Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003596.1 Hibiscus syriacus cultivar Beakdansim tig00007597_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: 184084
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:284 original size:15 final size:16
Alignment explanation
Indices: 264--297 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
254 ATATATAACT
*
264 ATAGAACGTAATA-TA
1 ATAGAACATAATATTA
279 ATAGAACATAATATTA
1 ATAGAACATAATATTA
295 ATA
1 ATA
298 ATACAATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.29
Consensus pattern (16 bp):
ATAGAACATAATATTA
Found at i:1667 original size:29 final size:29
Alignment explanation
Indices: 1619--1698 Score: 153
Period size: 29 Copynumber: 2.8 Consensus size: 29
1609 GCACCCATTT
1619 CGAATT-ATTCCCAGAATAGCACCAAAAC
1 CGAATTAATTCCCAGAATAGCACCAAAAC
1647 CGAATTAATTCCCAGAATAGCACCAAAAC
1 CGAATTAATTCCCAGAATAGCACCAAAAC
1676 CGAATTAATTCCCAGAATAGCAC
1 CGAATTAATTCCCAGAATAGCAC
1699 GGTCAACGGT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 6 0.12
29 45 0.88
ACGTcount: A:0.42, C:0.28, G:0.11, T:0.19
Consensus pattern (29 bp):
CGAATTAATTCCCAGAATAGCACCAAAAC
Found at i:1709 original size:7 final size:7
Alignment explanation
Indices: 1697--1755 Score: 63
Period size: 7 Copynumber: 8.9 Consensus size: 7
1687 CCAGAATAGC
1697 ACGGTCA
1 ACGGTCA
1704 ACGGTCA
1 ACGGTCA
1711 ACGGTCA
1 ACGGTCA
1718 ACGGGTC-
1 AC-GGTCA
*
1725 -GGGTCA
1 ACGGTCA
1731 ACGGTCA
1 ACGGTCA
1738 ACGGTC-
1 ACGGTCA
*
1744 -GGGTCA
1 ACGGTCA
1750 ACGGTC
1 ACGGTC
1756 GGGTCGGGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 8 0.19
7 31 0.72
8 4 0.09
ACGTcount: A:0.22, C:0.27, G:0.36, T:0.15
Consensus pattern (7 bp):
ACGGTCA
Found at i:1745 original size:19 final size:20
Alignment explanation
Indices: 1706--1798 Score: 94
Period size: 19 Copynumber: 5.0 Consensus size: 20
1696 CACGGTCAAC
1706 GGTCAACGGTCAACGGGTCG
1 GGTCAACGGTCAACGGGTCG
1726 GGTCAACGGTCAAC-GGTCG
1 GGTCAACGGTCAACGGGTCG
1745 GGTCAACGGT---CGGGTCG
1 GGTCAACGGTCAACGGGTCG
*
1762 GGTAAACTGGT---CGGGTC-
1 GGTCAAC-GGTCAACGGGTCG
* *
1779 GGTAAACGGTAAACGGGTCG
1 GGTCAACGGTCAACGGGTCG
1799 TGACCGGTCA
Statistics
Matches: 66, Mismatches: 1, Indels: 12
0.84 0.01 0.15
Matches are distributed among these distances:
16 4 0.06
17 18 0.27
18 9 0.14
19 21 0.32
20 14 0.21
ACGTcount: A:0.20, C:0.22, G:0.41, T:0.17
Consensus pattern (20 bp):
GGTCAACGGTCAACGGGTCG
Found at i:1748 original size:12 final size:12
Alignment explanation
Indices: 1733--1760 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1723 TCGGGTCAAC
1733 GGTCAACGGTCG
1 GGTCAACGGTCG
1745 GGTCAACGGTCG
1 GGTCAACGGTCG
1757 GGTC
1 GGTC
1761 GGGTAAACTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.25, G:0.43, T:0.18
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:1775 original size:18 final size:17
Alignment explanation
Indices: 1719--1788 Score: 79
Period size: 17 Copynumber: 4.0 Consensus size: 17
1709 CAACGGTCAA
*
1719 CGGGTCGGGTCAACGGT
1 CGGGTCGGGTAAACGGT
* *
1736 CAACGGTCGGGTCAACGGT
1 C--GGGTCGGGTAAACGGT
1755 CGGGTCGGGTAAACTGGT
1 CGGGTCGGGTAAAC-GGT
1773 CGGGTC-GGTAAACGGT
1 CGGGTCGGGTAAACGGT
1789 AAACGGGTCG
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
16 3 0.06
17 19 0.40
18 9 0.19
19 16 0.34
ACGTcount: A:0.17, C:0.21, G:0.43, T:0.19
Consensus pattern (17 bp):
CGGGTCGGGTAAACGGT
Found at i:1831 original size:11 final size:10
Alignment explanation
Indices: 1801--1851 Score: 70
Period size: 9 Copynumber: 5.2 Consensus size: 10
1791 ACGGGTCGTG
1801 ACCGGTC-AA
1 ACCGGTCAAA
1810 ACCGGTCAAA
1 ACCGGTCAAA
1820 ACCGGTTCAAA
1 ACCGG-TCAAA
*
1831 ACCGGT-TAA
1 ACCGGTCAAA
1840 ACCGGTCAAA
1 ACCGGTCAAA
1850 AC
1 AC
1852 AGTTTCCAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
9 15 0.41
10 12 0.32
11 10 0.27
ACGTcount: A:0.37, C:0.29, G:0.20, T:0.14
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:8903 original size:29 final size:29
Alignment explanation
Indices: 8871--9024 Score: 112
Period size: 29 Copynumber: 5.3 Consensus size: 29
8861 CATTTTACAC
*
8871 AAATAGCACCATTTTCGAATTAATTCCCA
1 AAATAGCACCAATTTCGAATTAATTCCCA
** **** * * * *
8900 AAATATTATTTTTTTCTAA-AAATTACTA
1 AAATAGCACCAATTTCGAATTAATTCCCA
*
8928 AAATAGCACCCATTTCGAATTAATTCCCA
1 AAATAGCACCAATTTCGAATTAATTCCCA
* ***
8957 GAATAGCACCAAAACCGAATTAATTCCCA
1 AAATAGCACCAATTTCGAATTAATTCCCA
* ***
8986 GAATAGCACCAAAACCGAATTAATTCCCA
1 AAATAGCACCAATTTCGAATTAATTCCCA
*
9015 GAATAGCACC
1 AAATAGCACC
9025 GGTCAACGGT
Statistics
Matches: 100, Mismatches: 24, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
28 18 0.18
29 82 0.82
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (29 bp):
AAATAGCACCAATTTCGAATTAATTCCCA
Found at i:9057 original size:20 final size:19
Alignment explanation
Indices: 9032--9127 Score: 101
Period size: 20 Copynumber: 5.0 Consensus size: 19
9022 ACCGGTCAAC
9032 GGTCAACGGTCAACGGGTCG
1 GGTCAACGGT-AACGGGTCG
9052 GGTCAACGGTCAACGGGTCG
1 GGTCAACGGT-AACGGGTCG
9072 GGTCAACGGT--CGGGTCG
1 GGTCAACGGTAACGGGTCG
*
9089 GGTAAACTGGT--CGGGTCG
1 GGTCAAC-GGTAACGGGTCG
*
9107 GGTAAACGGGTAAACGGGTCG
1 GGTCAAC-GGT-AACGGGTCG
9128 TGACCGGTCA
Statistics
Matches: 70, Mismatches: 2, Indels: 7
0.89 0.03 0.09
Matches are distributed among these distances:
17 13 0.19
18 20 0.29
20 30 0.43
21 7 0.10
ACGTcount: A:0.20, C:0.21, G:0.43, T:0.17
Consensus pattern (19 bp):
GGTCAACGGTAACGGGTCG
Found at i:9082 original size:7 final size:7
Alignment explanation
Indices: 9024--9067 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
9014 AGAATAGCAC
9024 CGGTCAA
1 CGGTCAA
9031 CGGTCAA
1 CGGTCAA
9038 CGGTCAA
1 CGGTCAA
9045 CGGGTC--
1 C-GGTCAA
*
9051 GGGTCAA
1 CGGTCAA
9058 CGGTCAA
1 CGGTCAA
9065 CGG
1 CGG
9068 GTCGGGTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 4 0.12
7 24 0.75
8 4 0.12
ACGTcount: A:0.23, C:0.27, G:0.36, T:0.14
Consensus pattern (7 bp):
CGGTCAA
Found at i:9084 original size:12 final size:13
Alignment explanation
Indices: 9059--9087 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
9049 TCGGGTCAAC
9059 GGTCAACGGGTCG
1 GGTCAACGGGTCG
9072 GGTCAAC-GGTCG
1 GGTCAACGGGTCG
9084 GGTC
1 GGTC
9088 GGGTAAACTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.14, C:0.24, G:0.45, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:9102 original size:18 final size:17
Alignment explanation
Indices: 9045--9115 Score: 88
Period size: 18 Copynumber: 3.9 Consensus size: 17
9035 CAACGGTCAA
*
9045 CGGGTCGGGTCAACGGT
1 CGGGTCGGGTAAACGGT
*
9062 CAACGGGTCGGGTCAACGGT
1 ---CGGGTCGGGTAAACGGT
9082 CGGGTCGGGTAAACTGGT
1 CGGGTCGGGTAAAC-GGT
9100 CGGGTCGGGTAAACGG
1 CGGGTCGGGTAAACGG
9116 GTAAACGGGT
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
17 15 0.31
18 17 0.35
20 17 0.35
ACGTcount: A:0.17, C:0.21, G:0.45, T:0.17
Consensus pattern (17 bp):
CGGGTCGGGTAAACGGT
Found at i:9160 original size:11 final size:10
Alignment explanation
Indices: 9130--9181 Score: 72
Period size: 9 Copynumber: 5.3 Consensus size: 10
9120 ACGGGTCGTG
9130 ACCGGTC-AA
1 ACCGGTCAAA
9139 ACCGGTCAAA
1 ACCGGTCAAA
9149 ACCGGTTCAAA
1 ACCGG-TCAAA
*
9160 ACCGGT-TAA
1 ACCGGTCAAA
9169 ACCGGTCAAA
1 ACCGGTCAAA
9179 ACC
1 ACC
9182 AGTTTCCAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
9 15 0.39
10 13 0.34
11 10 0.26
ACGTcount: A:0.37, C:0.31, G:0.19, T:0.13
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:10342 original size:29 final size:29
Alignment explanation
Indices: 10286--10418 Score: 168
Period size: 29 Copynumber: 4.7 Consensus size: 29
10276 TATAAAAATA
10286 ATTA-TTTTAAAAA-T-TATAT-ATAGTAT
1 ATTATTTTTAAAAACTATATATAATA-TAT
10312 ATTATTTTTAAAAACTATATATAATATAT
1 ATTATTTTTAAAAACTATATATAATATAT
*
10341 ATTATTTTTAAAAACTATATATAATATTT
1 ATTATTTTTAAAAACTATATATAATATAT
*
10370 ATTATTTTT-AAAACTATATAATATATTTAT
1 ATTATTTTTAAAAACTATAT-ATA-ATATAT
* *
10400 ACTATTTTAAAAAACTATA
1 ATTATTTTTAAAAACTATA
10419 CATTTTCAAA
Statistics
Matches: 95, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
26 4 0.04
27 9 0.09
28 11 0.12
29 48 0.51
30 14 0.15
31 9 0.09
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.49
Consensus pattern (29 bp):
ATTATTTTTAAAAACTATATATAATATAT
Found at i:14468 original size:2 final size:2
Alignment explanation
Indices: 14461--14523 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
14451 TTTAATGATA
14461 AT AT AT AT AT AT 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 AT AT AT AT AT AT
14503 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
14524 CTAAAATTAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17673 original size:13 final size:13
