Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 98 of 211
Found at i:30775611 original size:128 final size:131
Alignment explanation
Indices: 30775470--30775713 Score: 397
Period size: 129 Copynumber: 1.9 Consensus size: 131
30775460 TTGCTGTGTG
* *
30775470 TGTGTGTTTTTTTTT-AGTTGGGGAAGTGGGACTTGGGGGAGGAGGATGATGAACGATGGAAAGA
1 TGTGTGTTTTTTTTTCAGTTGGAGAAGTGGAACTTGGGGGAGGAGGATGATGAA-GATGGAAAGA
* *
30775534 AACAAT-G-GA-GATGATGATGATGATTTTAAAATGATTTTAATAATTTTAACCACCTGCATTTT
65 AACAATGGAGATGATGATGATGATGATTTTAAAATAAATTTAATAATTTTAACCACCTGCATTTT
30775596 GT
130 GT
*
30775598 TGTGTTTTTTTTTTTCAGTTGGAGAAGTGGAACTTGGGGGAGGAGGATGATGAAGATGGAAAGAA
1 TGTGTGTTTTTTTTTCAGTTGGAGAAGTGGAACTTGGGGGAGGAGGATGATGAAGATGGAAAGAA
*
30775663 ACAATGGAGATGATGATGATGATGATTTTAAAATAAATTTAATGATTTTAA
66 ACAATGGAGATGATGATGATGATGATTTTAAAATAAATTTAATAATTTTAA
30775714 AATAATTTTT
Statistics
Matches: 106, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
128 30 0.28
129 37 0.35
130 2 0.02
131 37 0.35
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.35
Consensus pattern (131 bp):
TGTGTGTTTTTTTTTCAGTTGGAGAAGTGGAACTTGGGGGAGGAGGATGATGAAGATGGAAAGAA
ACAATGGAGATGATGATGATGATGATTTTAAAATAAATTTAATAATTTTAACCACCTGCATTTTG
T
Found at i:30775721 original size:11 final size:11
Alignment explanation
Indices: 30775687--30775742 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
30775677 GATGATGATG
30775687 ATTTTAAAATA
1 ATTTTAAAATA
* *
30775698 AATTT--AATG
1 ATTTTAAAATA
30775707 ATTTTAAAATA
1 ATTTTAAAATA
*
30775718 ATTTT-TAATA
1 ATTTTAAAATA
*
30775728 ATTTTAAAATC
1 ATTTTAAAATA
30775739 ATTT
1 ATTT
30775743 GTGATGTTGA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
9 7 0.20
10 9 0.26
11 19 0.54
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (11 bp):
ATTTTAAAATA
Found at i:30775726 original size:21 final size:21
Alignment explanation
Indices: 30775684--30775742 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
30775674 GATGATGATG
*
30775684 ATGATTTTAAAATAA-ATTTA
1 ATGATTTTAAAATAATTTTTA
30775704 ATGATTTTAAAATAATTTTTA
1 ATGATTTTAAAATAATTTTTA
* *
30775725 ATAATTTTAAAATCATTT
1 ATGATTTTAAAATAATTT
30775743 GTGATGTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 15 0.43
21 20 0.57
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (21 bp):
ATGATTTTAAAATAATTTTTA
Found at i:30778169 original size:31 final size:31
Alignment explanation
Indices: 30778111--30778169 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
30778101 GGTGCAATTA
* * *
30778111 TATACATTAAACTTTAATTGTGGTTCAAATG
1 TATACATAAAACTTTAATTGAGATTCAAATG
*
30778142 TATACATAAAATTTTAATTGAGATTCAA
1 TATACATAAAACTTTAATTGAGATTCAA
30778170 CAATACACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (31 bp):
TATACATAAAACTTTAATTGAGATTCAAATG
Found at i:30791796 original size:40 final size:40
Alignment explanation
Indices: 30791720--30791834 Score: 128
Period size: 40 Copynumber: 2.9 Consensus size: 40
30791710 GTTTGGATAC
* **
30791720 AAAACGCCGCTAAAAATCAAGCATTA-CTGGATCTTTTAAA
1 AAAACGCCGCTAAAAATCGAGCATTAGC-GGCGCTTTTAAA
* * ***
30791760 AAAACGCCGCTAAAGATCGAGTATTAGCGGCGCTTTTTGG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTAAA
30791800 AAAACGCCGCTAAAAAT-GAGCATTAGCGGCG-TTTT
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTT
30791835 CCAAAAAGTG
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
38 4 0.06
39 13 0.20
40 46 0.72
41 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTAAA
Found at i:30792070 original size:40 final size:40
Alignment explanation
Indices: 30791886--30792123 Score: 219
Period size: 41 Copynumber: 5.8 Consensus size: 40
30791876 TTTTGAGTTT
* * **
30791886 TCGGGGCTTTAGTGGCGTTTTTCAAAAAGCATCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGC
* *
30791927 AT-GGGGCATTAGCGGCGTTTTTGAAAAAGCGCTGCTAATGC
1 -TCGGGGCTTTAGCGGCGTTTTTG-AAAAGCGCCGCTAATGC
* *
30791968 TCGGGGCTTTAGCGGCGTGTTTGGAAAAGTGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGT-TTTTGAAAAGCGCCGCTAATGC
* * ** ***
30792009 TCGAGGCTTTAGCTGTTTTTTTGAAAAGCATTGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGC
* *
30792049 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCACTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGC
****
30792090 TC-TATTTTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 TCGGGGCTTTAGCGGCGTTTTTG-AAAAGCGCCGC
30792124 AAAAAATATT
Statistics
Matches: 159, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
40 63 0.40
41 91 0.57
42 5 0.03
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.32
Consensus pattern (40 bp):
TCGGGGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGC
Found at i:30792117 original size:81 final size:82
Alignment explanation
Indices: 30791886--30792118 Score: 231
Period size: 81 Copynumber: 2.9 Consensus size: 82
30791876 TTTTGAGTTT
* * ** ** * * *
30791886 TCGGGGCTTTAGTGGCGTTTTTCAAAAAGCATCGCTAATGCAT-GGGGCATTAGCGGCGTTTTTG
1 TCGGGGCTTTAGCGGCGTGTTTGGAAAAGCGCCACTAATGC-TCGAGGCTTTAGCGGCGTTTTTG
*
30791950 AAAAAGCGCTGCTAATGC
65 AAAAAGCACTGCTAATGC
* * * **
30791968 TCGGGGCTTTAGCGGCGTGTTTGGAAAAGTGCCGCTAATGCTCGAGGCTTTAGCTGTTTTTTTG-
1 TCGGGGCTTTAGCGGCGTGTTTGGAAAAGCGCCACTAATGCTCGAGGCTTTAGCGGCGTTTTTGA
*
30792032 AAAAGCATTGCTAATGC
66 AAAAGCACTGCTAATGC
* * * **
30792049 TCGGGTCTTTAGCGGCGT-TTTTGAAGAAGCGCCACTAATGCTCTA-TTTTTAGCGGCGTTTTTG
1 TCGGGGCTTTAGCGGCGTGTTTGGAA-AAGCGCCACTAATGCTCGAGGCTTTAGCGGCGTTTTTG
30792112 AAAAAGC
65 AAAAAGC
30792119 GCCGCAAAAA
Statistics
Matches: 124, Mismatches: 24, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
80 19 0.15
81 55 0.44
82 50 0.40
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.32
Consensus pattern (82 bp):
TCGGGGCTTTAGCGGCGTGTTTGGAAAAGCGCCACTAATGCTCGAGGCTTTAGCGGCGTTTTTGA
AAAAGCACTGCTAATGC
Found at i:30792563 original size:7 final size:7
Alignment explanation
Indices: 30792553--30792593 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
30792543 GATTTAAGGT
30792553 TTAGGGG
1 TTAGGGG
*
30792560 TTAGAGG
1 TTAGGGG
30792567 TTAGGGG
1 TTAGGGG
30792574 TTAGGGG
1 TTAGGGG
* *
30792581 TTAAGAG
1 TTAGGGG
30792588 TTAGGG
1 TTAGGG
30792594 ATTTAGGGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.22, C:0.00, G:0.49, T:0.29
Consensus pattern (7 bp):
TTAGGGG
Found at i:30792577 original size:21 final size:23
Alignment explanation
Indices: 30792553--30792616 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 23
30792543 GATTTAAGGT
30792553 TTAGGGGTTAGAG-GTTAGGG-G
1 TTAGGGGTTAGAGAGTTAGGGAG
*
30792574 TTAGGGGTTA-AGAGTTAGGGAT
1 TTAGGGGTTAGAGAGTTAGGGAG
* *
30792596 TTAGGGTTTAGAGATTTAGGG
1 TTAGGGGTTAGAGAGTTAGGG
30792617 TTGGGTTAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 2 0.05
21 17 0.46
22 9 0.24
23 9 0.24
ACGTcount: A:0.23, C:0.00, G:0.44, T:0.33
Consensus pattern (23 bp):
TTAGGGGTTAGAGAGTTAGGGAG
Found at i:30792605 original size:7 final size:7
Alignment explanation
Indices: 30792545--30792632 Score: 51
Period size: 7 Copynumber: 12.7 Consensus size: 7
30792535 AGGGTTGAGA
*
30792545 TTTAAGG
1 TTTAGGG
30792552 TTTAGGG
1 TTTAGGG
*
30792559 GTTAGAGG
1 TTTAG-GG
30792567 -TTAGGG
1 TTTAGGG
*
30792573 GTTAGGGG
1 TTTA-GGG
* *
30792581 TTAAGAG
1 TTTAGGG
30792588 -TTAGGG
1 TTTAGGG
30792594 ATTTAGGG
1 -TTTAGGG
*
30792602 TTTAGAGA
1 TTTAG-GG
30792610 TTTAGGG
1 TTTAGGG
30792617 -TT-GGG
1 TTTAGGG
30792622 -TTAGGG
1 TTTAGGG
30792628 TTTAG
1 TTTAG
30792633 ATTAGTTAGT
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 5 0.08
6 11 0.17
7 29 0.45
8 19 0.30
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (7 bp):
TTTAGGG
Found at i:30792611 original size:15 final size:15
Alignment explanation
Indices: 30792588--30792618 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30792578 GGGTTAAGAG
*
30792588 TTAGGGATTTAGGGT
1 TTAGAGATTTAGGGT
30792603 TTAGAGATTTAGGGT
1 TTAGAGATTTAGGGT
30792618 T
1 T
30792619 GGGTTAGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (15 bp):
TTAGAGATTTAGGGT
Found at i:30793011 original size:19 final size:18
Alignment explanation
Indices: 30792982--30793032 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
30792972 GGACCAAATT
*
30792982 ATAAGAAATAAAAATAAA
1 ATAAAAAATAAAAATAAA
* *
30793000 ATACAAAAATAAATATGAA
1 ATA-AAAAATAAAAATAAA
30793019 ATAAAAAACTAAAA
1 ATAAAAAA-TAAAA
30793033 TTTATAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (18 bp):
ATAAAAAATAAAAATAAA
Found at i:30796083 original size:86 final size:86
Alignment explanation
Indices: 30795969--30796218 Score: 274
Period size: 86 Copynumber: 2.9 Consensus size: 86
30795959 TAAAAATTGA
* *
30795969 AAATTGAAAATTTAGTCTACTTGTTGGTAAATGCATGAACTTGAACCATCT-ATTTTTGCTAATT
1 AAATTGAAAAATTAGTCTACTTGTTGGTAAATACATGAACTTGAACCAT-TGATTTTTGCTAATT
* *
30796033 TGTTGCATATAAGTTGTTATA-
65 TGTTGCATATAAATCGTTATAG
* *
30796054 AATATTGAAAAATTAGTCTGA-TTTTTGGTAAATACATGAACTTGAACCATTGATTTTTGTTAAT
1 AA-ATTGAAAAATTAGTCT-ACTTGTTGGTAAATACATGAACTTGAACCATTGATTTTTGCTAAT
30796118 TTGTTGCATATAAATCGTTATAG
64 TTGTTGCATATAAATCGTTATAG
* * * ** * ** *
30796141 AAATTGAAGATTTAGCCCTA-TTGCCGGTAAATATATGAACTATGAATAATTGATTTTTGGTAAT
1 AAATTGAAAAATTAG-TCTACTTGTTGGTAAATACATGAACT-TGAACCATTGATTTTTGCTAAT
* *
30796205 TTGTTTCACATAAA
64 TTGTTGCATATAAA
30796219 CTGTTGTAAG
Statistics
Matches: 141, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
85 3 0.02
86 102 0.72
87 36 0.26
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (86 bp):
AAATTGAAAAATTAGTCTACTTGTTGGTAAATACATGAACTTGAACCATTGATTTTTGCTAATTT
GTTGCATATAAATCGTTATAG
Found at i:30796274 original size:40 final size:40
Alignment explanation
Indices: 30796230--30796314 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
30796220 TGTTGTAAGA
* * *
30796230 TTGATTTGTGTTAATTTCTTGCATA-TAAATTATTGAAATG
1 TTGATTTGTGATAATTCCTTACATATTAAA-TATTGAAATG
* *
30796270 TTGATTTTTGATAATTCCTTACATATTAAATATTGAAGTG
1 TTGATTTGTGATAATTCCTTACATATTAAATATTGAAATG
30796310 TTGAT
1 TTGAT
30796315 ATTCAAGCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 35 0.90
41 4 0.10
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.49
Consensus pattern (40 bp):
TTGATTTGTGATAATTCCTTACATATTAAATATTGAAATG
Found at i:30797657 original size:19 final size:20
Alignment explanation
Indices: 30797628--30797672 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
30797618 AATAAAACAT
30797628 AATATAATATT-TATCATAAA
1 AATA-AATATTATATCATAAA
* *
30797648 AATAAATATTATTTCATTAA
1 AATAAATATTATATCATAAA
30797668 AATAA
1 AATAA
30797673 TTTTTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
AATAAATATTATATCATAAA
Found at i:30797774 original size:43 final size:43
Alignment explanation
Indices: 30797722--30798049 Score: 424
Period size: 43 Copynumber: 7.6 Consensus size: 43
30797712 GAAGTGTCGT
* * * *
30797722 TAAAGGTCTTGATCTATAGCAGTGTTTATGGAAAAAGTGCCGC
1 TAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCCGC
* * *
30797765 TGAAGGTCTTGAACTATAGCGGCGTTTGTGGAAAAAGCACCGC
1 TAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCCGC
* *
30797808 TAAAGGTCTTGATCTATAGTGGCGTTTGTGGAAAAAGCGCCAC
1 TAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCCGC
* ** *
30797851 TAAAGGTCTTGATCTATAGCGGCGTTTGTGCAAAAAAGTACCGT
1 TAAAGGTCTTGATCTATAGCGGCGTTTGTG-GAAAAAGCGCCGC
* * *
30797895 TAAAGGTCTTGAGCTATAGCGCCGTTTGT-GCAAAAGCGCCGC
1 TAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCCGC
* *
30797937 TAAAGGTCTTGATCTATAGCGGTGTTTGTGGAGAAAGCGCCGC
1 TAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCCGC
* * *
30797980 TAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGTGCCGC
1 TAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCCGC
* * *
30798023 TAAAGGTCATGGTCTATAGTGGCGTTT
1 TAAAGGTCTTGATCTATAGCGGCGTTT
30798050 TTTTTTAAAA
Statistics
Matches: 245, Mismatches: 38, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
42 34 0.14
43 176 0.72
