Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 77 of 240
Found at i:24579128 original size:44 final size:44
Alignment explanation
Indices: 24579064--24579157 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
24579054 CTGGAAGGAG
* * *
24579064 GAAGGAGTCGATTTAGGGATTTCGGATTTCAAGAAATTCGGCAA
1 GAAGGAGGCGATTTACGGATTTCGGAATTCAAGAAATTCGGCAA
* *
24579108 GAAGGAGGCGATTTACGGATTTGGGAATTCAAGAAATTGGGCAA
1 GAAGGAGGCGATTTACGGATTTCGGAATTCAAGAAATTCGGCAA
24579152 GAAGGA
1 GAAGGA
24579158 CGCAAGAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.34, C:0.10, G:0.33, T:0.23
Consensus pattern (44 bp):
GAAGGAGGCGATTTACGGATTTCGGAATTCAAGAAATTCGGCAA
Found at i:24580317 original size:7 final size:7
Alignment explanation
Indices: 24580305--24580375 Score: 52
Period size: 7 Copynumber: 9.9 Consensus size: 7
24580295 AAAGCAGTCT
24580305 AAACCCC
1 AAACCCC
24580312 AAACCCC
1 AAACCCC
* **
24580319 AAATCTT
1 AAACCCC
24580326 AAACCCC
1 AAACCCC
*
24580333 AAACTCCT
1 AAAC-CCC
*
24580341 AAACCCT
1 AAACCCC
*
24580348 AAACCCT
1 AAACCCC
*
24580355 AAACCCA
1 AAACCCC
*
24580362 AAACACC
1 AAACCCC
24580369 ATAACCC
1 A-AACCC
24580376 ACATCATAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
7 41 0.80
8 10 0.20
ACGTcount: A:0.45, C:0.44, G:0.00, T:0.11
Consensus pattern (7 bp):
AAACCCC
Found at i:24580330 original size:21 final size:21
Alignment explanation
Indices: 24580303--24580365 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
24580293 CTAAAGCAGT
*
24580303 CTAAACCCCAAACCCCAAATC
1 CTAAACCCCAAACCCCAAACC
* *
24580324 TTAAACCCCAAACTCCTAAACC
1 CTAAACCCCAAAC-CCCAAACC
* *
24580346 CTAAACCCTAAACCCAAAAC
1 CTAAACCCCAAACCCCAAAC
24580366 ACCATAACCC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 18 0.51
22 17 0.49
ACGTcount: A:0.44, C:0.43, G:0.00, T:0.13
Consensus pattern (21 bp):
CTAAACCCCAAACCCCAAACC
Found at i:24580346 original size:29 final size:28
Alignment explanation
Indices: 24580305--24580395 Score: 76
Period size: 29 Copynumber: 3.2 Consensus size: 28
24580295 AAAGCAGTCT
* * *
24580305 AAACCCCAAACCCCAAATCTTAAACCCC
1 AAACTCCAAACCCCAAATCATAAACCCA
* * *
24580333 AAACTCCTAAACCCTAAACCCTAAACCCA
1 AAACTCC-AAACCCCAAATCATAAACCCA
* * *
24580362 AAACACCATAA-CCCACATCATAAACCCT
1 AAACTCCA-AACCCCAAATCATAAACCCA
24580390 AAACTC
1 AAACTC
24580396 AATACTCTAA
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
28 24 0.49
29 25 0.51
ACGTcount: A:0.45, C:0.42, G:0.00, T:0.13
Consensus pattern (28 bp):
AAACTCCAAACCCCAAATCATAAACCCA
Found at i:24580365 original size:14 final size:14
Alignment explanation
Indices: 24580305--24580365 Score: 68
Period size: 14 Copynumber: 4.3 Consensus size: 14
24580295 AAAGCAGTCT
*
24580305 AAACCCCAAACCCC
1 AAACCCTAAACCCC
* *
24580319 AAATCTTAAACCCC
1 AAACCCTAAACCCC
*
24580333 AAACTCCTAAACCCT
1 AAAC-CCTAAACCCC
*
24580348 AAACCCTAAACCCA
1 AAACCCTAAACCCC
24580362 AAAC
1 AAAC
24580366 ACCATAACCC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
14 27 0.69
15 12 0.31
ACGTcount: A:0.46, C:0.43, G:0.00, T:0.11
Consensus pattern (14 bp):
AAACCCTAAACCCC
Found at i:24580890 original size:115 final size:113
Alignment explanation
Indices: 24580688--24581178 Score: 363
Period size: 115 Copynumber: 4.3 Consensus size: 113
24580678 CCAAAACTGT
* * * * * * * *
24580688 GCGTTTTGGTAAAGATCTTTTGCGGCGCTTATAAAAAAGCGCCGCTAATAATATGATTTAGTGGC
1 GCGTTTTGGTTAACATATCTTGCGGCGCTTCTAAGAAAGCGCCGCTAATAGTAT-ATTTAGCGGC
* * * ***
24580753 GATTTCTCGTGAA-CGCCACTAATTCCAGTATACATCAAGTTTTAAACACA
65 GTTTTC-CGT-AAGCGCCACTAATTCTAATATACATCAAGTACAAAACACA
* *
24580803 GCGTTTCGGTTAATATATCTTGCGGCGCTTCTAAGAAAGCGCCGCTAATAGTATACTTTAGCGGC
1 GCGTTTTGGTTAACATATCTTGCGGCGCTTCTAAGAAAGCGCCGCTAATAGTATA-TTTAGCGGC
* * * * * * *
24580868 GTTTTCCAATAAGGGCCACTAATTCTAATATACCTTAA-TACCAAACTCT
65 GTTTTCC-GTAAGCGCCACTAATTCTAATATACATCAAGTACAAAACACA
* *
24580917 GCGTTTTGGTGT-GCATATCTTGCGGCGC-T-TAACTGAAAGCGCCGCTAATACTGATATTTAGC
1 GCGTTTTGGT-TAACATATCTTGCGGCGCTTCTAA--GAAAGCGCCGCTAATAGT-ATATTTAGC
** * * **
24580979 GGCGTTTTATTGTAAGCGCCACTAATTATATTATACATCAAG-ACCAAAACGTA
62 GGCGTTTT-CCGTAAGCGCCACTAATTCTAATATACATCAAGTA-CAAAACACA
* * * * * * * * *
24581032 GAGTTTTGGTTAAGAAATATAGCGGCGCTTCTCCA-AACGCGCTGCTAATAGTACTCTTTAGCGG
1 GCGTTTTGGTTAACATATCTTGCGGCGCTTCT-AAGAAAGCGCCGCTAATAGTA-TATTTAGCGG
* * *
24581096 CGTTTTCCGTAAGCGCCACTAATTCTAATATACCTCAAG-ACCAAACTCTA
64 CGTTTTCCGTAAGCGCCACTAATTCTAATATACATCAAGTACAAAACAC-A
* * *
24581146 -CGTTTTGGTGT-GCATATCTTGTGGCGATTCTAA
1 GCGTTTTGGT-TAACATATCTTGCGGCGCTTCTAA
24581179 AAAATCGTAT
Statistics
Matches: 294, Mismatches: 65, Indels: 37
0.74 0.16 0.09
Matches are distributed among these distances:
112 4 0.01
113 27 0.09
114 122 0.41
115 138 0.47
116 1 0.00
117 1 0.00
118 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (113 bp):
GCGTTTTGGTTAACATATCTTGCGGCGCTTCTAAGAAAGCGCCGCTAATAGTATATTTAGCGGCG
TTTTCCGTAAGCGCCACTAATTCTAATATACATCAAGTACAAAACACA
Found at i:24580964 original size:114 final size:112
Alignment explanation
Indices: 24580707--24581177 Score: 384
Period size: 114 Copynumber: 4.1 Consensus size: 112
24580697 TAAAGATCTT
* * * * *
24580707 TTGCGGCGCTTATAAAAAAGCGCCGCTAATAATATGA-TTTAGTGGCGATTTCTCGTGAA-CGCC
1 TTGCGGCGCTTCT-AGAAAGCGCCGCTAATAGTAT-ACTTTAGCGGCGTTTTC-CGT-AAGCGCC
* * * *** * * * **
24580770 ACTAATTCCAGTATACATCAAGTTTTAAACACAGCGTTTCGGT-TAATATATC
62 ACTAATTCTAATATACCTCAAG-ACCAAACTCTGCGTTTTGGTGT-GCATATC
* *
24580822 TTGCGGCGCTTCTAAGAAAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTCCAATAAGGGCCAC
1 TTGCGGCGCTTCT-AGAAAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTCC-GTAAGCGCCAC
* *
24580887 TAATTCTAATATACCTTAATACCAAACTCTGCGTTTTGGTGTGCATATC
64 TAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTGGTGTGCATATC
* **
24580936 TTGCGGCGCTTAACT-GAAAGCGCCGCTAATACTGATA-TTTAGCGGCGTTTTATTGTAAGCGCC
1 TTGCGGCGCTT--CTAGAAAGCGCCGCTAATAGT-ATACTTTAGCGGCGTTTT-CCGTAAGCGCC
* * * * * * *
24580999 ACTAATTATATTATACATCAAGACCAAAACGT-AGAGTTTTGGT-TAAG-AAATA
62 ACTAATTCTAATATACCTCAAGACC-AAAC-TCTGCGTTTTGGTGT--GCATATC
* ** *
24581051 TAGCGGCGCTTCTCCAAACGCGCTGCTAATAGTACT-CTTTAGCGGCGTTTTCCGTAAGCGCCAC
1 TTGCGGCGCTTCTAGAAA-GCGCCGCTAATAGTA-TACTTTAGCGGCGTTTTCCGTAAGCGCCAC
*
24581115 TAATTCTAATATACCTCAAGACCAAACTCTACGTTTTGGTGTGCATATC
64 TAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTGGTGTGCATATC
* *
24581164 TTGTGGCGATTCTA
1 TTGCGGCGCTTCTA
24581178 AAAAATCGTA
Statistics
Matches: 285, Mismatches: 52, Indels: 40
0.76 0.14 0.11
Matches are distributed among these distances:
112 2 0.01
113 27 0.09
114 129 0.45
115 123 0.43
116 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (112 bp):
TTGCGGCGCTTCTAGAAAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTCCGTAAGCGCCACTA
ATTCTAATATACCTCAAGACCAAACTCTGCGTTTTGGTGTGCATATC
Found at i:24581313 original size:75 final size:75
Alignment explanation
Indices: 24581185--24581386 Score: 323
Period size: 75 Copynumber: 2.7 Consensus size: 75
24581175 CTAAAAAATC
24581185 GTATTATACATCGAGACCAAACCGCTGCGTTTTGGTTAACATTTTTTGCGGCACTTCTATTAAGC
1 GTATTATACATCGAGACCAAACCGCTGCGTTTTGGTTAACATTTTTTGCGGCACTTCTATTAAGC
24581250 GCCACTAATT
66 GCCACTAATT
*
24581260 GTATTATACATCGAGACCAAACCGCTGCGTTTTGGTTAACATTTTTTGTGGCACTTCTATTAAGC
1 GTATTATACATCGAGACCAAACCGCTGCGTTTTGGTTAACATTTTTTGCGGCACTTCTATTAAGC
24581325 GCCACTAATT
66 GCCACTAATT
* * * * * * * *
24581335 CTAATATACATCAAGATCAAAACTCTGCGTTTTGGTTATCATATTTTGCGGC
1 GTATTATACATCGAGACCAAACCGCTGCGTTTTGGTTAACATTTTTTGCGGC
24581387 GCTTTTAGTA
Statistics
Matches: 117, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 117 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (75 bp):
GTATTATACATCGAGACCAAACCGCTGCGTTTTGGTTAACATTTTTTGCGGCACTTCTATTAAGC
GCCACTAATT
Found at i:24581518 original size:113 final size:112
Alignment explanation
Indices: 24581320--24581614 Score: 308
Period size: 113 Copynumber: 2.6 Consensus size: 112
24581310 GCACTTCTAT
* * ** **
24581320 TAAGCGCCACTAATTCTAATATACATCAAGATCAAAACTCTGCGTTTTGGTTATCATATTTTGCG
1 TAAGCGCCACTAATTCTAATATACATCAATACCAAAACGATGCGTTTTGGTTAAGAT-TTTTGCG
** * * * **
24581385 GCGCTTTTAGTAAACGCCGCTAATACTTGTTTTA-CTGGCGTTTTTTTG
65 GCGCTTCCAGCAAACGCCGCTAATACTTGCTTTAGC-GGCGTTTTATCA
* * *
24581433 TAAGCGCCACTAATTCTAATATACATCGATACCAAAACGATGCATTTTCGTTAAGATTTTTGCGG
1 TAAGCGCCACTAATTCTAATATACATCAATACCAAAACGATGCGTTTTGGTTAAGATTTTTGCGG
* *
24581498 CGCTTCCCA-CAATGCGCCGCTATTACTTGCTTTAGCGGCGTTTTATCA
66 CGCTT-CCAGCAA-ACGCCGCTAATACTTGCTTTAGCGGCGTTTTATCA
* * ** *
24581546 TAATCGCCACTAATTATTGTATACATCAATACAAAAACGATGCGTTTTGGTCTTAAGA-TTTTGC
1 TAAGCGCCACTAATTCTAATATACATCAATACCAAAACGATGCGTTTTGG--TTAAGATTTTTGC
24581610 GGCGC
64 GGCGC
24581615 ATAACCAAAA
Statistics
Matches: 151, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
112 15 0.10
113 118 0.78
114 12 0.08
115 6 0.04
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.35
Consensus pattern (112 bp):
TAAGCGCCACTAATTCTAATATACATCAATACCAAAACGATGCGTTTTGGTTAAGATTTTTGCGG
CGCTTCCAGCAAACGCCGCTAATACTTGCTTTAGCGGCGTTTTATCA
Found at i:24581674 original size:115 final size:113
Alignment explanation
Indices: 24581321--24581674 Score: 285
Period size: 113 Copynumber: 3.1 Consensus size: 113
24581311 CACTTCTATT
* * ** * * **
24581321 AAGCGCCACTAATTCTAATATACATCAAGATC-AAAACTCTGCGTTTTGGTTATCATATTTTGCG
1 AAGCGCCACTAATTATAATATACATCAATA-CAAAAACGATGCATTTTCGTTAAGAT-TTTTGCG
*** ** *
24581385 GCGCT-TTTAGTAAACGCCGCTAATACTTG-TTTTACTGGCGTTTTT-TTG
64 GCGCTAACCACAAAACGCCGCTATTACTTGCTTTTAC-GGCGTTTTTCTTG
* * *
24581433 TAAGCGCCACTAATTCTAATATACATCGATACCAAAACGATGCATTTTCGTTAAGATTTTTGCGG
1 -AAGCGCCACTAATTATAATATACATCAATACAAAAACGATGCATTTTCGTTAAGATTTTTGCGG
** ** *
24581498 CGCTTCCCACAATGCGCCGCTATTACTTGC-TTTAGCGGCGTTTTATCAT-
65 CGCTAACCACAAAACGCCGCTATTACTTGCTTTTA-CGGCGTTTT-TCTTG
* ** * *
24581547 AATCGCCACTAATTATTGTATACATCAATACAAAAACGATGCGTTTTGGTCTTAAGA-TTTTGCG
1 AAGCGCCACTAATTATAATATACATCAATACAAAAACGATGCATTTTCG--TTAAGATTTTTGCG
*
24581611 GCGCATAACCA-AAAACGCCGCTACTTA-TGTTCTTTTACGGCGTTTTTCTTG
64 GCGC-TAACCACAAAACGCCGCTA-TTACT-TGCTTTTACGGCGTTTTTCTTG
*
24581662 AAGCGCCGCTAAT
1 AAGCGCCACTAAT
24581675 GCCAGATATT
Statistics
Matches: 195, Mismatches: 33, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
112 13 0.07
113 115 0.59
114 27 0.14
115 36 0.18
116 4 0.02
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (113 bp):
AAGCGCCACTAATTATAATATACATCAATACAAAAACGATGCATTTTCGTTAAGATTTTTGCGGC
GCTAACCACAAAACGCCGCTATTACTTGCTTTTACGGCGTTTTTCTTG
Found at i:24583443 original size:71 final size:71
Alignment explanation
Indices: 24583359--24583502 Score: 279
Period size: 71 Copynumber: 2.0 Consensus size: 71
24583349 TTCCCATAGA
24583359 TAGATTAAGAAAAAGTAATATATTATTCCATCCTAATTAAGCATGTAAATATAATGTGCTATAAA
