Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 70 of 253
Found at i:20386782 original size:8 final size:8
Alignment explanation
Indices: 20386769--20386804 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
20386759 ATGATTCAAT
20386769 AAATTAAA
1 AAATTAAA
20386777 AAATTAAA
1 AAATTAAA
20386785 AAATTAAATA
1 AAATT-AA-A
20386795 AAATTAAA
1 AAATTAAA
20386803 AA
1 AA
20386805 TTCGGAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 16 0.62
9 4 0.15
10 6 0.23
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
AAATTAAA
Found at i:20387485 original size:14 final size:13
Alignment explanation
Indices: 20387448--20387489 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
20387438 AAATTGATAA
20387448 AAATTA-ATATAT
1 AAATTATATATAT
20387460 AAATTATAATATAT
1 AAATTAT-ATATAT
20387474 ATAATTATATAT-T
1 A-AATTATATATAT
20387487 AAA
1 AAA
20387490 GATTATCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 8 0.30
13 2 0.07
14 11 0.41
15 6 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAATTATATATAT
Found at i:20395353 original size:19 final size:19
Alignment explanation
Indices: 20395329--20395378 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
20395319 TTTCAATATG
*
20395329 TTCATATTTTAAGTGCACT
1 TTCATATTTTAAGTGAACT
20395348 TTCATATTTTAAGTGAACT
1 TTCATATTTTAAGTGAACT
*
20395367 TTAATTATTTTA
1 TTCA-TATTTTA
20395379 TAAAAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (19 bp):
TTCATATTTTAAGTGAACT
Found at i:20397480 original size:21 final size:21
Alignment explanation
Indices: 20397441--20397481 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20397431 TTAAAAAATG
*
20397441 GTTAATAGTGTAAAGTGAAAA
1 GTTAATAGTGTAAAATGAAAA
20397462 GTTAATAGT-TAAAAATGAAA
1 GTTAATAGTGT-AAAATGAAA
20397482 GTGCTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (21 bp):
GTTAATAGTGTAAAATGAAAA
Found at i:20398579 original size:43 final size:43
Alignment explanation
Indices: 20398517--20398701 Score: 262
Period size: 43 Copynumber: 4.3 Consensus size: 43
20398507 CATAGGATTT
* *
20398517 TCGATATGTGATTATGTGTAAGACCACGTCTGGGATGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
* * * **
20398560 TCGATATGTGATTACGTGTAAGACCATGTCTGCGACATTGTTA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
* *
20398603 TCGATATGTGATTACGTGTAAGACCACGTCTAGGATGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
* * *
20398646 TCGGTATGTGATTACGTGTAAGACCACATCTGGGACGTTGGGA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
20398689 TCGATATGTGATT
1 TCGATATGTGATT
20398702 CTGATATGTG
Statistics
Matches: 122, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 122 1.00
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.32
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:20398662 original size:86 final size:86
Alignment explanation
Indices: 20398517--20398701 Score: 289
Period size: 86 Copynumber: 2.2 Consensus size: 86
20398507 CATAGGATTT
* *
20398517 TCGATATGTGATTATGTGTAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACGTGTAAG
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGATGTTGGCATCGATATGTGATTACGTGTAAG
** **
20398582 ACCATGTCTGCGACATTGTTA
66 ACCACATCTGCGACATTGGGA
*
20398603 TCGATATGTGATTACGTGTAAGACCACGTCTAGGATGTTGGCATCGGTATGTGATTACGTGTAAG
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGATGTTGGCATCGATATGTGATTACGTGTAAG
* *
20398668 ACCACATCTGGGACGTTGGGA
66 ACCACATCTGCGACATTGGGA
20398689 TCGATATGTGATT
1 TCGATATGTGATT
20398702 CTGATATGTG
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 90 1.00
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.32
Consensus pattern (86 bp):
TCGATATGTGATTACGTGTAAGACCACGTCTAGGATGTTGGCATCGATATGTGATTACGTGTAAG
ACCACATCTGCGACATTGGGA
Found at i:20398740 original size:56 final size:56
Alignment explanation
Indices: 20398680--20398991 Score: 448
Period size: 56 Copynumber: 5.6 Consensus size: 56
20398670 CACATCTGGG
* * *
20398680 ACGTTGGGATCGATATGTGATTCTGATATGTGTTTGCGAGTAAGACCACATTTAAT
1 ACGTTGGCATCGATATGTGATTCTGATATGTGTGTGCGAGTAAGACCACGTTTAAT
** *
20398736 ACGTTGGCATCGATATGTGATTCCAATATGTGTGTGGGAGTAAGACCACGTTTAAT
1 ACGTTGGCATCGATATGTGATTCTGATATGTGTGTGCGAGTAAGACCACGTTTAAT
* * *
20398792 ATGTTGGCATCGATATGTGATTTTGATATGTGTGTGCGAGTAAGACCTCGTTTAAT
1 ACGTTGGCATCGATATGTGATTCTGATATGTGTGTGCGAGTAAGACCACGTTTAAT
* * **
20398848 ACTTTGGCATCGATATGTGATTCCGATATGTGTGTGTTAGTAAGACCACGTTTAAT
1 ACGTTGGCATCGATATGTGATTCTGATATGTGTGTGCGAGTAAGACCACGTTTAAT
* *
20398904 ACGTTGGCATCGATATGTGATTGC-GATATATGTGTGCAAGTAAGACCACGTTTAAT
1 ACGTTGGCATCGATATGTGATT-CTGATATGTGTGTGCGAGTAAGACCACGTTTAAT
* *
20398960 ACATTGG-ATCGATAGGTGATTCTGATATGTGT
1 ACGTTGGCATCGATATGTGATTCTGATATGTGT
20398992 TTACAAGTAA
Statistics
Matches: 228, Mismatches: 26, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
54 1 0.00
55 21 0.09
56 205 0.90
57 1 0.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (56 bp):
ACGTTGGCATCGATATGTGATTCTGATATGTGTGTGCGAGTAAGACCACGTTTAAT
Found at i:20401039 original size:18 final size:18
Alignment explanation
Indices: 20400995--20401040 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
20400985 CTTGGCCCAA
20400995 TGCAGTAACAGTAATCAG
1 TGCAGTAACAGTAATCAG
*
20401013 TGCAATAACAGTAATCAG
1 TGCAGTAACAGTAATCAG
*
20401031 TGTAGTAACA
1 TGCAGTAACA
20401041 ATTTAAACAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (18 bp):
TGCAGTAACAGTAATCAG
Found at i:20401457 original size:27 final size:27
Alignment explanation
Indices: 20401389--20401514 Score: 173
Period size: 27 Copynumber: 4.7 Consensus size: 27
20401379 CATCACACAG
* *
20401389 GGGCAAAACAGTCATCTTACCATATAA
1 GGGCAAAACAGTCATTTTACCACATAA
* *
20401416 -GGAAAAATAGTCATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACCACATAA
*
