Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 147 of 195
Found at i:24710186 original size:127 final size:127
Alignment explanation
Indices: 24709960--24710216 Score: 442
Period size: 127 Copynumber: 2.0 Consensus size: 127
24709950 CAATTTTTTA
* * * *
24709960 GATAGTTCTATGAACAATATAATCATGTTGGGTGTTTCTTTTGAAAATTTAAACGTAAAGAGTCT
1 GATAGTTCTATAAACAATATAAGCATGTTGGGTATTTCTTTTGAAAATTTAAACGTAAAAAGTCT
*
24710025 TCAATAAGATAGTATGGCAAACTCAAAGTTATAATGTTACAATTTGAGTAATGTGATGTTAT
66 TCAATAAGATAGTATGGCAAACTCAAAGTTATAATATTACAATTTGAGTAATGTGATGTTAT
*
24710087 GATAGTTCTATAAACAATATAAGCATGTTGGGTATTTCTTTTGAAAATTTAAATGTAAAAAGTCT
1 GATAGTTCTATAAACAATATAAGCATGTTGGGTATTTCTTTTGAAAATTTAAACGTAAAAAGTCT
* *
24710152 TCAGTAAGATAGTATGGCAAACTCAAAGTTATAATATTGCAATTTGAGTAATGTGATGTTAT
66 TCAATAAGATAGTATGGCAAACTCAAAGTTATAATATTACAATTTGAGTAATGTGATGTTAT
24710214 GAT
1 GAT
24710217 CTAATGGTTC
Statistics
Matches: 122, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
127 122 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (127 bp):
GATAGTTCTATAAACAATATAAGCATGTTGGGTATTTCTTTTGAAAATTTAAACGTAAAAAGTCT
TCAATAAGATAGTATGGCAAACTCAAAGTTATAATATTACAATTTGAGTAATGTGATGTTAT
Found at i:24712754 original size:15 final size:15
Alignment explanation
Indices: 24712734--24712772 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
24712724 TTGATCGCAT
24712734 AATGGGAAACATTAC
1 AATGGGAAACATTAC
24712749 AATGGGAAACATTAC
1 AATGGGAAACATTAC
24712764 AATGGGAAA
1 AATGGGAAA
24712773 TTTTATATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.49, C:0.10, G:0.23, T:0.18
Consensus pattern (15 bp):
AATGGGAAACATTAC
Found at i:24718464 original size:3 final size:3
Alignment explanation
Indices: 24718458--24718493 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
24718448 AACTTAAATT
* *
24718458 ATA ATA ACA ATA ATA ATA ACA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
24718494 CTTATTATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:24718475 original size:12 final size:12
Alignment explanation
Indices: 24718458--24718493 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
24718448 AACTTAAATT
24718458 ATAATAACAATA
1 ATAATAACAATA
24718470 ATAATAACAATA
1 ATAATAACAATA
*
24718482 ATAATAATAATA
1 ATAATAACAATA
24718494 CTTATTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (12 bp):
ATAATAACAATA
Found at i:24718501 original size:3 final size:3
Alignment explanation
Indices: 24718495--24718534 Score: 53
Period size: 3 Copynumber: 12.7 Consensus size: 3
24718485 ATAATAATAC
*
24718495 TTA TTA TTA TTA TTA TTG TTA TTA TTTA TTA TTA TATA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA T-TA TT
24718535 TCTTGTTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 27 0.82
4 6 0.18
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24719996 original size:17 final size:17
Alignment explanation
Indices: 24719956--24720004 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
24719946 TAATATTGAA
*
24719956 TAAAAAA-TATGAAAAC
1 TAAAAAATTATAAAAAC
*
24719972 CAACAAAATTATAAAAAC
1 TAA-AAAATTATAAAAAC
*
24719990 TAAAAAATAATAAAA
1 TAAAAAATTATAAAA
24720005 TAAAATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 2 0.07
17 15 0.56
18 10 0.37
ACGTcount: A:0.71, C:0.08, G:0.02, T:0.18
Consensus pattern (17 bp):
TAAAAAATTATAAAAAC
Found at i:24720889 original size:16 final size:16
Alignment explanation
Indices: 24720853--24720888 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
24720843 GGATTTGAGC
24720853 AAAAAGGAAAGAACGA
1 AAAAAGGAAAGAACGA
*
24720869 AAAAAGGAAA-AATGA
1 AAAAAGGAAAGAACGA
24720884 AAAAA
1 AAAAA
24720889 AAAATAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.75, C:0.03, G:0.19, T:0.03
Consensus pattern (16 bp):
AAAAAGGAAAGAACGA
Found at i:24721376 original size:120 final size:120
Alignment explanation
Indices: 24721151--24721723 Score: 423
Period size: 120 Copynumber: 4.8 Consensus size: 120
24721141 ACGAGTCAAG
* * * * * ** *
24721151 ATGAAACGACCAGGACTGAGTCAAGGTAAAAAATAAATGACCAGGATGAAACCACAAATCATAA-
1 ATGAAGCGACTAGGACTGATTCAAGGTTAAAAATAAATGATCAGGACAAAACCACGAATCATAAG
* * * * * *
24721215 AGAATAATCTAGACTAAGCCAAGATCAGGTGA-CCGAGACAAAACCATGGGTTAAAA
66 A-AATGATCTGGACTAAGCCAAGATCAGATGATCGGA-ACAAAACCATAGGTAAAAA
** * * *
24721271 ATGAAATGATTAGGACCGATTCAAGGTCAAAAATAAATGATCAGGACAAAACCACGAATCATAAG
1 ATGAAGCGACTAGGACTGATTCAAGGTTAAAAATAAATGATCAGGACAAAACCACGAATCATAAG
* *
24721336 AAATGATCTGGACTAAGCTAAGATTAGATGATCGGAACAAAACCATAGGTAAAAA
66 AAATGATCTGGACTAAGCCAAGATCAGATGATCGGAACAAAACCATAGGTAAAAA
* * * * * * * * * * *
24721391 ATGAAGTGACTAAGATTAAGTCAAGGTTGAAAATAAATGACCAGGATAAAACTATGAGTCATAAG
1 ATGAAGCGACTAGGACTGATTCAAGGTTAAAAATAAATGATCAGGACAAAACCACGAATCATAAG
* * * * * ** * *
24721456 AAATGGTCTGGA-TCGAGCCAAGATTAGGTGACCAGG-ATGAAACCATGGGTTAAAA
66 AAATGATCTGGACT-AAGCCAAGATCAGATGATC-GGAACAAAACCATAGGTAAAAA
* ** * *
24721511 ATGAAGCGACTAGGA-TCGAATTGAA-GTTAAAAATAAATGATTGGGACAAAACCACGAGTTATA
1 ATGAAGCGACTAGGACT-G-ATTCAAGGTTAAAAATAAATGATCAGGACAAAACCACGAATCATA
* * * * * * *
24721574 AGAAATTATCTAGATTAAGCCAAGATCA-AGTGATTGGGATAAAATCATAGGTAAAAAA
64 AGAAATGATCTGGACTAAGCCAAGATCAGA-TGATCGGAACAAAACCATAGGT-AAAAA
* * *
24721632 ATGAAGCGA-TCAAGACTGAGTT-AAGG-TAAAAACTAAATGATC-GCGACAAAACTA-TAAGTC
1 ATGAAGCGACT-AGGACTGA-TTCAAGGTTAAAAA-TAAATGATCAG-GACAAAACCACGAA-TC
* *
24721692 ATAAAAAATGATCTGGACTGAGCCAAGATCAG
61 ATAAGAAATGATCTGGACTAAGCCAAGATCAG
24721724 GTGAGTGAAT
Statistics
Matches: 358, Mismatches: 77, Indels: 34
0.76 0.16 0.07
Matches are distributed among these distances:
119 4 0.01
120 278 0.78
121 75 0.21
122 1 0.00
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.20
Consensus pattern (120 bp):
ATGAAGCGACTAGGACTGATTCAAGGTTAAAAATAAATGATCAGGACAAAACCACGAATCATAAG
AAATGATCTGGACTAAGCCAAGATCAGATGATCGGAACAAAACCATAGGTAAAAA
Found at i:24721625 original size:240 final size:241
Alignment explanation
Indices: 24721164--24721727 Score: 606
Period size: 240 Copynumber: 2.3 Consensus size: 241
24721154 AAACGACCAG
* * ** * * * * * *
24721164 GACTGAGTCAAGGTAAAAAATAAATGACCAG-GATGAAACCACAAATCATAAAGAATAATCTAGA
1 GACTAAGTCAAGGTAAAAACTAAATGACC-GCGACAAAACTATAAGTCATAAAAAATGATCTGGA
* * *
24721228 CTAAGCCAAGATCAGGTGACCGAGACAAAACCATGGGTTAAAAATGAAATGATTAGGACCGATTC
65 CTGAGCCAAGATCAGGTGACCGAGACAAAACCATGGGTTAAAAATGAAACGACTAGGACCGATTC
* *
24721293 AAGGTCAAAAATAAATGATCAGGACAAAACCACGAATCATAAGAAATGATCTGGACTAAGCTAAG
130 AAGGTCAAAAATAAATGATCAGGACAAAACCACGAATCATAAGAAATGATCTAGACTAAGCCAAG
* *
24721358 ATTAGATGATCGGAACAAAACCATAGGT-AAAAAATGAAGTGA-CTAA
195 ATAAGATGATCGGAACAAAACCATAGGTAAAAAAATGAAGCGATC-AA
* * * * * *
24721404 GATTAAGTCAAGGTTGAAAA-TAAATGACCAG-GATAAAACTATGAGTCATAAGAAATGGTCTGG
1 GACTAAGTCAAGG-TAAAAACTAAATGACC-GCGACAAAACTATAAGTCATAAAAAATGATCTGG
* ** * *
24721467 A-TCGAGCCAAGATTAGGTGACC-AGGATGAAACCATGGGTTAAAAATGAAGCGACTAGGATCGA
64 ACT-GAGCCAAGATCAGGTGACCGA-GACAAAACCATGGGTTAAAAATGAAACGACTAGGACCG-
* * ** * * * *
24721530 ATTGAA-GTTAAAAATAAATGATTGGGACAAAACCACGAGTTATAAGAAATTATCTAGATTAAGC
126 ATTCAAGGTCAAAAATAAATGATCAGGACAAAACCACGAATCATAAGAAATGATCTAGACTAAGC
* * * *
24721594 CAAGATCAAG-TGATTGGGATAAAATCATAGGTAAAAAAATGAAGCGATCAA
191 CAAGAT-AAGATGATCGGAACAAAACCATAGGTAAAAAAATGAAGCGATCAA
* * *
24721645 GACTGAGTTAAGGTAAAAACTAAATGATCGCGACAAAACTATAAGTCATAAAAAATGATCTGGAC
1 GACTAAGTCAAGGTAAAAACTAAATGACCGCGACAAAACTATAAGTCATAAAAAATGATCTGGAC
24721710 TGAGCCAAGATCAGGTGA
66 TGAGCCAAGATCAGGTGA
24721728 GTGAATAATG
Statistics
Matches: 267, Mismatches: 47, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
239 2 0.01
240 173 0.65
241 90 0.34
242 2 0.01
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.20
Consensus pattern (241 bp):
GACTAAGTCAAGGTAAAAACTAAATGACCGCGACAAAACTATAAGTCATAAAAAATGATCTGGAC
TGAGCCAAGATCAGGTGACCGAGACAAAACCATGGGTTAAAAATGAAACGACTAGGACCGATTCA
AGGTCAAAAATAAATGATCAGGACAAAACCACGAATCATAAGAAATGATCTAGACTAAGCCAAGA
TAAGATGATCGGAACAAAACCATAGGTAAAAAAATGAAGCGATCAA
Found at i:24722075 original size:23 final size:20
Alignment explanation
Indices: 24722030--24722075 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 20
24722020 CTATTCATGG
*
24722030 CAAAGTATAAAAAAAAAGGA
1 CAAAGTATAAAAAAAAAGAA
24722050 CAAATGTATAAAATTAAAAAGAA
1 CAAA-GTATAAAA--AAAAAGAA
24722073 CAA
1 CAA
24722076 TAAGTCGGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 8 0.36
23 10 0.45
ACGTcount: A:0.67, C:0.07, G:0.11, T:0.15
Consensus pattern (20 bp):
CAAAGTATAAAAAAAAAGAA
Found at i:24722468 original size:95 final size:96
Alignment explanation
Indices: 24722349--24722521 Score: 242
Period size: 95 Copynumber: 1.8 Consensus size: 96
24722339 TTCAATTTGC
* * * * *
24722349 CTTTCAAGGTTTTTAACTCAAACTTTTTCTTTGGGTCCAAGCTA-CCTTTTAAGGTTTTCATCTT
1 CTTTCAAGGTTTTCAACTCAAACTTTTTCTTTAGGTCCAAGCCATCC-TTTAAGGTTTTCAACTC
24722413 GAACTCTTTTTTTTCTTTGGGTTCGAACTGGT
65 GAACTCTTTTTTTTCTTTGGGTTCGAACTGGT
** **
24722445 CTTTCAA-GTTTTCAACTTGAACTTTTTCTTTAGGTCCAAGCCATCCTTTCGGGTTTTCAACTCG
1 CTTTCAAGGTTTTCAACTCAAACTTTTTCTTTAGGTCCAAGCCATCCTTTAAGGTTTTCAACTCG
24722509 AACTCTTTTTTTT
66 AACTCTTTTTTTT
24722522 TAAGGTCAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
95 58 0.87
96 9 0.13
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.47
Consensus pattern (96 bp):
CTTTCAAGGTTTTCAACTCAAACTTTTTCTTTAGGTCCAAGCCATCCTTTAAGGTTTTCAACTCG
AACTCTTTTTTTTCTTTGGGTTCGAACTGGT
Found at i:24727716 original size:18 final size:17
Alignment explanation
Indices: 24727679--24727715 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
24727669 TTTTGAAAAC
24727679 TTTATTTGAAAAGATTT
1 TTTATTTGAAAAGATTT
* *
24727696 TTTATTTGGAAATATTT
1 TTTATTTGAAAAGATTT
24727713 TTT
1 TTT
24727716 TTTAGAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (17 bp):
TTTATTTGAAAAGATTT
Found at i:24727831 original size:5 final size:5
Alignment explanation
Indices: 24727821--24727872 Score: 52
Period size: 5 Copynumber: 9.6 Consensus size: 5
24727811 AAGTGTGTTT