1 TAGATTAAGAAAAAGTAATATATTATTCCATCCTAATTAAGCATGTAAATATAATGTGCTATAAA
*
24583424 CTTTAT
66 ATTTAT
24583430 TAGATTAAGAAAAAGTAATATATTATTCCATCCTAATTAAGCATGTAAATATAATGTGCTATAAA
1 TAGATTAAGAAAAAGTAATATATTATTCCATCCTAATTAAGCATGTAAATATAATGTGCTATAAA
24583495 ATTTAT
66 ATTTAT
24583501 TA
1 TA
24583503 TATTTCATAT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.37
Consensus pattern (71 bp):
TAGATTAAGAAAAAGTAATATATTATTCCATCCTAATTAAGCATGTAAATATAATGTGCTATAAA
ATTTAT
Found at i:24585342 original size:21 final size:23
Alignment explanation
Indices: 24585288--24585342 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 23
24585278 GTAAACATTA
24585288 AAAATTTTA-AGATAACATTATAT
1 AAAATTTTAGA-ATAACATTATAT
24585311 AAAA-TTT-GAATAA-A-TATAT
1 AAAATTTTAGAATAACATTATAT
24585330 AAAATTTTAGAAT
1 AAAATTTTAGAAT
24585343 TTAAATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 9 0.31
20 4 0.14
21 8 0.28
22 4 0.14
23 4 0.14
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (23 bp):
AAAATTTTAGAATAACATTATAT
Found at i:24589543 original size:25 final size:24
Alignment explanation
Indices: 24589515--24589566 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 24
24589505 AGGCCGTACA
24589515 GTGCTGACGTGGA-AGACTGGCGGTG
1 GTGCTGACGTGGAGAG-C-GGCGGTG
24589540 GTGCTGACGTGGAGAGCGGCGGTG
1 GTGCTGACGTGGAGAGCGGCGGTG
24589564 GTG
1 GTG
24589567 GCTAGGGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 10 0.38
25 14 0.54
26 2 0.08
ACGTcount: A:0.13, C:0.15, G:0.52, T:0.19
Consensus pattern (24 bp):
GTGCTGACGTGGAGAGCGGCGGTG
Found at i:24589565 original size:24 final size:25
Alignment explanation
Indices: 24589515--24589566 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 25
24589505 AGGCCGTACA
24589515 GTGCTGACGTGGAAGACTGGCGGTG
1 GTGCTGACGTGGAAGACTGGCGGTG
24589540 GTGCTGACGTGG-AGAGC-GGCGGTG
1 GTGCTGACGTGGAAGA-CTGGCGGTG
24589564 GTG
1 GTG
24589567 GCTAGGGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.13, C:0.15, G:0.52, T:0.19
Consensus pattern (25 bp):
GTGCTGACGTGGAAGACTGGCGGTG
Found at i:24589736 original size:20 final size:19
Alignment explanation
Indices: 24589695--24589755 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
24589685 AAAAAATGAG
24589695 TTTTGTATTTATTATATTT
1 TTTTGTATTTATTATATTT
24589714 TTTTGTATTTTATTAT-TTGT
1 TTTTGTA-TTTATTATATT-T
*
24589734 TTTTACGAATTTATT-TATTT
1 TTTT--GTATTTATTATATTT
24589754 TT
1 TT
24589756 ATTTGGGGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
19 9 0.25
20 17 0.47
21 8 0.22
22 2 0.06
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.72
Consensus pattern (19 bp):
TTTTGTATTTATTATATTT
Found at i:24590214 original size:44 final size:41
Alignment explanation
Indices: 24590148--24590260 Score: 111
Period size: 41 Copynumber: 2.7 Consensus size: 41
24590138 TATCTTCAGC
* * *
24590148 CTGCTCCACTGCAATTTTAGGGAGATAAAACTAGTAGCC-TCAAT
1 CTGCTCCACTACAACTTCAGGGAGATAAAA-T--TAGCCAT-AAT
* * *
24590192 CTGCTCCACTACAACTTCAGGGAGATAAGATTCGCCATGAT
1 CTGCTCCACTACAACTTCAGGGAGATAAAATTAGCCATAAT
* *
24590233 CTGCTCTACTACAACTTCAGAGAGATAA
1 CTGCTCCACTACAACTTCAGGGAGATAA
24590261 GATATGTTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
41 32 0.53
42 1 0.02
43 1 0.02
44 26 0.43
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (41 bp):
CTGCTCCACTACAACTTCAGGGAGATAAAATTAGCCATAAT
Found at i:24590351 original size:179 final size:181
Alignment explanation
Indices: 24590011--24590416 Score: 514
Period size: 179 Copynumber: 2.3 Consensus size: 181
24590001 TACCTTCAGC
* * * * * * *
24590011 CTACTCCACTGCAACCTCAGAGAGATAGGGTTTGCTATGATCTACTCTACTAGAACTTCAGAGAG
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATCTGCTCTACTACAACTTCAGAGAG
* *
24590076 ATAAGATCTATAATTTATAGCCTCAACCTGTTCCACTACAACTTTAGGGAAATAGGATTCGCTAT
66 ATAAGATATATAATTTATAGCCTCAACCTGTTCCACTACAACTTTAGGGAAATAAGATTCGCTAT
* * *
24590141 CTTCAGCCTGCTCCACTGCAATTTTAGGGAGATAAAACTAGTAGCCTCAAT
131 CTTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGTAACCTCAAT
* * *
24590192 CTGCTCCACTACAACTTCAGGGAGATAAGATTCGCCATGATCTGCTCTACTACAACTTCAGAGAG
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATCTGCTCTACTACAACTTCAGAGAG
* * * * *
24590257 ATAAGATATGTTA-TT-TAGCTTCAA-TTCGTTCCACTGCAACTTTAGGGAAATAAGATTCGCTA
66 ATAAGATATATAATTTATAGCCTCAACCT-GTTCCACTACAACTTTAGGGAAATAAGATTCGCTA
* * * * * *
24590319 TCTGT-AGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTAACTTTAAT
130 TCT-TCAGCCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGTAACCTCAAT
* *
24590371 CTACTCCGCTGCAACTTTAGGGAGATAAGATTTGCCATGATCTGCT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATCTGCT
24590417 TGTTCATTAA
Statistics
Matches: 192, Mismatches: 31, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
178 1 0.01
179 123 0.64
180 3 0.02
181 65 0.34
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (181 bp):
CTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATCTGCTCTACTACAACTTCAGAGAG
ATAAGATATATAATTTATAGCCTCAACCTGTTCCACTACAACTTTAGGGAAATAAGATTCGCTAT
CTTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGTAACCTCAAT
Found at i:24590393 original size:44 final size:45
Alignment explanation
Indices: 24590290--24590402 Score: 149
Period size: 44 Copynumber: 2.5 Consensus size: 45
24590280 ATTCGTTCCA
* * * *
24590290 CTGCAACTTTAGGGAAATAAGATTCGCTATCTGTAGTCTGCTCCG
1 CTGCAACTTTAGGGAGATAAGATTCGCTAACTGTAATCTACTCCG
* *
24590335 CTGCAACTTCAGGGAGATAAGACTT-G-TAACTTTAATCTACTCCG
1 CTGCAACTTTAGGGAGATAAGA-TTCGCTAACTGTAATCTACTCCG
24590379 CTGCAACTTTAGGGAGATAAGATT
1 CTGCAACTTTAGGGAGATAAGATT
24590403 TGCCATGATC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
43 2 0.03
44 35 0.58
45 21 0.35
46 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (45 bp):
CTGCAACTTTAGGGAGATAAGATTCGCTAACTGTAATCTACTCCG
Found at i:24590399 original size:89 final size:88
Alignment explanation
Indices: 24590107--24590402 Score: 264
Period size: 89 Copynumber: 3.3 Consensus size: 88
24590097 CTCAACCTGT
* * * * *
24590107 TCCACTACAACTTTAGGGAAATAGGATTCGCTATCT-TCAGCCTGCTCCACTGCAATTTTAGGGA
1 TCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTGT-AGTCTGCTCCACTGCAACTTCAGGGA
* * * *
24590171 GATAAAACTAGTAGCCTCAATCTGC
65 GATAAGACTTGTAACTTCAATCT-C
* * * * * * *
24590196 TCCACTACAACTTCAGGGAGATAAGATTCGCCA--TG-A-TCTGCTCTACTACAACTTCAGAGAG
1 TCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTGTAGTCTGCTCCACTGCAACTTCAGGGAG
24590257 ATAAGA-TATGTTATTTAGCTTCAAT-TC
66 ATAAGACT-TG-TA---A-CTTCAATCTC
*
24590284 GTTCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTGTAGTCTGCTCCGCTGCAACTTCAGGG
1 --TCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTGTAGTCTGCTCCACTGCAACTTCAGGG
*
24590349 AGATAAGACTTGTAACTTTAATCTAC
64 AGATAAGACTTGTAACTTCAATCT-C
* *
24590375 TCCGCTGCAACTTTAGGGAGATAAGATT
1 TCCACTGCAACTTTAGGGAAATAAGATT
24590403 TGCCATGATC
Statistics
Matches: 166, Mismatches: 25, Indels: 32
0.74 0.11 0.14
Matches are distributed among these distances:
84 1 0.01
85 25 0.15
86 3 0.02
87 1 0.01
88 1 0.01
89 62 0.37
90 37 0.22
91 1 0.01
92 2 0.01
93 3 0.02
94 29 0.17
95 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (88 bp):
TCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTGTAGTCTGCTCCACTGCAACTTCAGGGAG
ATAAGACTTGTAACTTCAATCTC
Found at i:24592116 original size:12 final size:12
Alignment explanation
Indices: 24592099--24592145 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
24592089 CCTTGGCCTC
24592099 TCCTTTTTCTTT
1 TCCTTTTTCTTT
*
24592111 TCCTTTTTTTTT
1 TCCTTTTTCTTT
*
24592123 TCCTTCTT-TTT
1 TCCTTTTTCTTT
24592134 T-C-TTTTCTTT
1 TCCTTTTTCTTT
24592144 TC
1 TC
24592146 TCATCATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 3 0.10
10 5 0.17
11 4 0.13
12 18 0.60
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TCCTTTTTCTTT
Found at i:24593015 original size:4 final size:4
Alignment explanation
Indices: 24593006--24593033 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
24592996 CAATATGATT
24593006 ATGA ATGA ATGA ATGA ATGA ATGA ATGA
1 ATGA ATGA ATGA ATGA ATGA ATGA ATGA
24593034 TTTGGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
ATGA
Found at i:24597597 original size:30 final size:30
Alignment explanation
Indices: 24597562--24597621 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
24597552 GATGCAAGTA
24597562 TGATACACAATCAAAA-TCGAGTCTCAGTCG
1 TGATACACAATCAAAACT-GAGTCTCAGTCG
24597592 TGATACACAATCAAAACTGAGTCTCAGTCG
1 TGATACACAATCAAAACTGAGTCTCAGTCG
24597622 AGCTTACGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (30 bp):
TGATACACAATCAAAACTGAGTCTCAGTCG
Found at i:24598924 original size:22 final size:23
Alignment explanation
Indices: 24598898--24598981 Score: 86
Period size: 22 Copynumber: 3.8 Consensus size: 23
24598888 ACCCTACCAA
24598898 AGAGCAAC-GAAGTGCTAAACAG
1 AGAGCAACAGAAGTGCTAAACAG
* *
24598920 AGAGC-ACAAAAGTGCTAATCAG
1 AGAGCAACAGAAGTGCTAAACAG
* * *
24598942 AGAGC-ACCGAAGTGCTGAACAA
1 AGAGCAACAGAAGTGCTAAACAG
*
24598964 AGAG-TACAGAAGTGCTAA
1 AGAGCAACAGAAGTGCTAA
24598982 TCAATTAATA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
21 2 0.04
22 49 0.96
ACGTcount: A:0.44, C:0.18, G:0.26, T:0.12
Consensus pattern (23 bp):
AGAGCAACAGAAGTGCTAAACAG
Found at i:24598977 original size:44 final size:44
Alignment explanation
Indices: 24598898--24598984 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
24598888 ACCCTACCAA
*
24598898 AGAGCAACGAAGTGCTAAACAGAGAGCACAAAAGTGCTAATCAG
1 AGAGCAACGAAGTGCTAAACAAAGAGCACAAAAGTGCTAATCAG
* * * *
24598942 AGAGCACCGAAGTGCTGAACAAAGAGTACAGAAGTGCTAATCA
1 AGAGCAACGAAGTGCTAAACAAAGAGCACAAAAGTGCTAATCA
24598985 ATTAATAGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.13
Consensus pattern (44 bp):
AGAGCAACGAAGTGCTAAACAAAGAGCACAAAAGTGCTAATCAG
Found at i:24606301 original size:17 final size:17
Alignment explanation
Indices: 24606273--24606312 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
24606263 TAAAAACTTG
*
24606273 AAATAA-AAAAATATCA
1 AAATAATAAAAATAACA
24606289 AAATAATAAAAATAACA
1 AAATAATAAAAATAACA
*
24606306 ACATAAT
1 AAATAAT
24606313 TCAAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.20
Consensus pattern (17 bp):
AAATAATAAAAATAACA
Found at i:24607795 original size:3 final size:3
Alignment explanation
Indices: 24607789--24607814 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24607779 TAATAGTAGT
24607789 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
24607815 TACTAATTAA
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:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:24607870 original size:27 final size:26
Alignment explanation
Indices: 24607840--24607897 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