20401442 GGGCAAAACAATCATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACCACATAA
*
20401469 TGGCAAAACAGTCATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACCACATAA
* *
20401496 GGGTAAAATAGTCATTTTA
1 GGGCAAAACAGTCATTTTA
20401515 TCGATTAGGG
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 22 0.26
27 64 0.74
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.26
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTTACCACATAA
Found at i:20403200 original size:13 final size:14
Alignment explanation
Indices: 20403172--20403204 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
20403162 CATTTCGACC
*
20403172 ATGTTTATATTTAT
1 ATGTTTATATTGAT
20403186 ATGTTT-TATTGAT
1 ATGTTTATATTGAT
20403199 ATGTTT
1 ATGTTT
20403205 GTTTTTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (14 bp):
ATGTTTATATTGAT
Found at i:20405971 original size:41 final size:41
Alignment explanation
Indices: 20405926--20406056 Score: 94
Period size: 41 Copynumber: 3.1 Consensus size: 41
20405916 AAAACATGTC
20405926 ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
1 ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
* * * * *
20405967 ATAAAGA-GCAT-GGGT-G-GACAATATGTTATGG-CTAA-AAGCA
1 ATAAACATG-TTGGGGTAGTG-CATTATG-TAAGGATTAATAA--A
20406007 TGTCATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
1 ----ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
20406052 ATAAA
1 ATAAA
20406057 GAGCATGGGC
Statistics
Matches: 65, Mismatches: 10, Indels: 30
0.62 0.10 0.29
Matches are distributed among these distances:
38 3 0.05
39 10 0.15
40 10 0.15
41 12 0.18
44 7 0.11
45 10 0.15
46 10 0.15
47 3 0.05
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (41 bp):
ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
Found at i:20406030 original size:85 final size:85
Alignment explanation
Indices: 20405887--20406065 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
20405877 GGCCGGCCAT
20405887 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
20405952 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
* *
20405972 GAGCATGGGTGGACAATATGTTATGGCTAAAAGCATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
20406037 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
20406057 GAGCATGGG
1 GAGCATGGG
20406066 CAATAAAATA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:20407331 original size:39 final size:40
Alignment explanation
Indices: 20407231--20407415 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
20407221 TCAAATGATG
* * *
20407231 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
20407270 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
20407311 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
20407350 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
20407389 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
20407416 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:20407444 original size:79 final size:79
Alignment explanation
Indices: 20407284--20407446 Score: 197
Period size: 79 Copynumber: 2.1 Consensus size: 79
20407274 GGACTAAGAT
** **
20407284 CCGAAGGCATTTGTGCGAGTTACTAATTTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
* *
20407349 ATCCGGGTTAAGTC
66 ATCCGGGTAAAATC
* *
20407363 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
20407426 TATATCC-GGTAAAATC
63 TAAATCCGGGTAAAATC
20407442 CCGAA
1 CCGAA
20407447 AGTACGTGAT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTAAAATC
Found at i:20409256 original size:65 final size:65
Alignment explanation
Indices: 20409181--20409311 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
20409171 AGTCCCATGC
20409181 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
*
20409246 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAATAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
20409311 A
1 A
20409312 ACCCTAGTGG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (65 bp):
ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
Found at i:20409293 original size:30 final size:30
Alignment explanation
Indices: 20409194--20409294 Score: 82
Period size: 30 Copynumber: 3.2 Consensus size: 30
20409184 AGATAATAAT
*
20409194 AACATGGCATGCAGTAAATAGTAACAGTCA
1 AACATGGCATGCAGTAAATAGTAATAGTCA
* *
20409224 AACAT-GCATTCAGGTCAACCTTATCAGATAATAAT--
1 AACATGGCATGCA-GT-AA----AT-AG-TAATAGTCA
20409259 AACATGGCATGCAGTAAATAGTAATAGTCA
1 AACATGGCATGCAGTAAATAGTAATAGTCA
20409289 AACATG
1 AACATG
20409295 CATTCAGGTC
Statistics
Matches: 55, Mismatches: 5, Indels: 22
0.67 0.06 0.27
Matches are distributed among these distances:
28 6 0.11
29 8 0.15
30 15 0.27
31 2 0.04
34 2 0.04
35 9 0.16
36 8 0.15
37 5 0.09
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.24
Consensus pattern (30 bp):
AACATGGCATGCAGTAAATAGTAATAGTCA
Found at i:20409635 original size:16 final size:15
Alignment explanation
Indices: 20409616--20409662 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
20409606 ACTTATTGCC
20409616 TATTTTTTATATTA-
1 TATTTTTTATATTAT
*
20409630 TATATTATTATTATTAT
1 TAT-TTTTTA-TATTAT
20409647 TATTTTTTAT-TTAT
1 TATTTTTTATATTAT
20409661 TA
1 TA
20409663 ACCAATATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 10 0.36
17 3 0.11
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTTTATATTAT
Found at i:20412458 original size:16 final size:16
Alignment explanation
Indices: 20412437--20412468 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
20412427 CGTTTCTATG
20412437 ATCATTGCTTCGTGTT
1 ATCATTGCTTCGTGTT
20412453 ATCATTGCTTCGTGTT
1 ATCATTGCTTCGTGTT
20412469 CTTTAAAGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.50
Consensus pattern (16 bp):
ATCATTGCTTCGTGTT
Found at i:20413226 original size:43 final size:43
Alignment explanation
