Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002523.1 Hibiscus syriacus cultivar Beakdansim tig00005134_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: 80695
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:4590 original size:8 final size:8
Alignment explanation
Indices: 4577--4617 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
4567 CTCATTTTCA
4577 GAGAATTT
1 GAGAATTT
4585 GAGAATTT
1 GAGAATTT
*
4593 -AGAGTTT
1 GAGAATTT
*
4600 GGGAATTT
1 GAGAATTT
4608 GAGAATTT
1 GAGAATTT
4616 GA
1 GA
4618 AAGATTGTGA
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:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:4918 original size:128 final size:128
Alignment explanation
Indices: 4694--5818 Score: 1962
Period size: 128 Copynumber: 8.8 Consensus size: 128
4684 AGTACTATTC
4694 ACATGAAGGCGCGTTCCC-GGGG-GCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCC
1 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCC
* ***
4757 CTATTATGTCACTCATGTCCCTCGGGGATACTAGATATATCAGTACCTATTATTTCACTATTC
66 CTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTAGGG
4820 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCC
1 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCC
* ***
4885 CTATTATGTCACTCATGTCCCTCAGGGACACTAGATATATCAGTACCTATTATTTCACTATTC
66 CTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTAGGG
*
4948 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCC
1 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCC
* *
5013 CTATTATGTCACTCATGTCCCTCGAGGACACTAGATATATCAGTACCTATTATTTCACTGGGG
66 CTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTAGGG
5076 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCC
1 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCC
* ***
5141 CTATTATGTCACTCATGTCCCTCAGGGACACTAGATATATCAGTACCTATTATTTCACTATTC
66 CTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTAGGG
5204 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTT-GTCAGAGAATATGTTATCATTGCC
1 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCC
* *
5268 CTATTATGTCACTCATGTCCCTCGAGGACACTAGATATATCAGTACCTATTATTTCACTGGGG
66 CTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTAGGG
*
5331 ACATGAAGGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCC
1 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCC
*
5396 CTATTATGTCACTCATGTCCCTCGGGGACA-T--ATATATCAGTACCTATTATTTCTC-AGGGG
66 CTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTA-GGG
5456 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCC
1 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCC
*
5521 CTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTC-AGGGG
66 CTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTA-GGG
5584 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCC
1 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCC
*
5649 CTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTC-AGGGG
66 CTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTA-GGG
*
5712 ACATGAAGGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCC
1 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCC
5777 CTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCA
66 CTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCA
5819 ATAAATCAGG
Statistics
Matches: 964, Mismatches: 28, Indels: 12
0.96 0.03 0.01
Matches are distributed among these distances:
125 120 0.12
126 19 0.02
127 125 0.13
128 700 0.73
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (128 bp):
ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCC
CTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTAGGG
Found at i:6279 original size:33 final size:34
Alignment explanation
Indices: 6218--6317 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 34
6208 AAATTTAATG
*
6218 TTAAATTTTGAATACTATAATTTATATTTTAAAT
1 TTAAATTTTGAATAATATAATTTATATTTTAAAT
* * * *
6252 TTAAA-TTTGAATAATATTATTTTTATTTTTATT
1 TTAAATTTTGAATAATATAATTTATATTTTAAAT
*
6285 TTAAATTTTGAATAATATAATTTGTATTTTAAA
1 TTAAATTTTGAATAATATAATTTATATTTTAAA
6318 AACATTTATC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.50
34 28 0.50
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (34 bp):
TTAAATTTTGAATAATATAATTTATATTTTAAAT
Found at i:6864 original size:21 final size:20
Alignment explanation
Indices: 6837--6906 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 20
6827 GGTATAAAAC
*
6837 CCTGCGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
6857 CCTGGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
*
6878 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
6899 CCCTGCGG
1 -CCTGCGG
6907 AGATGGCACA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 3 0.07
21 40 0.87
22 3 0.07
ACGTcount: A:0.19, C:0.27, G:0.36, T:0.19
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:8722 original size:34 final size:31
Alignment explanation
Indices: 8679--8767 Score: 97
Period size: 34 Copynumber: 2.7 Consensus size: 31
8669 TTAATAATTC
*
8679 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTATATAAATA-TA--TTAA
* *
8713 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* *
8744 TAAAAAATATAATAACTATTTAAA
1 TAAAAAA-ATAATAATTATATAAA
8768 GAAATACTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 11 0.23
32 12 0.26
33 2 0.04
34 22 0.47
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:8724 original size:31 final size:32
Alignment explanation
Indices: 8688--8756 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
8678 CTAAATAAAT
* *
8688 AATAATTATATAAAT-ATTATTTTAATAAAAA
1 AATAATTATATAAATAAATATATTAATAAAAA