Alignment explanation
Indices: 17628--17670 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
17618 ACCCACCATA
17628 TTTTTCTTTTCCT
1 TTTTTCTTTTCCT
*
17641 TTTTTCTTTT-GT
1 TTTTTCTTTTCCT
17653 TCTTTT-TTTTCCT
1 T-TTTTCTTTTCCT
17666 TTTTT
1 TTTTT
17671 TTTCAGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.81
Consensus pattern (13 bp):
TTTTTCTTTTCCT
Found at i:26202 original size:14 final size:14
Alignment explanation
Indices: 26183--26215 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
26173 AGCTGAATAG
26183 GTGGTGCTAAATCA
1 GTGGTGCTAAATCA
*
26197 GTGGTGCTAAATCG
1 GTGGTGCTAAATCA
26211 GTGGT
1 GTGGT
26216 AGGCAACCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.12, G:0.36, T:0.30
Consensus pattern (14 bp):
GTGGTGCTAAATCA
Found at i:28138 original size:21 final size:19
Alignment explanation
Indices: 28067--28138 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 19
28057 TATGTGTTAG
28067 AAAATAATAAAGAAAGTAAA
1 AAAATAATAAAGAAAGT-AA
*
28087 ACAAATGAAATAAGGAAAGTAA
1 A-AAAT--AATAAAGAAAGTAA
28109 AAAATAATAAAGTAAA-TATA
1 AAAATAATAAAG-AAAGTA-A
28129 AAAATGAATA
1 AAAAT-AATA
28139 GAATACATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
19 8 0.18
20 10 0.23
21 12 0.27
22 3 0.07
23 11 0.25
ACGTcount: A:0.69, C:0.01, G:0.11, T:0.18
Consensus pattern (19 bp):
AAAATAATAAAGAAAGTAA
Found at i:28303 original size:25 final size:26
Alignment explanation
Indices: 28266--28314 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
28256 TAAAAAGATA
*
28266 AAAATAGAGAATAAG-AA-TAAAAAG
1 AAAATAGAAAATAAGTAAGTAAAAAG
28290 AAAATAGATAAATAAGTAAGTAAAA
1 AAAATAGA-AAATAAGTAAGTAAAA
28315 TATATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 6 0.29
26 2 0.10
27 5 0.24
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.16
Consensus pattern (26 bp):
AAAATAGAAAATAAGTAAGTAAAAAG
Found at i:28370 original size:7 final size:7
Alignment explanation
Indices: 28355--28391 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
28345 TAAGTAAAAT
*
28355 AATAAAA
1 AATAGAA
28362 AATAGAA
1 AATAGAA
28369 AATA-AA
1 AATAGAA
28375 AATAGAA
1 AATAGAA
28382 AATAGAA
1 AATAGAA
28389 AAT
1 AAT
28392 CAAAAGTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (7 bp):
AATAGAA
Found at i:28396 original size:13 final size:13
Alignment explanation
Indices: 28359--28391 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
28349 TAAAATAATA
28359 AAAAATAGAAAAT
1 AAAAATAGAAAAT
28372 AAAAATAGAAAAT
1 AAAAATAGAAAAT
28385 AGAAAAT
1 A-AAAAT
28392 CAAAAGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (13 bp):
AAAAATAGAAAAT
Found at i:28407 original size:2 final size:2
Alignment explanation
Indices: 28400--28493 Score: 124
Period size: 2 Copynumber: 48.0 Consensus size: 2
28390 ATCAAAAGTA
28400 AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
* *
28441 AA AT A- AT AT AA AT AT AT AT AT AT AT AT AT AT ACT A- AT GAT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT -AT AT
28482 AT AT AT AT AT AT
1 AT AT AT AT AT AT
28494 GAACTAAAAT
Statistics
Matches: 83, Mismatches: 3, Indels: 12
0.85 0.03 0.12
Matches are distributed among these distances:
1 4 0.05
2 75 0.90
3 4 0.05
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (2 bp):
AT
Found at i:29703 original size:2 final size:2
Alignment explanation
Indices: 29696--29731 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
29686 AATAATAATG
29696 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
29732 ATACTAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31844 original size:40 final size:40
Alignment explanation
Indices: 31788--31864 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
31778 GAAAAATATA
*
31788 AGTCAAATGAATACTTTAATTTTTTTTATTTTAACTTATT
1 AGTCAAATGAACACTTTAATTTTTTTTATTTTAACTTATT
31828 AGTCAAATGAACACTTTAATTTTTTTTATTTTAACTT
1 AGTCAAATGAACACTTTAATTTTTTTTATTTTAACTT
31865 GAAGACTCAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.53
Consensus pattern (40 bp):
AGTCAAATGAACACTTTAATTTTTTTTATTTTAACTTATT
Found at i:36111 original size:21 final size:21
Alignment explanation
Indices: 36068--36112 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
36058 ATTTTTGGGT
* * *
36068 AAGGGGAATCGGTACCCATTC
1 AAGGGGAACCGATACCCACTC
*
36089 AAGGGGAACCGATACCCCCTC
1 AAGGGGAACCGATACCCACTC
36110 AAG
1 AAG
36113 CGAACCAGAA
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:0.31, C:0.29, G:0.27, T:0.13
Consensus pattern (21 bp):
AAGGGGAACCGATACCCACTC
Found at i:37131 original size:31 final size:31
Alignment explanation
Indices: 37093--37217 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
37083 AGGGTCGAGG
37093 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
37124 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
37155 GTTTACCTATGTTCTTCGGGACATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
37186 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
37217 G
1 G
37218 GTCCTTCGGG
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:47620 original size:17 final size:17
Alignment explanation
Indices: 47600--47657 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
47590 CATCTGATAT
47600 TTGTAAATATCTAATAA
1 TTGTAAATATCTAATAA
*
47617 TTGT-AATCATCTTAT-A
1 TTGTAAAT-ATCTAATAA
* *
47633 TATGTGAATATCTGATAA
1 T-TGTAAATATCTAATAA
47651 TTGTAAA
1 TTGTAAA
47658 CATTTAGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 5 0.15
17 24 0.71
18 5 0.15
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (17 bp):
TTGTAAATATCTAATAA
Found at i:47628 original size:34 final size:34
Alignment explanation
Indices: 47590--47656 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
47580 AACTGTAAAG
*
47590 CATCTGATATTTGTAAATATCTAATAATTGTAAT
1 CATCTGATATATGTAAATATCTAATAATTGTAAT
* * *
47624 CATCTTATATATGTGAATATCTGATAATTGTAA
1 CATCTGATATATGTAAATATCTAATAATTGTAA
47657 ACATTTAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.43
Consensus pattern (34 bp):
CATCTGATATATGTAAATATCTAATAATTGTAAT
Found at i:60610 original size:15 final size:15
Alignment explanation
Indices: 60590--60641 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
60580 TCTACTTCCA
* *
60590 TGGTGTTGTTGCATG
1 TGGTGTTGATGCCTG
60605 TGGTGTTGATGCCTG
1 TGGTGTTGATGCCTG
*
60620 TTGTGTTGATGCCTG
1 TGGTGTTGATGCCTG
*
60635 TTGTGTT
1 TGGTGTT
60642 TTTGTTTTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.06, C:0.10, G:0.37, T:0.48
Consensus pattern (15 bp):
TGGTGTTGATGCCTG
Found at i:66050 original size:27 final size:28
Alignment explanation
Indices: 66009--66061 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
65999 TATTAATTTA
*
66009 TTAAATATATTTTATTATTAACTTAATT
1 TTAAATATATATTATTATTAACTTAATT
* *
66037 TTAAA-ATATATTATTTTTAATTTAA
1 TTAAATATATATTATTATTAACTTAA
66062 AATTTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (28 bp):
TTAAATATATATTATTATTAACTTAATT
Found at i:67269 original size:2 final size:2
Alignment explanation
Indices: 67262--67294 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
67252 CAATAAATAA
67262 AT AT AT AT AT AT AT AT AT AT AT AT -T AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
67295 GTTAATGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:67409 original size:23 final size:23
Alignment explanation
Indices: 67383--67436 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
67373 TTTAAACATA
*
67383 TAAACAAACACATTCGTGAACGT
1 TAAACAAACACATTCGTCAACGT
* * * *
67406 TAAACGAACATATTTGTCAATGT
1 TAAACAAACACATTCGTCAACGT
67429 TAAACAAA
1 TAAACAAA
67437 TCGAACATGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (23 bp):
TAAACAAACACATTCGTCAACGT
Found at i:67670 original size:21 final size:20
Alignment explanation
Indices: 67633--67674 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
67623 AATTATAAAA
*
67633 AAAATTTAGAGAAAAATATT
1 AAAATTTAAAGAAAAATATT
*
67653 AAAATTTAAAGATTAAATATT
1 AAAATTTAAAGA-AAAATATT
67674 A
1 A
67675 TTGTAATACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (20 bp):
AAAATTTAAAGAAAAATATT
Found at i:69266 original size:64 final size:64
Alignment explanation
Indices: 69195--69318 Score: 230
Period size: 64 Copynumber: 1.9 Consensus size: 64
69185 ATGAATTATT
*
69195 GAACTTGAGAAATGTCACTTTATTAAATATTATTTTTTAAGTTCGAATCAAACACAATTTCTTC
1 GAACTTGAGAAATGTCACTTCATTAAATATTATTTTTTAAGTTCGAATCAAACACAATTTCTTC
*
69259 GAACTTGAGAAATGTCACTTCATTAAATATTATTTTTTAAGTTCGAATCAAACACGATTT
1 GAACTTGAGAAATGTCACTTCATTAAATATTATTTTTTAAGTTCGAATCAAACACAATTT
69319 TTTTCGTGGG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (64 bp):