Indices: 20413144--20413226 Score: 116
Period size: 43 Copynumber: 1.9 Consensus size: 43
20413134 TGAGACATCC
* *
20413144 TATAAGACCATGTCTAGGACACAGGCCTCGATTTAGATTTACG
1 TATAAGACCATGTCTAGGACACAGGCATCGATCTAGATTTACG
20413187 TATAAGACCATGTCTAGGACATC-GGCATCGTATCT-GATTT
1 TATAAGACCATGTCTAGGACA-CAGGCATCG-ATCTAGATTT
20413227 TGTGTAAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
43 32 0.89
44 4 0.11
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (43 bp):
TATAAGACCATGTCTAGGACACAGGCATCGATCTAGATTTACG
Found at i:20416544 original size:43 final size:43
Alignment explanation
Indices: 20416492--20416847 Score: 493
Period size: 43 Copynumber: 8.3 Consensus size: 43
20416482 AATAGGATTT
* *
20416492 TCGATATGTGATTACGTGTAAGACCATGTCTAGGACATTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
* * *
20416535 TCGGTATGTGATTACGTGTAAGACTA-GTCTAGGACATTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
20416577 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
* *
20416620 TCGGTATGTGATTACATGTAAGACCACGTCT-GGTACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGG-ACGTTGGCA
* * *
20416663 TCGATATGTGATTACATGTAAGACCATGTCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
* * *
20416706 TCGATATGTGATTATGTGTAAGACCACGTCTGGGACGTTAGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
* * * *
20416749 TTGATATGTGATTACGTGTAAGACCAAGTCTGGGACATTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
* *
20416792 TCAATATGTGATTACGTGTAAGACCATGTCT-GAGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTAG-GACGTTGGCA
*
20416835 TCAATATGTGATT
1 TCGATATGTGATT
20416848 TCGATATGTG
Statistics
Matches: 287, Mismatches: 22, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
42 43 0.15
43 242 0.84
44 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
Found at i:20416888 original size:56 final size:56
Alignment explanation
Indices: 20416826--20417096 Score: 285
Period size: 56 Copynumber: 4.8 Consensus size: 56
20416816 CATGTCTGAG
* * * * *
20416826 ACGTTGGCATCAATATGTGATTTCGATATGTGTGTGCGAGTAACACCATATTGAAT
1 ACGTTGGCATCGATATGTGATTTCGATATGTGTGTGTGAGTAAGACCACATTTAAT
* * * * * *
20416882 ATGTTGGCACCGATATGTGATTCCGATATGTATGTTTGAGTAAGACCACGTTTAAT
1 ACGTTGGCATCGATATGTGATTTCGATATGTGTGTGTGAGTAAGACCACATTTAAT
* * * *
20416938 ATGTCGGCATCGATATGTGA-TTCTGATATGCGTGTGTGAGTAAGACCACGTTTAAT
1 ACGTTGGCATCGATATGTGATTTC-GATATGTGTGTGTGAGTAAGACCACATTTAAT
* * * * * *
20416994 ACATTGGCATTGATATGTGATTCCGATATGTGTGAGTGAGTAAAACCACACTTAAT
1 ACGTTGGCATCGATATGTGATTTCGATATGTGTGTGTGAGTAAGACCACATTTAAT
* * **
20417050 ACGTTGGCATCGATATGTAATTCTC-ATATGTGTTTACGAGTAAGACC
1 ACGTTGGCATCGATATGTGATT-TCGATATGTGTGTGTGAGTAAGACC
20417097 CTATTTGGGA
Statistics
Matches: 176, Mismatches: 36, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
55 2 0.01
56 171 0.97
57 3 0.02
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (56 bp):
ACGTTGGCATCGATATGTGATTTCGATATGTGTGTGTGAGTAAGACCACATTTAAT
Found at i:20417091 original size:112 final size:112
Alignment explanation
Indices: 20416826--20417096 Score: 319
Period size: 112 Copynumber: 2.4 Consensus size: 112
20416816 CATGTCTGAG
* * * **
20416826 ACGTTGGCATCAATATGTGATT-TCGATATGTGTGTGCGAGTAACACCATATTGAATATGTTGGC
1 ACGTTGGCATCGATATGTGATTCTC-ATATGTGTGTGCGAGTAAGACCACATTGAATACATTGGC
** * **
20416890 ACCGATATGTGATTCCGATATGTATGTTTGAGTAAGACCACGTTTAAT
65 ACCGATATGTGATTCCGATATGTATGAGTGAGTAAAACCACACTTAAT
* * * * * * *
20416938 ATGTCGGCATCGATATGTGATTCTGATATGCGTGTGTGAGTAAGACCACGTTTAATACATTGGCA
1 ACGTTGGCATCGATATGTGATTCTCATATGTGTGTGCGAGTAAGACCACATTGAATACATTGGCA
** *
20417003 TTGATATGTGATTCCGATATGTGTGAGTGAGTAAAACCACACTTAAT
66 CCGATATGTGATTCCGATATGTATGAGTGAGTAAAACCACACTTAAT
* * *
20417050 ACGTTGGCATCGATATGTAATTCTCATATGTGTTTACGAGTAAGACC
1 ACGTTGGCATCGATATGTGATTCTCATATGTGTGTGCGAGTAAGACC
20417097 CTATTTGGGA
Statistics
Matches: 130, Mismatches: 28, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
112 129 0.99
113 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (112 bp):
ACGTTGGCATCGATATGTGATTCTCATATGTGTGTGCGAGTAAGACCACATTGAATACATTGGCA
CCGATATGTGATTCCGATATGTATGAGTGAGTAAAACCACACTTAAT
Found at i:20419426 original size:20 final size:21
Alignment explanation
Indices: 20419398--20419445 Score: 89
Period size: 20 Copynumber: 2.3 Consensus size: 21
20419388 TACTAACTTA
20419398 TTATTTTAAAATTTTGTGATT
1 TTATTTTAAAATTTTGTGATT
20419419 TT-TTTTAAAATTTTGTGATT
1 TTATTTTAAAATTTTGTGATT
20419439 TTATTTT
1 TTATTTT
20419446 CAGGTGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (21 bp):
TTATTTTAAAATTTTGTGATT
Found at i:20427207 original size:12 final size:12
Alignment explanation
Indices: 20427186--20427214 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
20427176 GCAATTTCTT
20427186 TTTC-AAGTATG
1 TTTCAAAGTATG
20427197 TTTCAAAGTATG
1 TTTCAAAGTATG
20427209 TTTCAA
1 TTTCAA
20427215 TCATTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (12 bp):
TTTCAAAGTATG
Found at i:20432350 original size:50 final size:50
Alignment explanation
Indices: 20432294--20432393 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
20432284 TCACCATGTG
20432294 TACAAGAGAGCCGAACTATATGATGGGTGGAGCTATGTGCTGAAACCACC
1 TACAAGAGAGCCGAACTATATGATGGGTGGAGCTATGTGCTGAAACCACC
20432344 TACAAGAGAGCCGAACTATATGATGGGTGGAGCTATGTGCTGAAACCACC
1 TACAAGAGAGCCGAACTATATGATGGGTGGAGCTATGTGCTGAAACCACC
20432394 AAGTATCGAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (50 bp):
TACAAGAGAGCCGAACTATATGATGGGTGGAGCTATGTGCTGAAACCACC
Found at i:20435744 original size:32 final size:32
Alignment explanation
Indices: 20435697--20435760 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
20435687 TAATGTTTAA
*
20435697 ATAAGAAAGGCTCATCCAAATGATGTCATCCT
1 ATAAGAAAGGCTCATCCAAATAATGTCATCCT
** * *
20435729 ATAAGAAAGTTTCATCCCAATAATGTCCTCCT
