 C
17581 TTAACAGTGT
Statistics
Matches: 149, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 149 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (81 bp):
CCTAGCTGTGTATTTGATAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTG
AGTTAAAGATTAAATG
Found at i:17558 original size:23 final size:22
Alignment explanation
Indices: 17539--17580 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17529 ATCATGCCAG
*
17539 TTAGA-TAAAAGGTTAAATGCC
1 TTAGAGTAAAAGATTAAATGCC
*
17560 TTTGAGTAAAAGATTAAATGC
1 TTAGAGTAAAAGATTAAATGC
17581 TTAACAGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (22 bp):
TTAGAGTAAAAGATTAAATGCC
Found at i:20545 original size:37 final size:37
Alignment explanation
Indices: 20495--20688 Score: 232
Period size: 37 Copynumber: 5.3 Consensus size: 37
20485 ACTTTCTAAA
20495 CAAATCAATCTTAAGCCTTCACGG-AGAAGTAGTGAAG
1 CAAATCAATCTTAAGCCTTCACGGAAG-AGTAGTGAAG
* *
20532 CAAATCAATCTTAAGCCTTCACGAAAGAGTAATGAAG
1 CAAATCAATCTTAAGCCTTCACGGAAGAGTAGTGAAG
* ** *
20569 CAAGTCAATCTTAAGCCTTCACAAAATAGTAGTGAAG
1 CAAATCAATCTTAAGCCTTCACGGAAGAGTAGTGAAG
* ** * *
20606 CAAGTCAATCTTAAGCC-TCGTGGAAGATTAGGGAAG
1 CAAATCAATCTTAAGCCTTCACGGAAGAGTAGTGAAG
* *
20642 CAAATCAATCTT-AGCCTTCAAGGAAGAGTAGTAAAG
1 CAAATCAATCTTAAGCCTTCACGGAAGAGTAGTGAAG
*
20678 AAAATCAATCT
1 CAAATCAATCT
20689 CGAGTCTGGT
Statistics
Matches: 135, Mismatches: 20, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
35 4 0.03
36 47 0.35
37 82 0.61
38 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (37 bp):
CAAATCAATCTTAAGCCTTCACGGAAGAGTAGTGAAG
Found at i:20935 original size:112 final size:110
Alignment explanation
Indices: 20736--21054 Score: 297
Period size: 112 Copynumber: 2.9 Consensus size: 110
20726 TCATCTTCTG
* * * * * * ** *
20736 AAGATTGTTCAAGTCCTATACTCCCTGGAAGAAGAGGGAGAAGACTTGTTT--TATGAAGATTAT
1 AAGATTGTTTAAGTCCTACACTCACTGAAAGAAGAAGGAGCAGACCCGTTTGCCA-GAAGATT-T
* * *
20799 TCAAGTCCTATACTCCCTAAAAGAAGAGGGAGCGGATCTA-TTT-GCCG
64 TCAAGTCTTATACTCCCTGAAAGAAGAGGGAGCGGA-C-ACTTTCGCCA
* * * * *
20846 AAGATTTTTTCAAGTCCTATACTCATTGAAAGAAGAAGGAGCGGTCCCCGTTTGCC-GAAGATTG
1 AAGATTGTTT-AAGTCCTACACTCACTGAAAGAAGAAGGAGCAG-ACCCGTTTGCCAGAAGATT-
* *
20910 TTCGAGTCTTATACTCCCTGAAAGAAGAGGGAGAGGACACGTTTCGCCA
63 TTCAAGTCTTATACTCCCTGAAAGAAGAGGGAGCGGACAC-TTTCGCCA
* * * * * * *
20959 AAGATTGTTTAAGTCCTACACTCCCTGAAAGAAGAGGGAGCAGACCCTTTTTCCAAAAAAATTTC
1 AAGATTGTTTAAGTCCTACACTCACTGAAAGAAGAAGGAGCAGACCCGTTTGCCAGAAGATTTTC
21024 AAGTCTTATACTCCCTGAAAGAAGAGGGAGC
66 AAGTCTTATACTCCCTGAAAGAAGAGGGAGC
21055 AGACCCGTTT
Statistics
Matches: 169, Mismatches: 32, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
110 9 0.05
111 68 0.40
112 80 0.47
113 12 0.07
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (110 bp):
AAGATTGTTTAAGTCCTACACTCACTGAAAGAAGAAGGAGCAGACCCGTTTGCCAGAAGATTTTC
AAGTCTTATACTCCCTGAAAGAAGAGGGAGCGGACACTTTCGCCA
Found at i:21115 original size:55 final size:55
Alignment explanation
Indices: 20735--21117 Score: 363
Period size: 55 Copynumber: 6.9 Consensus size: 55
20725 CTCATCTTCT
* ** ** ***
20735 GAAGATTGTTCAAGTCCTATACTCCCTGGAAGAAGAGGGAGAAGACTTGTTTTAT
1 GAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCGTTTGCC
* * * **
20790 GAAGATTATTCAAGTCCTATACTCCCTAAAAGAAGAGGGAGCGGATCTATTTGCC
1 GAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCGTTTGCC
* ** * *
20845 GAAGATTTTTTCAAGTCCTATACTCATTGAAAGAAGAAGGAGCGGTCCCCGTTTGCC
1 GAAGA-TTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCGG-ACCCGTTTGCC
* * * *
20902 GAAGATTGTTCGAGTCTTATACTCCCTGAAAGAAGAGGGAGAGGACACGTTTCGCC
1 GAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCGTTT-GCC
* * * * * *
20958 AAAGATTGTTTAAGTCCTACACTCCCTGAAAGAAGAGGGAGCAGACCCTTTTTCC
1 GAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCGTTTGCC
* * * * * **
21013 AAAAAAAT-TTCAAGTCTTATACTCCCTGAAAGAAGAGGGAGCAGACCCGTTTTTC
1 -GAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCGTTTGCC
* * * * *
21068 GAAGATTGTTCGAGTCCTATAATCCTTGAACGAAGATGGAGCGGACCCGT
1 GAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCGT
21118 CCTTCAAAGA
Statistics
Matches: 267, Mismatches: 56, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
54 4 0.01
55 134 0.50
56 117 0.44
57 12 0.04
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (55 bp):
GAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCGTTTGCC
Found at i:22190 original size:2 final size:2
Alignment explanation
Indices: 22185--22217 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22175 TAAGTGTGTG
22185 TA TA 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 TA TA T
22218 CTTTTTCCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24128 original size:21 final size:19
Alignment explanation
Indices: 24087--24131 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
24077 TTCATTTAAG
* *
24087 AATTTTTTTTTTAACTTTA
1 AATTTTTTTCTTAACTATA
24106 AATTTTTTTCTTAATCATATA
1 AATTTTTTTCTTAA-C-TATA
24127 AATTT
1 AATTT
24132 ATAAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (19 bp):
AATTTTTTTCTTAACTATA
Found at i:24672 original size:25 final size:24
Alignment explanation
Indices: 24641--24695 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 24
24631 TATAACTGAT
* *
24641 TAAAAATTATTCTGTTTGTACCAC
1 TAAAAATTATTCCGCTTGTACCAC
24665 TGAAAAATTATTCCGCTTGTACCAC
1 T-AAAAATTATTCCGCTTGTACCAC
24690 TAAAAA
1 TAAAAA
24696 CTATACTCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 6 0.21
25 22 0.79
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (24 bp):
TAAAAATTATTCCGCTTGTACCAC
Found at i:30464 original size:291 final size:291
Alignment explanation
Indices: 29940--30507 Score: 1109
Period size: 291 Copynumber: 2.0 Consensus size: 291
29930 CCATTTGGAT
29940 TCACCTATAAATACCATTTTTTGTTTTTTTCTTCATTTTCATATGTACTCTCTCTACAAAAAAAA
1 TCACCTATAAATACCATTTTTTGTTTTTTTCTTCATTTTCATATGTACTCTCTCTACAAAAAAAA
30005 CTTTCCCTTCTCTCTAAGCCTCTCCAAAATCCGGCGAGAGCTCAGCTGTTGGCAGCCACGCTAGA
66 CTTTCCCTTCTCTCTAAGCCTCTCCAAAATCCGGCGAGAGCTCAGCTGTTGGCAGCCACGCTAGA
*
30070 CACCGTTGATTGCCATTTACGGTGATAGTTCGAGCCCAAATCTTTCAGGCTGGCTATTATCGACG
131 CACCGTTGATTGCCATTTACGGTGACAGTTCGAGCCCAAATCTTTCAGGCTGGCTATTATCGACG
30135 CGGGGAGTTTGGATCGAGGCTCCGATTTACGTGAAATGGTCTCCAACACTGTGAAAATGGTCGAG
196 CGGGGAGTTTGGATCGAGGCTCCGATTTACGTGAAATGGTCTCCAACACTGTGAAAATGGTCGAG
30200 ACTCTTCGGTTCTCCAAGGCTCTGATCGTCG
261 ACTCTTCGGTTCTCCAAGGCTCTGATCGTCG
30231 TCACCTATAAATACCATTTTTTGTTTTTTTCTTCATTTTCATATGTACTCTCTCTACAAAAAAAA
1 TCACCTATAAATACCATTTTTTGTTTTTTTCTTCATTTTCATATGTACTCTCTCTACAAAAAAAA
*
30296 CTTTCCCTTCTCTCTAAGCCTCTCCAAAATCTGGCGAGAGCTCAGCTGTTGGCAGCCACGCTAGA
66 CTTTCCCTTCTCTCTAAGCCTCTCCAAAATCCGGCGAGAGCTCAGCTGTTGGCAGCCACGCTAGA
*
30361 CACCGTTGATTGCCATTTACGGTGACAGTTCGAGCCCAAATCTTTCAGGCTGGCTATTCTCGACG
131 CACCGTTGATTGCCATTTACGGTGACAGTTCGAGCCCAAATCTTTCAGGCTGGCTATTATCGACG
30426 CGGGGAGTTTGGATCGAGGCTCCGATTTACGTGAAATGGTCTCCAACACTGTGAAAATGGTCGAG
196 CGGGGAGTTTGGATCGAGGCTCCGATTTACGTGAAATGGTCTCCAACACTGTGAAAATGGTCGAG
30491 ACTCTTCGGTTCTCCAA
261 ACTCTTCGGTTCTCCAA
30508 CACTGTGAAA
Statistics
Matches: 274, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
291 274 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (291 bp):
TCACCTATAAATACCATTTTTTGTTTTTTTCTTCATTTTCATATGTACTCTCTCTACAAAAAAAA
CTTTCCCTTCTCTCTAAGCCTCTCCAAAATCCGGCGAGAGCTCAGCTGTTGGCAGCCACGCTAGA
CACCGTTGATTGCCATTTACGGTGACAGTTCGAGCCCAAATCTTTCAGGCTGGCTATTATCGACG
CGGGGAGTTTGGATCGAGGCTCCGATTTACGTGAAATGGTCTCCAACACTGTGAAAATGGTCGAG
ACTCTTCGGTTCTCCAAGGCTCTGATCGTCG
Found at i:32438 original size:28 final size:28
Alignment explanation
Indices: 32406--32460 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
32396 CAAGAGATAG
32406 TCTACCTATTAAGGAGACAAGTTGGACA
1 TCTACCTATTAAGGAGACAAGTTGGACA
* *
32434 TCTACCTATTGAGGTGACAAGTTGGAC
1 TCTACCTATTAAGGAGACAAGTTGGAC
32461 TCAAGAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (28 bp):
TCTACCTATTAAGGAGACAAGTTGGACA
Found at i:36329 original size:57 final size:57
Alignment explanation
Indices: 36259--36465 Score: 208
Period size: 57 Copynumber: 3.7 Consensus size: 57
36249 TTATTGATGT
* * * *
36259 TTCAAATGAATTTTTAAAAGAACTAATTCTGATTTTTAGAAGTTCCTTGATGATTTC
1 TTCAAATGAATTTTTAAAGGAACTAAGTCTGATTTTTAGAAGTTTCTTAATGATTTC
* ** * * **
36316 TTCAAATGAATTTTCAAAGGAGTTAAGCCTGATTTTCAGGGGTTTCTTAATG--TT-
1 TTCAAATGAATTTTTAAAGGAACTAAGTCTGATTTTTAGAAGTTTCTTAATGATTTC
* *
36370 TTCAAATGAATTTTTAAAGGAACTAAGTCTGATTTTT-GAAAGTTTCTTCATGATGTC
1 TTCAAATGAATTTTTAAAGGAACTAAGTCTGATTTTTAG-AAGTTTCTTAATGATTTC
* * * *
36427 TTCAAATG-ATTTTTCAAATGAGCTAAGCCTAATTTTTAG