GAACTTGAGAAATGTCACTTCATTAAATATTATTTTTTAAGTTCGAATCAAACACAATTTCTTC
Found at i:69566 original size:28 final size:28
Alignment explanation
Indices: 69535--69592 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
69525 ATTTCCAAAT
*
69535 CGCAACGCGATTCTT-GACAATCGCAACG
1 CGCAACGCGATT-TTCCACAATCGCAACG
** *
69563 CGCATTGCGATTTTCCATAATCGCAACG
1 CGCAACGCGATTTTCCACAATCGCAACG
69591 CG
1 CG
69593 TATGAAATCG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (28 bp):
CGCAACGCGATTTTCCACAATCGCAACG
Found at i:69622 original size:20 final size:20
Alignment explanation
Indices: 69581--69783 Score: 215
Period size: 20 Copynumber: 10.4 Consensus size: 20
69571 GATTTTCCAT
69581 AATCGCAACGCGTAT--G-A
1 AATCGCAACGCGTATCCGTA
* *
69598 AATCGCAACGTG-ATCACATA
1 AATCGCAACGCGTATC-CGTA
69618 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
69638 AATCGCAACGTGTATCCGT-
1 AATCGCAACGCGTATCCGTA
69657 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
69677 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
69697 TATC-CAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
69716 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
69736 AATCGCAACG-ATAATCCGT-
1 AATCGCAACGCGT-ATCCGTA
* * *
69755 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
69775 AATCACAAC
1 AATCGCAAC
69784 ACTGAAATTT
Statistics
Matches: 156, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
16 2 0.01
17 11 0.07
19 50 0.32
20 90 0.58
21 3 0.02
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:69679 original size:59 final size:58
Alignment explanation
Indices: 69581--69764 Score: 207
Period size: 59 Copynumber: 3.2 Consensus size: 58
69571 GATTTTCCAT
* * *
69581 AATCGCAACGCGTAT--GAAATCGCAACGTGATCACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAATCGCAACGAGATC-CGTAAATCGCAACGCGTATCCGTA
* * *
69638 AATCGCAACGTGTATCCGTAATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAATCGCAACGAG-ATCCGTAAATCGCAACGCGTATCCGTA
* * *
69697 TATC-CAACGCGTATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACG-ATAATCCGT-
1 AATCGCAACGCGTATCCGT-AATCGCAACGAG-ATCCGTAAATCGCAACGCGT-ATCCGTA
69755 AATCGCAACG
1 AATCGCAACG
69765 AGAATCTGTA
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
57 14 0.13
58 17 0.16
59 74 0.69
60 3 0.03
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (58 bp):
AATCGCAACGCGTATCCGTAATCGCAACGAGATCCGTAAATCGCAACGCGTATCCGTA
Found at i:69767 original size:39 final size:40
Alignment explanation
Indices: 69581--69783 Score: 224
Period size: 39 Copynumber: 5.2 Consensus size: 40
69571 GATTTTCCAT
* *
69581 AATCGCAACGCGTAT--G-AAATCGCAACGTG-ATCACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATC-CGTA
* *
69618 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT-
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATCCGTA
* * *
69657 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATCCGTA
* *
69697 TATC-CAACGCGTATCCGTAAATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATCCGTA
* *
69736 AATCGCAACG-ATAATCCGT-AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGT-ATCCGTAAATCGCAACGAGAATCCGTA
*
69775 AATCACAAC
1 AATCGCAAC
69784 ACTGAAATTT
Statistics
Matches: 148, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
37 15 0.10
39 101 0.68
40 29 0.20
41 3 0.02
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.21
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGAGAATCCGTA
Found at i:70511 original size:24 final size:24
Alignment explanation
Indices: 70472--70518 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
70462 AAATTTGGTC
70472 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
70496 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
70519 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:70709 original size:12 final size:12
Alignment explanation
Indices: 70692--70716 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
70682 ATATAATCCT
70692 GAAGAAGAAAAA
1 GAAGAAGAAAAA
70704 GAAGAAGAAAAA
1 GAAGAAGAAAAA
70716 G
1 G
70717 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:73029 original size:33 final size:34
Alignment explanation
Indices: 72959--73124 Score: 192
Period size: 33 Copynumber: 4.8 Consensus size: 34
72949 GCATTTGACT
** * * * *
72959 ATCGCAACACGGAAATTACAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
*
72993 ATCGCAATGC-GAAATGAAAATCCCAACAAGAAA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
73026 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGGAAATGAAAATCGCAA--C--AA-GAAA
* *
73065 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
73098 ATCGCAATGCGGAAATGAAAATCGCAA
1 ATCGCAATGCGGAAATGAAAATCGCAA
73125 TGCGAAATGA
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
33 41 0.36
34 40 0.35
36 2 0.02
38 18 0.16
39 14 0.12
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.13
Consensus pattern (34 bp):
ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
Found at i:73061 original size:19 final size:19
Alignment explanation
Indices: 72992--73181 Score: 221
Period size: 19 Copynumber: 10.7 Consensus size: 19
72982 GCAACGAGAG
72992 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
73011 AATCCCAA--C--AA-GAA
1 AATCGCAATGCGAAATGAA
73025 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
73045 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
73064 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
73083 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
73097 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
73117 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
73136 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
73150 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
73169 AATCGCATTGCGA
1 AATCGCAATGCGA
73182 TTCTCTTGTT
Statistics
Matches: 147, Mismatches: 7, Indels: 34
0.78 0.04 0.18
Matches are distributed among these distances:
14 30 0.20
15 4 0.03
16 4 0.03
17 6 0.04
18 1 0.01
19 75 0.51
20 27 0.18
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:73085 original size:72 final size:72
Alignment explanation
Indices: 72992--73143 Score: 277
Period size: 72 Copynumber: 2.1 Consensus size: 72
72982 GCAACGAGAG
72992 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
73057 AAATGAA
66 AAATGAA
* * *
73064 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
73129 AAATGAA
66 AAATGAA
73136 AATCGCAA
1 AATCGCAA
73144 CGAGAGAATC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 77 1.00
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAA
Found at i:73113 original size:53 final size:52
Alignment explanation
Indices: 72978--73181 Score: 283
Period size: 53 Copynumber: 3.9 Consensus size: 52
72968 CGGAAATTAC
*
72978 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C--AA-GAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
73025 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
73083 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
*
73136 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCATTGCGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
73182 TTCTCTTGTT
Statistics
Matches: 141, Mismatches: 4, Indels: 19
0.86 0.02 0.12
Matches are distributed among these distances:
47 8 0.06
49 1 0.01
50 1 0.01
52 34 0.24
53 81 0.57
55 2 0.01
56 1 0.01
57 2 0.01
58 11 0.08
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:73173 original size:72 final size:70
Alignment explanation
Indices: 72992--73180 Score: 218
Period size: 72 Copynumber: 2.6 Consensus size: 70
72982 GCAACGAGAG
* * * *
72992 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAACGAGAAATGAAAAT-CGAA-ACGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
73057 AAATGAA
64 AAATGAA
* * *
73064 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAACGAGAAATGAAAATCGAAACGA-A-AATCGCAATGCGGAAATGAAAATCGCAATGCG
73129 AAATGAA
64 AAATGAA
* * *
73136 AATCGCAACGAGAGAATCG-CAATGCGAAATGAAAATCGCATTGCG
1 AATCGCAACGAGA-AAT-GAAAAT-CGAAACGAAAATCGCAATGCG
73181 ATTCTCTTGT
Statistics
Matches: 103, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
70 3 0.03
71 3 0.03
72 83 0.81
73 7 0.07
74 7 0.07
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (70 bp):
AATCGCAACGAGAAATGAAAATCGAAACGAAAATCGCAATGCGGAAATGAAAATCGCAATGCGAA
ATGAA
Found at i:73229 original size:53 final size:52
Alignment explanation
Indices: 73171--73277 Score: 178
Period size: 53 Copynumber: 2.0 Consensus size: 52
73161 GAAATGAAAA
* *
73171 TCGCATTGCGATTCTCTTGTTGCGATTTTCATTTCTGTATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTC-GCATTGCGATTTTCATT
*
73224 TCGCATTGCGATTCTCTCGTTGTGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
