Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004375.1 Hibiscus syriacus cultivar Beakdansim tig00009584_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: 89277
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Found at i:3749 original size:12 final size:12
Alignment explanation
Indices: 3732--3756 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3722 AAATAATAAA
3732 GAATGAAAGAAT
1 GAATGAAAGAAT
3744 GAATGAAAGAAT
1 GAATGAAAGAAT
3756 G
1 G
3757 TTTGCCAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.16
Consensus pattern (12 bp):
GAATGAAAGAAT
Found at i:5813 original size:17 final size:18
Alignment explanation
Indices: 5775--5813 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
5765 AATGTTATTG
*
5775 TTATTAGAATTTTGGTTA
1 TTATTAGAAGTTTGGTTA
*
5793 TTATTATAAGTTTGG-TA
1 TTATTAGAAGTTTGGTTA
5810 TTAT
1 TTAT
5814 GTAGTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.56
Consensus pattern (18 bp):
TTATTAGAAGTTTGGTTA
Found at i:9157 original size:16 final size:16
Alignment explanation
Indices: 9131--9168 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
9121 CCTACTAAAG
9131 CATGATTGGGTACATAC
1 CATG-TTGGGTACATAC
*
9148 CATGTTGGGTAGATAC
1 CATGTTGGGTACATAC
9164 CATGT
1 CATGT
9169 GAATAAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (16 bp):
CATGTTGGGTACATAC
Found at i:19141 original size:8 final size:7
Alignment explanation
Indices: 19130--19216 Score: 54
Period size: 7 Copynumber: 12.0 Consensus size: 7
19120 AAAATGAGAA
19130 AAAAAAT
1 AAAAAAT
19137 CAAAAGAAT
1 -AAAA-AAT
*
19146 GAAAAAT
1 AAAAAAT
*
19153 GAAAAAT
1 AAAAAAT
*
19160 GAAAAAT
1 AAAAAAT
19167 GAAAAAAT
1 -AAAAAAT
19175 GAAAAAAT
1 -AAAAAAT
19183 GAAAAAA-
1 -AAAAAAT
19190 AGAAAAA-
1 A-AAAAAT
*
19197 AAGAAA-
1 AAAAAAT
*
19203 AAAAAAG
1 AAAAAAT
19210 AAAAAAT
1 AAAAAAT
19217 GAATAAAAGG
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
6 10 0.14
7 29 0.41
8 28 0.40
9 3 0.04
ACGTcount: A:0.78, C:0.01, G:0.11, T:0.09
Consensus pattern (7 bp):
AAAAAAT
Found at i:19153 original size:7 final size:7
Alignment explanation
Indices: 19143--19188 Score: 74
Period size: 7 Copynumber: 6.3 Consensus size: 7
19133 AAATCAAAAG
19143 AATGAAA
1 AATGAAA
19150 AATGAAA
1 AATGAAA
19157 AATGAAA
1 AATGAAA
19164 AATGAAAA
1 AATG-AAA
19172 AATGAAAA
1 AATG-AAA
19180 AATGAAA
1 AATGAAA
19187 AA
1 AA
19189 AAGAAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 23 0.61
8 15 0.39
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (7 bp):
AATGAAA
Found at i:19181 original size:16 final size:16
Alignment explanation
Indices: 19130--19224 Score: 97
Period size: 16 Copynumber: 5.9 Consensus size: 16
19120 AAAATGAGAA
*
19130 AAAAAATCAAAAGAATG
1 AAAAAATGAAAA-AATG
19147 -AAAAATG-AAAAATG
1 AAAAAATGAAAAAATG
19161 -AAAAATGAAAAAATG
1 AAAAAATGAAAAAATG
*
19176 AAAAAATGAAAAAAAG
1 AAAAAATGAAAAAATG
* *
19192 AAAAAAAGAAAAAAAAAG
1 AAAAAATG--AAAAAATG
19210 AAAAAATGAATAAAA
1 AAAAAATGAA-AAAA
19225 GGGGGTTTCA
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
14 11 0.16
15 10 0.14
16 29 0.42
17 4 0.06
18 15 0.22
ACGTcount: A:0.78, C:0.01, G:0.12, T:0.09
Consensus pattern (16 bp):
AAAAAATGAAAAAATG
Found at i:19195 original size:7 final size:7
Alignment explanation
Indices: 19146--19225 Score: 58
Period size: 7 Copynumber: 11.1 Consensus size: 7
19136 TCAAAAGAAT
*
19146 GAAAAAT
1 GAAAAAA
*
19153 GAAAAAT
1 GAAAAAA
*
19160 GAAAAAT
1 GAAAAAA
19167 GAAAAAA
1 GAAAAAA
19174 TGAAAAAA
1 -GAAAAAA
19182 TGAAAAAA
1 -GAAAAAA
19190 -AGAAAAA
1 GA-AAAAA
*
19197 -AAGAAA
1 GAAAAAA
19203 -AAAAAA
1 GAAAAAA
19209 GAAAAAA
1 GAAAAAA
19216 TGAATAAAA
1 -GAA-AAAA
19225 G
1 G
19226 GGGGTTTCAA
Statistics
Matches: 65, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
6 10 0.15
7 32 0.49
8 19 0.29
9 4 0.06
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.09
Consensus pattern (7 bp):
GAAAAAA
Found at i:20582 original size:54 final size:54
Alignment explanation
Indices: 20511--22262 Score: 1515
Period size: 54 Copynumber: 32.5 Consensus size: 54
20501 ATTATTTGAA
**
20511 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGCCCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* *
20565 TTCTATACTCCCAGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
*
20619 TTCTATACTCCCTGAAGAAAGAGGGAGTGAACCCGTTTGAAGAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* * * *
20673 TTCTATACTCTCTGAAGAAAGAGGGAGCAAACCCGTTCGAACAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* **
20727 TTCTATACTCCCTAAAGAAAGAGGGAATGAACCCGTTTGAAGAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* *
20781 TTCTATACTCTCTGAAGAAAGAGGGAGCGAACACGTTTGAAGAAGAT-TTCCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTT-CGAG
** *
20835 TTCTATACTCTTTGAAGAAAGAGGGAGCAAACCCGTTTGAAGAAGATG-TCTGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC-GAG
* * *
20889 TTCTATACTTCCTGAAGAAAGAGGGAGTGAACCCATTTGAAGAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* * * *
20943 TTATATTCTCTCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCAAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
*
20997 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* *
21051 TTCTATACTCCTTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* * * *
21105 TTCTATACTCTCTGAAGAAAGAGGGAGCAAACCCGTTCGAACAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* **
21159 TTCTATACTCCCTAAAGAAAGAGGGAATGAACCCGTTTGAAGAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* *
21213 TTCTATACTCTCTGAAGAAAGAGGGAGCGAACACGTTTGAAGAAGAT-TTCCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTT-CGAG
** *
21267 TTCTATACTCTTTGAAGAAAGAGGGAGCAAACCCGTTTGAAGAAGATG-TCTGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC-GAG
* * *
21321 TTCTATACTTCCTGAAGAAAGAGGGAGTGAACCCATTTGAAGAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* *
21375 TTATATTCTCTCC-GAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
1 TTCTATACTC-CCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* * * *
21429 TTATATACTCCCTGAAGAAAGAGGGAGCAAACCCGTTCGAACAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* * * *
21483 TTCTATACTCCCTAAAGAAAGA-GGAGTTCTATACTCC--CTGAAGAAAGA-G--GGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAG--CGA-AC-CCGTTTGAAG-AAGATGTTCGAG
* ** * * * * *
21536 --CGA-ACTCGTTTGAAG-AAGATGTTCGAGTTCTATACTC-TCTGAAGAAAGA-G--GGAG
1 TTCTATACTC-CCTGAAGAAAGA-G--GGAG--CGA-ACCCGTTTGAAG-AAGATGTTCGAG
* * * * * * *
21590 --CGA-A-TCCGTTTGAAG-AAGATGTCTGAATTCTATACTCC--CTGAAGAAAGA-G--GGAG
1 TTCTATACTCC--CTGAAGAAAGA-G---GGA-GCGA-AC-CCGTTTGAAG-AAGATGTTCGAG
* * * * ** *
21644 --CGA-AC-CCGTTTGAAG-AAGATGTTCGAGTTCTATACTCC--CCGAAGAAAGA-G--GGAG
1 TTCTATACTCC--CTGAAGAAAGA-G--GGAG--CGA-AC-CCGTTTGAAG-AAGATGTTCGAG
* * * ** * *
21698 --CGA-AC-CCGTTTGAAG-AAGATGTTCGAGTTATATACTCC--CTGAAGAAAGA-G--GGAG
1 TTCTATACTCC--CTGAAGAAAGA-G--GGAG--CGA-AC-CCGTTTGAAG-AAGATGTTCGAG
* * ** ** *
21752 --CGA-AC-CCGTTTGAAG-AAGATGTTCAAGTTATATACTCC--CTGAAGAAAGA-G---GAG
1 TTCTATACTCC--CTGAAGAAAGA-G--GGAG--CGA-AC-CCGTTTGAAG-AAGATGTTCGAG
21805 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* *
21859 TTATATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* * * *
21913 TTATGTACTCCGTGAAGAAAGAGGGAGCGAA--CTTTTGAAGAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* *
21965 TTCTATACTCCCTGAAGAAAGAGGGAGCGAATCCATTTGAAGAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* * *
22019 TTATATACTCCCTGAAGAAAAAGGGAGTGAACCCGTTTGAAGAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* * *
22073 TTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATTTGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* *
22127 TTCTATACTCCCTGAAGAAAGAGGGAACGAACTCGTTTGAAGAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* * ** * *
22181 TTCTATACTCCCTGAAGAAATAGGGAGTGAACCCGTAAGAAGAAGGTTGTTCAAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAA-GATGTTCGAG
* *
22236 -TCTCATACTCTCTGAAGAAATAGGGAG
1 TTCT-ATACTCCCTGAAGAAAGAGGGAG
22263 TAGAGACGAT
Statistics
Matches: 1506, Mismatches: 148, Indels: 87
0.87 0.09 0.05
Matches are distributed among these distances:
49 2 0.00
50 14 0.01
51 13 0.01
52 48 0.03
53 25 0.02
54 1335 0.89
55 53 0.04
56 12 0.01
57 4 0.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (54 bp):
TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
Found at i:21038 original size:25 final size:25
Alignment explanation
Indices: 21009--21094 Score: 70
Period size: 25 Copynumber: 3.3 Consensus size: 25
20999 CTATACTCCC
21009 TGAAGAAAGAGGGAGCGAACCCGTT
1 TGAAGAAAGAGGGAGCGAACCCGTT
* *
21034 TGAAG-AAGATGTCCGAGTTCTATACTCC--T
1 TGAAGAAAGA-G--GGAG--CGA-AC-CCGTT
21063 TGAAGAAAGAGGGAGCGAACCCGTT
1 TGAAGAAAGAGGGAGCGAACCCGTT
21088 TGAAGAA
1 TGAAGAA
21095 GATGTCCGAG
Statistics
Matches: 47, Mismatches: 4, Indels: 20
0.66 0.06 0.28
Matches are distributed among these distances:
23 2 0.04
24 6 0.13
25 16 0.34
27 6 0.13
29 9 0.19
30 6 0.13
31 2 0.04
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (25 bp):
TGAAGAAAGAGGGAGCGAACCCGTT
Found at i:21518 original size:80 final size:80
Alignment explanation
Indices: 21426--21586 Score: 259
Period size: 80 Copynumber: 2.0 Consensus size: 80
21416 GAAGATGTTC
21426 GAGTTATATACTCCCTGAAGAAAGAGGGAGCAAACCCGTTCGAACAAGATGTTCGAGTTCTATAC
1 GAGTTATATACTCCCTGAAGAAAGAGGGAGCAAACCCGTTCGAACAAGATGTTCGAGTTCTATAC
21491 TCCCTAAAGAAAGAG
66 TCCCTAAAGAAAGAG
* * * * *
21506 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACTCGTTTGAAGAAGATGTTCGAGTTCTATAC
1 GAGTTATATACTCCCTGAAGAAAGAGGGAGCAAACCCGTTCGAACAAGATGTTCGAGTTCTATAC
* *
21571 TCTCTGAAGAAAGAG
66 TCCCTAAAGAAAGAG
21586 G
1 G
21587 GAGCGAATCC
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 74 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (80 bp):
GAGTTATATACTCCCTGAAGAAAGAGGGAGCAAACCCGTTCGAACAAGATGTTCGAGTTCTATAC
TCCCTAAAGAAAGAG
Found at i:21528 original size:26 final size:26
Alignment explanation
Indices: 21480--21532 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
21470 CAAGATGTTC
21480 GAGTTCTATACTCCCTAAAGAAAGAG
1 GAGTTCTATACTCCCTAAAGAAAGAG
*
21506 GAGTTCTATACTCCCTGAAGAAAGAG
1 GAGTTCTATACTCCCTAAAGAAAGAG
21532 G
1 G
21533 GAGCGAACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (26 bp):
GAGTTCTATACTCCCTAAAGAAAGAG
Found at i:21547 original size:134 final size:134
Alignment explanation
Indices: 21388--21640 Score: 409
Period size: 134 Copynumber: 1.9 Consensus size: 134
21378 TATTCTCTCC
21388 GAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAGAGG
1 GAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAGAGG
*
21453 GAGCAAACCCGTTCGAACAAGATGT-TCGAGTTCTATACTCCCTAAAGAAAGAGGAGTTCTATAC
66 GAGCAAACCCGTTCGAACAAGATGTCT-GAATTCTATACTCCCTAAAGAAAGAGGAGTTCTATAC
21517 TCCCT
130 TCCCT
* * *
21522 GAAGAAAGAGGGAGCGAACTCGTTTGAAGAAGATGTTCGAGTTCTATACTCTCTGAAGAAAGAGG
1 GAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAGAGG
* * * * *
21587 GAGCGAATCCGTTTGAAGAAGATGTCTGAATTCTATACTCCCTGAAGAAAGAGG
66 GAGCAAACCCGTTCGAACAAGATGTCTGAATTCTATACTCCCTAAAGAAAGAGG
21641 GAGCGAACCC
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
134 108 0.99
135 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (134 bp):
GAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAGAGG
GAGCAAACCCGTTCGAACAAGATGTCTGAATTCTATACTCCCTAAAGAAAGAGGAGTTCTATACT
CCCT
Found at i:21567 original size:296 final size:295
Alignment explanation
Indices: 21210--22096 Score: 1433
Period size: 296 Copynumber: 3.0 Consensus size: 295
21200 GAAGATGTTC
*
21210 GAGTTCTATACTCTCTGAAGAAAGAGGGAGCGAACACGTTTGAAGAAGAT-TTCCGAGTTCTATA
1 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACACGTTTGAAGAAGATGTT-CGAGTTCTATA
* *
21274 CTCTTTGAAGAAAGAGGGAGCAAACCCGTTTGAAGAAGATGTCTGAGTTCTATACTTCCTGAAGA
65 CTCTCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCTGAGTTCTATACTTCCTGAAGA
* * *
21339 AAGAGGGAGTGAACCCATTTGAAGAAGATGTTCGAGTTATATTCTCTCCGAAGAAAGAGGGAGCG
130 AAGAGGGAGCGAACCCATTTGAAGAAGATGTTCGAGTTCTATACTC-CCGAAGAAAGAGGGAGCG
* *
21404 AACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAGAGGGAGCAAACCCGTTCGA
194 AACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGA
*
21469 ACAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAG
259 AGAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAG
*
21506 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACTCGTTTGAAGAAGATGTTCGAGTTCTATAC
1 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACACGTTTGAAGAAGATGTTCGAGTTCTATAC
* * *
21571 TCTCTGAAGAAAGAGGGAGCGAATCCGTTTGAAGAAGATGTCTGAATTCTATACTCCCTGAAGAA
66 TCTCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCTGAGTTCTATACTTCCTGAAGAA
*
21636 AGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCCGAAGAAAGAGGGAGCGA
131 AGAGGGAGCGAACCCATTTGAAGAAGATGTTCGAGTTCTATACT-CCCGAAGAAAGAGGGAGCGA
21701 ACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
195 ACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
* * *
21766 GAAGATGTTCAAGTTATATACTCCCTGAAGAAAGAG
260 GAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAG
* *
21802 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATAC
1 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACACGTTTGAAGAAGATGTTCGAGTTCTATAC
* * * *
21867 TCCCTGAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATGT-TCGAGTTATGTAC-TCCGTGAAG
66 TCTCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCT-GAGTTCTATACTTCC-TGAAG
*
21930 AAAGAGGGAGCGAA--CTTTTGAAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGC
129 AAAGAGGGAGCGAACCCATTTGAAGAAGATGTTCGAGTTCTATACTCCC-GAAGAAAGAGGGAGC
* * * *
21993 GAATCCATTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAAAGGGAGTGAACCCGTTTG
193 GAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
22058 AAGAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAG
258 AAGAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAG
22096 G
1 G
22097 GAGCGAACCC
Statistics
Matches: 552, Mismatches: 34, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
293 3 0.01
294 141 0.26
295 3 0.01
296 402 0.73
297 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (295 bp):
GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACACGTTTGAAGAAGATGTTCGAGTTCTATAC
TCTCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCTGAGTTCTATACTTCCTGAAGAA
AGAGGGAGCGAACCCATTTGAAGAAGATGTTCGAGTTCTATACTCCCGAAGAAAGAGGGAGCGAA
CCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAG
AAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAG
Found at i:21635 original size:188 final size:188
Alignment explanation
Indices: 21318--21694 Score: 603
Period size: 188 Copynumber: 2.0 Consensus size: 188
21308 GAAGATGTCT
* * *
21318 GAGTTCTATACTTCCTGAAGAAAGAGGGAGTGAACCCATTTGAAGAAGATGTTCGAGTTATATTC
1 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATGTTCGAGTTATATAC
*
21383 TCTCCGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAA
66 TCTCCGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAATTATATACTCCCTGAAGAA
*
21448 AGAGGGAGCAAACCCGTTCGAACAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAG
131 AGAGGGAGCAAACCCGTTCGAACAAGATGTTCGAGTTCTATACTCCCCAAAGAAAGAG
* * *
21506 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACTCGTTTGAAGAAGATGTTCGAGTTCTATAC
1 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATGTTCGAGTTATATAC
* * *
21571 TCTCTGAAGAAAGAGGGAGCGAATCCGTTTGAAGAAGATG-TCTGAATTCTATACTCCCTGAAGA
66 TCTCCGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC-GAATTATATACTCCCTGAAGA
* * * *
21635 AAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCCGAAGAAAGAG
130 AAGAGGGAGCAAACCCGTTCGAACAAGATGTTCGAGTTCTATACTCCCCAAAGAAAGAG
21694 G
1 G
21695 GAGCGAACCC
Statistics
Matches: 173, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
187 2 0.01
188 171 0.99
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (188 bp):
GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATGTTCGAGTTATATAC
TCTCCGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAATTATATACTCCCTGAAGAA
AGAGGGAGCAAACCCGTTCGAACAAGATGTTCGAGTTCTATACTCCCCAAAGAAAGAG
Found at i:21690 original size:242 final size:241
Alignment explanation
Indices: 21264--21988 Score: 965
Period size: 242 Copynumber: 3.0 Consensus size: 241
