Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007096.1 Hibiscus syriacus cultivar Beakdansim tig00018544_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: 246292
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
File 2 of 2
Found at i:137782 original size:6 final size:6
Alignment explanation
Indices: 137764--137836 Score: 53
Period size: 6 Copynumber: 12.2 Consensus size: 6
137754 TATATATACC
* * *
137764 TTTA-T TTTATT TTTCTTT TTTATT TTTA-T TAT-TT TTTATA TTTATT
1 TTTATT TTTATT TTT-ATT TTTATT TTTATT TTTATT TTTATT TTTATT
* *
137810 TATATCA TTTATTT TTTATT TTTATT T
1 TTTAT-T TTTA-TT TTTATT TTTATT T
137837 AATTTTATTT
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
5 10 0.19
6 29 0.56
7 12 0.23
8 1 0.02
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:137808 original size:13 final size:13
Alignment explanation
Indices: 137792--137836 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
137782 TTTATTTTTA
137792 TTATTTTTTATAT
1 TTATTTTTTATAT
*
137805 TTA-TTTATATCAT
1 TTATTTTTTAT-AT
*
137818 TTATTTTTTATTT
1 TTATTTTTTATAT
137831 TTATTT
1 TTATTT
137837 AATTTTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 6 0.22
13 15 0.56
14 6 0.22
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTTTTTATAT
Found at i:137841 original size:22 final size:22
Alignment explanation
Indices: 137764--137846 Score: 60
Period size: 22 Copynumber: 3.5 Consensus size: 22
137754 TATATATACC
* **
137764 TTTATTTTATTTTTCTTTTTTA
1 TTTAATTTATTTTTTATTTTTA
* *
137786 TTT-TTATTATTTTTTATATTTA
1 TTTAAT-TTATTTTTTATTTTTA
137808 TTTATATCATTTATTTTTTATTTTTA
1 -TT-TA--ATTTATTTTTTATTTTTA
137834 TTTAATTTTATTT
1 TTTAA-TTTATTT
137847 AACTTAATTA
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
21 2 0.04
22 17 0.35
23 9 0.18
24 3 0.06
25 2 0.04
26 15 0.31
27 1 0.02
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTAATTTATTTTTTATTTTTA
Found at i:137933 original size:21 final size:21
Alignment explanation
Indices: 137895--137956 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
137885 ACTTTAGTTA
*
137895 ATTTTATTATTT-TCTTTTTAT
1 ATTTTA-TATTTATGTTTTTAT
137916 ATTTTATATTTATG-TTTTAT
1 ATTTTATATTTATGTTTTTAT
* *
137936 TTATTTATTTTTATTGTTTTT
1 AT-TTTATATTTA-TGTTTTT
137957 CTAACATTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 12 0.35
21 16 0.47
22 2 0.06
23 4 0.12
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (21 bp):
ATTTTATATTTATGTTTTTAT
Found at i:139335 original size:34 final size:31
Alignment explanation
Indices: 139252--139340 Score: 79
Period size: 34 Copynumber: 2.7 Consensus size: 31
139242 TTAGTATTTT
* * *
139252 TTTAAATAGTTATTATATTTTATATTAATATA
1 TTTATATAATTATTAT-TTTTTTATTAATATA
* * *
139284 ATTATATAAATACTATTTTTTTATTAAAATAATA
1 TTTATATAATTATTATTTTTTTATT--AAT-ATA
*
139318 TTTATATAATTATTATTTATTTA
1 TTTATATAATTATTATTTTTTTA
139341 GAATTATTAA
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
31 8 0.18
32 11 0.25
33 3 0.07
34 22 0.50
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (31 bp):
TTTATATAATTATTATTTTTTTATTAATATA
Found at i:139502 original size:17 final size:17
Alignment explanation
Indices: 139480--139533 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
139470 TAATGTTAAT
139480 ATTTAAAATTATTTTTA
1 ATTTAAAATTATTTTTA
* * *
139497 ATTTAAAGTTATTATGA
1 ATTTAAAATTATTTTTA
* *
139514 ATTT-ATATTAATTTTA
1 ATTTAAAATTATTTTTA
139530 ATTT
1 ATTT
139534 TTTATAATGC
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 11 0.38
17 18 0.62
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (17 bp):
ATTTAAAATTATTTTTA
Found at i:141131 original size:21 final size:21
Alignment explanation
Indices: 141105--141219 Score: 126
Period size: 21 Copynumber: 5.5 Consensus size: 21
141095 TATGCCATCT
*
141105 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
141126 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
* * *
141147 CCGCCA-AGTTACATTTCGAGC
1 CCG-CAGGGTTACATTCCTAGC
* *
141168 CCGCAAGGTTATATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
* *
141189 CCGCCA-GGTTACATGCATAGC
1 CCG-CAGGGTTACATTCCTAGC
141210 CCGCAGGGTT
1 CCGCAGGGTT
141220 TTATACCATA
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
20 4 0.05
21 71 0.90
22 4 0.05
ACGTcount: A:0.21, C:0.32, G:0.24, T:0.23
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:141159 original size:42 final size:42
Alignment explanation
Indices: 141112--141219 Score: 153
Period size: 42 Copynumber: 2.6 Consensus size: 42
141102 TCTCCGCAGG
141112 GTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCAA
1 GTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCAA
* * * *
141154 GTTACATTTCGAGCCCGCAAGGTTATATTCCTAGCCCGCCAG
1 GTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCAA
* **
141196 GTTACATGCATAGCCCGCAGGGTT
1 GTTACATTCCGAGCCCGCAGGGTT
141220 TTATACCATA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.24
Consensus pattern (42 bp):
GTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCAA
Found at i:141845 original size:34 final size:34
Alignment explanation
Indices: 141740--141846 Score: 151
Period size: 34 Copynumber: 3.1 Consensus size: 34
141730 ATAAATGTTT
*
141740 TTAAAATACAAATTATATTATTCAAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCAAAATTTAAAA
* * *
141774 TAAAAATAAAAATAATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCAAAATTTAAAA
* * *
141808 TTAAAATATAAATTATAGTATTCAAAATTTAACA
1 TTAAAATAAAAATTATATTATTCAAAATTTAAAA
141842 TTAAA
1 TTAAA
141847 TTTCAACTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (34 bp):
TTAAAATAAAAATTATATTATTCAAAATTTAAAA
Found at i:142408 original size:128 final size:128
Alignment explanation
Indices: 142180--142649 Score: 793
Period size: 128 Copynumber: 3.7 Consensus size: 128
142170 ATCTATAGTT
*
142180 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGGCAAAATAATGGAAGGC
1 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGC
* * *
142245 GCGCCCCCGGGAACGCGCCTTCAAGTCCCATGAGAAATAATAGGTACTGATATGAATAGTGTC
66 GCCCCCCCGAGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTC
*
142308 CCCGAGGGACATGAGTGACATAATAGGGCCATGATAACATATTCTCTGACAAAATAATGGAAGGC
1 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGC
142373 GCCCCCCCGAGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTC
66 GCCCCCCCGAGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTC
* *
142436 CCCGAGGGACATGAGTGACATAATAGGGTAATTATAACATATTCTCTGACAAAATAATGGAAGGC
1 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGC
* * *
142501 GCCTCCCC-AGGAACGTGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGCC
66 GCCCCCCCGA-GAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTC
142564 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAATGT
1 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAA-G-
*