1 ATAAGAAAGGCTCATCCAAATAATGTCATCCT
20435761 TTCTTGTGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.28
Consensus pattern (32 bp):
ATAAGAAAGGCTCATCCAAATAATGTCATCCT
Found at i:20437189 original size:46 final size:45
Alignment explanation
Indices: 20437136--20437311 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 45
20437126 TATTTGGGCA
*
20437136 TCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * * *
20437182 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAAG
* *
20437227 CATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
20437275 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20437312 GCAGGTTACA
Statistics
Matches: 108, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 71 0.66
47 35 0.32
48 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:20437292 original size:93 final size:93
Alignment explanation
Indices: 20437133--20437303 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
20437123 GGATATTTGG
* *
20437133 GCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
20437198 TGAGTCCGAGTTCGAGAGATGTAACTAA
66 TGAGTCCGAGTTCGAGAGATGTAACTAA
* * * *
20437226 GCATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
20437291 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
20437304 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAA
Found at i:20442725 original size:46 final size:44
Alignment explanation
Indices: 20442652--20442827 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 44
20442642 TATTTGGGCA
20442652 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* * ** * *
20442698 TCCGAACTCGTTGAGTTGCGTCTGAGTTCGACAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
* *
20442745 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* * *
20442791 CCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20442828 GTGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.61
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.31
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:20442818 original size:93 final size:93
Alignment explanation
Indices: 20442648--20442819 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
20442638 AGGATATTTG
* *
20442648 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
* *
20442713 TTGCGTCTGAGTTCGACAGATGTAACTA
66 TTGAGTCCGAGTTCGACAGATGTAACTA
* * * *
20442741 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
20442806 TTGATTCCGAGTTC
66 TTGAGTCCGAGTTC
20442820 ACTTATGGGT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGACAGATGTAACTA
Found at i:20445917 original size:20 final size:21
Alignment explanation
Indices: 20445880--20445918 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
20445870 AAATCGTGTT
20445880 TATTGATATGCTTAAATTGAA
1 TATTGATATGCTTAAATTGAA
* *
20445901 TATTG-TATGTTTGAATTG
1 TATTGATATGCTTAAATTG
20445919 TGTAAATGCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.49
Consensus pattern (21 bp):
TATTGATATGCTTAAATTGAA
Found at i:20447343 original size:26 final size:26
Alignment explanation
Indices: 20447314--20447366 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
20447304 TGGGTAGACA
20447314 CATGCGCATGT-GTCTGGACCGTGTGT
1 CATGCGCATGTGGTCTGG-CCGTGTGT
* * *
20447340 CATGGGCGTGTGGTTTGGCCGTGTGT
1 CATGCGCATGTGGTCTGGCCGTGTGT
20447366 C
1 C
20447367 CCCTACATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.08, C:0.21, G:0.40, T:0.32
Consensus pattern (26 bp):
CATGCGCATGTGGTCTGGCCGTGTGT
Found at i:20457184 original size:19 final size:20
Alignment explanation
Indices: 20457152--20457189 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
20457142 AGATTTTCGT
20457152 AATTTCTAAGAATTTGGTAA
1 AATTTCTAAGAATTTGGTAA
*
20457172 AATTTTTAA-AATTTGGTA
1 AATTTCTAAGAATTTGGTA
20457190 TTTGGTTGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
AATTTCTAAGAATTTGGTAA
Found at i:20459982 original size:47 final size:47
Alignment explanation
Indices: 20459908--20460061 Score: 272
Period size: 47 Copynumber: 3.3 Consensus size: 47
20459898 TCCTTCGGGA
*
20459908 CTTATCACATATATACACTTTCCCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
20459955 CTTATCACATATATACACTTTCACATTCATCACATTTGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20460002 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20460049 CTTATCACATATA
1 CTTATCACATATA
20460062 CATATCTTGT
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 100 1.00
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:20461931 original size:13 final size:13
Alignment explanation
Indices: 20461913--20461937 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20461903 TACTAAATTT
20461913 TCATGGATTCAAA
1 TCATGGATTCAAA
20461926 TCATGGATTCAA
1 TCATGGATTCAA
20461938 TATACCATTA
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:20467063 original size:39 final size:39
Alignment explanation
Indices: 20466926--20467148 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 39
20466916 CGGATGATAA
* * *
20466926 CCGGGCTAAGTCCC-AAGAGCATTTGAGCTAG-TGGCTAAT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGCT-ACTAAT
20466965 CCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAA--T
20467007 CC-GGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAT
* * *
20467045 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAT
* * *
20467083 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTA-AT
20467124 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
20467149 AGCTAGTGGC
Statistics
Matches: 165, Mismatches: 10, Indels: 16
0.86 0.05 0.08
Matches are distributed among these distances:
38 5 0.03
39 62 0.38
40 90 0.55
41 7 0.04
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAT
Found at i:20467068 original size:79 final size:79