73276 TC
1 TC
73278 AACATAATGC
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
52 18 0.35
53 33 0.65
ACGTcount: A:0.13, C:0.21, G:0.17, T:0.50
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:73233 original size:19 final size:19
Alignment explanation
Indices: 73190--73277 Score: 105
Period size: 19 Copynumber: 4.8 Consensus size: 19
73180 GATTCTCTTG
*
73190 TTGCGATTTTCATTTCTGTA
1 TTGCGATTTTCATTTC-GCA
73210 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
73229 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
73243 TTGTGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
73262 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
73278 AACATAATGC
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
14 5 0.09
16 7 0.12
17 7 0.12
19 23 0.40
20 16 0.28
ACGTcount: A:0.14, C:0.19, G:0.16, T:0.51
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:73387 original size:14 final size:15
Alignment explanation
Indices: 73368--73405 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
73358 CATCAATTAC
73368 ACAAATCAA-CTTTT
1 ACAAATCAATCTTTT
73382 ACAAAT-AATCTTTT
1 ACAAATCAATCTTTT
73396 ACAAATCAAT
1 ACAAATCAAT
73406 TAAACAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 17 0.77
15 3 0.14
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (15 bp):
ACAAATCAATCTTTT
Found at i:73488 original size:12 final size:12
Alignment explanation
Indices: 73471--73506 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
73461 AACTTTTACA
73471 AATCAATTAAAC
1 AATCAATTAAAC
**
73483 AATCAAAAAAAC
1 AATCAATTAAAC
73495 AATCAATTAAAC
1 AATCAATTAAAC
73507 TATTGAATCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.17, G:0.00, T:0.19
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:75436 original size:33 final size:33
Alignment explanation
Indices: 75394--75486 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
75384 GCGAAACCAA
*
75394 AATCGCAACGCGAAATGAAAATTGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
** *
75427 AATCGCAACGCGAAACCAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
75460 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
75487 TGCGATTTTG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:75483 original size:52 final size:52
Alignment explanation
Indices: 75353--75491 Score: 156
Period size: 52 Copynumber: 2.7 Consensus size: 52
75343 CAACGCGAAT
* *
75353 GAGAATCGCAACGAGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGC
1 GAGAATCGCAACGAGAAACGAAAATCGCAACGCGAAACCAAAATCGCAACGA
* *** *
75405 GA-AAT-GAAAATTGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGA
1 GAGAATCGCAACGAGAAACGA-A-AATCGCAACGCGAAACCAAAATCGCAACGA
* * *
75457 GAGAATCGCAACGCGAAATGAAAATCGCAATGCGA
1 GAGAATCGCAACGAGAAACGAAAATCGCAACGCGA
75492 TTTTGGTTTC
Statistics
Matches: 69, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
50 8 0.12
51 4 0.06
52 45 0.65
53 4 0.06
54 8 0.12
ACGTcount: A:0.46, C:0.24, G:0.21, T:0.09
Consensus pattern (52 bp):
GAGAATCGCAACGAGAAACGAAAATCGCAACGCGAAACCAAAATCGCAACGA
Found at i:75484 original size:19 final size:19
Alignment explanation
Indices: 75336--75491 Score: 127
Period size: 19 Copynumber: 8.8 Consensus size: 19
75326 CACGAAACTT
*
75336 AAAATCGCAACGCG-AATG
1 AAAATCGCAACGCGAAACG
* * *
75354 AGAATCGCAACGAGAAACC
1 AAAATCGCAACGCGAAACG
*
75373 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACG
*
75392 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAACG
*
75411 AAAATTGCAA--CG--AC-
1 AAAATCGCAACGCGAAACG
* *
75425 AGAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACG
75444 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAACG
* *
75458 AGAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAACG
*
75477 AAAATCGCAATGCGA
1 AAAATCGCAACGCGA
75492 TTTTGGTTTC
Statistics
Matches: 110, Mismatches: 17, Indels: 21
0.74 0.11 0.14
Matches are distributed among these distances:
14 17 0.15
15 2 0.02
16 4 0.04
17 4 0.04
18 15 0.14
19 68 0.62
ACGTcount: A:0.46, C:0.24, G:0.21, T:0.09
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACG
Found at i:75522 original size:14 final size:14
Alignment explanation
Indices: 75503--75561 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
75493 TTTGGTTTCG
75503 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
75517 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
75534 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
75550 CGTTGCGATTTT
1 CGTTGCGATTTT
75562 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:75529 original size:33 final size:33
Alignment explanation
Indices: 75487--75580 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
75477 AAAATCGCAA
75487 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
*
75520 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
**
75553 TGCGATTTTCATTTCGCGTTGCGATTTT
1 TGCGATTTTGGTTTCGCGTTGCGATTTT
75581 AAGTTTCGTG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.07, C:0.17, G:0.28, T:0.48
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
Found at i:75541 original size:19 final size:18
Alignment explanation
Indices: 75487--75596 Score: 92
Period size: 19 Copynumber: 6.3 Consensus size: 18
75477 AAAATCGCAA
75487 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
75506 TGCGATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
75520 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
75539 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
75553 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
75572 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT--GTTTCGCGT
75592 TGCGA
1 TGCGA
75597 AAGTAAACTA
Statistics
Matches: 74, Mismatches: 6, Indels: 21
0.73 0.06 0.21
Matches are distributed among these distances:
14 23 0.31
15 1 0.01
16 2 0.03
17 2 0.03
18 2 0.03
19 32 0.43
20 12 0.16
ACGTcount: A:0.09, C:0.16, G:0.28, T:0.46
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:75853 original size:93 final size:93
Alignment explanation
Indices: 75694--76101 Score: 800
Period size: 93 Copynumber: 4.4 Consensus size: 93
75684 TCAGGGTATT
75694 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
75759 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
75787 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
75852 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
75880 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
75945 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
75973 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
76038 TACTA-TTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
76065 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
76102 AAGCAATCTA
Statistics
Matches: 314, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
92 58 0.18
93 256 0.82
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:77806 original size:20 final size:20
Alignment explanation
Indices: 77775--77838 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
77765 TTTTGGTTGA
77775 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
77795 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
77815 AAATGAAAATCGCAACGAGAG
1 -AATGAAAATCGCAACGAGAG
77836 AAT
1 AAT
77839 CGCAACGCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.47, C:0.16, G:0.25, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:77827 original size:21 final size:21
Alignment explanation
Indices: 77773--77837 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
77763 TCTTTTGGTT
77773 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
77794 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
77814 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
77835 GAA
1 GAA
77838 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:77841 original size:14 final size:14
Alignment explanation
Indices: 77822--77877 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
77812 GAGAAATGAA
77822 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
77836 AATCGCAACGCGAAATG
1 AATCGCAA--CGAGA-G
77853 AAATCGCAACGAGAG
1 -AATCGCAACGAGAG
77868 AATCGCAACG
1 AATCGCAACG
77878 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 18 0.50
15 1 0.03
16 8 0.22
17 1 0.03
18 8 0.22
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:77861 original size:32 final size:33
Alignment explanation
Indices: 77773--77894 Score: 156
Period size: 32 Copynumber: 3.5 Consensus size: 33
77763 TCTTTTGGTT
*
77773 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
77814 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
77847 GAAATG-AAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