24727821 AAATA AAATA AAATA AAATGAA AAATA AAATGAA AAATA AAATGA AAA-A
1 AAATA AAATA AAATA AAAT--A AAATA AAAT--A AAATA AAAT-A AAATA
24727870 AAA
1 AAA
24727873 AAGTATGATC
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
4 4 0.10
5 24 0.57
6 4 0.10
7 10 0.24
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (5 bp):
AAATA
Found at i:24727874 original size:12 final size:12
Alignment explanation
Indices: 24727821--24727873 Score: 85
Period size: 12 Copynumber: 4.7 Consensus size: 12
24727811 AAGTGTGTTT
24727821 AAATAAAAT--A
1 AAATAAAATGAA
24727831 AAATAAAATGAA
1 AAATAAAATGAA
24727843 AAATAAAATGAA
1 AAATAAAATGAA
24727855 AAATAAAATGAA
1 AAATAAAATGAA
24727867 AAA-AAAA
1 AAATAAAA
24727874 AGTATGATCG
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
10 9 0.22
11 4 0.10
12 28 0.68
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (12 bp):
AAATAAAATGAA
Found at i:24728267 original size:12 final size:12
Alignment explanation
Indices: 24728250--24728275 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24728240 CCAAACCCAG
24728250 AAAATCCAAAAA
1 AAAATCCAAAAA
24728262 AAAATCCAAAAA
1 AAAATCCAAAAA
24728274 AA
1 AA
24728276 TTCAAAAAAT
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:0.77, C:0.15, G:0.00, T:0.08
Consensus pattern (12 bp):
AAAATCCAAAAA
Found at i:24728715 original size:3 final size:3
Alignment explanation
Indices: 24728703--24728764 Score: 67
Period size: 3 Copynumber: 21.7 Consensus size: 3
24728693 AAAAAACTTA
* * *
24728703 AAT AAC AAT AAT AAT AAT ACT AAT AAT AAT AAT AGT AAT -AT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
24728749 AAT -AT ACT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
24728765 AAGATACAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 6 0.12
3 42 0.88
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24728727 original size:15 final size:15
Alignment explanation
Indices: 24728709--24728834 Score: 69
Period size: 15 Copynumber: 7.9 Consensus size: 15
24728699 CTTAAATAAC
24728709 AATAATAATAATACT
1 AATAATAATAATACT
*
24728724 AATAATAATAATAGT
1 AATAATAATAATACT
24728739 AAT-ATAATATAATATACT
1 AATAAT-A-AT-A-ATACT
*
24728757 AATAATAAAAGATAC-
1 AATAATAATA-ATACT
* *
24728772 AATAGTATTAATA-T
1 AATAATAATAATACT
* *
24728786 GATATACTATATTATACT
1 -A-ATAATA-ATAATACT
24728804 ATATGATATAATAATACT
1 A-AT-A-ATAATAATACT
*
24728822 AATAGTAATAATA
1 AATAATAATAATA
24728835 TACTATTATA
Statistics
Matches: 86, Mismatches: 13, Indels: 24
0.70 0.11 0.20
Matches are distributed among these distances:
14 5 0.06
15 34 0.40
16 13 0.15
17 12 0.14
18 18 0.21
19 4 0.05
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (15 bp):
AATAATAATAATACT
Found at i:24729508 original size:119 final size:119
Alignment explanation
Indices: 24729335--24729742 Score: 396
Period size: 118 Copynumber: 3.4 Consensus size: 119
24729325 CAAGATCAAG
* * * * *
24729335 TGATCGAGATGAAACCATGAATCGTATGAGATGATCTAGATTGAGCTAAGATCAAATGATCAGA-
1 TGATCGAGATGAAACCATGAACCATATGAGATGATCTGGATTGAACTAAGATCAAGTGATCAGAG
* *
24729399 ATGAAACCACGAGTTAAAATGAAATGACCAAGATCGAGTCAAGGTAAAAAATAAA
66 ATGAAACCACGAGTCAAAATGAAATGACCAAGACCGAGTCAAGGT-AAAAATAAA
* * * * *
24729454 TGATCGAGATGAAACCATGAGCCAAAATGAAATTATCTGGATTGAACTAA-ATCAAGTGA-CCGA
1 TGATCGAGATGAAACCATGAACC-ATATGAGATGATCTGGATTGAACTAAGATCAAGTGATCAGA
* ** * * **
24729517 GATAAAACCATAAGTCAAAATGAAATGACTAAGACCGAGTCAAAGTTTAAATAAA
65 GATGAAACCACGAGTCAAAATGAAATGACCAAGACCGAGTCAAGGTAAAAATAAA
* * * * * * *
24729572 TAATCAAGATGAAACCATGAATCATATGAGATGATCTGGACT-AAGCCAAGGTCAAGTGAT-TGA
1 TGATCGAGATGAAACCATGAACCATATGAGATGATCTGGATTGAA-CTAAGATCAAGTGATCAGA
* * ** *
24729635 GATGAAATCACGAGTCAAAATGAAATGACCAAGACCAAGTTGAGGTCAAAATAAA
65 GATGAAACCACGAGTCAAAATGAAATGACCAAGACCGAGTCAAGGTAAAAATAAA
* * * * * * *
24729690 TGA-CTAGGATGAAACCATGAGCCATAAGAGATAATCTAGATTGAGCCAAGATC
1 TGATCGA-GATGAAACCATGAACCATATGAGATGATCTGGATTGAACTAAGATC
24729743 GGGTAAATGA
Statistics
Matches: 231, Mismatches: 51, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
116 2 0.01
117 20 0.09
118 121 0.52
119 68 0.29
120 20 0.09
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (119 bp):
TGATCGAGATGAAACCATGAACCATATGAGATGATCTGGATTGAACTAAGATCAAGTGATCAGAG
ATGAAACCACGAGTCAAAATGAAATGACCAAGACCGAGTCAAGGTAAAAATAAA
Found at i:24740320 original size:37 final size:37
Alignment explanation
Indices: 24740274--24740358 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 37
24740264 AAAGAAAGAC
* * *
24740274 AAATGAATAATTAAGTAAGTATACA-CAATGAAAAGGA
1 AAATAAATAATTAAGCAAATATA-AGCAATGAAAAGGA
* *
24740311 AAATAAATAATAAAGCAAATATAAGCAATGAAAGGGA
1 AAATAAATAATTAAGCAAATATAAGCAATGAAAAGGA
*
24740348 ATA-AAATAATT
1 AAATAAATAATT
24740359 TCAAATTTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
36 8 0.20
37 32 0.80
ACGTcount: A:0.60, C:0.05, G:0.14, T:0.21
Consensus pattern (37 bp):
AAATAAATAATTAAGCAAATATAAGCAATGAAAAGGA
Found at i:24741267 original size:5 final size:5
Alignment explanation
Indices: 24741214--24741260 Score: 76
Period size: 5 Copynumber: 9.0 Consensus size: 5
24741204 TAAAATGGGT
24741214 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TGAAAA TGAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T-AAAA T-AAAA
24741261 AAGAAAACCT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 31 0.76
6 10 0.24
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:24742112 original size:3 final size:3
Alignment explanation
Indices: 24742106--24742137 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
24742096 CATAAATAAT
24742106 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
24742138 TAATAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:24742239 original size:18 final size:18
Alignment explanation
Indices: 24742216--24742276 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
24742206 ATAATATGTT
24742216 ATACTATATGA-TATAATA
1 ATACTATAT-ACTATAATA
*
24742234 ATACTA-ATAGTAATAAT-
1 ATACTATATACT-ATAATA
24742251 ATACTATTATACTATAATA
1 ATACTA-TATACTATAATA
24742270 ATA-TATA
1 ATACTATA
24742277 CAAAAAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
16 1 0.03
17 11 0.30
18 18 0.49
19 7 0.19
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.39
Consensus pattern (18 bp):
ATACTATATACTATAATA
Found at i:24742248 original size:47 final size:47
Alignment explanation
Indices: 24742136--24742248 Score: 115
Period size: 47 Copynumber: 2.4 Consensus size: 47
24742126 CAACAACAAC
*
24742136 AATAATAATAATAGTATTATAATATAATATAATATACTAATAATGAA
1 AATAATAATAATAGTAATATAATATAATATAATATACTAATAATGAA
* * * **
24742183 AGATAA-AATAGTATTAATATGATATAATATGTTATACT-AT-ATGATA
1 A-ATAATAATAATAGTAATATAATATAATATAATATACTAATAATGA-A
*
24742229 TAATAATACTAATAGTAATA
1 -AATAATAATAATAGTAATA
24742249 ATATACTATT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
45 4 0.08
46 7 0.13
47 38 0.72
48 4 0.08
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (47 bp):
AATAATAATAATAGTAATATAATATAATATAATATACTAATAATGAA
Found at i:24747605 original size:43 final size:44
Alignment explanation
Indices: 24747537--24747627 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 44
24747527 GCAATAAAGA
* * * *
24747537 AAAACAAATGAGTAATTAAGCAAGTATAAACAGTGAAAAGGAAT
1 AAAACAAATGAATAATAAAGCAAGTATAAACAATGAAAAAGAAT
* * *
24747581 AAAA-AAATGAATAATAAAGTAAGTATTAGCAATGAAAAAGAAT
1 AAAACAAATGAATAATAAAGCAAGTATAAACAATGAAAAAGAAT
24747624 AAAA
1 AAAA
24747628 TAATTTCAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 36 0.90
44 4 0.10
ACGTcount: A:0.62, C:0.04, G:0.15, T:0.19
Consensus pattern (44 bp):
AAAACAAATGAATAATAAAGCAAGTATAAACAATGAAAAAGAAT
Found at i:24749378 original size:18 final size:18
Alignment explanation
Indices: 24749357--24749391 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24749347 TTAAATATCT
24749357 AAATTAAAATAAAATTTA
1 AAATTAAAATAAAATTTA
* *
24749375 AAATTTAAATCAAATTT
1 AAATTAAAATAAAATTT
24749392 TGTTATAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTAAAATAAAATTTA
Found at i:24750938 original size:18 final size:20
Alignment explanation
Indices: 24750899--24750944 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
24750889 TTTAAGTTAA
24750899 TTTTATTTTCTAACATTATT
1 TTTTATTTTCTAACATTATT
24750919 TTTTATTTT-TAAC-TCT-TT
1 TTTTATTTTCTAACAT-TATT
24750937 TTTTATTT
1 TTTTATTT
24750945 GCTTTACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.44
19 5 0.20
20 9 0.36
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTATTTTCTAACATTATT
Found at i:24753468 original size:20 final size:20
Alignment explanation
Indices: 24753429--24753471 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
24753419 CTAATTTGAT
* **
24753429 TTTTATTAAAAGATTGATTA
1 TTTTATTAAAAAATAAATTA
24753449 TTTTATTAAAAAATAAATTA
1 TTTTATTAAAAAATAAATTA
24753469 TTT
1 TTT
24753472 GAAAAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTTATTAAAAAATAAATTA
Found at i:24754282 original size:18 final size:17
Alignment explanation
Indices: 24754248--24754298 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
24754238 CACATTTTGG
* *
24754248 ATATTATACATACGTAT
1 ATATTATATATATGTAT
24754265 ATATATATATATATGTAT
1 ATAT-TATATATATGTAT
*
24754283 GTATGTATATATATGT
1 ATAT-TATATATATGT
24754299 GCCTATTTCG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 4 0.14
18 25 0.86
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (17 bp):
ATATTATATATATGTAT
Found at i:24757008 original size:19 final size:20
Alignment explanation
Indices: 24756986--24757027 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
24756976 TCAATTTCAA
24756986 TTTC-AATTT-TAATTTTTCT
1 TTTCTAATTTCTAATTTTT-T
*
24757005 TTTCTATTTTCTAATTTTTT
1 TTTCTAATTTCTAATTTTTT
24757025 TTT
1 TTT
24757028 TTCTATTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 8 0.40
21 8 0.40
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTCTAATTTCTAATTTTTT
Found at i:24757039 original size:15 final size:17
Alignment explanation