Alignment explanation
Indices: 20466966--20467148 Score: 271
Period size: 79 Copynumber: 2.3 Consensus size: 79
20466956 GTGGCTAATC
*
20466966 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTTCC-GGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTA-TAA-TACCGGGCTAAGTCCCGAAGGCATTT
* *
20467030 GTGCGAGCTACTA-AT
64 GTGCAAGCTACTATAA
* * *
20467045 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATACCGGGCTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATAATACCGGGCTAAGTCCCGAAGGCATTTGT
*
20467110 GCAAGTTACTATAA
66 GCAAGCTACTATAA
20467124 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
20467149 AGCTAGTGGC
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
77 3 0.03
78 34 0.36
79 57 0.61
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATAATACCGGGCTAAGTCCCGAAGGCATTTGT
GCAAGCTACTATAA
Found at i:20467181 original size:79 final size:77
Alignment explanation
Indices: 20466966--20467171 Score: 261
Period size: 79 Copynumber: 2.6 Consensus size: 77
20466956 GTGGCTAATC
*
20466966 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTTCCGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACT-ATATCCGGCTAAGTCCCGAAGGCATTTG
* *
20467031 TGCGAGCTACTAAT
64 TGCAAGCTACTAAA
* *
20467045 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCC-GGCTAAGTCCCGAAGGCATTTG
*
20467109 TGCAAGTTACTATAA
64 TGCAAGCTACTA-AA
* * * *
20467124 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCCGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATCCGGCTAA
20467172 ACTCCGAAGG
Statistics
Matches: 110, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
77 2 0.02
78 35 0.32
79 71 0.65
80 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (77 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGCTAAGTCCCGAAGGCATTTGTG
CAAGCTACTAAA
Found at i:20475090 original size:40 final size:39
Alignment explanation
Indices: 20475028--20475219 Score: 228
Period size: 40 Copynumber: 4.8 Consensus size: 39
20475018 CGGATGATAA
* *
20475028 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGT-ACTAATT
* *
20475068 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGCTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TACTAATT
20475108 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGCTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TACTAATT
* *
20475148 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TACTAAT-T
* *
20475188 CCGGGCTATGTCCCGAAGGCATTTGAGCTAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT
20475220 GGCTATATCC
Statistics
Matches: 135, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
39 3 0.02
40 129 0.96
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTACTAATT
Found at i:20475231 original size:80 final size:81
Alignment explanation
Indices: 20475024--20475235 Score: 271
Period size: 80 Copynumber: 2.7 Consensus size: 81
20475014 TGTTCGGATG
*
20475024 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGAGCTAGTGGCTATATTCCGGGCTAAGTCCCGAAGG
*
20475087 CATTTGTGCGAGCTACT
65 CATTTGTGCAAGCTACT
*
20475104 A-ATTCCGGGCTAAGTCCCGAAGGCATTT--G-T-GTGAGCTACTAATTCCGGGCTAAGTCCCGA
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTG-GCTA-T-ATTCCGGGCTAAGTCCCGA
*
20475164 AGGCATTTGTGCAAGTTACT
62 AGGCATTTGTGCAAGCTACT
*
20475184 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCTAGTGGCTATA-TCC-GGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATTCCGGGCTAA
20475236 ACTCGAAGGT
Statistics
Matches: 115, Mismatches: 6, Indels: 23
0.80 0.04 0.16
Matches are distributed among these distances:
76 3 0.03
77 5 0.04
78 1 0.01
79 7 0.06
80 85 0.74
81 4 0.03
82 2 0.02
83 5 0.04
84 3 0.03
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATTCCGGGCTAAGTCCCGAAGGC
ATTTGTGCAAGCTACT
Found at i:20485981 original size:29 final size:29
Alignment explanation
Indices: 20485865--20486004 Score: 140
Period size: 29 Copynumber: 4.9 Consensus size: 29
20485855 TGAATATAAG
* ** *
20485865 GTGATTTGGGCCTAACAGGCCATATAAAG
1 GTGAATTGGGCCTAATGGGCCATATAAAT
* * *
20485894 GTGATTTGTGCCTAATGGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATAAAT
* * * *
20485923 ATGAATTGGGCCTGATAGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATAAAT
20485952 GTGAATTGGGCCTAATGGGCCATATAAAT
1 GTGAATTGGGCCTAATGGGCCATATAAAT
* *
20485981 GAG-ACTGGGCC-AAGTGGGCCATAT
1 GTGAATTGGGCCTAA-TGGGCCATAT
20486005 GCATGTATGT
Statistics
Matches: 94, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
27 2 0.02
28 17 0.18
29 75 0.80
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (29 bp):
GTGAATTGGGCCTAATGGGCCATATAAAT
Found at i:20492935 original size:27 final size:28
Alignment explanation
Indices: 20492905--20492998 Score: 120
Period size: 27 Copynumber: 3.4 Consensus size: 28
20492895 ATATTGTGAC
* *
20492905 AGAGTCACCAGATATAGATA-TTATGGT
1 AGAGCCACCAGATATAGATATTTGTGGT
* * *
20492932 AGAGCCACCAGAAACAGATATTTGTGGC
1 AGAGCCACCAGATATAGATATTTGTGGT
20492960 AGAGCCACCAGAT-TAGATATTTGTGGT
1 AGAGCCACCAGATATAGATATTTGTGGT
*
20492987 AGTGCCACCAGA
1 AGAGCCACCAGA
20492999 ACGCTTCCTC
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 40 0.70
28 17 0.30
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.23
Consensus pattern (28 bp):
AGAGCCACCAGATATAGATATTTGTGGT
Found at i:20492978 original size:54 final size:55
Alignment explanation
Indices: 20492886--20492999 Score: 162
Period size: 55 Copynumber: 2.1 Consensus size: 55
20492876 AGCATGGCTG
*
20492886 CCAG-AACAGATATTGTGACAGAGTCACCAGATATAGATA-TTATGGTAGAGCCA
1 CCAGAAACAGATATTGTGACAGAGCCACCAGATATAGATATTTATGGTAGAGCCA
* * *
20492939 CCAGAAACAGATATTTGTGGCAGAGCCACCAGAT-TAGATATTTGTGGTAGTGCCA
1 CCAGAAACAGATA-TTGTGACAGAGCCACCAGATATAGATATTTATGGTAGAGCCA
20492994 CCAGAA
1 CCAGAA
20493000 CGCTTCCTCC