24607830 AACCTAATGT
* *
24607840 TAATAACAATAATCAAAATAACTATGA
1 TAATAAAAATAATCAAAATAAATAT-A
**
24607867 TAATAAAAATAATCCTAATAAATATA
1 TAATAAAAATAATCAAAATAAATATA
24607893 TAATA
1 TAATA
24607898 CTAATAAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.29
Consensus pattern (26 bp):
TAATAAAAATAATCAAAATAAATATA
Found at i:24607901 original size:17 final size:15
Alignment explanation
Indices: 24607867--24607910 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
24607857 ATAACTATGA
*
24607867 TAATAAAAATAATCC
1 TAATAAAAATAATAC
24607882 TAATAAATATATAATAC
1 TAATAAA-A-ATAATAC
24607899 TAATAAACAATA
1 TAATAAA-AATA
24607911 TAGTAGTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.28
16 4 0.16
17 14 0.56
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (15 bp):
TAATAAAAATAATAC
Found at i:24615387 original size:15 final size:15
Alignment explanation
Indices: 24615367--24615395 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24615357 CCCTTGACAG
24615367 TTCATACTCCACACC
1 TTCATACTCCACACC
24615382 TTCATACTCCACAC
1 TTCATACTCCACAC
24615396 GTTGAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.45, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCATACTCCACACC
Found at i:24623211 original size:18 final size:20
Alignment explanation
Indices: 24623170--24623211 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
24623160 AAAATGGAAT
* *
24623170 ATTTAATATAAATAATATAT
1 ATTTAATATAAATAATAGAA
24623190 ATTT-ATAT-AATAATAGAA
1 ATTTAATATAAATAATAGAA
24623208 ATTT
1 ATTT
24623212 TAAAAGACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 12 0.60
19 4 0.20
20 4 0.20
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
ATTTAATATAAATAATAGAA
Found at i:24625179 original size:100 final size:100
Alignment explanation
Indices: 24625006--24625779 Score: 901
Period size: 100 Copynumber: 8.0 Consensus size: 100
24624996 AACTTTTGGA
** * * ** *
24625006 AAGTAAGATTCGCCATTGTGGCCTTAATCTTTTTAACTGCAATGTCCAGGAATCAAGATTCACCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* *
24625071 ATGTGGCTTTAATCTGTTCCACTGCACCACCAAGG
66 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* * * *
24625106 AAGTAGGATTCACTGTTGTAGCTTTAATCTTTTTAACCGCAATGTCAGGG-AGCCAAGATTCACC
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAG-CAAGATTCACC
* * * * *
24625170 GTTGTGGCTTTAATCTGCTCTACTGCATCGCCAGAG
65 GATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* * * * * * *
24625206 AGGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATATCGGGGAAGC--GATTCACCA
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* * *
24625269 ATGTGGCTTTAATCCGTTCCACTGCATCGCCTGGG
66 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* * *
24625304 GAGATAAGATTTGTTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACC
1 AAG-TAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACC
* * * *
24625369 GATTTGGCTTTAATCTGTTCTACTGCATCGCCATGG
65 GATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* * * *
24625405 AAGTATGATTCGATGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAG--TGATTCACCA
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
24625468 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
66 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* *
24625503 AAGTAAGATTCACTGTTGTAGCTTTAA------T--CTGCAATGTTGGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
24625560 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
66 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* * *
24625595 AAGTAAGATTTGCTATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC-A-ATTCACCA
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* *
24625658 ATGTGGCTTTAATCTCTTCCAATGCACCGCCAGGG
66 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* * *
24625693 AAGTAAAACTCGCTGTTGTAGCTTTAA------T--CTGCAATGTCGGGGAAGCAAGATTCGCCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* * *
24625750 TTGTGGCTTTAATCTGTTTCACTACACCGC
66 ATGTGGCTTTAATCTGTTCCACTGCACCGC
24625780 TTGGGAGATA
Statistics
Matches: 576, Mismatches: 81, Indels: 42
0.82 0.12 0.06
Matches are distributed among these distances:
90 34 0.06
91 1 0.00
92 100 0.17
98 165 0.29
99 46 0.08
100 188 0.33
101 42 0.07
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (100 bp):
AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
Found at i:24625533 original size:50 final size:50
Alignment explanation
Indices: 24625006--24625723 Score: 349
Period size: 50 Copynumber: 14.6 Consensus size: 50
24624996 AACTTTTGGA
* * * * ** *
24625006 AAGTAAGATTCGCCATTGTGGCCTTAATCTTTTTAACTGCAATGTCCA-GG
1 AAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAACG-CCAGGG
* * * *
24625056 AA-TCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCACCAAGG
1 AAGT-AAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGG
* * * * ** * * *
24625106 AAGTAGGATTCACTGTTGTAGCTTTAATCTTTTTAACCGCAATGTCAGGG
1 AAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGG
* * * * *
24625156 -AGCCAAGATTCACCGTTGTGGCTTTAATCTGCTCTACTGCATCGCCAGAG
1 AAG-TAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGG
* * * * * ** *** *
24625206 AGGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATATCGGGG
1 AAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGG
* ** * * *
24625256 AAG--CGATTCACCAATGTGGCTTTAATCCGTTCCACTGCATCGCCTGGG
1 AAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGG
* **** * * ** * * *
24625304 GAGATAAGATTTGTTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGG
1 AAG-TAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGG
* * * *
24625355 AAGCAAGATTCACCGATT-TGGCTTTAATCTGTTCTACTGCATCGCCATGG
1 AAGTAAGATTCACCG-TTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGG
* * * * ** * * *
24625405 AAGTATGATTCGA-TGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGG
1 AAGTAAGATTC-ACCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGG
** *
24625455 AAGT--GATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
1 AAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGG
* * * **
24625503 AAGTAAGATTCACTGTTGTAGCTTTAATCTG---CAATG--TTG---GGG
1 AAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGG
* * *
24625545 AAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
1 AAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGG
** ** * * ** * * *
24625595 AAGTAAGATTTGCTATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGG
1 AAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGG
* ** * * *
24625645 AAG-CA-ATTCACCAATGTGGCTTTAATCTCTTCCAATGCACCGCCAGGG
1 AAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGG
* * * * *
24625693 AAGTAAAACTCGCTGTTGTAGCTTTAATCTG
1 AAGTAAGATTCACCGTTGTGGCTTTAATCTG
24625724 CAATGTCGGG
Statistics
Matches: 474, Mismatches: 170, Indels: 48
0.68 0.25 0.07
Matches are distributed among these distances:
42 30 0.06
45 5 0.01
47 6 0.01
48 102 0.22
49 10 0.02
50 285 0.60
51 36 0.08
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (50 bp):
AAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGG
Found at i:24625591 original size:92 final size:91
Alignment explanation
Indices: 24625436--24625779 Score: 442
Period size: 92 Copynumber: 3.7 Consensus size: 91
24625426 CTTTAATCTT
*
24625436 TTTAA-CTGCAATGTCGGGGAAG-TGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGCC
1 TTTAATCTGCAATGTCGGGGAAGCAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGCC
*
24625499 AGGGAAGTAAGATTCACTGTTGTAGC
66 AGGGAAGTAAGATTCGCTGTTGTAGC
* *
24625525 TTTAATCTGCAATGTTGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGC
1 TTTAATCTGCAATGTCGGGGAAGC-AGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGC
* *
24625590 CAGGGAAGTAAGATTTGCTATTGTAGC
65 CAGGGAAGTAAGATTCGCTGTTGTAGC
* *
24625617 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCA-ATTCACCAATGTGGCTTTAATCTCTTCCAAT
1 TTTAA------T--CTGCAATGTCGGGGAAGCAGATTCACCAATGTGGCTTTAATCTGTTCCACT
* *
24625681 GCACCGCCAGGGAAGTAAAACTCGCTGTTGTAGC
58 GCACCGCCAGGGAAGTAAGATTCGCTGTTGTAGC
* ** * *
24625715 TTTAATCTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTTCACTACACCGC
1 TTTAATCTGCAATGTCGGGGAAGC-AGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGC
24625780 TTGGGAGATA
Statistics
Matches: 221, Mismatches: 21, Indels: 23
0.83 0.08 0.09
Matches are distributed among these distances:
89 5 0.02
90 34 0.15
91 1 0.00
92 99 0.45
98 64 0.29
99 1 0.00
100 17 0.08
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (91 bp):
TTTAATCTGCAATGTCGGGGAAGCAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGCC
AGGGAAGTAAGATTCGCTGTTGTAGC
Found at i:24625622 original size:190 final size:190
Alignment explanation
Indices: 24625006--24625779 Score: 911
Period size: 190 Copynumber: 4.0 Consensus size: 190
24624996 AACTTTTGGA
* * ** * *
24625006 AAGTAAGATTCGCCATTGTGGCCTTAATCTTTTTAACTGCAATGTCCAGGAATCAAGATTCACCG
1 AAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC--GATTCACCA
* * *
24625071 ATGTGGCTTTAATCTGTTCCACTGCACCACCAAGGAAGTAGGATTCACTGTTGTAGCTTTAATCT
64 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTTGTAGCTTTAATC-
* * * * *
24625136 TTTTAACCGCAATGTCAGGG-AGCCAAGATTCACCGTTGTGGCTTTAATCTGCTCTACTGCATCG
128 ---T----GCAATGTCGGGGAAG-CAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCG
*
24625200 CCAGAG
185 CCAGGG
* * ** * *
24625206 AGGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATATCGGGGAAGCGATTCACCAAT
1 AAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCGATTCACCAAT
* * * * ***
24625271 GTGGCTTTAATCCGTTCCACTGCATCGCCTGGGGAGATAAGATTTGTTGTTGTAGCTTTAATCTT
66 GTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAG-TAAGATTCACTGTTGTAGCTTTAA----
* * *
24625336 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATTTGGCTTTAATCTGTTCTACTGCATCGCC
126 --T--CTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCC
*
24625401 ATGG
187 AGGG
* *** *
24625405 AAGTATGATTCGATGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGTGATTCACCAAT
1 AAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCGATTCACCAAT
24625470 GTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTTGTAGCTTTAATCTGC
66 GTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTTGTAGCTTTAATCTGC
*
24625535 AATGTTGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
131 AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* * *
24625595 AAGTAAGATTTGCTATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAATTCACCAAT
1 AAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCGATTCACCAAT
* * * * *
24625660 GTGGCTTTAATCTCTTCCAATGCACCGCCAGGGAAGTAAAACTCGCTGTTGTAGCTTTAATCTGC
66 GTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTTGTAGCTTTAATCTGC
* * * *
24625725 AATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTTCACTACACCGC
131 AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGC
24625780 TTGGGAGATA
Statistics
Matches: 502, Mismatches: 62, Indels: 30
0.85 0.10 0.05
Matches are distributed among these distances:
190 228 0.45
192 1 0.00
198 61 0.12
199 162 0.32
200 47 0.09
203 1 0.00
205 1 0.00
207 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (190 bp):
AAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCGATTCACCAAT
GTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTTGTAGCTTTAATCTGC
AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
Found at i:24625696 original size:98 final size:101
Alignment explanation
Indices: 24625525--24625722 Score: 303
Period size: 98 Copynumber: 2.0 Consensus size: 101
24625515 CTGTTGTAGC
* * * *
24625525 TTTAATCTGCAATGTTGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGC
1 TTTAATCTGCAATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTCTTCCAATGCACCGC
* * *
24625590 CAGGGAAGTAAGATTTGCTATTGTAGCTTTAATCTT
66 CAGGGAAGTAAAACTCGCTATTGTAGCTTTAATCTT
24625626 TTTAA-CTGCAATGTCGGGGAAGC-A-ATTCACCAATGTGGCTTTAATCTCTTCCAATGCACCGC
1 TTTAATCTGCAATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTCTTCCAATGCACCGC
*
24625688 CAGGGAAGTAAAACTCGCTGTTGTAGCTTTAATCT
66 CAGGGAAGTAAAACTCGCTATTGTAGCTTTAATCT
24625723 GCAATGTCGG
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
98 66 0.74
99 1 0.01
100 17 0.19
101 5 0.06
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (101 bp):
TTTAATCTGCAATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTCTTCCAATGCACCGC
CAGGGAAGTAAAACTCGCTATTGTAGCTTTAATCTT
Found at i:24626009 original size:98 final size:96
Alignment explanation
Indices: 24625843--24626220 Score: 463
Period size: 98 Copynumber: 4.0 Consensus size: 96
24625833 ATAAGACCTG
* *
24625843 ATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCTACTGTAA
1 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGAT-CTTTATTTTAATCCGCTCCACTGTAA
* *
24625908 TCTCAGGGAAATAGGATTACTGGCTTCAATCT
65 TCTCAGGGAGATAGGATTACTAGCTTCAATCT
24625940 GATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTA
1 -ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGAT-CTTTATTTTAATCCGCTCCACTGTA
24626005 ATCTCAGGGAGATAGGATTACTAGCTTCAATC-
64 ATCTCAGGGAGATAGGATTACTAGCTTCAATCT
* * ** * *
24626037 -T--G-----CTCTGCTGTAA-TCTCAGGGAGATAAGAT-TTCTGGCTTCAATCTGCTCCACTGT
1 ATGCGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCTT-T-ATTTTAATCCGCTCCACTGT
* ** *
24626092 AATCTCAGGGAGATAAGATTTTTGGCTTCAATCT
63 AATCTCAGGGAGATAGGATTACTAGCTTCAATCT
* * *
24626126 ATTGCGATCTACTCTACTGTAACTTCAGAGAGATAAAATCATTATTTTAATCTGCTCCACTGTAA
1 A-TGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTATTTTAATCCGCTCCACTGTAA
24626191 TCTCAGGGAGATAGGATTACTAGCTTCAAT
65 TCTCAGGGAGATAGGATTACTAGCTTCAAT
24626221 TTGCTCCACT
Statistics
Matches: 240, Mismatches: 25, Indels: 31
0.81 0.08 0.10
Matches are distributed among these distances:
86 2 0.01
87 2 0.01
88 69 0.29
91 1 0.00
93 2 0.01
95 1 0.00
97 45 0.19
98 116 0.48
99 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (96 bp):
ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTATTTTAATCCGCTCCACTGTAAT
CTCAGGGAGATAGGATTACTAGCTTCAATCT
Found at i:24626018 original size:44 final size:42
Alignment explanation
Indices: 24625946--24626296 Score: 240
Period size: 44 Copynumber: 7.8 Consensus size: 42
24625936 ATCTGATGCG
* * * * *
24625946 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT--TTTACTTCA
* * *
24625990 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATT-TTA-CTTCA
** *
24626034 ATCTGCTCTGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT-T-ACTTCA
*
24626078 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTTTGGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TTTT-ACTTCA
* * * * *
24626122 ATCTATTGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAAATCATTATTTTA
1 ATC---T--G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT-TTTACTTCA
* *
24626175 ATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATT-TTA-CTTCA
* * *
24626219 ATTTGCTCCACTGTAATCTCAGGAAGATAAGATTTCTGGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT-T-ACTTCA
*
24626263 ATCTGCTCCACTGTAA-CATCAGAGAGATAAGATT
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATT
24626297 CACCATTTCT
Statistics
Matches: 246, Mismatches: 37, Indels: 48
0.74 0.11 0.15
Matches are distributed among these distances:
42 1 0.00
43 24 0.10
44 177 0.72
45 5 0.02
46 2 0.01
47 1 0.00
48 1 0.00
49 1 0.00
50 1 0.00
51 2 0.01
52 1 0.00
53 9 0.04
54 21 0.09
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (42 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTTACTTCA
Found at i:24626249 original size:185 final size:186
Alignment explanation
Indices: 24625891--24626296 Score: 647
Period size: 185 Copynumber: 2.2 Consensus size: 186
24625881 CCTTTATTTT
* * * *
24625891 AATCCGCTCTACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGATGCGATCTACTCTA
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTGATGCGATCTACTCTA
* *
24625956 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
66 CTGTAACTTCAGAGAGATAAAATCCATTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
** *
24626021 ATTACTAGCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
131 ATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGAAGATAAGATTTCTGGCTTC
**
24626077 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTTTGGCTTCAATCT-ATTGCGATCTACTCT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTGA-TGCGATCTACTCT
*
24626141 ACTGTAACTTCAGAGAGATAAAAT-CATTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAG
65 ACTGTAACTTCAGAGAGATAAAATCCATTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAG
*
24626205 GATTACTAGCTTCAATTTGCTCCACTGTAATCTCAGGAAGATAAGATTTCTGGCTTC
130 GATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGAAGATAAGATTTCTGGCTTC
*
24626262 AATCTGCTCCACTGTAA-CATCAGAGAGATAAGATT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATT
24626297 CACCATTTCT
Statistics
Matches: 204, Mismatches: 14, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
184 1 0.00
185 124 0.61
186 79 0.39
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (186 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTGATGCGATCTACTCTA
CTGTAACTTCAGAGAGATAAAATCCATTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
ATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGAAGATAAGATTTCTGGCTTC
Found at i:24627706 original size:14 final size:14
Alignment explanation
Indices: 24627687--24627742 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
24627677 TTAGCATCTC
*
24627687 CATTTTTACTTTTT
1 CATTTTCACTTTTT
24627701 CATTTTCA-TTTTT
1 CATTTTCACTTTTT
* * *
24627714 TATATTCATTTTTT
1 CATTTTCACTTTTT
*
24627728 AATTTTTCACTTTTT
1 CA-TTTTCACTTTTT
24627743 TTTGAGAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.32
14 13 0.38
15 10 0.29
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.70
Consensus pattern (14 bp):
CATTTTCACTTTTT
Found at i:24628610 original size:22 final size:22
Alignment explanation
Indices: 24628567--24628612 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
24628557 CTTTGGCCTC
* *
24628567 TCCTTTTTTCTTTTTTTCCTTT
1 TCCTTTTTTCTTTCTCTCCTTT
*
24628589 TCCTTTTTTCTCTTCTCTCTTTT
1 TCCTTTTTTCT-TTCTCTCCTTT
24628612 T
1 T
24628613 TCATTTTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (22 bp):
TCCTTTTTTCTTTCTCTCCTTT
Found at i:24628676 original size:33 final size:37
Alignment explanation
Indices: 24628630--24628702 Score: 100
Period size: 34 Copynumber: 2.1 Consensus size: 37
24628620 CATTTTGACC
24628630 TTGACTTTGA-TTTTTCTTTTT-CTT-CT-TTTTGTT
1 TTGACTTTGATTTTTTCTTTTTGCTTGCTCTTTTGTT
* *
24628663 TTGATTTTGATTTTTTCTTTTTGCTTGCTCTTTTTTT
1 TTGACTTTGATTTTTTCTTTTTGCTTGCTCTTTTGTT
24628700 TTG
1 TTG
24628703 GATCTGAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 9 0.26
34 11 0.32
35 3 0.09
36 2 0.06
37 9 0.26
ACGTcount: A:0.05, C:0.11, G:0.11, T:0.73
Consensus pattern (37 bp):
TTGACTTTGATTTTTTCTTTTTGCTTGCTCTTTTGTT
Found at i:24633425 original size:3 final size:3
Alignment explanation
Indices: 24633417--24633458 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
24633407 TAGTGACCAG
24633417 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24633459 ACCCGTTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:24637626 original size:17 final size:17
Alignment explanation
Indices: 24637571--24637642 Score: 62
Period size: 17 Copynumber: 4.2 Consensus size: 17
24637561 ATATTATTTT
24637571 TTTAAAAA-AT-AAAAA
1 TTTAAAAATATAAAAAA
*
24637586 TTATGAAAAA-ATAAAAACTC
1 TT-T-AAAAATATAAAAA--A
24637606 TTTAAAAATA-AAATAAA
1 TTTAAAAATATAAA-AAA
24637623 TTTAAAAATATAAAAAA
1 TTTAAAAATATAAAAAA
24637640 TTT
1 TTT
24637643 CAAACTTCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
15 2 0.04
16 1 0.02
17 23 0.49
18 15 0.32
19 4 0.09
20 2 0.04
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (17 bp):
TTTAAAAATATAAAAAA
Found at i:24645116 original size:22 final size:22
Alignment explanation
Indices: 24645058--24645116 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
24645048 GAATGGTATC
24645058 TACAAATCAAATCTCTAAGATT
1 TACAAATCAAATCTCTAAGATT
*
24645080 TACAAAATCATATCTCCTAAGA-T
1 TAC-AAATCAAATCT-CTAAGATT
*
24645103 TACATATCAAATCT
1 TACAAATCAAATCT
24645117 ACGATTGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 12 0.38
23 14 0.44
24 6 0.19
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.32
Consensus pattern (22 bp):
TACAAATCAAATCTCTAAGATT
Found at i:24650259 original size:22 final size:22
Alignment explanation
Indices: 24650201--24650259 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
24650191 GAATGGTATC
24650201 TACAAATCAAATCTCTAAGATT
1 TACAAATCAAATCTCTAAGATT
*
24650223 TACAAAATCATATCTCCTAAGA-T
1 TAC-AAATCAAATCT-CTAAGATT
*
24650246 TACATATCAAATCT
1 TACAAATCAAATCT
24650260 ACGATTGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 12 0.38
23 14 0.44
24 6 0.19
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.32
Consensus pattern (22 bp):
TACAAATCAAATCTCTAAGATT
Found at i:24658469 original size:12 final size:12
Alignment explanation
Indices: 24658452--24658477 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24658442 TTCATCATGG
24658452 TATCTGATTTTT
1 TATCTGATTTTT
24658464 TATCTGATTTTT
1 TATCTGATTTTT
24658476 TA
1 TA
24658478 GAATAAATTT
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:0.19, C:0.08, G:0.08, T:0.65
Consensus pattern (12 bp):
TATCTGATTTTT
Found at i:24681833 original size:12 final size:12
Alignment explanation
Indices: 24681816--24681840 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24681806 GGTGTTCAGT