* *
8719 AATAA-TATTTACATAAATATATTAATAAAAA
1 AATAATTATATAAATAAATATATTAATAAAAA
8750 ATATAAT
1 A-ATAAT
8757 AACTATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
30 7 0.23
31 20 0.65
32 4 0.13
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (32 bp):
AATAATTATATAAATAAATATATTAATAAAAA
Found at i:10096 original size:228 final size:228
Alignment explanation
Indices: 9700--10189 Score: 901
Period size: 228 Copynumber: 2.1 Consensus size: 228
9690 GTTATATTGT
* * *
9700 AAAGTATCTATCCTTTTTATAAAAGTGTTCATACTTATTTCACTGTGAAAATATATTAATTATTA
1 AAAGTATATATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGAAAACATATTAATTATTA
9765 TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAAT
66 TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAAT
9830 AATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
131 AATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
9895 AAAAATTGAAACATAAATTACATAACTTT-AAA
196 AAAAATTGAAACATAAATTACATAACTTTAAAA
*
9927 AAAGTATATATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTTCATACTTATTTCACTGT-GAAAACATATTAATTATT
*
9992 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
65 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
*
10057 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
130 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
10122 AAAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAAATTGAAACATAAATTACATAACTTTAAAA
*
10156 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
1 AAAGTATATATCATTTTTATAAAAGTGTTCATAC
10190 GTATAAAAGT
Statistics
Matches: 254, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
227 44 0.17
228 174 0.69
229 36 0.14
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (228 bp):
AAAGTATATATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGAAAACATATTAATTATTA
TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAAT
AATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
AAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:10261 original size:20 final size:19
Alignment explanation
Indices: 10224--10284 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
10214 AAGAAATATT
*
10224 AAAACGAT-ATACCAGGTAA
1 AAAACGATAAAACC-GGTAA
10243 AAATACGATAAAACCGGTAA
1 AAA-ACGATAAAACCGGTAA
*
10263 CAAAATGATAAAACCGGTAA
1 -AAAACGATAAAACCGGTAA
10283 AA
1 AA
10285 CGTTACCGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
19 5 0.14
20 25 0.68
21 7 0.19
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (19 bp):
AAAACGATAAAACCGGTAA
Found at i:10414 original size:106 final size:106
Alignment explanation
Indices: 10229--10423 Score: 336
Period size: 106 Copynumber: 1.8 Consensus size: 106
10219 ATATTAAAAC
* * *
10229 GATATACCAGGTAAAAATACGATAAAACCGGTAACAAAATGATAAAACCGGTAAAACGTTACCGG
1 GATATAACAGGTAAAAATACGATAAAACCGATAACAAAATGATAAAACCGGTAAAACGATACCGG
10294 ATATATTGAAAGTGTCGATACTTTATATATCGATCCACAAT
66 ATATATTGAAAGTGTCGATACTTTATATATCGATCCACAAT
* * *
10335 GATATAACAGGTAAAAATATGATAAAACCGATATCAAAATGATAAAACCGGTAAAATGATACCGG
1 GATATAACAGGTAAAAATACGATAAAACCGATAACAAAATGATAAAACCGGTAAAACGATACCGG
10400 ATATATTGAAAGTGTCGATACTTT
66 ATATATTGAAAGTGTCGATACTTT
10424 CGTAAGTACG
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 83 1.00
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (106 bp):
GATATAACAGGTAAAAATACGATAAAACCGATAACAAAATGATAAAACCGGTAAAACGATACCGG
ATATATTGAAAGTGTCGATACTTTATATATCGATCCACAAT
Found at i:12622 original size:21 final size:21
Alignment explanation
Indices: 12598--12641 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
12588 AAGACAATCA
12598 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
12619 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
12640 AG
1 AG
12642 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:12717 original size:33 final size:33
Alignment explanation
Indices: 12675--12740 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
12665 AAATAGATGG
*
12675 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
12708 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
12741 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:14558 original size:19 final size:19
Alignment explanation
Indices: 14534--14582 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
14524 AATGTAGGGT
14534 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
14553 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
14572 T-ATTATTGTAT
1 TAATT-TTGTAT
14583 GTGAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 3 0.11
19 25 0.89
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:15562 original size:200 final size:200
Alignment explanation
Indices: 14701--17272 Score: 4954
Period size: 200 Copynumber: 12.9 Consensus size: 200
14691 CAATATGGCC
* * * *
14701 AACAAGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCAATCCCAAAAACATAGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
14765 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
14830 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
14895 TGGAA
196 TGGAA
14900 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
14965 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGG-TTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
15029 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
15094 TGGAA
196 TGGAA
15099 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
15164 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGG-TTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
15228 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
15293 TGGAA
196 TGGAA