21254 GAAGATTTCC
* *
21264 GAGTTCTATACTCTTTGAAGAAAGAGGGAGCAAACCCGTTTGAAGAAGATGTCTGAGTTCTATAC
1 GAGTTCTATACTCCTTGAAGAAAGAGGGAGCAAACTCGTTTGAAGAAGATGTC-GAGTTCTATAC
* * *
21329 T-TCCTGAAGAAAGAGGGAGTGAACCCATTTGAAGAAGATGTTCGAGTTATATTCTCTCC-GAAG
65 TCT-CTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTC-CCTGAAG
21392 AAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAGAGGGAGC
128 AAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAGAGGGAGC
* * * *
21457 AAACCCGTTCGAACAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAG
193 GAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAG
* *
21506 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACTCGTTTGAAGAAGATGTTCGAGTTCTATAC
1 GAGTTCTATACTCCTTGAAGAAAGAGGGAGCAAACTCGTTTGAAGAAGATG-TCGAGTTCTATAC
* * *
21571 TCTCTGAAGAAAGAGGGAGCGAATCCGTTTGAAGAAGATG-TCTGAATTCTATACTCCCTGAAGA
65 TCTCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC-GAGTTATATACTCCCTGAAGA
* *
21635 AAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCCGAAGAAAGAGGGAGCG
129 AAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAGAGGGAGCG
*
21700 AACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAGAGG
194 AACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGA-G
* ** * **
21749 GAG--CGA-AC-CCGTTTGAAG-AAGATGTTCAAGTTATATACTC-CCTGAAGAAAGA-G--GAG
1 GAGTTCTATACTCC--TTGAAGAAAGA-G--GGAG-CA-A-ACTCGTTTGAAG-AAGATGTCGAG
*
21805 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCC
57 TTCTATACTCTCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCC
* * *
21870 CTGAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATGTTCGAGTTATGTACTCCGTGAAGAAAGA
122 CTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAGA
*
21935 GGGAGCGAA--CTTTTGAAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAG
187 GGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAG
21988 G
1 G
21989 GAGCGAATCC
Statistics
Matches: 432, Mismatches: 36, Indels: 33
0.86 0.07 0.07
Matches are distributed among these distances:
239 4 0.01
240 47 0.11
241 12 0.03
242 343 0.79
243 11 0.03
245 7 0.02
246 8 0.02
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (241 bp):
GAGTTCTATACTCCTTGAAGAAAGAGGGAGCAAACTCGTTTGAAGAAGATGTCGAGTTCTATACT
CTCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAA
GAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAGAGGGAGCGAA
CCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAG
Found at i:21806 original size:26 final size:26
Alignment explanation
Indices: 21777--21828 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
21767 AAGATGTTCA
21777 AGTTATATACTCCCTGAAGAAAGAGG
1 AGTTATATACTCCCTGAAGAAAGAGG
*
21803 AGTTCTATACTCCCTGAAGAAAGAGG
1 AGTTATATACTCCCTGAAGAAAGAGG
21829 GAGCGAACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (26 bp):
AGTTATATACTCCCTGAAGAAAGAGG
Found at i:21806 original size:80 final size:80
Alignment explanation
Indices: 21722--21882 Score: 304
Period size: 80 Copynumber: 2.0 Consensus size: 80
21712 GAAGATGTTC
21722 GAGTTATATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCAAGTTATATAC
1 GAGTTATATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCAAGTTATATAC
21787 TCCCTGAAGAAAGAG
66 TCCCTGAAGAAAGAG
* *
21802 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATAC
1 GAGTTATATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCAAGTTATATAC
21867 TCCCTGAAGAAAGAG
66 TCCCTGAAGAAAGAG
21882 G
1 G
21883 GAGCGAACCC
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (80 bp):
GAGTTATATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCAAGTTATATAC
TCCCTGAAGAAAGAG
Found at i:21806 original size:134 final size:134
Alignment explanation
Indices: 21668--21936 Score: 493
Period size: 134 Copynumber: 2.0 Consensus size: 134
21658 GAAGATGTTC
21668 GAGTTCTATACTCCCCGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATAC
1 GAGTTCTATACTCCCCGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATAC
*
21733 TCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCAAGTTATATACTCCCTGAAGAA
66 TCCCTGAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATGTTCAAGTTATATACTCCCTGAAGAA
21798 AGAG
131 AGAG
*
21802 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATAC
1 GAGTTCTATACTCCCCGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATAC
* * *
21867 TCCCTGAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATGTTCGAGTTATGTACTCCGTGAAGAA
66 TCCCTGAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATGTTCAAGTTATATACTCCCTGAAGAA
21932 AGAG
131 AGAG
21936 G
1 G
21937 GAGCGAACTT
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 130 1.00
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (134 bp):
GAGTTCTATACTCCCCGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATAC
TCCCTGAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATGTTCAAGTTATATACTCCCTGAAGAA
AGAG
Found at i:21811 original size:188 final size:186
Alignment explanation
Indices: 21617--21988 Score: 654
Period size: 188 Copynumber: 2.0 Consensus size: 186
21607 GATGTCTGAA
*
21617 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCC
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCC
*
21682 CCGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAGA
66 CCGAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAGA
21747 GGGAGCGAACCCGTTTGAAGAAGATGTTCAAGTTATATACTCCCTGAAGAAAGAGGAG
131 GGGAGCGAA--CGTTTGAAGAAGATGTTCAAGTTATATACTCCCTGAAGAAAGAGGAG
21805 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCC
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCC
* * *
21870 CTGAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATGTTCGAGTTATGTACTCCGTGAAGAAAGA
66 CCGAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAGA
* * *
21935 GGGAGCGAACTTTTGAAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGG
131 GGGAGCGAACGTTTGAAGAAGATGTTCAAGTTATATACTCCCTGAAGAAAGAGG
21989 GAGCGAATCC
Statistics
Matches: 176, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
186 42 0.24
188 134 0.76
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (186 bp):
TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCC
CCGAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAGA
GGGAGCGAACGTTTGAAGAAGATGTTCAAGTTATATACTCCCTGAAGAAAGAGGAG
Found at i:21982 original size:160 final size:161
Alignment explanation
Indices: 21802--22214 Score: 666
Period size: 160 Copynumber: 2.6 Consensus size: 161
21792 GAAGAAAGAG
21802 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATAC
1 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATAC
* * * * *
21867 TCCCTGAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATGTTCGAGTTATGTACTCCGTGAAGAA
66 TCCCTGAAGAAAAAGGGAGTGAACCCATTTGAAGAAGATGTTCGAGTTATATACTCCCTAAAGAA
* *
21932 AGAGGGAGCGAA-CTTTTGAAGAAGATGTTC
131 AGAGGGAGCGAACCGTTTGAAGAAGATATTC
* *
21962 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAATCCATTTGAAGAAGATGTTCGAGTTATATAC
1 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATAC
* *
22027 TCCCTGAAGAAAAAGGGAGTGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAAAGAA
66 TCCCTGAAGAAAAAGGGAGTGAACCCATTTGAAGAAGATGTTCGAGTTATATACTCCCTAAAGAA
*
22092 AGAGGGAGCGAACCCGTTTGAAGAAGATATTT
131 AGAGGGAGCGAA-CCGTTTGAAGAAGATATTC
* * *
22124 GAGTTCTATACTCCCTGAAGAAAGAGGGAACGAACTCGTTTGAAGAAGATGTTCGAGTTCTATAC
1 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATAC
*
22189 TCCCTGAAGAAATAGGGAGTGAACCC
66 TCCCTGAAGAAAAAGGGAGTGAACCC
22215 GTAAGAAGAA
Statistics
Matches: 233, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
160 133 0.57
162 100 0.43
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.23
Consensus pattern (161 bp):
GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATAC
TCCCTGAAGAAAAAGGGAGTGAACCCATTTGAAGAAGATGTTCGAGTTATATACTCCCTAAAGAA
AGAGGGAGCGAACCGTTTGAAGAAGATATTC
Found at i:22286 original size:55 final size:55
Alignment explanation
Indices: 22222--22395 Score: 240
Period size: 55 Copynumber: 3.2 Consensus size: 55
22212 CCCGTAAGAA
* * * * * *
22222 GAAGGTTGTTCAAGTCTCATACTCTCTGAAGAAATAGGGAGTAGAGACGATGGTT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACATGATTGTT
* * *
22277 GAAGATTGTTCGAGTCTCATACTCTTTGAAGGAATAGGGAGCAGACATGATTATT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACATGATTGTT
* * *
22332 GAAGATTGTTCGAGTCTTATACTCTCTGAACAAATAGGGAGCAGACATGATTGTC
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACATGATTGTT
22387 GAAGATTGT
1 GAAGATTGT
22396 CTTCAAAAAC
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 104 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACATGATTGTT
Found at i:22634 original size:17 final size:18
Alignment explanation
Indices: 22596--22634 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22586 AATGTTATTG
*
22596 TTATTAGAATTTTGGTTA
1 TTATTAGAAGTTTGGTTA
*
22614 TTATTATAAGTTTGG-TA
1 TTATTAGAAGTTTGGTTA
22631 TTAT
1 TTAT
22635 GTAGTTATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.56
Consensus pattern (18 bp):
TTATTAGAAGTTTGGTTA
Found at i:25979 original size:19 final size:19
Alignment explanation
Indices: 25947--25985 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
25937 AGAACCGTTA
25947 AAAATATTGATTAACGGTT
1 AAAATATTGATTAACGGTT
* * *
25966 AAAATTTTGGTTAACTGTT
1 AAAATATTGATTAACGGTT
25985 A
1 A
25986 TTTTTTATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (19 bp):
AAAATATTGATTAACGGTT
Found at i:29183 original size:391 final size:390
Alignment explanation
Indices: 28453--30387 Score: 2384
Period size: 391 Copynumber: 5.0 Consensus size: 390
28443 ACTAGTCTTA
* * * *
28453 TTGTCTCGAAAAAGGTAGCAAAAGAGAGATAAAATCAAAGGCTTTGGGTTTAAAGTGAGGTAAAA
1 TTGTCTCGATAAAGGTAGTAAAATAGAGATAAAATCAAAGGCTTTGGGTTTAAAGTGTGGTAAAA
* ** * * * *
28518 CAAAGAAAAGATAAAATG-CTCAAAGTGGCTAACTAAGGGAAAATAAATTGGTTGACATTCTTTG
66 CAAAGAAAAGAGAAAATGACTCAAAGTAACTAACTAAGGGAAAATAAATGGGTAGGCATTTTTTG
* * * * * *
28582 AAGGTATGAAAAATGGGTGAATCCAAAGTGCCTTTATCATTTTAGAGCATCAAAT-CAAAATTGT
131 AAGGTATGAAAAATGGTTAAATCCTAAGTACCCTTATCATTTTAAAGCATCAAATCCAAAATT-T
* * * *
28646 AGCCTCAACATGTATTCACAAGCAATTTCTAGAATATAAATTCTAAGTTCGACACACTCAAGACA
195 AGTCTCAACATGTATTCACAAGCAAGTTCTAGAATATAAATGCTAAGTTCGACAAACTCAAGACA
* *
28711 AGAAAAATGAGCAAGAATATAAGGAATTGCT-TGATGAGCTCAAATCTTACAAAAAAGGTGTATT
260 AGAAAAATGAGCAAGAATATAAGGAATTGCTCT-ATGGGCTCAAATCTTACCAAAAAGGTGTATT
* *
28775 TAGCATCAAGTCAAGTGCATTTTCAATGAAAGAATTCATGAGATGTCATCATGGAAAAATATGTC
324 TAGCATTAAGTCAAGTGCATTTTCAATGAACGAATTCATGAGATGTCATCATGGAAAAAT-TGTC
28840 CTC
388 CTC
* * * *
28843 TTGTATCGATAAAGGTAGTAAAATAAAGATAAAATTAAAGGCTTTGGGTTTGAAGTGTGGTAAAA
1 TTGTCTCGATAAAGGTAGTAAAATAGAGATAAAATCAAAGGCTTTGGGTTTAAAGTGTGGTAAAA
* * * * * * * *
28908 TAAAGAAAAGGGAAAATGATTCAAAGTAACTAATTAAGGGAAAATAAATGGGCAGTCACTCTTTG
66 CAAAGAAAAGAGAAAATGACTCAAAGTAACTAACTAAGGGAAAATAAATGGGTAGGCATTTTTTG
* * * * *
28973 AATGTATGAAAAATGGTTAAGTTCTAATTACCCTTATCATTTTAAAGCATCAAATCCAAACTTTA
131 AAGGTATGAAAAATGGTTAAATCCTAAGTACCCTTATCATTTTAAAGCATCAAATCCAAAATTTA
* *
29038 GTCTCAACATGTATTCACAAGCAAGTTCTAGAATATAAATGCTAAGTTTGACAAACTAAAGACAA
196 GTCTCAACATGTATTCACAAGCAAGTTCTAGAATATAAATGCTAAGTTCGACAAACTCAAGACAA
* * * * * * * *
29103 TAAAAATGAGCAATAATATATGAAATTGCTCTATGGGCTCAGATCTTACGAACAGGGTGTATTTA
261 GAAAAATGAGCAAGAATATAAGGAATTGCTCTATGGGCTCAAATCTTACCAAAAAGGTGTATTTA
*
29168 GCATTAAGTCAAGTGCATTTTCAATGGACGAATTCATGAGATGTCATCATGGAAAAATTTGTCCT
326 GCATTAAGTCAAGTGCATTTTCAATGAACGAATTCATGAGATGTCATCATGGAAAAA-TTGTCCT
29233 C
390 C
* * * *
29234 TTGTCTTGATAAATGTAGTAAAATAGAGATAAAAT-ATAAGGCCTTGGGTTTAAAGTGTCGTAAA
1 TTGTCTCGATAAAGGTAGTAAAATAGAGATAAAATCA-AAGGCTTTGGGTTTAAAGTGTGGTAAA
* * *
29298 ACAAAGAAAAGAGAAAATGACTCAAAGTAGCTAAATAAGGGAAAATAAATGAGTA-GCATTTTTT
65 ACAAAGAAAAGAGAAAATGACTCAAAGTAACTAACTAAGGGAAAATAAATGGGTAGGCATTTTTT
* ** * * * * *
29362 CAAGGTATGAAAAATGACTAAATCCTAACTTCCCTTATCATTTCAAAGCATTAAA-CTCAAAATG
130 GAAGGTATGAAAAATGGTTAAATCCTAAGTACCCTTATCATTTTAAAGCATCAAATC-CAAAATT
* * * * * * *
29426 TAGTCTCTACATGTATTCACAAGCAAGCTCTATAATATAAATGCCATGTTCTATAATA-T-AAGA
194 TAGTCTCAACATGTATTCACAAGCAAGTTCTAGAATATAAATGCTAAGTTCGACAA-ACTCAAGA
* * * * * * ** *
29489 CAATAATATTGAGCAAGAATATAAGGAGTTGCACTATAGGCTCAAATCTTAGAAAAAAAGTGTAT
258 CAAGAAAAATGAGCAAGAATATAAGGAATTGCTCTATGGGCTCAAATCTTACCAAAAAGGTGTAT
* * *
29554 TTAGCATTAAGTCAAGTGCATTTTCAATGAAC-AGATTAATGAGATGTCATCATGGAAAAGCTTA
323 TTAGCATTAAGTCAAGTGCATTTTCAATGAACGA-ATTCATGAGATGTCATCATGGAAAA-ATTG
*
29618 TCCTA
386 TCCTC
* * * * * *
29623 TTATTTTGATAAAGGTAGTAAAATAGAGATAAAATCACAA-GCTTTGGGTTGAAAGTGTGTTACA
1 TTGTCTCGATAAAGGTAGTAAAATAGAGATAAAATCA-AAGGCTTTGGGTTTAAAGTGTGGTAAA
* *
29687 ACAAA-AAAAGGGAAAATGACTCAAAGTAACTAACTAAGGGAAAACAAATGGGTAGGCATTTTTT
65 ACAAAGAAAAGAGAAAATGACTCAAAGTAACTAACTAAGGGAAAATAAATGGGTAGGCATTTTTT
* **
29751 GAAGGTATGAAAAATGGTTAAATCCTAAGTGCCCTTATCATTTTAAAGCATCAAATCCAATCTTT
130 GAAGGTATGAAAAATGGTTAAATCCTAAGTACCCTTATCATTTTAAAGCATCAAATCCAAAATTT
* * * * * ** *
29816 ACTCTCAACATGTATTTACAAGCAAGTTCTAGAATACAAATTCTAAGATCGACGCACTCAAGAGA
195 AGTCTCAACATGTATTCACAAGCAAGTTCTAGAATATAAATGCTAAGTTCGACAAACTCAAGACA
* * * *
29881 AGAAAAATGGGTAAGAATATAAGGAATTGCTCGATGGACTCAAATCTTACCAAAAAGGTGTATTT
260 AGAAAAATGAGCAAGAATATAAGGAATTGCTCTATGGGCTCAAATCTTACCAAAAAGGTGTATTT
* *
29946 AGCATTAAGCCAAGTGCATTTTCAATGAACGAATTCATGAGATGTCGTCATGGAAAAACTTGTCC
325 AGCATTAAGTCAAGTGCATTTTCAATGAACGAATTCATGAGATGTCATCATGGAAAAA-TTGTCC
30011 TC
389 TC
* *
30013 TTGGT-TCGATAAAAGTAGTAAAATAGAGATAAAATCAAAGGGTTTGGGTTTAAAGTGTGGTAAA
1 TT-GTCTCGATAAAGGTAGTAAAATAGAGATAAAATCAAAGGCTTTGGGTTTAAAGTGTGGTAAA
* *
30077 ACAAAGAAAAGAGAAAATGACTCAAAGTAACTAACTAAGGCAAAATAAATGGGTAGGCATATTTT
65 ACAAAGAAAAGAGAAAATGACTCAAAGTAACTAACTAAGGGAAAATAAATGGGTAGGCATTTTTT
* * * * ** *
30142 GAAGGTATGAAAAAAGGGTAAATACTAAGTACCATTATCATTTTAAAGCATTTAATTC-AAATTG
130 GAAGGTATGAAAAATGGTTAAATCCTAAGTACCCTTATCATTTTAAAGCATCAAATCCAAAATT-
* * ** * * * *
30206 TAGTATCAACATGTATTAACAATTAAGTTCTAGAATATAAATGCTAAGTTCGGCATACTCAATAA
194 TAGTCTCAACATGTATTCACAAGCAAGTTCTAGAATATAAATGCTAAGTTCGACAAACTCAAGAC
* * * * *
30271 AAGAAAAATGAGCAAGAATATAAGGAATTGCTCGACGTGTTCAAATCTTACCAAAAAGGTTTATT
259 AAGAAAAATGAGCAAGAATATAAGGAATTGCTCTATGGGCTCAAATCTTACCAAAAAGGTGTATT
* * * * *
30336 TAGAATCAAGTGAAGTGCATTTTCAATGAACGAACTCATGAGATATCATCAT
324 TAGCATTAAGTCAAGTGCATTTTCAATGAACGAATTCATGAGATGTCATCAT
30388 AGTATTTCAA
Statistics
Matches: 1314, Mismatches: 211, Indels: 39
0.84 0.13 0.02
Matches are distributed among these distances:
388 46 0.04
389 279 0.21
390 357 0.27
391 624 0.47
392 8 0.01
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (390 bp):
TTGTCTCGATAAAGGTAGTAAAATAGAGATAAAATCAAAGGCTTTGGGTTTAAAGTGTGGTAAAA
CAAAGAAAAGAGAAAATGACTCAAAGTAACTAACTAAGGGAAAATAAATGGGTAGGCATTTTTTG
AAGGTATGAAAAATGGTTAAATCCTAAGTACCCTTATCATTTTAAAGCATCAAATCCAAAATTTA
GTCTCAACATGTATTCACAAGCAAGTTCTAGAATATAAATGCTAAGTTCGACAAACTCAAGACAA
GAAAAATGAGCAAGAATATAAGGAATTGCTCTATGGGCTCAAATCTTACCAAAAAGGTGTATTTA
GCATTAAGTCAAGTGCATTTTCAATGAACGAATTCATGAGATGTCATCATGGAAAAATTGTCCTC
Found at i:29943 original size:779 final size:779
Alignment explanation
Indices: 28436--30387 Score: 2485
Period size: 779 Copynumber: 2.5 Consensus size: 779
28426 CCTCATTTTT
* * * * *
28436 ATGG-AAAACTAGTCTTATTGTCTCGA-AAAAGGTAGCAAAAGAGAGATAAAATCAAAGGCTTTG
1 ATGGAAAAACTTGTCCTCTTGTCTCGATAAAA-GTAGTAAAATAGAGATAAAATCAAAGGCTTTG
* * *
28499 GGTTTAAAGTGAGGTAAAACAAAGAAAAGATAAAATG-CTCAAAGTGGCTAACTAAGGGAAAATA
65 GGTTTAAAGTGTGGTAAAACAAAGAAAAGAGAAAATGACTCAAAGTAGCTAACTAAGGGAAAATA
* * * * * * *
28563 AATTGGTTGACATTCTTTGAAGGTATGAAAAATGGGTGAATCCAAAGTGCCTTTATCATTTTAGA
130 AA-TGGTAG-CATTTTTTGAAGGTATGAAAAATGGGTAAATCCTAAGTACCATTATCATTTTAAA
* * * * *
28628 GCATCAAATCAAAATTGTAGCCTCAACATGTATTCACAAGCAATTTCTAGAATATAAATTCTAAG
193 GCATTAAATCAAAA-TGTAGTCTCAACATGTATTCACAAGCAAGTTCTAGAATATAAATGCCAAG
*
28693 TTCGACACACTCAAGACAAGAAAAATGAGCAAGAATATAAGGAATTGCTTGATGAGCTCAAATCT
257 TTCGACACACTCAAGACAAGAAAAATGAGCAAGAATATAAGGAATTGCCTGATGAGCTCAAATCT
* *
28758 TACAAAAAAGGTGTATTTAGCATCAAGTCAAGTGCATTTTCAATGAAAGAATTCATGAGATGTCA
322 TACAAAAAAAGTGTATTTAGCATCAAGTCAAGTGCATTTTCAATGAAAGAATTAATGAGATGTCA
* * * *
28823 TCATGGAAAAATATGTCCTCTTGTATCGATAAAGGTAGTAAAATAAAGATAAAATTAAAGGCTTT
387 TCATGGAAAAATATATCCTATTATATCGATAAAGGTAGTAAAATAAAGATAAAATCAAAGGCTTT
