Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004577.1 Hibiscus syriacus cultivar Beakdansim tig00010202_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: 82731
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Found at i:6932 original size:64 final size:65
Alignment explanation
Indices: 6847--7000 Score: 197
Period size: 65 Copynumber: 2.4 Consensus size: 65
6837 ACCCTATTTT
* * * *
6847 GAATGCATTTTGTGTATCGATGCACA-ACCATGCATCGATGCACT-CTTGATTTTATTAAAACAT
1 GAATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCCTGGATCTT-TTAAAACAT
6910 C
65 C
* *
6911 GAATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCCTGGCTCTTTTGAAACATC
1 GAATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCCTGGATCTTTTAAAACATC
* *
6976 GAATGTA-ATTAGTGTACCGATGCAC
1 GAATGCATTTTA-TGTACCGATGCAC
7001 TAAGTCTTAT
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 27 0.34
65 46 0.58
66 6 0.08
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (65 bp):
GAATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCCTGGATCTTTTAAAACATC
Found at i:15337 original size:22 final size:22
Alignment explanation
Indices: 15309--15351 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15299 ACTAGAACCT
*
15309 TGGGGGGGTATCGATTCCCCTG
1 TGGGGGGGAATCGATTCCCCTG
*
15331 TGGGGGGGAATCGGTTCCCCT
1 TGGGGGGGAATCGATTCCCCT
15352 TCAAAGGGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.23, G:0.42, T:0.26
Consensus pattern (22 bp):
TGGGGGGGAATCGATTCCCCTG
Found at i:15380 original size:20 final size:21
Alignment explanation
Indices: 15334--15394 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
15324 TCCCCTGTGG
15334 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
15357 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
15377 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
15395 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:19222 original size:21 final size:21
Alignment explanation
Indices: 19198--19250 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
19188 GAGTTTGTTT
*
19198 TCATTTTTCA-ATTTTGAAACA
1 TCATTTTTCATATTTT-AAAAA
19219 TCATTTTT-ATATTTTAAAAA
1 TCATTTTTCATATTTTAAAAA
*
19239 TAATTTTTCATA
1 TCATTTTTCATA
19251 ATCCGAAGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (21 bp):
TCATTTTTCATATTTTAAAAA
Found at i:21136 original size:21 final size:21
Alignment explanation
Indices: 21088--21143 Score: 87
Period size: 20 Copynumber: 2.7 Consensus size: 21
21078 GTTTGGAGCG
21088 TGGGGGGGAATCGGTACCCCC
1 TGGGGGGGAATCGGTACCCCC
**
21109 T-ATGGGGAATCGGTACCCCC
1 TGGGGGGGAATCGGTACCCCC
21129 TGGGGGGGAATCGGT
1 TGGGGGGGAATCGGT
21144 TCCCTCCGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.16, C:0.23, G:0.43, T:0.18
Consensus pattern (21 bp):
TGGGGGGGAATCGGTACCCCC
Found at i:22381 original size:44 final size:44
Alignment explanation
Indices: 22307--22413 Score: 151
Period size: 44 Copynumber: 2.4 Consensus size: 44
22297 TTTTGTGCCC
*
22307 TATGCATCGATACACTATGAAAGTGTACCGATGCATCCCTTGAA
1 TATGCATCGATACACTATGAAAGTGCACCGATGCATCCCTTGAA
* * * * *
22351 TATGTATGGATACACTATGAAGGTGCACCGATGCATTCTTTGAA
1 TATGCATCGATACACTATGAAAGTGCACCGATGCATCCCTTGAA
*
22395 TGTGCATCGATACACTATG
1 TATGCATCGATACACTATG
22414 CAATGCATCG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (44 bp):
TATGCATCGATACACTATGAAAGTGCACCGATGCATCCCTTGAA
Found at i:22931 original size:13 final size:13
Alignment explanation
Indices: 22906--22949 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
22896 GAAAATTACA
22906 ATTGTTATTCAAAC
1 ATTGTT-TTCAAAC
*
22920 ATTGTTTTCAAAA
1 ATTGTTTTCAAAC
**
22933 ATAATTTTCAAAC
1 ATTGTTTTCAAAC
22946 ATTG
1 ATTG
22950 CCCATTAGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (13 bp):
ATTGTTTTCAAAC
Found at i:24357 original size:29 final size:28
Alignment explanation
Indices: 24323--24389 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
24313 ATTGTTTAAA
*
24323 ATTTTGAATATTTGACTTT-GTTTGTTTGG
1 ATTTTGAATATTT-ACTTTGGATTGTTT-G
*
24352 ATTTTGAATATTTAGTTTGGATTGTTTG
1 ATTTTGAATATTTACTTTGGATTGTTTG
24380 -TTTTGAATAT
1 ATTTTGAATAT
24390 GTTTTGGATG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 10 0.29
28 5 0.14
29 20 0.57
ACGTcount: A:0.21, C:0.01, G:0.19, T:0.58
Consensus pattern (28 bp):
ATTTTGAATATTTACTTTGGATTGTTTG