15298 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
15363 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCAGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
**
15428 GAATATGTCTAAATAATGCATCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
15493 TGGAA
196 TGGAA
*
15498 AACAGGGTACACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
15563 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
15628 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
15693 TGGAA
196 TGGAA
*
15698 AACAGGGTGCACCCATAAAGTGTTGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
15763 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
15828 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
15893 TGGAA
196 TGGAA
15898 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
15962 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
*
16027 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTATGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
16092 TGGAA
196 TGGAA
*
16097 AACATGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
16162 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
16227 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
16292 TGGAA
196 TGGAA
16297 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
16362 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
16427 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
16492 TGGAA
196 TGGAA
*
16497 AACAGGGTGCACCCATAAAGTATCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
* *
16562 TCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
16627 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
16692 TGGAA
196 TGGAA
*
16697 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
16762 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
*
16827 GAATATGTCTAAATAATGTGTCAACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
16892 TGGAA
196 TGGAA
16897 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
16962 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTATCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
17027 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
17092 TGGAA
196 TGGAA
17097 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
17162 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
17227 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGAT
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGAT
17273 TCTAATTTAA
Statistics
Matches: 2338, Mismatches: 32, Indels: 5
0.98 0.01 0.00
Matches are distributed among these distances:
199 627 0.27
200 1711 0.73
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (200 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
TGGAA
Found at i:16272 original size:799 final size:800
Alignment explanation
Indices: 14701--17272 Score: 4954
Period size: 799 Copynumber: 3.2 Consensus size: 800
14691 CAATATGGCC
* * * *
14701 AACAAGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCAATCCCAAAAACATAGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
14765 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
14830 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
14895 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
14960 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGG-TTTA
261 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTA
15024 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGA
326 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGA
15089 ATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
391 ATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
15154 ACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGG
456 ACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGG
15219 -TTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTT
521 TTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTT
15283 CCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCC
586 CCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCC
*
15348 CAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCAGTACAAGTTT
651 CAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTT
**
15413 ACCGGTTTTATGAGAGAATATGTCTAAATAATGCATCGACACTAATTTAGTTTGTGTCGATATTT
716 ACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTT
15478 TTGTTCCAGAATGAATGGAA
781 TTGTTCCAGAATGAATGGAA
*
15498 AACAGGGTACACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
15563 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
15628 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
*
15693 TGGAAAACAGGGTGCACCCATAAAGTGTTGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
15758 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTA
261 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTA
15823 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGA
326 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGA
15888 ATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAA
391 ATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
15952 ACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGG
456 ACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGG
*
16017 TTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTATGTCGATATTTTTGTT
521 TTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTT
*
16082 CCAGAATGAATGGAAAACATGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCC
586 CCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCC
16147 CAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTT
651 CAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTT
16212 ACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTT
716 ACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTT
16277 TTGTTCCAGAATGAATGGAA
781 TTGTTCCAGAATGAATGGAA
16297 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
16362 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
16427 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
*
16492 TGGAAAACAGGGTGCACCCATAAAGTATCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
* *
16557 GAAAATCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTTTACCGGTTTTA
261 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTA
16622 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGA
326 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGA
*
16687 ATGAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
391 ATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
16752 ACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGG
456 ACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGG
*
16817 TTTTATGAGAGAATATGTCTAAATAATGTGTCAACACTAATTTAGTTTGTGTCGATATTTTTGTT
521 TTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTT
16882 CCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCC
586 CCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCC
16947 CAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTT
651 CAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTT
*
17012 ATCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTT
716 ACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTT
17077 TTGTTCCAGAATGAATGGAA
781 TTGTTCCAGAATGAATGGAA
17097 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
17162 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
17227 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGAT
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGAT
17273 TCTAATTTAA
Statistics
Matches: 1748, Mismatches: 23, Indels: 5
0.98 0.01 0.00
Matches are distributed among these distances:
797 32 0.02
798 348 0.20
799 848 0.49
800 520 0.30
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (800 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTA
TGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGA
ATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
ACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGG
TTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTT
CCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCC
CAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTT
ACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTT
TTGTTCCAGAATGAATGGAA
Found at i:18755 original size:12 final size:12
Alignment explanation
Indices: 18738--18792 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
18728 GGTCGCAGAA
18738 GATGAAGCTGAC
1 GATGAAGCTGAC
18750 GATGAAGAC-GAC
1 GATGAAG-CTGAC
* * *
18762 GATCATGATGAC
1 GATGAAGCTGAC
*
18774 GATGAAGCTGGC
1 GATGAAGCTGAC
18786 GATGAAG
1 GATGAAG
18793 ATGATGACGA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
12 33 0.97
13 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.35, T:0.16
Consensus pattern (12 bp):
GATGAAGCTGAC
Found at i:18795 original size:24 final size:24
Alignment explanation
Indices: 18738--18796 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
18728 GGTCGCAGAA
*
18738 GATGAAGCTGACGATGAAGACGAC
1 GATGAAGATGACGATGAAGACGAC
* * *
18762 GATCATGATGACGATGAAG-CTGGC
1 GATGAAGATGACGATGAAGAC-GAC
18786 GATGAAGATGA
1 GATGAAGATGA
18797 TGACGATGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
23 1 0.04
24 27 0.96
ACGTcount: A:0.36, C:0.14, G:0.34, T:0.17
Consensus pattern (24 bp):
GATGAAGATGACGATGAAGACGAC
Found at i:18807 original size:3 final size:3
Alignment explanation
Indices: 18786--18830 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
18776 TGAAGCTGGC
* * *
18786 GAT GAA GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
18831 CCAAACAAGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.38, C:0.02, G:0.33, T:0.27
Consensus pattern (3 bp):
GAT
Found at i:18807 original size:12 final size:12
Alignment explanation
Indices: 18746--18830 Score: 71
Period size: 12 Copynumber: 7.1 Consensus size: 12
18736 AAGATGAAGC
*
18746 TGACGATGAAGA
1 TGACGATGATGA
* *
18758 CGACGATCATGA
1 TGACGATGATGA
* *
18770 TGACGATGAAGC
1 TGACGATGATGA
* *
18782 TGGCGATGAAGA
1 TGACGATGATGA
* *
18794 TGATGACGATGA
1 TGACGATGATGA
*
18806 TGATGATGATGA
1 TGACGATGATGA
*
18818 TGAAGATGATGA
1 TGACGATGATGA
18830 T
1 T
18831 CCAAACAAGT
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 58 1.00
ACGTcount: A:0.35, C:0.09, G:0.33, T:0.22
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:20593 original size:184 final size:182
Alignment explanation
Indices: 20317--20811 Score: 837
Period size: 184 Copynumber: 2.7 Consensus size: 182
20307 GCAATGCTAT
*
20317 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* *
20382 GTGTCGGTACTTTATGTCCAGATTGGAAAAAAAAATGTGTCGATACATTGTTAAAAAGTGTCGAC
66 GTGTCGGTACTTTATGTCCAGATTGG-AAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGAC
*
20447 ATTTACACATCGGAACCCATAATTATAATGTAATAGATAAATTTGTAATATAAC
129 ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAAATTTGTAATATAAC
* *
20501 CGGTAAAAATATACCGGTTTTATGCTCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* *
20566 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAAGTATCGAC
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTT-AAAAAAGTGTCGAC
* *
20631 ATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
129 ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAAATTTGTAATATAAC
* *