44 35 0.14
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (43 bp):
TAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCCGC
Found at i:30808807 original size:5 final size:6
Alignment explanation
Indices: 30808778--30808827 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
30808768 AAAGGAAGAC
* * * *
30808778 AGAAAA AGAAAT CGAAAA AGAAAA AGAAAA AGAGAA TGAAAA AGAGAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGA-AAA
30808827 A
1 A
30808828 AAGAGATTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
6 31 0.89
7 4 0.11
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (6 bp):
AGAAAA
Found at i:30810631 original size:33 final size:33
Alignment explanation
Indices: 30810594--30810657 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
30810584 GAGTTAGTTT
* *
30810594 ATTAAATTTAGTTCAGCTCCAATAAGTGTTAAA
1 ATTAAATTTAGTTCAACTCAAATAAGTGTTAAA
* *
30810627 ATTAATTTTAGTTCAACTTAAATAAGTGTTA
1 ATTAAATTTAGTTCAACTCAAATAAGTGTTA
30810658 GTAATTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (33 bp):
ATTAAATTTAGTTCAACTCAAATAAGTGTTAAA
Found at i:30816306 original size:30 final size:30
Alignment explanation
Indices: 30816270--30816326 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
30816260 TGAACTTTAA
*
30816270 AAAATTACAATATGATCACTAATGTTATTG
1 AAAATTACAATATGATCACTAACGTTATTG
*
30816300 AAAATTACAATATGTTCACTAACGTTA
1 AAAATTACAATATGATCACTAACGTTA
30816327 ATGATTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (30 bp):
AAAATTACAATATGATCACTAACGTTATTG
Found at i:30816531 original size:20 final size:20
Alignment explanation
Indices: 30816490--30816530 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
30816480 TGATTTAGAT
30816490 AATTCTAAAAATATATTTAA
1 AATTCTAAAAATATATTTAA
*
30816510 AATTTTAAAAAT-TATTTAA
1 AATTCTAAAAATATATTTAA
30816529 AA
1 AA
30816531 AACACTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTCTAAAAATATATTTAA
Found at i:30824165 original size:25 final size:24
Alignment explanation
Indices: 30824137--30824197 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
30824127 TAGGGATTAT
**
30824137 TGATTCTAAGCTCATATTAGCTTAC
1 TGATTCT-AGCTCATAAGAGCTTAC
* * *
30824162 TGATTGTAGCTCGTAAGAGCTTTC
1 TGATTCTAGCTCATAAGAGCTTAC
30824186 TGATTCTCAGCT
1 TGATTCT-AGCT
30824198 TGTTTGAGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
24 19 0.66
25 10 0.34
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (24 bp):
TGATTCTAGCTCATAAGAGCTTAC
Found at i:30824239 original size:25 final size:25
Alignment explanation
Indices: 30824211--30824260 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
30824201 TTGAGTTTAT
*
30824211 CGATTTACAACTCGTGA-GAGCATAC
1 CGATTCACAACTCGT-ATGAGCATAC
*
30824236 CGATTCACAGCTCGTATGAGCATAC
1 CGATTCACAACTCGTATGAGCATAC
30824261 ATGTACAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (25 bp):
CGATTCACAACTCGTATGAGCATAC
Found at i:30835555 original size:23 final size:22
Alignment explanation
Indices: 30835529--30835584 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 22
30835519 ATTTTGTTTT
30835529 CATTTTTACATGTGTTTTTCA-TG
1 CATTTTTACAT-TG-TTTTCATTG
**
30835552 CATTCATAC-TTGTTTTCATTG
1 CATTTTTACATTGTTTTCATTG
30835573 CATTTTCTACAT
1 CATTTT-TACAT
30835585 ATCTATTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
20 6 0.23
21 8 0.31
22 4 0.15
23 8 0.31
ACGTcount: A:0.20, C:0.18, G:0.09, T:0.54
Consensus pattern (22 bp):
CATTTTTACATTGTTTTCATTG
Found at i:30838691 original size:24 final size:25
Alignment explanation
Indices: 30838641--30838696 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
30838631 TCTTTCTCTT
30838641 TTTCTTTCTTTTAATTTTGTATGTC
1 TTTCTTTCTTTTAATTTTGTATGTC
** *
30838666 TTTCTTTCTTTTGTTTTTTTAT-TC
1 TTTCTTTCTTTTAATTTTGTATGTC
30838690 TTTCTTT
1 TTTCTTT
30838697 TAATACTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.07, C:0.12, G:0.05, T:0.75
Consensus pattern (25 bp):
TTTCTTTCTTTTAATTTTGTATGTC
Found at i:30841196 original size:21 final size:21
Alignment explanation
Indices: 30841166--30841205 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30841156 TTTACCAAAG
* *
30841166 ATGTGTATTGGATTGAATTGA
1 ATGTGAATTGGATTAAATTGA
*
30841187 ATGTGAATTGTATTAAATT
1 ATGTGAATTGGATTAAATT
30841206 AAGCTAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.45
Consensus pattern (21 bp):
ATGTGAATTGGATTAAATTGA
Found at i:30841574 original size:25 final size:25
Alignment explanation
Indices: 30841537--30841660 Score: 92
Period size: 25 Copynumber: 5.0 Consensus size: 25
30841527 AAGAGTGTCT
* * *
30841537 TGTTATTTAGCTCTTATGAGCATCC
1 TGTTATATGGCTCTTATGAGCTTCC
* * *
30841562 TGTTATATGGCTCTCACGAGCTTCT
1 TGTTATATGGCTCTTATGAGCTTCC
* * * *
30841587 TGATATTTGACTCTCATGAGCTTCC
1 TGTTATATGGCTCTTATGAGCTTCC
*
30841612 CGATTA-ATGGCTCTCT-TGAGCTTCC
1 TG-TTATATGGCTCT-TATGAGCTTCC
* *
30841637 CGTT-TATGGCTCGTATGAGCTTCC
1 TGTTATATGGCTCTTATGAGCTTCC
30841661 CGATAATTGG
Statistics
Matches: 78, Mismatches: 17, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
23 1 0.01
24 18 0.23
25 57 0.73
26 2 0.03
ACGTcount: A:0.17, C:0.24, G:0.19, T:0.40
Consensus pattern (25 bp):
TGTTATATGGCTCTTATGAGCTTCC
Found at i:30841606 original size:50 final size:50
Alignment explanation
Indices: 30841534--30841635 Score: 118
Period size: 50 Copynumber: 2.0 Consensus size: 50
30841524 CACAAGAGTG
* * *
30841534 TCTTGTTATTTAGCTCTTATGAGCATCCTG-TTATATGGCTCTCACGAGCT
1 TCTTGATATTTAGCTCTCATGAGCATCCCGATTA-ATGGCTCTCACGAGCT
* **
30841584 TCTTGATATTT-GACTCTCATGAGCTTCCCGATTAATGGCTCTCTTGAGCT
1 TCTTGATATTTAG-CTCTCATGAGCATCCCGATTAATGGCTCTCACGAGCT
30841634 TC
1 TC
30841636 CCGTTTATGG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
49 1 0.02
50 40 0.91
51 3 0.07
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.41
Consensus pattern (50 bp):
TCTTGATATTTAGCTCTCATGAGCATCCCGATTAATGGCTCTCACGAGCT
Found at i:30841655 original size:24 final size:25
Alignment explanation
Indices: 30841597--30841672 Score: 95
Period size: 24 Copynumber: 3.1 Consensus size: 25
30841587 TGATATTTGA
30841597 CTCTCATGAGCTTCCCGATTAATGG
1 CTCTCATGAGCTTCCCGATTAATGG
* *
30841622 CTCTCTTGAGCTTCCCG-TTTATGG
1 CTCTCATGAGCTTCCCGATTAATGG
30841646 CTCGT-ATGAGCTTCCCGA-TAATTGG
1 CTC-TCATGAGCTTCCCGATTAA-TGG
30841671 CT
1 CT
30841673 GGCAACAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
24 22 0.50
25 22 0.50
ACGTcount: A:0.16, C:0.28, G:0.21, T:0.36
Consensus pattern (25 bp):
CTCTCATGAGCTTCCCGATTAATGG
Found at i:30857678 original size:589 final size:589
Alignment explanation
Indices: 30856536--30857715 Score: 1388
Period size: 589 Copynumber: 2.0 Consensus size: 589
30856526 CATATTTTTA
* *
30856536 GATAGGACCCGATGATTGTTTACTATTCAGAGGTAAAGTGTGTGTACTGAAGAATTTAGAGCTTA
1 GATAGGACCCGATGATTGTTTACTATTCAGAGGTAAAGTGTGTGTACCGAAGAATTCAGAGCTTA
* *
30856601 TACAGAAAAATTTTGCACTAAGATTATAGTGGTAGCTTATCTGTTCATTCGGGAAGTAATAAAAT
66 TACAGAAAAATTTTGCACTAAGATTATAGTGGTAGCTTATCTGTTCATCCGAGAAGTAATAAAAT
* * * * *
30856666 GTACAGTGACTTGAGACATATGTACTGGTGGTCGGGAATGAAATGCGAGATTTCTAATTTTGTAT
131 GTACAGTGACTTGAGACAAATGTACTGGTGGTCAGGAATGAAACGCAAGATTTCTAATTTTGAAT
* * * *
30856731 CGAGATGTTTGATATGTTAGCAAGTTAAAGCTAGACATCAAGTACCTTCGGGATTGGACAGCCAG
196 CAAGATGTTTGATAAGTCAGCAAGTTAAAGCTAGACATCAAGTACCTTCAGGATTGGACAGCCAG
* ** * * * * * *
30856796 TGATAATATTGGAGTGCAAATGGGATAGAGTTACTATGGACCTCGTATCGTGTTTACCTCTATCT
261 TGACAATACCGAAATGCAAATGAGATAGAGTTACTATAGACCTCGTATCGTGTTTACCCCTATAT
** * ** * ** *
30856861 CCAAAAAAGAAAAATTTCATTTGGGTTATTGTTGATCATTTGATGAAGTCTACACATTTTATTTT
326 CCAAAAAAGAAAAATGCCATTTGGGTAATCATCGATCATTTGACAAAGTCTACACATTTTATTTC
* * * ** * *
30856926 GGTATGTACAGATTTCTCCCTTGACAAATTGGTTGAGTTATATGTTTCTGAGATTGTTAGATTAC
391 GGTACGTACAGATTTCTCCCTAGACAAATTGATAAAATTATATGTTTCTGAGATTGTCAGATTAC
* * *
30856991 ACGGAGTGTCAGTCTCCATCATTTCGAATAGAGATCCCCGATTTACATCACAATTCTAGAGAAAG
456 ACGGAGTGCCAATCTCCATCATTTCGAATAGAGATCCCCGATTTACATCACAATTCTAGAAAAAG
** * * ** * * *
30857056 TTACTCGAAGCTTTTGGTACATGGTTGCATTTTAGCAGTACATTTCACCCTCAGACCAATGGTCA
521 TTACAAGAAGCTCTAGGTACATAATTACATTTTAACACTACATTTCACCCTCAGACCAATGGTCA
*
30857121 GTCT
586 GCCT
* *
30857125 GATAGGATCCGATGATTGTTTACTGTTCAGAGGTAGAA-TGTGTGTACCGAAGAATTCAGAGCTT
1 GATAGGACCCGATGATTGTTTACTATTCAGAGGTA-AAGTGTGTGTACCGAAGAATTCAGAGCTT
* * * *
30857189 ATAC-GAAAAATTTTGC-GTGAAGCTTATAGTGGTAGCTTATTTTTTACATCCGAGAAGTAATAA
65 ATACAGAAAAATTTTGCACT-AAGATTATAGTGGTAGCTTATCTGTT-CATCCGAGAAGTAATAA
* *
30857252 AATGTACAGTGATTTGAGACAAATGTACTGGTGG-CTAGGAATGAAACGCAAGATTTCTGATTTT
128 AATGTACAGTGACTTGAGACAAATGTACTGGTGGTC-AGGAATGAAACGCAAGATTTCTAATTTT
* **
30857316 GAATCAAGATGTTTGATAAGTCAGCAAGTTAAAGCT-GAACATCAGGTACCTTCAGGATTATTAC
192 GAATCAAGATGTTTGATAAGTCAGCAAGTTAAAGCTAG-ACATCAAGTACCTTCAGGATT-GGAC
* * ** *
30857380 AGCCAGTGACGATACCGAAATGGAAATGAGATAGAGTTACTATAGATTTTGTATCAG-G-TTACC
255 AGCCAGTGACAATACCGAAATGCAAATGAGATAGAGTTACTATAGACCTCGTATC-GTGTTTACC
** ** *
30857443 CCTATATCTGAAAAAGAAAGCTGCCATTTGGGTAATCATCGATCGTTTGACAAAGTCTACACATT
319 CCTATATCCAAAAAAGAAAAATGCCATTTGGGTAATCATCGATCATTTGACAAAGTCTACACATT
** *
30857508 TTATTTCGGTACGTATTGATTTCTCCCTAGACAGATT-ATCAAAATTATATGTTT-TCGAGATTG
384 TTATTTCGGTACGTACAGATTTCTCCCTAGACAAATTGAT-AAAATTATATGTTTCT-GAGATTG
* * * * * ** * ***
30857571 TCAGGTTCCATGGAGTGCCAATCTCCATTATTTCGGATAGAGATCCGTGGTTTACATCTTGATTC
447 TCAGATTACACGGAGTGCCAATCTCCATCATTTCGAATAGAGATCCCCGATTTACATCACAATTC
* * * *
30857636 TGGAAAAAGTTACAAGAAGCTCTAGGTACGTAATTACATTTTAATACTGCATTTCACCCTCAGAC
512 TAGAAAAAGTTACAAGAAGCTCTAGGTACATAATTACATTTTAACACTACATTTCACCCTCAGAC
**
30857701 TGATGGTCAGCCT
577 CAATGGTCAGCCT
30857714 GA
1 GA
30857716 GCGTGTGATT
Statistics
Matches: 490, Mismatches: 92, Indels: 18
0.82 0.15 0.03
Matches are distributed among these distances:
587 1 0.00
588 39 0.08
589 401 0.82
590 48 0.10
591 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.33
Consensus pattern (589 bp):
GATAGGACCCGATGATTGTTTACTATTCAGAGGTAAAGTGTGTGTACCGAAGAATTCAGAGCTTA
TACAGAAAAATTTTGCACTAAGATTATAGTGGTAGCTTATCTGTTCATCCGAGAAGTAATAAAAT
GTACAGTGACTTGAGACAAATGTACTGGTGGTCAGGAATGAAACGCAAGATTTCTAATTTTGAAT
CAAGATGTTTGATAAGTCAGCAAGTTAAAGCTAGACATCAAGTACCTTCAGGATTGGACAGCCAG
TGACAATACCGAAATGCAAATGAGATAGAGTTACTATAGACCTCGTATCGTGTTTACCCCTATAT
CCAAAAAAGAAAAATGCCATTTGGGTAATCATCGATCATTTGACAAAGTCTACACATTTTATTTC
GGTACGTACAGATTTCTCCCTAGACAAATTGATAAAATTATATGTTTCTGAGATTGTCAGATTAC
ACGGAGTGCCAATCTCCATCATTTCGAATAGAGATCCCCGATTTACATCACAATTCTAGAAAAAG
TTACAAGAAGCTCTAGGTACATAATTACATTTTAACACTACATTTCACCCTCAGACCAATGGTCA
GCCT
Found at i:30859731 original size:25 final size:25
Alignment explanation
Indices: 30859691--30859816 Score: 107
Period size: 25 Copynumber: 5.0 Consensus size: 25
30859681 TGCCATTAGG
*
30859691 GATTATCGATTCTCAGCTCGTATGA
1 GATTACCGATTCTCAGCTCGTATGA
* *
30859716 GTTTACCGATAT-TCAGCTCGTAAGA
1 GATTACCGAT-TCTCAGCTCGTATGA
* * *
30859741 GCTTACCTATTCTCAGCTCCTATGA
1 GATTACCGATTCTCAGCTCGTATGA
* *
30859766 GATTACCGATT-TACAACTCGTGTGA
1 GATTACCGATTCT-CAGCTCGTATGA
*
30859791 GCA-TATCGATTCAT-AGCTCGTATGA
1 G-ATTACCGATTC-TCAGCTCGTATGA
30859816 G
1 G
30859817 TAAACATGTA
Statistics
Matches: 80, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
24 2 0.03
25 75 0.94
26 2 0.03
27 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (25 bp):
GATTACCGATTCTCAGCTCGTATGA
Found at i:30859809 original size:50 final size:50
Alignment explanation
Indices: 30859694--30859816 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 50
30859684 CATTAGGGAT
* * *
30859694 TATCGATTCTCAGCTCGTATGAGTTTACCGATATTCAGCTCGTAAGAGCT
1 TATCGATTCTCAGCTCGTATGAGATTACCGATATTCAACTCGTAAGAGCA
* * * **
30859744 TACCTATTCTCAGCTCCTATGAGATTACCGAT-TTACAACTCGTGTGAGCA
1 TATCGATTCTCAGCTCGTATGAGATTACCGATATT-CAACTCGTAAGAGCA
30859794 TATCGATTCAT-AGCTCGTATGAG
1 TATCGATTC-TCAGCTCGTATGAG
30859817 TAAACATGTA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