142629 GCG-CCCCCAG-GAACGCGCCTT
64 GCGCCCCCCCGAGAACGCGCCTT
142650 AATGTGAATA
Statistics
Matches: 322, Mismatches: 16, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
127 1 0.00
128 313 0.97
129 5 0.02
130 3 0.01
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (128 bp):
CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGC
GCCCCCCCGAGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTC
Found at i:142745 original size:8 final size:8
Alignment explanation
Indices: 142732--142772 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
142722 TCACAAGCTT
142732 TCAAATTC
1 TCAAATTC
142740 TCAAATTC
1 TCAAATTC
* *
142748 CCAAACTC
1 TCAAATTC
142756 T-AAATTC
1 TCAAATTC
142763 TCAAATTC
1 TCAAATTC
142771 TC
1 TC
142773 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:148425 original size:21 final size:21
Alignment explanation
Indices: 148399--148443 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
148389 GATTTCTGGG
* *
148399 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
148420 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
148441 CAA
1 CAA
148444 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:149049 original size:18 final size:18
Alignment explanation
Indices: 149026--149060 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
149016 CTAGGAGATT
149026 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
149044 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
149061 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:150254 original size:149 final size:149
Alignment explanation
Indices: 149940--150246 Score: 605
Period size: 149 Copynumber: 2.1 Consensus size: 149
149930 GAGTCGAGGG
*
149940 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGAAAAGACACAT
150005 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
150070 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
150089 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGAAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGAAAAGACACAT
150154 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
150219 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
150238 TCTACGCGG
1 TCTACGCGG
150247 CACTTCGGTG
Statistics
Matches: 157, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 157 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGAAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:150266 original size:23 final size:23
Alignment explanation
Indices: 150222--150266 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
150212 ATTATTATAT
*
150222 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
150245 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
150267 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:152273 original size:16 final size:16
Alignment explanation
Indices: 152252--152292 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
152242 GGTAATTAAA
152252 GATTGATAAAGAATTT
1 GATTGATAAAGAATTT
* *
152268 GATTGATTAAGGATTT
1 GATTGATAAAGAATTT
*
152284 GAGTGATAA
1 GATTGATAA
152293 GAACTGATGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (16 bp):
GATTGATAAAGAATTT
Found at i:153202 original size:21 final size:21
Alignment explanation
Indices: 153176--153220 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
153166 GATTTCTGGG
* *
153176 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
153197 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
153218 CAA
1 CAA
153221 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:153828 original size:18 final size:18
Alignment explanation
Indices: 153805--153839 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
153795 CTAGGAGATT
153805 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
153823 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
153840 CTATATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:154082 original size:2 final size:2
Alignment explanation
Indices: 154075--154103 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
154065 AATCTTGAGG
154075 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
154104 GATAGATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:154904 original size:149 final size:149
Alignment explanation
Indices: 154723--155026 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
154713 GAGTCGAGGG
154723 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
154788 ACTTGATCCCTAACATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAACATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
154853 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
154872 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
* *
154937 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCTTTATGGACATTATTA
66 ACTTGATCCCTAACATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
155002 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
155021 TCTACG
1 TCTACG
155027 GGGCACTTCG
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAACATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:155049 original size:23 final size:23
Alignment explanation
Indices: 155005--155049 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
154995 ATTATTATAT
*
155005 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
155028 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
155050 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:157247 original size:24 final size:25
Alignment explanation
Indices: 157219--157266 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
157209 AATAATATTA
* *
157219 TTTAATATAATTA-TATTTAAATTT
1 TTTAATATAAGTATTAATTAAATTT
*
157243 TTTAATTTAAGTATTAATTAAATT
1 TTTAATATAAGTATTAATTAAATT
157267 AACTTTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (25 bp):
TTTAATATAAGTATTAATTAAATTT
Found at i:157683 original size:31 final size:31
Alignment explanation
Indices: 157648--157714 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
157638 TAAAACTTGC
157648 AATATAATCCCTCAACATTTAGTCCGTTTAT
1 AATATAATCCCTCAACATTTAGTCCGTTTAT
** *
157679 AATATGGTCCCTCAACATTTAGTCCGTTTGT
1 AATATAATCCCTCAACATTTAGTCCGTTTAT
157710 AATAT
1 AATAT
157715 GGTCCCCGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (31 bp):
AATATAATCCCTCAACATTTAGTCCGTTTAT
Found at i:157715 original size:31 final size:31
Alignment explanation
Indices: 157655--157720 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
157645 TGCAATATAA
157655 TCCCTCAACATTTAGTCCGTTTATAATATGG
1 TCCCTCAACATTTAGTCCGTTTATAATATGG
*
157686 TCCCTCAACATTTAGTCCGTTTGTAATATGG
1 TCCCTCAACATTTAGTCCGTTTATAATATGG
157717 TCCC
1 TCCC
157721 CGACGTAACT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.38
Consensus pattern (31 bp):
TCCCTCAACATTTAGTCCGTTTATAATATGG
Found at i:159570 original size:16 final size:18
Alignment explanation