1 TTCAAATGAATTTTT-AAAGGAACTAAGTCTGATTTTTAG
36466 GGATTTCTTG
Statistics
Matches: 120, Mismatches: 24, Indels: 11
0.77 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 42 0.35
55 2 0.02
56 7 0.06
57 67 0.56
58 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.42
Consensus pattern (57 bp):
TTCAAATGAATTTTTAAAGGAACTAAGTCTGATTTTTAGAAGTTTCTTAATGATTTC
Found at i:36389 original size:54 final size:54
Alignment explanation
Indices: 36221--36792 Score: 483
Period size: 54 Copynumber: 10.4 Consensus size: 54
36211 ATGATTTCTC
* * *
36221 AAAGGAGTTAAGCCTGATTTTCAGGGGTTTATTGATG-TTTCAAATGAATTTTT
1 AAAGGAGCTAAGCCTGATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTTTT
* * ** ** * *
36274 AAAAGAACTAATTCTGATTTTTAGAAGTTCCTTGATGATTTCTTCAAATGAATTTTC
1 AAAGGAGCTAAGCCTGATTTTTAGGGGTTTCTTGATG--TT-TTCAAATGAATTTTT
* * *
36331 AAAGGAGTTAAGCCTGATTTTCAGGGGTTTCTTAATGTTTTCAAATGAATTTTT
1 AAAGGAGCTAAGCCTGATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTTTT
* * ** *
36385 AAAGGAACTAAGTCTGATTTTT-GAAAGTTTCTTCATGATGTCTTCAAATG-ATTTTT
1 AAAGGAGCTAAGCCTGATTTTTAG-GGGTTTC-T--TGATGTTTTCAAATGAATTTTT
* * * *
36441 CAAATGAGCTAAGCCTAATTTTTAGGGATTTCTTGATGTTTTCAAATGATCTTTTTTT
1 -AAAGGAGCTAAGCCTGATTTTTAGGGGTTTCTTGATGTTTTCAAATGA---ATTTTT
* * * * *
36499 AAAGAAGCTAAGCCT-AATTTTAGGAGATACTTGATGTTTTCAAATGAATTTTTT
1 AAAGGAGCTAAGCCTGATTTTTAGGGGTTTCTTGATGTTTTCAAATGAA-TTTTT
* *
36553 AAAGGAGGTACA-CCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTTTT
1 AAAGGAGCTA-AGCCTGATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTTTT
* * * * * * *
36607 GGAAAGAAGCTAAGCTTGATTTTCATGGGTTTCTTAATGTCTTCAAATGAATTTTG
1 --AAAGGAGCTAAGCCTGATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTTTT
* * * * * *
36663 AAA-AACTCTAA-CCTAATTTTTAGGGGTTTCTTAACGTTTTCAAATGAATTTTGG
1 AAAGGA-GCTAAGCCTGATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTTT-T
* * * * *
36717 AAAAGAGCTAAGCCTGATTTTTAAGGGTTTCTTGATGTCTTAAAATTAATTTTT
1 AAAGGAGCTAAGCCTGATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTTTT
* * *
36771 AAAGAAGTTAAGCCTAATTTTT
1 AAAGGAGCTAAGCCTGATTTTT
36793 TTAGTGATTT
Statistics
Matches: 412, Mismatches: 83, Indels: 47
0.76 0.15 0.09
Matches are distributed among these distances:
53 65 0.16
54 105 0.25
55 69 0.17
56 78 0.19
57 89 0.22
58 6 0.01
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.42
Consensus pattern (54 bp):
AAAGGAGCTAAGCCTGATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTTTT
Found at i:36413 original size:111 final size:110
Alignment explanation
Indices: 36214--36792 Score: 519
Period size: 111 Copynumber: 5.3 Consensus size: 110
36204 TTTCTTGATG
* * *
36214 ATTTCTCAAAGGAGTTAAGCCTGATTTTCAGGGGTTTATTGATG-TTTCAAATGAATTTTTAAAA
1 ATTT-TCAAAGGAGTTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTTTT-AAA
** * *
36278 GAACTAATTCTGATTTTT-AGAAGTTCCTTGATGATTTCTTCAAATGA
64 GAACTAAGCCTGATTTTTGA-AAGTTTCTTGATGATGTCTTCAAATGA
* * *
36325 ATTTTCAAAGGAGTTAAGCCTGATTTTCAGGGGTTTCTTAATGTTTTCAAATGAATTTTTAAAGG
1 ATTTTCAAAGGAGTTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTTTTAAA-G
* *
36390 AACTAAGTCTGATTTTTGAAAGTTTCTTCATGATGTCTTCAAATGA
65 AACTAAGCCTGATTTTTGAAAGTTTCTTGATGATGTCTTCAAATGA
* * * * *
36436 TTTTTCAAATGAGCTAAGCCTAATTTTTAGGGATTTCTTGATGTTTTCAAATGATCTTTTTTTAA
1 ATTTTCAAAGGAGTTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGA---ATTTTTAA
* * * * *
36501 AGAAGCTAAGCCTAATTTTAG-GAGATACTTGATG-T-T-TTCAAATGA
63 AGAA-CTAAGCCTGATTTTTGAAAGTTTCTTGATGATGTCTTCAAATGA
* *
36546 ATTTTTTAAAGGAGGTACA-CCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTTTTGGA
1 A-TTTTCAAAGGAGTTA-AGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTTTT--A
* *
36610 AAGAAGCTAAGCTTGATTTTCATG--GGTTTCTT-A--ATGTCTTCAAATGA
62 AAGAA-CTAAGCCTGATTTT--TGAAAGTTTCTTGATGATGTCTTCAAATGA
* * * * * *
36657 ATTTTGAAA-AACTCTAA-CCTAATTTTTAGGGGTTTCTTAACGTTTTCAAATGAATTTTGGAAA
1 ATTTTCAAAGGAGT-TAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTTT--TAA
* * * *
36720 AGAGCTAAGCCTGATTTTT-AAGGGTTTC-T--TGATGTCTTAAAATTA
63 AGAACTAAGCCTGATTTTTGAA-AGTTTCTTGATGATGTCTTCAAATGA
* *
36765 ATTTTTAAAGAAGTTAAGCCTAATTTTT
1 ATTTTCAAAGGAGTTAAGCCTAATTTTT
36793 TTAGTGATTT
Statistics
Matches: 396, Mismatches: 46, Indels: 54
0.80 0.09 0.11