Found at i:24407 original size:25 final size:27
Alignment explanation
Indices: 24344--24407 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
24334 TTGACTTTGT
*
24344 TTGTTTGGATTTTGAATATTTAGTTTGGA
1 TTGTTTGG-TTTTGAATATGTA-TTTGGA
24373 TTGTTT-GTTTTGAATATGT-TTTGGA
1 TTGTTTGGTTTTGAATATGTATTTGGA
24398 -TGTTTGGTTT
1 TTGTTTGGTTT
24408 GTTTGAATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 5 0.15
25 10 0.30
27 11 0.33
28 1 0.03
29 6 0.18
ACGTcount: A:0.16, C:0.00, G:0.25, T:0.59
Consensus pattern (27 bp):
TTGTTTGGTTTTGAATATGTATTTGGA
Found at i:25166 original size:65 final size:64
Alignment explanation
Indices: 25038--25193 Score: 199
Period size: 65 Copynumber: 2.4 Consensus size: 64
25028 ACACCCTATT
* * * *
25038 TCGAATGCATTTTGTGTACCGATGCACAACCATGCATCGATACACTCTTGATTTTATTGAAACA
1 TCGAATGCATTTTATGTACCGATGCACAACCATCCATCGATACACTCCTGATCTTATTGAAACA
* *
25102 TCGAATGCATTTTATGTACCGATGCATATACCATCCATCGATGCACTCCTGACTCTT-TTGAAAC
1 TCGAATGCATTTTATGTACCGATGCACA-ACCATCCATCGATACACTCCTGA-TCTTATTGAAAC
25166 A
64 A
* *
25167 TCGAATGTA-ATTAGTGTACCGATGCAC
1 TCGAATGCATTTTA-TGTACCGATGCAC
25194 TAAGTCTTAT
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 29 0.36
65 48 0.60
66 3 0.04
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (64 bp):
TCGAATGCATTTTATGTACCGATGCACAACCATCCATCGATACACTCCTGATCTTATTGAAACA
Found at i:29467 original size:30 final size:30
Alignment explanation
Indices: 29433--29490 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
29423 TTTTGTCATA
*
29433 GGTCAA-ATTGATATTTTATCTAAAATTTAT
1 GGTCAAGA-TGATATTTCATCTAAAATTTAT
29463 GGTCAAGATGATATTTCATCTAAAATTT
1 GGTCAAGATGATATTTCATCTAAAATTT
29491 TAGGGTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (30 bp):
GGTCAAGATGATATTTCATCTAAAATTTAT
Found at i:30201 original size:2 final size:2
Alignment explanation
Indices: 30194--30221 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30184 GTAATTATGA
30194 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
30222 GTATTATAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37396 original size:7 final size:7
Alignment explanation
Indices: 37381--37414 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
37371 CAGAGTGTAG
37381 CGGCGGA
1 CGGCGGA
*
37388 CGGCTGA
1 CGGCGGA
37395 CGGCGG-
1 CGGCGGA
37401 CGGCGGA
1 CGGCGGA
37408 CGGCGGA
1 CGGCGGA
37415 TGATGACGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.12, C:0.29, G:0.56, T:0.03
Consensus pattern (7 bp):
CGGCGGA
Found at i:40546 original size:20 final size:20
Alignment explanation
Indices: 40523--40561 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
40513 AAATATGAAC
*
40523 AAATAAAATTAAAACAATAA
1 AAATAAAACTAAAACAATAA
**
40543 AAATACCACTAAAACAATA
1 AAATAAAACTAAAACAATA
40562 TATTTTAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (20 bp):
AAATAAAACTAAAACAATAA
Found at i:41982 original size:3 final size:3
Alignment explanation
Indices: 41974--42032 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
41964 AATATATATT
* *
41974 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
42022 TAA TAA TAA TA
1 TAA TAA TAA TA
42033 TGGATAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:42624 original size:226 final size:227
Alignment explanation
Indices: 42350--43329 Score: 950
Period size: 226 Copynumber: 4.4 Consensus size: 227
42340 TAGAATTATG
* *
42350 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTTTTTCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCA
* *
42415 TTATGAACTTCTCC-GGAAAAGATAATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAAT
66 TTATGAACTTCTCCTGGAAAAGATAATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAAT
*
42479 TCTTCTAATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCCTGG
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCCTGG
*
42544 CAATGTTGATCCATCAAATGATGAATTCAAAC
196 CAATGATGATCCATCAAATGATGAATTCAAAC
* *
42576 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTTTTCCTTCTTCAGATGATGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTC--A-GATGAGTTCTTC
* * * * * ** **
42641 TCATTATGAAC-TCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACCAAAAAATTGAA
63 TCATTATGAACTTCT-CCTGGAAAAGATAATCCATCAAGTGATGAATTC-AGGCAAAAGGTTGAA
* *
42705 CAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACT
126 CAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTCTCATTATGAACT
* *
42770 CTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
188 CTTCCTGGCAATGATGATCCATCAAATGATGAATTCAAAC
* * * *
42810 CAAAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTTTTCATATGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC-T-TT-TTCCTTCTTCAGATGAGTTCTTC
** * ** * * * * *
42875 TCATTATGAACTT-TCCGCTGGGGATGATGCTCTATCAAGTAATGGATTCATGTAAAAGGTTTGA
63 TCATTATGAACTTCT-C-CTGGAAAAGATAATCCATCAAGTGATGAATTCAGGCAAAAGG-TTGA
* * * ** * *
42939 ACAAATTCTTCCTTCTTTA-GATGAGTTCTTC-T-C--ATT---ATGAACT-TTCTC-TGGA-AA
125 ACAAATTCTT-C-TCATTATGA--ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT-TATGA
** * *
42993 AGCTGATCCAT--CAA--ATG---------ATG--G-ATT-TAAG
185 A-CTCTTCC-TGGCAATGATGATCCATCAAATGATGAATTCAAAC
* * * *
43021 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
43086 TTATGAACTT-TCTCTGGAAAAAATAATCCATCAAGTGATGAATTCAGACAAAATGTTGAACAAA
66 TTATGAACTTCTC-CTGGAAAAGATAATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAA
43150 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-CTTCTCT
130 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTC-CT
** * * *
43214 GGCAAAAATAATCCATCAAGTGATGAATTCAGA-
194 GGCAATGATGATCCATCAAATGATGAATTCAAAC
* * *
43247 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCA
43312 TTATGAACCTTCT-CTGGA
66 TTATGAA-CTTCTCCTGGA
43330 GATGTCAATA
Statistics
Matches: 614, Mismatches: 87, Indels: 106
0.76 0.11 0.13
Matches are distributed among these distances:
203 7 0.01
204 6 0.01
205 4 0.01
206 14 0.02
207 32 0.05
208 34 0.06
209 1 0.00
210 9 0.01
211 42 0.07
212 9 0.01
213 1 0.00
214 2 0.00
215 3 0.00
223 2 0.00
224 2 0.00
225 1 0.00
226 132 0.21
227 14 0.02
228 11 0.02
229 25 0.04
230 25 0.04
231 44 0.07
233 1 0.00
234 127 0.21
235 40 0.07
236 6 0.01
237 14 0.02
238 6 0.01
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.38
Consensus pattern (227 bp):
CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTCTCCTGGAAAAGATAATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAAT
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCCTGG
CAATGATGATCCATCAAATGATGAATTCAAAC
Found at i:42675 original size:117 final size:115
Alignment explanation
Indices: 42350--42886 Score: 771
Period size: 117 Copynumber: 4.7 Consensus size: 115
42340 TAGAATTATG
* *
42350 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTTTTTCTTCTTCA-GATGAGTTCTTCTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCATGATGAGTTCTTCTC
* * * * * **
42414 ATTATGAACTTCT-CC-GGAAAAGATAATCCATCAATTGATGAATTC-AGG
66 ATTATGAAC-TCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
* * * * *
42462 TAAAAGGTTGAACAAATTCTTCTAATTATGAACTTCTTCTTCCTTCTTCA-GATGAGTTCTTCTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCATGATGAGTTCTTCTC
*
42526 ATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
66 ATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
* *
42576 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTTTTCCTTCTTCAGATGATGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTC--ATGATGAGTTCTTC
42641 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
64 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
*
42693 CAAAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGATGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTC--ATGATGAGTTCTTC
42758 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
64 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
* * *
42810 CAAAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTTTTCAT-ATGAGTTCTT
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC-T-TT-TTCCTTCTTCATGATGAGTTCTT
42874 CTCATTATGAACT
63 CTCATTATGAACT
42887 TTCCGCTGGG
Statistics
Matches: 393, Mismatches: 23, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
111 3 0.01
112 69 0.18
113 25 0.06
114 46 0.12
116 1 0.00
117 236 0.60
118 3 0.01
119 2 0.01
120 8 0.02
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.39
Consensus pattern (115 bp):
CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCATGATGAGTTCTTCTC
ATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
Found at i:42970 original size:95 final size:93
Alignment explanation
Indices: 42864--43042 Score: 241