24681816 CGGTTAACCGAC
1 CGGTTAACCGAC
24681828 CGGTTAACCGAC
1 CGGTTAACCGAC
24681840 C
1 C
24681841 CGAAATTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:24682015 original size:9 final size:9
Alignment explanation
Indices: 24682001--24682126 Score: 189
Period size: 9 Copynumber: 13.6 Consensus size: 9
24681991 TTTGGTTAAA
24682001 AATTACCCG
1 AATTACCCG
24682010 AATTACCCG
1 AATTACCCG
24682019 AATTACCCG
1 AATTACCCG
24682028 AATTACCCG
1 AATTACCCG
*
24682037 ACTTACCCG
1 AATTACCCG
*
24682046 ACTTACCCG
1 AATTACCCG
24682055 AATTACCCG
1 AATTACCCG
24682064 AATTACCCG
1 AATTACCCG
*
24682073 AAAATTACCCA
1 --AATTACCCG
24682084 AATTACCCG
1 AATTACCCG
24682093 AATTACCCG
1 AATTACCCG
24682102 AAAATTACCCG
1 --AATTACCCG
24682113 AATTACCCG
1 AATTACCCG
24682122 AATTA
1 AATTA
24682127 AATCACTACA
Statistics
Matches: 109, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
9 92 0.84
11 17 0.16
ACGTcount: A:0.36, C:0.33, G:0.10, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:24682090 original size:29 final size:28
Alignment explanation
Indices: 24682002--24682126 Score: 191
Period size: 29 Copynumber: 4.5 Consensus size: 28
24681992 TTGGTTAAAA
24682002 ATTACCCGAATTACCCG-AATTACCCGA
1 ATTACCCGAATTACCCGAAATTACCCGA
* *
24682029 ATTACCCGACTTACCCG-ACTTACCCGA
1 ATTACCCGAATTACCCGAAATTACCCGA
*
24682056 ATTACCCGAATTACCCGAAAATTACCCAA
1 ATTACCCGAATTACCCG-AAATTACCCGA
24682085 ATTACCCGAATTACCCGAAAATTACCCGA
1 ATTACCCGAATTACCCG-AAATTACCCGA
24682114 ATTACCCGAATTA
1 ATTACCCGAATTA
24682127 AATCACTACA
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
27 41 0.46
29 49 0.54
ACGTcount: A:0.35, C:0.33, G:0.10, T:0.22
Consensus pattern (28 bp):
ATTACCCGAATTACCCGAAATTACCCGA
Found at i:24682155 original size:17 final size:17
Alignment explanation
Indices: 24682133--24682193 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
24682123 ATTAAATCAC
24682133 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
24682150 TACATAAATCTTTTAATCAC
1 TACAT-AA--TTAAAAACAT
*
24682170 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
24682187 TACATAA
1 TACATAA
24682194 GTCTTTGAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 17 0.53
18 2 0.06
19 2 0.06
20 11 0.34
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:24682233 original size:37 final size:37
Alignment explanation
Indices: 24682127--24682239 Score: 183
Period size: 37 Copynumber: 3.1 Consensus size: 37
24682117 ACCCGAATTA
* * *
24682127 AATCACTACATAATTAAAAACATTACATAAATCTTTT
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
24682164 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
*
24682201 AATCACTACATAATTAAAAATATTACACAAGTC-TTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
24682237 AAT
1 AAT
24682240 TAAAACATAA
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
36 6 0.08
37 66 0.92
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.34
Consensus pattern (37 bp):
AATCACTACATAATTAAAAATATTACATAAGTCTTTG
Found at i:24682307 original size:24 final size:24
Alignment explanation
Indices: 24682280--24682338 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
24682270 ATTCTCCATT
*
24682280 TATATCCATTTCATCTTTCCAAAA
1 TATATCCATTTCATCTCTCCAAAA
*
24682304 TATATTCATTTCATCTCTCCAAAA
1 TATATCCATTTCATCTCTCCAAAA
*
24682328 TATCTCCATTT
1 TATATCCATTT
24682339 GCATTAAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (24 bp):
TATATCCATTTCATCTCTCCAAAA
Found at i:24685423 original size:16 final size:16
Alignment explanation
Indices: 24685402--24685435 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
24685392 ATTTTTTTCT
*
24685402 TACATTAATTATAATA
1 TACATTAATTACAATA
24685418 TACATTAATTACAATA
1 TACATTAATTACAATA
24685434 TA
1 TA
24685436 TTCAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (16 bp):
TACATTAATTACAATA
Found at i:24686359 original size:16 final size:17
Alignment explanation
Indices: 24686334--24686371 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
24686324 GCCTAAGAGA
*
24686334 AAATTGGGCT-GGATTT
1 AAATTAGGCTGGGATTT
*
24686350 AAATTAGGCTGGGTTTT
1 AAATTAGGCTGGGATTT
24686367 AAATT
1 AAATT
24686372 GGGAGGGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.29, C:0.05, G:0.26, T:0.39
Consensus pattern (17 bp):
AAATTAGGCTGGGATTT
Found at i:24686996 original size:112 final size:106
Alignment explanation
Indices: 24686772--24686976 Score: 259
Period size: 106 Copynumber: 1.9 Consensus size: 106
24686762 TTTTTATTGT
* * *
24686772 AATTTTTATGTCGTTTTTAATTTATTTTAAAATTATTTTGTTAGTAACTATTATAAATTGTTTGT
1 AATTTTTATGTCGTTTTTAATTTATTTTAAAATTATTTTGTTAGTAAATATTATAAAGTATTTGT
*
24686837 TTAATTTAATGTTTATTGTGATTTGTTAGGTTATGAATGGA
66 TTAATTTAATGTTTATTGTGATTTGTTAGGTAATGAATGGA
* * *
24686878 AATTTTTATGT-TTTTTTAAATTTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTAAG
1 AATTTTTATGTCGTTTTT-AATTTATTTTAAAATTATTTTGTTAGTAA---AT-ATTA--TAAAG
* *
24686942 TATTTGTTTAGTTTAATGTTTATTGTTATTTGTTA
59 TATTTGTTTAATTTAATGTTTATTGTGATTTGTTA
24686977 TGAATGTAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
105 5 0.06
106 39 0.46
109 1 0.01
110 4 0.05
112 35 0.42
ACGTcount: A:0.27, C:0.01, G:0.14, T:0.58
Consensus pattern (106 bp):
AATTTTTATGTCGTTTTTAATTTATTTTAAAATTATTTTGTTAGTAAATATTATAAAGTATTTGT
TTAATTTAATGTTTATTGTGATTTGTTAGGTAATGAATGGA
Found at i:24687257 original size:22 final size:21
Alignment explanation
Indices: 24687232--24687275 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
24687222 ATTTTTTGAT
24687232 TATAATTATATTATTATTGTAC
1 TATAATTATATTATTATT-TAC
* *
24687254 TATATTTATCTTATTATTTAC
1 TATAATTATATTATTATTTAC
24687275 T
1 T
24687276 GTATAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (21 bp):
TATAATTATATTATTATTTAC
Found at i:24689004 original size:22 final size:23
Alignment explanation
Indices: 24688974--24689017 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
24688964 GTATTTATTT
*
24688974 AATTGAGATTCACTGGAACAAAG
1 AATTGAGATTCACTGCAACAAAG
*
24688997 AATT-AGATTCATTGCAACAAA
1 AATTGAGATTCACTGCAACAAA
24689018 CTTGGTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (23 bp):
AATTGAGATTCACTGCAACAAAG
Found at i:24692066 original size:29 final size:31
Alignment explanation
Indices: 24692008--24692066 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
24691998 CCCTTCTATT
*
24692008 AAAAAAAAACATACTTTATGCTGCCTCTTTA
1 AAAAAAAAACATACTTTATGCTGCCCCTTTA
*
24692039 AAAAAACAAACA-A-TTTAT-CTTCCCCTTT
1 AAAAAA-AAACATACTTTATGCTGCCCCTTT
24692067 CTTTCTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 8 0.32
30 5 0.20
31 7 0.28
32 5 0.20
ACGTcount: A:0.42, C:0.22, G:0.03, T:0.32
Consensus pattern (31 bp):
AAAAAAAAACATACTTTATGCTGCCCCTTTA
Found at i:24692070 original size:4 final size:4
Alignment explanation
Indices: 24692063--24692118 Score: 51
Period size: 4 Copynumber: 13.0 Consensus size: 4
24692053 TTATCTTCCC
*
24692063 CTTT CTTT CTTT CTTCT CCTT CTCTT CTTCT CTATT GCTTT CTTT -TTT
1 CTTT CTTT CTTT CTT-T CTTT CT-TT CTT-T CT-TT -CTTT CTTT CTTT
24692111 CTTT CTTT
1 CTTT CTTT
24692119 TTTTTACCAC
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
3 3 0.07
4 25 0.57
5 13 0.30
6 3 0.07
ACGTcount: A:0.02, C:0.29, G:0.02, T:0.68
Consensus pattern (4 bp):
CTTT
Found at i:24692076 original size:8 final size:8
Alignment explanation
Indices: 24692063--24692118 Score: 51
Period size: 9 Copynumber: 6.5 Consensus size: 8
24692053 TTATCTTCCC
24692063 CTTTCTTT
1 CTTTCTTT
24692071 CTTTCTTCT
1 CTTTCTT-T
*
24692080 CCTTCTCTT
1 CTTTCT-TT
24692089 CTTCTCTATT
1 CTT-TCT-TT
24692099 GCTTTCTTT
1 -CTTTCTTT
24692108 -TTTCTTT
1 CTTTCTTT
24692115 CTTT
1 CTTT
24692119 TTTTTACCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
7 7 0.17
8 10 0.25
9 11 0.28
10 9 0.22
11 3 0.08
ACGTcount: A:0.02, C:0.29, G:0.02, T:0.68
Consensus pattern (8 bp):
CTTTCTTT
Found at i:24692083 original size:18 final size:18
Alignment explanation
Indices: 24692056--24692113 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
24692046 AAACAATTTA
*
24692056 TCTTCCCCTTTCTTTCTT
1 TCTTCTCCTTTCTTTCTT
24692074 TCTTCTCC-TTCTCTTCTT
1 TCTTCTCCTTTCT-TTCTT
*
24692092 CTCTAT-TGCTTTCTTT-TT
1 -TCT-TCTCCTTTCTTTCTT
24692110 TCTT
1 TCTT
24692114 TCTTTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
16 1 0.03
17 7 0.21
18 14 0.41
19 7 0.21
20 5 0.15
ACGTcount: A:0.02, C:0.33, G:0.02, T:0.64
Consensus pattern (18 bp):
TCTTCTCCTTTCTTTCTT
Found at i:24695462 original size:23 final size:25
Alignment explanation
Indices: 24695413--24695463 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
24695403 AAAGTATGGA
24695413 GAATAAATTTGTGTACAATAAAAAT
1 GAATAAATTTGTGTACAATAAAAAT
*
24695438 GAATAAATTTGTGT-TAA-AAAAAT
1 GAATAAATTTGTGTACAATAAAAAT
24695461 GAA
1 GAA
24695464 AAAAATAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 9 0.36
24 2 0.08
25 14 0.56
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.31
Consensus pattern (25 bp):
GAATAAATTTGTGTACAATAAAAAT
Found at i:24695475 original size:22 final size:23
Alignment explanation
Indices: 24695432--24695476 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
24695422 TGTGTACAAT
* * *
24695432 AAAAATGAATAAATTTGTGTTAA
1 AAAAATGAAAAAAATAGTGTTAA
24695455 AAAAATGAAAAAAATAG-GTTAA
1 AAAAATGAAAAAAATAGTGTTAA
24695477 CGAGGTGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.27
Consensus pattern (23 bp):
AAAAATGAAAAAAATAGTGTTAA
Found at i:24709722 original size:60 final size:60
Alignment explanation
Indices: 24709629--24709749 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
24709619 AATGGAAGGG
24709629 TAGTTTTATGTACAACAACTCTGTGTTGTTTAAGCTTTTGTAGGCCAATATTGCCAAAAA
1 TAGTTTTATGTACAACAACTCTGTGTTGTTTAAGCTTTTGTAGGCCAATATTGCCAAAAA
*
24709689 TAGTTTTATGTACAACAATTCTGTGTTGTTTAAGCTTTTGTAGGCCAATATTGCCAAAAA
1 TAGTTTTATGTACAACAACTCTGTGTTGTTTAAGCTTTTGTAGGCCAATATTGCCAAAAA
24709749 T
1 T
24709750 TGAGCCACAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.40
Consensus pattern (60 bp):
TAGTTTTATGTACAACAACTCTGTGTTGTTTAAGCTTTTGTAGGCCAATATTGCCAAAAA
Found at i:24712213 original size:12 final size:13
Alignment explanation
Indices: 24712191--24712224 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
24712181 TACTGATTTA
*
24712191 ATTTTTCTTTTTC
1 ATTTTTTTTTTTC
24712204 -TTTTTTTTTTTC
1 ATTTTTTTTTTTC
24712216 ATTTTTTTT
1 ATTTTTTTT
24712225 CGTTTTGCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (13 bp):
ATTTTTTTTTTTC
Found at i:24716129 original size:21 final size:22
Alignment explanation
Indices: 24716087--24716130 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
24716077 TCTTTAGGGT
* **
24716087 ATCTTCAAGGGTGTGTTGCGAC
1 ATCTTCAAGGCTGTGTCACGAC
24716109 ATCTTC-AGGCTGTGTCACGAC
1 ATCTTCAAGGCTGTGTCACGAC