Indices: 24757001--24757040 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
24756991 ATTTTAATTT
24757001 TTCTTTTCTATTTTCTAA
1 TTCTTTT-TATTTTCTAA
24757019 TT-TTTTT-TTTTCT-A
1 TTCTTTTTATTTTCTAA
24757033 TTCTTTTT
1 TTCTTTTT
24757041 CTATTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.14
15 11 0.52
16 1 0.05
17 4 0.19
18 2 0.10
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (17 bp):
TTCTTTTTATTTTCTAA
Found at i:24757411 original size:22 final size:24
Alignment explanation
Indices: 24757380--24757436 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 24
24757370 TGCATGATAT
24757380 TTTGCATATTTA-TTATTTGCATGA
1 TTTGC-TATTTATTTATTTGCATGA
24757404 -TTGCTA-TTATTTATTTGCATGA
1 TTTGCTATTTATTTATTTGCATGA
*
24757426 TTTGATATTTA
1 TTTGCTATTTA
24757437 CATGTTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 3 0.10
22 14 0.48
23 9 0.31
24 3 0.10
ACGTcount: A:0.25, C:0.07, G:0.12, T:0.56
Consensus pattern (24 bp):
TTTGCTATTTATTTATTTGCATGA
Found at i:24758672 original size:24 final size:24
Alignment explanation
Indices: 24758638--24758685 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
24758628 TGCCACTATT
*
24758638 TTTTGTAATTTAACGACGTTTATC
1 TTTTGTAATTTAACGACATTTATC
* *
24758662 TTTTGTGATTTAGCGACATTTATC
1 TTTTGTAATTTAACGACATTTATC
24758686 CGTAAAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.50
Consensus pattern (24 bp):
TTTTGTAATTTAACGACATTTATC
Found at i:24759505 original size:21 final size:19
Alignment explanation
Indices: 24759481--24759544 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 19
24759471 AATTATTTTC
24759481 TTATCTTTTTTGATTATTTAT
1 TTAT-TTTTTTG-TTATTTAT
24759502 TTATTTGTTTTGTTGA-TTAT
1 TTATTT-TTTTGTT-ATTTAT
*
24759522 TTATTTTTTT-TCATTTGAT
1 TTATTTTTTTGTTATTT-AT
24759541 TTAT
1 TTAT
24759545 CTTTAATTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
17 1 0.03
18 3 0.08
19 10 0.26
20 14 0.37
21 10 0.26
ACGTcount: A:0.17, C:0.03, G:0.08, T:0.72
Consensus pattern (19 bp):
TTATTTTTTTGTTATTTAT
Found at i:24761200 original size:13 final size:13
Alignment explanation
Indices: 24761167--24761191 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24761157 ATATATTTTC
24761167 AATAAAAAATAAA
1 AATAAAAAATAAA
24761180 AATAAAAAATAA
1 AATAAAAAATAA
24761192 TAATTAAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AATAAAAAATAAA
Found at i:24771588 original size:8 final size:8
Alignment explanation
Indices: 24771577--24771736 Score: 120
Period size: 8 Copynumber: 20.4 Consensus size: 8
24771567 GGTTTTGGGG
24771577 TTTAAGGT
1 TTTAAGGT
24771585 TTT-AGTGT
1 TTTAAG-GT
24771593 TTT-AGGT
1 TTTAAGGT
*
24771600 TTTAGGGT
1 TTTAAGGT
*
24771608 TTCAAGGT
1 TTTAAGGT
24771616 TTTAAGGT
1 TTTAAGGT
24771624 TTTAAGGT
1 TTTAAGGT
24771632 TTT-AGAGT
1 TTTAAG-GT
* *
24771640 TTCAAGATT
1 TTTAAG-GT
*
24771649 TTTATGGT
1 TTTAAGGT
24771657 TTT-AGAGT
1 TTTAAG-GT
24771665 TTT-AGTGT
1 TTTAAG-GT
24771673 TTT-A-GT
1 TTTAAGGT
*
24771679 TTCAAGGT
1 TTTAAGGT
*
24771687 TTTAGGGT
1 TTTAAGGT
*
24771695 TTTAGGGT
1 TTTAAGGT
*
24771703 TTTAGGGT
1 TTTAAGGT
*
24771711 TTCAAGGT
1 TTTAAGGT
*
24771719 TTCAAGGT
1 TTTAAGGT
24771727 TTT-AGGT
1 TTTAAGGT
24771734 TTT
1 TTT
24771737 TTTAGGGTTT
Statistics
Matches: 128, Mismatches: 17, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
6 4 0.03
7 18 0.14
8 98 0.77
9 8 0.06
ACGTcount: A:0.19, C:0.03, G:0.26, T:0.51
Consensus pattern (8 bp):
TTTAAGGT
Found at i:24771642 original size:32 final size:31
Alignment explanation
Indices: 24771566--24771754 Score: 177
Period size: 32 Copynumber: 5.7 Consensus size: 31
24771556 TTGAGTTTCA
*
24771566 AGGTTTTGGGGTTT-AAGGTTTT-AGTGTTTT
1 AGGTTTTAGGGTTTCAAGGTTTTAAG-GTTTT
24771596 AGGTTTTAGGGTTTCAAGGTTTTAAGGTTTT
1 AGGTTTTAGGGTTTCAAGGTTTTAAGGTTTT
* * *
24771627 AAGGTTTTAGAGTTTCAAGATTTTTATGGTTTT
1 -AGGTTTTAGGGTTTCAAG-GTTTTAAGGTTTT
*
24771660 AGAGTTTTAGTGTTTTAGTTTCAAGGTTTTAGGGTTTT
1 AG-GTTTTAG-G-----GTTTCAAGGTTTTAAGGTTTT
*
24771698 AGGGTTTTAGGGTTTCAAGGTTTCAAGGTTTT
1 A-GGTTTTAGGGTTTCAAGGTTTTAAGGTTTT
24771730 AGGTTTTTTTAGGGTTTC-AGGTTTT
1 AGG---TTTTAGGGTTTCAAGGTTTT
24771755 TCCTTTTATC
Statistics
Matches: 134, Mismatches: 10, Indels: 27
0.78 0.06 0.16
Matches are distributed among these distances:
30 13 0.10
31 15 0.11
32 41 0.31
33 24 0.18
34 12 0.09
37 1 0.01
38 19 0.14
39 9 0.07
ACGTcount: A:0.18, C:0.03, G:0.28, T:0.51
Consensus pattern (31 bp):
AGGTTTTAGGGTTTCAAGGTTTTAAGGTTTT
Found at i:24771728 original size:16 final size:16
Alignment explanation
Indices: 24771560--24771720 Score: 130
Period size: 16 Copynumber: 9.8 Consensus size: 16
24771550 GGGTTTTTGA
*
24771560 GTTTCAAGGTTTTGGG
1 GTTTCAAGGTTTTAGG
*
24771576 GTTT-AAGGTTTTAGT
1 GTTTCAAGGTTTTAGG
*
24771591 GTTT-TAGGTTTTAGG
1 GTTTCAAGGTTTTAGG
*
24771606 GTTTCAAGGTTTTAAG
1 GTTTCAAGGTTTTAGG
* *
24771622 GTTTTAAGGTTTTAGA
1 GTTTCAAGGTTTTAGG
* *
24771638 GTTTCAAGATTTTTATG
1 GTTTCAAG-GTTTTAGG
*
24771655 GTTT-TAGAGTTTTAGTG
1 GTTTCAAG-GTTTTAG-G
24771672 TTTTAGTTTCAAGGTTTTAGG
1 -----GTTTCAAGGTTTTAGG
* *
24771693 GTTTTAGGGTTTTAGG
1 GTTTCAAGGTTTTAGG
24771709 GTTTCAAGGTTT
1 GTTTCAAGGTTT
24771721 CAAGGTTTTA
Statistics
Matches: 115, Mismatches: 21, Indels: 18
0.75 0.14 0.12
Matches are distributed among these distances:
15 26 0.23
16 65 0.57
17 10 0.09
21 1 0.01
22 11 0.10
23 2 0.02
ACGTcount: A:0.19, C:0.03, G:0.28, T:0.50
Consensus pattern (16 bp):
GTTTCAAGGTTTTAGG
Found at i:24774317 original size:15 final size:16
Alignment explanation
Indices: 24774284--24774317 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
24774274 AATTTATGCA
24774284 AAATTAGCCCAATAAC
1 AAATTAGCCCAATAAC
*
24774300 AAATTATCCCAA-AAC
1 AAATTAGCCCAATAAC
24774315 AAA
1 AAA
24774318 ACTCATTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.24, G:0.03, T:0.18
Consensus pattern (16 bp):
AAATTAGCCCAATAAC
Found at i:24781004 original size:357 final size:357
Alignment explanation
Indices: 24780349--24781180 Score: 1269
Period size: 357 Copynumber: 2.3 Consensus size: 357
24780339 CTTCAGTTAT
*
24780349 TATCTTAAATATATGCCTTCAATAATAGTGTTAGAATTTGTGTGGCAGTATATAGAAGGCATTTG
1 TATCTTAAATATACGCCTTCAATAATAGTGTTAGAATTTGTGTGGCAGTATATAGAAGGCATTTG
* *
24780414 ATAGTAGATGACACCTTTAATAATTTCTAAAATATTTAGTGGAAAAATTTTGAAAGCGTCTGTTA
66 ATAGTAGAAGACGCCTTTAATAATTTCTAAAATATTTAGTGGAAAAATTTTGAAAGCGTCTGTTA
* *
24780479 TTAACAAACGCCTTCATTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGCCTTTTCTAATA
131 TTAACAAACGCCTTCACTAATGGATTACTAAGTTTAAAAGTATATTGAAGGTGCCTTTTCTAATA
* *
24780544 AATGCCTTCCATTACCATCATGGTATATTGAAGGCAGTTTATAATAAAAGAGGCCTTTAAAAATT
196 AATGCCTTCCATTACCATCATGGTATATTGAAGGCAGTTTATAATAAAAGACGCCTTTAAAAATC
* ** * * *
24780609 TGTGAAAAGTTTTTGAGCAAAATTATTGAAGGCATTGTTTTCTGTAACTACCATCAATTATTATC
261 TGCGAAAAGTTTTTGAAAAAAATTATTAAAGGCATTGTTTTCTGCAACCACCATCAATTATTATC
24780674 TACAAACTATAATAGGAATTATTAAAGGCATC
326 TACAAACTATAATAGGAATTATTAAAGGCATC
* * **
24780706 TATCTTAAATATACGCCTTCAATAACAGTGTTAGATTTTGTGTGGTGGTATATAGAAGGCATTTG
1 TATCTTAAATATACGCCTTCAATAATAGTGTTAGAATTTGTGTGGCAGTATATAGAAGGCATTTG
* * **
24780771 ATAGTAGAAGATGCCTTTAATAATTCCTAAAATATTTAGTGGAAAAATTTTGAGGGCGTCTGTTA
66 ATAGTAGAAGACGCCTTTAATAATTTCTAAAATATTTAGTGGAAAAATTTTGAAAGCGTCTGTTA
* *
24780836 TTAACAAATGCCTTCACTAATGGATTACTAGGTTTAAAAGTATATTGAAGGTGCCTTTTCTAATA
131 TTAACAAACGCCTTCACTAATGGATTACTAAGTTTAAAAGTATATTGAAGGTGCCTTTTCTAATA
*
24780901 AACT-CCTTCCATTACCATCATGGTATATTGAAGG-TGATTTATAATAAAAGACGCCTTTAAAAA
196 AA-TGCCTTCCATTACCATCATGGTATATTGAAGGCAG-TTTATAATAAAAGACGCCTTTAAAAA
* * *
24780964 TCTGCGAAAA-TATTTT-AAAAGAAATTATTAAAGGCATTGTTTTCTGCAACCGCCTTCAGTTAT
259 TCTGCGAAAAGT-TTTTGAAAA-AAATTATTAAAGGCATTGTTTTCTGCAACCACCATCAATTAT
* *
24781027 TATCTACAAACTATGATAGGAATTATTAAAGGCGTC
322 TATCTACAAACTATAATAGGAATTATTAAAGGCATC
* * *
24781063 TATCTTAAATATACGCCTT-AATAATAGTGTTAAAATTTGTGTGACAGTATATAAAAGGCATTTG
1 TATCTTAAATATACGCCTTCAATAATAGTGTTAGAATTTGTGTGGCAGTATATAGAAGGCATTTG
* * * *
24781127 ACAATAGAAGACGCCTTTAATAATTTTTAAAATATTTAGTGGGAAAATTTTGAA
66 ATAGTAGAAGACGCCTTTAATAATTTCTAAAATATTTAGTGGAAAAATTTTGAA
24781181 GGTGTTGTTT
Statistics
Matches: 428, Mismatches: 43, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
356 89 0.21
357 338 0.79
358 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (357 bp):
TATCTTAAATATACGCCTTCAATAATAGTGTTAGAATTTGTGTGGCAGTATATAGAAGGCATTTG
ATAGTAGAAGACGCCTTTAATAATTTCTAAAATATTTAGTGGAAAAATTTTGAAAGCGTCTGTTA
TTAACAAACGCCTTCACTAATGGATTACTAAGTTTAAAAGTATATTGAAGGTGCCTTTTCTAATA
AATGCCTTCCATTACCATCATGGTATATTGAAGGCAGTTTATAATAAAAGACGCCTTTAAAAATC
TGCGAAAAGTTTTTGAAAAAAATTATTAAAGGCATTGTTTTCTGCAACCACCATCAATTATTATC
TACAAACTATAATAGGAATTATTAAAGGCATC
Found at i:24789958 original size:18 final size:18
Alignment explanation
Indices: 24789937--24789973 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
24789927 GTTTGTATTT
*
24789937 ACTACATTCATTGCATTC
1 ACTACATTCATTACATTC
*
24789955 ACTATATTCATTACATTC
1 ACTACATTCATTACATTC
24789973 A
1 A
24789974 TGAATTGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.41
Consensus pattern (18 bp):
ACTACATTCATTACATTC
Found at i:24790372 original size:44 final size:44
Alignment explanation
Indices: 24790324--24790436 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
24790314 GTGGGGGAGT
** *
24790324 ATTTTATTTTTTTTTAAGTTTCAAAACC-CTAGTTATGGA-GAAGC
1 ATTTTATTTTTTTAAAAGTTTCAAAACCTC-AGTTATGAAGGAA-C
* *
24790368 ATTTTATTTTTCTAAAAGTTTCAAAACCTCAGTTGTGAAGGAAC
1 ATTTTATTTTTTTAAAAGTTTCAAAACCTCAGTTATGAAGGAAC
*
24790412 ATTTTATTTTTTGAAAAGTTTCAAA
1 ATTTTATTTTTTTAAAAGTTTCAAA
24790437 GCCTATGTTG
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
44 56 0.93
45 4 0.07
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (44 bp):
ATTTTATTTTTTTAAAAGTTTCAAAACCTCAGTTATGAAGGAAC
Found at i:24790727 original size:13 final size:12
Alignment explanation
Indices: 24790704--24790738 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
24790694 TTTAGTGTAG
24790704 TTTAATTTTAAT