49 2 0.03
50 57 0.95
51 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (50 bp):
TATCGATTCTCAGCTCGTATGAGATTACCGATATTCAACTCGTAAGAGCA
Found at i:30866629 original size:35 final size:36
Alignment explanation
Indices: 30866549--30866650 Score: 109
Period size: 35 Copynumber: 2.9 Consensus size: 36
30866539 GATAAATGGT
* * *
30866549 CTACTAGCTCTATGGAGCGACATTATGAAAA-AGGT
1 CTACTAGCTCTATGGAGCAACACTATGAAAATAGGC
* *
30866584 TTACTGGCTCTATGGAGCAACACTATGAAAATA-GC
1 CTACTAGCTCTATGGAGCAACACTATGAAAATAGGC
** * *
30866619 CTACTAGCTCTACCGAGCAGCACCATGAAAAT
1 CTACTAGCTCTATGGAGCAACACTATGAAAAT
30866651 GGTTAATTAC
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
35 54 0.98
36 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.24
Consensus pattern (36 bp):
CTACTAGCTCTATGGAGCAACACTATGAAAATAGGC
Found at i:30871393 original size:25 final size:25
Alignment explanation
Indices: 30871365--30871488 Score: 94
Period size: 25 Copynumber: 5.0 Consensus size: 25
30871355 TCATTAGGGA
30871365 TTACCAATTCTCAGCTCGTATGAGC
1 TTACCAATTCTCAGCTCGTATGAGC
* * * *
30871390 TTACCGATT-GCAGCTCGTAAGATC
1 TTACCAATTCTCAGCTCGTATGAGC
* * * *
30871414 TTATCTATTCTTAGCTCTTATGAGC
1 TTACCAATTCTCAGCTCGTATGAGC
*
30871439 TTACCGATT-TACAGCTCGTGA-GAG-
1 TTACCAATTCT-CAGCTCGT-ATGAGC
* *
30871463 TATACCAATTCACAGCTCTTATGAGC
1 T-TACCAATTCTCAGCTCGTATGAGC
30871489 ATACATGTAC
Statistics
Matches: 74, Mismatches: 18, Indels: 13
0.70 0.17 0.12
Matches are distributed among these distances:
24 22 0.30
25 51 0.69
26 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (25 bp):
TTACCAATTCTCAGCTCGTATGAGC
Found at i:30871482 original size:50 final size:49
Alignment explanation
Indices: 30871366--30871488 Score: 149
Period size: 50 Copynumber: 2.5 Consensus size: 49
30871356 CATTAGGGAT
* * *
30871366 TACCAATTCTCAGCTCGTATGAGCTTACCGATTGCAGCTCGTAAGATCT
1 TACCAATTCTCAGCTCTTATGAGCTTACCGATTACAGCTCGTAAGATCA
* * * *
30871415 TATCTATTCTTAGCTCTTATGAGCTTACCGATTTACAGCTCGTGAGAGT-A
1 TACCAATTCTCAGCTCTTATGAGCTTACCGA-TTACAGCTCGTAAGA-TCA
*
30871465 TACCAATTCACAGCTCTTATGAGC
1 TACCAATTCTCAGCTCTTATGAGC
30871489 ATACATGTAC
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
49 27 0.44
50 33 0.54
51 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (49 bp):
TACCAATTCTCAGCTCTTATGAGCTTACCGATTACAGCTCGTAAGATCA
Found at i:30878881 original size:198 final size:198
Alignment explanation
Indices: 30878526--30878930 Score: 675
Period size: 198 Copynumber: 2.0 Consensus size: 198
30878516 ACCCTAGGCT
* * *
30878526 TTACAACCCTAGGAAGTAATCAAAAGTTAAACAAGGTCAACATATAAGTTTTTCGAGTAAATCGT
1 TTACAACCCTAGGAAGTAATCAAAAGTTAAACAAGGTCAACAGATAAGTTTTCCGAGTAAATCAT
*
30878591 AATTTATCTTGCTTGAGAAAGTGAGGTAAGTAGATAACCAAGTATCAATCAATTAATTAATCAGT
66 AATTTATCTTGCTTGAGAAAGTGAGGTAAGGAGATAACCAAGTATCAATCAATTAATTAATCAGT
* * *
30878656 TAGAGGCTAAGTGTTATTAGATGGTTAGTTAATAGCTAATTCACCCTAAAAGCCAGACCCGAAGT
131 TAGAGGCCAAGAGGTATTAGATGGTTAGTTAATAGCTAATTCACCCTAAAAGCCAGACCCGAAGT
30878721 TAA
196 TAA
* *
30878724 TTACAACCCTAGGAAGTAATCAAAAGTTAAACAAGGTCGAGAGATAAGTTTTCCGAGTAAATCAT
1 TTACAACCCTAGGAAGTAATCAAAAGTTAAACAAGGTCAACAGATAAGTTTTCCGAGTAAATCAT
*
30878789 AATTTATCTTGCTTGAGAAAGTGAGGTAAGGAGATGACCAAGTATCAATCAATTAATTAATCAGT
66 AATTTATCTTGCTTGAGAAAGTGAGGTAAGGAGATAACCAAGTATCAATCAATTAATTAATCAGT
** * *
30878854 TAGAGGCCGGGAGGTATTAGTTGGTTAGTTAATAGCTAATTCACCCTAAAATCCAGACCCGAAGT
131 TAGAGGCCAAGAGGTATTAGATGGTTAGTTAATAGCTAATTCACCCTAAAAGCCAGACCCGAAGT
30878919 TAA
196 TAA
*
30878922 TTACTACCC
1 TTACAACCC
30878931 CTGAAACAAG
Statistics
Matches: 192, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
198 192 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (198 bp):
TTACAACCCTAGGAAGTAATCAAAAGTTAAACAAGGTCAACAGATAAGTTTTCCGAGTAAATCAT
AATTTATCTTGCTTGAGAAAGTGAGGTAAGGAGATAACCAAGTATCAATCAATTAATTAATCAGT
TAGAGGCCAAGAGGTATTAGATGGTTAGTTAATAGCTAATTCACCCTAAAAGCCAGACCCGAAGT
TAA
Found at i:30878984 original size:16 final size:17
Alignment explanation
Indices: 30878958--30878990 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
30878948 TCTTGATTGG
*
30878958 TTTAGTTGTTTTTTTAT
1 TTTAGTTGTTTATTTAT
30878975 TTTA-TTGTTTATTTAT
1 TTTAGTTGTTTATTTAT
30878991 AACGTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (17 bp):
TTTAGTTGTTTATTTAT
Found at i:30880955 original size:23 final size:24
Alignment explanation
Indices: 30880929--30880989 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 24
30880919 CTAAGTAGAT
30880929 TATGCCACAAGG-GTCAAACAGAA
1 TATGCCACAAGGTGTCAAACAGAA
*
30880952 TATGCCACACAGGTGTCATACAGAA
1 TATGCCACA-AGGTGTCAAACAGAA
*
30880977 TACGCCACGAAGG
1 TATGCCAC-AAGG
30880990 CATCATACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 9 0.27
24 3 0.09
25 20 0.61
26 1 0.03
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.15
Consensus pattern (24 bp):
TATGCCACAAGGTGTCAAACAGAA
Found at i:30886701 original size:19 final size:19
Alignment explanation
Indices: 30886677--30886715 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
30886667 AGCATAAACC
*
30886677 ACACAAACAAAATAATTAA
1 ACACAAAAAAAATAATTAA
30886696 ACACAAAAAAAATAATTAA
1 ACACAAAAAAAATAATTAA
30886715 A
1 A
30886716 TTCTATGTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.72, C:0.13, G:0.00, T:0.15
Consensus pattern (19 bp):
ACACAAAAAAAATAATTAA
Found at i:30895748 original size:23 final size:23
Alignment explanation
Indices: 30895722--30895768 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
30895712 TAATAATACA
** *
30895722 AACAATCCTAGGTATGCACAACT
1 AACAATCCTAAATATCCACAACT
30895745 AACAATCCTAAATATCCACAACT
1 AACAATCCTAAATATCCACAACT
30895768 A
1 A
30895769 TCACACCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.28, G:0.06, T:0.21
Consensus pattern (23 bp):
AACAATCCTAAATATCCACAACT
Found at i:30897791 original size:352 final size:351
Alignment explanation
Indices: 30897143--30897829 Score: 1101
Period size: 352 Copynumber: 2.0 Consensus size: 351
30897133 CTCCCAGGTG
** * * *
30897143 CATGCTCAACTTCAATGTCGTGACTCCACATCTTCAGTGTCCCGACATTTTGGGCAGTCCTTTAA
1 CATGCTCAACTTCAATGTCACGACTCCACATCCTCAGTGTCCCGACATTATGGGCAGTCCCTTAA
*
30897208 CTTCTTTACCATTTAGCCCAAGTCGTGTCTTACACCAACTACATCACTTAGAACTCATTAGGCAT
66 CATCTTTACCATTTAGCCCAAGTCGTGTCTTACACCAACTACATCACTTAGAACTCATTAGGCAT
* * *
30897273 GAGTTTGTCTAATTGGTTGATAAATATCCTACAATGCTTGTTTTATTCAACAAAAAATCATTGGA
131 GAGTTTGTCTAATTAGTCGATAAATATCCTACAATGCATGTTTTATTCAACAAAAAATCATTGGA
* *
30897338 ATAAAATCAAAATGCTCGGTTAGAAGCTCGTTAAGTCTCGAAAAGGACTCAATTTTACATATTAA
196 ATAAAATCAAAATGCTCAGTTAGAAGCTCGTTAAGTATCGAAAAGGACTCAATTTTACATATTAA
* * *
30897403 ATTATGAAATATCACCAATAGATCTCTCTACTAGCTTGTCAATACTAGAAATGAATTGTATAAAG
261 ATTATGAAATATCACCAATAGATCCCTCTACTAGCTTGTCAAGACTAGAAATGAATTGTAGAAAG
30897468 AATCAAATGAATAGAATCAATTGTAA
326 AATCAAATGAATAGAATCAATTGTAA
* **
30897494 CATGCTCAACTTCAATGTCACGACTCCACATCCTCAGTGTCTCGGTA-TATGGGCAGTCCCTTAA
1 CATGCTCAACTTCAATGTCACGACTCCACATCCTCAGTGTCCCGACATTATGGGCAGTCCCTTAA
* * *
30897558 CATCTTTTCCATTTAGCCCAAGTCGTGTCTTGCACTAACTACATCACTTAATTAGAACTCATTAG
66 CATCTTTACCATTTAGCCCAAGTCGTGTCTTACACCAACTACATCAC----TTAGAACTCATTAG
30897623 GCATGAGTTTGTCTAATTAGTCGATAAATATCCTACAATGCATGTTTTATTC-A-AAAAAATCAT
127 GCATGAGTTTGTCTAATTAGTCGATAAATATCCTACAATGCATGTTTTATTCAACAAAAAATCAT
* * *
30897686 TGGAATAACATCAAAATGCTCAGTTAGAAGCTCGTTAAGTATCGAAAAGGATTCAATTTTCCATA
192 TGGAATAAAATCAAAATGCTCAGTTAGAAGCTCGTTAAGTATCGAAAAGGACTCAATTTTACATA
*
30897751 TTAAATTATGAAATATCACCAATAGATCCCTCTGCTAGCTTGTCAAGACTAGAAATGAATTGTAG
257 TTAAATTATGAAATATCACCAATAGATCCCTCTACTAGCTTGTCAAGACTAGAAATGAATTGTAG
30897816 AAAGAATCAAATGA
322 AAAGAATCAAATGA
30897830 CCAGAAATTA
Statistics
Matches: 308, Mismatches: 24, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
350 58 0.19
351 41 0.13
352 145 0.47
353 1 0.00
354 63 0.20
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (351 bp):
CATGCTCAACTTCAATGTCACGACTCCACATCCTCAGTGTCCCGACATTATGGGCAGTCCCTTAA
CATCTTTACCATTTAGCCCAAGTCGTGTCTTACACCAACTACATCACTTAGAACTCATTAGGCAT
GAGTTTGTCTAATTAGTCGATAAATATCCTACAATGCATGTTTTATTCAACAAAAAATCATTGGA
ATAAAATCAAAATGCTCAGTTAGAAGCTCGTTAAGTATCGAAAAGGACTCAATTTTACATATTAA
ATTATGAAATATCACCAATAGATCCCTCTACTAGCTTGTCAAGACTAGAAATGAATTGTAGAAAG
AATCAAATGAATAGAATCAATTGTAA
Found at i:30904266 original size:24 final size:24
Alignment explanation
Indices: 30904239--30904284 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
30904229 AGAACAGTCC
* *
30904239 CAAAAGGAAATGCAGGAGCAACTT
1 CAAAAGCAAATGAAGGAGCAACTT
*
30904263 CAAAAGCAAATGAATGAGCAAC
1 CAAAAGCAAATGAAGGAGCAAC
30904285 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.50, C:0.17, G:0.22, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAACTT
Found at i:30912445 original size:44 final size:44
Alignment explanation
Indices: 30912397--30912820 Score: 125
Period size: 44 Copynumber: 9.7 Consensus size: 44
30912387 ATTGTAGATA
*
30912397 TTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGAAAATC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGAAAATC
** * * ** **
30912441 TTATCTTTC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAAGCC
1 TTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGAAAATC
* * * * * * * *
30912484 TTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAA-A-ATTATAGATC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACA-GA-AAATC
** * * *
30912528 TTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAAAGCAAGTC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGAAAATC
* * * * * **
30912572 TTATCTTTCC-AAG-A-TAGTGGGAAGCAAATTTAAGCCACAAAGCC
1 TTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGAAAATC
* * * * * * ** * *
30912616 TTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGAAAATC
* * *
30912660 TTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGAC-GACAAATA
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGA-AAATC
* * * ** **
30912704 TTATCTTTCC-AAG-A-TAGTAGGAAGCAGATTTAAGCCACCAAGCC
1 TTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGAAAATC
* * ** * * * ** * *
30912748 TTGTCTCCCTGAGCACCAGCGGAGTAGGTTGAAGATTGTAGATC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGAAAATC
30912792 TTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 TTATCTCCCTAAGCAGTAGTGGAGCAGAT
30912821 CAAAGACGGC
Statistics
Matches: 251, Mismatches: 106, Indels: 46
0.62 0.26 0.11
Matches are distributed among these distances:
41 4 0.02
42 12 0.05
43 37 0.15
44 175 0.70
45 16 0.06
46 7 0.03
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (44 bp):
TTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGAAAATC
Found at i:30913044 original size:257 final size:260
Alignment explanation
Indices: 30912344--30913648 Score: 1991
Period size: 257 Copynumber: 5.0 Consensus size: 260
30912334 ACTGGTGAAA
* *
30912344 CACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATATTATCTCCCTAA
1 CACAAAGCCTTGTCTCCCTGAGCAGCAGC--TGAA-G-TGAAGATTGTAGATCTTATCTCCCTAA
* *
30912409 GCAGTAGTGGAGCAGATTGAAGACGGA-AAATCTTATCTTT-CAAGATAGTGGGAAGCAGATTTA
62 GCAGTAGTGGAGCAAATCGAAGAC-GACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
* *
30912472 AGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTATAGATCTTATCTCCC
126 AGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCC
** *
30912537 TAAGCAGTAGTGGAGCAGATCAAAGAAAGCAAGTCTTATCTTTCCAAGATAGTGGGAAGCAAATT
191 TAAGCAGTAGTGGAGCAGATCAAAGACGGCAAGTCTTATCTTTCCAAGATAGTGGGAAGCAGATT
30912602 TAAGC
256 TAAGC
*
30912607 CACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACAAAGCCTTGTCTCCCTGAGCAGCAGC--TGAA-G-TGAAGATTGTAGATCTTATCTCCCTAA
* * * *
30912672 GAAGTAGTGGAGCAGATCGAAGACGACAAATATTATCTTTCCAAGATAGTAGGAAGCAGATTTAA
62 GCAGTAGTGGAGCAAATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
*
30912737 GCCACCAAGCCTTGTCTCCCTGAGCACCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCT
127 GCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCT
30912802 AAGCAGTAGTGGAGCAGATCAAAGACGGCAAGTCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
192 AAGCAGTAGTGGAGCAGATCAAAGACGGCAAGTCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
30912867 AAGC
257 AAGC
* * *
30912871 CACAAAGCCTTGTCTCCCTGAGCACCAGCTG-AG-G-AGGTTGTAGATCCTATCTCCCTAAGCAG
1 CACAAAGCCTTGTCTCCCTGAGCAGCAGCTGAAGTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* *
30912933 TAGTGGAGCAAATCGAAAACGACAAATCTTATCTTTCCAAAATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAAATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
*
30912998 CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
131 CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
*
30913063 AGTAGTGGAGCAGATCAAAGACGGCAAGTCTTATCTTTCCAAGATAGTGGGAAGCAGTTTTAAGC
196 AGTAGTGGAGCAGATCAAAGACGGCAAGTCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
* * * * * *
30913128 CACAAAGCCTTGTCACCTTGAGTAGCAGC-GGAG-G-AGGTTGTAGATCCTATCTCCCTAAGCAG
1 CACAAAGCCTTGTCTCCCTGAGCAGCAGCTGAAGTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* *
30913190 TAGTGGAGCAAATCGAAGACGACAAATCTTATCTTTCCAAAATAGTAGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAAATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
* *
30913255 CCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
131 CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* * * * * *
30913320 AGTAGTGGAGTAGATCGAAGATGACAAATCTTATCTTTCCAAGACAGTGGGAAGCAGATTTAAGC
196 AGTAGTGGAGCAGATCAAAGACGGCAAGTCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
*
30913385 CACCAAGCCTTGTCTCCCTGAGCAGCAG-TGGAGTAAGTTGAAGATTGTAGATCTTATCTCCCTA
1 CACAAAGCCTTGTCTCCCTGAGCAGCAGCT---G-AAG-TGAAGATTGTAGATCTTATCTCCCTA
* *
30913449 AGCAGTAGTGGAGTACATCGAAGAC-AGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
61 AGCAGTAGTGGAGCAAATCGAAGACGA-CAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
* *
30913513 AAGCTACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATTTTATCTCC
125 AAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCC
* * *
30913578 CTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGTAGAT
190 CTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAGTCTTATCTTTCCAAGATAGTGGGAAGCAGAT
30913643 TTAAGC
255 TTAAGC
30913649 AACCAAATCC
Statistics
Matches: 972, Mismatches: 58, Indels: 23
0.92 0.06 0.02
Matches are distributed among these distances:
256 1 0.00
257 477 0.49
258 1 0.00
260 2 0.00
261 3 0.00
262 3 0.00
263 100 0.10
264 385 0.40
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (260 bp):
CACAAAGCCTTGTCTCCCTGAGCAGCAGCTGAAGTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAAATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
AGTAGTGGAGCAGATCAAAGACGGCAAGTCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
Found at i:30913071 original size:389 final size:389
Alignment explanation
Indices: 30912348--30913654 Score: 1925
Period size: 389 Copynumber: 3.3 Consensus size: 389
30912338 GTGAAACACA
* *
30912348 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATATTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
** *
30912413 TAGTGGAGCAGATTGAAGACGGAAAATCTTATCTTT-CAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
* *
30912477 CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTATAGATCTTATCTCCCTAAGC
131 CCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGGAGGTTG-------TAGATCTTATCTCCCTAAGC
* * *
30912542 AGTAGTGGAGCAGATCAAAGAAAG-CAAGTCTTATCTTTCCAAGATAGTGGGAAGCAAATTTAAG
189 AGTAGTGGAGCAGATCGAA-AAAGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
*
30912606 CCACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTA
253 CCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTA
* * *
30912671 AGAAGTAGTGGAGCAGATCGAAGACGACAAATATTATCTTTCCAAGATAGTAGGAAGCAGATTTA
318 AGCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
30912736 AGCCACC
383 AGCCACC
*
30912743 AAGCCTTGTCTCCCTGAGCACCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
*
30912808 TAGTGGAGCAGATCAAAGACGGCAAGTCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
* * * *
30912873 CAAAGCCTTGTCTCCCTGAGCACCAGCTGAGGAGGTTGTAGATCCTATCTCCCTAAGCAGTAGTG
131 CCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGGAGGTTGTAGATCTTATCTCCCTAAGCAGTAGTG
* * *
30912938 GAGCAAATCGAAAACGACAAATCTTATCTTTCCAAAATAGTGGGAAGCAGATTTAAGCCACCAAG
196 GAGCAGATCGAAAAAGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAG
30913003 CCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAG
261 CCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAG
* * * * *
30913068 TGGAGCAGATCAAAGACGGCAAGTCTTATCTTTCCAAGATAGTGGGAAGCAGTTTTAAGCCACA
326 TGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACC
* * * * *
30913132 AAGCCTTGTCACCTTGAGTAGCAGC-G-G-A-G--G-AGGTTGTAGATCCTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * * *
30913190 TAGTGGAGCAAATCGAAGACGACAAATCTTATCTTTCCAAAATAGTAGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
*
30913255 CCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
131 CCAAGCCTTGTCTCCCTGAGCAGCAGC--AG-A-G--G-AGGTTGTAGATCTTATCTCCCTAAGC
* * * *
30913320 AGTAGTGGAGTAGATCGAAGATGACAAATCTTATCTTTCCAAGACAGTGGGAAGCAGATTTAAGC
189 AGTAGTGGAGCAGATCGAAAAAGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
*
30913385 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAA-GTTGAAGATTGTAGATCTTATCTCCCTA
254 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAG-AAGGTTGAAGATTGTAGATCTTATCTCCCTA
* *
30913449 AGCAGTAGTGGAGTACATCGAAGAC-AGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
318 AGCAGTAGTGGAGCAGATCGAAGACGA-CAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
*
30913513 AAGCTACC
382 AAGCCACC
*
30913521 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATTTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * *
30913586 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAAGCAA
66 TAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
30913651 CCAA
131 CCAA
30913655 ATCCTATCTC
Statistics
Matches: 821, Mismatches: 73, Indels: 35
0.88 0.08 0.04
Matches are distributed among these distances:
382 110 0.13
383 1 0.00
384 1 0.00
385 2 0.00
386 2 0.00
387 1 0.00
388 5 0.01
389 450 0.55
390 3 0.00
391 1 0.00
392 1 0.00
393 1 0.00
395 95 0.12
396 148 0.18
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (389 bp):
AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGGAGGTTGTAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCGAAAAAGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAG
CCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACC
Found at i:30913340 original size:44 final size:44
Alignment explanation
Indices: 30913290--30913619 Score: 149
Period size: 44 Copynumber: 7.5 Consensus size: 44
30913280 GCAGAGAAGG
*
30913290 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
1 TTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
* * * *
30913334 TCGAAGA-TGACAAATCTTATCTTTCC-AAGACAGT-G-GGAAGCAGA
1 TTGAAGATTG-CAGATCTTATC-TCCCTAAG-CAGTAGTGG-AGTAGA
* **** * * * *
30913378 TTTAAGCCACCA-AGCCTTGTCTCCCTGAGCAGCAGTGGAGTA-A
1 TTGAAGATTGCAGA-TCTTATCTCCCTAAGCAGTAGTGGAGTAGA
* *
30913421 GTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTACA
1 -TTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
* ** * * *
30913466 TCGAAGACAGCAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGA
1 TTGAAGATTGCAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGTAGA
* * ** * * * * * *
30913510 TTTAAGCTACCA-AGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
1 TTGAAGATTGCAGA-TCTTATCTCCCTAAGCAGTAGTGGAGTAGA
* * *
30913554 TTGAAGATTGTAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
** * *
30913598 TCAAAGATGGCAAATCTTATCT
1 TTGAAGATTGCAGATCTTATCT
30913620 TTCCAAGATA
Statistics
Matches: 200, Mismatches: 66, Indels: 40
0.65 0.22 0.13
Matches are distributed among these distances:
42 4 0.02
43 19 0.09
44 157 0.79
45 18 0.09
46 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
TTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
Found at i:30913669 original size:132 final size:132
Alignment explanation
Indices: 30912348--30913654 Score: 1957
Period size: 132 Copynumber: 10.0 Consensus size: 132
30912338 GTGAAACACA
* *
30912348 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATATTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
*
30912413 TAGTGGAGCAGATTGAAGACGGA-AAATCTTATCTTT-CAAGATAGTGGGAAGCAGATTTAAGCC
66 TAGTGGAGCAGATCGAAGAC-GACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
30912476 ACC
130 ACC
* *
30912479 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTATAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * *
30912544 TAGTGGAGCAGATCAAAGA-AAGCAAGTCTTATCTTTCCAAGATAGTGGGAAGCAAATTTAAGCC
66 TAGTGGAGCAGATCGAAGACGA-CAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
*
30912608 ACA
130 ACC
* *
30912611 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGAAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* *
30912676 TAGTGGAGCAGATCGAAGACGACAAATATTATCTTTCCAAGATAGTAGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
30912741 CC
131 CC
*
30912743 AAGCCTTGTCTCCCTGAGCACCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * *
30912808 TAGTGGAGCAGATCAAAGACGGCAAGTCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
*
30912873 CA
131 CC
* * * *
30912875 AAGCCTTGTCTCCCTGAGCACCAGC--TG-A-G--G-AGGTTGTAGATCCTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * *
30912933 TAGTGGAGCAAATCGAAAACGACAAATCTTATCTTTCCAAAATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
30912998 CC
131 CC
*
30913000 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * *
30913065 TAGTGGAGCAGATCAAAGACGGCAAGTCTTATCTTTCCAAGATAGTGGGAAGCAGTTTTAAGCCA
66 TAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
*
30913130 CA
131 CC
* * * * *
30913132 AAGCCTTGTCACCTTGAGTAGCAGC-G-G-A-G--G-AGGTTGTAGATCCTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * *
30913190 TAGTGGAGCAAATCGAAGACGACAAATCTTATCTTTCCAAAATAGTAGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
30913255 CC
131 CC
* *
30913257 AAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * *
30913322 TAGTGGAGTAGATCGAAGATGACAAATCTTATCTTTCCAAGACAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
30913387 CC
131 CC
* *
30913389 AAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * *
30913454 TAGTGGAGTACATCGAAGAC-AGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCT
66 TAGTGGAGCAGATCGAAGACGA-CAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
30913518 ACC
130 ACC
*
30913521 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATTTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * * *
30913586 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAAGCAA
66 TAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
30913651 CC
131 CC
30913653 AA
1 AA
30913655 ATCCTATCTC
Statistics
Matches: 1062, Mismatches: 94, Indels: 39
0.89 0.08 0.03
Matches are distributed among these distances:
125 217 0.20
126 3 0.00
127 2 0.00
128 4 0.00
129 5 0.00
130 2 0.00
131 94 0.09
132 734 0.69
133 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (132 bp):
AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CC
Found at i:30915560 original size:16 final size:16
Alignment explanation
Indices: 30915539--30915583 Score: 63
Period size: 16 Copynumber: 2.7 Consensus size: 16
30915529 ATTTTTATTT
30915539 TATTTTTATTTATATG
1 TATTTTTATTTATATG
*
30915555 TATTTTTATCTATATG
1 TATTTTTATTTATATG
30915571 TATATATTTATTT
1 TAT-T-TTTATTT
30915584 TAGTATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 18 0.72
17 1 0.04
18 6 0.24
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (16 bp):
TATTTTTATTTATATG
Found at i:30915582 original size:24 final size:25