77879 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
77895 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
32 32 0.41
33 16 0.20
35 7 0.09
38 1 0.01
40 1 0.01
41 22 0.28
ACGTcount: A:0.46, C:0.19, G:0.25, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:77930 original size:14 final size:14
Alignment explanation
Indices: 77911--77967 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
77901 TTTGGTTTCG
77911 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
77925 CGTTGCAATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
77944 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
77958 CGTTGCGATT
1 CGTTGCGATT
77968 TTCATTTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:77943 original size:33 final size:33
Alignment explanation
Indices: 77906--77974 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
77896 GCGATTTTGG
77906 TTTCGCGTTGCGATTCTCTCGTTGCAATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCAATTTTCA
*
77939 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCAATTTTCA
77972 TTT
1 TTT
77975 TTCTCGTTGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.10, C:0.23, G:0.19, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCAATTTTCA
Found at i:77980 original size:21 final size:21
Alignment explanation
Indices: 77955--78028 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
77945 GTTGCGATTC
77955 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
77976 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
77997 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
78018 TCTCGTTGCGA
1 TCTCGTTGCGA
78029 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:78149 original size:33 final size:33
Alignment explanation
Indices: 78107--78177 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
78097 AATACTAACT
78107 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* * *
78140 TGAAAATCGCAATGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
78173 TGAAA
1 TGAAA
78178 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.15, G:0.24, T:0.13
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:78579 original size:20 final size:20
Alignment explanation
Indices: 78554--78705 Score: 189
Period size: 20 Copynumber: 7.6 Consensus size: 20
78544 CTTTAAAAAT
78554 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
78574 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
78594 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
78614 CGCGTTGCGATTTATGGATA
1 CGCGTTGCGATTTACGGATA
* *
78634 CACGTTGCGATTTACTGATA
1 CGCGTTGCGATTTACGGATA
* *
78654 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
78674 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
78694 CGCGTTGCGATT
1 CGCGTTGCGATT
78706 ATGGAAAATC
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
20 113 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:78723 original size:21 final size:20
Alignment explanation
Indices: 78699--78746 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
78689 ATATTCGCGT
78699 TGCGATTATGGAAAATCGCAA
1 TGCGATTAT-GAAAATCGCAA
* *
78720 TGCGAATATGAAAATCGCAT
1 TGCGATTATGAAAATCGCAA
78740 TGCGATT
1 TGCGATT
78747 GTCAAGAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (20 bp):
TGCGATTATGAAAATCGCAA
Found at i:81782 original size:24 final size:24
Alignment explanation
Indices: 81752--81809 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
81742 CCAAGCTCAA
81752 AATCGAGCTCGAGTCTCGAGCTTC
1 AATCGAGCTCGAGTCTCGAGCTTC
81776 AATCGAGCTCGAGTCTCGAGCTTC
1 AATCGAGCTCGAGTCTCGAGCTTC
*
81800 AATTGAGCTC
1 AATCGAGCTC
81810 CTCAATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (24 bp):
AATCGAGCTCGAGTCTCGAGCTTC
Found at i:84964 original size:3 final size:3
Alignment explanation
Indices: 84953--85010 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
84943 TTTTTTTCCG
** *
84953 TTA TT- TTA TTA TTA TTA TTA TTA TCG TTA -TC TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
84998 TTA TTTA TTA TTA
1 TTA -TTA TTA TTA
85011 CATATTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 5 0.11
3 37 0.82
4 3 0.07
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:85016 original size:28 final size:28
Alignment explanation
Indices: 84958--85021 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
84948 TTCCGTTATT
* *
84958 TTATTATTATTATTATTATCGTTATCTTA
1 TTATT-TTATTATTATTATCATTATCATA
*
84987 TTATTTTATTATTATTTATTATTA-CATA
1 TTATTTTATTATTA-TTATCATTATCATA
*
85015 TTTTTTT
1 TTATTTT
85022 GCAGGCCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.67
Consensus pattern (28 bp):
TTATTTTATTATTATTATCATTATCATA
Found at i:87530 original size:22 final size:22
Alignment explanation
Indices: 87505--87548 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
87495 TCAAACGATG
*
87505 CAATGTGTGTTATTTTAAGTGA
1 CAATGTATGTTATTTTAAGTGA
* * *
87527 CAATTTATTTTATTTTATGTGA
1 CAATGTATGTTATTTTAAGTGA
87549 ATGTAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (22 bp):
CAATGTATGTTATTTTAAGTGA
Found at i:89098 original size:31 final size:32
Alignment explanation
Indices: 89062--89123 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
89052 ATTTTACATG
89062 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
89093 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
89124 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:92167 original size:20 final size:20
Alignment explanation
Indices: 92142--92179 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
92132 AAGATCAAAC
92142 CAAAGAAAAAAAACAAAGAG
1 CAAAGAAAAAAAACAAAGAG
* *
92162 CAAAGAGAAAAATCAAAG
1 CAAAGAAAAAAAACAAAG
92180 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.11, G:0.16, T:0.03
Consensus pattern (20 bp):
CAAAGAAAAAAAACAAAGAG
Found at i:92178 original size:13 final size:12
Alignment explanation
Indices: 92162--92209 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
92152 AAACAAAGAG
92162 CAAAGAGAAAAAT
1 CAAAGA-AAAAAT
*
92175 CAAAGCAAAAAT
1 CAAAGAAAAAAT
*
92187 CAAAG-AAAAAG
1 CAAAGAAAAAAT
92198 CAAAGAACAAAA
1 CAAAGAA-AAAA
92210 AGAGGATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 10 0.32
12 12 0.39
13 9 0.29
ACGTcount: A:0.71, C:0.12, G:0.12, T:0.04
Consensus pattern (12 bp):
CAAAGAAAAAAT
Found at i:92195 original size:11 final size:11
Alignment explanation
Indices: 92167--92204 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
92157 AAGAGCAAAG
92167 AGAAAAATCAA
1 AGAAAAATCAA
92178 AGCAAAAATCAA
1 AG-AAAAATCAA
*
92190 AGAAAAAGCAA
1 AGAAAAATCAA
92201 AGAA
1 AGAA
92205 CAAAAAGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.71, C:0.11, G:0.13, T:0.05
Consensus pattern (11 bp):
AGAAAAATCAA
Found at i:93419 original size:28 final size:28
Alignment explanation
Indices: 93388--93463 Score: 134
Period size: 28 Copynumber: 2.7 Consensus size: 28
93378 AGATTGAGAA
93388 ACATACATCAACTCATACATACATATAT
1 ACATACATCAACTCATACATACATATAT
*
93416 ACATACATCAACTCATGCATACATATAT
1 ACATACATCAACTCATACATACATATAT
*
93444 ACATACATCAACACATACAT
1 ACATACATCAACTCATACAT
93464 GCATGTTACA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.26
Consensus pattern (28 bp):
ACATACATCAACTCATACATACATATAT
Found at i:94069 original size:105 final size:103
Alignment explanation
Indices: 93877--94120 Score: 284
Period size: 105 Copynumber: 2.4 Consensus size: 103
93867 GACAACTTTC
* * *
93877 TCTTT-AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTGGAGATACAAATTTTGAATTTGA
1 TCTTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTGGAGATACAAATTTCGAATTTGA
*
93941 TTCACTAAAAACAAAATTAATCTCACCTT-AGATTGTTATT
66 TTCACTAAAAACAAAATTAATCTCA-CTTGAGATCG-T-TT
* * * *
93981 TCTTTCAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGT
1 TCTTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTGGAGATACAAATTTCGAATTTGA
* * *
94046 TTCAC-ATTAAACAAAGTTGATCTCACTTGAGATCGTTT
66 TTCACTA-AAAACAAAATTAATCTCACTTGAGATCGTTT
*
94084 TC--TCAAAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 TCTTTC-AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
94121 TCTAAAAACA
Statistics
Matches: 122, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
101 2 0.02
102 26 0.21
103 7 0.06
104 10 0.08
105 77 0.63
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.38
Consensus pattern (103 bp):
TCTTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTGGAGATACAAATTTCGAATTTGA
TTCACTAAAAACAAAATTAATCTCACTTGAGATCGTTT
Found at i:94111 original size:36 final size:34
Alignment explanation
Indices: 94066--94184 Score: 114