1 TTTAATTTTAAT
24790716 TTTAAGTTTTAATT
1 TTTAA-TTTTAA-T
24790730 TTTAATTTT
1 TTTAATTTT
24790739 TTTTTGTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.24
13 10 0.48
14 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (12 bp):
TTTAATTTTAAT
Found at i:24790739 original size:7 final size:6
Alignment explanation
Indices: 24790704--24790738 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
24790694 TTTAGTGTAG
24790704 TTTAAT TTTAAT TTTAAGT TTTAATT TTTAAT TTT
1 TTTAAT TTTAAT TTTAA-T TTTAA-T TTTAAT TTT
24790739 TTTTTGTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 15 0.56
7 12 0.44
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (6 bp):
TTTAAT
Found at i:24791702 original size:19 final size:18
Alignment explanation
Indices: 24791663--24791731 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
24791653 GATTGTAGGT
**
24791663 TTTTATTTTTCTTTTTCA
1 TTTTATTTTTCAATTTCA
24791681 TTTTATTTTTCAATTTCAA
1 TTTTATTTTTCAATTTC-A
24791700 TTTT-TATTTTCAA-TTC-
1 TTTTAT-TTTTCAATTTCA
* *
24791716 TTTAATTTTTTAATTT
1 TTTTATTTTTCAATTT
24791732 TTGTTTTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
16 9 0.21
17 3 0.07
18 19 0.44
19 12 0.28
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATTTTTCAATTTCA
Found at i:24792053 original size:15 final size:15
Alignment explanation
Indices: 24792033--24792070 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
24792023 GCATGATCAT
24792033 TTATTAATTGCAT-A
1 TTATTAATTGCATGA
*
24792047 GTTATTATTTGCATGA
1 -TTATTAATTGCATGA
24792063 TTATTAAT
1 TTATTAAT
24792071 ATAGTTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 19 0.95
16 1 0.05
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.53
Consensus pattern (15 bp):
TTATTAATTGCATGA
Found at i:24792080 original size:20 final size:20
Alignment explanation
Indices: 24792055--24792102 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
24792045 TAGTTATTAT
*
24792055 TTGCATGATTATTAATATAG
1 TTGCATGATTATCAATATAG
* *
24792075 TTGCATGATTATCAATTTAT
1 TTGCATGATTATCAATATAG
24792095 TTGCATGA
1 TTGCATGA
24792103 CTTTTATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (20 bp):
TTGCATGATTATCAATATAG
Found at i:24792205 original size:20 final size:20
Alignment explanation
Indices: 24792052--24792210 Score: 65
Period size: 20 Copynumber: 7.6 Consensus size: 20
24792042 GCATAGTTAT
24792052 TATTTGCATGA-TTATTAATA
1 TATTTGCATGATTTATTAA-A
* * *
24792072 TAGTTGCATGA-TTATCAATT
1 TATTTGCATGATTTATTAA-A
* *
24792092 TATTTGCATGACTT-TTATA
1 TATTTGCATGATTTATTAAA
* * * * *
24792111 TTTTTGCATGAATAAATATA
1 TATTTGCATGATTTATTAAA
*
24792131 T-TTTGCATGATATTTTGTATATTTA
1 TATTTGCATGAT-TTAT-TA-A---A
**
24792156 TTATTTGCATGATTACTATTATT
1 -TATTTGCATGATT--TATTAAA
*
24792179 TAGTTGCATGATTTATTAAA
1 TATTTGCATGATTTATTAAA
24792199 TATTTGCATGAT
1 TATTTGCATGAT
24792211 ATTTTGGTAT
Statistics
Matches: 104, Mismatches: 23, Indels: 24
0.69 0.15 0.16
Matches are distributed among these distances:
19 20 0.19
20 51 0.49
21 4 0.04
22 12 0.12
25 1 0.01
26 2 0.02
27 12 0.12
28 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (20 bp):
TATTTGCATGATTTATTAAA
Found at i:24795399 original size:2 final size:2
Alignment explanation
Indices: 24795392--24795418 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24795382 GAATATGGAA
24795392 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
24795419 CACACTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24796575 original size:14 final size:14
Alignment explanation
Indices: 24796556--24796582 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24796546 AAAAATATAA
24796556 TTAATAATTAAAAT
1 TTAATAATTAAAAT
24796570 TTAATAATTAAAA
1 TTAATAATTAAAA
24796583 GACCTTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAATAATTAAAAT
Found at i:24797378 original size:30 final size:30
Alignment explanation
Indices: 24797344--24797402 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
24797334 TAAAATAACA
* *
24797344 ACAAACATATTAAATCTTAACTTAATCATT
1 ACAAACATATTAAATCCTAACCTAATCATT
*
24797374 ACAAATATATTAAATCCTAACCTAATCAT
1 ACAAACATATTAAATCCTAACCTAATCAT
24797403 ACTGCACATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (30 bp):
ACAAACATATTAAATCCTAACCTAATCATT
Found at i:24798617 original size:13 final size:13
Alignment explanation
Indices: 24798601--24798625 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24798591 TTTGTATTTT
24798601 TTATTTTATTTAG
1 TTATTTTATTTAG
24798614 TTATTTTATTTA
1 TTATTTTATTTA
24798626 TGTGTTTGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTATTTTATTTAG
Found at i:24803150 original size:21 final size:21
Alignment explanation
Indices: 24803126--24803165 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
24803116 AACCAAAGAA
24803126 AGAAAAGAAAAAATGAAAATG
1 AGAAAAGAAAAAATGAAAATG
*
24803147 AGAAGAGAAAAAATGAAAA
1 AGAAAAGAAAAAATGAAAA
24803166 AAAAATGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.07
Consensus pattern (21 bp):
AGAAAAGAAAAAATGAAAATG
Found at i:24803169 original size:10 final size:11
Alignment explanation
Indices: 24803154--24803193 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
24803144 ATGAGAAGAG
24803154 AAAAAATGAAA
1 AAAAAATGAAA
24803165 AAAAAATGAAA
1 AAAAAATGAAA
24803176 AAAAGAGA-GAAA
1 AAAA-A-ATGAAA
24803188 AAAAAA
1 AAAAAA
24803194 CTCAAATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 1 0.04
11 16 0.59
12 9 0.33
13 1 0.04
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (11 bp):
AAAAAATGAAA
Found at i:24803192 original size:34 final size:34
Alignment explanation
Indices: 24803089--24803193 Score: 99
Period size: 36 Copynumber: 3.1 Consensus size: 34
24803079 AGATATCAAT
* * *
24803089 AATGAAAAAAAAAAAGAGAAAAAGAAGAACCAAAGA
1 AATGAAAAAAAAAATGAAAAAAAGAAGAA--AAAAA
** *
24803125 AA-GAAAAGAAAAAATGAAAATGAGAAG-AGAAAA
1 AATGAAAA-AAAAAATGAAAAAAAGAAGAAAAAAA
24803158 AATG-AAAAAAAAATGAAAAAAAGAGAGAAAAAAA
1 AATGAAAAAAAAAATGAAAAAAAGA-AGAAAAAAA
24803192 AA
1 AA
24803194 CTCAAATTGA
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
32 15 0.27
33 10 0.18
34 8 0.14
35 6 0.11
36 17 0.30
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (34 bp):
AATGAAAAAAAAAATGAAAAAAAGAAGAAAAAAA
Found at i:24803694 original size:21 final size:20
Alignment explanation
Indices: 24803648--24803695 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
24803638 TGTATTCCTT
**
24803648 TAAAAAAAAATCTAAGATGA
1 TAAAAAAAAATAAAAGATGA
*
24803668 TGAAAAAAAAATGAAAAGATGG
1 T-AAAAAAAAAT-AAAAGATGA
24803690 TAAAAA
1 TAAAAA
24803696 TCTAAAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 15 0.65
22 7 0.30
ACGTcount: A:0.67, C:0.02, G:0.15, T:0.17
Consensus pattern (20 bp):
TAAAAAAAAATAAAAGATGA
Found at i:24804361 original size:21 final size:21
Alignment explanation
Indices: 24804341--24804520 Score: 177
Period size: 21 Copynumber: 8.5 Consensus size: 21
24804331 ATGAGTTTTT
*
24804341 AAATGAGAATCTTTAAGTTTTT
1 AAATGAGAATCTTTAAG-TTTC
*
24804363 ACATGAGAATC-TTAGAGTTTC
1 AAATGAGAATCTTTA-AGTTTC
*
24804384 AAATGAGAATCTTTGAGTTTC
1 AAATGAGAATCTTTAAGTTTC
* * *
24804405 ACATGAGAATATTTGAGTTTC
1 AAATGAGAATCTTTAAGTTTC
* *
24804426 AAAGGAGAATATTTGAA-TTTC
1 AAATGAGAATCTTT-AAGTTTC
*
24804447 AAATGAGAATCTTTGAGTTTC
1 AAATGAGAATCTTTAAGTTTC
*
24804468 AAATGAGAATCATTGAA-TTTC
1 AAATGAGAATC-TTTAAGTTTC
* **
24804489 AAATAAGAATCTTTGGGTTTTC
1 AAATGAGAATCTTTAAG-TTTC
24804511 AAATGAGAAT
1 AAATGAGAAT
24804521 TTTTGAGATA
Statistics
Matches: 132, Mismatches: 19, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
20 3 0.02
21 98 0.74
22 31 0.23
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (21 bp):
AAATGAGAATCTTTAAGTTTC
Found at i:24804423 original size:42 final size:42
Alignment explanation
Indices: 24804332--24804527 Score: 230
Period size: 42 Copynumber: 4.6 Consensus size: 42
24804322 GATAAAATTA
* * * *
24804332 TGAGTTTTTAAATGAGAATCTTTAAGTTTTTACATGAGAATCTT
1 TGAG-TTTCAAATGAGAATCTTTGAG-TTTCAAATGAGAATCTT
* * *
24804376 AGAGTTTCAAATGAGAATCTTTGAGTTTCACATGAGAATATT
1 TGAGTTTCAAATGAGAATCTTTGAGTTTCAAATGAGAATCTT
* * *
24804418 TGAGTTTCAAAGGAGAATATTTGAATTTCAAATGAGAATCTT
1 TGAGTTTCAAATGAGAATCTTTGAGTTTCAAATGAGAATCTT
* * *
24804460 TGAGTTTCAAATGAGAATCATTGAATTTCAAATAAGAATCTT
1 TGAGTTTCAAATGAGAATCTTTGAGTTTCAAATGAGAATCTT
* *
24804502 TGGGTTTTCAAATGAGAATTTTTGAG
1 TGAG-TTTCAAATGAGAATCTTTGAG
24804528 ATATGAAACT
Statistics
Matches: 132, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
42 92 0.70
43 37 0.28
44 3 0.02
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (42 bp):
TGAGTTTCAAATGAGAATCTTTGAGTTTCAAATGAGAATCTT
Found at i:24804449 original size:63 final size:64
Alignment explanation
Indices: 24804380--24804527 Score: 201
Period size: 63 Copynumber: 2.3 Consensus size: 64
24804370 AATCTTAGAG
* * *
24804380 TTTCAAATGAGAATCTTTGAGTTTCACATGAGAAT-ATTTGAGTTTCAAAGGAGAATATTT-GAA
1 TTTCAAATGAGAATCTTTGAGTTTCAAATGAGAATCA-TTGAATTTCAAAGAAGAATATTTGGAA
* * **
24804443 TTTCAAATGAGAATCTTTGAGTTTCAAATGAGAATCATTGAATTTCAAATAAGAATCTTTGGGT
1 TTTCAAATGAGAATCTTTGAGTTTCAAATGAGAATCATTGAATTTCAAAGAAGAATATTTGGAA
*
24804507 TTTCAAATGAGAATTTTTGAG
1 TTTCAAATGAGAATCTTTGAG
24804528 ATATGAAACT
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
63 53 0.71
64 22 0.29
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (64 bp):
TTTCAAATGAGAATCTTTGAGTTTCAAATGAGAATCATTGAATTTCAAAGAAGAATATTTGGAA
Found at i:24805199 original size:43 final size:43
Alignment explanation
Indices: 24805126--24805240 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 43
24805116 GTCGACAGCC
*
24805126 TTATTTATTTTTCTAAAGTTATTGAGCCTCTGATTAGAGAAGCT
1 TTATTTATTTTTC-AAAGTTATTAAGCCTCTGATTAGAGAAGCT
* * * *
24805170 TTATTTATTTTTCAAAGTTGTTAAGCCTCTGCTTAGAGGAGTT
1 TTATTTATTTTTCAAAGTTATTAAGCCTCTGATTAGAGAAGCT
* * *
24805213 TTATTTATTTTCCAAAGTCATTGAGCCT
1 TTATTTATTTTTCAAAGTTATTAAGCCT
24805241 ATGAAGTTTG
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