Matches are distributed among these distances:
106 1 0.00
107 1 0.00
108 47 0.12
109 60 0.15
110 79 0.20
111 171 0.43
112 4 0.01
113 12 0.03
114 21 0.05
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (110 bp):
ATTTTCAAAGGAGTTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTTTTAAAGA
ACTAAGCCTGATTTTTGAAAGTTTCTTGATGATGTCTTCAAATGA
Found at i:40282 original size:126 final size:126
Alignment explanation
Indices: 40057--40309 Score: 506
Period size: 126 Copynumber: 2.0 Consensus size: 126
40047 TTTAGGATCA
40057 TTTCTCTAGAAAATTGTTTGAGTCATTCTTAGGATTGTTTCTCTAGAATGTCATTTGATTCCTTC
1 TTTCTCTAGAAAATTGTTTGAGTCATTCTTAGGATTGTTTCTCTAGAATGTCATTTGATTCCTTC
40122 TTAGGATTGTCTTGTCTAACTAGAAACCTTTCAGTAATATCTTTCTTCAACTTGACTTTTT
66 TTAGGATTGTCTTGTCTAACTAGAAACCTTTCAGTAATATCTTTCTTCAACTTGACTTTTT
40183 TTTCTCTAGAAAATTGTTTGAGTCATTCTTAGGATTGTTTCTCTAGAATGTCATTTGATTCCTTC
1 TTTCTCTAGAAAATTGTTTGAGTCATTCTTAGGATTGTTTCTCTAGAATGTCATTTGATTCCTTC
40248 TTAGGATTGTCTTGTCTAACTAGAAACCTTTCAGTAATATCTTTCTTCAACTTGACTTTTT
66 TTAGGATTGTCTTGTCTAACTAGAAACCTTTCAGTAATATCTTTCTTCAACTTGACTTTTT
40309 T
1 T
40310 GTGTAGAGAA
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 127 1.00
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (126 bp):
TTTCTCTAGAAAATTGTTTGAGTCATTCTTAGGATTGTTTCTCTAGAATGTCATTTGATTCCTTC
TTAGGATTGTCTTGTCTAACTAGAAACCTTTCAGTAATATCTTTCTTCAACTTGACTTTTT
Found at i:41285 original size:53 final size:52
Alignment explanation
Indices: 41217--41316 Score: 137
Period size: 53 Copynumber: 1.9 Consensus size: 52
41207 CAATGAAGAA
* *
41217 GTTCCTAATGAGAAGAACTTGTTCAGCATTTCACTCGATTCCATCATAAAAGG
1 GTTCCTAATGAGAAGAACTTGTTCAACATTT-ACTCAATTCCATCATAAAAGG
* * * *
41270 GTTCGTAATGAGAAGAGCTTGTTCAACCTTTTCTCAATTCCATCATA
1 GTTCCTAATGAGAAGAACTTGTTCAACATTTACTCAATTCCATCATA
41317 GAATGAGGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
52 14 0.34
53 27 0.66
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (52 bp):
GTTCCTAATGAGAAGAACTTGTTCAACATTTACTCAATTCCATCATAAAAGG
Found at i:41779 original size:12 final size:11
Alignment explanation
Indices: 41751--41778 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
41741 TAGTATTAAT
41751 AAAAAATTAGA
1 AAAAAATTAGA
41762 AAAAAATTAGA
1 AAAAAATTAGA
41773 AAAAAA
1 AAAAAA
41779 ACAATAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (11 bp):
AAAAAATTAGA
Found at i:45384 original size:18 final size:19
Alignment explanation
Indices: 45343--45385 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
45333 TTTTAGACCC
* *
45343 TAAAATATAGTATTTTGAT
1 TAAAATAAAATATTTTGAT
*
45362 AAAAATAAAATATTTT-AT
1 TAAAATAAAATATTTTGAT
45380 TAAAAT
1 TAAAAT
45386 CACCTAGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
TAAAATAAAATATTTTGAT
Found at i:48159 original size:18 final size:18
Alignment explanation
Indices: 48116--48172 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
48106 ATAGCAAAAA
*
48116 AAGAAGA-AAAAATAAGAG
1 AAGAAGAGAAAAAAAAG-G
48134 AA-AGAGAGAAAAAAAAGG
1 AAGA-AGAGAAAAAAAAGG
* *
48152 AAGAAGAGAGAGAAAAGG
1 AAGAAGAGAAAAAAAAGG
48170 AAG
1 AAG
48173 CAAAAGAGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 1 0.03
18 23 0.70
19 9 0.27
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (18 bp):
AAGAAGAGAAAAAAAAGG
Found at i:48161 original size:22 final size:20
Alignment explanation
Indices: 48115--48167 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
48105 TATAGCAAAA
48115 AAAGA-AGAAAAAATAAGAG
1 AAAGAGAGAAAAAATAAGAG
48134 AAAGAGAGAAAAAA-AAGGAAG
1 AAAGAGAGAAAAAATAA-G-AG
48155 AAGAGAGAGAAAA
1 AA-AGAGAGAAAA
48168 GGAAGCAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.23
20 9 0.30
21 4 0.13
22 10 0.33
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (20 bp):
AAAGAGAGAAAAAATAAGAG
Found at i:48180 original size:19 final size:18
Alignment explanation
Indices: 48146--48186 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
48136 AGAGAGAAAA
*
48146 AAAAGGAAGAAGAGAGAG
1 AAAAGGAAGAAAAGAGAG
*
48164 AAAAGGAAGCAAAAGAGAT
1 AAAAGGAAG-AAAAGAGAG
48183 AAAA
1 AAAA
48187 AAACAAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.66, C:0.02, G:0.29, T:0.02
Consensus pattern (18 bp):
AAAAGGAAGAAAAGAGAG
Found at i:51979 original size:140 final size:141
Alignment explanation