Indices: 159526--159573 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
159516 CAATATTCTT
*
159526 TATTGTCTTTTTCTTTTTTA
1 TATTGTATTTTTC--TTTTA
159546 TATTGTATTTTTCTTTTA
1 TATTGTATTTTTCTTTTA
159564 T-TT-TATTTTT
1 TATTGTATTTTT
159574 TAATTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 7 0.26
17 2 0.07
18 6 0.22
20 12 0.44
ACGTcount: A:0.12, C:0.06, G:0.04, T:0.77
Consensus pattern (18 bp):
TATTGTATTTTTCTTTTA
Found at i:160402 original size:23 final size:23
Alignment explanation
Indices: 160358--160403 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
160348 AAATAAATAA
*
160358 TTTAAAATGATATTAAAGTATTAG
1 TTTAAAA-GATATTAAAATATTAG
160382 TTTAAAA-ATATGTAAAATATTA
1 TTTAAAAGATAT-TAAAATATTA
160404 AAAAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 9 0.45
24 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (23 bp):
TTTAAAAGATATTAAAATATTAG
Found at i:161885 original size:22 final size:22
Alignment explanation
Indices: 161857--161909 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
161847 CAAAGTTTTT
161857 TTTATTAATAATCAATATTCTA
1 TTTATTAATAATCAATATTCTA
161879 TTTATTAATAATCAATATTCTA
1 TTTATTAATAATCAATATTCTA
161901 TTTATTAAT
1 TTTATTAAT
161910 CGATTAATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTATTAATAATCAATATTCTA
Found at i:174181 original size:101 final size:101
Alignment explanation
Indices: 174006--174209 Score: 390
Period size: 101 Copynumber: 2.0 Consensus size: 101
173996 TGTTGGAGGC
174006 TGGATATTGTGATATTGTAGTTGAACATTTGATGATAGTGGAGCTTTTGATCGTACCCTAAAGTT
1 TGGATATTGTGATATTGTAGTTGAACATTTGATGATAGTGGAGCTTTTGATCGTACCCTAAAGTT
*
174071 TTATGGTTTTTATTCTTAATTTAGAGGGGTTTTCCA
66 TTATGGTTTTTATCCTTAATTTAGAGGGGTTTTCCA
174107 TGGATATTGTGATATTGTAGTTGAACATTTGATGATAGTGGAGCTTTTGATCGTACCCTAAAGTT
1 TGGATATTGTGATATTGTAGTTGAACATTTGATGATAGTGGAGCTTTTGATCGTACCCTAAAGTT
*
174172 TTATGGTTTTTATCCTTAATTTATAGGGGTTTTCCA
66 TTATGGTTTTTATCCTTAATTTAGAGGGGTTTTCCA
174208 TG
1 TG
174210 TAAAAATATC
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.24, C:0.09, G:0.23, T:0.45
Consensus pattern (101 bp):
TGGATATTGTGATATTGTAGTTGAACATTTGATGATAGTGGAGCTTTTGATCGTACCCTAAAGTT
TTATGGTTTTTATCCTTAATTTAGAGGGGTTTTCCA
Found at i:181196 original size:19 final size:19
Alignment explanation
Indices: 181168--181217 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
181158 ACTGTTCACG
* *
181168 GTACTGTTCATACATTATA
1 GTACTATTCATACAATATA
181187 GTACTATTCATACAATATA
1 GTACTATTCATACAATATA
181206 GTACTATTCATA
1 GTACTATTCATA
181218 AAACGTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (19 bp):
GTACTATTCATACAATATA
Found at i:187611 original size:17 final size:17
Alignment explanation
Indices: 187570--187614 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
187560 CCCTACTTAA
187570 TTAAATATTTAATAAAT
1 TTAAATATTTAATAAAT
** **
187587 TTGTATATTTTTTAAAT
1 TTAAATATTTAATAAAT
187604 TTAAATATTTA
1 TTAAATATTTA
187615 TTTTTACATG
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTAAATATTTAATAAAT
Found at i:196726 original size:3 final size:3
Alignment explanation
Indices: 196718--196776 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
196708 AAATGAGAAA
196718 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
196766 ATT ATT ATT AT
1 ATT ATT ATT AT
196777 GTTTTTTTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:197415 original size:2 final size:2
Alignment explanation
Indices: 197408--197437 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
197398 ATAGTTTAAC
197408 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
197438 TAAAGAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:202375 original size:23 final size:23
Alignment explanation
Indices: 202349--202404 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
202339 AATTTTATAT
202349 TATTATTATTATAAATTCAT-TTA
1 TATTATTATTATAAATT-ATATTA
* *
202372 TATTATAATAATAAATTATATTA
1 TATTATTATTATAAATTATATTA
*
202395 TATTCTTATT
1 TATTATTATT
202405 TAATATAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 2 0.07
23 25 0.93
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTATTATTATAAATTATATTA
Found at i:203799 original size:3 final size:3
Alignment explanation
Indices: 203791--203896 Score: 112
Period size: 3 Copynumber: 36.0 Consensus size: 3
203781 CCATTTGTTT
* * *
203791 TTA TTA TTA TTA ATA TTA -TA TTA GTA TTA TTTA TT- TATA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA T-TA TTA TTA
*
203836 TTT TTA TTA -TA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
203882 ATA TTA GTA TTA TTA
1 TTA TTA TTA TTA TTA
203897 CAAACATGTC
Statistics
Matches: 85, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
2 7 0.08
3 75 0.88
4 3 0.04
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:203818 original size:17 final size:17
Alignment explanation
Indices: 203792--203896 Score: 129
Period size: 17 Copynumber: 6.0 Consensus size: 17
203782 CATTTGTTTT
*
203792 TATTATTATTAATATTA
1 TATTATTATTATTATTA
*
203809 TATTAGTATTATTTATTTA
1 TATTATTATTA-TTA-TTA
* *
203828 TACTATTATTTTTATTA
1 TATTATTATTATTATTA
203845 TATTATTATTATTATTA
1 TATTATTATTATTATTA
203862 TATTATTATTATTATTA
1 TATTATTATTATTATTA
* *
203879 TTAATATTAGTATTATTA
1 -TATTATTATTATTATTA
203897 CAAACATGTC
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
17 45 0.59
18 20 0.26
19 11 0.14
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (17 bp):
TATTATTATTATTATTA
Found at i:206209 original size:2 final size:2
Alignment explanation
Indices: 206202--206244 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
206192 TTCAAAATTT
206202 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
206244 T
1 T
206245 TTTTTAATGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:213326 original size:9 final size:9
Alignment explanation
Indices: 213312--213341 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
213302 AAATGGCAAT
213312 CATTTTTTA
1 CATTTTTTA
213321 CATTTTTTA
1 CATTTTTTA
213330 CA-TTTTTA
1 CATTTTTTA
213338 CATT
1 CATT
213342 CATTATTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.63
Consensus pattern (9 bp):
CATTTTTTA
Found at i:216889 original size:17 final size:15
Alignment explanation
Indices: 216869--216917 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
216859 ATATTATGCT
216869 TGAAGAAAGAAAAAAA
1 TGAA-AAAGAAAAAAA
*
216885 GTGAATAAGAAAAAAA
1 -TGAAAAAGAAAAAAA
*
216901 TGAAAATGATAAAAAA
1 TGAAAAAGA-AAAAAA
216917 T
1 T
216918 ATATGTAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 7 0.25
16 17 0.61
17 4 0.14
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.14
Consensus pattern (15 bp):
TGAAAAAGAAAAAAA
Found at i:219379 original size:16 final size:16
Alignment explanation
Indices: 219333--219381 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
219323 TTTTCCAGAG