Period size: 36 Copynumber: 3.4 Consensus size: 34
94056 ACAAAGTTGA
*
94066 TCTCACTTGAGATCGTTTTCTCAAAAACAAACTTTG
1 TCTCACTTGAGA-C-TTTTCTCAAAAACAAATTTTG
* *
94102 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGAC-TTTTCTC-AAAAACAAATTTTG
* * * *
94138 TCTCATTTGAGACTATATCT-TAAAGCAAATTTTG
1 TCTCACTTGAGACT-TTTCTCAAAAACAAATTTTG
*
94172 TCTCGCTTGAGAC
1 TCTCACTTGAGAC
94185 ATCATTTTCT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
34 23 0.33
35 7 0.10
36 39 0.57
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (34 bp):
TCTCACTTGAGACTTTTCTCAAAAACAAATTTTG
Found at i:94172 original size:34 final size:36
Alignment explanation
Indices: 94084--94185 Score: 129
Period size: 36 Copynumber: 2.9 Consensus size: 36
94074 GAGATCGTTT
* *
94084 TCTC-AAAAACAAACTTTGTCTCGCTTGAGACAATT
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
** *
94119 TCTCTAAAAACAAATTTTGTCTCATTTGAGACTATA
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
*
94155 TCT-T-AAAGCAAATTTTGTCTCGCTTGAGACA
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
94186 TCATTTTCTC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
34 23 0.40
35 5 0.09
36 29 0.51
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (36 bp):
TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
Found at i:94321 original size:25 final size:26
Alignment explanation
Indices: 94293--94346 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
94283 ATTTTGTGAA
* *
94293 AAAAATCTTTGAGT-TGTTTCTTTTG
1 AAAAATCTTTGAGTCTATTTATTTTG
94318 AAAAATCTTTGAGTCTATTTATTTTG
1 AAAAATCTTTGAGTCTATTTATTTTG
94344 AAA
1 AAA
94347 CAAAGTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (26 bp):
AAAAATCTTTGAGTCTATTTATTTTG
Found at i:94483 original size:26 final size:26
Alignment explanation
Indices: 94433--94487 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
94423 ATTTTGTGAA
* *
94433 AAAAATCTTTGAGATTGTTTCTTTTG
1 AAAAATCTTTGAGATTATTTATTTTG
94459 AAAAATCTTTGAG-TCTATTTATTTTG
1 AAAAATCTTTGAGAT-TATTTATTTTG
94485 AAA
1 AAA
94488 CAAAGTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (26 bp):
AAAAATCTTTGAGATTATTTATTTTG
Found at i:94504 original size:141 final size:141
Alignment explanation
Indices: 94264--94650 Score: 627
Period size: 141 Copynumber: 2.7 Consensus size: 141
94254 TTAAAACGAT
94264 TTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAG-TTGTTTCTTTTGAAAAATCTTT
1 TTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTCTTTTGAAAAATCTTT
*
94328 GAGTCTATTTATTTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAGCTTTGAGT
66 GAGTCTATTTATTTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAGCCTTGAGT
94393 CTGAAACAAAG
131 CTGAAACAAAG
94404 TTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTCTTTTGAAAAATCTTT
1 TTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTCTTTTGAAAAATCTTT
* *
94469 GAGTCTATTTATTTTGAAACAAAGTTTTGTTTCTCTTGAGACAATTTCGTGAAAAATCCTTGAGT
66 GAGTCTATTTATTTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAGCCTTGAGT
94534 CTGAAACAAAG
131 CTGAAACAAAG
*
94545 TTTTGTCTTTCTTGAGACAATTTTGTGAAAAAAAAAAATCTTTGAGA-TGTTTCTTTTGAAAAAA
1 TTTTGTCTCTCTTGAGACAATTTTGTG----AAAAAAATCTTTGAGATTGTTTCTTTTG-AAAAA
* * * *
94609 TCTTTGAG-CTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTT
61 TCTTTGAGTC-TATTTATTTTGAAACAAAGTTTTGTCTCTCTT
94651 AAGGTAATTT
Statistics
Matches: 231, Mismatches: 9, Indels: 9
0.93 0.04 0.04
Matches are distributed among these distances:
140 42 0.18
141 121 0.52
144 12 0.05
145 56 0.24
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.43
Consensus pattern (141 bp):
TTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTCTTTTGAAAAATCTTT
GAGTCTATTTATTTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAGCCTTGAGT
CTGAAACAAAG
Found at i:94606 original size:26 final size:27
Alignment explanation
Indices: 94577--94632 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
94567 TTGTGAAAAA
*
94577 AAAAAATCTTTGAG-ATGTTTCTTTTG
1 AAAAAATCTTTGAGCATGTTTCTTTGG
*
94603 AAAAAATCTTTGAGCTTGTTTCTTTGG
1 AAAAAATCTTTGAGCATGTTTCTTTGG
94630 AAA
1 AAA
94633 CAAAATTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (27 bp):
AAAAAATCTTTGAGCATGTTTCTTTGG
Found at i:94777 original size:68 final size:68
Alignment explanation
Indices: 94603--94869 Score: 488
Period size: 68 Copynumber: 4.0 Consensus size: 68
94593 GTTTCTTTTG
* *
94603 AAAAAATCTTTGAGCTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGGTAATTTCTTTTG-
1 AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGA
94667 -A-
66 AAC
94668 AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGA
1 AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGA
94733 AAC
66 AAC
94736 AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGA
1 AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGA
94801 AAC
66 AAC
94804 -AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGA
1 AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGA
94868 AA
66 AA
94870 AAATCTTTGA
Statistics
Matches: 197, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
65 62 0.31
67 67 0.34
68 68 0.35
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (68 bp):
AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGA
AAC
Found at i:94845 original size:67 final size:65
Alignment explanation
Indices: 94594--94889 Score: 497
Period size: 67 Copynumber: 4.5 Consensus size: 65
94584 CTTTGAGATG
* *
94594 TTTCTTTTG-AAAAAATCTTTGAGCTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGGTAA
1 TTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
94658 TTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
1 TTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
94723 TTTCTTTTGAAACAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGA
1 TTTCTTTTG--A-AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGA
94788 TAA
63 TAA
94791 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTG-AA-AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
94856 AA
64 AA
* *
94858 TTTCTTTTG-AAAAAATCTTTGAATCTGTTTCT
1 TTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCT
94890 CTTAAAATGA
Statistics
Matches: 223, Mismatches: 4, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
64 29 0.13
65 63 0.28
66 1 0.00
67 66 0.30
68 64 0.29
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (65 bp):
TTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
Found at i:94868 original size:135 final size:133
Alignment explanation
Indices: 94603--94869 Score: 498
Period size: 135 Copynumber: 2.0 Consensus size: 133
94593 GTTTCTTTTG
*
94603 AAAAAATCTTTGAGCTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGGTAATTTCTTTTGA
1 AAAAAATCTTTGAGCTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGA
94668 AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGA
66 AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGA
94733 AAC
131 AAC
*
94736 AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGA
1 AAAAAATCTTTGAGCTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTG-
94801 AACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTT
65 AA-AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTT
94866 GAAA
129 GAAA
94870 AAATCTTTGA
Statistics
Matches: 130, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
133 62 0.48
134 2 0.02
135 66 0.51
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (133 bp):
AAAAAATCTTTGAGCTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGA
AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGA
AAC
Found at i:95169 original size:119 final size:118
Alignment explanation
Indices: 94988--95210 Score: 256
Period size: 119 Copynumber: 1.9 Consensus size: 118
94978 CTTAACAAAA
* * * *
94988 TCATCTTTGAGTCTATTTCTTTAAAAACAAATGTTGTCTCTCTTGAGACAGTTTCTAATGAAAAC
1 TCATCTTTGAGTATATTTCTTTAAAAACAAATGTTGTATCTCTTAAGACAATTTCTAATGAAAA-
*
95053 TAA-CTTTTGAGATTGTTTCATTTGAAAC-AAATTTGGTCTCACTTAAGATGTGAT
65 -AATC-TGTGAGATTGTTTCATTTGAAACAAAATTTGGTCTCACTTAAGATGTGAT
* ** **
95107 TCATCTTTGAGTATGTTTCTTTTGAAACAAAAT-TT-TATCTCTTAAAGACAATTTCTTTTGAAA
1 TCATCTTTGAGTATATTTCTTTAAAAAC-AAATGTTGTATCTCTT-AAGACAATTTCTAATGAAA
* * *
95170 AAATCTGTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTC
64 AAATCTGTGAGATTGTTTCATTTGAAACAAAATTTGGTCTC
95211 TCGAGACAAC
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
117 22 0.25
118 19 0.22
119 42 0.48
120 4 0.05
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (118 bp):
TCATCTTTGAGTATATTTCTTTAAAAACAAATGTTGTATCTCTTAAGACAATTTCTAATGAAAAA
ATCTGTGAGATTGTTTCATTTGAAACAAAATTTGGTCTCACTTAAGATGTGAT
Found at i:95420 original size:15 final size:15