20685 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
20750 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
20812 GTAATTTTAA
Statistics
Matches: 292, Mismatches: 16, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
183 30 0.10
184 261 0.89
185 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (182 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACAT
TTACACATCGGAACCCAGAATTATAATGTAATAGATAAATTTGTAATATAAC
Found at i:23475 original size:23 final size:23
Alignment explanation
Indices: 23445--23509 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
23435 ACTTTCAATA
23445 TAATAGGTAGCGCTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
* *
23468 TAATAGGTATCGTTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
* *
23491 TAATAGGTAGTGGTTATAT
1 TAATAGGTAGCGCTTATAT
23510 TGTAAAGTGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.40
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATG
Found at i:23897 original size:23 final size:23
Alignment explanation
Indices: 23866--23938 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
23856 ATAGGTAAAA
*
23866 ATATGATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
23889 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGTTT
* *
23912 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGTTT
23935 ATAT
1 ATAT
23939 TGTAAAGTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:24210 original size:22 final size:22
Alignment explanation
Indices: 24184--24227 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
24174 ATTGTAGGTG
* *
24184 AAAAACATGAAACA-ATATTAA
1 AAAAAAATGAAACATAAATTAA
*
24205 AAAAAATTGAAACATAAATTAA
1 AAAAAAATGAAACATAAATTAA
24227 A
1 A
24228 TAACTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (22 bp):
AAAAAAATGAAACATAAATTAA
Found at i:38078 original size:22 final size:22
Alignment explanation
Indices: 38029--38077 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
38019 ATAAATTATT
**
38029 TAAAATAAATCAATCAATATTT
1 TAAAATAAATCAATCAATATAA
*
38051 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCAATA-TAA
38074 TAAA
1 TAAA
38078 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCAATATAA
Found at i:38081 original size:54 final size:54
Alignment explanation
Indices: 38017--38675 Score: 376
Period size: 54 Copynumber: 11.8 Consensus size: 54
38007 ACAACTAAAA
38017 TAATAAATTATTTAAAATAAATCAATCAATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCAATATTTTAAAATAAATCAATCCATAC
* * **
38071 TAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAA-TCA-A-TATTTTAA-AATAAATCAATCCATAC
** * ** * ** * *
38128 TTTTAAAATAAAT-CAATCCATACAAATAAAT-TATTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCAATAT-TTTAAAATAAATCAATCCATAC
* *
38183 TAATAAATTATTTAAAATAAATCAAACTATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCAATATTTTAAAATAAATCAATCCATAC
* *
38237 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAGTAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCAATATTTTAAAATAAATCAATCCATAC
* * ** *
38291 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATTAATCCATA-
1 TAATAAATTATTTAAAATAAATCAAT-CA-A-TATTTTAA-AATAAATCAATCCATAC
** * ** * * * * * * * ** * *
38348 TTTTAAAATAAATCAATTCATATTAATAAAT-TATTTAAAATAAATTATTTTAAAA
1 TAATAAATTATTTAAAAT-AAATCAATCAATAT-TTTAAAATAAATCAATCCATAC
* * * *
38403 TAAATCAATTCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
1 T-AATAAATT-AT-----T-TAA-AATAAATCAATCAATATTTTAAAATAAATCAATCCATAC
*
38466 AAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATC-A---AT-C-AAT--A-T-TTTAAAATAAATCAATCCATAC
** * ** * ** *
38529 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCAATAT-TTTAAAATAAATCAATCCATAC
* *
38584 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCAATATTTTAAAATAAATCAATCCATAC
* *
38632 TAATAAATTATTTAAAATAAATCAATCCATATTTTATAATAAAT
1 TAATAAATTATTTAAAATAAATCAATCAATATTTTAAAATAAAT
38676 TATTTTAAAA
Statistics
Matches: 456, Mismatches: 101, Indels: 96
0.70 0.15 0.15
Matches are distributed among these distances:
48 30 0.07
49 4 0.01
50 6 0.01
51 1 0.00
52 1 0.00
53 1 0.00
54 213 0.47
55 27 0.06
56 19 0.04
57 32 0.07
58 43 0.09
59 1 0.00
60 4 0.01
61 2 0.00
62 13 0.03
63 36 0.08
64 23 0.05
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCAATATTTTAAAATAAATCAATCCATAC
Found at i:38087 original size:32 final size:32
Alignment explanation
Indices: 38049--38690 Score: 317
Period size: 32 Copynumber: 22.4 Consensus size: 32
38039 CAATCAATAT
38049 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
38081 TTTAAAATAAATCAATTCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
38111 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
38129 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
38161 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
38193 TTTAAAATAAATC-A---A-ACT-AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
38215 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
38247 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
38269 TTTAAAGTAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
38301 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* **
38331 --T--AATAAATTAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
38356 -------TAAATCAATTCATATTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* ** * *
38381 TTTAAAATAAAT-TAT-TTTA-AAATAAATCAA
1 TTTAAAATAAATCAATCCATACTAATAAAT-TA
* ** **
38411 TTCATACAACTACAAT-AATAAAT-C-AATCCATAT-
1 TT--TA-AAATA-AATCAATCCATACTAATAAAT-TA
* *
38444 TTTAAAATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
38476 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