* * * *
28888 GGGTTTGAAGTGTGGTAAAATAAAGAAAAGGGAAAATGATTCAAAGTAACTAATTAAGGGAAAAT
452 GGGTTTGAAGTGTGGTAAAACAAAGAAAAGGGAAAATGACTCAAAGTAACTAACTAAGGGAAAAC
* * * * *
28953 AAATGGGCAGTCACTCTTTGAATGTATGAAAAATGGTTAAGTTCTAATTACCCTTATCATTTTAA
517 AAATGGGCAGGCACTCTTTGAAGGTATGAAAAATGGTTAAATCCTAAGTACCCTTATCATTTTAA
* *
29018 AGCATCAAATCCAAACTTTAGTCTCAACATGTATTCACAAGCAAGTTCTAGAATATAAATGCTAA
582 AGCATCAAATCCAAACTTTACTCTCAACATGTATTCACAAGCAAGTTCTAGAATACAAATGCTAA
* * * * * * * *
29083 GTTTGACAAACTAAAGACAATAAAAATGAGCAATAATATATGAAATTGCTCTATGGGCTCAGATC
647 GATCGACAAACTAAAGACAAGAAAAATGAGCAAGAATATAAGAAATTGCTCGATGGACTCAAATC
* * * * *
29148 TTACGAACAGGGTGTATTTAGCATTAAGTCAAGTGCATTTTCAATGGACGAATTCATGAGATGTC
712 TTACCAAAAAGGTGTATTTAGCATTAAGCCAAGTGCATTTTCAATGAACGAATTCATGAGATGTC
29213 ATC
777 ATC
* * * *
29216 ATGGAAAAATTTGTCCTCTTGTCTTGATAAATGTAGTAAAATAGAGATAAAAT-ATAAGGCCTTG
1 ATGGAAAAACTTGTCCTCTTGTCTCGATAAAAGTAGTAAAATAGAGATAAAATCA-AAGGCTTTG
* *
29280 GGTTTAAAGTGTCGTAAAACAAAGAAAAGAGAAAATGACTCAAAGTAGCTAAATAAGGGAAAATA
65 GGTTTAAAGTGTGGTAAAACAAAGAAAAGAGAAAATGACTCAAAGTAGCTAACTAAGGGAAAATA
* ** * * * *
29345 AATGAGTAGCATTTTTTCAAGGTATGAAAAATGACTAAATCCTAACTTCCCTTATCATTTCAAAG
130 AATG-GTAGCATTTTTTGAAGGTATGAAAAATGGGTAAATCCTAAGTACCATTATCATTTTAAAG
* * * *
29410 CATTAAACTCAAAATGTAGTCTCTACATGTATTCACAAGCAAGCTCTATAATATAAATGCCATGT
194 CATTAAA-TCAAAATGTAGTCTCAACATGTATTCACAAGCAAGTTCTAGAATATAAATGCCAAGT
* * * * * * *
29475 TCTATA-A-TATAAGACAATAATATTGAGCAAGAATATAAGGAGTTGCACT-AT-AGGCTCAAAT
258 TCGACACACT-CAAGACAAGAAAAATGAGCAAGAATATAAGGAATTGC-CTGATGA-GCTCAAAT
* *
29536 CTTAGAAAAAAAGTGTATTTAGCATTAAGTCAAGTGCATTTTCAATGAACAG-ATTAATGAGATG
320 CTTACAAAAAAAGTGTATTTAGCATCAAGTCAAGTGCATTTTCAATGAA-AGAATTAATGAGATG
* * * *
29600 TCATCATGGAAAAGCT-TATCCTATTATTTTGATAAAGGTAGTAAAATAGAGATAAAATCACAA-
384 TCATCATGGAAAA-ATATATCCTATTATATCGATAAAGGTAGTAAAATAAAGATAAAATCA-AAG
* *
29663 GCTTTGGG-TTGAAAGTGTGTTACAACAAA-AAAAGGGAAAATGACTCAAAGTAACTAACTAAGG
447 GCTTTGGGTTTG-AAGTGTGGTAAAACAAAGAAAAGGGAAAATGACTCAAAGTAACTAACTAAGG
* * * *
29726 GAAAACAAATGGGTAGGCATTTTTTGAAGGTATGAAAAATGGTTAAATCCTAAGTGCCCTTATCA
511 GAAAACAAATGGGCAGGCACTCTTTGAAGGTATGAAAAATGGTTAAATCCTAAGTACCCTTATCA
* *
29791 TTTTAAAGCATCAAATCCAATCTTTACTCTCAACATGTATTTACAAGCAAGTTCTAGAATACAAA
576 TTTTAAAGCATCAAATCCAAACTTTACTCTCAACATGTATTCACAAGCAAGTTCTAGAATACAAA
* ** * * * * *
29856 TTCTAAGATCGACGCACTCAAGAGAAGAAAAATGGGTAAGAATATAAGGAATTGCTCGATGGACT
641 TGCTAAGATCGACAAACTAAAGACAAGAAAAATGAGCAAGAATATAAGAAATTGCTCGATGGACT
29921 CAAATCTTACCAAAAAGGTGTATTTAGCATTAAGCCAAGTGCATTTTCAATGAACGAATTCATGA
706 CAAATCTTACCAAAAAGGTGTATTTAGCATTAAGCCAAGTGCATTTTCAATGAACGAATTCATGA
*
29986 GATGTCGTC
771 GATGTCATC
*
29995 ATGGAAAAACTTGTCCTCTTGGT-TCGATAAAAGTAGTAAAATAGAGATAAAATCAAAGGGTTTG
1 ATGGAAAAACTTGTCCTCTT-GTCTCGATAAAAGTAGTAAAATAGAGATAAAATCAAAGGCTTTG
* *
30059 GGTTTAAAGTGTGGTAAAACAAAGAAAAGAGAAAATGACTCAAAGTAACTAACTAAGGCAAAATA
65 GGTTTAAAGTGTGGTAAAACAAAGAAAAGAGAAAATGACTCAAAGTAGCTAACTAAGGGAAAATA
* * *
30124 AATGGGTAGGCATATTTTGAAGGTATGAAAAAAGGGTAAATACTAAGTACCATTATCATTTTAAA
130 AAT-GGTA-GCATTTTTTGAAGGTATGAAAAATGGGTAAATCCTAAGTACCATTATCATTTTAAA
* * * * ** *
30189 GCATTTAATTCAAATTGTAGTATCAACATGTATTAACAATTAAGTTCTAGAATATAAATGCTAAG
193 GCA-TTAAATCAAAATGTAGTCTCAACATGTATTCACAAGCAAGTTCTAGAATATAAATGCCAAG
* * * * * * *
30254 TTCGGCATACTCAATAAAAGAAAAATGAGCAAGAATATAAGGAATTG-CTCGACGTGTTCAAATC
257 TTCGACACACTCAAGACAAGAAAAATGAGCAAGAATATAAGGAATTGCCT-GATGAGCTCAAATC
* * * * * * * * *
30318 TTACCAAAAAGGTTTATTTAGAATCAAGTGAAGTGCATTTTCAATGAACGAACTCATGAGATATC
321 TTACAAAAAAAGTGTATTTAGCATCAAGTCAAGTGCATTTTCAATGAAAGAATTAATGAGATGTC
30383 ATCAT
386 ATCAT
30388 AGTATTTCAA
Statistics
Matches: 998, Mismatches: 150, Indels: 47
0.84 0.13 0.04
Matches are distributed among these distances:
779 393 0.39
780 281 0.28
781 284 0.28
782 40 0.04
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (779 bp):
ATGGAAAAACTTGTCCTCTTGTCTCGATAAAAGTAGTAAAATAGAGATAAAATCAAAGGCTTTGG
GTTTAAAGTGTGGTAAAACAAAGAAAAGAGAAAATGACTCAAAGTAGCTAACTAAGGGAAAATAA
ATGGTAGCATTTTTTGAAGGTATGAAAAATGGGTAAATCCTAAGTACCATTATCATTTTAAAGCA
TTAAATCAAAATGTAGTCTCAACATGTATTCACAAGCAAGTTCTAGAATATAAATGCCAAGTTCG
ACACACTCAAGACAAGAAAAATGAGCAAGAATATAAGGAATTGCCTGATGAGCTCAAATCTTACA
AAAAAAGTGTATTTAGCATCAAGTCAAGTGCATTTTCAATGAAAGAATTAATGAGATGTCATCAT
GGAAAAATATATCCTATTATATCGATAAAGGTAGTAAAATAAAGATAAAATCAAAGGCTTTGGGT
TTGAAGTGTGGTAAAACAAAGAAAAGGGAAAATGACTCAAAGTAACTAACTAAGGGAAAACAAAT
GGGCAGGCACTCTTTGAAGGTATGAAAAATGGTTAAATCCTAAGTACCCTTATCATTTTAAAGCA
TCAAATCCAAACTTTACTCTCAACATGTATTCACAAGCAAGTTCTAGAATACAAATGCTAAGATC
GACAAACTAAAGACAAGAAAAATGAGCAAGAATATAAGAAATTGCTCGATGGACTCAAATCTTAC
CAAAAAGGTGTATTTAGCATTAAGCCAAGTGCATTTTCAATGAACGAATTCATGAGATGTCATC
Found at i:30818 original size:5 final size:5
Alignment explanation
Indices: 30763--30837 Score: 52
Period size: 5 Copynumber: 15.6 Consensus size: 5
30753 CTAGTCTAGC
* * *
30763 TAAAA TAATA T-AAA T-AAA T-AAA GAAAA -AAAA T-AAA TAAAT TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
**
30808 GGAAA TAAAA TAAAA TAAATAA TAAAA TAA
1 TAAAA TAAAA TAAAA T-AA-AA TAAAA TAA
30838 TTTGCCTCCC
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
4 18 0.32
5 31 0.55
6 4 0.07
7 3 0.05
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:36978 original size:13 final size:13
Alignment explanation
Indices: 36960--36993 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
36950 TAGCATTGTA
* *
36960 AAAGAAAATAATG
1 AAAGAAAACAAAG
36973 AAAGAAAACAAAG
1 AAAGAAAACAAAG
36986 AAAGAAAA
1 AAAGAAAA
36994 GAGGATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.76, C:0.03, G:0.15, T:0.06
Consensus pattern (13 bp):
AAAGAAAACAAAG
Found at i:44707 original size:13 final size:13
Alignment explanation
Indices: 44691--44715 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44681 AGGAATAAAA
44691 AAGAGAATGAATT
1 AAGAGAATGAATT
44704 AAGAGAATGAAT
1 AAGAGAATGAAT
44716 CTAGATAGAA
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:0.56, C:0.00, G:0.24, T:0.20
Consensus pattern (13 bp):
AAGAGAATGAATT
Found at i:46156 original size:14 final size:13
Alignment explanation
Indices: 46137--46170 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
46127 CTACCGTAAC
46137 ATAAATAACCATAT
1 ATAAATAACCA-AT
46151 ATAAATAACCAAT
1 ATAAATAACCAAT
*
46164 ACAAATA
1 ATAAATA
46171 GTGCATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.24
Consensus pattern (13 bp):
ATAAATAACCAAT
Found at i:58169 original size:12 final size:12
Alignment explanation
Indices: 58136--58169 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
58126 GCTGTTAAAG
58136 TAAAGAAATGGA
1 TAAAGAAATGGA
*
58148 GAATAGAAATGGA
1 TAA-AGAAATGGA
58161 TAAAGAAAT
1 TAAAGAAAT
58170 AAAATCCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.18
Consensus pattern (12 bp):
TAAAGAAATGGA
Found at i:59609 original size:23 final size:23
Alignment explanation
Indices: 59563--59607 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
59553 TAATTTAGAT
59563 TATAATTAGTATATTATTATAAA
1 TATAATTAGTATATTATTATAAA
* *
59586 TATAATTATTATTTTA-TATAAA
1 TATAATTAGTATATTATTATAAA
59608 ATCAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TATAATTAGTATATTATTATAAA
Found at i:60891 original size:29 final size:29
Alignment explanation
Indices: 60858--60923 Score: 132
Period size: 29 Copynumber: 2.3 Consensus size: 29
60848 CAATAAGATG
60858 ATTATTTTTCTTGGTCAAAAGGAAGAATT
1 ATTATTTTTCTTGGTCAAAAGGAAGAATT
60887 ATTATTTTTCTTGGTCAAAAGGAAGAATT
1 ATTATTTTTCTTGGTCAAAAGGAAGAATT
60916 ATTATTTT
1 ATTATTTT
60924 ATATATGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.45
Consensus pattern (29 bp):
ATTATTTTTCTTGGTCAAAAGGAAGAATT
Found at i:61727 original size:18 final size:18
Alignment explanation
Indices: 61701--61740 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
61691 TTTATATATT
* *
61701 TTAATTTAAATTCACATG
1 TTAAATTAAATTCACATC
61719 TTAAATTAAATTCACATC
1 TTAAATTAAATTCACATC
61737 TTAA
1 TTAA
61741 CGTTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (18 bp):
TTAAATTAAATTCACATC
Found at i:61782 original size:30 final size:29