219333 GAAGTTCATAATAAGAA
1 GAAGTTCATAAT-AGAA
* *
219350 GAA-CTCAT-CT-GAA
1 GAAGTTCATAATAGAA
219363 GAAGTTCATAATAGAA
1 GAAGTTCATAATAGAA
219379 GAA
1 GAA
219382 CTTGTTTAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 7
0.69 0.11 0.19
Matches are distributed among these distances:
13 6 0.24
14 4 0.16
15 2 0.08
16 10 0.40
17 3 0.12
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.22
Consensus pattern (16 bp):
GAAGTTCATAATAGAA
Found at i:219512 original size:109 final size:110
Alignment explanation
Indices: 219361--219722 Score: 451
Period size: 109 Copynumber: 3.4 Consensus size: 110
219351 AACTCATCTG
* *
219361 AAGAAGTTCATAAT-AGAAGAACTTGTTTAACATTTTGTTTGAATTCATCACTCGATGGATTAAC
1 AAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCACTCGATGGATTAAC
219425 TTTCCAGAGGAAGTTCATATAAGAAGAACTCATCTGAAGAAGGAA
66 TTTCCAGAGGAAGTTCATATAAGAAGAACTCATCTGAAGAAGGAA
* *
219470 GAAGAAGTTTATAAT-ATAAG-ACTTGTTTAACCTTTTGCTTGAA-TCATCACTCGATGGATTAA
1 -AAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCACTCGATGGATTAA
* *
219532 CTATTCCAGAGGAAGTTCATA-ATGAGAGAATTCATCT---GAA-G-A
65 CT-TTCCAGAGGAAGTTCATATAAGA-AGAACTCATCTGAAGAAGGAA
* * * * *
219574 AAGAAGTTTATAATGAGAAGAACTTGTTT-ACCTTTTGCTCGAATTCATCGCTCGATGTATCAAC
1 AAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCACTCGATGGATTAAC
* * *
219638 TTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAA
66 -TTTCCAGAGGAAGTTCAT-ATAAGAAGAACTCATCTGAAGAAGGAA
* *
219684 AAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
1 AAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
219723 ATGACTTATC
Statistics
Matches: 219, Mismatches: 19, Indels: 27
0.83 0.07 0.10
Matches are distributed among these distances:
103 14 0.06
104 18 0.08
105 42 0.19
106 14 0.06
107 2 0.01
108 25 0.11
109 51 0.23
110 44 0.20
111 9 0.04
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (110 bp):
AAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCACTCGATGGATTAAC
TTTCCAGAGGAAGTTCATATAAGAAGAACTCATCTGAAGAAGGAA
Found at i:219653 original size:105 final size:108
Alignment explanation
Indices: 219297--219722 Score: 502
Period size: 105 Copynumber: 4.0 Consensus size: 108
219287 TAGCAAAGAT
* *
219297 TCGAATCCATCACTCGATAGATTAACTTTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCT--
1 TCGAATTCATCACTCGATGGATTAACTTTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGA
* *
219360 --G--AAGAAGTTCATAATAGAAGAACTTGTTTAACATTTTGT
66 AGGAAAAGAAGTTCATAATAGAAGAACTTGTTTAACCTTTTGC
*
219399 TTGAATTCATCACTCGATGGATTAAC-TTTCCAGAGGAAGTTCAT-ATAAGAAGAACTCATCTGA
1 TCGAATTCATCACTCGATGGATTAACTTTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCT--
* *
219462 AGAAGGAAGAAGAAGTTTATAATATAAG-ACTTGTTTAACCTTTTGC
64 -GAAGGAA-AAGAAGTTCATAATAGAAGAACTTGTTTAACCTTTTGC
* * * *
219508 TTGAA-TCATCACTCGATGGATTAACTATTCCAGAGGAAGTTCATAATGAG-AGAATTCATCTGA
1 TCGAATTCATCACTCGATGGATTAACTTTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGA
*
219571 A-G-AAAGAAGTTTATAATGAGAAGAACTTGTTT-ACCTTTTGC
66 AGGAAAAGAAGTTCATAAT-AGAAGAACTTGTTTAACCTTTTGC
* * * * * *
219612 TCGAATTCATCGCTCGATGTATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGA
1 TCGAATTCATCACTCGATGGATTAACTTTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTG-
* *
219677 AGAGGAAAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
65 A-AGGAAAAGAAGTTCATAAT-AGAAGAACTTGTTTAACCTTTTGC
219723 ATGACTTATC
Statistics
Matches: 281, Mismatches: 22, Indels: 33
0.84 0.07 0.10
Matches are distributed among these distances:
100 17 0.06
101 18 0.06
102 23 0.08
103 14 0.05
104 18 0.06
105 49 0.17
106 13 0.05
107 2 0.01
108 21 0.07
109 49 0.17
110 48 0.17
111 9 0.03
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (108 bp):
TCGAATTCATCACTCGATGGATTAACTTTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGA
AGGAAAAGAAGTTCATAATAGAAGAACTTGTTTAACCTTTTGC
Found at i:220088 original size:3 final size:3
Alignment explanation
Indices: 220080--220173 Score: 97
Period size: 3 Copynumber: 32.0 Consensus size: 3
220070 CCATTTGTTT
* * *
220080 TTA TTA TTA TTA ATA TTA -TA TTA GTA TTA TT- TTA TT- TATA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* *
220123 TTA TTA TTA TTA TT- TTA TTA TTTA TTA TTA TTA GTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
220168 TTA TTA
1 TTA TTA
220174 CAAATAGGTT
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
2 7 0.09
3 65 0.87
4 3 0.04
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:226148 original size:40 final size:42
Alignment explanation
Indices: 226094--226190 Score: 135
Period size: 40 Copynumber: 2.4 Consensus size: 42
226084 TTATCGGATT
* *
226094 AAAAACTGGTTTTTTATCCGAAAAAAA-TCCG-ATTTTTTAA
1 AAAAACTGGTTTTTTATCCAAAAAAAATTCAGTATTTTTTAA
* *
226134 AAAAACTGGATTTTTATCCAAAAAAAATTCAGTTTTTTTTAA
1 AAAAACTGGTTTTTTATCCAAAAAAAATTCAGTATTTTTTAA
*
226176 AAAAACCGGTTTTTT
1 AAAAACTGGTTTTTT
226191 TTACAAACCG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
40 25 0.51
41 3 0.06
42 21 0.43
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.39
Consensus pattern (42 bp):
AAAAACTGGTTTTTTATCCAAAAAAAATTCAGTATTTTTTAA
Found at i:228695 original size:23 final size:23
Alignment explanation
Indices: 228663--228735 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
228653 ATAGGTAAAA
*
228663 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
228686 ATATAGTGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
228709 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
228732 ATAT
1 ATAT
228736 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:229182 original size:23 final size:23
Alignment explanation
Indices: 229151--229223 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
229141 ATAGGTAAAA
* *
229151 ATATGATGTAATAGTTAGC-TCTT
1 ATATAATGTAATAGGTAGCGT-TT
229174 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
229197 ATATAATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGCGTTT
229220 ATAT
1 ATAT
229224 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 45 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.19, T:0.42
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:229662 original size:23 final size:23
Alignment explanation
Indices: 229631--229703 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
229621 ATAGGTAAAA
*
229631 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
229654 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
229677 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
229700 ATAT
1 ATAT
229704 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:230139 original size:23 final size:23
Alignment explanation
Indices: 230108--230180 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
230098 ATAGGTAAAA
*
230108 ATATGATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