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
53 4 0.07
54 14 0.26
55 36 0.67
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (55 bp):
CCAGAAACAGATATTGTGACAGAGCCACCAGATATAGATATTTATGGTAGAGCCA
Found at i:20494700 original size:16 final size:16
Alignment explanation
Indices: 20494679--20494710 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20494669 GTTGTAACGC
*
20494679 CCCAAAAATCCTGAAA
1 CCCAAAAATCCCGAAA
20494695 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
20494711 TCTTAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:20496131 original size:29 final size:29
Alignment explanation
Indices: 20496087--20496234 Score: 160
Period size: 29 Copynumber: 5.2 Consensus size: 29
20496077 GTGAGCATGA
* *
20496087 ATAT-AAGGTGATTTGGGCCTAACGGGCC
1 ATATAAAGGTGAATTGGGCCTAATGGGCC
20496115 ATATAAAGGTGAATTGGGCCTAATGGGCC
1 ATATAAAGGTGAATTGGGCCTAATGGGCC
** ** *
20496144 ATATGGATATGAATTGGGCCTGATGGGCC
1 ATATAAAGGTGAATTGGGCCTAATGGGCC
* * *
20496173 ACATGAATGTGAATTGGGCCTAATGGGCC
1 ATATAAAGGTGAATTGGGCCTAATGGGCC
20496202 ATATAAA--TGAGATTGGGCC-AAGTGGGCC
1 ATATAAAGGTGA-ATTGGGCCTAA-TGGGCC
20496230 ATATA
1 ATATA
20496235 CATGTATGTA
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
27 5 0.05
28 23 0.22
29 76 0.73
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (29 bp):
ATATAAAGGTGAATTGGGCCTAATGGGCC
Found at i:20497317 original size:17 final size:18
Alignment explanation
Indices: 20497284--20497318 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20497274 TTTTAAGAAG
20497284 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
20497302 GGTTTTCGAT-AAAACAC
1 GGTTTTCAATGAAAACAC
20497319 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:20511978 original size:28 final size:28
Alignment explanation
Indices: 20511912--20512039 Score: 166
Period size: 28 Copynumber: 4.5 Consensus size: 28
20511902 CATGAGATTG
* * **
20511912 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
20511941 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
20511969 GCACTCAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
20511998 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
20512026 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
20512040 GACTTACTAT
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 44 0.51
29 43 0.49
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:20528076 original size:43 final size:42
Alignment explanation
Indices: 20527996--20528077 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
20527986 TTTAAGATTA
* * *
20527996 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTT
1 CGTGTAAGACCATAGCTAGGATATGGCATCGACATGAGACTT
*
20528038 CGTGTAAGACCATAGCTAGGCTATTGGCATCGACATGAGA
1 CGTGTAAGACCATAGCTAGGATA-TGGCATCGACATGAGA
20528078 TCTTTTTGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
42 20 0.57
43 15 0.43
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (42 bp):
CGTGTAAGACCATAGCTAGGATATGGCATCGACATGAGACTT
Found at i:20537920 original size:27 final size:27
Alignment explanation
Indices: 20537890--20538338 Score: 567
Period size: 27 Copynumber: 16.6 Consensus size: 27
20537880 AATCTCATAT
* *
20537890 CTGTAGGCTAGCATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
20537917 CTGTAGGGTATAATTATTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
20537944 CTGTAAGGTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
20537971 CTATAGGGTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
20537998 CTATAGGGTAGAATTACCGAAATACCT
1 CTGTAGGGTAGAATTACTGAAATACCC
*
20538025 CTGTAGGGTAGAATTACTTAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
20538052 CTGTAGGGTAGAGTTATTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
20538079 CTATACGGTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
20538106 CTATAGGGTAGAATTACTGAAATATCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
20538133 ATGTAAGGTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
20538160 TTGTAGGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
20538187 CTATAAGGTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
20538214 CTGTAGGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * * **
20538241 CCGTAAGGTAGAATCACCAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
20538268 CTATAGGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
20538295 CTGTAGGGTAGAATTACTGAGATA-CC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
20538321 CTCGTGGGGTAAAATTAC
1 CT-GTAGGGTAGAATTAC
20538339 CATTTTACCC
Statistics
Matches: 365, Mismatches: 56, Indels: 2
0.86 0.13 0.00
Matches are distributed among these distances:
26 4 0.01
27 361 0.99
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:20540600 original size:35 final size:35
Alignment explanation
Indices: 20540554--20540624 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
20540544 ATTCGGTGTG
*
20540554 GTAGCGACAATGTTTGGATCTGTGGCATCTAATAA
1 GTAGCGACAATGTTGGGATCTGTGGCATCTAATAA
20540589 GTAGCGACAATGTTGGGATCTGTGGCATCTAATAA
1 GTAGCGACAATGTTGGGATCTGTGGCATCTAATAA
20540624 G
1 G
20540625 ACTCTATCTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (35 bp):
GTAGCGACAATGTTGGGATCTGTGGCATCTAATAA
Found at i:20545162 original size:28 final size:28
Alignment explanation
Indices: 20545125--20545182 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
20545115 CTGAAGAACC
20545125 AAAAGAGAAAATTGATGAAAAGGAGCAA
1 AAAAGAGAAAATTGATGAAAAGGAGCAA
*
20545153 AAAAGAGAAAATTGATGAAAATGAGCAA
1 AAAAGAGAAAATTGATGAAAAGGAGCAA
20545181 AA
1 AA
20545183 TAAAAACACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.62, C:0.03, G:0.22, T:0.12
Consensus pattern (28 bp):
AAAAGAGAAAATTGATGAAAAGGAGCAA
Found at i:20547822 original size:236 final size:236
Alignment explanation