38508 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
38530 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
38562 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
38592 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
38610 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
38642 TTTAAAATAAATCAATCCATATTTTATAATAAATTA
1 TTTAAAATAAATCAATCCATA----CTAATAAATTA
38678 TTTTAAAATAAAT
1 -TTTAAAATAAAT
38691 TATTTTAAAA
Statistics
Matches: 481, Mismatches: 39, Indels: 175
0.69 0.06 0.25
Matches are distributed among these distances:
20 2 0.00
22 84 0.17
23 13 0.03
24 7 0.01
25 6 0.01
26 53 0.11
27 6 0.01
28 12 0.02
29 10 0.02
30 20 0.04
31 18 0.04
32 211 0.44
33 6 0.01
34 10 0.02
35 1 0.00
36 10 0.02
37 12 0.02
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:38168 original size:14 final size:14
Alignment explanation
Indices: 38151--38204 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
38141 CAATCCATAC
38151 AAATAAATTATTTA
1 AAATAAATTATTTA
*
38165 AAATAAATCAATTCATA
1 AAATAAAT-TATT--TA
*
38182 CTAATAAATTATTTA
1 -AAATAAATTATTTA
38197 AAATAAAT
1 AAATAAAT
38205 CAAACTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 5 0.16
17 5 0.16
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:38273 original size:22 final size:22
Alignment explanation
Indices: 38247--38289 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
38237 TAATAAATTA
38247 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
38269 TTTAAAGTAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
38290 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:38389 original size:14 final size:15
Alignment explanation
Indices: 38372--38407 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
38362 AATTCATATT
38372 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
38386 AATAAATTATTTTAA
1 AATAAATTATTTTAA
38401 AATAAAT
1 AATAAAT
38408 CAATTCATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:38455 original size:22 final size:22
Alignment explanation
Indices: 38332--38460 Score: 78
Period size: 22 Copynumber: 5.5 Consensus size: 22
38322 CAACTACAAT
*
38332 AATAAATTAATCCATATTTTAA
1 AATAAATCAATCCATATTTTAA
* *
38354 AATAAATCAATTCATATTAATAA
1 AATAAATCAATCCATATT-TTAA
* ** * **
38377 ATTATTTAAAATAAATTATTTTAA
1 AATAAAT-CAATCCA-TATTTTAA
* * **
38401 AATAAATCAATTCATACAACTACAA
1 AATAAATCAATCCAT---ATTTTAA
38426 TAATAAATCAATCCATATTTTAA
1 -AATAAATCAATCCATATTTTAA
38449 AATAAATCAATC
1 AATAAATCAATC
38461 TATACAAATA
Statistics
Matches: 77, Mismatches: 23, Indels: 14
0.68 0.20 0.12
Matches are distributed among these distances:
22 29 0.38
23 15 0.19
24 11 0.14
25 8 0.10
26 14 0.18
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (22 bp):
AATAAATCAATCCATATTTTAA
Found at i:38534 original size:22 final size:22
Alignment explanation
Indices: 38508--38550 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
38498 TAATAAATTA
38508 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
38530 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
38551 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:38559 original size:22 final size:22
Alignment explanation
Indices: 38510--38558 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
38500 ATAAATTATT
**
38510 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
38532 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
38555 TAAA
1 TAAA
38559 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:38639 original size:22 final size:23
Alignment explanation
Indices: 38564--38638 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
38554 ATAAATTATT
38564 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
38586 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
38612 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
38635 TAAA
1 TAAA
38639 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:38653 original size:315 final size:311
Alignment explanation
Indices: 38072--38705 Score: 935
Period size: 315 Copynumber: 2.0 Consensus size: 311
38062 AATCCATACT
38072 AATAAATTATTTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATATTTTAAAAT
1 AATAAATTATTTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATATTTTAAAAT
*
38137 AAATCAATCCATACAAATAAATTATTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATA
66 AAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATA
*
38202 AATCAAACTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
131 AATCAAACCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
*** * * *
38267 ATTTTAAAGTAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
196 AAACTAAAGTAAATAAATCAATACTAAT-AATTATTTAAAATAAATCAATCCATACAACTAAAAT
* *
38332 AATAAATTAATCCATATTTTAAAATAAATCAATTCATATTAATAAATTA-TTTAA
260 AATAAATCAATCCATATTTTAAAATAAAT-AATT-ATA-AAATAAATTATTTTAA
38386 AATAAATTATTTTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATATTTTAAAA
1 AATAAATTA-TTTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATATTTTAAAA
*
38451 TAAATCAATCTATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT
65 TAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT
*
38516 AAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCA
130 AAATCAAACCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCA
*
38581 TACAACTACAA-T-AATAAATCAAT-C-CAT-A-T-TTTAAAATAAATCAATCCATACTAA-TAA
195 TA-AACTA-AAGTAAATAAATCAATACTAATAATTATTTAAAATAAATCAATCCATAC-AACTAA
* * *
38638 ATTATTTAAAATAAATCAATCCATATTTTATAATAAATTATTTTAAAATAAATTATTTTAA
257 A--A--T--AATAAATCAATCCATATTTTAAAATAAATAATTATAAAATAAATTATTTTAA