Indices: 51726--52025 Score: 365
Period size: 140 Copynumber: 2.1 Consensus size: 141
51716 CCAATAGAAA
* * ** * *
51726 GGTTCGTAATGAGAATG-ACTCATCTGATAGAGGGGAGAGAAAGTTCATAATGAAAAGAACTTGT
1 GGTTCATAATGAGAA-GAACCCATCCAATAGAGGGGAGAAAAAGTTCATAATGAAAAGAACTTAT
* *
51790 TCAACCTTAGCTCGATTCATCGTATATGGAGTTGAATCAGCGAAACCTCACTCGAGGGATCAACA
65 TCAACATTAGCTCGATTCATCGTATATGGAGTTAAATCAGCGAAACCTCACTCGAGGGATCAACA
* *
51855 TTTCCATTGGA-
130 TTTCCAGTGCAT
* *
51866 GGTTTATAATGAGAAGAACCCATCCAATAGAGGGGA-AAATAAGTTCATAATGAGAAGAACTTAT
1 GGTTCATAATGAGAAGAACCCATCCAATAGAGGGGAGAAA-AAGTTCATAATGAAAAGAACTTAT
** * * * * * *
51930 TCAACATTTTCTTGATTCATCGTATTTGGAGTTAAATCAGC-AACTCCTCACTTGATGGATTAAC
65 TCAACATTAGCTCGATTCATCGTATATGGAGTTAAATCAGCGAA-ACCTCACTCGAGGGATCAAC
51994 ATTTCCAGTGCAT
129 ATTTCCAGTGCAT
52007 GGTTCATAATGAGAAGAAC
1 GGTTCATAATGAGAAGAAC
52026 TAGTTCAACA
Statistics
Matches: 135, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
139 5 0.04
140 112 0.83
141 18 0.13
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (141 bp):
GGTTCATAATGAGAAGAACCCATCCAATAGAGGGGAGAAAAAGTTCATAATGAAAAGAACTTATT
CAACATTAGCTCGATTCATCGTATATGGAGTTAAATCAGCGAAACCTCACTCGAGGGATCAACAT
TTCCAGTGCAT
Found at i:52081 original size:100 final size:99
Alignment explanation
Indices: 51907--52126 Score: 291
Period size: 100 Copynumber: 2.2 Consensus size: 99
51897 GGGGAAAATA
* * *
51907 AGTTCATAATGAGAAGAACTTATTCAACATTTTCTTGATTCATCGTATTTGGAGTTAAATCAGCA
1 AGTTCATAATGAGAAGAAC-TATTCAACATTTACTCGATTCATCGTATATGGAGTTAAATCAGCA
* * *
51972 ACTCCTCACTTGATGGATTAACATTTCCAGTGCATG
65 ACACCTCACTTGAGGGATTAACATTTCCAATGCA-G
* *
52008 -GTTCATAATGAGAAGAACTAGTTCAACATTTACTCGATTCATCAG-ATATGGAGTTGAATCAGT
1 AGTTCATAATGAGAAGAACTA-TTCAACATTTACTCGATTCATC-GTATATGGAGTTAAATCAGC
* *
52071 GACACCTCACTTGAGGGATTAACATTTCCAATGGAG
64 AACACCTCACTTGAGGGATTAACATTTCCAATGCAG
*
52107 AGTTTATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
52127 CGTCCGATAG
Statistics
Matches: 105, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
99 3 0.03
100 101 0.96
101 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (99 bp):
AGTTCATAATGAGAAGAACTATTCAACATTTACTCGATTCATCGTATATGGAGTTAAATCAGCAA
CACCTCACTTGAGGGATTAACATTTCCAATGCAG
Found at i:52191 original size:240 final size:240
Alignment explanation
Indices: 51768--52242 Score: 645
Period size: 240 Copynumber: 2.0 Consensus size: 240
51758 GGGAGAGAAA
*
51768 GTTCATAATGAAAAGAACTTGTTCAACCTTAGCTCGATTCATCGTATATGGAGTTGAATCAGCGA
1 GTTCATAATGAAAAGAACTAGTTCAACCTTAGCTCGATTCATCGTATATGGAGTTGAATCAGCGA
*
51833 AACCTCACTCGAGGGATCAACATTTCCATTGGAGGTTTATAATGAGAAGAACCCATCCAATAGAG
66 AACCTCACTCGAGGGATCAACATTTCCAATGGAGGTTTATAATGAGAAGAACCCATCCAATAGAG
** * * * *
51898 GGGAAAATAAGTTCATAATGAGAAGAACTTATTCAACATTTTCTTGATTCATCGTATTTGGAGTT
131 GGGAAAATAAGTTCATAACAAGAAGAACTTATTCAACATTTTCTCGATTCATCGCATATGAAGTT
* *
51963 AAATCAGCAACTCCTCACTTGATGGATTAACATTTCCAGTGCATG
196 AAATCAGCAACGCCTCACTTGAGGGATTAACATTTCCAGTGCATG
* * *
52008 GTTCATAATGAGAAGAACTAGTTCAACATTTA-CTCGATTCATCAG-ATATGGAGTTGAATCAGT
1 GTTCATAATGAAAAGAACTAGTTCAAC-CTTAGCTCGATTCATC-GTATATGGAGTTGAATCAGC
* * * * * *
52071 GACACCTCACTTGAGGGATTAACATTTCCAATGGAGAGTTTATAATGAGAAGAACTCGTCCGATA
64 GAAACCTCACTCGAGGGATCAACATTTCCAATGGAG-GTTTATAATGAGAAGAACCCATCCAATA
* *
52136 GA-GGGAGAAA-AAGTTCATAACAAGAAGAACATT-TTTAACCTTTTCTCGATTCATCGCATATG
128 GAGGGGA-AAATAAGTTCATAACAAGAAGAAC-TTATTCAACATTTTCTCGATTCATCGCATATG
* * * *
52198 AAGTTGAATCAGTAACGCCTCACTTGAGGGCTTACCATTTCCAGT
191 AAGTTAAATCAGCAACGCCTCACTTGAGGGATTAACATTTCCAGT
52243 TGAGAGCTCA
Statistics
Matches: 205, Mismatches: 25, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
240 169 0.82
241 36 0.18
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (240 bp):
GTTCATAATGAAAAGAACTAGTTCAACCTTAGCTCGATTCATCGTATATGGAGTTGAATCAGCGA
AACCTCACTCGAGGGATCAACATTTCCAATGGAGGTTTATAATGAGAAGAACCCATCCAATAGAG
GGGAAAATAAGTTCATAACAAGAAGAACTTATTCAACATTTTCTCGATTCATCGCATATGAAGTT
AAATCAGCAACGCCTCACTTGAGGGATTAACATTTCCAGTGCATG
Found at i:52360 original size:139 final size:139
Alignment explanation
Indices: 52008--52408 Score: 455
Period size: 139 Copynumber: 2.9 Consensus size: 139
51998 CCAGTGCATG
* * *
52008 GTTCATAATGAGAAGAACTAGTTCAACATTTACTCGATTCATCAGATATGGAGTTGAATCAGTGA