Alignment explanation
Indices: 95399--95434 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
95389 GTTACAATTA
95399 AAAACATTTTCTCTT
1 AAAACATTTTCTCTT
*
95414 GAAACATTTTCTCTT
1 AAAACATTTTCTCTT
95429 AAAACA
1 AAAACA
95435 AGATCATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.39, C:0.19, G:0.03, T:0.39
Consensus pattern (15 bp):
AAAACATTTTCTCTT
Found at i:96281 original size:130 final size:129
Alignment explanation
Indices: 95920--96371 Score: 681
Period size: 130 Copynumber: 3.5 Consensus size: 129
95910 CCAGCCGTCC
* * * * * *
95920 TCATCATGTAGGAACCGTGTCATCCCCAGATCAGAGCTCTTCATCACGTAAGGAGCCGTGTCAAC
1 TCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGT-AGGAGCCGTGTCAAC
95985 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
65 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
** *
96050 TCATCACGTATGAGCCGTGTCATCAGCTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
1 TCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
*
96115 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTCATCACCTTTAGATGGCCAGAACTCT
66 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
*
96179 TCATCACGTATGAGCCGTGTCATTCCCCAGATCAGATCTCCTCATCACGTAGGAGCCGTGTCAAC
1 TCATCACGTATGAGCCGTGTCA-TCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAAC
*
96244 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTC
65 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTC
96309 T
129 T
* ** * * * * *
96310 TCATCATGTATGAGTAGTGTCATCCTTC-GACCAGATGTCTTCATCACGTAGGAACCATGTCA
1 TCATCACGTATGAGCCGTGTCATCC-CCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCA
96372 CCCTTAGACG
Statistics
Matches: 294, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
129 101 0.34
130 165 0.56
131 28 0.10
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (129 bp):
TCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
Found at i:96582 original size:3 final size:3
Alignment explanation
Indices: 96571--96628 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
96561 TTTTTTTCCG
** *
96571 TTA TT- TTA TTA TTA TTA TTA TTA TCG TTA -TC TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
96616 TTA TTTA TTA TTA
1 TTA -TTA TTA TTA
96629 CATATTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 5 0.11
3 37 0.82
4 3 0.07
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:96634 original size:28 final size:28
Alignment explanation
Indices: 96576--96639 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
96566 TTCCGTTATT
* *
96576 TTATTATTATTATTATTATCGTTATCTTA
1 TTATT-TTATTATTATTATCATTATCATA
*
96605 TTATTTTATTATTATTTATTATTA-CATA
1 TTATTTTATTATTA-TTATCATTATCATA
*
96633 TTTTTTT
1 TTATTTT
96640 TGCAGGCCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.67
Consensus pattern (28 bp):
TTATTTTATTATTATTATCATTATCATA
Found at i:100081 original size:6 final size:6
Alignment explanation
Indices: 100070--100311 Score: 484
Period size: 6 Copynumber: 40.3 Consensus size: 6
100060 AAAGGATCTC
100070 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
100118 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
100166 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
100214 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
100262 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
100310 TA
1 TA
100312 CGTGTACGTG
Statistics
Matches: 236, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 236 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:100317 original size:6 final size:6
Alignment explanation
Indices: 100308--100431 Score: 239
Period size: 6 Copynumber: 20.7 Consensus size: 6
100298 TATATGTATA
*
100308 TGTACG TGTACG TGTACG TGTACG TATACG TGTACG TGTACG TGTACG
1 TGTACG TGTACG TGTACG TGTACG TGTACG TGTACG TGTACG TGTACG
100356 TGTACG TGTACG TGTACG TGTACG TGTACG TGTACG TGTACG TGTACG
1 TGTACG TGTACG TGTACG TGTACG TGTACG TGTACG TGTACG TGTACG
100404 TGTACG TGTACG TGTACG TGTACG TGTA
1 TGTACG TGTACG TGTACG TGTACG TGTA
100432 TATGTATATG
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 116 1.00
ACGTcount: A:0.18, C:0.16, G:0.32, T:0.34
Consensus pattern (6 bp):
TGTACG
Found at i:100437 original size:6 final size:6
Alignment explanation
Indices: 100428--100460 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
100418 TACGTGTACG
100428 TGTATA TGTATA TGTATA TGTATA TGTATA TGT
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGT
100461 TGATCTCTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (6 bp):
TGTATA
Found at i:102212 original size:168 final size:168
Alignment explanation
Indices: 101934--102244 Score: 489
Period size: 168 Copynumber: 1.9 Consensus size: 168
101924 ATCATAACTT
* * *
101934 CCCTTCCAATGAAACACACATAGCTCGTCATGTTGATATGGAAAACATATTTGTTTGTCGTCGGT
1 CCCTTCCAATGAAACACACATAGCTCGTCAGGTTGATATGGAAAACAGACTTGTTTGTCGTCGGT
* * * * * * *
101999 GCCGTCAAAGGTTTTCAGCCTTGCCCACAGCTGAGACCGTTATTTGTCCGCTTTGCCGTATGGTT
66 GCCGTCAAAAGTTTTCAGCCTCGACCACAGCCGAGACCGTTATTTGCCCGCGTTGCCGTACGGTT
*
102064 AACCCCAATCGGCCGCTAAGGAATACCCCACCCCGTGC
131 AACCCCAACCGGCCGCTAAGGAATACCCCACCCCGTGC
102102 CCCTTCCAATGAAACACACATAGCTCGTCAGGTTGATATGGAAAACAGACTTGTTTGTCGT-GAG
1 CCCTTCCAATGAAACACACATAGCTCGTCAGGTTGATATGGAAAACAGACTTGTTTGTCGTCG-G
* *
102166 TGCCGTCAAAAGTTTTCAGCCTCGACCACAGCCGAGACCGTTATTTGCCCGCGTTGCCTTGCGGT
65 TGCCGTCAAAAGTTTTCAGCCTCGACCACAGCCGAGACCGTTATTTGCCCGCGTTGCCGTACGGT
102231 TAACCCCAACCGGC
130 TAACCCCAACCGGC
102245 GTCCTGTCCG
Statistics
Matches: 129, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
167 1 0.01
168 128 0.99
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (168 bp):
CCCTTCCAATGAAACACACATAGCTCGTCAGGTTGATATGGAAAACAGACTTGTTTGTCGTCGGT
GCCGTCAAAAGTTTTCAGCCTCGACCACAGCCGAGACCGTTATTTGCCCGCGTTGCCGTACGGTT
AACCCCAACCGGCCGCTAAGGAATACCCCACCCCGTGC
Found at i:109231 original size:125 final size:125
Alignment explanation
Indices: 109009--109262 Score: 402
Period size: 125 Copynumber: 2.0 Consensus size: 125
108999 TCGGAGCTCA
* * *
109009 CACACCCCTCTAATATTCCGATGATTAGGCCCCTGGAATCTCTGCATCAGACACCACACCCTTGA
1 CACACCCCTCTAATATTCCGATGATGAGGCCCCTAGAATCTCTGCATCAGACACCACACCCTCGA
*
109074 CTAACCCACCCCTTGCAAGTGTCAAGCCTTGGCCCTAGTTAGTCAGCTTAAAGTGCCTTG
66 CTAACCCACCCCTTGCAAGTGTCAAGCCTTGGCCCTAGTTAGTCAGCTTAAAATGCCTTG
* * *
109134 CACACCCCTCTAGTCTTCCGATGATGAGGGCCCC-AGAATCTCTGCATCGGACACCACACCCTCG
1 CACACCCCTCTAATATTCCGATGATGA-GGCCCCTAGAATCTCTGCATCAGACACCACACCCTCG
** *
109198 ACTAACCCACCCCTTGTGAGTGTCGAGCCTTGGCCCTAGTTAGTCAGCTTAAAATGCCTTG
65 ACTAACCCACCCCTTGCAAGTGTCAAGCCTTGGCCCTAGTTAGTCAGCTTAAAATGCCTTG
109259 CACA
1 CACA
109263 TTCCCTAAGG
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
125 112 0.95
126 6 0.05
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (125 bp):
CACACCCCTCTAATATTCCGATGATGAGGCCCCTAGAATCTCTGCATCAGACACCACACCCTCGA
CTAACCCACCCCTTGCAAGTGTCAAGCCTTGGCCCTAGTTAGTCAGCTTAAAATGCCTTG
Found at i:116604 original size:24 final size:24
Alignment explanation
Indices: 116568--116654 Score: 83
Period size: 24 Copynumber: 3.7 Consensus size: 24
116558 TATAATATCA
116568 TAAATA-C-ATTTTAATGTTCGAT
1 TAAATAGCTATTTTAATGTTCGAT
**
116590 TAAATAGCTATTTTAAT-TTATAT
1 TAAATAGCTATTTTAATGTTCGAT
** *
116613 TATTTTAG-AATATTTAATGTTCGAT
1 TA-AATAGCTAT-TTTAATGTTCGAT
116638 TAAATAGCTATTTTAAT
1 TAAATAGCTATTTTAAT
116655 TTATATTCTT
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
22 6 0.12
23 9 0.18
24 26 0.53
25 8 0.16
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.49
Consensus pattern (24 bp):
TAAATAGCTATTTTAATGTTCGAT
Found at i:116648 original size:48 final size:48
Alignment explanation
Indices: 116577--116675 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
116567 ATAAATACAT
116577 TTTAATGTTCGATTAAATAGCTATTTTAATTTATATTATTTTAGAATA
1 TTTAATGTTCGATTAAATAGCTATTTTAATTTATATTATTTTAGAATA
*
116625 TTTAATGTTCGATTAAATAGCTATTTTAATTTATATTCTTTTAGAATA
1 TTTAATGTTCGATTAAATAGCTATTTTAATTTATATTATTTTAGAATA
116673 TTT
1 TTT
116676 TGATATTCGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (48 bp):
TTTAATGTTCGATTAAATAGCTATTTTAATTTATATTATTTTAGAATA
Found at i:119353 original size:16 final size:16
Alignment explanation
Indices: 119332--119364 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
119322 GTCACTAACA
119332 CAACATCTACCATACT
1 CAACATCTACCATACT
119348 CAACATCTACCATACT
1 CAACATCTACCATACT
119364 C
1 C
119365 GAGAGCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.24
Consensus pattern (16 bp):
CAACATCTACCATACT
Found at i:126845 original size:32 final size:31
Alignment explanation
Indices: 126764--126859 Score: 77