Period size: 94 Copynumber: 1.9 Consensus size: 93
42854 TCTTTTTCAT
** * * * * *
42864 ATGAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGCTCTATCAAGTAATGGATTCATGTA
1 ATGAGTTCTTCTCATTATGAACTTT-CGCTGGAAAAGATGATCCATCAAATAATGGATTCAAGTA
42929 AAAGGTTTGAACAAATTCTTCCTTCTTTAG
65 AAAGG-TTGAACAAATTCTTCCTTCTTTAG
* * * *
42959 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTAAGTAA
1 ATGAGTTCTTCTCATTATGAACTTTCGCTGGAAAAGATGATCCATCAAATAATGGATTCAAGTAA
43024 AAGGTTGAACAAATTCTTC
66 AAGGTTGAACAAATTCTTC
43043 TCATTATGAA
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
93 15 0.21
94 33 0.45
95 25 0.34
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (93 bp):
ATGAGTTCTTCTCATTATGAACTTTCGCTGGAAAAGATGATCCATCAAATAATGGATTCAAGTAA
AAGGTTGAACAAATTCTTCCTTCTTTAG
Found at i:43345 original size:113 final size:113
Alignment explanation
Indices: 42944--43329 Score: 639
Period size: 113 Copynumber: 3.4 Consensus size: 113
42934 TTTGAACAAA
* * ** *
42944 TTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAAT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAAATAATCCATCAAAT
* * *
43009 GATGGATTTA-AGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
66 GATGAATTCAGA-CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
* *
43057 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAAATAATCCATCAAGT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAAATAATCCATCAAAT
*
43122 GATGAATTCAGACAAAATGTTGAACAAATTCTTCTCATTATGAACTTC
66 GATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
* *
43170 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAAGT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAAATAATCCATCAAAT
43235 GATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
66 GATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
43283 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGA
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGA
43330 GATGTCAATA
Statistics
Matches: 259, Mismatches: 13, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
113 258 1.00
114 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (113 bp):
TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAAATAATCCATCAAAT
GATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
Found at i:44225 original size:83 final size:83
Alignment explanation
Indices: 44086--44395 Score: 473
Period size: 83 Copynumber: 3.7 Consensus size: 83
44076 GTAGTTCTTA
** *
44086 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATTTTATGAGCAAATTCATCTTCCAA
*
44151 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGATTCTG
*
44169 CCAAACCAGATCAGATAACTCAAAGAATACTTCCAGAAGATTTTATTG-GCAAATTCATCTTCCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATTTTA-TGAGCAAATTCATCTTCCA
44233 AATTCAATGATTGATTCTG
65 AATTCAATGATTGATTCTG
* * *
44252 TCC-AACCAGATTAGATAACTCAAAGAATACTTCCAGAAGATTTTATGAGCAAATTCATCTTCTA
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATTTTATGAGCAAATTCATCTTCCA
44316 AATTCAATGATTGATTCTG
65 AATTCAATGATTGATTCTG
* * *
44335 TCTAACCCGATCAGATAACTCAAAGAACACTTCCAGAAGATTTTATTG-GCAAATTCATCTT
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATTTTA-TGAGCAAATTCATCTT
44396 TCAGTTAATG
Statistics
Matches: 211, Mismatches: 11, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
82 3 0.01
83 202 0.96
84 6 0.03
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATTTTATGAGCAAATTCATCTTCCAA
ATTCAATGATTGATTCTG
Found at i:45535 original size:1 final size:1
Alignment explanation
Indices: 45531--45582 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
45521 TTGACCCCCC
* * * * * *
45531 TTTTTCTTTTTTCTTTTTTTTTTCTTTTTTTTTCTTTTTTCTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
45583 CTTCAAGCAT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:45543 original size:7 final size:7
Alignment explanation
Indices: 45531--45582 Score: 63
Period size: 7 Copynumber: 7.4 Consensus size: 7
45521 TTGACCCCCC
45531 TTTTTCT
1 TTTTTCT
45538 TTTTTCT
1 TTTTTCT
45545 TTTTT-T
1 TTTTTCT
*
45551 TTTCTTTT
1 TTT-TTCT
45559 TTTTTCT
1 TTTTTCT
45566 TTTTTCT
1 TTTTTCT
45573 CTTTTT-T
1 -TTTTTCT
45580 TTT
1 TTT
45583 CTTCAAGCAT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
6 7 0.17
7 25 0.61
8 9 0.22
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:45550 original size:10 final size:10