1 GTTCATAATGAGAAGAACTTGTTCAAC-CTTACTCGATTCATCACATATGGAGTTGAATCAGTGA
* * * * * * *
52073 CACCTCACTTGAGGGATTAACATTTCCAATGGAGAGTTTATAATGAGAAGAACTCGTCCGATAGA
65 CGCCTCACTTGAGGGATTAACATTTCCAGTAGAGAGCTCATAATGAAAAGAACTCATCCGATAGA
*
52138 GGGAGAAAAA
130 GAGAGAAAAA
** * * * * *
52148 GTTCATAACAAGAAGAACATT-TTTAACCTTTTCTCGATTCATCGCATATGAAGTTGAATCAGTA
1 GTTCATAATGAGAAGAAC-TTGTTCAACC-TTACTCGATTCATCACATATGGAGTTGAATCAGTG
* * * *
52212 ACGCCTCACTTGAGGGCTTACCATTTCCAGTTGAGAGCTCATAATGAAAATAACTCATCCGAT-G
64 ACGCCTCACTTGAGGGATTAACATTTCCAGTAGAGAGCTCATAATGAAAAGAACTCATCCGATAG
*
52276 AGAGAGAAGAA
129 AGAGAGAAAAA
* *
52287 GTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATTTGGAGTTGAATCAGCGA
1 GTTCATAATGAGAAGAACTTGTTCAACCTTA-CTCGATTCATCACATATGGAGTTGAATCAGTGA
* * * * * * **
52352 TGCTTCACTCGAGGGATCAACATTTTCAGTAGAGAGCTCATAACGTGAAGAACTCAT
65 CGCCTCACTTGAGGGATTAACATTTCCAGTAGAGAGCTCATAATGAAAAGAACTCAT
52409 GCTTGAAGAA
Statistics
Matches: 214, Mismatches: 43, Indels: 9
0.80 0.16 0.03
Matches are distributed among these distances:
138 4 0.02
139 105 0.49
140 104 0.49
141 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (139 bp):
GTTCATAATGAGAAGAACTTGTTCAACCTTACTCGATTCATCACATATGGAGTTGAATCAGTGAC
GCCTCACTTGAGGGATTAACATTTCCAGTAGAGAGCTCATAATGAAAAGAACTCATCCGATAGAG
AGAGAAAAA
Found at i:52582 original size:21 final size:21
Alignment explanation
Indices: 52557--52597 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
52547 AAACTAGACC
* *
52557 CGAACCATACCCAAACCAAAT
1 CGAACAATACCAAAACCAAAT
*
52578 CGAACAATGCCAAAACCAAA
1 CGAACAATACCAAAACCAAA
52598 CCCCACCTAA
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:0.51, C:0.34, G:0.07, T:0.07
Consensus pattern (21 bp):
CGAACAATACCAAAACCAAAT
Found at i:57768 original size:59 final size:59
Alignment explanation
Indices: 57596--58002 Score: 479
Period size: 59 Copynumber: 7.0 Consensus size: 59
57586 ATTATTTCCC
* * * * * * *
57596 ATATGGAAATTCATACACTTAGTATGAATTTCTTATCCTTTTGGCACAC-AAGGTGTCCA
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAA-GTGCCCT
* * * * *
57655 ATACGGAAATTCAT--AC----TATGAATTTCTTATCATTTTAGCACACGAAGTGACCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCT
* * * *
57708 ATACGGAAATCCATACACTTAGTATGAATTCCTTCTTATCTTAGCACACGAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCT
** * *
57767 ATACAGAAATTCATACACTTTGTATGAATTCATTCTCATGTTAGCACACGAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCT
* *
57826 ATATGGAAATTCATACACTTGGCATGAATTCCTTCTCATGTTTA-CACACGAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATG-TTAGCACACGAAGTGCCCT
* * * * *
57885 ATATGGAAATTCATACACTTGGCATGAATTACTTCTCGTGTTAGTACACGAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCT
* *
57944 ATATGGAAATTCATACACTTATTATGAATTCCTTCTCATGTTAGCACACTAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCT
58003 TTTCGTAATC
Statistics
Matches: 307, Mismatches: 32, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
53 43 0.14
54 2 0.01
55 2 0.01
57 2 0.01
58 3 0.01
59 252 0.82
60 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (59 bp):
ATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCT
Found at i:58348 original size:17 final size:19
Alignment explanation
Indices: 58320--58362 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
58310 ATTTTTGGTT
*
58320 CTACAGTATCGATACT-CC
1 CTACAATATCGATACTACC
58338 C-ACAATATCGATACTACC
1 CTACAATATCGATACTACC
58356 CTACAAT
1 CTACAAT
58363 GGTATCGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 13 0.59
18 4 0.18
19 5 0.23
ACGTcount: A:0.35, C:0.33, G:0.07, T:0.26
Consensus pattern (19 bp):
CTACAATATCGATACTACC
Found at i:58369 original size:22 final size:18
Alignment explanation
Indices: 58324--58373 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 18
58314 TTGGTTCTAC
58324 AGTATCGATACTCCCACA
1 AGTATCGATACTCCCACA
58342 A-TATCGATACTACCCTACA
1 AGTATCGATACT-CCC-ACA
58361 ATGGTATCGATAC
1 A--GTATCGATAC
58374 CCTCTTCCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.37
18 4 0.15
19 4 0.15
22 9 0.33
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (18 bp):
AGTATCGATACTCCCACA
Found at i:60622 original size:34 final size:35
Alignment explanation
Indices: 60565--60656 Score: 105
Period size: 34 Copynumber: 2.7 Consensus size: 35