Alignment explanation
Indices: 30915549--30915599 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
30915539 TATTTTTATT
*
30915549 TATATGTATTTT-TATCTATATGTA
1 TATATGTATTTTATATATATATGTA
*
30915573 TATATTTATTTTAGTATATATATGTA
1 TATATGTATTTTA-TATATATATGTA
30915599 T
1 T
30915600 GTATACATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.48
26 12 0.52
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (25 bp):
TATATGTATTTTATATATATATGTA
Found at i:30926710 original size:14 final size:14
Alignment explanation
Indices: 30926691--30926721 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
30926681 CTCAGGTTAC
30926691 TTATTTTAATGGGA
1 TTATTTTAATGGGA
30926705 TTA-TTTAATGGGA
1 TTATTTTAATGGGA
30926718 TTAT
1 TTAT
30926722 AATCATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.81
14 3 0.19
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (14 bp):
TTATTTTAATGGGA
Found at i:30928744 original size:13 final size:13
Alignment explanation
Indices: 30928726--30928787 Score: 97
Period size: 13 Copynumber: 4.8 Consensus size: 13
30928716 ACACTCAAAT
30928726 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
30928739 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
* *
30928752 TTCTGAAAATCAC
1 TTCTCAAAAGCAC
*
30928765 TTCTCAAAATCAC
1 TTCTCAAAAGCAC
30928778 TTCTCAAAAG
1 TTCTCAAAAG
30928788 TAATGAAGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.39, C:0.27, G:0.06, T:0.27
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:30929354 original size:15 final size:14
Alignment explanation
Indices: 30929311--30929356 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 14
30929301 AAATATTTTG
30929311 TAAAATTAAATATA
1 TAAAATTAAATATA
*
30929325 -ATAATT-AATA-A
1 TAAAATTAAATATA
30929336 TAAAATTAAATATA
1 TAAAATTAAATATA
*
30929350 TTAAATT
1 TAAAATT
30929357 TTTATATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
11 1 0.04
12 9 0.35
13 9 0.35
14 7 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TAAAATTAAATATA
Found at i:30935094 original size:3 final size:3
Alignment explanation
Indices: 30935086--30935111 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30935076 ACATCATTTA
30935086 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
30935112 CCTCCTTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:30946170 original size:15 final size:14
Alignment explanation
Indices: 30946150--30946181 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
30946140 ATTTCATTAC
30946150 TTATTATAAATATAT
1 TTATTATAAATAT-T
30946165 TTATTATAAATATT
1 TTATTATAAATATT
30946179 TTA
1 TTA
30946182 CATATTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATTATAAATATT
Found at i:30948018 original size:40 final size:41
Alignment explanation
Indices: 30947942--30948018 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
30947932 GGGCATGCGG
* *
30947942 GGATTTAGCGGCGTTTTTTATTAAGCGCCGCTAAAGATCAA
1 GGATTTAGCGGCGTTTTTGATAAAGCGCCGCTAAAGATCAA
* *
30947983 GGATTTAGTGGCGTTTTTGATAAATCGCCGC-AAAGA
1 GGATTTAGCGGCGTTTTTGATAAAGCGCCGCTAAAGA
30948019 AACCTAAGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 5 0.16
41 27 0.84
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (41 bp):
GGATTTAGCGGCGTTTTTGATAAAGCGCCGCTAAAGATCAA
Found at i:30949761 original size:146 final size:147
Alignment explanation
Indices: 30949573--30950037 Score: 374
Period size: 146 Copynumber: 3.2 Consensus size: 147
30949563 TTGCTATTAC
* * ** * * * *
30949573 TGGCGCTTTACA-TAAAACGCCGCAAAATTGTAT-TTATGTTTATCGAAATGTTGTCGTTTTGTC
1 TGGCGCTTTA-ATTAAAACGCCGCAAAAATGT-TCTAACATTTATCGAAACGCTGCCGTTTTGTA
* * * *
30949636 AATGGTATTAGTGGCG-TTTTTTGGAAACGCCACAAGCTTGAGTTAAATGTTGGGGAAACGACTT
64 AATGGTATTAGTGGCGATTTTTTGAAAACGCCACAAGCTTGAGGTAAATGTTGAGGAAACGACTG
*
30949700 CG-TTTGATATTATATTTAG
129 CGTTTTGAT-TTATAGTTAG
* * ** * * *
30949719 TGGCGTTTTACTTAAAACGCCGCAGCATTGTTCTAACATTTATAGAAACGCTGCCGTTTTTTAAA
1 TGGCGCTTTAATTAAAACGCCGCAAAAATGTTCTAACATTTATCGAAACGCTGCCGTTTTGTAAA
* * ** * * * *
30949784 TGTTATTAGTGGCGATTTTTTTAAAACGCCACGGGTTTGAGGTAAGTGTTGATGAAGCGACTGCG
66 TGGTATTAGTGGCGATTTTTTGAAAACGCCACAAGCTTGAGGTAAATGTTGAGGAAACGACTGCG
30949849 TTTTGATTTATAGTTAG
131 TTTTGATTTATAGTTAG
* ** *
30949866 TGGCGCTTTAATTAAAACGCCGCAAAAATGTTTTAACATTTATC-AATACGAGGCCGTTTTGTTG
1 TGGCGCTTTAATTAAAACGCCGCAAAAATGTTCTAACATTTATCGAA-ACGCTGCCGTTTTG-TA
* ** * * * * ** *
30949930 TAT--TATTAGTGGCG-TTTATTCAAAAACACCAC-AGGTGTGCGCTATTTGTTGATGAAACGAC
64 AATGGTATTAGTGGCGATTT-TTTGAAAACGCCACAAGCT-TGAGGTAAATGTTGAGGAAACGAC
* *
30949991 TGCGTTTCGAATTATAGTTAG
127 TGCGTTTTGATTTATAGTTAG
* *
30950012 TGGCAC-TTATTTATAAACGCCGCAAA
1 TGGCGCTTTAATTA-AAACGCCGCAAA
30950038 TGGTTAATTT
Statistics
Matches: 258, Mismatches: 52, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
145 12 0.05
146 141 0.55
147 96 0.37
148 9 0.03
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (147 bp):
TGGCGCTTTAATTAAAACGCCGCAAAAATGTTCTAACATTTATCGAAACGCTGCCGTTTTGTAAA
TGGTATTAGTGGCGATTTTTTGAAAACGCCACAAGCTTGAGGTAAATGTTGAGGAAACGACTGCG
TTTTGATTTATAGTTAG
Found at i:30949870 original size:147 final size:145
Alignment explanation
Indices: 30949627--30950037 Score: 389
Period size: 146 Copynumber: 2.8 Consensus size: 145
30949617 GAAATGTTGT
* * ** * * * **
30949627 CGTTTTGTCAATGGTATTAGTGGCGTTTTTTGGAAACGCCACAAGCTTGAGTTAAATGTTGGGGA
1 CGTTTT-TTAATGTTATTAGTGGCGTTTTTTAAAAACGCCACAGGTTTGAGCTAAATGTTGATGA
* * * * ** *
30949692 AACGACTTCG-TTTGATATTATATTTAGTGGCGTTTTACTTAAAACGCCGCAGCATTGTTCTAAC
65 AACGACTGCGTTTTGAT-TTATAGTTAGTGGCGCTTTAATTAAAACGCCGCAAAAATGTTCTAAC
**
30949756 ATTTAT-AGAAACGCTGC
129 ATTTATCA-AAACGAGGC
* * * *
30949773 CGTTTTTTAAATGTTATTAGTGGCGATTTTTTTAAAACGCCACGGGTTTGAGGTAAGTGTTGATG
1 CGTTTTTT-AATGTTATTAGTGGCG-TTTTTTAAAAACGCCACAGGTTTGAGCTAAATGTTGATG
* *
30949838 AAGCGACTGCGTTTTGATTTATAGTTAGTGGCGCTTTAATTAAAACGCCGCAAAAATGTTTTAAC
64 AAACGACTGCGTTTTGATTTATAGTTAGTGGCGCTTTAATTAAAACGCCGCAAAAATGTTCTAAC
*
30949903 ATTTATCAATACGAGGC
129 ATTTATCAAAACGAGGC
* * * * * * **
30949920 CGTTTTGTT-GTATTATTAGTGGCGTTTATTCAAAAACACCACAGGTGTGCGCTATTTGTTGATG
1 CGTTTT-TTAATGTTATTAGTGGCGTTT-TTTAAAAACGCCACAGGTTTGAGCTAAATGTTGATG
* * * *
30949984 AAACGACTGCGTTTCGAATTATAGTTAGTGGCAC-TTATTTATAAACGCCGCAAA
64 AAACGACTGCGTTTTGATTTATAGTTAGTGGCGCTTTAATTA-AAACGCCGCAAA
30950038 TGGTTAATTT
Statistics
Matches: 219, Mismatches: 39, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
145 10 0.05
146 103 0.47
147 97 0.44
148 9 0.04
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (145 bp):
CGTTTTTTAATGTTATTAGTGGCGTTTTTTAAAAACGCCACAGGTTTGAGCTAAATGTTGATGAA
ACGACTGCGTTTTGATTTATAGTTAGTGGCGCTTTAATTAAAACGCCGCAAAAATGTTCTAACAT
TTATCAAAACGAGGC
Found at i:30952454 original size:13 final size:13
Alignment explanation
Indices: 30952426--30952477 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
30952416 ACTTATTACT
30952426 AATATATATA-TTA
1 AATATAT-TACTTA
*
30952439 AATTTATTACTTA
1 AATATATTACTTA
* *
30952452 AATATGTTGCTTA
1 AATATATTACTTA
*
30952465 AATACATTACTTA
1 AATATATTACTTA
30952478 CTAAAATTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
12 2 0.06
13 29 0.94
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:30952544 original size:36 final size:36
Alignment explanation
Indices: 30952502--30952613 Score: 127
Period size: 36 Copynumber: 3.4 Consensus size: 36
30952492 TACTTATATG
30952502 TAAAATTTAAGTATGTTACTTAAATACATTACTTAC
1 TAAAATTTAAGTATGTTACTTAAATACATTACTTAC
* *
30952538 TAAAATTTAAGTA----AGTT---TAC-TTA--TATG
1 TAAAATTTAAGTATGTTACTTAAATACATTACTTA-C
30952565 TAAAATTTAAGTATGTTACTTAAATACATTACTTAC
1 TAAAATTTAAGTATGTTACTTAAATACATTACTTAC
30952601 TAAAATTTAAGTA
1 TAAAATTTAAGTA
30952614 AGTTTACATA
Statistics
Matches: 61, Mismatches: 4, Indels: 22
0.70 0.05 0.25
Matches are distributed among these distances:
26 2 0.03
27 13 0.21
28 3 0.05
29 3 0.05
31 3 0.05
32 3 0.05
34 3 0.05
35 3 0.05
36 26 0.43
37 2 0.03
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (36 bp):
TAAAATTTAAGTATGTTACTTAAATACATTACTTAC
Found at i:30952570 original size:63 final size:63
Alignment explanation
Indices: 30952449--30952631 Score: 311
Period size: 63 Copynumber: 3.0 Consensus size: 63
30952439 AATTTATTAC
* *
30952449 TTAAATATGTTGCTTAAATACATTACTTACTAAAA-TT---TAAGTTTACTTATATGTAAAAT
1 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
30952508 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
1 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
*
30952571 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACATATATGTAAA
1 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAA
30952632 CTTACATAAT
Statistics
Matches: 117, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
59 33 0.28
60 2 0.02
63 82 0.70
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (63 bp):
TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
Found at i:30952656 original size:23 final size:23
Alignment explanation
Indices: 30952630--30952673 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
30952620 CATATATGTA
*
30952630 AACTTACATAATACATTACTTTT
1 AACTTACATAATACATAACTTTT
30952653 AACTTACATAATACATAACTT
1 AACTTACATAATACATAACTT
30952674 ATAAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (23 bp):
AACTTACATAATACATAACTTTT
Found at i:30952731 original size:38 final size:39
Alignment explanation
Indices: 30952653--30952745 Score: 170
Period size: 38 Copynumber: 2.4 Consensus size: 39
30952643 CATTACTTTT
30952653 AACTTACATAATACATAACTTATAAAATTTTTTTATATA
1 AACTTACATAATACATAACTTATAAAATTTTTTTATATA
*
30952692 AACTTACATAATACATAACTTAT-AATTTTTTTTATATA
1 AACTTACATAATACATAACTTATAAAATTTTTTTATATA
30952730 AACTTACATAATACAT
1 AACTTACATAATACAT
30952746 TTAACTTACA
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 30 0.57
39 23 0.43
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (39 bp):
AACTTACATAATACATAACTTATAAAATTTTTTTATATA
Found at i:30952761 original size:9 final size:9
Alignment explanation
Indices: 30952730--30953115 Score: 287
Period size: 9 Copynumber: 42.4 Consensus size: 9
30952720 TTTTTATATA
30952730 AACTTACAT
1 AACTTACAT
30952739 AA--TACATTT
1 AACTTACA--T
30952748 AACTTACAT
1 AACTTACAT
30952757 AACTTACAT
1 AACTTACAT
* *
30952766 AA--TGCAA
1 AACTTACAT
30952773 AACTTACAT
1 AACTTACAT
30952782 AACAACTTACAT
1 ---AACTTACAT
*
30952794 AACATACAT
1 AACTTACAT
* **
30952803 TACTTTGAT
1 AACTTACAT
30952812 AACTTACAT
1 AACTTACAT
30952821 AACTTACAT
1 AACTTACAT
* *
30952830 AA--TGCAA
1 AACTTACAT
30952837 AACTTACAT
1 AACTTACAT
*
30952846 AAC-AAC-T
1 AACTTACAT
*
30952853 TACTTACAT
1 AACTTACAT
*
30952862 AACATACAT
1 AACTTACAT
* *
30952871 TACTTAAAT
1 AACTTACAT
* *
30952880 TATTTACAT
1 AACTTACAT
30952889 AA--TACAT
1 AACTTACAT
30952896 AACTTAGTACAT
1 AAC-T--TACAT
*
30952908 AATTTACAT
1 AACTTACAT
30952917 AA--TACAT
1 AACTTACAT
30952924 AACTTAGTACAT
1 AAC-T--TACAT
30952936 AACTTACAT
1 AACTTACAT
* *
30952945 AATTTTTTC-T
1 AA--CTTACAT
30952955 AAATTGCTTACAT
1 -AA---CTTACAT
* *
30952968 AAATTATAT
1 AACTTACAT
30952977 AACTTACAT
1 AACTTACAT
30952986 AACTTACATT
1 AACTTACA-T
*
30952996 AA-TTAAAT
1 AACTTACAT
30953004 AACTTACAT
1 AACTTACAT
30953013 AACTTACAT
1 AACTTACAT
30953022 AACTTACAT
1 AACTTACAT
30953031 AACTTACAT
1 AACTTACAT
*
30953040 ATCTTACAT
1 AACTTACAT
30953049 AACTTACAT
1 AACTTACAT
* *
30953058 AAATTAAAT
1 AACTTACAT
30953067 AACTTACAT
1 AACTTACAT
30953076 AACTTACAT
1 AACTTACAT
30953085 AACTTACAT
1 AACTTACAT
*
30953094 AAATTACAT
1 AACTTACAT
30953103 AACTTACAT
1 AACTTACAT
30953112 AACT
1 AACT
30953116 CATTTATAGT
Statistics
Matches: 300, Mismatches: 47, Indels: 60
0.74 0.12 0.15
Matches are distributed among these distances:
7 31 0.10
8 7 0.02
9 216 0.72
10 4 0.01
11 11 0.04
12 30 0.10
13 1 0.00
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (9 bp):
AACTTACAT