Alignment explanation
Indices: 45537--45585 Score: 73
Period size: 10 Copynumber: 4.9 Consensus size: 10
45527 CCCCTTTTTC
45537 TTTTTTCTTTT
1 TTTTTTC-TTT
45548 TTTTTTCTTT
1 TTTTTTCTTT
45558 TTTTTTC-TT
1 TTTTTTCTTT
*
45567 TTTTCTCTTT
1 TTTTTTCTTT
45577 TTTTTTCTT
1 TTTTTTCTT
45586 CAAGCATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
9 8 0.23
10 20 0.57
11 7 0.20
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:45553 original size:19 final size:18
Alignment explanation
Indices: 45531--45585 Score: 78
Period size: 17 Copynumber: 3.1 Consensus size: 18
45521 TTGACCCCCC
45531 TTTTTCTTTTTTCTTTT-T
1 TTTTTCTTTTTT-TTTTCT
45549 TTTTTC-TTTTTTTTTCT
1 TTTTTCTTTTTTTTTTCT
45566 TTTTTCTCTTTTTTTTTCT
1 TTTTTCT-TTTTTTTTTCT
45585 T
1 T
45586 CAAGCATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.12
17 12 0.35
18 6 0.18
19 12 0.35
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (18 bp):
TTTTTCTTTTTTTTTTCT
Found at i:45569 original size:28 final size:29
Alignment explanation
Indices: 45531--45585 Score: 103
Period size: 28 Copynumber: 1.9 Consensus size: 29
45521 TTGACCCCCC
45531 TTTTTCTTTTTTCT-TTTTTTTTTCTTTT
1 TTTTTCTTTTTTCTCTTTTTTTTTCTTTT
45559 TTTTTCTTTTTTCTCTTTTTTTTTCTT
1 TTTTTCTTTTTTCTCTTTTTTTTTCTT
45586 CAAGCATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 14 0.54
29 12 0.46
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (29 bp):
TTTTTCTTTTTTCTCTTTTTTTTTCTTTT
Found at i:56296 original size:6 final size:7
Alignment explanation
Indices: 56277--56301 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
56267 TAAATATATA
56277 AATTTTT
1 AATTTTT
56284 AATTTTT
1 AATTTTT
56291 AATTTTT
1 AATTTTT
56298 AATT
1 AATT
56302 AATAGAGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
AATTTTT
Found at i:57007 original size:20 final size:20
Alignment explanation
Indices: 56984--57022 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
56974 AAATATGAAC
*
56984 AAATAAAATTAAAACAATAA
1 AAATAAAACTAAAACAATAA
**
57004 AAATATCACTAAAACAATA
1 AAATAAAACTAAAACAATA
57023 TATTTTAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (20 bp):
AAATAAAACTAAAACAATAA
Found at i:58431 original size:3 final size:3
Alignment explanation
Indices: 58423--58484 Score: 106
Period size: 3 Copynumber: 20.7 Consensus size: 3
58413 AATATATATT
* *
58423 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
58471 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
58485 TGGATAAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:65090 original size:13 final size:13
Alignment explanation
Indices: 65055--65092 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
65045 TTTCTTCGAT
65055 AATAAATA-TTAA
1 AATAAATATTTAA
*
65067 AATAATTTATTTAA
1 AATAA-ATATTTAA
65081 AATAAATATTTA
1 AATAAATATTTA
65093 TTTATTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 5 0.23
13 8 0.36
14 9 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AATAAATATTTAA
Found at i:66507 original size:17 final size:17
Alignment explanation
Indices: 66473--66508 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
66463 CCCTAAATGT
**
66473 TTTGGGTTTCAGTTTGG
1 TTTGGGTTTCAGGCTGG
66490 TTTGGGTTTCAGGCTGG
1 TTTGGGTTTCAGGCTGG
66507 TT
1 TT
66509 GATTGGGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.08, G:0.36, T:0.50
Consensus pattern (17 bp):
TTTGGGTTTCAGGCTGG
Found at i:66567 original size:3 final size:3
Alignment explanation
Indices: 66559--66641 Score: 139
Period size: 3 Copynumber: 27.7 Consensus size: 3
66549 AATATATATT
*
66559 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
66607 TAA TGA TAA TAA TAA TAA TAA TAA TAA TTA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
66642 TGGGTAAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:67095 original size:116 final size:113
Alignment explanation
Indices: 66957--67600 Score: 914
Period size: 116 Copynumber: 5.6 Consensus size: 113
66947 TGATAGAATT
* *
66957 ATTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCATTCTTCAGATAACGAGTTCTTCTCATTA
1 ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTA
67022 TGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAG
63 TGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAG
**
67073 ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTAACTTCTTCAGATGACGAGTTCTTCTCATTA
1 ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTA
*
67138 TGAACTCTACCTGGCAATATTGATCCATCAAATGATGAATTCAAGCAAAAG
63 TGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAG
67189 ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTA
1 ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTA
*
67254 TGAACTCTACCTGGCAATATTGATCCATCAAATGATGAATTCAAGCAAAAG
63 TGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAG
*
67305 ATTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* * * * * * * *
67370 ACT-TTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAG
66 ACTCTAC-CTGGCAATGTTGATCCATCAA-ATGATGAATTCAAGCAAAAG
* *
67419 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* * * * * * * *
67484 AC-CTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAG
66 ACTCTAC-CTGGCAATGTTGATCCATCAA-ATGATGAATTCAAGCAAAAG
* *
67533 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
67598 ACT
66 ACT
67601 TCTTCTTCCT
Statistics
Matches: 503, Mismatches: 21, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
112 2 0.00
113 37 0.07
114 194 0.39
116 270 0.54
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (113 bp):
ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
ACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAG
Found at i:67587 original size:40 final size:40
Alignment explanation
Indices: 67543--67795 Score: 234
Period size: 40 Copynumber: 6.5 Consensus size: 40
67533 GTTGAACAAA
67543 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
67583 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
***** *
67623 TTCTTCTCATTATGAAC--CTTC-T-CTGGAAAAGAT-AA
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* * * *** ****** * ** *
67658 TCCATC-AATTTGATGAA-TTCAGGTAAAAGGTTGA-ACAAA
1 TTCTTCTCA-TT-ATGAACTTCTTCTTCCTTCTTCAGATGAG
67697 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
67737 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
67777 TTCTTCTCATTATGAACTT
1 TTCTTCTCATTATGAACTT
67796 TCTCTGGAAA
Statistics
Matches: 168, Mismatches: 35, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
34 1 0.01
35 7 0.04
36 11 0.07
37 2 0.01
38 10 0.06
39 18 0.11
40 119 0.71
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.43
Consensus pattern (40 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
Found at i:67603 original size:154 final size:154
Alignment explanation
Indices: 67429--67911 Score: 896
Period size: 154 Copynumber: 3.1 Consensus size: 154
67419 GTTGAACAAA
67429 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
67494 GAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
66 GAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
67559 CTTCTTCTTCCTTCTTCAGATGAG
131 CTTCTTCTTCCTTCTTCAGATGAG
67583 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
67648 GAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
66 GAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
67713 CTTCTTCTTCCTTCTTCAGATGAG
131 CTTCTTCTTCCTTCTTCAGATGAG
*
67737 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* * * *
67802 GAAAAGCTGATCCATCAA-GTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
66 GAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
67866 CTTCTTCTTCCTTCTTCAGATGAG
131 CTTCTTCTTCCTTCTTCAGATGAG
*
67890 TTCTTTTCATTATGAACCTTCT
1 TTCTTCTCATTATGAA-CTTCT
67912 CTGGAAAAGC
Statistics
Matches: 322, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
153 83 0.26
154 239 0.74
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (154 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
GAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
CTTCTTCTTCCTTCTTCAGATGAG
Found at i:68007 original size:114 final size:114
Alignment explanation
Indices: 67737--68617 Score: 1576
Period size: 114 Copynumber: 7.8 Consensus size: 114
67727 TTCAGATGAG
* * *
67737 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCACTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
67802 GAAAAGCTGATCCATCAAGTGATGAATTCAGGC-AAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAAGGTTGAACAAA
* * * * *
67850 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTTTCATTATGAACCTTCTCTG
1 TTCTTCTCACTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