43 49 0.79
44 13 0.21
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.46
Consensus pattern (43 bp):
TTATTTATTTTTCAAAGTTATTAAGCCTCTGATTAGAGAAGCT
Found at i:24805280 original size:16 final size:16
Alignment explanation
Indices: 24805259--24805292 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
24805249 TGAGTACGCT
24805259 TAAAAAATA-CAAAAAA
1 TAAAAAA-ACCAAAAAA
24805275 TAAAAAAACCAAAAAA
1 TAAAAAAACCAAAAAA
24805291 TA
1 TA
24805293 GTGTATTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 16 0.94
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (16 bp):
TAAAAAAACCAAAAAA
Found at i:24806852 original size:13 final size:13
Alignment explanation
Indices: 24806817--24806848 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
24806807 AGATATATTT
24806817 TTAATAA-AAAAA
1 TTAATAATAAAAA
24806829 TTAATAATAAAAA
1 TTAATAATAAAAA
24806842 -TAATAAT
1 TTAATAAT
24806849 TAAATCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAATAATAAAAA
Found at i:24806979 original size:14 final size:14
Alignment explanation
Indices: 24806956--24806989 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
24806946 GATAGAGAAT
*
24806956 CTTAAGTATTAATA
1 CTTAAATATTAATA
*
24806970 TTTAAATATTAATA
1 CTTAAATATTAATA
24806984 CTTAAA
1 CTTAAA
24806990 ACCATTAGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (14 bp):
CTTAAATATTAATA
Found at i:24809193 original size:16 final size:17
Alignment explanation
Indices: 24809172--24809209 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
24809162 ATTATGATAT
24809172 AAAAATTAAA-TTG-AAG
1 AAAAA-TAAATTTGAAAG
24809188 AAAAATAAATTTGAAAG
1 AAAAATAAATTTGAAAG
24809205 AAAAA
1 AAAAA
24809210 AGTAATGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 8 0.40
17 8 0.40
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (17 bp):
AAAAATAAATTTGAAAG
Found at i:24815156 original size:28 final size:29
Alignment explanation
Indices: 24815125--24815192 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
24815115 AAAGTGGTTC
*
24815125 ACCAAGCTA-GATTTAAGGTCAAGTTATT
1 ACCAAGATAGGATTTAAGGTCAAGTTATT
* *
24815153 ACCAGGATAGGATTTAAGGTCAGGTTATT
1 ACCAAGATAGGATTTAAGGTCAAGTTATT
*
24815182 ACCAGGATAGG
1 ACCAAGATAGG
24815193 GAAATGAGCC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
28 7 0.19
29 29 0.81
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (29 bp):
ACCAAGATAGGATTTAAGGTCAAGTTATT
Found at i:24815166 original size:29 final size:29
Alignment explanation
Indices: 24815134--24815192 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
24815124 CACCAAGCTA
24815134 GATTTAAGGTCAAGTTATTACCAGGATAG
1 GATTTAAGGTCAAGTTATTACCAGGATAG
*
24815163 GATTTAAGGTCAGGTTATTACCAGGATAG
1 GATTTAAGGTCAAGTTATTACCAGGATAG
24815192 G
1 G
24815193 GAAATGAGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.31
Consensus pattern (29 bp):
GATTTAAGGTCAAGTTATTACCAGGATAG
Found at i:24821600 original size:153 final size:153
Alignment explanation
Indices: 24821322--24821628 Score: 452
Period size: 153 Copynumber: 2.0 Consensus size: 153
24821312 AGTGTGAACC
* * * *
24821322 CTAAAAGTATTAATAGTGAACAACATAAATACCCTTATAAATTTTAAGAAATAACAAATTTATTT
1 CTAAAAGTATTAAAAATGAACAACATAAATACCCTTATAAATTTTAAAAAATAACAAATTTATAT
* ** * *
24821387 TTAAATTTTTAGCATTTTTTAATTATTTAATAATGAGTATTTATCATTAAATATATAGCTTTTAT
66 TTAAATTTCTAGCATTTTTTAATTATTTAATAAAAAGTATTTATCATTAAAAATATAGCTTGTAT
24821452 TAGTTAGTTATTTAAATTTAAAT
131 TAGTTAGTTATTTAAATTTAAAT
* * * *
24821475 CTAAAAGTGTTAAAAATGAATAACATAAATATCTTTATAAATTTTAAAAAATAACAAATTTATAT
1 CTAAAAGTATTAAAAATGAACAACATAAATACCCTTATAAATTTTAAAAAATAACAAATTTATAT
* * * *
24821540 TTGAATTTCTAGCATTTTTTATTTATTTAATAAAAATTATTTGTCATTAAAAATATAGCTTGTAT
66 TTAAATTTCTAGCATTTTTTAATTATTTAATAAAAAGTATTTATCATTAAAAATATAGCTTGTAT
*
24821605 TTGTTAGTTATTTAAATTTAAAT
131 TAGTTAGTTATTTAAATTTAAAT
24821628 C
1 C
24821629 AATTAAAAAT
Statistics
Matches: 136, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
153 136 1.00
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (153 bp):
CTAAAAGTATTAAAAATGAACAACATAAATACCCTTATAAATTTTAAAAAATAACAAATTTATAT
TTAAATTTCTAGCATTTTTTAATTATTTAATAAAAAGTATTTATCATTAAAAATATAGCTTGTAT
TAGTTAGTTATTTAAATTTAAAT
Found at i:24823100 original size:17 final size:17
Alignment explanation
Indices: 24823078--24823112 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
24823068 ATGCATGTTT
24823078 AACTAATTCTTCAATTC
1 AACTAATTCTTCAATTC
24823095 AACTAATTCTTCAATTC
1 AACTAATTCTTCAATTC
24823112 A
1 A
24823113 TAAAGAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (17 bp):
AACTAATTCTTCAATTC
Found at i:24823584 original size:2 final size:2
Alignment explanation
Indices: 24823577--24823612 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
24823567 AAGATGTTTA
*
24823577 AT AT AT AT AT AT AT AT AT AT AT CT AT AT -T AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24823613 AAATGTGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24824939 original size:114 final size:114
Alignment explanation
Indices: 24824702--24824930 Score: 415
Period size: 114 Copynumber: 2.0 Consensus size: 114
24824692 ATAATAAATA
*
24824702 AATAATAATTTAGTTATAAATAATTGATAAGATAATTGTATGCCAATGATAACATAATAATAAAT
1 AATAATAATTTAGTTATAAATAATTGATAAGATAATTGTATGCCAATGATAACAAAATAATAAAT
*
24824767 ACATAATAATATAGTAGTAAATAGTAAATAACTTAATGGTAAATTATTT
66 ACATAATAATATAGTAGTAAATAGTAAATAACTTAATGATAAATTATTT
*
24824816 AATAATAATTTAGTTATAAATAATTGATAAGATAATTGTATGCCATTGATAACAAAATAATAAAT
1 AATAATAATTTAGTTATAAATAATTGATAAGATAATTGTATGCCAATGATAACAAAATAATAAAT
24824881 ACATAATAATATAGTAGTAAAT-GATAAATAACTTAATGATAAATTATTT
66 ACATAATAATATAGTAGTAAATAG-TAAATAACTTAATGATAAATTATTT
24824930 A
1 A
24824931 TATGTAATTG
Statistics
Matches: 111, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
113 1 0.01
114 110 0.99
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (114 bp):
AATAATAATTTAGTTATAAATAATTGATAAGATAATTGTATGCCAATGATAACAAAATAATAAAT
ACATAATAATATAGTAGTAAATAGTAAATAACTTAATGATAAATTATTT
Found at i:24825009 original size:65 final size:63
Alignment explanation
Indices: 24824862--24825057 Score: 164
Period size: 65 Copynumber: 3.0 Consensus size: 63
24824852 TGTATGCCAT
* * * * * *
24824862 TGATAACAAAATAATAAATACATAATAATATAGTAGTAAATGATAAATAACTTAATGATAAATTA
1 TGATAACATAATAGTAAATATATAATAATA-AGTAGTAAATTA-AAATAATTTAAT-ATAAATAA
*
24824927 T
63 G
* ** * *
24824928 TTAT-ATGTAATTGTAAATATATAATAATACAGTAGTAAATTAAGAATAATTTAATAAAAATAAG
1 TGATAACATAATAGTAAATATATAATAATA-AGTAGTAAATTAA-AATAATTTAATATAAATAAG
*
24824992 TGATAACATAATAGTAAA-ATAATGATAACTTAA-TAGTAAATTAATAATAATTTAATAGTAAAT
1 TGATAACATAATAGTAAATAT-ATAATAA--TAAGTAGTAAATTAA-AATAATTTAATA-TAAAT
24825055 AAG
61 AAG
24825058 ATTCAGTTTA
Statistics
Matches: 104, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
64 12 0.12
65 79 0.76
66 11 0.11
67 2 0.02
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.34
Consensus pattern (63 bp):
TGATAACATAATAGTAAATATATAATAATAAGTAGTAAATTAAAATAATTTAATATAAATAAG
Found at i:24825054 original size:22 final size:22
Alignment explanation
Indices: 24824883--24825054 Score: 95
Period size: 22 Copynumber: 7.9 Consensus size: 22
24824873 TAATAAATAC
* * *
24824883 ATAATAATATAGTAGTAAA-TG
1 ATAATAATTTAATAGTAAATTA
*
24824904 ATAAATAACTTAAT-GATAAATTA
1 AT-AATAATTTAATAG-TAAATTA
* * * *
24824927 TTTAT-ATGTAATTGTAAA-TA
1 ATAATAATTTAATAGTAAATTA
** *
24824947 TATAATAATACAGTAGTAAATTA
1 -ATAATAATTTAATAGTAAATTA
* *
24824970 AGAATAATTTAATA--AAAATA
1 ATAATAATTTAATAGTAAATTA
* ** *
24824990 AGTGATAACATAATAGTAAAATA
1 A-TAATAATTTAATAGTAAATTA
* *
24825013 ATGATAACTTAATAGTAAATTA
1 ATAATAATTTAATAGTAAATTA
24825035 ATAATAATTTAATAGTAAAT
1 ATAATAATTTAATAGTAAAT
24825055 AAGATTCAGT
Statistics
Matches: 114, Mismatches: 27, Indels: 19
0.71 0.17 0.12
Matches are distributed among these distances:
20 8 0.07
21 24 0.21
22 71 0.62
23 11 0.10
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.35
Consensus pattern (22 bp):
ATAATAATTTAATAGTAAATTA
Found at i:24825400 original size:22 final size:22
Alignment explanation
Indices: 24825363--24825426 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
24825353 TAAATCATAA
* *
24825363 AGAACTTAATAATAAATTAATG
1 AGAACTTAGTAGTAAATTAATG
* * *
24825385 ATAATTTAGTAGTAAA-TAATTT
1 AGAACTTAGTAGTAAATTAA-TG
24825407 AGAACTTAGTAGT-AATTAAT
1 AGAACTTAGTAGTAAATTAAT
24825427 AATTAAAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
21 6 0.18
22 27 0.82
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.38
Consensus pattern (22 bp):
AGAACTTAGTAGTAAATTAATG
Found at i:24825549 original size:22 final size:22
Alignment explanation
Indices: 24825505--24825897 Score: 199
Period size: 22 Copynumber: 17.9 Consensus size: 22
24825495 ATAATTTTGT
* * *
24825505 ATAGTAAATTAGTGATAACTTA
1 ATAGTAAATCAATAATAACTTA
* * *
24825527 ATAATATATCAATAATAATTTA
1 ATAGTAAATCAATAATAACTTA
*
24825549 ATAGTAAAT-AATTGATAACTTA
1 ATAGTAAATCAA-TAATAACTTA
24825571 ATAGTAAATCAATAATAA-TATA
1 ATAGTAAATCAATAATAACT-TA
*
24825593 TTAGTAAATGC-ATAATAACTTA
1 ATAGTAAAT-CAATAATAACTTA
* *
24825615 ATAGTAAATCAATTATAACATA
1 ATAGTAAATCAATAATAACTTA
* * ** * *
24825637 TTTGTAAATGTATAATAGCATA
1 ATAGTAAATCAATAATAACTTA
* * *
24825659 GTAGTAAATCAATGATAATTTA
1 ATAGTAAATCAATAATAACTTA
** * *
24825681 ATAAAAAATAAATTATAACTTA
1 ATAGTAAATCAATAATAACTTA
* * * *
24825703 ATAGTTAATCATTGATAATTTA
1 ATAGTAAATCAATAATAACTTA
*
24825725 ATAGTAAATCAATGAA-AATTTA
1 ATAGTAAATCAAT-AATAACTTA
* * *
24825747 GTAATAAAT-TATAGATAACTTA
1 ATAGTAAATCAATA-ATAACTTA
** ** **
24825769 ATAGTAAATCTGTTTTAGTTTA
1 ATAGTAAATCAATAATAACTTA
* * * *
24825791 ATAGTAATTAAATTATAAACTAA
1 ATAGTAAATCAATAAT-AACTTA
*
24825814 ATAGTAAATC-ATAAATAACATA
1 ATAGTAAATCAAT-AATAACTTA
* * *
24825836 GA-AATAAATCAATGATAATTTA
1 -ATAGTAAATCAATAATAACTTA
* * ** *
24825858 GTAGTTAATCGCTAA-AACTCA
1 ATAGTAAATCAATAATAACTTA
*
24825879 ATAGTAAATCAATGATAAC
1 ATAGTAAATCAATAATAAC
24825898 ATGGTAGCAA
Statistics