60555 AATATGTATA
60565 TGATAACTGTAAAACATCTGATATCTATAAATATC
1 TGATAACTGTAAAACATCTGATATCTATAAATATC
* * * * *
60600 TGATAATTGT-AATCATCTGATATCTGTATATATT
1 TGATAACTGTAAAACATCTGATATCTATAAATATC
* * *
60634 TGATAACGGTGAAATATCTGATA
1 TGATAACTGTAAAACATCTGATA
60657 ACTGTAAACA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
34 28 0.60
35 19 0.40
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (35 bp):
TGATAACTGTAAAACATCTGATATCTATAAATATC
Found at i:60627 original size:17 final size:18
Alignment explanation
Indices: 60565--60664 Score: 75
Period size: 17 Copynumber: 5.7 Consensus size: 18
60555 AATATGTATA
* *
60565 TGATAACTGTAAAACATC
1 TGATATCTGTAAATCATC
*
60583 TGATATCTATAAAT-ATC
1 TGATATCTGTAAATCATC
60600 TGATAAT-TGT-AATCATC
1 TGAT-ATCTGTAAATCATC
* *
60617 TGATATCTGTATAT-ATT
1 TGATATCTGTAAATCATC
* *
60634 TGATAACGGTGAAAT-ATC
1 TGATATCTGT-AAATCATC
*
60652 TGATAACTGTAAA
1 TGATATCTGTAAA
60665 CATTTAGAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
16 5 0.08
17 32 0.48
18 29 0.44
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
TGATATCTGTAAATCATC
Found at i:61633 original size:15 final size:16
Alignment explanation
Indices: 61601--61633 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61591 AATTTAAACT
*
61601 TAAATATAAAATTCAA
1 TAAAAATAAAATTCAA
61617 TAAAAATAAAA-TCAA
1 TAAAAATAAAATTCAA
61632 TA
1 TA
61634 CTTAAATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (16 bp):
TAAAAATAAAATTCAA
Found at i:65693 original size:17 final size:17
Alignment explanation
Indices: 65671--65705 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
65661 TTCTTCTTCT
65671 AATTTCTGACTCTGCTC
1 AATTTCTGACTCTGCTC
65688 AATTTCTGACTCTGCTC
1 AATTTCTGACTCTGCTC
65705 A
1 A
65706 TTCGGTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.11, T:0.40
Consensus pattern (17 bp):
AATTTCTGACTCTGCTC
Found at i:66802 original size:44 final size:41
Alignment explanation
Indices: 66752--66835 Score: 96
Period size: 44 Copynumber: 2.0 Consensus size: 41
66742 TTTTCAAAAT
*
66752 TTTTATTAGGTTTTATTTTTTTATAGATTTTTAATTAAATTTTC
1 TTTTATTAGCTTTTATTTTTTTA-A-ATTTTTAATT-AATTTTC
** * *
66796 TTTTATTTTCTTTTCTTTTTTTAAATTTTTCATTAATTTT
1 TTTTATTAGCTTTTATTTTTTTAAATTTTTAATTAATTTT
66836 ACTGATAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
41 6 0.17
42 9 0.26
43 1 0.03
44 19 0.54
ACGTcount: A:0.21, C:0.05, G:0.04, T:0.70
Consensus pattern (41 bp):
TTTTATTAGCTTTTATTTTTTTAAATTTTTAATTAATTTTC
Found at i:68421 original size:55 final size:55
Alignment explanation
Indices: 68355--68467 Score: 208
Period size: 55 Copynumber: 2.1 Consensus size: 55
68345 ATGTTCCCAT
68355 TGTTTTTCTATTTAGTATGCCTGAGCTGCAAATGTCACTGCACTTTCACTTGATA
1 TGTTTTTCTATTTAGTATGCCTGAGCTGCAAATGTCACTGCACTTTCACTTGATA
* *
68410 TGTTTTTCTATTTATTATGCCTGAGCTTCAAATGTCACTGCACTTTCACTTGATA
1 TGTTTTTCTATTTAGTATGCCTGAGCTGCAAATGTCACTGCACTTTCACTTGATA
68465 TGT
1 TGT
68468 CACAATAAAC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.44
Consensus pattern (55 bp):
TGTTTTTCTATTTAGTATGCCTGAGCTGCAAATGTCACTGCACTTTCACTTGATA
Found at i:73107 original size:34 final size:34
Alignment explanation
Indices: 73069--73144 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 34
73059 CATAGGTCTC
73069 GTTCGTTCAT-TTACGTTCG-TGAACGTTCGGTTAT
1 GTTCGTTCATGTT-CGTTCGAT-AACGTTCGGTTAT
* * * *
73103 GTTCGTTTATGTTCGTTCGATTATGTTCGTTTAT
1 GTTCGTTCATGTTCGTTCGATAACGTTCGGTTAT
73137 GTTCGTTC
1 GTTCGTTC
73145 GGTTATGTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
34 32 0.91
35 3 0.09
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.50
Consensus pattern (34 bp):
GTTCGTTCATGTTCGTTCGATAACGTTCGGTTAT
Found at i:73109 original size:24 final size:24
Alignment explanation
Indices: 73092--73164 Score: 137
Period size: 24 Copynumber: 3.0 Consensus size: 24
73082 CGTTCGTGAA
73092 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTTATGTTCGTTTATGTT
*
73116 CGTTCGATTATGTTCGTTTATGTT
1 CGTTCGGTTATGTTCGTTTATGTT
73140 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTTATGTTCGTTTATGTT
73164 C
1 C
73165 ATTCATTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.10, C:0.14, G:0.23, T:0.53
Consensus pattern (24 bp):
CGTTCGGTTATGTTCGTTTATGTT
Found at i:73120 original size:14 final size:14