Alignment explanation
Indices: 61734--61818 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 29
61724 TTAAATTCAC
*
61734 ATCTTAACGTT-AAAATATATTTTATTTTT
1 ATCTTAAC-TTAAAAATATATTTTACTTTT
61763 ATCTTAACTTAATAAATATATTTTACTTTT
1 ATCTTAACTTAA-AAATATATTTTACTTTT
*
61793 ATTTTAACTTAAAAAAATATATTTTA
1 ATCTTAACTT--AAAAATATATTTTA
61819 GTCTAATTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
28 2 0.04
29 9 0.18
30 25 0.50
31 12 0.24
32 2 0.04
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (29 bp):
ATCTTAACTTAAAAATATATTTTACTTTT
Found at i:61828 original size:31 final size:30
Alignment explanation
Indices: 61745--61818 Score: 112
Period size: 30 Copynumber: 2.4 Consensus size: 30
61735 TCTTAACGTT
* *
61745 AAAATATATTTTATTTTTATCTTAACTTAA
1 AAAATATATTTTACTTTTATTTTAACTTAA
*
61775 TAAATATATTTTACTTTTATTTTAACTTAAA
1 AAAATATATTTTACTTTTATTTTAACTT-AA
61806 AAAATATATTTTA
1 AAAATATATTTTA
61819 GTCTAATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 25 0.64
31 14 0.36
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (30 bp):
AAAATATATTTTACTTTTATTTTAACTTAA
Found at i:61942 original size:29 final size:29
Alignment explanation
Indices: 61884--62020 Score: 95
Period size: 28 Copynumber: 4.7 Consensus size: 29
61874 TATTTTAATT
* *
61884 TAAGATATGTTTTTAAAAGTTAATATAAGAA
1 TAAGATATATTTTT--AAGTTAAAATAAGAA
*
61915 TAAGATATATTTTTAAGTTAAAATAAGAT
1 TAAGATATATTTTTAAGTTAAAATAAGAA
* * *
61944 TAAAATATA-TTTTAAATAAAAATAA-AA
1 TAAGATATATTTTTAAGTTAAAATAAGAA
* * * *
61971 TTAA-ACA-ATTTAATAAGTTAAGATAAAAA
1 -TAAGATATATTT-TTAAGTTAAAATAAGAA
*
62000 TAATATATA-TTTTAATGTTAA
1 TAAGATATATTTTTAA-GTTAA
62021 GATGTGAATT
Statistics
Matches: 85, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
26 1 0.01
27 5 0.06
28 33 0.39
29 32 0.38
30 1 0.01
31 13 0.15
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.39
Consensus pattern (29 bp):
TAAGATATATTTTTAAGTTAAAATAAGAA
Found at i:63695 original size:51 final size:50
Alignment explanation
Indices: 63616--63795 Score: 159
Period size: 51 Copynumber: 3.6 Consensus size: 50
63606 AGCTCAGGTG
**
63616 TAAGTATGTGTTAAGTGCTACACATTTTTATTTTATTCACTTACACTAGTA
1 TAAGTATGTGTTAAGTGCTACATTTTTTTATTTTATTCACTTA-ACTAGTA
* * * * **
63667 TAAGTATATGTTAAGTGCTACATTTTTTTATTATATACAATT-A-TA-CC
1 TAAGTATGTGTTAAGTGCTACATTTTTTTATTTTATTCACTTAACTAGTA
* * * *
63714 TAAGTATGTGTTAAATTCTATACTTTTATTTTATTTTATTCACTTATACTAGTG
1 TAAGTATGTGTTAAGTGC--TACATTT-TTTTATTTTATTCACTTA-ACTAGTA
* **
63768 TAAGTGTGTGTTAAGTTATACATTTTTT
1 TAAGTATGTGTTAAGTGCTACATTTTTT
63796 GTAGTATGAA
Statistics
Matches: 101, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
47 15 0.15
48 2 0.02
49 7 0.07
50 14 0.14
51 39 0.39
52 7 0.07
53 2 0.02
54 15 0.15
ACGTcount: A:0.29, C:0.10, G:0.11, T:0.49
Consensus pattern (50 bp):
TAAGTATGTGTTAAGTGCTACATTTTTTTATTTTATTCACTTAACTAGTA
Found at i:64299 original size:23 final size:24
Alignment explanation
Indices: 64273--64318 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
64263 AGAACTGAAA
64273 TTTTGA-TGAAGTCAAATTAAAAG
1 TTTTGAGTGAAGTCAAATTAAAAG
*
64296 TTTTGAGTTAAGTCAAATTAAAA
1 TTTTGAGTGAAGTCAAATTAAAA
64319 ATATTAGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.37
Consensus pattern (24 bp):
TTTTGAGTGAAGTCAAATTAAAAG
Found at i:64328 original size:25 final size:24
Alignment explanation
Indices: 64281--64331 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
64271 AATTTTGATG
* *
64281 AAGTCAAATTAAAAGTTTTGAGTT
1 AAGTCAAATTAAAAATTTAGAGTT
64305 AAGTCAAATTAAAAATATTAGAGTT
1 AAGTCAAATTAAAAAT-TTAGAGTT
64330 AA
1 AA
64332 TTAAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.49, C:0.04, G:0.14, T:0.33
Consensus pattern (24 bp):
AAGTCAAATTAAAAATTTAGAGTT
Found at i:67171 original size:15 final size:14
Alignment explanation
Indices: 67151--67207 Score: 73
Period size: 15 Copynumber: 4.0 Consensus size: 14
67141 TAAATTATTT
67151 ATAATTAATATTAAA
1 ATAATTAATATT-AA
67166 ATAATTATATATT--
1 ATAATTA-ATATTAA
67179 ATAATTAATATTAA
1 ATAATTAATATTAA
67193 TATAATTAATATTAA
1 -ATAATTAATATTAA
67208 CTTATATTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
12 5 0.13
13 7 0.18
15 21 0.55
16 5 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATAATTAATATTAA
Found at i:67184 original size:28 final size:28
Alignment explanation
Indices: 67129--67301 Score: 119
Period size: 28 Copynumber: 6.1 Consensus size: 28
67119 ATCCATATAA
*
67129 AATTTATATTAATA-AA-T-TAT-TTAT
1 AATTAATATTAATATAATTATATATTAT
*
67153 AATTAATATTAAAATAATTATATATTAT
1 AATTAATATTAATATAATTATATATTAT
67181 AATTAATATTAATATAATTA-ATATTA-
1 AATTAATATTAATATAATTATATATTAT
* *
67207 ACTT-ATATTAATATAATATAGTTTATAATTTGT
1 AATTAATATTAATATAAT-TA---TAT-A-TTAT
*
67240 AATTAATATTAATATAA-AATATAGTTTAT
1 AATTAATATTAATATAATTATATA--TTAT
* * *
67269 AAAGATAATATTAATATAAACTATATGTTAT
1 -AA-TTAATATTAATAT-AATTATATATTAT
67300 AA
1 AA
67302 ATTATATAGT
Statistics
Matches: 120, Mismatches: 11, Indels: 30
0.75 0.07 0.19
Matches are distributed among these distances:
24 12 0.10
25 15 0.12
26 6 0.05
27 9 0.08
28 24 0.20
29 7 0.06
30 6 0.05
31 17 0.14
32 5 0.04
33 7 0.06
34 12 0.10
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (28 bp):
AATTAATATTAATATAATTATATATTAT
Found at i:67220 original size:25 final size:27
Alignment explanation
Indices: 67129--67256 Score: 120
Period size: 28 Copynumber: 4.6 Consensus size: 27
67119 ATCCATATAA
*
67129 AATTTATATTAATA-AATT-AT-TTAT
1 AATTAATATTAATATAATTAATATTAT
*
67153 AATTAATATTAAAATAATTATATATTAT
1 AATTAATATTAATATAATTA-ATATTAT
67181 AATTAATATTAATATAATTAATATTAACTT
1 AATTAATATTAATATAATTAATATT-A--T
* * *
67211 ATATTAATA-TAATATAGTTTATAATTTGT
1 A-ATTAATATTAATATAATTAAT-A-TTAT
67240 AATTAATATTAATATAA
1 AATTAATATTAATATAA
67257 AATATAGTTT
Statistics
Matches: 86, Mismatches: 7, Indels: 17
0.78 0.06 0.15
Matches are distributed among these distances:
24 12 0.14
25 4 0.05
27 7 0.08
28 31 0.36
29 9 0.10
30 13 0.15
31 8 0.09
32 2 0.02
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (27 bp):
AATTAATATTAATATAATTAATATTAT
Found at i:67281 original size:31 final size:31
Alignment explanation
Indices: 67239--67425 Score: 168
Period size: 31 Copynumber: 5.8 Consensus size: 31
67229 TTATAATTTG
*
67239 TAATTAATATTAATATAAAATATAGTTTATA
1 TAATTAATATTAATATAAACTATAGTTTATA
*
67270 -AAGATAATATTAATATAAACTATA-TGTTATA
1 TAA-TTAATATTAATATAAACTATAGT-TTATA
* *
67301 -AATTATATAGTATAGTTTATAAACTATAGTTAATA
1 TAATTA-ATA-T-TA--ATATAAACTATAGTTTATA
*
67336 TAATTAATATTAATAT--AGTATAGTTTATAA
1 TAATTAATATTAATATAAACTATAGTTTAT-A
* *
67366 TAATATACTATATTAATATAAATTATAGTTAATA
1 TAAT-TA--ATATTAATATAAACTATAGTTTATA
*
67400 TAATTAACATTAATATAAACTATAGT
1 TAATTAATATTAATATAAACTATAGT
67426 ACTTAATATA
Statistics
Matches: 129, Mismatches: 12, Indels: 30
0.75 0.07 0.18
Matches are distributed among these distances:
29 10 0.08
30 10 0.08
31 52 0.40
32 1 0.01
33 16 0.12
34 6 0.05
35 28 0.22
36 6 0.05
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (31 bp):
TAATTAATATTAATATAAACTATAGTTTATA
Found at i:67320 original size:14 final size:14
Alignment explanation
Indices: 67303--67364 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
67293 ATGTTATAAA
67303 TTATATAGTATAGT
1 TTATATAGTATAGT
* *
67317 TTATAAACTATAGT
1 TTATATAGTATAGT
* *
67331 TAATATAATTAATA-T
1 TTATAT-AGT-ATAGT
*
67346 TAATATAGTATAGT
1 TTATATAGTATAGT
67360 TTATA
1 TTATA
67365 ATAATATACT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
13 3 0.08
14 23 0.61
15 9 0.24
16 3 0.08
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.47
Consensus pattern (14 bp):
TTATATAGTATAGT
Found at i:67323 original size:66 final size:65
Alignment explanation
Indices: 67252--67456 Score: 217
Period size: 64 Copynumber: 3.2 Consensus size: 65
67242 TTAATATTAA
* * * *
67252 TATAAAATATAGTTTATA-AAGATAATATTAATATAAACTATATGTTATAAATTATATAGTATAG
1 TATAAATTATAGTTAATATAA-TTAATATTAATATAAACTATA-GTTATAAATTATATACTATAG
67316 TT
64 TT
* * *
67318 TATAAACTATAGTTAATATAATTAATATTAATAT--AGTATAGTT-TATAATAATATACTATA-T
1 TATAAATTATAGTTAATATAATTAATATTAATATAAACTATAGTTATA-AATTATATACTATAGT