Period size: 32 Copynumber: 3.0 Consensus size: 31
126754 TCAATATCAA
* *
126764 GTCGGATCAATACTAGATTGGTTGATTTTTGG
1 GTCGGATCAATAC-GGATTGGTTGATTTTCGG
* * *
126796 GTCGGGTTAATACCGGATTTGTTAGA-TTTCGG
1 GTCGGATCAATA-CGGATTGGTT-GATTTTCGG
** *
126828 GTCGGATCAATATCGGATCAGTCGATTTTCGG
1 GTCGGATCAATA-CGGATTGGTTGATTTTCGG
126860 TATAGGACGA
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
31 2 0.04
32 45 0.90
33 3 0.06
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (31 bp):
GTCGGATCAATACGGATTGGTTGATTTTCGG
Found at i:127504 original size:17 final size:16
Alignment explanation
Indices: 127482--127520 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
127472 AATTTATCAA
*
127482 TTTTATTCAAATTAAT
1 TTTTATTCAAAATAAT
*
127498 TTATTATTGAAAATAAT
1 TT-TTATTCAAAATAAT
127515 TTTTAT
1 TTTTAT
127521 CGTTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (16 bp):
TTTTATTCAAAATAAT
Found at i:127635 original size:16 final size:16
Alignment explanation
Indices: 127614--127703 Score: 81
Period size: 16 Copynumber: 5.6 Consensus size: 16
127604 GTTAAAATCT
*
127614 GGTTCGGGTTTCTTTC
1 GGTTCGGGTTACTTTC
*
127630 GGTTCGGGTTAATTTC
1 GGTTCGGGTTACTTTC
** ** *
127646 AATTCAAGTTGCTTTC
1 GGTTCGGGTTACTTTC
*
127662 GGTTCGGGTTACTTTT
1 GGTTCGGGTTACTTTC
* *
127678 GGTTCGGTTTAATTTC
1 GGTTCGGGTTACTTTC
*
127694 GGTTCTGGTT
1 GGTTCGGGTT
127704 GATTTCAATT
Statistics
Matches: 55, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 55 1.00
ACGTcount: A:0.10, C:0.14, G:0.28, T:0.48
Consensus pattern (16 bp):
GGTTCGGGTTACTTTC
Found at i:154370 original size:89 final size:91
Alignment explanation
Indices: 154228--154401 Score: 289
Period size: 89 Copynumber: 1.9 Consensus size: 91
154218 CAAAACTGCG
* * *
154228 TCCGTAGGGTTTACCCTAATCACATAGCAAAAGGAAGCCAACCTAAGGATATTCCTTGGGGCTTA
1 TCCGTAGGGTTTACCCTAAGCACACAGCAAAAGGAAACCAACCTAAGGATATTCCTTGGGGCTTA
154293 TGGGCCTACCCAAGAGTATCCTTAGA
66 TGGGCCTACCCAAGAGTATCCTTAGA
154319 TCCGTAGGG-TTACCCTAAGCACACAGCAAAA-GAAACCAACCTAAGGATATTCCTTGGGGCTTA
1 TCCGTAGGGTTTACCCTAAGCACACAGCAAAAGGAAACCAACCTAAGGATATTCCTTGGGGCTTA
* *
154382 TGGGCTTACCCAAGGGTATC
66 TGGGCCTACCCAAGAGTATC
154402 TGTAACATTC
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
89 49 0.63
90 20 0.26
91 9 0.12
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (91 bp):
TCCGTAGGGTTTACCCTAAGCACACAGCAAAAGGAAACCAACCTAAGGATATTCCTTGGGGCTTA
TGGGCCTACCCAAGAGTATCCTTAGA
Found at i:155144 original size:21 final size:21
Alignment explanation
Indices: 155102--155144 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
155092 TTTTTGGGCT
* *
155102 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
155123 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
155144 A
1 A
155145 ACGAACCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:155217 original size:23 final size:22
Alignment explanation
Indices: 155173--155217 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
155163 AATCTCATAG
*
155173 GGGAACCGATTCCCCCACAGGA
1 GGGAACCGATTCCCCCAAAGGA
155195 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATTCCCCC-AAAGGA
155218 AAATTGTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.29, C:0.33, G:0.27, T:0.11
Consensus pattern (22 bp):
GGGAACCGATTCCCCCAAAGGA
Found at i:156673 original size:103 final size:103
Alignment explanation
Indices: 156489--156699 Score: 368
Period size: 103 Copynumber: 2.0 Consensus size: 103
156479 GTCGATGGTC
*
156489 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
* *
156554 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
156592 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
* *
156657 TTGATCCCTAGTATATGTATATGATTCTTAAGTAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
156695 TATGT
1 TATGT
156700 ATTCCTTATG
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:156760 original size:23 final size:23
Alignment explanation
Indices: 156730--156790 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
156720 TATGGTACTA
156730 CGGTGCAATTCTACGCGGCACTC
1 CGGTGCAATTCTACGCGGCACTC
* *
156753 CGGTGCAATTCTACGTGGCACTT
1 CGGTGCAATTCTACGCGGCACTC
* *
156776 CGCTGCAATTATACG
1 CGGTGCAATTCTACG
156791 AGCTGTGGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.30, G:0.25, T:0.26
Consensus pattern (23 bp):
CGGTGCAATTCTACGCGGCACTC
Found at i:159052 original size:20 final size:20
Alignment explanation
Indices: 159010--159049 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
159000 ATTTACGGCA
159010 GTCAACGCAGTCAACGGTCG
1 GTCAACGCAGTCAACGGTCG
159030 GTCAACG-AGTCAACGGTCG
1 GTCAACGCAGTCAACGGTCG
159049 G
1 G
159050 GTCGGGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.25, C:0.28, G:0.33, T:0.15
Consensus pattern (20 bp):
GTCAACGCAGTCAACGGTCG
Found at i:161236 original size:2 final size:2
Alignment explanation
Indices: 161229--161255 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
161219 ATATTAAACT
161229 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 T
161256 TATTTTATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:161334 original size:2 final size:2
Alignment explanation
Indices: 161327--161355 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
161317 TTCGAATTTA
161327 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
161356 AAGTCTGAAA
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:170566 original size:66 final size:65
Alignment explanation
Indices: 170461--170583 Score: 183
Period size: 66 Copynumber: 1.9 Consensus size: 65
170451 AGTATTGATG
* * *
170461 TAAAATTTTGCACTATTGTAGATCCATATTGTTTGCCTTTTATATTTGGTCTCCACTCCTAGAAA
1 TAAAACTTTGCACTATTGTAGATCCATATTGTTTGCCTTTCATATTCGGTCTCCACTCCTAGAAA
* * *
170526 TAAAACTTTGTACTATTTTTAGATGCATATTGTTTGCCTTTCATATTCGGTCTCCACT
1 TAAAACTTTGCACTA-TTGTAGATCCATATTGTTTGCCTTTCATATTCGGTCTCCACT
170584 TAGATGAGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
65 13 0.25
66 38 0.75
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (65 bp):
TAAAACTTTGCACTATTGTAGATCCATATTGTTTGCCTTTCATATTCGGTCTCCACTCCTAGAAA
Found at i:172608 original size:117 final size:117
Alignment explanation
Indices: 172391--172610 Score: 332
Period size: 117 Copynumber: 1.9 Consensus size: 117
172381 AACACTATTT
* * * * * *
172391 CCATCCAATCACTCCGATTACTAGAATTTTTATGTTTTCCAGAACCATACACCCACCTGCACACC
1 CCATCCAATCACTCCGATTACCAAAATGTGTAGGTTTCCCAGAACCATACACCCACCTGCACACC
* ** *
172456 AGTAAGGACTTACCCTGAGCACAAAGCCGATGAGCCTGCGGTAATAACTTCC
66 AATAAGGACTTACCCTGAGCACAAAGCAAAGGAGCCTGCGGTAATAACTTCC
172508 CCATCCAATCACTCCGATTACCAAAATGTGTAGGTTTCCCAGAACCATACACCCACCTGCACACC
1 CCATCCAATCACTCCGATTACCAAAATGTGTAGGTTTCCCAGAACCATACACCCACCTGCACACC
* *
172573 AATAAGGTCTTACCCTGAGCACACAGCAAAGGAGCCTG
66 AATAAGGACTTACCCTGAGCACAAAGCAAAGGAGCCTG
172611 AAATACTTCC
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
117 91 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (117 bp):
CCATCCAATCACTCCGATTACCAAAATGTGTAGGTTTCCCAGAACCATACACCCACCTGCACACC
AATAAGGACTTACCCTGAGCACAAAGCAAAGGAGCCTGCGGTAATAACTTCC
Found at i:173678 original size:29 final size:28
Alignment explanation
Indices: 173581--173684 Score: 138
Period size: 28 Copynumber: 3.7 Consensus size: 28
173571 AAATTTAAAT
* * *
173581 ATAATTACGAAACTATCACCTTTTAAAA
1 ATAATTACGAAAATATCACATTTTCAAA
173609 ATAATTACGAAAATATCACCATTTTC-AA
1 ATAATTACGAAAATATCA-CATTTTCAAA
* *
173637 ATAATTACAAAAATAGCACAATTTTCAAA
1 ATAATTACGAAAATATCAC-ATTTTCAAA
173666 ATAATTACGAAAATATCAC
1 ATAATTACGAAAATATCAC
173685 TCGGTCAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.02
28 41 0.62
29 24 0.36
ACGTcount: A:0.50, C:0.16, G:0.04, T:0.30
Consensus pattern (28 bp):
ATAATTACGAAAATATCACATTTTCAAA
Found at i:178918 original size:109 final size:109
Alignment explanation
Indices: 178727--178944 Score: 427
Period size: 109 Copynumber: 2.0 Consensus size: 109
178717 CTGAACCCCA
*
178727 AAATTCTCTGCATATCCTGCAACTCACCAACATCTACCCCTGCCGAAAATAGATCACACTTTTAA
1 AAATTCTCTGCATATCCTGCAACTCACCAACATCTACCCCTGCCGAAAATAGATCACACTTTGAA
178792 GGGTTCAACCAAAGTCCCGACATCTCAAAAAACCTCCCTAAAAC
66 GGGTTCAACCAAAGTCCCGACATCTCAAAAAACCTCCCTAAAAC
178836 AAATTCTCTGCATATCCTGCAACTCACCAACATCTACCCCTGCCGAAAATAGATCACACTTTGAA
1 AAATTCTCTGCATATCCTGCAACTCACCAACATCTACCCCTGCCGAAAATAGATCACACTTTGAA
178901 GGGTTCAACCAAAGTCCCGACATCTCAAAAAACCTCCCTAAAAC
66 GGGTTCAACCAAAGTCCCGACATCTCAAAAAACCTCCCTAAAAC
178945 CGACTGAATA
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 108 1.00
ACGTcount: A:0.36, C:0.33, G:0.10, T:0.22
Consensus pattern (109 bp):
AAATTCTCTGCATATCCTGCAACTCACCAACATCTACCCCTGCCGAAAATAGATCACACTTTGAA
GGGTTCAACCAAAGTCCCGACATCTCAAAAAACCTCCCTAAAAC
Done.