Found at i:30952778 original size:16 final size:16
Alignment explanation
Indices: 30952752--30952847 Score: 56
Period size: 16 Copynumber: 6.0 Consensus size: 16
30952742 ACATTTAACT
*
30952752 TACATAACTTACATAA
1 TACAAAACTTACATAA
*
30952768 TGCAAAACTTACAT-A
1 TACAAAACTTACATAA
30952783 -AC--AACTTACATAACA
1 TACAAAACTTACAT-A-A
** **
30952798 TACATTACTTTGATAA
1 TACAAAACTTACATAA
*
30952814 CTTACATAACTTACATAA
1 --TACAAAACTTACATAA
*
30952832 TGCAAAACTTACATAA
1 TACAAAACTTACATAA
30952848 CAACTTACTT
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
12 9 0.15
14 1 0.02
15 2 0.03
16 29 0.48
17 1 0.02
18 19 0.31
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (16 bp):
TACAAAACTTACATAA
Found at i:30952790 original size:12 final size:12
Alignment explanation
Indices: 30952773--30952855 Score: 55
Period size: 12 Copynumber: 6.6 Consensus size: 12
30952763 CATAATGCAA
30952773 AACTTACATAAC
1 AACTTACATAAC
30952785 AACTTACATAAC
1 AACTTACATAAC
* * *
30952797 ATACATTACTTTGAT
1 A-AC-TTAC-ATAAC
30952812 AACTTACAT---
1 AACTTACATAAC
30952821 AACTTACATAATGC
1 AACTTACATAA--C
30952835 AAAACTTACATAAC
1 --AACTTACATAAC
30952849 AACTTAC
1 AACTTAC
30952856 TTACATAACA
Statistics
Matches: 57, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
9 9 0.16
12 21 0.37
13 6 0.11
14 7 0.12
15 3 0.05
16 11 0.19
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (12 bp):
AACTTACATAAC
Found at i:30952823 original size:64 final size:66
Alignment explanation
Indices: 30952747--30952875 Score: 226
Period size: 64 Copynumber: 2.0 Consensus size: 66
30952737 ATAATACATT
30952747 TAACTTACATAACTTACATAATGCAAAACTTACATAAC-A-ACTTACATAACATACATTACTTTG
1 TAACTTACATAACTTACATAATGCAAAACTTACATAACAATACTTACATAACATACATTACTTTG
30952810 A
66 A
30952811 TAACTTACATAACTTACATAATGCAAAACTTACATAACAACTTACTTACATAACATACATTACTT
1 TAACTTACATAACTTACATAATGCAAAACTTACATAACAA--TACTTACATAACATACATTACTT
30952876 AAATTATTTA
Statistics
Matches: 61, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
64 38 0.62
65 1 0.02
68 22 0.36
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (66 bp):
TAACTTACATAACTTACATAATGCAAAACTTACATAACAATACTTACATAACATACATTACTTTG
A
Found at i:30952919 original size:28 final size:28
Alignment explanation
Indices: 30952881--30952947 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
30952871 TACTTAAATT
30952881 ATTTACATAATACATAACTTAGTACATA
1 ATTTACATAATACATAACTTAGTACATA
30952909 ATTTACATAATACATAACTTAGTACATA
1 ATTTACATAATACATAACTTAGTACATA
*
30952937 ACTTACATAAT
1 ATTTACATAAT
30952948 TTTTTCTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (28 bp):
ATTTACATAATACATAACTTAGTACATA
Found at i:30955779 original size:21 final size:21
Alignment explanation
Indices: 30955753--30955809 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
30955743 GTAGAGGCGG
* * *
30955753 CAGCGAGGGAAGCAGATGCTA
1 CAGCGAGAGAAGCAGAGGCCA
*
30955774 CAGCGAGAGAAGTAGAGGCCA
1 CAGCGAGAGAAGCAGAGGCCA
30955795 CAGCGAGAGAAGCAG
1 CAGCGAGAGAAGCAG
30955810 CAATAGAAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.37, C:0.19, G:0.39, T:0.05
Consensus pattern (21 bp):
CAGCGAGAGAAGCAGAGGCCA
Found at i:30956507 original size:42 final size:42
Alignment explanation
Indices: 30956196--30956507 Score: 362
Period size: 42 Copynumber: 7.4 Consensus size: 42
30956186 AATCCCAAAA
* **
30956196 TTAGTGGCGTTTTTTAAAAAAGCGCCGCTAAAGAACACT-A-CT
1 TTAGCGGCGTTTTTT-CCAAAGCGCCGCTAAAGAACA-TGATCT
* ** * *
30956238 ATTAGTGGCG-TTTTTGAACAAGCGCCGCTATAGAACATTA-CTT
1 -TTAGCGGCGTTTTTTCCA-AAGCGCCGCTAAAGAACATGATC-T
*
30956281 TTAGCGGCGTTTTCCTCCAAAGCGCCGCTAAAGAACATGATCT
1 TTAGCGGCGTTTT-TTCCAAAGCGCCGCTAAAGAACATGATCT
* * *
30956324 TTAGCGGCGTTTTTTTCAAAGCGCCGCTAAAGTACACGATCT
1 TTAGCGGCGTTTTTTCCAAAGCGCCGCTAAAGAACATGATCT
* * * *
30956366 TTTGCGGCGTTTTTTTCAAAGCGCCGCTAAAGATCATGTTCT
1 TTAGCGGCGTTTTTTCCAAAGCGCCGCTAAAGAACATGATCT
*
30956408 TTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGATCT
1 TTAGCGGCGTTTTTTCCAAAGCGCCGCTAAAGAACATGATCT
* * *
30956450 GTAGCGGTGTTTTTTCCTAAGCGCCGCTAAAGAACATGATCT
1 TTAGCGGCGTTTTTTCCAAAGCGCCGCTAAAGAACATGATCT
30956492 TTAGCGGCGTTTTTTC
1 TTAGCGGCGTTTTTTC
30956508 TGTAAGCGCC
Statistics
Matches: 237, Mismatches: 26, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
41 3 0.01
42 185 0.78
43 46 0.19
44 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.32
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTCCAAAGCGCCGCTAAAGAACATGATCT
Found at i:30966399 original size:18 final size:17
Alignment explanation
Indices: 30966371--30966413 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
30966361 ATTTTTATAA
*
30966371 ATTGTGAATT-ATATTTG
1 ATTGTGGATTAATA-TTG
30966388 ATATGTGGATTAATATTG
1 AT-TGTGGATTAATATTG
30966406 ATTGTGGA
1 ATTGTGGA
30966414 AGGAAAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.35
18 12 0.52
19 3 0.13
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (17 bp):
ATTGTGGATTAATATTG
Found at i:30966660 original size:23 final size:23
Alignment explanation
Indices: 30966629--30966704 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
30966619 AGTGTTATTG
*
30966629 ATCAGTGGTAGTTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
30966652 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
30966675 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
30966698 ATCAGTG
1 ATCAGTG
30966705 TGGCACTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:30973494 original size:23 final size:23
Alignment explanation
Indices: 30973468--30973512 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
30973458 GTGTTATTTA
*
30973468 TCAGTGGTAGCTTCAGCTACATT
1 TCAGTGGTAGCTACAGCTACATT
30973491 TCAGTGGTAGCTACAGCTACAT
1 TCAGTGGTAGCTACAGCTACAT
30973513 ATCGGTAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (23 bp):
TCAGTGGTAGCTACAGCTACATT
Found at i:30976842 original size:27 final size:27
Alignment explanation
Indices: 30976815--30976911 Score: 86
Period size: 27 Copynumber: 3.6 Consensus size: 27
30976805 CAGCGGGCTA
*
30976815 CCCAGTGTTTGACGTCCTATCAGACTAC
1 CCCA-TGTTTAACGTCCTATCAGACTAC
* **
30976843 CCCATGTTTAACGTCCTATCAGAGTGT
1 CCCATGTTTAACGTCCTATCAGACTAC
* * * **
30976870 CCCGTCTTTAACGTCCCATTGGACTAC
1 CCCATGTTTAACGTCCTATCAGACTAC
* *
30976897 TCCATGTTTAGCGTC
1 CCCATGTTTAACGTC
30976912 TCATCGGACT
Statistics
Matches: 53, Mismatches: 16, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
27 49 0.92
28 4 0.08
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.32
Consensus pattern (27 bp):
CCCATGTTTAACGTCCTATCAGACTAC
Found at i:30980034 original size:45 final size:45
Alignment explanation
Indices: 30979958--30980066 Score: 146
Period size: 45 Copynumber: 2.4 Consensus size: 45
30979948 GACAATCAAC
* *
30979958 GATGCCATAGCATCTTTCAGTTATGGCCCTACCCATTTCAGTCAT
1 GATGTCATAGCATCTTTCAGCTATGGCCCTACCCATTTCAGTCAT
* * * * * *
30980003 GATGTCATAACATCTTTTAGCTATGGTCCTACTCATTTTAGTCTT
1 GATGTCATAGCATCTTTCAGCTATGGCCCTACCCATTTCAGTCAT
30980048 GATGTCATAGCATCTTTCA
1 GATGTCATAGCATCTTTCA
30980067 ACTACGGTCT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (45 bp):
GATGTCATAGCATCTTTCAGCTATGGCCCTACCCATTTCAGTCAT
Found at i:30980084 original size:45 final size:45
Alignment explanation
Indices: 30979991--30980088 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 45
30979981 TGGCCCTACC
* * * * *
30979991 CATTTCAGTCATGATGTCATAACATCTTTTAGCTATGGTCCTACT
1 CATTTTAGTCATGATGTCATAACATCTTTCAACTACGGTCCTAAT
* * *
30980036 CATTTTAGTCTTGATGTCATAGCATCTTTCAACTACGGTCTTAAT
1 CATTTTAGTCATGATGTCATAACATCTTTCAACTACGGTCCTAAT
30980081 CATTTTAG
1 CATTTTAG
30980089 GCATACAACC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.42
Consensus pattern (45 bp):
CATTTTAGTCATGATGTCATAACATCTTTCAACTACGGTCCTAAT
Found at i:30983993 original size:24 final size:24
Alignment explanation
Indices: 30983924--30983993 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
30983914 CATTCCCATT
30983924 TTCACAGCTCGTGTGAGCATTTATA
1 TTCACAGCTCGTGTGAGCA-TTATA
* * ** * *
30983949 ATCATAGCTCAAGAGATCATTATA
1 TTCACAGCTCGTGTGAGCATTATA
*
30983973 TTCACAGCTTGTGTGAGCATT
1 TTCACAGCTCGTGTGAGCATT
30983994 GTTATCCCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 1
0.70 0.28 0.02
Matches are distributed among these distances:
24 19 0.59
25 13 0.41
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (24 bp):
TTCACAGCTCGTGTGAGCATTATA
Found at i:30989074 original size:20 final size:20
Alignment explanation
Indices: 30989045--30989094 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
30989035 CTTGAGTAAA
*
30989045 TTGAAGATTT-ATGATAGAT
1 TTGAATATTTGATGATAGAT
*
30989064 TATGAATATTTGATGTTAGAT
1 T-TGAATATTTGATGATAGAT
*
30989085 TTTAATATTT
1 TTGAATATTT
30989095 TATAAAGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 16 0.62
21 9 0.35
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (20 bp):
TTGAATATTTGATGATAGAT
Found at i:30989759 original size:43 final size:43
Alignment explanation
Indices: 30989663--30989825 Score: 172
Period size: 43 Copynumber: 3.8 Consensus size: 43
30989653 AGGGTTTCTA
*
30989663 AGATTACGTGTAAGACCATATCTGGGATA-TGGCATCGATATG
1 AGATTACGTGTAAGACCATATCTGGGACATTGGCATCGATATG
* * **
30989705 AGAATT-TGTGTAAGACCATGTCTGGGACATTCACATCGATATG
1 AG-ATTACGTGTAAGACCATATCTGGGACATTGGCATCGATATG
* * ** *
30989748 TGATTTCGTGTAAGACCATGGCTGGG-CTATTGGCATCGATACG
1 AGATTACGTGTAAGACCATATCTGGGAC-ATTGGCATCGATATG
* *
30989791 AGATTACATGTAAGACCATATCTGGGATA-TGGCAT
1 AGATTACGTGTAAGACCATATCTGGGACATTGGCAT
30989826 TGTTACGGTA
Statistics
Matches: 99, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 32 0.32
43 67 0.68
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (43 bp):
AGATTACGTGTAAGACCATATCTGGGACATTGGCATCGATATG
Found at i:30992746 original size:17 final size:17
Alignment explanation
Indices: 30992724--30992757 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
30992714 TTTGGTGTGT
30992724 TGGTTAGATTTGTATAA
1 TGGTTAGATTTGTATAA
30992741 TGGTTAGATTTGTATAA
1 TGGTTAGATTTGTATAA
30992758 CCATTTGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (17 bp):
TGGTTAGATTTGTATAA
Found at i:30998696 original size:20 final size:21
Alignment explanation
Indices: 30998671--30998714 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
30998661 GCTCAAACTC
*
30998671 CACCTGCTGCGGAGTAC-ACT
1 CACCTGCTGCGAAGTACTACT
30998691 CACCTGCTGCGAAGTACTACT
1 CACCTGCTGCGAAGTACTACT
30998712 CAC
1 CAC
30998715 TCCTTCTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.23, C:0.36, G:0.20, T:0.20
Consensus pattern (21 bp):
CACCTGCTGCGAAGTACTACT
Found at i:31009009 original size:57 final size:57
Alignment explanation
Indices: 31008947--31009123 Score: 266
Period size: 57 Copynumber: 3.1 Consensus size: 57
31008937 ACTTTAAACA
** * *
31008947 TCATATTCTAACATCAATCCATAAGATCATACCAATTTCACAAAGTTCATTTCCATG
1 TCATATTCTATTATCAATCTATAATATCATACCAATTTCACAAAGTTCATTTCCATG
*
31009004 TCATATTTTATTATCAATCTATAATATCATACCAATTTCACAAAGTTCATTTCCATG
1 TCATATTCTATTATCAATCTATAATATCATACCAATTTCACAAAGTTCATTTCCATG
* *
31009061 TCATATTCTATTATCAATCTATAATATCATACCCATTTCACACAA-TTCATTTCAATG
1 TCATATTCTATTATCAATCTATAATATCATACCAATTTCACA-AAGTTCATTTCCATG
*
31009118 TTATAT
1 TCATAT
31009124 AAAATTAGTT
Statistics
Matches: 110, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
57 108 0.98
58 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.40
Consensus pattern (57 bp):
TCATATTCTATTATCAATCTATAATATCATACCAATTTCACAAAGTTCATTTCCATG
Found at i:31023034 original size:45 final size:45
Alignment explanation
Indices: 31022948--31023034 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 45
31022938 CAGATCCTCG
* *
31022948 GTGGATTCAGCACATAGCAACCACCTTATTAAGCAATGATGTCCA
1 GTGGAATCAGCACATAGCAACCACCTTATTAAGCAAAGATGTCCA
*
31022993 GTGGAATCAGCACATAGCAACCACCTTACTT-ATCAAAGATGT
1 GTGGAATCAGCACATAGCAACCACCTTA-TTAAGCAAAGATGT