230131 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
* *
230154 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGTTT
230177 ATAT
1 ATAT
230181 TGTAAAGTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:230543 original size:489 final size:478
Alignment explanation
Indices: 228243--231411 Score: 4573
Period size: 477 Copynumber: 6.5 Consensus size: 478
228233 ATTTTACCTG
* * *
228243 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATATTTTTTTCACTGTGGAAAATATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
228308 AATTTAAGGTTATCTTTTAAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGA-
66 AATTTAAGG-------TT-A-TGA-TTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
228372 TT-TTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
121 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
228436 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
186 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTT-TAAAATGTCAAA
228501 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
250 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
* *
228566 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTTATAAA
315 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
* *
228631 AAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAGTGTA
380 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
228696 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
445 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* * *
228730 TTATATTGTAAAGTATATATCCTTTTAATAAAAGTGTCCATACTTTTTTCACTGTGAAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * *
228795 AATTTAATGTTATCTTTTGAGTGAATTTTAATATATTAATTTAGTAATTATAGGCATCTAATGAT
66 AATTTAA-G------GTT-A-TG-ATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
* * *
228860 TTATTGTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTAGATAT
121 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
* *
228925 TTATTATTATCTTGGGTTAATATTGTTAAATTTAAACTCTAAATAATATTTTTAAAATGTCAAAA
186 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTTAAAATGTCAAAA
228990 CAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAAC
251 CAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAAC
* *
229055 ACTATTAAAAAAATTGAAACATAAATTACATAACTTAAAAAAAAATATCGATCCTTTTTATAAAA
316 ACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAA
* * *
229120 AGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGTTAGCTCTTATATAATGTAA
381 AGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAA
*
229185 TAGGTAGCGTTTATATAATGTAATAGGTAGTGT
446 TAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* *
229218 TTATATTGTAAAGTATCTATCATTTTTTATAAAAGTGTGCATACTTTTTTCACTGTGGAAAACAT
1 TTATATTGTAAAGTATCTATC-CTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACAT
* *
229283 TAAGTTAAGGTTA-G-TTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATTATTTATTTTTT
65 TAATTTAAGGTTATGATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTT
* *
229346 ATGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATACTACATATTTATTATTA
130 ACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTA
*
229411 TCTTTGGTTAATATTGGTT-AATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
195 TCTTTGGTTAATATT-GTTAAATTTAAATTCTAAATAATATTTT-TAAAATGTCAAAACAATCAA
229475 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
258 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-
* * * *
229540 AAAAATAAATGAAATATAAATTACATAACTTTAAATAAAGTATCGATCATTTTTATAAAAAGTAT
322 AAAAA-AATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTAT
*
229605 GGACAATTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGT
386 GGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGT
229670 AGCGTTTATATAATGTAATAGGTAGTGC
451 AGCGTTTATATAATGTAATAGGTAGTGC
229698 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
229763 AATTTAAGGTTA-G-TTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
66 AATTTAAGGTTATGATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
* *
229826 CGTTATGGTATTTATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTAT
131 CGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTAT
* *
229891 CTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATTAAAACAATCAAAT
196 CTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTT-TAAAATGTCAAAACAATCAAAT
229956 AATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
260 AATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
* *
230021 AAAATTGAAACATAAATTACATAACTTTAAAAAAGGTATCGATCCTTTTTATAAAAAGTATGGGC
325 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
*
230086 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGCG
390 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
230151 TTTATATAATGTAATAGGTAGTGC
455 TTTATATAATGTAATAGGTAGTGC
* * * *
230175 TTATATTGTAAAGTATTTATCCTTTTAATAAAAGTGTTCATACTTTTTTCACTGTTGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
230240 AATTTAAGGTTATCTTTTGAGTGAATTTTAAGATATTAATTTA-TAAATTATAGGCGTCTAATGA
66 AATTTAAGG-------TT-A-TG-ATTTTAAGATATTAATTTAGT-AATTATAGGCGTCTAATGA
* * *
230304 TTTATTTTTTAAGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTATATA
120 TTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
*
230369 TTTATTATTATTTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTTAAAATGTCAAA
185 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTTAAAATGTCAAA
230434 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
250 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
*
230499 CACTATTAAAAAAAATTGAAACATAAATTTCATAACTTTAAAAAAAGTATCGATCCTTTTTTATA
315 CACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCC-TTTTTATA
*
230564 AAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGTTTATATAATG
378 AAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATG
*
230629 TAATAGGTAGCGTTTATATAATGTAATAAGTAGTGC
443 TAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
230665 TTATATTGTAAAGTATCTATCCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
230730 AATTTAAGGTTA-G-TTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
66 AATTTAAGGTTATGATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
*
230793 CGTTACGGTATTTATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTAT
131 CGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTAT
* * ** *
230858 CTTTGGTTAATATTGTTAAATTGTGTAAATGAAATTATTAAATTAATA-TTGT-AGGTG-GAAAA
196 CTTTGGTTAATATTGTTAAA---T-T---T-AAATT-CTAAA-TAATATTTTTAAAATGTCAAAA
* * * * **** * *
230920 C-ATGAAA-CA-CTATTAAAAAAATTGAAA-CA-TAAATTACATAACTT-TA-----AAAA-AGG
251 CAATCAAATAATTTTTTGTGTAAA-TGAAATTATTAAATTA-AT-A-TTGTAGGTGGAAAACATG
* * * * * * * **
230973 TATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATA-AT-A-GGTAAAAATATGATGTAA
312 AAAC-A--C-TATTA-AAAAA--ATTGAAAC-ATAAAT-TACATAACTTTAAAAA-A--A-GT-A
* * * ** * * ** * *