24716130 A
1 A
24716131 CTGAAAGCAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (22 bp):
ATCTTCAAGGCTGTGTCACGAC
Found at i:24726353 original size:10 final size:10
Alignment explanation
Indices: 24726338--24726371 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
24726328 AATATATTAT
*
24726338 ATATGATATG
1 ATATGATATA
24726348 ATATGATATA
1 ATATGATATA
*
24726358 ATATTATATA
1 ATATGATATA
24726368 ATAT
1 ATAT
24726372 ATTTAGAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (10 bp):
ATATGATATA
Found at i:24730031 original size:21 final size:20
Alignment explanation
Indices: 24730003--24730045 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
24729993 ATAGAGTACA
24730003 TTCTTGTTT-AATTATCATAT
1 TTCTTGTTTGAATTAT-ATAT
24730023 TTCTATGTTTGAATTATATAT
1 TTCT-TGTTTGAATTATATAT
24730044 TT
1 TT
24730046 AATGGATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.19
21 11 0.52
22 6 0.29
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.60
Consensus pattern (20 bp):
TTCTTGTTTGAATTATATAT
Found at i:24733999 original size:43 final size:43
Alignment explanation
Indices: 24733952--24734037 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
24733942 TATGTGATTG
* *
24733952 ATATTGAAATGGA-AAATATGATAAATGAATATGAGATGAGAAA
1 ATATTG-AATGAACAAATATGAGAAATGAATATGAGATGAGAAA
* * *
24733995 ATATTGAATTAACAAATATGAGAAATGATTGTGAGATGAGAAA
1 ATATTGAATGAACAAATATGAGAAATGAATATGAGATGAGAAA
24734038 TGAAATATGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 4 0.11
43 33 0.89
ACGTcount: A:0.51, C:0.01, G:0.21, T:0.27
Consensus pattern (43 bp):
ATATTGAATGAACAAATATGAGAAATGAATATGAGATGAGAAA
Found at i:24735067 original size:49 final size:49
Alignment explanation
Indices: 24734988--24735084 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 49
24734978 TCTAGAAGGG
* * * *
24734988 ATAAATAGTAATAAGAGTGTAGATAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTAATAAGAGTGTAGACAGTGGAAGACCAAATTTAGAAATGT
* *
24735037 ATAAATAGTGATAAGAGTGTAGACATTGGAAGACCAAATTTAGAAATG
1 ATAAATAGTAATAAGAGTGTAGACAGTGGAAGACCAAATTTAGAAATG
24735085 CATAGCATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.44, C:0.05, G:0.24, T:0.27
Consensus pattern (49 bp):
ATAAATAGTAATAAGAGTGTAGACAGTGGAAGACCAAATTTAGAAATGT
Found at i:24741580 original size:43 final size:43
Alignment explanation
Indices: 24741519--24741604 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
24741509 TAAGTGATTG
* *
24741519 ATATTGAAATGGCAAATATGATAAATGAATATGAGATGAGAAA
1 ATATTGAAATGACAAATATGAGAAATGAATATGAGATGAGAAA
* * * *
24741562 ATATTGAATTGACAAATATGGGAAATGATTGTGAGATGAGAAA
1 ATATTGAAATGACAAATATGAGAAATGAATATGAGATGAGAAA
24741605 TGAAATATGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.48, C:0.02, G:0.23, T:0.27
Consensus pattern (43 bp):
ATATTGAAATGACAAATATGAGAAATGAATATGAGATGAGAAA
Found at i:24742940 original size:49 final size:49
Alignment explanation
Indices: 24742863--24742959 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
24742853 TCTAGAAGGG
* * *
24742863 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGAGTAGACAGTGGAAGACCAAGTTTAGAAATGT
*
24742912 ATAAATAGTGATAAGAGAGTAGATAGTGGAAGACCAAGTTTAGAAATG
1 ATAAATAGTGATAAGAGAGTAGACAGTGGAAGACCAAGTTTAGAAATG
24742960 CATAGCATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.43, C:0.05, G:0.27, T:0.25
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGAGTAGACAGTGGAAGACCAAGTTTAGAAATGT
Found at i:24748979 original size:49 final size:49
Alignment explanation
Indices: 24748922--24749018 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
24748912 TCCATATAAA
* * *
24748922 ACTATACTTCTTTTATTTTACATTAATTAGAATAAGGTTTTTCAACCTT
1 ACTATACTTCATCTATTTGACATTAATTAGAATAAGGTTTTTCAACCTT
*
24748971 ACTATACTTCATCTATTTGACATTTATTAGAATAAGGTTTTTCAACCT
1 ACTATACTTCATCTATTTGACATTAATTAGAATAAGGTTTTTCAACCT
24749019 ATAAATATCT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.31, C:0.15, G:0.07, T:0.46
Consensus pattern (49 bp):
ACTATACTTCATCTATTTGACATTAATTAGAATAAGGTTTTTCAACCTT
Found at i:24750837 original size:14 final size:14
Alignment explanation
Indices: 24750818--24750845 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
24750808 AGACTCGGGT
24750818 TAGTTTTGATTTGG
1 TAGTTTTGATTTGG
24750832 TAGTTTTGATTTGG
1 TAGTTTTGATTTGG
24750846 CAGTGTACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.29, T:0.57
Consensus pattern (14 bp):
TAGTTTTGATTTGG
Found at i:24755177 original size:45 final size:45
Alignment explanation
Indices: 24755113--24755202 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
24755103 GAGTCATTGG
*
24755113 GTATGTTGATTCTGATTTTGCTAGGGACCTTGATAAAAGAAAATC
1 GTATGTTGATTCTGATTTTGCTAGAGACCTTGATAAAAGAAAATC
24755158 GTATGTTGATTCTGATTTTGCTAGAGACCTTGATAAAAGAAAATC
1 GTATGTTGATTCTGATTTTGCTAGAGACCTTGATAAAAGAAAATC
24755203 TTTAATAGGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (45 bp):
GTATGTTGATTCTGATTTTGCTAGAGACCTTGATAAAAGAAAATC
Found at i:24759478 original size:82 final size:83
Alignment explanation
Indices: 24759337--24759502 Score: 325
Period size: 82 Copynumber: 2.0 Consensus size: 83
24759327 AAAAAATACT
24759337 TTTTACATATGATTTAGAATATTTTAACAAAATTAATAATAGCTTCTACAACGATAAGCAAAAAC
1 TTTTACATATGATTTAGAATATTTTAACAAAATTAATAATAGCTTCTACAACGATAAGCAAAAAC
24759402 AATACCACAACTTCATCA
66 AATACCACAACTTCATCA
24759420 TTTTACATATGATTTAGAATATTTTAAC-AAATTAATAATAGCTTCTACAACGATAAGCAAAAAC
1 TTTTACATATGATTTAGAATATTTTAACAAAATTAATAATAGCTTCTACAACGATAAGCAAAAAC
24759484 AATACCACAACTTCATCA
66 AATACCACAACTTCATCA
24759502 T
1 T
24759503 AGCATACATA
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
82 55 0.66
83 28 0.34
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (83 bp):
TTTTACATATGATTTAGAATATTTTAACAAAATTAATAATAGCTTCTACAACGATAAGCAAAAAC
AATACCACAACTTCATCA
Found at i:24762959 original size:22 final size:22
Alignment explanation
Indices: 24762932--24762973 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
24762922 CAATAATTTA
24762932 AAAAATAAGATATTTTTTGTAT
1 AAAAATAAGATATTTTTTGTAT
**
24762954 AAAAATTTGATATTTTTTGT
1 AAAAATAAGATATTTTTTGT
24762974 GGTGACCAAA
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:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (22 bp):
AAAAATAAGATATTTTTTGTAT
Found at i:24765092 original size:35 final size:34
Alignment explanation
Indices: 24765012--24765095 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 34
24765002 CAGGGCTTGG
* * * *
24765012 GATTTAAGGTTTATGGTTTGGAGTTTAATGTTTA
1 GATTTAAGGTTTAAGATTTGGAGTTTAAGGTTAA
* *
24765046 GATTTAGGGTTTAAGTATTTGGAGTTTAGGGTTCAA
1 GATTTAAGGTTTAAG-ATTTGGAGTTTAAGGTT-AA
24765082 G-TTTAAGGTTTAAG
1 GATTTAAGGTTTAAG
24765096 GGTTTAGGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
34 13 0.32
35 26 0.63
36 2 0.05
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.45
Consensus pattern (34 bp):
GATTTAAGGTTTAAGATTTGGAGTTTAAGGTTAA
Found at i:24765542 original size:59 final size:55
Alignment explanation
Indices: 24765450--24765567 Score: 191
Period size: 59 Copynumber: 2.1 Consensus size: 55
24765440 GTTAAATTTT
*
24765450 TTTAAAATATTCTAAAATAATGATTTCGGGGACCTAAATAAGTTAATTAATGATTCAAG
1 TTTAAAATATTCTAAAATAATGATTTCGGGGACC----TAAGTTAATTAACGATTCAAG
24765509 TTTAAAATATTCTAAAATAATGATTTCGGGGACCTAAGTTAATTAACGATTCAAG
1 TTTAAAATATTCTAAAATAATGATTTCGGGGACCTAAGTTAATTAACGATTCAAG
24765564 TTTA
1 TTTA
24765568 TCATACTAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
55 24 0.41
59 34 0.59
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (55 bp):
TTTAAAATATTCTAAAATAATGATTTCGGGGACCTAAGTTAATTAACGATTCAAG
Found at i:24768132 original size:20 final size:20
Alignment explanation
Indices: 24768098--24768139 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
24768088 AACTATTTAA
** *
24768098 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
24768118 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
24768138 AT
1 AT
24768140 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:24771557 original size:11 final size:12
Alignment explanation
Indices: 24771534--24771564 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
24771524 CTTTAAAAAC
24771534 TATATATACAAA
1 TATATATACAAA
24771546 TATATA-ACAAA
1 TATATATACAAA
24771557 TATATATA
1 TATATATA
24771565 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
TATATATACAAA
Found at i:24772214 original size:3 final size:3
Alignment explanation
Indices: 24772206--24772277 Score: 53
Period size: 3 Copynumber: 23.7 Consensus size: 3
24772196 ATAAATTTAA
* *
24772206 TAT TAT TAT TATT TAT TAT TAT TAGT TTT TAT T-T TCCT T-T TAT CTAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT T-AT TAT TAT -TAT
24772253 TCAT TAT TAT TA- TAT TAT TA- TAT TA
1 T-AT TAT TAT TAT TAT TAT TAT TAT TA
24772278 ATTAGTTTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
2 8 0.14
3 37 0.64
4 13 0.22
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:24772224 original size:13 final size:13
Alignment explanation
Indices: 24772206--24772377 Score: 54
Period size: 13 Copynumber: 13.5 Consensus size: 13
24772196 ATAAATTTAA
24772206 TATTATTATTATT
1 TATTATTATTATT
24772219 TATTATTATTAGTT
1 TATTATTATTA-TT
*
24772233 T-TTATT-TTCCTTT
1 TATTATTATT--ATT
24772246 TATCTATTCATTA-T
1 TAT-TATT-ATTATT
24772260 TATTA-TATTATT
1 TATTATTATTATT
24772272 ATATTAATTAGTT-TT
1 -TATT-ATTA-TTATT
*
24772287 GCATTATT-TT-TT
1 -TATTATTATTATT
24772299 TA-TATT-TTATT
1 TATTATTATTATT
*
24772310 T-GT-TTATT-TT
1 TATTATTATTATT
*
24772320 TAATTTTTAATT-TT
1 T-ATTATT-ATTATT
24772334 T-TTA-TATATATT
1 TATTATTAT-TATT
*
24772346 TA-TCTTATTATAT
1 TATTATTATTAT-T
*
24772359 CATT-TTATTATT
1 TATTATTATTATT
24772371 TATTATT
1 TATTATT
24772378 CACTTTTAGC
Statistics
Matches: 123, Mismatches: 10, Indels: 52
0.66 0.05 0.28
Matches are distributed among these distances:
10 13 0.11
11 13 0.11
12 22 0.18
13 41 0.33
14 19 0.15
15 11 0.09
16 2 0.02
17 2 0.02
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (13 bp):
TATTATTATTATT
Found at i:24772308 original size:15 final size:14
Alignment explanation
Indices: 24772290--24772334 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
24772280 TAGTTTTGCA
24772290 TTATTTTTTTATATT
1 TTATTTTTTTAT-TT
*
24772305 TTATTTGTTTATTT
1 TTATTTTTTTATTT
* *
24772319 TTAATTTTTAATTT
1 TTATTTTTTTATTT
24772333 TT
1 TT
24772335 TTATATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (14 bp):
TTATTTTTTTATTT
Found at i:24772332 original size:22 final size:22
Alignment explanation
Indices: 24772294--24772338 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
24772284 TTTGCATTAT
*
24772294 TTTTTTATATTTTATTTGTTTA
1 TTTTTAATATTTTATTTGTTTA
*
24772316 TTTTTAAT-TTTTAATTTTTTTA