38699 AATAAAT
1 AATAAAT
38706 AACTTTATTA
Statistics
Matches: 293, Mismatches: 16, Indels: 23
0.88 0.05 0.07
Matches are distributed among these distances:
309 25 0.09
310 3 0.01
311 2 0.01
312 9 0.03
313 17 0.06
314 13 0.04
315 219 0.75
316 3 0.01
317 2 0.01
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (311 bp):
AATAAATTATTTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATATTTTAAAAT
AAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATA
AATCAAACCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
AAACTAAAGTAAATAAATCAATACTAATAATTATTTAAAATAAATCAATCCATACAACTAAAATA
ATAAATCAATCCATATTTTAAAATAAATAATTATAAAATAAATTATTTTAA
Found at i:38712 original size:15 final size:15
Alignment explanation
Indices: 38661--38705 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
38651 AATCAATCCA
*
38661 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
38676 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
38691 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
38706 AACTTTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TATTTTAAAATAAAT
Found at i:38728 original size:23 final size:23
Alignment explanation
Indices: 38702--38746 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
38692 ATTTTAAAAT
* *
38702 AAATAACTTTATTAAATTATTTA
1 AAATAACTTTAATAAATAATTTA
* *
38725 AAATTATTTTAATAAATAATTT
1 AAATAACTTTAATAAATAATTT
38747 TATTTTATAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
AAATAACTTTAATAAATAATTTA
Found at i:38878 original size:33 final size:33
Alignment explanation
Indices: 38836--38903 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
38826 GACGTTTGAA
*
38836 GAGCTTCTGTTTTCTAAAAAACAAACAGTCTGC
1 GAGCTTCTGTCTTCTAAAAAACAAACAGTCTGC
38869 GAGCTTCTGTCTTCTAAAAAACAAACAGTCTGC
1 GAGCTTCTGTCTTCTAAAAAACAAACAGTCTGC
38902 GA
1 GA
38904 AGCCTAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (33 bp):
GAGCTTCTGTCTTCTAAAAAACAAACAGTCTGC
Found at i:43712 original size:11 final size:11
Alignment explanation
Indices: 43696--43735 Score: 53
Period size: 11 Copynumber: 3.4 Consensus size: 11
43686 AATTAGTTTA
43696 TTTTGTCAAAT
1 TTTTGTCAAAT
43707 TTTTGTCAAATTT
1 TTTTGTCAAA--T
43720 ATTTTGTCAAAT
1 -TTTTGTCAAAT
43732 TTTT
1 TTTT
43736 TATAATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 14 0.54
12 1 0.04
13 1 0.04
14 10 0.38
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.60
Consensus pattern (11 bp):
TTTTGTCAAAT
Found at i:43726 original size:14 final size:14
Alignment explanation
Indices: 43692--43733 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
43682 GAGGAATTAG
43692 TTTATTTTGTCAAA
1 TTTATTTTGTCAAA
43706 --T-TTTTGTCAAA
1 TTTATTTTGTCAAA
43717 TTTATTTTGTCAAA
1 TTTATTTTGTCAAA
43731 TTT
1 TTT
43734 TTTATAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 10 0.40
12 1 0.04
13 1 0.04
14 13 0.52
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.60
Consensus pattern (14 bp):
TTTATTTTGTCAAA
Found at i:48532 original size:67 final size:67
Alignment explanation
Indices: 48453--48583 Score: 244
Period size: 67 Copynumber: 2.0 Consensus size: 67
48443 ATTCGCATAC
*
48453 GATAAGATTTAAATAGGATTAAATGTCGAACGAATTTACATATGATAAAACGACTTAATCAATCA
1 GATAAGATTTAAATAGGAATAAATGTCGAACGAATTTACATATGATAAAACGACTTAATCAATCA
48518 GA
66 GA
*
48520 GATAAGATTTAAATAGGAATAAATGTCGAGCGAATTTACATATGATAAAACGACTTAATCAATC
1 GATAAGATTTAAATAGGAATAAATGTCGAACGAATTTACATATGATAAAACGACTTAATCAATC
48584 GGAGGGGTAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (67 bp):
GATAAGATTTAAATAGGAATAAATGTCGAACGAATTTACATATGATAAAACGACTTAATCAATCA
GA
Found at i:52528 original size:41 final size:40
Alignment explanation
Indices: 52437--52528 Score: 98
Period size: 41 Copynumber: 2.3 Consensus size: 40
52427 AATTTATATA
* * * *
52437 TATATAAA-TTAAATATTTTATAATTCAAAAAAAACAGTT
1 TATATAAATTTAAATAATATATAATTCAAAAAAAAAAATT
*
52476 TATAATTAATTTAAATAATATATAATT-ATAAAATAAAAAATT
1 TAT-ATAAATTTAAATAATATATAATTCA-AAAA-AAAAAATT
52518 TATATAAATTT
1 TATATAAATTT
52529 TTTAATTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
39 3 0.07
40 5 0.12
41 26 0.60
42 9 0.21
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (40 bp):
TATATAAATTTAAATAATATATAATTCAAAAAAAAAAATT
Found at i:52744 original size:184 final size:188
Alignment explanation
Indices: 52430--52825 Score: 640
Period size: 184 Copynumber: 2.1 Consensus size: 188
52420 ATTTTCTAAT
* * *
52430 TTATATATATATAAATTAAATA-TTTTATAATTCAAAAAAAACAGTTTATAATTAATTTAAATAA
1 TTATATATA-ATATATTTAATATTTTTATAATTCAAAAAAAACAGTTTACAATTAATTTAAATAA
*
52494 TATATAATTATAAAATAAAAAATTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAA
65 TATATAATTATAAAATAAAAAATTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAA
* * *
52559 AAGTTATTGAATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTGAGCTCATATG
130 AAATTATTGAATCTTAAATTATTAATTGGATTTTAAATGGTTTGGGCTGAGCCCATATG
*
52618 TTATATATAATATATTTAATATTTTTA-AATTC-AAAAAAATAGTTTACAATTAATTTAAAT-A-
1 TTATATATAATATATTTAATATTTTTATAATTCAAAAAAAACAGTTTACAATTAATTTAAATAAT
* **
52679 ATATAATTATAAAATAAAAATTTTATATAAAATTTTTAATTAATTAATATTGATTTATTTTTAAA
66 ATATAATTATAAAATAAAAAATTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAA
*
52744 AATTATTGGATCTTAAATTATTAATTGGATTTTAAATGGTTTGGGCTGAGCCCATATG
131 AATTATTGAATCTTAAATTATTAATTGGATTTTAAATGGTTTGGGCTGAGCCCATATG
52802 TTATATATAATATATTTAATATTT
1 TTATATATAATATATTTAATATTT
52826 AAAATTTTAT
Statistics
Matches: 195, Mismatches: 12, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
184 139 0.71
185 1 0.01
186 26 0.13
187 15 0.08
188 14 0.07