231035 TAGGTAGC-GCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAAAAATATGATGT
363 TCGAT-CCTTTTTATAAAAAGT-AT-GG-A-CACTT-T-CAATATAATAGGTAAAAATATGATGT
* *
231099 AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGATAGTGT
421 AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
231157 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
231222 AATTTAAGGTTA--ATTTTAAAATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
66 AATTTAAGGTTATGATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
231285 CGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTAT
131 CGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTAT
*
231350 CTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTTAAAATGTCAAACCAATCAA
196 CTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTTAAAATGTCAAAACAATCAA
231412 TTTTTTTAAT
Statistics
Matches: 2465, Mismatches: 145, Indels: 145
0.89 0.05 0.05
Matches are distributed among these distances:
477 361 0.15
478 227 0.09
479 293 0.12
480 165 0.07
481 17 0.01
482 24 0.01
483 26 0.01
484 23 0.01
485 14 0.01
486 23 0.01
487 123 0.05
488 351 0.14
489 352 0.14
490 179 0.07
491 1 0.00
492 286 0.12
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.41
Consensus pattern (478 bp):
TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
AATTTAAGGTTATGATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
CGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTAT
CTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTTAAAATGTCAAAACAATCAAATA
ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACA
CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
TTATATAATGTAATAGGTAGTGC
Found at i:230629 original size:23 final size:23
Alignment explanation
Indices: 230598--230670 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
230588 ATAGGTAAAA
*
230598 ATATGATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
230621 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
* * *
230644 ATATAATGTAATAAGTAGTGCTT
1 ATATAATGTAATAGGTAGCGTTT
230667 ATAT
1 ATAT
230671 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:230705 original size:967 final size:957
Alignment explanation
Indices: 228243--231411 Score: 4606
Period size: 967 Copynumber: 3.3 Consensus size: 957
228233 ATTTTACCTG
* * *
228243 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATATTTTTTTCACTGTGGAAAATATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
228308 AATTTAAGGTTATCTTTTAAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGA-
66 AATTTAAGG-------TT-A-TGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
228372 TT-TTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
122 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
228436 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
187 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
228501 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
252 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
*
228566 CACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTTATAA
317 CACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAA
* *
228630 AAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAGTGT
382 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
*
228695 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATATAT-CCTTTTAAT
447 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCCTTTT-AT
* *
228759 AAAAGTGTCCATACTTTTTTCACTGTGAAAAACATTAATTTAATGTTATCTTTTGAGTGAATTTT
511 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAA-G------GTT-A--G--TTTT
* * * * *
228824 AATATATTAATTTAGTAATTATAGGCATCTAATGATTTATTGTTTACGTTACGATATATATTATT
564 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATTTATTATT
* *
228889 ATTAAATTAAAAACAATAAACATATATATTAGATATTTATTATTATCTTGGGTTAATATTGTTAA
629 ATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAA
*
228954 ATTTAAACTCTAAATAATATTTT-TAAAATGTCAAAACAATCAAATAATTTTTTGTGTAAATGAA
694 ATTTAAA-TCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAA
229018 ATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTA
758 ATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTA
* ** **
229083 CATAACTTAAAAAAAAATATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTA
823 CATAACTTTAAAAAAGGTATCGATCCTTTTTATAAAAAGTATGGGCACTTTCAATATAATAGGTA
*
229148 AAAATATGATGTAATAGTTAGC-TCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGG
888 AAAATATGATGTAATAGGTAGCGT-TTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGG
229212 TAGTGT
952 TAGTGT
* *
229218 TTATATTGTAAAGTATCTATCATTTTTTATAAAAGTGTGCATACTTTTTTCACTGTGGAAAACAT
1 TTATATTGTAAAGTATCTATC-CTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACAT
* *
229283 TAAGTTAAGGTTA-G--TTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATTATTTATTTTT
65 TAATTTAAGGTTATGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
* *
229345 TATGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATACTACATATTTATTATT
130 TACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATT
229410 ATCTTTGGTTAATATTGGTT-AATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCA
195 ATCTTTGGTTAATATT-GTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCA
229474 AATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT
259 AATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT
* * *
229539 AAAAAATAAATGAAATATAAATTACATAACTTTAAATAAAGTATCGATCATTTTTATAAAAAGTA
324 AAAAAA-AATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTA
*
229604 TGGACAATTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGG
388 TGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGG
*
229669 TAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTG
453 TAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCCTTTTATAAAAGTG
229734 TCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAGTTTTAAGATATTAATTTAGTAAT
518 TCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAGTTTTAAGATATTAATTTAGTAAT
*
229799 TATAGGCGTCTAATGATTTATTTTTTACGTTATGGTATTTATTATTATTAAATTAAAAACAATAA
583 TATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATTTATTATTATTAAATTAAAAACAATAA
229864 ACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATA
648 ACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAA-TCTAAATAATA
*
229929 TTTTATAAAATATTAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGT
712 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGT
229994 AGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAGGTA
777 AGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAGGTA
230059 TCGATCCTTTTTATAAAAAGTATGGGCACTTTCAATATAATAGGTAAAAATATGATGTAATAGGT
842 TCGATCCTTTTTATAAAAAGTATGGGCACTTTCAATATAATAGGTAAAAATATGATGTAATAGGT
*
230124 AGCGTTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
907 AGCGTTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGT
* * * *
230175 TTATATTGTAAAGTATTTATCCTTTTAATAAAAGTGTTCATACTTTTTTCACTGTTGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
230240 AATTTAAGGTTATCTTTTGAGTGAATTTTAAGATATTAATTTA-TAAATTATAGGCGTCTAATGA
66 AATTTAAGG-------TT-A-TGAATTTTAAGATATTAATTTAGT-AATTATAGGCGTCTAATGA
* * *
230304 TTTATTTTTTAAGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTATATA
121 TTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
* *
230369 TTTATTATTATTTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTT-TAAAATGTCAA
186 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAA
230433 AACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
251 AACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
* *
230498 ACACTATTAAAAAAAATTGAAACATAAATTTCATAACTTTAAAAAAAGTATCGATCCTTTTTTAT
316 ACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGAT-CATTTTTAT
*
230563 AAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGTTTATATAAT
380 AAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAAT
*
230628 GTAATAGGTAGCGTTTATATAATGTAATAAGTAGTGCTTATATTGTAAAGTATCTATCCCTTTTA
445 GTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCCTTTTA
230693 TAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAGTTTTAAGATATTAAT
510 TAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAGTTTTAAGATATTAAT
230758 TTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATTTATTATTATTAAATTAAA
575 TTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATTTATTATTATTAAATTAAA
230823 AACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTGTGTAAAT
640 AACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAA-T-T-TAAAT
* * * * *** * * * * * **** *
230888 -GAAATTATTAAATTAATATTGTAGGTGGAAAAC-ATGAAA-CA-CTATTAAAAAAATTGAAA-C
702 CTAAA-TAAT-ATTTTATAAAATA--T-CAAAACAATCAAATAATTTTTTGTGTAAA-TGAAATT
* * * * * *
230948 A-TAAATTACATAACTT-TA-----AAAA-AGGTATCGATCCTTTTTATAAAAAGTATGGACACT
761 ATTAAATTA-AT-A-TTGTAGGTGGAAAACATGAAAC-A--C-TATTA-AAAAA--ATTGAAAC-
* * ** * * * ** * * * *
231005 TTCAATATA-AT-A-GGTAAAAATATGATGTAATAGGTAGC-GCTTATATAATGTAATAGGTAGC
815 ATAAAT-TACATAACTTTAAAAA-A-G--GT-ATCGAT-CCTTTTTATAAAAAGT-ATGGGCA-C
*
231066 GTTT-ATATAATGTAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTA
871 -TTTCA-AT-A--TAATAGGTAAAAATATGATGTAATAGGTAGCGTTTATATAATGTAATAGGTA
*
231130 GCGTTTATATAATGTAATAGATAGTGT
931 GCGTTTATATAATGTAATAGGTAGTGT
*
231157 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
231222 AATTTAAGG-T-T-AATTTTAAAATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTT
66 AATTTAAGGTTATGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTT
231284 ACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTA
131 ACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTA
* *
231349 TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTT-TAAAATGTCAAACCAATCAA
196 TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
231412 TTTTTTTAAT
Statistics
Matches: 2025, Mismatches: 110, Indels: 123
0.90 0.05 0.05
Matches are distributed among these distances:
956 196 0.10
957 250 0.12
958 2 0.00
960 1 0.00
961 2 0.00
963 2 0.00
964 39 0.02
965 6 0.00
966 237 0.12
967 420 0.21
968 359 0.18
969 23 0.01
970 197 0.10
971 17 0.01
972 16 0.01
973 12 0.01
974 3 0.00
975 23 0.01
976 61 0.03
977 6 0.00
978 2 0.00
979 5 0.00
980 1 0.00
982 145 0.07
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.41
Consensus pattern (957 bp):
TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
AATTTAAGGTTATGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTT
ACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTA
TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGG
ACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAG
CGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCCTTTTATAAAAGTGTCC
ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTAT
AGGCGTCTAATGATTTATTTTTTACGTTACGGTATTTATTATTATTAAATTAAAAACAATAAACA
TATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATCTAAATAATATTTT
ATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGT
GGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAGGTATCGA
TCCTTTTTATAAAAAGTATGGGCACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCG
TTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGT
Found at i:231082 original size:66 final size:66
Alignment explanation
Indices: 231012--231149 Score: 276
Period size: 66 Copynumber: 2.1 Consensus size: 66
231002 ACTTTCAATA
231012 TAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAAT
1 TAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAAT
231077 G
66 G
231078 TAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAAT
1 TAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAAT
231143 G
66 G
231144 TAATAG
1 TAATAG
231150 ATAGTGTTTA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 72 1.00
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (66 bp):
TAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAAT
G
Found at i:231099 original size:43 final size:43
Alignment explanation
Indices: 231047--231129 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
231037 GGTAGCGCTT
*
231047 ATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAAAA
1 ATATAATGTAATAGGTAGCGCTTATATAATGTAATAGGTAAAA
*
231090 ATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTA
1 ATATAATGTAATAGGTAGCGCTTATATAATGTAATAGGTA
231130 GCGTTTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (43 bp):
ATATAATGTAATAGGTAGCGCTTATATAATGTAATAGGTAAAA
Found at i:231158 original size:23 final size:23
Alignment explanation
Indices: 231024--231162 Score: 176
Period size: 23 Copynumber: 6.2 Consensus size: 23
231014 ATAGGTAAAA
* *
231024 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGTTT
231047 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
***
231070 ATATAATGTAATAGGTA---AAA
1 ATATAATGTAATAGGTAGCGTTT
* *
231090 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGTTT
231113 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
* *
231136 ATATAATGTAATAGATAGTGTTT
1 ATATAATGTAATAGGTAGCGTTT
231159 ATAT
1 ATAT
231163 TGTAAAGTAT
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
20 16 0.16
23 84 0.84
ACGTcount: A:0.37, C:0.04, G:0.21, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:231768 original size:23 final size:22
Alignment explanation
Indices: 231733--231805 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 22
231723 ATACTTTACA
*
231733 ATATAAGCACTACTTATTACATT
1 ATATAAACACTAC-TATTACATT
*
231756 ATATAAACGCTACCTATTACATT
1 ATATAAACACTA-CTATTACATT
*
231779 ATATAAACACTAACTATTACATC
1 ATATAAACACT-ACTATTACATT
231802 ATAT
1 ATAT
231806 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.36
Consensus pattern (22 bp):
ATATAAACACTACTATTACATT
Found at i:232243 original size:23 final size:23