1 TTTTTAATATTTT-ATTTGTTTA
24772338 T
1 T
24772339 ATATATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTTAATATTTTATTTGTTTA
Found at i:24772375 original size:20 final size:21
Alignment explanation
Indices: 24772345--24772385 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
24772335 TTATATATAT
24772345 TTATCTTATTATATCA-TTTTA
1 TTATCTTATTAT-TCACTTTTA
24772366 TTAT-TTATTATTCACTTTTA
1 TTATCTTATTATTCACTTTTA
24772386 GCTTTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 12 0.63
21 4 0.21
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATCTTATTATTCACTTTTA
Found at i:24774743 original size:19 final size:19
Alignment explanation
Indices: 24774719--24774765 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
24774709 ATGTCTCTTT
*
24774719 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
24774738 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
24774757 TATGCATTA
1 TTTGCATTA
24774766 AAGTCCATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:24777838 original size:22 final size:21
Alignment explanation
Indices: 24777805--24777863 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
24777795 AAAATATCTT
* *
24777805 AAAAAATG-AAAATGATGAAA
1 AAAAAAAGAAAAATGAAGAAA
*
24777825 AAAGAAAAGAAAAATAGAAGAGA
1 AAA-AAAAGAAAAAT-GAAGAAA
*
24777848 AAAAAATGAAAAATGA
1 AAAAAAAGAAAAATGA
24777864 GAGGCCAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 6 0.19
22 15 0.47
23 8 0.25
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (21 bp):
AAAAAAAGAAAAATGAAGAAA
Found at i:24779200 original size:44 final size:45
Alignment explanation
Indices: 24779092--24779205 Score: 140
Period size: 45 Copynumber: 2.6 Consensus size: 45
24779082 TTACAAGTCT
* *** *
24779092 TATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGATGGTGAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAATGAATCC
* * * *
24779137 TATTTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAAT-AATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAATGAATCC
24779181 TATCTCCCTGAAGTTGCAGTGGAGC
1 TATCTCCCTGAAGTTGCAGTGGAGC
24779206 GAATTGAAGT
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
44 27 0.47
45 31 0.53
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (45 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAATGAATCC
Found at i:24779229 original size:44 final size:44
Alignment explanation
Indices: 24779072--24779258 Score: 148
Period size: 44 Copynumber: 4.2 Consensus size: 44
24779062 CCCCAGAGAA
* *
24779072 CAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGCGGAG
1 CAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* * * *
24779116 CAGACTAAAGATGGT-GAA-TCTTATTTCCCTAAAGTTGCAGTGGAG
1 CAGATTAAAG-T--TACAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
** * *
24779161 CAGATTAAAGCCA-ATAATCCTATCTCCCTGAAGTTGCAGTGGAG
1 CAGATTAAAGTTACA-AGTCTTATCTCCCTGAAGTTGCAGTGGAG
* ** * * *
24779205 C-GAATTGAAGTTACAAGTCTTATCTATCTAAAGTTACAGCGGAG
1 CAG-ATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
*
24779249 CAGACTAAAG
1 CAGATTAAAG
24779259 CGAAGCAGAT
Statistics
Matches: 110, Mismatches: 24, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
42 1 0.01
43 2 0.02
44 68 0.62
45 36 0.33
46 2 0.02
47 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (44 bp):
CAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
Found at i:24779482 original size:44 final size:44
Alignment explanation
Indices: 24779413--24780004 Score: 356
Period size: 44 Copynumber: 13.0 Consensus size: 44
24779403 AGATCAAGAC
* * * *
24779413 TGAAGATAACCAACCTTGTCTCCCTGAAGTTGCAGTGGAGCAGGT
1 TGAAGAT-ACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
24779458 TGAAGATACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 TGAAGATACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * *
24779502 TGAAGCTATTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGAT
1 TGAAGATACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * * * *
24779546 T-AAAATGA-TCAATCCTATAC-CTCTGAAGTTACAGTAGATCGGAT
1 TGAAGAT-ACT-AATCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGAT
* ** * *
24779590 TAAATCTACCATAATGAACCTTAACTCCCTGAAGTTGCAGTGGAGCAGAC
1 TGAAGATA-C-TAAT----CTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * *
24779640 TGAAAATAGCGAATCTTATTTCCCTGAAGTTGCAGTAGAACAGAT
1 TGAAGATA-CTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * ** * *
24779685 TAAAGCTATAAATTATCGATCTTATCTATCTGAAGTTGCAGTAGAGCA-AA
1 TGAAG--AT--ACTA---ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * * *
24779735 T-CATAT-CAAACCTTATCTCCTTGAAGTTGCAGTGGAGCAGGT
1 TGAAGATACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * *
24779777 TAAAAATAAAC-AATCTTATCTCCTTAAAGTTACAGTGGAGCAGAT
1 TGAAGAT--ACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * *
24779822 TGAAGACAGGCTACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGAT
1 TGAAG--A---TACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* ** * * * *
24779871 TAAAGCCACAAACCTTATCTCCCTGAAGTTGCAGTAGG-GTAGGT
1 TGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT-GGAGCAGAT
*
24779915 TGAAGATAC-AAGTATTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 TGAAGATACTAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * *
24779959 TGAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGAT
1 TGAAGATA-CTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
24780004 T
1 T
24780005 AAAGCTATAA
Statistics
Matches: 428, Mismatches: 84, Indels: 70
0.74 0.14 0.12
Matches are distributed among these distances:
41 25 0.06
42 1 0.00
43 11 0.03
44 174 0.41
45 105 0.25
46 6 0.01
47 6 0.01
48 3 0.01
49 41 0.10
50 30 0.07
51 26 0.06
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
TGAAGATACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
Found at i:24781493 original size:3 final size:3
Alignment explanation
Indices: 24781485--24781560 Score: 52
Period size: 3 Copynumber: 24.7 Consensus size: 3
24781475 ATAAATTTGA
* *
24781485 TAT TAT TAT TATT TAT TAT TAT TAGT TTT TAT T-T TCCT T-T TAT CTAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT T-AT TAT TAT -TAT
24781532 CTAT TCAT TAT TAT TA- TAT TAT TA- TAT TA
1 -TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA
24781561 ATTAGTTTTG
Statistics
Matches: 62, Mismatches: 2, Indels: 18
0.76 0.02 0.22
Matches are distributed among these distances:
2 8 0.13
3 37 0.60
4 17 0.27
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:24781503 original size:13 final size:13
Alignment explanation
Indices: 24781485--24781560 Score: 61
Period size: 13 Copynumber: 5.8 Consensus size: 13
24781475 ATAAATTTGA
24781485 TATTATTATTATT
1 TATTATTATTATT
24781498 TATTATTATTAGTT
1 TATTATTATTA-TT
**
24781512 T-TTATT-TTCCT
1 TATTATTATTATT
24781523 T-TTATCTATCTATT
1 TATTAT-TAT-TATT
*
24781537 CATTATTATTATAT
1 TATTATTATTAT-T
24781551 TATTA-TATTA
1 TATTATTATTA
24781561 ATTAGTTTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
11 6 0.12
12 3 0.06
13 25 0.49
14 13 0.25
15 4 0.08
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (13 bp):
TATTATTATTATT
Found at i:24781657 original size:20 final size:21
Alignment explanation
Indices: 24781627--24781667 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
24781617 TTATATATAT
24781627 TTATCTTATTATATCA-TTTTA
1 TTATCTTATTAT-TCACTTTTA
24781648 TTAT-TTATTATTCACTTTTA
1 TTATCTTATTATTCACTTTTA
24781668 GCTTTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 12 0.63
21 4 0.21
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATCTTATTATTCACTTTTA
Found at i:24781831 original size:19 final size:20
Alignment explanation
Indices: 24781779--24781831 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 20
24781769 TTTTTATAAT
*
24781779 TTTATTCATTTTCTTTATTA
1 TTTATTCATTTACTTTATTA
**
24781799 TCATTATTGTTTTACTTTA-TA
1 T--TTATTCATTTACTTTATTA
24781820 TTTATTCATTTA
1 TTTATTCATTTA
24781832 TCCATTTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
19 9 0.35
20 1 0.04
21 3 0.12
22 13 0.50
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTATTCATTTACTTTATTA
Found at i:24783139 original size:50 final size:50
Alignment explanation
Indices: 24783072--24783166 Score: 165
Period size: 50 Copynumber: 1.9 Consensus size: 50
24783062 AATATTTAAT
24783072 ATATATAAAGTATTTGCAAATGTCAAATGATAAAATTAAATATATCTCAA
1 ATATATAAAGTATTTGCAAATGTCAAATGATAAAATTAAATATATCTCAA
*
24783122 ATATA-AATAGTATTTGCAAATGTCAAATGATAAAATTTAATATAT
1 ATATATAA-AGTATTTGCAAATGTCAAATGATAAAATTAAATATAT
24783167 ATAAATTTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
49 2 0.05
50 41 0.95
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.36
Consensus pattern (50 bp):
ATATATAAAGTATTTGCAAATGTCAAATGATAAAATTAAATATATCTCAA
Found at i:24787168 original size:167 final size:167
Alignment explanation
Indices: 24786892--24787224 Score: 630
Period size: 167 Copynumber: 2.0 Consensus size: 167
24786882 ATTGATAATC
* *
24786892 TTACTGTCATTCATTTTACTTTGTATGCACACATAAGTACTATTATGGCATTTACTACTGGAAAT
1 TTACTGTCATTCATTTTACTTTGTATCCACACATAAGTACTATTATGGCATTTACCACTGGAAAT
* *
24786957 GTCTAAATCAATGTGAAGTCTATAATGTCACTAAGTCAACAAAATAAATATAAATTCTAAATAAT
66 GTCTAAATCAATGTGAAGTCTATAATGTCACTAAGTCAACAAAATAAATATAAACTCCAAATAAT
24787022 TATATGCAATATTCGCTTCAAGGAATATGCCAAAATT
131 TATATGCAATATTCGCTTCAAGGAATATGCCAAAATT
24787059 TTACTGTCATTCATTTTACTTTGTATCCACACATAAGTACTATTATGGCATTTACCACTGGAAAT
1 TTACTGTCATTCATTTTACTTTGTATCCACACATAAGTACTATTATGGCATTTACCACTGGAAAT
24787124 GTCTAAATCAATGTGAAGTCTATAATGTCACTAAGTCAACAAAATAAATATAAACTCCAAATAAT
66 GTCTAAATCAATGTGAAGTCTATAATGTCACTAAGTCAACAAAATAAATATAAACTCCAAATAAT
24787189 TATATGCAATATTCGCTTCAAGGAATATGCCAAAAT
131 TATATGCAATATTCGCTTCAAGGAATATGCCAAAAT
24787225 CTTTTTTGCT
Statistics
Matches: 162, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
167 162 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.34
Consensus pattern (167 bp):
TTACTGTCATTCATTTTACTTTGTATCCACACATAAGTACTATTATGGCATTTACCACTGGAAAT
GTCTAAATCAATGTGAAGTCTATAATGTCACTAAGTCAACAAAATAAATATAAACTCCAAATAAT
TATATGCAATATTCGCTTCAAGGAATATGCCAAAATT
Found at i:24788697 original size:20 final size:20
Alignment explanation
Indices: 24788669--24788716 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
24788659 GTTGACAAAA
24788669 CAATCACTTTGGTTTCAATT
1 CAATCACTTTGGTTTCAATT
*
24788689 CAATTACTTTGGTTTCAATT
1 CAATCACTTTGGTTTCAATT
24788709 CAATCACT
1 CAATCACT
24788717 CAACTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.44
Consensus pattern (20 bp):
CAATCACTTTGGTTTCAATT
Found at i:24788927 original size:30 final size:30
Alignment explanation
Indices: 24788886--24788946 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
24788876 TCGTCCTTCC