31023035 TCGGTTCACA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 36 0.95
46 2 0.05
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTATTAAGCAAAGATGTCCA
Found at i:31023121 original size:51 final size:50
Alignment explanation
Indices: 31023036--31023231 Score: 189
Period size: 51 Copynumber: 3.9 Consensus size: 50
31023026 CAAAGATGTT
* * * *
31023036 CGGTTCACATAGTAGCCTACACGTAGTACTACACATGTGACCATTACCAT-
1 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCA-TACCATC
* * *
31023086 CGGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATC
1 CGG-TACACGTAGTAGCCTACACATAGTACTACACACGTGA-CCATACCATC
* * * * * * *
31023138 CGGTACGCATAGTAGCCTGCACATAGTACAACACATGCGACC-TATCATTC
1 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATACCA-TC
* * *
31023188 CGGTACACGTAGTAGGCTGCACATACTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCAT
31023232 CACTTTCACT
Statistics
Matches: 117, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
49 2 0.02
50 41 0.35
51 69 0.59
52 5 0.04
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATACCATC
Found at i:31023219 original size:101 final size:101
Alignment explanation
Indices: 31023043--31023227 Score: 257
Period size: 101 Copynumber: 1.8 Consensus size: 101
31023033 GTTCGGTTCA
* * *
31023043 CATAGTAGCCTACACGTAGTACTACACATGTGACCATTACCATCGGATACACGTAGTAGCCTACA
1 CATAGTAGCCTACACATAGTACAACACATGCGACCA-TACCATCGGATACACGTAGTAGCCTACA
*
31023108 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
65 CATACTACTACACACGTGATCGAAACTATCCGGTACG
* * * *
31023145 CATAGTAGCCTGCACATAGTACAACACATGCGACC-TATCATTCCGG-TACACGTAGTAGGCTGC
1 CATAGTAGCCTACACATAGTACAACACATGCGACCATACCA-T-CGGATACACGTAGTAGCCTAC
31023208 ACATACTACTACACACGTGA
64 ACATACTACTACACACGTGA
31023228 CCATCACTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
100 4 0.05
101 35 0.48
102 34 0.47
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACAACACATGCGACCATACCATCGGATACACGTAGTAGCCTACAC
ATACTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:31025113 original size:24 final size:25
Alignment explanation
Indices: 31025086--31025152 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
31025076 AAGATCATGC
*
31025086 GAGCCAATAA-CGGGTAGCTCTGAA
1 GAGCCAATAATCGGGAAGCTCTGAA
* *
31025110 GAGCCATTAATCGGGAAGCTCTGGA
1 GAGCCAATAATCGGGAAGCTCTGAA
*
31025135 TAGCC-ATATATCGGGAAG
1 GAGCCAATA-ATCGGGAAG
31025153 TTCAAGCGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 11 0.31
25 25 0.69
ACGTcount: A:0.31, C:0.19, G:0.30, T:0.19
Consensus pattern (25 bp):
GAGCCAATAATCGGGAAGCTCTGAA
Found at i:31025129 original size:25 final size:24
Alignment explanation
Indices: 31025086--31025203 Score: 73
Period size: 25 Copynumber: 4.8 Consensus size: 24
31025076 AAGATCATGC
*
31025086 GAGCCAATAA-CGGGTAGCTCTGAA
1 GAGCC-ATAATCGGGAAGCTCTGAA
*
31025110 GAGCCATTAATCGGGAAGCTCTGGA
1 GAGCCA-TAATCGGGAAGCTCTGAA
* *
31025135 TAGCCATATATCGGGAAG-T-TCAA
1 GAGCCATA-ATCGGGAAGCTCTGAA
* * *
31025158 GCGAGCTAT-ATCGGGAAGCTCCGTA
1 --GAGCCATAATCGGGAAGCTCTGAA
* *
31025183 GAGCTATTAATCAGGAAGCTC
1 GAGCCA-TAATCGGGAAGCTC
31025204 ACAAAGAGCC
Statistics
Matches: 74, Mismatches: 11, Indels: 17
0.73 0.11 0.17
Matches are distributed among these distances:
23 18 0.24
24 13 0.18
25 43 0.58
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (24 bp):
GAGCCATAATCGGGAAGCTCTGAA
Found at i:31032183 original size:39 final size:40
Alignment explanation
Indices: 31032106--31032252 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
31032096 TAGCTCCTCG
* * *
31032106 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
31032146 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
31032185 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
31032225 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
31032253 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:31032263 original size:80 final size:80
Alignment explanation
Indices: 31032152--31032332 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
31032142 CTCATTCAAT
* * *
31032152 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
31032215 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
31032231 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
31032295 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
31032312 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
31032333 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:31032292 original size:40 final size:40
Alignment explanation
Indices: 31032149--31032332 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
31032139 TAACTCATTC
* *
31032149 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
31032189 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
31032229 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
31032269 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
31032310 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
31032333 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:31040031 original size:39 final size:40
Alignment explanation
Indices: 31039954--31040100 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
31039944 TAGCTCCTCG
* * *
31039954 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
31039994 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
31040033 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
31040073 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
31040101 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:31040111 original size:80 final size:80
Alignment explanation
Indices: 31040000--31040180 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
31039990 CTCATTCAAT
* * *
31040000 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
31040063 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
31040079 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
31040143 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
31040160 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
31040181 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:31040140 original size:40 final size:40
Alignment explanation
Indices: 31039997--31040180 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
31039987 TAACTCATTC
* *
31039997 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
31040037 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
31040077 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
31040117 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
31040158 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
31040181 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:31047179 original size:40 final size:40
Alignment explanation
Indices: 31047127--31047258 Score: 210
Period size: 40 Copynumber: 3.3 Consensus size: 40
31047117 GTAAATTATA
*
31047127 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAC
1 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCAGTAC
* *
31047167 CCCTAATTGCACTTACGTGCCCCTGTTTGTACTTCAGTGC
1 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCAGTAC
*
31047207 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCAATAC
1 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCAGTAC
* *
31047247 CCATGAATGCAC
1 CCCTGATTGCAC
31047259 ATTGGTTCCC
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (40 bp):
CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCAGTAC
Found at i:31047240 original size:20 final size:20
Alignment explanation
Indices: 31047127--31047231 Score: 124
Period size: 20 Copynumber: 5.2 Consensus size: 20
31047117 GTAAATTATA
31047127 CCCTGATTGCACTTACGTGC
1 CCCTGATTGCACTTACGTGC
* * *
31047147 CCCTGTTTGTACTT-CGGTAC
1 CCCTGATTGCACTTAC-GTGC
*
31047167 CCCTAATTGCACTTACGTGC
1 CCCTGATTGCACTTACGTGC
* *
31047187 CCCTGTTTGTACTT-CAGTGC
1 CCCTGATTGCACTTAC-GTGC
31047207 CCCTGATTGCACTTACGTGC
1 CCCTGATTGCACTTACGTGC
31047227 CCCTG
1 CCCTG
31047232 TTTGTACTTC
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
19 2 0.03
20 65 0.94
21 2 0.03
ACGTcount: A:0.13, C:0.34, G:0.19, T:0.33
Consensus pattern (20 bp):
CCCTGATTGCACTTACGTGC
Found at i:31047306 original size:80 final size:80
Alignment explanation
Indices: 31047127--31047280 Score: 213
Period size: 80 Copynumber: 1.9 Consensus size: 80
31047117 GTAAATTATA
** * *
31047127 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTAATTGCACTTACGTGCCCCTG
1 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCAATACCCATAATTGCACTTACGTGCCCCTA
*
31047192 TTTGTACTTCAGTGC
66 TTTGCACTTCAGTGC
* *
31047207 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCAATACCCATGAA-TGCACATT-GGTTCCCC
1 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCAATACCCAT-AATTGCAC-TTACGTGCCCC
31047270 TATTTGCACTT
64 TATTTGCACTT
31047281 TGATTCCCCT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 61 0.94
81 4 0.06
ACGTcount: A:0.16, C:0.32, G:0.17, T:0.35
Consensus pattern (80 bp):
CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCAATACCCATAATTGCACTTACGTGCCCCTA
TTTGCACTTCAGTGC
Found at i:31048986 original size:12 final size:12
Alignment explanation
Indices: 31048969--31048994 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31048959 GCAGTTACAT
31048969 GGCCTAGCACAC
1 GGCCTAGCACAC
31048981 GGCCTAGCACAC
1 GGCCTAGCACAC
31048993 GG
1 GG
31048995 GCTTGTGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (12 bp):
GGCCTAGCACAC
Found at i:31050287 original size:18 final size:17
Alignment explanation
Indices: 31050260--31050303 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
31050250 TAATCATCAT
31050260 TTTATTTAAACTTT-AAC
1 TTTATTTAAA-TTTAAAC
31050277 TTTAGTTTAAATTTAAAC
1 TTTA-TTTAAATTTAAAC
*
31050295 TTTAATTAA
1 TTTATTTAA
31050304 GTTAAAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (17 bp):
TTTATTTAAATTTAAAC
Found at i:31050312 original size:24 final size:24
Alignment explanation
Indices: 31050263--31050310 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
31050253 TCATCATTTT
* *
31050263 ATTTAAACTTTAACTTTAGTTTAA
1 ATTTAAACTTTAACTTAAGTTAAA
31050287 ATTTAAACTTTAA-TTAAGTTAAA
1 ATTTAAACTTTAACTTAAGTTAAA
31050310 A
1 A
31050311 ATCTTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (24 bp):
ATTTAAACTTTAACTTAAGTTAAA
Found at i:31054550 original size:85 final size:85
Alignment explanation
Indices: 31054406--31054584 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
31054396 GGCCGGCCAT
*
31054406 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGAAGTGCATTAT
31054471 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
31054491 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGAAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGAAGTGCATTAT
31054556 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
31054576 GAGCATGGG
1 GAGCATGGG
31054585 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGAAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:31055884 original size:79 final size:81
Alignment explanation
Indices: 31055748--31055930 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
31055738 TCGAATGATG
* *
31055748 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
31055812 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
31055827 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
31055889 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
31055907 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
31055931 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:31055946 original size:40 final size:40
Alignment explanation
Indices: 31055749--31055932 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
31055739 CGAATGATGT
* * * *
31055749 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
31055789 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
31055829 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