Alignment explanation
Indices: 232213--232262 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
232203 ATACTTTACA
*
232213 ATATAAACACTACCTATTACATT
1 ATATAAACACTACCTATTACATC
*
232236 ATATAAACGCTACCTATTACATC
1 ATATAAACACTACCTATTACATC
232259 ATAT
1 ATAT
232263 TTTTACCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.34
Consensus pattern (23 bp):
ATATAAACACTACCTATTACATC
Found at i:232572 original size:453 final size:457
Alignment explanation
Indices: 231756--233174 Score: 2191
Period size: 491 Copynumber: 3.0 Consensus size: 457
231746 TTATTACATT
* *
231756 ATATAAACGCTACCTATTACATTATATAAACACTAACTATTACATCATATTTTTACCTATTATAT
1 ATATAAACGCTACCTATTACATTATATAAACGCTACCTATTACATCATATTTTTACCTATTATAT
* * *
231821 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTATTTAAAGTTATGTAATTTATATTT
66 TGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTTT
*
231886 CATTTATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
131 CA-AT-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
231951 CAAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAAAATTTAAA-TTAACCAAT
194 C-AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAA-CAAT
*
232015 ATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTGAATAATAATAT
257 ATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATAT
*
232080 ATACCGTAACATAAAAAATAAATAATTAGACGCCTATAATTACTAAATTAATATCTT-AAA-AC-
322 ATACCGTAACATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACACA
*
232142 TAACATTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATAC
387 TAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATAC
232207 TTTACA
452 TTTACA
*
232213 ATATAAACACTACCTATTACATTATATAAACGCTACCTATTACATCATATTTTTACCTATTATAT
1 ATATAAACGCTACCTATTACATTATATAAACGCTACCTATTACATCATATTTTTACCTATTATAT
232278 TGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTTT
66 TGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTTT
232343 CAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACA
131 CAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACA
* *
232408 AAAAATTATTTGATTGTTTTGACATTTT-GAAAATATTATTTAGAATTTAAATTTAACAATATTA
196 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTA
*
232472 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATAT
261 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATAC
* *
232537 CGTAACGTAAAAAATAAATCATTAGACGTCTATAATTACTAAATTAATATCTTAAAATTCACTCA
326 CGTAACATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA--CA--C-
232602 AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATTAAAAGGATA
386 ----ATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTA-T-AAA--A-A
232667 GATACTTTACGCCTATAAGCACTACCTATTACA
442 G---------G---AT-AG-A-TA-CT-TTACA
*
232700 TTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTAT
1 --ATATAAACGCTACCTATTACATTATATAAACGCTACCTATTACATCATATTTTTACCTATTAT
* *
232765 ATTGAAAGTGTTCATACTTTTTATAAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATG
64 ATTGAAAGTGTCCATACTTTTTATAAAAAGA-ATCGATACTTTTTTTAAAGTTATGTAATTTATG
232830 TTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
128 TTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
232895 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATA
193 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATA
232960 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
258 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
* *
233025 TACCGTAACATAAAAAATATATCATTAGACGCCTATAATTAGTAAATTAATATCTTAAAACTCAC
323 TACCGTAACATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA--CAC
233090 TTAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
386 -------ATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
233155 ATAGATACTTTACA
444 ATAGATACTTTACA
233169 ATATAA
1 ATATAA
233175 CAGGTAAAAA
Statistics
Matches: 893, Mismatches: 28, Indels: 72
0.90 0.03 0.07
Matches are distributed among these distances:
453 142 0.16
454 35 0.04
455 60 0.07
456 1 0.00
457 127 0.14
459 1 0.00
465 48 0.05
466 1 0.00
467 9 0.01
469 6 0.01
470 4 0.00
471 2 0.00
472 1 0.00
473 2 0.00
474 2 0.00
477 1 0.00
479 1 0.00
482 2 0.00
483 2 0.00
484 1 0.00
485 2 0.00
486 4 0.00
487 6 0.01
489 94 0.11
490 129 0.14
491 210 0.24
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (457 bp):
ATATAAACGCTACCTATTACATTATATAAACGCTACCTATTACATCATATTTTTACCTATTATAT
TGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTTT
CAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACA
AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTA
ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATAC
CGTAACATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACACATAAC
CTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTA
CA
Found at i:232706 original size:23 final size:23
Alignment explanation
Indices: 232680--232751 Score: 117
Period size: 23 Copynumber: 3.1 Consensus size: 23
232670 ACTTTACGCC
*
232680 TATAAGCACTACCTATTACATTA
1 TATAAGCGCTACCTATTACATTA
*
232703 TATAAACGCTACCTATTACATTA
1 TATAAGCGCTACCTATTACATTA
*
232726 TATAAGCGCTACCTATTACATCA
1 TATAAGCGCTACCTATTACATTA
232749 TAT
1 TAT
232752 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.35
Consensus pattern (23 bp):
TATAAGCGCTACCTATTACATTA
Found at i:233762 original size:3 final size:3
Alignment explanation
Indices: 233754--233813 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
233744 ACATTTAATT
* *
233754 TTA TTA TTA TTA CTA TTA TTA TATA TTC TT- TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA -TTA TTA
* *
233800 TAA ATA TTA TTA TT
1 TTA TTA TTA TTA TT
233814 TAATATTATC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
2 2 0.04
3 39 0.83
4 6 0.13
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:233806 original size:27 final size:29
Alignment explanation
Indices: 233752--233807 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
233742 GCACATTTAA
*
233752 TTTTATTATTATTACTATTATTATATATTC
1 TTTTATTATTATTA-TATTATTAAATATTC
233782 TTTTATTATTATT-TATTA-TAAATATT
1 TTTTATTATTATTATATTATTAAATATT
233808 ATTATTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 7 0.28
28 5 0.20
30 13 0.52
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTTATTATTATTATATTATTAAATATTC
Found at i:245178 original size:19 final size:19
Alignment explanation
Indices: 245151--245220 Score: 56
Period size: 18 Copynumber: 3.7 Consensus size: 19
245141 GTTAGTACAT
245151 TTTTA-TAAAATAAAAAAG
1 TTTTATTAAAATAAAAAAG
245169 TTTTATTAAACA-AAAAAATG
1 TTTTATTAAA-ATAAAAAA-G
* *
245189 TTTAGATTATAATAAAAAA-
1 TTT-TATTAAAATAAAAAAG
* *
245208 TTATATTAGAATA
1 TTTTATTAAAATA
245221 GTAATTAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
18 13 0.31
19 12 0.29
20 6 0.14
21 11 0.26
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (19 bp):
TTTTATTAAAATAAAAAAG
Done.