67915 GAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAAGGTTGAACAAA
67964 TTCTTCTCACTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCACTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
*
68029 GAAAAGCTGATCCATCCAGTGATGAATTCAGGCAAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAAGGTTGAACAAA
*
68078 TTCTTCTCACTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCACTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
68143 GAAAAGCTGATCCATCAAGTGATGAATTCAGGC-AAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAAGGTTGAACAAA
68191 TTCTTCTCACTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCACTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
68256 GAAAAGTTGATCCATCAA-T-TTGAATTCAGGCAAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAAGGTTGAACAAA
68303 TTCTTCTCACTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCACTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
68368 GAAAAGCTGATCCATCCAA-TGATGAATTCAGGCAAAAAGGTTGAACAAA
66 GAAAAGCTGATCCAT-CAAGTGATGAATTCAGGCAAAAAGGTTGAACAAA
*
68417 TTCTTCTCACTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCACTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
68482 GAAAAGCTGATCCATCAAGTGATGAATTCAGGC-AAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAAGGTTGAACAAA
*
68530 TTCTTCTCACTTTGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCACTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
*
68595 GAAAAGCTGATCCATCAAATGAT
66 GAAAAGCTGATCCATCAAGTGAT
68618 AGATTTGAAT
Statistics
Matches: 744, Mismatches: 19, Indels: 10
0.96 0.02 0.01
Matches are distributed among these distances:
111 11 0.01
112 95 0.13
113 299 0.40
114 339 0.46
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (114 bp):
TTCTTCTCACTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAAGGTTGAACAAA
Found at i:68441 original size:339 final size:341
Alignment explanation
Indices: 67737--68617 Score: 1622
Period size: 339 Copynumber: 2.6 Consensus size: 341
67727 TTCAGATGAG
* * * *
67737 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCACTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* *
67802 GAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 GAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCACTATGAAT
* * *
67867 TTCTTCTTCCTTCTTCAGATGAGTTCTTTTCATTATGAACCTTCTCTGGAAAAGCTGATCCATCA
131 TTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
67932 AGTGATGAATTCAGGCAAAAAGGTTGAACAAATTCTTCTCACTATGAATTTCTTCTTCCTTTTTC
196 AGTGATGAATTCAGGCAAAAAGGTTGAACAAATTCTTCTCACTATGAATTTCTTCTTCCTTTTTC
*
67997 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCCAGTGATGAATTCAGGC
261 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCCAATGATGAATTCAGGC
68062 AAAAAGGTTGAACAAA
326 AAAAAGGTTGAACAAA
68078 TTCTTCTCACTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCACTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
68143 GAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCACTATGAAT
66 GAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCACTATGAAT
*
68208 TTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATCA
131 TTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
*
68273 A-T-TTGAATTCAGGCAAAAAGGTTGAACAAATTCTTCTCACTATGAATTTCTTCTTCCTTTTTC
196 AGTGATGAATTCAGGCAAAAAGGTTGAACAAATTCTTCTCACTATGAATTTCTTCTTCCTTTTTC
68336 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCCAATGATGAATTCAGGC
261 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCCAATGATGAATTCAGGC
68401 AAAAAGGTTGAACAAA
326 AAAAAGGTTGAACAAA
68417 TTCTTCTCACTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCACTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
*
68482 GAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCACTTTGAAT
66 GAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCACTATGAAT
68547 TTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
131 TTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
*
68612 AATGAT
196 AGTGAT
68618 AGATTTGAAT
Statistics
Matches: 523, Mismatches: 15, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
339 334 0.64
340 2 0.00
341 187 0.36
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (341 bp):
TTCTTCTCACTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
GAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCACTATGAAT
TTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
AGTGATGAATTCAGGCAAAAAGGTTGAACAAATTCTTCTCACTATGAATTTCTTCTTCCTTTTTC
AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCCAATGATGAATTCAGGC
AAAAAGGTTGAACAAA
Found at i:69501 original size:83 final size:83
Alignment explanation
Indices: 69357--69811 Score: 838
Period size: 83 Copynumber: 5.5 Consensus size: 83
69347 CCTACCGAAT
* * * * *
69357 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAATTTAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAA
69422 TGATTGGTTCTGCCAAAC
66 TGATTGGTTCTGCCAAAC
69440 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAA
69505 TGATTGGTTCTGCCAAAC
66 TGATTGGTTCTGCCAAAC
*
69523 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAATTTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAA
69588 TGATTGGTTCTGCCAAAC
66 TGATTGGTTCTGCCAAAC
* *
69606 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAATTTCATCTTCTAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAA
69671 TGATTGGTTCTGCCAAAC
66 TGATTGGTTCTGCCAAAC
69689 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAA
69754 TGATTGGTTCTGCCAAAC
66 TGATTGGTTCTGCCAAAC
69772 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
69812 GAGCCCATTG
Statistics
Matches: 363, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 363 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.27
Consensus pattern (83 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAA
TGATTGGTTCTGCCAAAC
Found at i:70521 original size:20 final size:20
Alignment explanation
Indices: 70479--70521 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
70469 TTCATAGAAG
* *
70479 AATAAATTTGAATTTCCAAA
1 AATAAATTTGAATCTCAAAA
70499 AATAAA-TTGAATCTCAAATA
1 AATAAATTTGAATCTCAAA-A
70519 AAT
1 AAT
70522 TGAACTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (20 bp):
AATAAATTTGAATCTCAAAA
Found at i:70873 original size:17 final size:17
Alignment explanation
Indices: 70853--70918 Score: 80
Period size: 17 Copynumber: 3.8 Consensus size: 17
70843 CCTTGACCCC
70853 TTTTTTTTTCTTCTTCT
1 TTTTTTTTTCTTCTTCT
* *
70870 TTTTTTCTTCTTTTTCT
1 TTTTTTTTTCTTCTTCT
70887 TTTTTTTTTCTTTCTT-T
1 TTTTTTTTTC-TTCTTCT
70904 TTTCCTTTTTTCTTC
1 TTT--TTTTTTCTTC
70919 AAGCATAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
17 28 0.67
18 7 0.17
19 7 0.17
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTCTTCTTCT
Found at i:70874 original size:14 final size:15
Alignment explanation
Indices: 70855--70917 Score: 74
Period size: 15 Copynumber: 4.1 Consensus size: 15
70845 TTGACCCCTT
70855 TTTTTTTCTTC-TTC
1 TTTTTTTCTTCTTTC
70869 TTTTTTTCTTCTTTTTC
1 TTTTTTTCTTC--TTTC
*
70886 TTTTTTTTTTCTTTC
1 TTTTTTTCTTCTTTC
* *
70901 TTTTTTCCTTTTTTC
1 TTTTTTTCTTCTTTC
70916 TT
1 TT
70918 CAAGCATAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
14 11 0.26
15 18 0.43
17 13 0.31
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTCTTCTTTC
Found at i:70877 original size:11 final size:11
Alignment explanation
Indices: 70855--70906 Score: 61
Period size: 11 Copynumber: 4.5 Consensus size: 11
70845 TTGACCCCTT
70855 TTTTTTTCTTC
1 TTTTTTTCTTC
70866 TTCTTTTT-TTC
1 TT-TTTTTCTTC
*
70877 TTCTTTTTCTTT
1 TT-TTTTTCTTC
70889 TTTTTTTCTTTC
1 TTTTTTTC-TTC
70901 TTTTTT
1 TTTTTT
70907 CCTTTTTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
11 19 0.53
12 17 0.47
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTCTTC
Found at i:70892 original size:20 final size:21
Alignment explanation
Indices: 70863--70914 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
70853 TTTTTTTTTC
70863 TTCTTCTTTTTTTC-TTCTTT
1 TTCTTCTTTTTTTCTTTCTTT
*
70883 TTCTTTTTTTTTTCTTTCTTT
1 TTCTTCTTTTTTTCTTTCTTT
*
70904 TT-TCCTTTTTT
1 TTCTTCTTTTTT
70915 CTTCAAGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (21 bp):
TTCTTCTTTTTTTCTTTCTTT
Found at i:82199 original size:14 final size:16
Alignment explanation
Indices: 82180--82212 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
82170 ATAATAAATA
82180 TTAAAAT-AAT-TTAT
1 TTAAAATAAATATTAT
82194 TTAAAATAAATATTAT
1 TTAAAATAAATATTAT
82210 TTA
1 TTA
82213 TTATATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 3 0.18
16 7 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAAAATAAATATTAT
Done.