Alignment explanation
Indices: 73103--73157 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 14
73093 GTTCGGTTAT
73103 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
73117 GTTCGATTA---T-
1 GTTCGTTTATGTTC
73127 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
73141 GTTCGGTTATGTTC
1 GTTCGTTTATGTTC
73155 GTT
1 GTT
73158 TATGTTCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 8 0.24
11 1 0.03
13 1 0.03
14 24 0.71
ACGTcount: A:0.09, C:0.13, G:0.24, T:0.55
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:73174 original size:24 final size:23
Alignment explanation
Indices: 73099--73177 Score: 113
Period size: 24 Copynumber: 3.3 Consensus size: 23
73089 GAACGTTCGG
73099 TTATGTTCGTTTATGTTCGTTCGA
1 TTATGTTCGTTTATGTTCGTTC-A
*
73123 TTATGTTCGTTTATGTTCGTTCGG
1 TTATGTTCGTTTATGTTCGTTC-A
*
73147 TTATGTTCGTTTATGTTCATTCA
1 TTATGTTCGTTTATGTTCGTTCA
73170 TTTATGTT
1 -TTATGTT
73178 TAACCCAATC
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.13, C:0.11, G:0.19, T:0.57
Consensus pattern (23 bp):
TTATGTTCGTTTATGTTCGTTCA
Found at i:73312 original size:14 final size:15
Alignment explanation
Indices: 73287--73322 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
73277 TAAAAATACT
*
73287 AAACCCTAAAACTTA
1 AAACCCTAAAACCTA
73302 AAACCCT-AAACCTA
1 AAACCCTAAAACCTA
73316 AAACCCT
1 AAACCCT
73323 TAATCTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (15 bp):
AAACCCTAAAACCTA
Found at i:74196 original size:45 final size:46
Alignment explanation
Indices: 74111--74200 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 46
74101 AAAAAGCCTG
* * *
74111 AGTGCAACGATGCATGGTCTTGTGCATCGATGCATCAAATGCATTA
1 AGTGCAACGATGAATGGTCATGTGCATCGATGCATAAAATGCATTA
*
74157 AGTGCATCGATGAATGGT-ATGTGCATCGATGCATAAAATGCATT
1 AGTGCAACGATGAATGGTCATGTGCATCGATGCATAAAATGCATT
74201 CGATGTTTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 24 0.60
46 16 0.40
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (46 bp):
AGTGCAACGATGAATGGTCATGTGCATCGATGCATAAAATGCATTA
Found at i:80809 original size:22 final size:21
Alignment explanation
Indices: 80767--80806 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
80757 GAGTTTATTT
*
80767 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
80788 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
80807 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:82827 original size:26 final size:26
Alignment explanation
Indices: 82780--82832 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
82770 TGAAAAAGCC
* *
82780 TGAGTGCATCGATGCATCAAATGCAT
1 TGAGTGCATCGATGCATAAAATACAT
**
82806 TGAGTGCATCGATGTGTAAAATACAT
1 TGAGTGCATCGATGCATAAAATACAT
82832 T
1 T
82833 CGATGTTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (26 bp):
TGAGTGCATCGATGCATAAAATACAT
Found at i:83148 original size:14 final size:14
Alignment explanation
Indices: 83118--83193 Score: 66
Period size: 14 Copynumber: 5.6 Consensus size: 14
83108 TTGTTTTCAA
*
83118 CCTAAA-CCTAAAA
1 CCTAAACCCTAAAC
**
83131 CCTAAACTTTAAAC
1 CCTAAACCCTAAAC
83145 CCTAAACCCTAAAC
1 CCTAAACCCTAAAC
*** *
83159 CCTAAATTATAAAT
1 CCTAAACCCTAAAC
*
83173 CAT-AACCCTAAAC
1 CCTAAACCCTAAAC
83186 CCTAAACC
1 CCTAAACC
83194 TTAATCTAAT
Statistics
Matches: 46, Mismatches: 15, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
13 14 0.30
14 32 0.70
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (14 bp):
CCTAAACCCTAAAC
Found at i:83150 original size:21 final size:20
Alignment explanation
Indices: 83120--83158 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
83110 GTTTTCAACC
83120 TAAACCTAAAACCTAAACTT
1 TAAACCTAAAACCTAAACTT
*
83140 TAAACCCTAAACCCTAAAC
1 TAAA-CCTAAAACCTAAAC
83159 CCTAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.21
Consensus pattern (20 bp):
TAAACCTAAAACCTAAACTT
Found at i:83158 original size:27 final size:28
Alignment explanation
Indices: 83141--83197 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 28
83131 CCTAAACTTT
83141 AAACCCTAAACCCTAAACCCTAAA-TTAT
1 AAACCCTAAACCCTAAACCCTAAACTT-T
* * *
83169 AAATCAT-AACCCTAAACCCTAAACCTT
1 AAACCCTAAACCCTAAACCCTAAACTTT
83196 AA
1 AA
83198 TCTAATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (28 bp):
AAACCCTAAACCCTAAACCCTAAACTTT
Done.