31055867 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
31055908 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
31055933 AACGAGTATC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:31055954 original size:79 final size:79
Alignment explanation
Indices: 31055801--31055955 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
31055791 GGACTAAGAT
* **
31055801 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
31055866 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
31055880 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TATC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
31055943 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
31055956 ATTCGAAGGT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.61
80 24 0.36
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:31059601 original size:57 final size:57
Alignment explanation
Indices: 31059533--31059647 Score: 162
Period size: 57 Copynumber: 2.0 Consensus size: 57
31059523 ACTCATCTCA
* *
31059533 AATATCATATTCTATCATCAATCCATAAGA-TAATAC-CAATTTCACATAGTTCATTTC
1 AATATCATATTCTATCATCAATCCATAAGAGT-ATACAC-ATTTCACACAATTCATTTC
* *
31059590 AATATCATATTCTATTATCAATCTATAAGAGTATACACATTTCACACAATTCATTTC
1 AATATCATATTCTATCATCAATCCATAAGAGTATACACATTTCACACAATTCATTTC
31059647 A
1 A
31059648 TTGTTATATC
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
57 50 0.96
58 2 0.04
ACGTcount: A:0.39, C:0.20, G:0.03, T:0.37
Consensus pattern (57 bp):
AATATCATATTCTATCATCAATCCATAAGAGTATACACATTTCACACAATTCATTTC
Found at i:31061690 original size:4 final size:4
Alignment explanation
Indices: 31061683--31061717 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
31061673 TTTTTCTTTC
*
31061683 AATA AATA AATA TATA AATA AA-A AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA
31061718 TATTAAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:31062013 original size:166 final size:165
Alignment explanation
Indices: 31061734--31062066 Score: 587
Period size: 166 Copynumber: 2.0 Consensus size: 165
31061724 GTTTTAAGTC
31061734 TAAAATTAACAAATTTAATCTTATTTGCTTCAAAATAAAAATTAAAACAATTAAATTAAAGGGTA
1 TAAAATTAACAAATTTAATCTTATTTGCTTCAAAATAAAAATTAAAACAATTAAATTAAAGGGTA
*
31061799 ACCCTATACCATGGTCACTCTAAAATAGGGTTTGTCATATTTTGGTCACTCTAAATTTTTTTTCT
66 ACCCTATACCATGGTCACTCTAAAATAGGGTTTATCATATTTTGGTCACTCTAAA-TTTTTTTCT
* *
31061864 CAATTTAGTCACCTTAATTAGGATAATTGTTTGAAT
130 CAATTTAGTCACCTTAATTAAGATAATTGTTCGAAT
*
31061900 TAAACTTAACAAATTTAATCTTATTTGCTTCAAAATAAAAATTAAAACAATTAAATTAAAGGGTA
1 TAAAATTAACAAATTTAATCTTATTTGCTTCAAAATAAAAATTAAAACAATTAAATTAAAGGGTA
* *
31061965 A-CTTATGCCCATGGTCACTCTAAAATAGGGTTTATCATATTTTGGTCACTCTAAATTTTTTTCT
66 ACCCTAT-ACCATGGTCACTCTAAAATAGGGTTTATCATATTTTGGTCACTCTAAATTTTTTTCT
31062029 CAATTTAGTCACCTTAATTAAGATAATTGTTCGAAT
130 CAATTTAGTCACCTTAATTAAGATAATTGTTCGAAT
31062065 TA
1 TA
31062067 GTCGCTATCG
Statistics
Matches: 160, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
165 49 0.31
166 111 0.69
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (165 bp):
TAAAATTAACAAATTTAATCTTATTTGCTTCAAAATAAAAATTAAAACAATTAAATTAAAGGGTA
ACCCTATACCATGGTCACTCTAAAATAGGGTTTATCATATTTTGGTCACTCTAAATTTTTTTCTC
AATTTAGTCACCTTAATTAAGATAATTGTTCGAAT
Found at i:31064154 original size:78 final size:75
Alignment explanation
Indices: 31064020--31064205 Score: 246
Period size: 78 Copynumber: 2.4 Consensus size: 75
31064010 TACGTGAAGT
* * * *
31064020 CTTTGTGGTGAATTATCTGATAAGCCTTTTTGGCAAATCATCTGATAAGCCTTTGTGGTGCTGAA
1 CTTTATGGTGAATCATCTGATAAGCCTTTGTGGCAAATCATCTGATAAGCCTTTGT-G-GC-AAA
*
31064085 TCATCTGATAAGC
63 TCATCTGATAAAC
* * *
31064098 CTTTATGGTGAATCATTTGATAAGCCTTTGTGGCGAATCATCTGATAAGCCTTTGTGGCAAATTA
1 CTTTATGGTGAATCATCTGATAAGCCTTTGTGGCAAATCATCTGATAAGCCTTTGTGGCAAATCA
31064163 TCTGATAAAC
66 TCTGATAAAC
* * *
31064173 CTCTATGGTGAATCATCTGATAAGTCTCTGTGG
1 CTTTATGGTGAATCATCTGATAAGCCTTTGTGG
31064206 TGTATTGTAT
Statistics
Matches: 96, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
75 42 0.44
76 2 0.02
77 1 0.01
78 51 0.53
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (75 bp):
CTTTATGGTGAATCATCTGATAAGCCTTTGTGGCAAATCATCTGATAAGCCTTTGTGGCAAATCA
TCTGATAAAC
Found at i:31064201 original size:25 final size:25
Alignment explanation
Indices: 31064020--31064207 Score: 214
Period size: 25 Copynumber: 7.4 Consensus size: 25
31064010 TACGTGAAGT
*
31064020 CTTTGTGGTGAATTATCTGATAAGC
1 CTTTGTGGTGAATCATCTGATAAGC
* **
31064045 CTTTTTGGCAAATCATCTGATAAGC
1 CTTTGTGGTGAATCATCTGATAAGC
31064070 CTTTGTGGTGCTGAATCATCTGATAAGC
1 CTTTGT-G-G-TGAATCATCTGATAAGC
* *
31064098 CTTTATGGTGAATCATTTGATAAGC
1 CTTTGTGGTGAATCATCTGATAAGC
*
31064123 CTTTGTGGCGAATCATCTGATAAGC
1 CTTTGTGGTGAATCATCTGATAAGC
** * *
31064148 CTTTGTGGCAAATTATCTGATAAAC
1 CTTTGTGGTGAATCATCTGATAAGC
* * *
31064173 CTCTATGGTGAATCATCTGATAAGT
1 CTTTGTGGTGAATCATCTGATAAGC
*
31064198 CTCTGTGGTG
1 CTTTGTGGTG
31064208 TATTGTATGA
Statistics
Matches: 137, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
25 113 0.82
26 2 0.01
27 2 0.01
28 20 0.15
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (25 bp):
CTTTGTGGTGAATCATCTGATAAGC
Found at i:31074095 original size:48 final size:48
Alignment explanation
Indices: 31074019--31074117 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
31074009 GCTTTCATTG
*
31074019 GCCATTCTCCAACACAAAAAGGCTATAAATGTTATTCACCTACCTTAC
1 GCCACTCTCCAACACAAAAAGGCTATAAATGTTATTCACCTACCTTAC
31074067 GCCACTCTCCAACACAAAAAGGCTATAAATGTTATTCACCTACCTTAC
1 GCCACTCTCCAACACAAAAAGGCTATAAATGTTATTCACCTACCTTAC
31074115 GCC
1 GCC
31074118 GAATGTTTAT
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:0.34, C:0.31, G:0.09, T:0.25
Consensus pattern (48 bp):
GCCACTCTCCAACACAAAAAGGCTATAAATGTTATTCACCTACCTTAC
Found at i:31074161 original size:38 final size:38
Alignment explanation
Indices: 31074118--31074196 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
31074108 ACCTTACGCC
*
31074118 GAATGTTTATCTCTCGGGATGTTACCTTTTTTGAGAAT
1 GAATGTTTATCTCTCGAGATGTTACCTTTTTTGAGAAT
*
31074156 GAATGTTTATCTCTCGAGATGTTACCTTTTTTTAGAAT
1 GAATGTTTATCTCTCGAGATGTTACCTTTTTTGAGAAT
31074194 GAA
1 GAA
31074197 CCATACTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (38 bp):
GAATGTTTATCTCTCGAGATGTTACCTTTTTTGAGAAT
Found at i:31076331 original size:13 final size:13
Alignment explanation
Indices: 31076313--31076338 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31076303 CTTAGGAAGT
31076313 TACTGATTTTTAG
1 TACTGATTTTTAG
31076326 TACTGATTTTTAG
1 TACTGATTTTTAG
31076339 GGATTGTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
TACTGATTTTTAG
Found at i:31076590 original size:3 final size:3
Alignment explanation
Indices: 31076570--31076627 Score: 53
Period size: 3 Copynumber: 19.3 Consensus size: 3
31076560 ACAATTTAAG
* * * * * *
31076570 AAT AAT ATT AAT ATT AAT AAT AAT GAT GAT GAT GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
31076618 AAA AAT AAT A
1 AAT AAT AAT A
31076628 GAAATCTAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:31077300 original size:31 final size:32
Alignment explanation
Indices: 31077238--31077299 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
31077228 CTTATTTAAA
31077238 CCAAATTTTTTCTAAAAACTTCATTTTTTTTC
1 CCAAATTTTTTCTAAAAACTTCATTTTTTTTC
31077270 CCAAATTTTTTCTAAAAACTTCATTTTTTT
1 CCAAATTTTTTCTAAAAACTTCATTTTTTT
31077300 CTTCTTTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (32 bp):
CCAAATTTTTTCTAAAAACTTCATTTTTTTTC
Found at i:31079925 original size:28 final size:28
Alignment explanation
Indices: 31079869--31079925 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
31079859 CTATACTTTT
**
31079869 CCCCAAAACTTTTACTCCCTCACTTTCC
1 CCCCAAAACTTTTACTCCCTCACCATCC
*
31079897 CCCCAAAACTTTTACTATCCTC-CCATCC
1 CCCCAAAACTTTTACT-CCCTCACCATCC
31079925 C
1 C
31079926 ACCCCCTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (28 bp):
CCCCAAAACTTTTACTCCCTCACCATCC
Found at i:31080835 original size:21 final size:22
Alignment explanation
Indices: 31080811--31080852 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
31080801 ACATGTATGC
31080811 AAAATTAAAAT-TAATTTTTTA
1 AAAATTAAAATATAATTTTTTA
*
31080832 AAAATTAAAATATATTTTTTT
1 AAAATTAAAATATAATTTTTT
31080853 TATATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AAAATTAAAATATAATTTTTTA
Found at i:31088829 original size:7 final size:6
Alignment explanation
Indices: 31088793--31088827 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
31088783 TTTTGTATTT
31088793 TTTTAA TTTTAA TTTTAA TTTTAA TTTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA -TTTTAA TTTT
31088828 TATAATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:31094241 original size:30 final size:31
Alignment explanation
Indices: 31094205--31094263 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
31094195 ATTTTTATGC
* *
31094205 TTTTATACTTTT-TGACTTTTTAAAATAATT
1 TTTTATAATTTTATGAATTTTTAAAATAATT
31094235 TTTTATAATTTTATGAATTTTTAAAATAA
1 TTTTATAATTTTATGAATTTTTAAAATAA
31094264 AAAAACTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (31 bp):
TTTTATAATTTTATGAATTTTTAAAATAATT
Found at i:31097222 original size:17 final size:18
Alignment explanation
Indices: 31097174--31097222 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
31097164 TGATTAATTA
31097174 ATTTTAAATCATATATTTC
1 ATTTTAAATC-TATATTTC
*
31097193 ATTATT-TAT-TATATTT-
1 ATT-TTAAATCTATATTTC
31097209 ATTTTAAATCTATA
1 ATTTTAAATCTATA
31097223 ATTTGTGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
15 2 0.08
16 5 0.20
17 11 0.44
19 5 0.20
20 2 0.08
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTAAATCTATATTTC
Found at i:31097757 original size:9 final size:8
Alignment explanation
Indices: 31097726--31097781 Score: 60
Period size: 9 Copynumber: 6.8 Consensus size: 8
31097716 TTTTAATAAA
31097726 AATTTTAT
1 AATTTTAT
*
31097734 AATTTTAA
1 AATTTTAT
31097742 AATTTTTAT
1 AA-TTTTAT
31097751 AACTTTTAT
1 AA-TTTTAT
*
31097760 ATTTTTAAT
1 AATTTT-AT
31097769 AATTTTA-
1 AATTTTAT
31097776 AATTTT
1 AATTTT
31097782 TAAAAGAGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
7 6 0.15
8 14 0.34
9 21 0.51
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (8 bp):
AATTTTAT
Found at i:31097782 original size:8 final size:8
Alignment explanation
Indices: 31097728--31097785 Score: 53
Period size: 8 Copynumber: 6.9 Consensus size: 8
31097718 TTAATAAAAA
31097728 TTTTATAAT
1 TTTTA-AAT
*
31097737 TTTAAAAT
1 TTTTAAAT
*
31097745 TTTTATAAC
1 TTTTA-AAT
*
31097754 TTTTATAT
1 TTTTAAAT
*
31097762 TTTTAATAA
1 TTTTAA-AT
31097771 TTTTAAAT
1 TTTTAAAT
31097779 TTTTAAA
1 TTTTAAA
31097786 AGAGCTTAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
8 21 0.54
9 18 0.46
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (8 bp):
TTTTAAAT
Found at i:31097784 original size:17 final size:16
Alignment explanation
Indices: 31097728--31097783 Score: 76
Period size: 17 Copynumber: 3.3 Consensus size: 16
31097718 TTAATAAAAA
31097728 TTTTATAATTTTAAAAT
1 TTTTATAATTTT-AAAT
*
31097745 TTTTATAACTTTTATAT
1 TTTTATAA-TTTTAAAT
31097762 TTTTAATAATTTTAAAT
1 TTTT-ATAATTTTAAAT
31097779 TTTTA
1 TTTTA
31097784 AAAGAGCTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 1 0.03
17 26 0.74
18 8 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTATAATTTTAAAT
Found at i:31098229 original size:30 final size:27
Alignment explanation
Indices: 31098180--31098234 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 27
31098170 AAAGATATAG
31098180 ACTATTAAAATAATAAAATTATATTTTT
1 ACTATTAAAATAATAAAATTA-ATTTTT
31098208 ACTATTATAAA-AATTACAAATTAATTT
1 ACTATTA-AAATAA-TA-AAATTAATTT
31098235 CACCCCTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 9 0.38
29 9 0.38
30 6 0.25
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (27 bp):
ACTATTAAAATAATAAAATTAATTTTT
Done.