Matches: 269, Mismatches: 86, Indels: 32
0.70 0.22 0.08
Matches are distributed among these distances:
20 1 0.00
21 21 0.08
22 224 0.83
23 23 0.09
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.35
Consensus pattern (22 bp):
ATAGTAAATCAATAATAACTTA
Found at i:24825827 original size:19 final size:19
Alignment explanation
Indices: 24825799--24825840 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
24825789 TAATAGTAAT
*
24825799 TAAATTATAAACTAA-ATAG
1 TAAATCATAAA-TAACATAG
24825818 TAAATCATAAATAACATAG
1 TAAATCATAAATAACATAG
24825837 -AAAT
1 TAAAT
24825841 AAATCAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.29
Consensus pattern (19 bp):
TAAATCATAAATAACATAG
Found at i:24826006 original size:22 final size:22
Alignment explanation
Indices: 24825921--24826009 Score: 101
Period size: 22 Copynumber: 4.1 Consensus size: 22
24825911 CATAATAATA
*
24825921 TATAGTAAA-CATTGATAATTT
1 TATAGTAAATCATTGATAATGT
*
24825942 TATAGTAAATTATTGATAAT-T
1 TATAGTAAATCATTGATAATGT
* * *
24825963 TCATAATAAATCACTAATAATGT
1 T-ATAGTAAATCATTGATAATGT
*
24825986 TATAGTAAATTATTGATAATGT
1 TATAGTAAATCATTGATAATGT
24826008 TA
1 TA
24826010 GGTCAAAGAT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
21 11 0.20
22 43 0.77
23 2 0.04
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (22 bp):
TATAGTAAATCATTGATAATGT
Found at i:24827727 original size:38 final size:38
Alignment explanation
Indices: 24827667--24827739 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
24827657 ACACTTTGGA
*
24827667 AAAACTCCCCCTTAATCAATGCATCCTAATCCAATGGC
1 AAAACTCCCCCTCAATCAATGCATCCTAATCCAATGGC
* **
24827705 AAAACTCCCCCTCACTTTATGCATCCTAATCCAAT
1 AAAACTCCCCCTCAATCAATGCATCCTAATCCAAT
24827740 ACAACTCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.33, C:0.36, G:0.05, T:0.26
Consensus pattern (38 bp):
AAAACTCCCCCTCAATCAATGCATCCTAATCCAATGGC
Found at i:24828288 original size:16 final size:16
Alignment explanation
Indices: 24828269--24828303 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
24828259 ATCCAAGCTC
*
24828269 ATACCAATTGTTAAGG
1 ATACCAATTGTTAAAG
24828285 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
24828301 ATA
1 ATA
24828304 TGTCATCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:24828474 original size:21 final size:22
Alignment explanation
Indices: 24828437--24828501 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
24828427 AAGGTTAACA
*
24828437 GATAACTTAGCTATAAATTAGT
1 GATAATTTAGCTATAAATTAGT
*
24828459 GATAATTTAG-TATAAATTAAT
1 GATAATTTAGCTATAAATTAGT
* * * *
24828480 AATGATTTAGTTGTAAATTAGT
1 GATAATTTAGCTATAAATTAGT
24828502 TAATTATTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
21 18 0.50
22 18 0.50
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.42
Consensus pattern (22 bp):
GATAATTTAGCTATAAATTAGT
Found at i:24828548 original size:22 final size:22
Alignment explanation
Indices: 24828523--24828571 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
24828513 AACTTCTAAG
24828523 TAAATCA-TCAATAACTTTACAA
1 TAAATCAGT-AATAACTTTACAA
* * *
24828545 TAAATTAGTAATAATTTTATAA
1 TAAATCAGTAATAACTTTACAA
24828567 TAAAT
1 TAAAT
24828572 TATAGTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (22 bp):
TAAATCAGTAATAACTTTACAA
Found at i:24828557 original size:11 final size:10
Alignment explanation
Indices: 24828543--24828634 Score: 67
Period size: 11 Copynumber: 8.5 Consensus size: 10
24828533 ATAACTTTAC
24828543 AATAAATTAGT
1 AATAAATTA-T
*
24828554 AATAATTTTAT
1 AATAA-ATTAT
24828565 AATAAATTAT
1 AATAAATTAT
*
24828575 AGTAAATTAGT
1 AATAAATTA-T
*
24828586 AATAACTTTAT
1 AATAA-ATTAT
24828597 AATAAATTAT
1 AATAAATTAT
* *
24828607 CTATAACTTAAT
1 -AATAAATT-AT
*
24828619 AGTAAATTAT
1 AATAAATTAT
24828629 CAATAA
1 -AATAA
24828635 TTTAGTAGTA
Statistics
Matches: 63, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
10 18 0.29
11 37 0.59
12 8 0.13
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (10 bp):
AATAAATTAT
Found at i:24828581 original size:32 final size:32
Alignment explanation
Indices: 24828545--24828606 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
24828535 AACTTTACAA
*
24828545 TAAATTAGTAATAATTTTATAATAAATTATAG
1 TAAATTAGTAATAACTTTATAATAAATTATAG
24828577 TAAATTAGTAATAACTTTATAATAAATTAT
1 TAAATTAGTAATAACTTTATAATAAATTAT
24828607 CTATAACTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.44
Consensus pattern (32 bp):
TAAATTAGTAATAACTTTATAATAAATTATAG
Found at i:24828582 original size:22 final size:22
Alignment explanation
Indices: 24828532--24828573 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
24828522 GTAAATCATC
*
24828532 AATAACTTTACAATAAATTAGT
1 AATAATTTTACAATAAATTAGT
*
24828554 AATAATTTTATAATAAATTA
1 AATAATTTTACAATAAATTA
24828574 TAGTAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (22 bp):
AATAATTTTACAATAAATTAGT
Found at i:24828596 original size:22 final size:22
Alignment explanation
Indices: 24828571--24828681 Score: 109
Period size: 22 Copynumber: 5.0 Consensus size: 22
24828561 TTATAATAAA
24828571 TTATAGTAAATTAGT-AATAACT
1 TTATAGTAAATTA-TCAATAACT
* *
24828593 TTATAATAAATTATCTATAACT
1 TTATAGTAAATTATCAATAACT
*
24828615 TAATAGTAAATTATCAATAA-T
1 TTATAGTAAATTATCAATAACT
* **
24828636 TTAGTAGTAAATCATTTATAACT
1 TTA-TAGTAAATTATCAATAACT
* * *
24828659 TAATAGTAAATCATCTATAACT
1 TTATAGTAAATTATCAATAACT
24828681 T
1 T
24828682 AGTGATAAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
21 4 0.05
22 68 0.91
23 3 0.04
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.41
Consensus pattern (22 bp):
TTATAGTAAATTATCAATAACT
Found at i:24828627 original size:44 final size:44
Alignment explanation
Indices: 24828573--24828691 Score: 143
Period size: 44 Copynumber: 2.7 Consensus size: 44
24828563 ATAATAAATT
*
24828573 ATAGTAAATTAGT-AATAACTTTA-TAATAAATTATCTATAACTTA
1 ATAGTAAATTA-TCAATAA-TTTAGTAATAAATCATCTATAACTTA
* *
24828617 ATAGTAAATTATCAATAATTTAGTAGTAAATCATTTATAACTTA
1 ATAGTAAATTATCAATAATTTAGTAATAAATCATCTATAACTTA
* * * *
24828661 ATAGTAAATCATCTATAACTTAGTGATAAAT
1 ATAGTAAATTATCAATAATTTAGTAATAAAT
24828692 TAATGATAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
43 5 0.08
44 60 0.92
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (44 bp):
ATAGTAAATTATCAATAATTTAGTAATAAATCATCTATAACTTA
Found at i:24828647 original size:76 final size:74
Alignment explanation
Indices: 24828470--24828647 Score: 173
Period size: 76 Copynumber: 2.4 Consensus size: 74
24828460 ATAATTTAGT
* * * * *
24828470 ATAAATTAATAATGATTTAGTTGTAAA-TTAGTTAATTATTAACAACTTCTAAGTAAATCATCAA
1 ATAAATT-ATAATAATTTAGTAGTAAATTTAGTAAATTAGTAACAACTTCTAAATAAATCATCAA
*
24828534 TAACTTTACA
65 TAACTTAACA
* * *
24828544 ATAAATTAGTAATAATTTTA-TAATAAATTATAGTAAATTAGTAATAACTT-TATAATAAATTAT
1 ATAAATTA-TAATAA-TTTAGTAGTAAATT-TAGTAAATTAGTAACAACTTCTA-AATAAATCAT
* *
24828607 CTATAACTTAATA
62 CAATAACTTAACA
*
24828620 GTAAATTATCAATAATTTAGTAGTAAAT
1 ATAAATTAT-AATAATTTAGTAGTAAAT
24828648 CATTTATAAC
Statistics
Matches: 84, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
73 1 0.01
74 17 0.20
75 12 0.14
76 54 0.64
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.40
Consensus pattern (74 bp):
ATAAATTATAATAATTTAGTAGTAAATTTAGTAAATTAGTAACAACTTCTAAATAAATCATCAAT
AACTTAACA
Found at i:24828691 original size:22 final size:22
Alignment explanation
Indices: 24828587--24828682 Score: 120
Period size: 22 Copynumber: 4.4 Consensus size: 22
24828577 TAAATTAGTA
* * *
24828587 ATAACTTTATAATAAATTATCT
1 ATAACTTAATAGTAAATCATCT
* *
24828609 ATAACTTAATAGTAAATTATCA
1 ATAACTTAATAGTAAATCATCT
* * *
24828631 ATAATTTAGTAGTAAATCATTT
1 ATAACTTAATAGTAAATCATCT
24828653 ATAACTTAATAGTAAATCATCT
1 ATAACTTAATAGTAAATCATCT
24828675 ATAACTTA
1 ATAACTTA
24828683 GTGATAAATT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 63 1.00
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCATCT
Found at i:24828693 original size:66 final size:64
Alignment explanation
Indices: 24828561--24828682 Score: 163
Period size: 66 Copynumber: 1.9 Consensus size: 64
24828551 AGTAATAATT
* * *
24828561 TTATAATAAATTATAGTAAATTAGTAATAACTTTATAATAAATTATCTATAACTTAATAGTAAA
1 TTATAATAAATTATAGTAAATCAGTAATAACTTAATAATAAATCATCTATAACTTAATAGTAAA
* * * *
24828625 TTATCAATAATTTAGTAGTAAATCATTTATAACTTAATAGTAAATCATCTATAACTTA
1 TTAT-AATAAATTA-TAGTAAATCAGTAATAACTTAATAATAAATCATCTATAACTTA
24828683 GTGATAAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
64 4 0.08
65 8 0.16
66 37 0.76
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (64 bp):
TTATAATAAATTATAGTAAATCAGTAATAACTTAATAATAAATCATCTATAACTTAATAGTAAA
Found at i:24828711 original size:44 final size:44
Alignment explanation
Indices: 24828609--24828711 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
24828599 TAAATTATCT
* * * *
24828609 ATAACTTAATAGTAAATTATCAATAATTTAGTAGTAAATCATTT
1 ATAACTTAATAGTAAATCATCAATAACTTAGTAGTAAATCAATG
* *
24828653 ATAACTTAATAGTAAATCATCTATAACTTAGT-GATAAATTAATG
1 ATAACTTAATAGTAAATCATCAATAACTTAGTAG-TAAATCAATG
* *
24828697 ATAATTTAAAAGTAA
1 ATAACTTAATAGTAA
24828712 TCAGTGATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
43 1 0.02
44 49 0.98
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.38
Consensus pattern (44 bp):
ATAACTTAATAGTAAATCATCAATAACTTAGTAGTAAATCAATG
Found at i:24828711 original size:66 final size:66
Alignment explanation
Indices: 24828587--24828711 Score: 155
Period size: 66 Copynumber: 1.9 Consensus size: 66
24828577 TAAATTAGTA
* * **
24828587 ATAACTTTATAATAAATTATCTATAACTTAATAGTAAATTATCAATAATTTAGTAGTAAATCATT
1 ATAACTTAATAATAAATCATCTATAACTTAATAGTAAATTATCAATAATTTAAAAGTAAATCATT
24828652 T
66 T
* * *
24828653 ATAACTTAATAGTAAATCATCTATAACTTAGT-GATAAATTAAT-GATAATTTAAAAGTAA
1 ATAACTTAATAATAAATCATCTATAACTTAATAG-TAAATT-ATCAATAATTTAAAAGTAA
24828712 TCAGTGATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
65 1 0.02
66 47 0.94
67 2 0.04
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.39
Consensus pattern (66 bp):