Indices: 20547409--20547883 Score: 923
Period size: 236 Copynumber: 2.0 Consensus size: 236
20547399 CTTCTGAGTA
*
20547409 AGAAGATATTTGAGGCTCTTGTAATCCACGTAAATGATACACTTCTCACCGTATAGGTAATGCCT
1 AGAAGATATTTGAGGCTCTTGTAATCCACGTAAATGATACACTTCTCACCGTATAGGTAAGGCCT
*
20547474 CCAAATTTTCAGTGTGAACACCACTGCGGCCAACTCCAAGTCATGTGTCGAATAGTTCGCCTCAT
66 CCAAATTTTCAGTGTGAACACCACTGCGGCCAACTCCAAGTCATGCGTCGAATAGTTCGCCTCAT
20547539 GCGTCTTAAGCTGACGAGAAGTATAAGCCACTACCTTGCCCCCTTGTATCAACACACATCCTAAA
131 GCGTCTTAAGCTGACGAGAAGTATAAGCCACTACCTTGCCCCCTTGTATCAACACACATCCTAAA
*
20547604 CCAACATGTGATGCATCACTGTAGACAGTGAATTCCTTCCC
196 CCAACATGTGATACATCACTGTAGACAGTGAATTCCTTCCC
20547645 AGAAGATATTTGAGGCTCTTGTAATCCACGTAAATGATACACTTCTCACCGTATAGGTAAGGCCT
1 AGAAGATATTTGAGGCTCTTGTAATCCACGTAAATGATACACTTCTCACCGTATAGGTAAGGCCT
20547710 CCAAATTTTCAGTGTGAACACCACTGCGGCCAACTCCAAGTCATGCGTCGAATAGTTCGCCTCAT
66 CCAAATTTTCAGTGTGAACACCACTGCGGCCAACTCCAAGTCATGCGTCGAATAGTTCGCCTCAT
20547775 GCGTCTTAAGCTGACGAGAAGTATAAGCCACTACCTTGCCCCCTTGTATCAACACACATCCTAAA
131 GCGTCTTAAGCTGACGAGAAGTATAAGCCACTACCTTGCCCCCTTGTATCAACACACATCCTAAA
20547840 CCAACATGTGATACATCACTGTAGACAGTGAATTCCTTCCC
196 CCAACATGTGATACATCACTGTAGACAGTGAATTCCTTCCC
20547881 AGA
1 AGA
20547884 CTCTGGCTGC
Statistics
Matches: 236, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
236 236 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (236 bp):
AGAAGATATTTGAGGCTCTTGTAATCCACGTAAATGATACACTTCTCACCGTATAGGTAAGGCCT
CCAAATTTTCAGTGTGAACACCACTGCGGCCAACTCCAAGTCATGCGTCGAATAGTTCGCCTCAT
GCGTCTTAAGCTGACGAGAAGTATAAGCCACTACCTTGCCCCCTTGTATCAACACACATCCTAAA
CCAACATGTGATACATCACTGTAGACAGTGAATTCCTTCCC
Found at i:20559501 original size:40 final size:40
Alignment explanation
Indices: 20559464--20559687 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
20559454 GCTACTCGTT
*
20559464 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
20559504 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
20559544 CAAATGCCTTCGGG-CTTAGCCCGGA-TTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
20559582 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
20559622 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
20559663 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20559688 CATCATTCAA
Statistics
Matches: 167, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
37 2 0.01
38 23 0.14
39 20 0.12
40 109 0.65
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:20559607 original size:78 final size:79
Alignment explanation
Indices: 20559464--20559687 Score: 283
Period size: 78 Copynumber: 2.8 Consensus size: 79
20559454 GCTACTCGTT
* *
20559464 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
20559529 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* **
20559544 CAAATGCCTTCGGGCTTAGCCCGGAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
*
20559607 ATTTAGTATCTCGCA
65 ATTTAGTAACTCGCA
* * * * * *
20559622 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCG
20559686 GA
64 GA
20559688 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
77 3 0.02
78 57 0.45
79 21 0.17
80 34 0.27
81 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TTTAGTAACTCGCA
Found at i:20559671 original size:118 final size:119
Alignment explanation
Indices: 20559464--20559687 Score: 296
Period size: 118 Copynumber: 1.9 Consensus size: 119
20559454 GCTACTCGTT
20559464 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
20559529 ATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTAGTATCTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTAGTATCTCGCA
* * * **
20559582 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
* *
20559644 CGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
63 CGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGA
20559688 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
117 6 0.07
118 65 0.71
119 21 0.23
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (119 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTAGTATCTCGCA
Found at i:20574667 original size:27 final size:26
Alignment explanation
Indices: 20574628--20574687 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
20574618 CCACATATAT
* *
20574628 ATATCGGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
20574654 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
20574681 ATATCTG
1 ATATCTG
20574688 GCAGCTTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:20581969 original size:40 final size:40
Alignment explanation
Indices: 20581887--20582015 Score: 186
Period size: 40 Copynumber: 3.2 Consensus size: 40
20581877 TATTCGGATG
* * * *
20581887 ATATCCGGGCTAAGACTCGAAGGCACTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCGAGTTACT
*
20581928 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
20581968 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
20582008 ATATCCGG
1 ATATCCGG
20582016 TTAAATCCTG
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 58 0.73
41 22 0.28
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:20584460 original size:276 final size:277
Alignment explanation
Indices: 20583960--20584509 Score: 838
Period size: 276 Copynumber: 2.0 Consensus size: 277
20583950 AATTACTAAA
* **
20583960 GAAATTGACAAATATCTCCATCCTCTTCAATCATCTTCTCTAAAACAAAAAAAGCCCTAGTTGCC
1 GAAATAGACAAATATCTCCATCCTCTTCAATCATCTTCTCTAAAACAAAAAAAGCCCTAGTCACC
*
20584025 TTTTCCCACTGTTGATGCCATTGCTCACCGGCATCTTCTTCGACCAAGAAGCATTCAATGACGTC
66 TTTTCCCACTATTGATGCCATTGCTCACCGGCATCTTCTTCGACCAAGAAGCATTCAATGACGTC
** *
20584090 CATGTTTCCATCTCCGAAATTTGATCTTTTCCTTTTGAGTTACAAAAAAAGAAAAGTGAAAGAAA
131 CATCATTCCATCTCCGAAATTTGATCTTTCCCTTTTGAGTTACAAAAAAAGAAAAGTGAAAGAAA
*
20584155 AACCCAAAAATATCAAAGAATTTTTTGGGTTTCTATCCTCTTCTTCTACCCTAGCTCTTTGATTT