67379 T
65 T
* * *
67380 AATATAAATTATAGTTAATATAATTAACATTAATATAAACTATAG-TACTTAA-TATAAACTATA
1 --TATAAATTATAGTTAATATAATTAATATTAATATAAACTATAGTTA-TAAATTATATACTATA
67443 GTT
63 GTT
67446 TATAAATTATA
1 TATAAATTATA
67457 TATTATAGGT
Statistics
Matches: 118, Mismatches: 12, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
62 4 0.03
63 15 0.13
64 48 0.41
65 10 0.08
66 38 0.32
67 3 0.03
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.42
Consensus pattern (65 bp):
TATAAATTATAGTTAATATAATTAATATTAATATAAACTATAGTTATAAATTATATACTATAGTT
Found at i:67350 original size:15 final size:15
Alignment explanation
Indices: 67330--67417 Score: 65
Period size: 15 Copynumber: 5.6 Consensus size: 15
67320 TAAACTATAG
67330 TTAATATAATTAATA
1 TTAATATAATTAATA
*
67345 TTAATAT-AGT-ATA
1 TTAATATAATTAATA
*
67358 GTTTATAATAATATACTATA
1 -TTAAT-ATAAT-TA--ATA
67378 TTAATATAAATT-ATA
1 TTAATAT-AATTAATA
*
67393 GTTAATATAATTAACA
1 -TTAATATAATTAATA
67409 TTAATATAA
1 TTAATATAA
67418 ACTATAGTAC
Statistics
Matches: 58, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
13 3 0.05
14 6 0.10
15 25 0.43
16 10 0.17
17 1 0.02
18 3 0.05
19 7 0.12
20 3 0.05
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.44
Consensus pattern (15 bp):
TTAATATAATTAATA
Found at i:67369 original size:20 final size:20
Alignment explanation
Indices: 67305--67377 Score: 60
Period size: 20 Copynumber: 3.5 Consensus size: 20
67295 GTTATAAATT
67305 ATATAGTATAGTTTATAA-A
1 ATATAGTATAGTTTATAATA
* *
67324 CTATAGTTAATA-TAATTAATATTA
1 ATATAG-T-ATAGT--TT-ATAATA
67348 ATATAGTATAGTTTATAATA
1 ATATAGTATAGTTTATAATA
*
67368 ATATACTATA
1 ATATAGTATA
67378 TTAATATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 13
0.70 0.08 0.22
Matches are distributed among these distances:
19 5 0.12
20 16 0.38
21 5 0.12
22 5 0.12
23 5 0.12
24 6 0.14
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.44
Consensus pattern (20 bp):
ATATAGTATAGTTTATAATA
Found at i:67396 original size:64 final size:64
Alignment explanation
Indices: 67166--67417 Score: 241
Period size: 64 Copynumber: 3.9 Consensus size: 64
67156 TAATATTAAA
* *
67166 ATAATTATATATTATAATTAATATTAATATAATTAATATTAACTT-ATATTAATATAATATAGTT
1 ATAATTATATATTAT-ATTAATATAAATATAGTTAATA-TAACTTAATATTAATATAATATAGTT
67230 T
64 T
* * **
67231 ATAATT-TGTAATTAATATTAATATAAAATATAGTTTATA-AAGATAATATTAATATAAACTATA
1 ATAATTATAT-ATT-ATATTAATAT-AAATATAGTTAATATAACTTAATATTAATAT-AA-TATA
67294 -TGTT
61 GT-TT
* *
67298 ATAAATTATATAGTATAGTT--TATAAACTATAGTTAATATAA-TTAATATTAATATAGTATAGT
1 AT-AATTATATATTATA-TTAATATAAA-TATAGTTAATATAACTTAATATTAATATAATATAGT
67360 TT
63 TT
* * *
67362 ATAATAATATACTATATTAATATAAATTATAGTTAATATAA-TTAACATTAATATAA
1 ATAATTATATATTATATTAATATAAA-TATAGTTAATATAACTTAATATTAATATAA
67418 ACTATAGTAC
Statistics
Matches: 156, Mismatches: 16, Indels: 31
0.77 0.08 0.15
Matches are distributed among these distances:
62 2 0.01
63 12 0.08
64 46 0.29
65 32 0.21
66 41 0.26
67 13 0.08
68 8 0.05
69 2 0.01
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (64 bp):
ATAATTATATATTATATTAATATAAATATAGTTAATATAACTTAATATTAATATAATATAGTTT
Found at i:67484 original size:21 final size:21
Alignment explanation
Indices: 67432--67484 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
67422 TAGTACTTAA
* *
67432 TATAAACTATAGTTTATAAAT
1 TATAAACTATAGGTTATAAAG
* *
67453 TATATATTATAGGTTATAAAG
1 TATAAACTATAGGTTATAAAG
67474 TATAAACTATA
1 TATAAACTATA
67485 TAGTACACTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.42
Consensus pattern (21 bp):
TATAAACTATAGGTTATAAAG
Found at i:67578 original size:24 final size:24
Alignment explanation
Indices: 67537--67588 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
67527 ATATATAGTT
*
67537 TATATAGCATATAAATAGATTGTA
1 TATATAGCATATAAATAGATTATA
* *
67561 TATATA-CATATACTATAGGTTATA
1 TATATAGCATATA-AATAGATTATA
67585 TATA
1 TATA
67589 GTTCATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (24 bp):
TATATAGCATATAAATAGATTATA
Found at i:67695 original size:18 final size:18
Alignment explanation
Indices: 67674--67906 Score: 119
Period size: 18 Copynumber: 13.1 Consensus size: 18
67664 AATAAATTAA
67674 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
67692 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
***
67710 TA-ATAAACTATATA-A-
1 TATATAGTTTATATATAC
*
67725 TATATAGTTTGTATATAC
1 TATATAGTTTATATATAC
* * * *
67743 CATATACTATATAGGT-TATT
1 TATATAGTTTATA--TATA-C
* ** *
67763 TATACTAATGAACTATATAA
1 TATA-TAGTTTA-TATATAC
*
67783 TATATAGTTTATACATAC
1 TATATAGTTTATATATAC
* *
67801 TA-AT-G--AACTATATAG
1 TATATAGTTTA-TATATAC
*
67816 TATATAGTTTATATATAT
1 TATATAGTTTATATATAC
** *
67834 TA-AT-GAACTATATATAA
1 TATATAG-TTTATATATAC
*
67851 TGTATAGTTTATATATAC
1 TATATAGTTTATATATAC
* *
67869 CATATAGTCTATATATA-
1 TATATAGTTTATATATAC
67886 TCATATAGTTTATATATAC
1 T-ATATAGTTTATATATAC
67905 TA
1 TA
67907 ATAAACTATA
Statistics
Matches: 157, Mismatches: 39, Indels: 38
0.67 0.17 0.16
Matches are distributed among these distances:
14 1 0.01
15 9 0.06
16 13 0.08
17 24 0.15
18 84 0.54
19 9 0.06
20 9 0.06
21 6 0.04
22 2 0.01
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:67705 original size:51 final size:51
Alignment explanation
Indices: 67648--67802 Score: 125
Period size: 51 Copynumber: 2.9 Consensus size: 51
67638 TTTCAGTTAA
* *
67648 TATATATGTTTATATTAATAAATTAATATATAGTTTATATATACTATATAG
1 TATATATATTTATATTAATAAATTAATATATAGTTTATATATACTATATAC
* * * * * *
67699 TTTATATATACTA-ATAAACTATA-TAATATATAGTTTGTATATACCATATAC
1 TATATATAT-TTATATTAA-TAAATTAATATATAGTTTATATATACTATATAC
* *
67750 TATATAGGTTATTTATACTAATGAACTATATAATATATAGTTTATACATACTA
1 TATATA---TATTTATATTAAT-AA--AT-TAATATATAGTTTATATATACTA
67803 ATGAACTATA
Statistics
Matches: 77, Mismatches: 16, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
51 41 0.53
52 5 0.06
53 3 0.04
54 7 0.09
56 1 0.01
58 20 0.26
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (51 bp):
TATATATATTTATATTAATAAATTAATATATAGTTTATATATACTATATAC
Found at i:67729 original size:33 final size:33
Alignment explanation
Indices: 67685--67930 Score: 247
Period size: 33 Copynumber: 7.5 Consensus size: 33
67675 ATATAGTTTA
*
67685 TATATACTATATAGTTTATATATACTAATAAAC
1 TATATAATATATAGTTTATATATACTAATAAAC
*
67718 TATATAATATATAGTTTGTATATAC-------C
1 TATATAATATATAGTTTATATATACTAATAAAC
* * * *
67744 -ATATACTATATAGGTTATTTATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATAAAC
* *
67776 TATATAATATATAGTTTATACATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATAAAC
* * *
67809 TATATAGTATATAGTTTATATATATTAATGAAC
1 TATATAATATATAGTTTATATATACTAATAAAC
* * **
67842 TATATATAATGTATAGTTTATATATACCATATAGTC
1 --TATATAATATATAGTTTATATATACTA-ATAAAC
67878 TATATATATCATATAGTTTATATATACTAATAAAC
1 TATATA-AT-ATATAGTTTATATATACTAATAAAC
*
67913 TATATAATGTATAGTTTA
1 TATATAATATATAGTTTA
67931 GGGTTTATGG
Statistics
Matches: 175, Mismatches: 25, Indels: 26
0.77 0.11 0.12
Matches are distributed among these distances:
25 20 0.11
26 1 0.01
32 1 0.01
33 90 0.51
34 8 0.05
35 35 0.20
36 20 0.11
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.43
Consensus pattern (33 bp):
TATATAATATATAGTTTATATATACTAATAAAC
Found at i:67989 original size:7 final size:7
Alignment explanation
Indices: 67974--68087 Score: 60
Period size: 7 Copynumber: 16.6 Consensus size: 7
67964 ATATGTAAAT
*
67974 TATACTA
1 TATAGTA
67981 TATAGTATA
1 TATAG--TA
*
67990 TATAGTT
1 TATAGTA
67997 TATA-TA
1 TATAGTA
*
68003 TATAATA
1 TATAGTA
68010 TATAGTA
1 TATAGTA
*
68017 TATA-AA
1 TATAGTA
*
68023 TATA-AA
1 TATAGTA
68029 CTATAGTA
1 -TATAGTA
*
68037 TGTAGTA
1 TATAGTA
*
68044 TATA-AA
1 TATAGTA
*
68050 TATA-AA
1 TATAGTA
*
68056 CTATAGTT
1 -TATAGTA
68064 TATA-TA
1 TATAGTA
68070 TATAGTA
1 TATAGTA
*
68077 TATACTA
1 TATAGTA
68084 TATA
1 TATA
68088 AATAGTGTAT
Statistics
Matches: 86, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
6 24 0.28
7 54 0.63
8 1 0.01
9 7 0.08
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (7 bp):
TATAGTA
Found at i:67990 original size:34 final size:36
Alignment explanation