ATAACTTAATAATAAATCATCTATAACTTAATAGTAAATTATCAATAATTTAAAAGTAAATCATT
T
Found at i:24828984 original size:22 final size:22
Alignment explanation
Indices: 24828958--24829329 Score: 86
Period size: 22 Copynumber: 16.8 Consensus size: 22
24828948 CATATATTAA
* *
24828958 TAGTAAAGCATAAATAACTTAG
1 TAGTAAATCATTAATAACTTAG
* *
24828980 TAGTAATTCAATTTATAACTTAG
1 TAGTAAATC-ATTAATAACTTAG
* *
24829003 TAGTAAATAATTAATAACTTAA
1 TAGTAAATCATTAATAACTTAG
* * * *
24829025 TA-TCTAATTATTAAAAAATTAG
1 TAGT-AAATCATTAATAACTTAG
* ** * **
24829047 TAATTGATCAATGGTAA--T--
1 TAGTAAATCATTAATAACTTAG
24829065 TAGTAAATGCA-TAATAA-TATAG
1 TAGTAAAT-CATTAATAACT-TAG
*
24829087 TAGTAAATTATTGAAT---TTAG
1 TAGTAAATCATT-AATAACTTAG
* * *
24829107 TAGTAAATCACTAATAACATAC
1 TAGTAAATCATTAATAACTTAG
* * *
24829129 TAATAAATCATTTATAATTTAG
1 TAGTAAATCATTAATAACTTAG
* * * * *
24829151 TTGTATATCAATGATAATTTAG
1 TAGTAAATCATTAATAACTTAG
* * * *
24829173 TAATAAATTAGTTAATCATTAATAATTG
1 TAGTAAATCA-TTAAT-A--ACT--TAG
* *
24829201 TATAGCAAATCATTTATAACTTCA-
1 --TAGTAAATCATTAATAACTT-AG
* *
24829225 TAGAAAATTAGTT-ATAACTTTA-
1 TAGTAAATCA-TTAATAAC-TTAG
* * *
24829247 TAATAAATTATCAATAACTTAG
1 TAGTAAATCATTAATAACTTAG
* * *
24829269 TAGTAAATTATTCATAACTTAA
1 TAGTAAATCATTAATAACTTAG
* * * *
24829291 TAGTAAATTATTGATAATTTAA
1 TAGTAAATCATTAATAACTTAG
*
24829313 TAATAAATCATTAATAA
1 TAGTAAATCATTAATAA
24829330 TATAATAATA
Statistics
Matches: 256, Mismatches: 68, Indels: 52
0.68 0.18 0.14
Matches are distributed among these distances:
18 9 0.04
19 5 0.02
20 15 0.06
21 7 0.03
22 171 0.67
23 29 0.11
24 2 0.01
26 4 0.02
28 3 0.01
29 4 0.02
30 7 0.03
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (22 bp):
TAGTAAATCATTAATAACTTAG
Found at i:24828999 original size:23 final size:22
Alignment explanation
Indices: 24828970--24829023 Score: 81
Period size: 23 Copynumber: 2.4 Consensus size: 22
24828960 GTAAAGCATA
*
24828970 AATAACTTAGTAGTAATTCAATT
1 AATAACTTAGTAGTAAAT-AATT
*
24828993 TATAACTTAGTAGTAAATAATT
1 AATAACTTAGTAGTAAATAATT
24829015 AATAACTTA
1 AATAACTTA
24829024 ATATCTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (22 bp):
AATAACTTAGTAGTAAATAATT
Found at i:24829342 original size:66 final size:66
Alignment explanation
Indices: 24829207--24829344 Score: 156
Period size: 66 Copynumber: 2.1 Consensus size: 66
24829197 ATTGTATAGC
* * * * * *
24829207 AAATCATTTATAACTTCATAGAAAATTAGTTATAACTTTATAATAAATTATCAATAACTTAGTAG
1 AAATTATTCATAACTTAATAGAAAATTAGTTATAACTTTATAATAAATCATCAATAACTTAATAA
24829272 T
66 T
* *
24829273 AAATTATTCATAACTTAATAGTAAATTA-TTGATAA-TTTAATAATAAATCATTAATAA-TATAA
1 AAATTATTCATAACTTAATAGAAAATTAGTT-ATAACTTT-ATAATAAATCATCAATAACT-TAA
24829335 TAAT
63 TAAT
24829339 AAATTA
1 AAATTA
24829345 GTTATAATAA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
65 6 0.10
66 55 0.90
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (66 bp):
AAATTATTCATAACTTAATAGAAAATTAGTTATAACTTTATAATAAATCATCAATAACTTAATAA
T
Found at i:24829353 original size:22 final size:22
Alignment explanation
Indices: 24829207--24829344 Score: 120
Period size: 22 Copynumber: 6.3 Consensus size: 22
24829197 ATTGTATAGC
* * *
24829207 AAATCATTTATAACTTCATAGA-
1 AAATTATTAATAACTTAATA-AT
*
24829229 AAATTAGTT-ATAACTTTATAAT
1 AAATTA-TTAATAACTTAATAAT
* * *
24829251 AAATTATCAATAACTTAGTAGT
1 AAATTATTAATAACTTAATAAT
* *
24829273 AAATTATTCATAACTTAATAGT
1 AAATTATTAATAACTTAATAAT
* *
24829295 AAATTATTGATAATTTAATAAT
1 AAATTATTAATAACTTAATAAT
*
24829317 AAATCATTAATAA-TATAATAAT
1 AAATTATTAATAACT-TAATAAT
24829339 AAATTA
1 AAATTA
24829345 GTTATAATAA
Statistics
Matches: 97, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
21 3 0.03
22 92 0.95
23 2 0.02
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (22 bp):
AAATTATTAATAACTTAATAAT
Found at i:24831386 original size:2 final size:2
Alignment explanation
Indices: 24831381--24831416 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
24831371 AAAAAACTAG
*
24831381 TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24831417 GATAGAGAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:24838864 original size:14 final size:14
Alignment explanation
Indices: 24838847--24838886 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
24838837 ATACAAAAAC
24838847 AAAAATTAAAAAGT
1 AAAAATTAAAAAGT
**
24838861 AAAAGGTAAAAAGT
1 AAAAATTAAAAAGT
24838875 AAAAATTAAAAA
1 AAAAATTAAAAA
24838887 ACAAAAGATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (14 bp):
AAAAATTAAAAAGT
Found at i:24838879 original size:28 final size:28
Alignment explanation
Indices: 24838847--24838900 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
24838837 ATACAAAAAC
** *
24838847 AAAAATTAAAAAGTAAAAGGTAAAAAGT
1 AAAAATTAAAAAACAAAAGATAAAAAGT
24838875 AAAAATTAAAAAACAAAAGATAAAAA
1 AAAAATTAAAAAACAAAAGATAAAAA
24838901 AATTAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.15
Consensus pattern (28 bp):
AAAAATTAAAAAACAAAAGATAAAAAGT
Found at i:24838892 original size:14 final size:14
Alignment explanation
Indices: 24838841--24838901 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
24838831 TATCCAATAC
24838841 AAAAACAAAAATTA
1 AAAAACAAAAATTA
** **
24838855 AAAAGTAAAAGGTA
1 AAAAACAAAAATTA
**
24838869 AAAAGTAAAAATTA
1 AAAAACAAAAATTA
24838883 AAAAACAAAAGA-TA
1 AAAAACAAAA-ATTA
24838897 AAAAA
1 AAAAA
24838902 ATTAAAAATA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
14 37 0.97
15 1 0.03
ACGTcount: A:0.75, C:0.03, G:0.08, T:0.13
Consensus pattern (14 bp):
AAAAACAAAAATTA
Found at i:24840276 original size:210 final size:210
Alignment explanation
Indices: 24840052--24840476 Score: 751
Period size: 210 Copynumber: 2.0 Consensus size: 210
24840042 TTAAATAAAG
* *
24840052 AAAAAAATAGGTGTTATAACAAAGAAAACTTTGGATTATCATGATAAAAATTGCAACCTTAAGTT
1 AAAAAAAGAGGTGTTATAACAAAGAAAACTTTGGATCATCATGATAAAAATTGCAACCTTAAGTT
24840117 ATAACAAACTAATGCAACAATTAATAATAACTTAAAACACACATAAAAACATGTAATAGCCAGTT
66 ATAACAAACTAATGCAACAATTAATAATAACTTAAAACACACATAAAAACATGTAATAGCCAGTT
** * *
24840182 ATGTGAAATTCCAAATACTCAATTTTGAAAACCTCTTTACTTCTTGGAAATGCTATATTCATATT
131 ATGTGAAATTCCAAATACTCAATTTCAAAAACCTCTTTACTTCTTGGAAATGCCATATTAATATT
24840247 TAAACAAATTAAAAA
196 TAAACAAATTAAAAA
* * *
24840262 AAAAAAAGAGGTGTTATAATAAAGAAAACTTTGGATCATCATGATAACAATTGTAACCTTAAGTT
1 AAAAAAAGAGGTGTTATAACAAAGAAAACTTTGGATCATCATGATAAAAATTGCAACCTTAAGTT
*
24840327 ATAACAAACTAATGCAACAATTAATAATAACTTAAAACACACATAAAAACATGTAATAGCTAGTT
66 ATAACAAACTAATGCAACAATTAATAATAACTTAAAACACACATAAAAACATGTAATAGCCAGTT
*
24840392 ATGTGAAATTTCAAATACTCAATTTCAAAAACCTCTTTACTTCTTGGAAATGCCATATTAATATT
131 ATGTGAAATTCCAAATACTCAATTTCAAAAACCTCTTTACTTCTTGGAAATGCCATATTAATATT
24840457 TAAACAAATTAAAAA
196 TAAACAAATTAAAAA
24840472 AAAAA
1 AAAAA
24840477 GAGACCTTAC
Statistics
Matches: 204, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
210 204 1.00
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (210 bp):
AAAAAAAGAGGTGTTATAACAAAGAAAACTTTGGATCATCATGATAAAAATTGCAACCTTAAGTT
ATAACAAACTAATGCAACAATTAATAATAACTTAAAACACACATAAAAACATGTAATAGCCAGTT
ATGTGAAATTCCAAATACTCAATTTCAAAAACCTCTTTACTTCTTGGAAATGCCATATTAATATT
TAAACAAATTAAAAA
Found at i:24844362 original size:28 final size:29
Alignment explanation
Indices: 24844330--24844387 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
24844320 CATTTGCATA
24844330 TATTTA-TTTTTTAGATCATTGGTTACAT
1 TATTTATTTTTTTAGATCATTGGTTACAT
24844358 TATTTATTTTTTTAGATCATTGGTTACAT
1 TATTTATTTTTTTAGATCATTGGTTACAT
24844387 T
1 T
24844388 CATCTCATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.24, C:0.07, G:0.10, T:0.59
Consensus pattern (29 bp):
TATTTATTTTTTTAGATCATTGGTTACAT
Found at i:24850346 original size:20 final size:21
Alignment explanation
Indices: 24850303--24850354 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
24850293 ATTTTTATGT
24850303 TTTAATTTACTTTTGATACAA
1 TTTAATTTACTTTTGATACAA
* * * *
24850324 TTTATTTTATTTTTTATACAT
1 TTTAATTTACTTTTGATACAA
24850345 TTTAGATTTA
1 TTTA-ATTTA
24850355 TGCAAAATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTAATTTACTTTTGATACAA
Found at i:24850475 original size:3 final size:3
Alignment explanation
Indices: 24850469--24850523 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
24850459 AGAATTATTA
* * * *
24850469 AAT AAT AAA AAT AA- AAT AAC AA- AAG ATT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
24850513 AAT AAT AAT AA
1 AAT AAT AAT AA
24850524 AATTTTAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 4 0.09
3 36 0.84
4 3 0.07
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:24850508 original size:32 final size:33
Alignment explanation
Indices: 24850457--24850535 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
24850447 CCTACATATT
*
24850457 AAAGAATTATTAAATAATAAAAATAA-AATAACA
1 AAAG-ATTAATAAATAATAAAAATAATAATAACA
* *
24850490 AAAGATTAATAAATAATAATAATAATAATAATA
1 AAAGATTAATAAATAATAAAAATAATAATAACA
**
24850523 AAATTTTAATAAA
1 AAAGATTAATAAA
24850536 AAGAAAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 19 0.47
33 21 0.52
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (33 bp):
AAAGATTAATAAATAATAAAAATAATAATAACA
Found at i:24850814 original size:20 final size:20
Alignment explanation
Indices: 24850791--24850828 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24850781 ATAAAACCCG
24850791 AAACCCTAAGTT-AAACCTCA
1 AAACCCTAA-TTGAAACCTCA
24850811 AAACCCTAATTGAAACCT
1 AAACCCTAATTGAAACCT
24850829 TATATGAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.45, C:0.29, G:0.05, T:0.21
Consensus pattern (20 bp):
AAACCCTAATTGAAACCTCA
Found at i:24851028 original size:15 final size:14
Alignment explanation
Indices: 24850999--24851032 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
24850989 TCATATTTTA
24850999 AAAT-AATAAAATT
1 AAATAAATAAAATT
24851012 AAATAAATAATAATT
1 AAATAAATAA-AATT
24851027 AAATAA
1 AAATAA
24851033 TGAGATCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 5 0.26