24788886 TTTTCTATTTTTTTAATAAATGACCCAATA
1 TTTTCTATTTTTTTAATAAATGACCCAATA
* * * *
24788916 TTTTTTATTTTTTTCATAAATTACCTAATA
1 TTTTCTATTTTTTTAATAAATGACCCAATA
24788946 T
1 T
24788947 GTTTATACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.56
Consensus pattern (30 bp):
TTTTCTATTTTTTTAATAAATGACCCAATA
Found at i:24792592 original size:14 final size:14
Alignment explanation
Indices: 24792573--24792606 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
24792563 TATAAAATTA
*
24792573 TAATTAACTAATAT
1 TAATTAAATAATAT
24792587 TAATTAAATAATAT
1 TAATTAAATAATAT
*
24792601 TTATTA
1 TAATTA
24792607 CGGACTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
TAATTAAATAATAT
Found at i:24807723 original size:7 final size:7
Alignment explanation
Indices: 24807711--24807769 Score: 50
Period size: 7 Copynumber: 8.1 Consensus size: 7
24807701 TCTATCATTC
24807711 TCTTTTT
1 TCTTTTT
24807718 TC-TTTT
1 TCTTTTT
24807724 TCGTTCTTT
1 TC-TT-TTT
*
24807733 TCTTTGT
1 TCTTTTT
24807740 TCTTTATT
1 TCTTT-TT
*
24807748 TCTCATTT
1 TCT-TTTT
24807756 TC-TTTT
1 TCTTTTT
24807762 TCTTTTT
1 TCTTTTT
24807769 T
1 T
24807770 TATTTTTTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
6 11 0.26
7 14 0.33
8 11 0.26
9 6 0.14
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.76
Consensus pattern (7 bp):
TCTTTTT
Found at i:24807736 original size:22 final size:22
Alignment explanation
Indices: 24807705--24807769 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
24807695 ACTAATTCTA
*
24807705 TCATTCTCTTTTTTC-TTTTTC
1 TCATTTTCTTTTTTCTTTTTTC
*
24807726 GTTC-TTTTCTTTGTTCTTTATTTC
1 --TCATTTTCTTTTTTCTTT-TTTC
24807750 TCATTTTC-TTTTTCTTTTTT
1 TCATTTTCTTTTTTCTTTTTT
24807770 TATTTTTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
21 3 0.08
22 20 0.56
23 9 0.25
24 4 0.11
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (22 bp):
TCATTTTCTTTTTTCTTTTTTC
Found at i:24807749 original size:15 final size:13
Alignment explanation
Indices: 24807711--24807768 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 13
24807701 TCTATCATTC
24807711 TCTTTTTTCTTTT
1 TCTTTTTTCTTTT
24807724 TCGTTCTTTTCTTTGT
1 TC-TT-TTTTCTTT-T
24807740 TCTTTATTTCTCATTT
1 TCTTT-TTTCT--TTT
24807756 TC-TTTTTCTTTT
1 TCTTTTTTCTTTT
24807768 T
1 T
24807769 TTATTTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
12 4 0.10
13 2 0.05
14 8 0.21
15 17 0.44
16 6 0.15
17 2 0.05
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.76
Consensus pattern (13 bp):
TCTTTTTTCTTTT
Found at i:24810843 original size:8 final size:9
Alignment explanation
Indices: 24810825--24810854 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
24810815 CAAAATGCTC
24810825 AAAAAGAAA
1 AAAAAGAAA
24810834 AAAAAGAAA
1 AAAAAGAAA
24810843 AAAAAGAAA
1 AAAAAGAAA
24810852 AAA
1 AAA
24810855 GCAAACCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:24823763 original size:8 final size:8
Alignment explanation
Indices: 24823752--24823792 Score: 73
Period size: 8 Copynumber: 5.1 Consensus size: 8
24823742 AACATCATAC
*
24823752 ACATTTAT
1 ACATATAT
24823760 ACATATAT
1 ACATATAT
24823768 ACATATAT
1 ACATATAT
24823776 ACATATAT
1 ACATATAT
24823784 ACATATAT
1 ACATATAT
24823792 A
1 A
24823793 TCATCTCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (8 bp):
ACATATAT
Found at i:24823784 original size:24 final size:25
Alignment explanation
Indices: 24823743--24823797 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
24823733 TAACAAATCA
*
24823743 ACATCATACACATTTATACATATAT
1 ACATCATACACATATATACATATAT
*
24823768 ACAT-ATATACATATATACATATAT
1 ACATCATACACATATATACATATAT
24823792 ATCATC
1 A-CATC
24823798 TCAAAAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (25 bp):
ACATCATACACATATATACATATAT
Found at i:24827175 original size:30 final size:30
Alignment explanation
Indices: 24827141--24827205 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
24827131 CAACTTAACA
*
24827141 AACAAATGCCTCTAAAATTATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
*
24827171 AACAAATGCCTTTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
24827201 AACAA
1 AACAA
24827206 TAAAATAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.57, C:0.15, G:0.03, T:0.25
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAATT
Found at i:24827260 original size:22 final size:22
Alignment explanation
Indices: 24827235--24827277 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24827225 TATCTAAACA
24827235 ATAACAATAAAATAATAGCAAC
1 ATAACAATAAAATAATAGCAAC
* * *
24827257 ATAATAGTAAAATAGTAGCAA
1 ATAACAATAAAATAATAGCAA
24827278 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAATAGCAAC
Found at i:24827282 original size:11 final size:11
Alignment explanation
Indices: 24827243--24827281 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
24827233 CAATAACAAT
24827243 AAAATAATAGC
1 AAAATAATAGC
* *
24827254 AACATAATAGT
1 AAAATAATAGC
*
24827265 AAAATAGTAGC
1 AAAATAATAGC
24827276 AAAATA
1 AAAATA
24827282 GGGAGAAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.21
Consensus pattern (11 bp):
AAAATAATAGC
Found at i:24833233 original size:23 final size:23
Alignment explanation
Indices: 24833203--24833253 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
24833193 CAAGGTTTAT
*
24833203 AAAAAATATATTTGATTAAAAAC
1 AAAAAATATATTTCATTAAAAAC
*
24833226 AAAAAATATATTTCATTAAAAAT
1 AAAAAATATATTTCATTAAAAAC
24833249 AAAAA
1 AAAAA
24833254 TAAAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAAAATATATTTCATTAAAAAC
Found at i:24835256 original size:25 final size:26
Alignment explanation
Indices: 24835211--24835259 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
24835201 ACATATTTTC
*
24835211 TCAAAATTTTACTAGGTGTAAAATTT
1 TCAAAATTTTACTAAGTGTAAAATTT
24835237 TCAAAA-TTTACTGAAG-GTAAAAT
1 TCAAAATTTTACT-AAGTGTAAAAT
24835260 AAGGGTGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (26 bp):
TCAAAATTTTACTAAGTGTAAAATTT
Found at i:24836514 original size:13 final size:13
Alignment explanation
Indices: 24836496--24836520 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24836486 TATACATATG
24836496 TTTTGTAATTAAA
1 TTTTGTAATTAAA
24836509 TTTTGTAATTAA
1 TTTTGTAATTAA
24836521 CTACATCGTT
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:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
TTTTGTAATTAAA
Found at i:24855170 original size:24 final size:21
Alignment explanation
Indices: 24855130--24855175 Score: 71
Period size: 18 Copynumber: 2.3 Consensus size: 21
24855120 GGAAAGATAA
24855130 GAAGAGGAAGAGAGGGAAGGG
1 GAAGAGGAAGAGAGGGAAGGG
24855151 GAAGAGG-AGAGA--GAAGGG
1 GAAGAGGAAGAGAGGGAAGGG
24855169 GAAGAGG
1 GAAGAGG
24855176 GTGGGGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.52
20 5 0.20
21 7 0.28
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (21 bp):
GAAGAGGAAGAGAGGGAAGGG
Found at i:24856904 original size:7 final size:7
Alignment explanation
Indices: 24856894--24856922 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
24856884 AGTATTTTGA
24856894 TTGTGTT
1 TTGTGTT
24856901 TTGTGTT
1 TTGTGTT
24856908 TTGTGTT
1 TTGTGTT
24856915 TTGTGTT
1 TTGTGTT
24856922 T
1 T
24856923 ATATAATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.28, T:0.72
Consensus pattern (7 bp):
TTGTGTT
Found at i:24863228 original size:33 final size:33
Alignment explanation
Indices: 24863206--24863312 Score: 169
Period size: 33 Copynumber: 3.2 Consensus size: 33
24863196 CACTCAAGCC
* *
24863206 AATCCATCCATCACACCAATGCTTATAAGAGCT
1 AATCCAACCATCACACCAATGCTCATAAGAGCT
*
24863239 AATCCAACCATCACACCAATGCTTATAAGAGCT
1 AATCCAACCATCACACCAATGCTCATAAGAGCT
* *
24863272 AATCCAACCATCATACCAATGCTCATAAAAGCT
1 AATCCAACCATCACACCAATGCTCATAAGAGCT
24863305 AATCCAAC
1 AATCCAAC
24863313 TAGCACACTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 70 1.00
ACGTcount: A:0.40, C:0.31, G:0.07, T:0.21
Consensus pattern (33 bp):
AATCCAACCATCACACCAATGCTCATAAGAGCT
Found at i:24868553 original size:32 final size:32
Alignment explanation
Indices: 24868517--24868603 Score: 97
Period size: 33 Copynumber: 2.7 Consensus size: 32
24868507 AACTTTTTTG
*
24868517 GAAAATATTTTCAGGAAATC-TGCCAAACAACA
1 GAAAATATTTTCAGCAAATCAT-CCAAACAACA
* *
24868549 GAAAATATTTTACA-CAGATTCATCCAAACACCA
1 GAAAATATTTT-CAGCA-AATCATCCAAACAACA
*
24868582 GAAAATATTTTCAGTAAATCAT
1 GAAAATATTTTCAGCAAATCAT
24868604 TTTCCAGAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
32 19 0.41
33 26 0.57
34 1 0.02
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.26
Consensus pattern (32 bp):
GAAAATATTTTCAGCAAATCATCCAAACAACA
Found at i:24868619 original size:20 final size:20
Alignment explanation
Indices: 24868594--24868633 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
24868584 AAATATTTTC
24868594 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
*
24868614 AGTAAATCATTTTCTAGAAA
1 AGTAAATCATTTTCCAGAAA
24868634 TCATTTTCCG
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:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (20 bp):
AGTAAATCATTTTCCAGAAA
Found at i:24868635 original size:34 final size:33
Alignment explanation
Indices: 24868584--24868648 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 33
24868574 AAACACCAGA
24868584 AAATATTTTCAGTAAATCATTTTCCAGAAAAGT
1 AAATATTTTCAGTAAATCATTTTCCAGAAAAGT
*
24868617 AAATCATTTTCTAG-AAATCATTTTCCGGAAAA
1 AAAT-ATTTTC-AGTAAATCATTTTCCAGAAAA
24868649 CATTTTACTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 4 0.14
34 23 0.79
35 2 0.07
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (33 bp):
AAATATTTTCAGTAAATCATTTTCCAGAAAAGT
Found at i:24874875 original size:12 final size:12
Alignment explanation
Indices: 24874836--24874899 Score: 67
Period size: 12 Copynumber: 5.2 Consensus size: 12
24874826 TAAGTGTAAG
*
24874836 AACATAACAATAA
1 AACATAAAAAT-A
24874849 AACAACTAAAAATA
1 AAC-A-TAAAAATA
*
24874863 AACATAAACATA
1 AACATAAAAATA
24874875 AACAT-AAAATA
1 AACATAAAAATA
*
24874886 AAAATAAAAATA
1 AACATAAAAATA
24874898 AA
1 AA
24874900 ACTAAAAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.20
12 20 0.45
13 4 0.09
14 5 0.11
15 6 0.14
ACGTcount: A:0.73, C:0.11, G:0.00, T:0.16
Consensus pattern (12 bp):
AACATAAAAATA
Found at i:24874905 original size:23 final size:22
Alignment explanation
Indices: 24874852--24874906 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
24874842 ACAATAAAAC
* *
24874852 AACTAAAAATAAACATAAACATA
1 AACT-AAAATAAAAATAAAAATA
24874875 AACATAAAATAAAAATAAAAATAA
1 AAC-TAAAATAAAAATAAAAAT-A
24874899 AACTAAAA
1 AACTAAAA
24874907 AGAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 23 0.82
24 5 0.18
ACGTcount: A:0.75, C:0.09, G:0.00, T:0.16
Consensus pattern (22 bp):
AACTAAAATAAAAATAAAAATA
Done.