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (188 bp):
TTATATATAATATATTTAATATTTTTATAATTCAAAAAAAACAGTTTACAATTAATTTAAATAAT
ATATAATTATAAAATAAAAAATTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAA
AATTATTGAATCTTAAATTATTAATTGGATTTTAAATGGTTTGGGCTGAGCCCATATG
Found at i:52932 original size:21 final size:21
Alignment explanation
Indices: 52906--52945 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
52896 TAACCGTTCC
52906 CCGACCGAACTAATTCGGTGG
1 CCGACCGAACTAATTCGGTGG
*
52927 CCGACCGAATTAATTCGGT
1 CCGACCGAACTAATTCGGT
52946 TCGGTCGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.23
Consensus pattern (21 bp):
CCGACCGAACTAATTCGGTGG
Found at i:63711 original size:17 final size:17
Alignment explanation
Indices: 63689--63729 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
63679 TATAATAAAC
*
63689 TTATGATAATTAAATTA
1 TTATGATAATTAAAGTA
63706 TTATGATAATTAAAGTA
1 TTATGATAATTAAAGTA
*
63723 ATATGAT
1 TTATGAT
63730 TACTTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (17 bp):
TTATGATAATTAAAGTA
Found at i:64568 original size:24 final size:24
Alignment explanation
Indices: 64541--64588 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
64531 AGCCAAAGGA
64541 AAAGACTTATT-AATAAACAATTTG
1 AAAGACTTATTAAATAAA-AATTTG
**
64565 AAAGTTTTATTAAATAAAAATTTG
1 AAAGACTTATTAAATAAAAATTTG
64589 GATTACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (24 bp):
AAAGACTTATTAAATAAAAATTTG
Found at i:66648 original size:31 final size:30
Alignment explanation
Indices: 66603--66661 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
66593 ACATGGTTAG
* *
66603 TTTACATTACAACAATAAATCAATATATCA
1 TTTACATAACAACAATAAACCAATATATCA
66633 TTTACATCAACAACAATAAACCAATATAT
1 TTTACAT-AACAACAATAAACCAATATAT
66662 ATATATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.31
Consensus pattern (30 bp):
TTTACATAACAACAATAAACCAATATATCA
Found at i:66684 original size:34 final size:34
Alignment explanation
Indices: 66611--66705 Score: 124
Period size: 34 Copynumber: 2.9 Consensus size: 34
66601 AGTTTACATT
* * *
66611 ACAACAATAAATCAATATAT-CAT-T-TACATCA
1 ACAACAATAAACCAATATATATATATATATATCA
66642 ACAACAATAAACCAATATATATATATATATATCA
1 ACAACAATAAACCAATATATATATATATATATCA
* *
66676 ACATCAATAAACCAGTATATATATATATAT
1 ACAACAATAAACCAATATATATATATATAT
66706 TAAACATATA
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
31 19 0.34
32 2 0.04
33 1 0.02
34 34 0.61
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.31
Consensus pattern (34 bp):
ACAACAATAAACCAATATATATATATATATATCA
Found at i:71455 original size:30 final size:29
Alignment explanation
Indices: 71395--71484 Score: 96
Period size: 29 Copynumber: 3.1 Consensus size: 29
71385 ATTTAGTGAT
* *
71395 TTTA-AATAAAAATTATA-ATAAAA-GAAA
1 TTTATAATACAAATTA-ACATAAAACTAAA
**
71422 TTTATGAATTGAAATTAACATAAAACTAAA
1 TTTAT-AATACAAATTAACATAAAACTAAA
*
71452 TTTATAATACAAATTAATATAAAACTAAA
1 TTTATAATACAAATTAACATAAAACTAAA
71481 TTTA
1 TTTA
71485 AAAAAAGTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
27 4 0.08
28 1 0.02
29 40 0.75
30 8 0.15
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.34
Consensus pattern (29 bp):
TTTATAATACAAATTAACATAAAACTAAA
Found at i:72125 original size:31 final size:31
Alignment explanation
Indices: 72084--72142 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
72074 TAGGATAAAT
*
72084 TATATATTTAGTATTTAAACTATTAATTTTGA
1 TATATATTTAGTACTTAAACT-TTAATTTTGA
*
72116 TATAT-TTTAGTACTTAAAGTTTAATTT
1 TATATATTTAGTACTTAAACTTTAATTT
72143 ATTTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 7 0.28
31 13 0.52
32 5 0.20
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (31 bp):
TATATATTTAGTACTTAAACTTTAATTTTGA
Found at i:73237 original size:16 final size:16
Alignment explanation
Indices: 73216--73253 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
73206 GTGCAAATTC
*
73216 GGGTACCTGGATTTTT
1 GGGTACCTCGATTTTT
73232 GGGTA-CTCGATTTTT
1 GGGTACCTCGATTTTT
73247 GGGTACC
1 GGGTACC
73254 CGGAACTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.13, C:0.16, G:0.32, T:0.39
Consensus pattern (16 bp):
GGGTACCTCGATTTTT
Found at i:74736 original size:23 final size:23
Alignment explanation
Indices: 74710--74762 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
74700 ATTCCATTGA
* *
74710 TAAAATTTAAT-ACTTTTAGTGCC
1 TAAAATTT-ATCAATTTTAGTACC
* *
74733 TAAACTATATCAATTTTAGTACC
1 TAAAATTTATCAATTTTAGTACC
74756 TAAAATT
1 TAAAATT
74763 GAAAAAAATT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.42
Consensus pattern (23 bp):
TAAAATTTATCAATTTTAGTACC
Found at i:74930 original size:21 final size:21
Alignment explanation
Indices: 74886--74930 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
74876 ATGATTTTAA
* * *
74886 AAAATTGAAAGTTTAGGTATT
1 AAAACTGAAAGTTTAGATACT
*
74907 AAAACTGATAGTTTAGATACT
1 AAAACTGAAAGTTTAGATACT
74928 AAA
1 AAA
74931 TCTGCAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.04, G:0.16, T:0.33
Consensus pattern (21 bp):
AAAACTGAAAGTTTAGATACT
Found at i:76411 original size:2 final size:2
Alignment explanation
Indices: 76404--76432 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
76394 AATTCAGTAT
76404 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
76433 CATGGAGCTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:78540 original size:2 final size:2
Alignment explanation
Indices: 78533--78562 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
78523 AAAGCGCGGG
78533 AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
78563 AACCCTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Done.