15 10 0.53
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATAAATAAAATT
Found at i:24853565 original size:20 final size:20
Alignment explanation
Indices: 24853540--24853579 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
24853530 GGATTTAACT
*
24853540 ATGTGGGATTTCATTAGTTG
1 ATGTGGGATTTAATTAGTTG
24853560 ATGTGGGATTTAATTAGTTG
1 ATGTGGGATTTAATTAGTTG
24853580 GCACCTATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.03, G:0.30, T:0.45
Consensus pattern (20 bp):
ATGTGGGATTTAATTAGTTG
Found at i:24853766 original size:67 final size:67
Alignment explanation
Indices: 24853653--24853850 Score: 201
Period size: 67 Copynumber: 3.0 Consensus size: 67
24853643 AGCACCCAAG
* ** *
24853653 ATTTAAGCCCAGATTATCTAACA-CTAATGAAAATTTAATCTCAGTTTAGCTGGCACCCCATGAA
1 ATTTAAGCCCAGATTATTTGGCACCT-ATGAAAATTTAATCTTAGTTTAGCTGGCACCCCATGAA
24853717 AAT
65 AAT
*
24853720 ATTTAAGCCCAGATTATTTGGCACCTATGAAAATTTAAGT-TTAGTTTAGCTGGCACCCC-T-AG
1 ATTTAAGCCCAGATTATTTGGCACCTATGAAAATTTAA-TCTTAGTTTAGCTGGCACCCCATGAA
24853782 AA-
65 AAT
* * * * * * * * *
24853784 ATTCAAGTCCAGTTTAGTTGGCAACCAATGAAATTTTAATCCTAGTTTAGCTAGCA-CCAATGAA
1 ATTTAAGCCCAGATTATTTGGC-ACCTATGAAAATTTAATCTTAGTTTAGCTGGCACCCCATGAA
24853848 AAT
65 AAT
24853851 TTAAACCTAG
Statistics
Matches: 109, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
64 21 0.19
65 31 0.28
66 4 0.04
67 50 0.46
68 3 0.03
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (67 bp):
ATTTAAGCCCAGATTATTTGGCACCTATGAAAATTTAATCTTAGTTTAGCTGGCACCCCATGAAA
AT
Found at i:24853774 original size:32 final size:32
Alignment explanation
Indices: 24853678--24853854 Score: 144
Period size: 32 Copynumber: 5.4 Consensus size: 32
24853668 ATCTAACACT
24853678 AATGAAAATTTAA-TCTCAGTTTAGCTGGCACCC
1 AATGAAAATTTAAGTC-CAGTTTAGCTGGCA-CC
* * * **
24853711 CATGAAAATATTTAAGCCCAGATTATTTGGCACC
1 AATG-AAA-ATTTAAGTCCAGTTTAGCTGGCACC
* **
24853745 TATGAAAATTTAAGTTTAGTTTAGCTGGCACC
1 AATGAAAATTTAAGTCCAGTTTAGCTGGCACC
** * *
24853777 CCT-AGAAATTCAAGTCCAGTTTAGTTGGCAACC
1 AATGA-AAATTTAAGTCCAGTTTAGCTGGC-ACC
* *
24853810 AATGAAATTTTAA-TCCTAGTTTAGCTAGCACC
1 AATGAAAATTTAAGTCC-AGTTTAGCTGGCACC
24853842 AATGAAAATTTAA
1 AATGAAAATTTAA
24853855 ACCTAGAAGG
Statistics
Matches: 112, Mismatches: 25, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
31 1 0.01
32 58 0.52
33 26 0.23
34 9 0.08
35 17 0.15
36 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (32 bp):
AATGAAAATTTAAGTCCAGTTTAGCTGGCACC
Found at i:24853831 original size:65 final size:66
Alignment explanation
Indices: 24853678--24853850 Score: 192
Period size: 65 Copynumber: 2.6 Consensus size: 66
24853668 ATCTAACACT
* *
24853678 AATGAAAATTTAATCTCAGTTTAGCTGGCACCCCATGAAAATATTTAAGCCCAGATTATTTGGCA
1 AATGAAAATTTAATCT-AGTTTAGCTGGCACCCCATGAAAATATTCAAGCCCAGATTAGTTGGCA
24853743 CC
65 CC
* * * * *
24853745 TATGAAAATTTAAGTTTAGTTTAGCTGGCACCCC-T-AGAA-ATTCAAGTCCAGTTTAGTTGGCA
1 AATGAAAATTTAA-TCTAGTTTAGCTGGCACCCCATGAAAATATTCAAGCCCAGATTAGTTGGC-
24853807 ACC
64 ACC
* * *
24853810 AATGAAATTTTAATCCTAGTTTAGCTAGCA-CCAATGAAAAT
1 AATGAAAATTTAAT-CTAGTTTAGCTGGCACCCCATGAAAAT
24853851 TTAAACCTAG
Statistics
Matches: 87, Mismatches: 13, Indels: 12
0.78 0.12 0.11
Matches are distributed among these distances:
64 21 0.24
65 31 0.36
66 4 0.05
67 29 0.33
68 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (66 bp):
AATGAAAATTTAATCTAGTTTAGCTGGCACCCCATGAAAATATTCAAGCCCAGATTAGTTGGCAC
C
Found at i:24853963 original size:21 final size:21
Alignment explanation
Indices: 24853923--24854006 Score: 69
Period size: 22 Copynumber: 3.9 Consensus size: 21
24853913 ATTTAAGCCC
**
24853923 AGTTTAGCTAGTATACAAGCT
1 AGTTTAGCTAGTATGTAAGCT
* *
24853944 AGTTTAGCTAGTACGTAAGCCA
1 AGTTTAGCTAGTATGTAAG-CT
* *
24853966 AGAATTAGCTAGCATGTAAGCT
1 AG-TTTAGCTAGTATGTAAGCT
* *
24853988 CAATTTAGCTAGCATGTAA
1 -AGTTTAGCTAGTATGTAA
24854007 ACCCAAATTA
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
21 16 0.32
22 19 0.38
23 15 0.30
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (21 bp):
AGTTTAGCTAGTATGTAAGCT
Found at i:24854017 original size:22 final size:22
Alignment explanation
Indices: 24853968--24854017 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
24853958 GTAAGCCAAG
* *
24853968 AATTAGCTAGCATGTAAGCTCA
1 AATTAGCTAGCATGTAAACCCA
*
24853990 ATTTAGCTAGCATGTAAACCCA
1 AATTAGCTAGCATGTAAACCCA
24854012 AATTAG
1 AATTAG
24854018 TGGTCACCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (22 bp):
AATTAGCTAGCATGTAAACCCA
Found at i:24854483 original size:11 final size:11
Alignment explanation
Indices: 24854467--24854514 Score: 57
Period size: 10 Copynumber: 4.6 Consensus size: 11
24854457 AAAAAAATTA
24854467 AATAAATATAT
1 AATAAATATAT
24854478 AATAAATATAT
1 AATAAATATAT
24854489 -ATAAA-ATAT
1 AATAAATATAT
* *
24854498 AACAAA-AAAT
1 AATAAATATAT
24854508 AATAAAT
1 AATAAAT
24854515 GATAAGTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 4 0.12
10 17 0.53
11 11 0.34
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (11 bp):
AATAAATATAT
Found at i:24854512 original size:20 final size:20
Alignment explanation
Indices: 24854457--24854514 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
24854447 GCCATTAAAC
*
24854457 AAAAAAATTAAATAAATATAT
1 AAAAAAAAT-AATAAATATAT
* *
24854478 AATAAATATATATAAA-ATAT
1 AAAAAAAATA-ATAAATATAT
24854498 AACAAAAAATAATAAAT
1 AA-AAAAAATAATAAAT
24854515 GATAAGTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAAAAATAATAAATATAT
Found at i:24854524 original size:11 final size:10
Alignment explanation
Indices: 24854467--24854530 Score: 51
Period size: 10 Copynumber: 6.2 Consensus size: 10
24854457 AAAAAAATTA
24854467 AATAAATATAT
1 AATAAATA-AT
24854478 AATAAAT-AT
1 AATAAATAAT
24854487 ATATAAA-ATAT
1 A-ATAAATA-AT
* *
24854498 AACAAAAAAT
1 AATAAATAAT
*
24854508 AATAAATGAT
1 AATAAATAAT
24854518 AAGTAAATAAT
1 AA-TAAATAAT
24854529 AA
1 AA
24854531 AAAGCAAGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
9 3 0.07
10 20 0.47
11 20 0.47
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (10 bp):
AATAAATAAT
Found at i:24857916 original size:6 final size:7
Alignment explanation
Indices: 24857899--24857933 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
24857889 TGAGAAAGGA
24857899 AAAAAAG
1 AAAAAAG
24857906 AAAAAAG
1 AAAAAAG
24857913 AAAAAAG
1 AAAAAAG
**
24857920 AAAAGTG
1 AAAAAAG
24857927 AAAAAAG
1 AAAAAAG
24857934 TGAAAGTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:24859609 original size:15 final size:14
Alignment explanation
Indices: 24859582--24859608 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24859572 TGTAATAAAT
24859582 AAAAAAAATAAAAG
1 AAAAAAAATAAAAG
24859596 AAAAAAAATAAAA
1 AAAAAAAATAAAA
24859609 AAATGAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.00, G:0.04, T:0.07
Consensus pattern (14 bp):
AAAAAAAATAAAAG
Found at i:24860270 original size:33 final size:32
Alignment explanation
Indices: 24860201--24860270 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 32
24860191 TAAGCCTAGT
* * *
24860201 TTAGCTGGCACCCAAATTTAAGCCCAACCAAT
1 TTAGCTAGCACCCAAATTTAAGCCCAAACAAG
* **
24860233 TTAGCTAGCACCCAAGTTTTAAGCCCAAATTAG
1 TTAGCTAGCACCCAA-ATTTAAGCCCAAACAAG
24860266 TTAGC
1 TTAGC
24860271 ACTAATGAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (32 bp):
TTAGCTAGCACCCAAATTTAAGCCCAAACAAG
Found at i:24860400 original size:22 final size:22
Alignment explanation
Indices: 24860375--24860418 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
24860365 AGCAAGAAGC
*
24860375 TATAAGCTTAGATTAGCTGGCA
1 TATAAGCCTAGATTAGCTGGCA
* *
24860397 TATAAGCCTAGTTTAGTTGGCA
1 TATAAGCCTAGATTAGCTGGCA
24860419 CAAAAGCTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.34
Consensus pattern (22 bp):
TATAAGCCTAGATTAGCTGGCA
Found at i:24860733 original size:33 final size:34
Alignment explanation
Indices: 24860653--24860737 Score: 145
Period size: 34 Copynumber: 2.5 Consensus size: 34
24860643 TACCCAATGG
*
24860653 TTTTAAGCATAGTTTAACTAGCACTCAATGAAAA
1 TTTTAAGCATAGTTTAACTAACACTCAATGAAAA
24860687 TTTTAAGCATAGTTTAACTAACACTCAATGAAAA
1 TTTTAAGCATAGTTTAACTAACACTCAATGAAAA
*
24860721 -TTTAAGCCTAGTTTAAC
1 TTTTAAGCATAGTTTAAC
24860738 CGATACTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
33 16 0.33
34 33 0.67
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (34 bp):
TTTTAAGCATAGTTTAACTAACACTCAATGAAAA
Found at i:24860947 original size:32 final size:32
Alignment explanation
Indices: 24860911--24861015 Score: 133
Period size: 32 Copynumber: 3.3 Consensus size: 32
24860901 GCACATATGT
24860911 AAATTTAAGCTCAGTTTAGTTAGCACCTAA-GA
1 AAATTTAAGCTCAGTTTAGTTAGCACC-AATGA
* * *
24860943 AAATTTAAGCTTAATTTAGTTAGCATCAATGA
1 AAATTTAAGCTCAGTTTAGTTAGCACCAATGA
* * *
24860975 AGATTTAAGCCCAG-TTAGTTGGCACCAATGA
1 AAATTTAAGCTCAGTTTAGTTAGCACCAATGA
24861006 AAATTTAAGC
1 AAATTTAAGC
24861016 CTAAATTAGC
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
31 26 0.42
32 36 0.58
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (32 bp):
AAATTTAAGCTCAGTTTAGTTAGCACCAATGA
Found at i:24861032 original size:63 final size:64
Alignment explanation
Indices: 24860866--24861032 Score: 180
Period size: 64 Copynumber: 2.6 Consensus size: 64
24860856 CCAATCTACC
* * * *
24860866 TAGCATCCAAAGAAAATTTAAACCCAATTTCGCTGGCA-CATATGTAAATTTAAGCTCAGTTTAG
1 TAGCA-CC-AAGAAAATTTAAGCCTAATTTAGCTGGCATCATATGTAAATTTAAGCCCAGTTTAG
24860930 T
64 T
* * *
24860931 TAGCACCTAAGAAAATTTAAGCTTAATTTAGTTAGCATCA-ATG-AAGATTTAAGCCCAG-TTAG
1 TAGCACC-AAGAAAATTTAAGCCTAATTTAGCTGGCATCATATGTAA-ATTTAAGCCCAGTTTAG
24860993 T
64 T
* *
24860994 TGGCACCAATGAAAATTTAAGCCTAAATTAGCTGGCATC
1 TAGCACCAA-GAAAATTTAAGCCTAATTTAGCTGGCATC
24861033 CAGGTTTTAT
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
62 2 0.02
63 38 0.44
64 39 0.45
65 7 0.08
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (64 bp):
TAGCACCAAGAAAATTTAAGCCTAATTTAGCTGGCATCATATGTAAATTTAAGCCCAGTTTAGT
Done.