Indices: 67952--68020 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 36
67942 TTAGTATTTT
*
67952 TATATATAGTTCATATGTA-AAT-TATACTATATAG
1 TATATATAGTTCATATATATAATATATACTATATAG
* *
67986 TATATATAGTTTATATATATAATATATAGTATATA
1 TATATATAGTTCATATATATAATATATACTATATA
68021 AATATAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 17 0.57
35 3 0.10
36 10 0.33
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (36 bp):
TATATATAGTTCATATATATAATATATACTATATAG
Found at i:68004 original size:20 final size:19
Alignment explanation
Indices: 67979--68105 Score: 74
Period size: 20 Copynumber: 6.0 Consensus size: 19
67969 TAAATTATAC
67979 TATATAGTATATATAGTTTA
1 TATATA-TATATATAGTTTA
*
67999 TATATATAATATATAGTATA
1 TATATAT-ATATATAGTTTA
* *
68019 TAAATATAAACTATAGTATGTA
1 TATATATATA-TATAGT-T-TA
68041 GTATATAAATATAAACTATAGTTTA
1 -TATAT--ATAT--A-TATAGTTTA
* *
68066 TATATATAGTATATACTATA
1 TATATATA-TATATAGTTTA
* *
68086 TAAATAGTGTATATAGTTTA
1 TATATA-TATATATAGTTTA
68106 AGGGGTTGAA
Statistics
Matches: 84, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
19 3 0.04
20 50 0.60
21 2 0.02
22 5 0.06
23 5 0.06
24 5 0.06
25 5 0.06
26 1 0.01
27 8 0.10
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (19 bp):
TATATATATATATAGTTTA
Found at i:68033 original size:27 final size:27
Alignment explanation
Indices: 68003--68098 Score: 99
Period size: 27 Copynumber: 3.7 Consensus size: 27
67993 AGTTTATATA
68003 TATAATATATAGTATATAAATATAAAC
1 TATAATATATAGTATATAAATATAAAC
* *
68030 TATAGTATGTAGTATATAAATATAAAC
1 TATAATATATAGTATATAAATATAAAC
* * * *
68057 TATAGTTTATA-TATAT-AGTATATAC
1 TATAATATATAGTATATAAATATAAAC
* *
68082 TAT-ATAAATAGTGTATA
1 TATAATATATAGTATATA
68099 TAGTTTAAGG
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
24 4 0.07
25 14 0.25
26 5 0.09
27 34 0.60
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (27 bp):
TATAATATATAGTATATAAATATAAAC
Found at i:69301 original size:236 final size:225
Alignment explanation
Indices: 68888--69305 Score: 712
Period size: 236 Copynumber: 1.8 Consensus size: 225
68878 TGTTTCATGG
*
68888 TTTCTATTTTTTATTTTGGGTTCCTTTTTCGGAGGATAACACACCCATCATGTTTCTTATTTTTG
1 TTTCTATTTTTTATTTTGGGTTCCTTTTTCAGAGGATAACACACCCATCATGTTTCTTATTTTTG
68953 CTTCACCTTTTGAGGGCAATGTTTATCTACGACGAAAGGTAAGGTTATGAGAACTTCAATTGAGA
66 CTTCACCTTTTGAGGGCAATGTTTATCTACGACGAAAGGTAAGGTTATGAGAACTTCAATTGAGA
69018 TACTTTGATGGTGAACAATTGGTCTTATTGTTGCCTGGTTTTTATGCTATTTTCTATTTTATGTT
131 TACTTTGATGGTGAACAATTGGTCTTATTGTTGCCTGGTTTTTATGCTATTTTCTATTTTATGTT
69083 TCTCTTCGAAGGGTAAAGTCCCCATCCTAA
196 TCTCTTCGAAGGGTAAAGTCCCCATCCTAA
69113 TTTCT-TTTTTCTATTTTGGGTTCCTTTTTCAGAGGATAACACACCCATCATGTTTCTTATTTTT
1 TTTCTATTTTT-TATTTTGGGTTCCTTTTTCAGAGGATAACACACCCATCATGTTTCTTATTTTT
69177 GCTTCACCTTTTGAGGGAAATTTCCCCATCATGTTTATCTACGACGAAAGGTAAGGTTATGAGAA
65 GCTTCACCTTTTGAGGG---------CA--ATGTTTATCTACGACGAAAGGTAAGGTTATGAGAA
69242 CTTCAATTGAGATACTTTGATGGTGAACAATTGGTCTTATTGTTGCCTGGTTTTTATGCTATTT
119 CTTCAATTGAGATACTTTGATGGTGAACAATTGGTCTTATTGTTGCCTGGTTTTTATGCTATTT
69306 ATTACATCAT
Statistics
Matches: 180, Mismatches: 1, Indels: 13
0.93 0.01 0.07
Matches are distributed among these distances:
224 5 0.03
225 74 0.41
234 2 0.01
236 99 0.55
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (225 bp):
TTTCTATTTTTTATTTTGGGTTCCTTTTTCAGAGGATAACACACCCATCATGTTTCTTATTTTTG
CTTCACCTTTTGAGGGCAATGTTTATCTACGACGAAAGGTAAGGTTATGAGAACTTCAATTGAGA
TACTTTGATGGTGAACAATTGGTCTTATTGTTGCCTGGTTTTTATGCTATTTTCTATTTTATGTT
TCTCTTCGAAGGGTAAAGTCCCCATCCTAA
Found at i:72073 original size:13 final size:13
Alignment explanation
Indices: 72031--72099 Score: 75
Period size: 13 Copynumber: 5.2 Consensus size: 13
72021 CTAAGTCAAC
72031 CCATTGACTTTGA
1 CCATTGACTTTGA
*
72044 CCCATTGACTTTTA
1 -CCATTGACTTTGA
* *
72058 CCGTTAACTTTGA
1 CCATTGACTTTGA
*
72071 CCGTTGACTGTTGA
1 CCATTGACT-TTGA
*
72085 CTATTGACTTTGA
1 CCATTGACTTTGA
72098 CC
1 CC
72100 TAAAAAAATC
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
13 23 0.50
14 23 0.50
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.39
Consensus pattern (13 bp):
CCATTGACTTTGA
Found at i:72094 original size:27 final size:26
Alignment explanation
Indices: 72031--72099 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 26
72021 CTAAGTCAAC
*
72031 CCATTGACTTTGACCCATTGACTTTTA
1 CCATTGACTTTGA-CCATTGACTTTGA
* * *
72058 CCGTTAACTTTGACCGTTGACTGTTGA
1 CCATTGACTTTGACCATTGACT-TTGA
*
72085 CTATTGACTTTGACC
1 CCATTGACTTTGACC
72100 TAAAAAAATC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
26 8 0.24
27 26 0.76
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.39
Consensus pattern (26 bp):
CCATTGACTTTGACCATTGACTTTGA
Found at i:74242 original size:18 final size:18
Alignment explanation
Indices: 74219--74254 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
74209 GGGGGGTTTG
*
74219 GTAAAATGAAATTAAATA
1 GTAAAAAGAAATTAAATA
*
74237 GTAAAAAGAGATTAAATA
1 GTAAAAAGAAATTAAATA
74255 AATAAAGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.25
Consensus pattern (18 bp):
GTAAAAAGAAATTAAATA
Found at i:77426 original size:17 final size:17
Alignment explanation
Indices: 77404--77437 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
77394 AGAATACGTT
77404 GTGGCAAAAAATTAAAA
1 GTGGCAAAAAATTAAAA
* *
77421 GTGGCATAGAATTAAAA
1 GTGGCAAAAAATTAAAA
77438 CACAAGTACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.21, T:0.21
Consensus pattern (17 bp):
GTGGCAAAAAATTAAAA
Found at i:78581 original size:19 final size:20
Alignment explanation
Indices: 78538--78588 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
78528 AGGAGTCAAC
*
78538 GGTATCGGTACCATCAGAGG
1 GGTATCGATACCATCAGAGG
78558 GGTATCGATACCAT-ATGA-G
1 GGTATCGATACCATCA-GAGG
*
78577 GGTATTGATACC
1 GGTATCGATACC
78589 CTATTTTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (20 bp):
GGTATCGATACCATCAGAGG
Found at i:85578 original size:23 final size:23
Alignment explanation
Indices: 85547--85629 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
85537 CTATGCACTA
*
85547 GGTATCGATACCCCCTTTGAATG
1 GGTACCGATACCCCCTTTGAATG
**
85570 GGTACCGATACCATCTTTGAATG
1 GGTACCGATACCCCCTTTGAATG
* * *
85593 GGTATCGATACCTCC-ATG-A-G
1 GGTACCGATACCCCCTTTGAATG
*
85613 GGTACCTATACCCCCTT
1 GGTACCGATACCCCCTT
85630 CGGGTTTTGG
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
20 13 0.27
21 1 0.02
22 2 0.04
23 32 0.67
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (23 bp):
GGTACCGATACCCCCTTTGAATG
Found at i:86106 original size:13 final size:13
Alignment explanation
Indices: 86088--86121 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
86078 TACACCTTGA
*
86088 TTTTCAAACATTG
1 TTTTCAAACATAG
86101 TTTTCAAACATAG
1 TTTTCAAACATAG
86114 TTTTCAAA
1 TTTTCAAA
86122 AAATTTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (13 bp):
TTTTCAAACATAG
Found at i:86718 original size:15 final size:15
Alignment explanation
Indices: 86698--86727 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
86688 CTAACGCATT
86698 TGGATTAGATAATGA
1 TGGATTAGATAATGA
*
86713 TGGATTATATAATGA
1 TGGATTAGATAATGA
86728 AAAGGAAATA
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:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (15 bp):
TGGATTAGATAATGA
Found at i:87339 original size:15 final size:15
Alignment explanation
Indices: 87319--87356 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
87309 CGAGCACGTT
87319 ATCCTCCTCCTCCCG
1 ATCCTCCTCCTCCCG
87334 ATCCTCCTCCTCCCG
1 ATCCTCCTCCTCCCG
87349 ATCCTCCT
1 ATCCTCCT
87357 ATGGATTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.08, C:0.58, G:0.05, T:0.29
Consensus pattern (15 bp):
ATCCTCCTCCTCCCG
Found at i:88341 original size:21 final size:21
Alignment explanation
Indices: 88315--88370 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
88305 TTACACTACA
88315 GGTATCGATACCCTATGGAGG
1 GGTATCGATACCCTATGGAGG
*
88336 GGTATCGATACCCTATGGCGG
1 GGTATCGATACCCTATGGAGG
*
88357 GGTACCGATACCCT
1 GGTATCGATACCCT
88371 CACGCTCCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.23
Consensus pattern (21 bp):
GGTATCGATACCCTATGGAGG
Done.