196 AACCCAAAAATATCAAAGAATTTTTTGGGTTTCTATCCCCTTCTTCTACCCTAGCTCTTTGATTT
*
20584220 CCCCTTGCAAAGGCAAT
261 CCCCTTCCAAAGGCAAT
** * * *
20584237 GAAATAGACAAATATCTTTATCCTCTTCAATCTTCTTCTCTAAAGC-AAAAAAGCCTTAGTCACC
1 GAAATAGACAAATATCTCCATCCTCTTCAATCATCTTCTCTAAAACAAAAAAAGCCCTAGTCACC
* * *
20584301 TTTTCCCATTATTGATGCTATTGCTCACCGGCATCTTC-TCTGACCAAGAAGCGTTCAATGACGT
66 TTTTCCCACTATTGATGCCATTGCTCACCGGCATCTTCTTC-GACCAAGAAGCATTCAATGACGT
* * **
20584365 CCATCATTCCATCTCTGAAATTTGATCTTTCCCTTTTGAGTTTCAAGGAAAAA-ATGAGTGAAAG
130 CCATCATTCCATCTCCGAAATTTGATCTTTCCCTTTTGAGTTACAA--AAAAAGAAAAGTGAAAG
* *
20584429 AAAAACCCATAAA-ATCAAAGAATTTTTTGGGTTTCTATCCCCTTCTTGTACCCTAGCTCTTTGA
193 AAAAACCCAAAAATATCAAAGAATTTTTTGGGTTTCTATCCCCTTCTTCTACCCTAGCTCTTTGA
20584493 TTTCCCCTTCCAAAGGC
258 TTTCCCCTTCCAAAGGC
20584510 CATTCTCACT
Statistics
Matches: 247, Mismatches: 23, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
275 2 0.01
276 178 0.72
277 62 0.25
278 5 0.02
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (277 bp):
GAAATAGACAAATATCTCCATCCTCTTCAATCATCTTCTCTAAAACAAAAAAAGCCCTAGTCACC
TTTTCCCACTATTGATGCCATTGCTCACCGGCATCTTCTTCGACCAAGAAGCATTCAATGACGTC
CATCATTCCATCTCCGAAATTTGATCTTTCCCTTTTGAGTTACAAAAAAAGAAAAGTGAAAGAAA
AACCCAAAAATATCAAAGAATTTTTTGGGTTTCTATCCCCTTCTTCTACCCTAGCTCTTTGATTT
CCCCTTCCAAAGGCAAT
Found at i:20588779 original size:18 final size:18
Alignment explanation
Indices: 20588756--20588798 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
20588746 TGTTTTACAT
20588756 TGAATTATGTATGAATTA
1 TGAATTATGTATGAATTA
20588774 TGAATTATGTATGAATTA
1 TGAATTATGTATGAATTA
*
20588792 AGAATTA
1 TGAATTA
20588799 CCATATGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (18 bp):
TGAATTATGTATGAATTA
Found at i:20589903 original size:18 final size:19
Alignment explanation
Indices: 20589876--20589917 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
20589866 GCAGTTATAA
*
20589876 CCAAAGT-AAATTAAAATC
1 CCAAAGTAAAAATAAAATC
*
20589894 CCAAATTAAAAATAAAAT-
1 CCAAAGTAAAAATAAAATC
20589912 CCAAAG
1 CCAAAG
20589918 AGGCCTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.60, C:0.17, G:0.05, T:0.19
Consensus pattern (19 bp):
CCAAAGTAAAAATAAAATC
Found at i:20595144 original size:32 final size:32
Alignment explanation
Indices: 20595103--20595169 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
20595093 ATAACTTAGG
*
20595103 AAACTTTTTGAACACTTAGAAAATTTTTCTTA
1 AAACTTTTTGAACACTTAGAAAATTTTTCTCA
20595135 AAACTTTTTGAACACTTAGAAAATTTTTCTCA
1 AAACTTTTTGAACACTTAGAAAATTTTTCTCA
20595167 AAA
1 AAA
20595170 TAAGAGACAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (32 bp):
AAACTTTTTGAACACTTAGAAAATTTTTCTCA
Found at i:20611523 original size:93 final size:93
Alignment explanation
Indices: 20611410--20611580 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
20611400 CCCATAAGTG
* *
20611410 AACTCAGACTCAACTCAACGAGCTCGGCCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
20611475 GAGCTCGGATGCCTAGTTACATCTCTCA
66 GAGCTCGGATGCCTAGTTACATCTCTCA
* *
20611503 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
20611568 GAGTTCGGATGCC
66 GAGCTCGGATGCC
20611581 CAAATATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCA
Found at i:20611576 original size:46 final size:46
Alignment explanation
Indices: 20611401--20611576 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
20611391 TGTAACCCGC
* * *
20611401 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGCCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
20611447 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
20611497 CTC-TCA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
20611540 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
20611577 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.06
44 1 0.01
46 63 0.57
47 27 0.24
49 1 0.01
50 6 0.05
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:20613996 original size:30 final size:30
Alignment explanation
Indices: 20613951--20614039 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
20613941 CAAAGATAAC
20613951 AAGAAAACCA-AATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
20613980 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
20614010 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
20614040 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 10 0.20
30 38 0.76
31 2 0.04
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:20613999 original size:15 final size:15
Alignment explanation
Indices: 20613951--20614030 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
20613941 CAAAGATAAC
*
20613951 AAGAAAACCA-AATA
1 AAGAAATCCAGAATA
20613965 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
20613980 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
20613995 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
20614010 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
20614025 AAGAAA
1 AAGAAA
20614031 CCCAAGATAC
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
14 10 0.18
15 45 0.80
16 1 0.02
ACGTcount: A:0.60, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:20614039 original size:15 final size:15
Alignment explanation
Indices: 20613951--20614039 Score: 85
Period size: 15 Copynumber: 6.0 Consensus size: 15
20613941 CAAAGATAAC
*
20613951 AAGAAAACCAA-ATA
1 AAGAAATCCAAGATA
20613965 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
* *
20613980 GAGAAA-CCCAGAATA
1 AAGAAATCCAAG-ATA
20613995 AAGAAATCC-AGAATA
1 AAGAAATCCAAG-ATA
* *
20614010 AAGAGATCCAGGATA
1 AAGAAATCCAAGATA
*
20614025 AAGAAACCCAAGATA
1 AAGAAATCCAAGATA
20614040 CGATACTATG
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
14 14 0.23
15 45 0.73
16 3 0.05
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:20617090 original size:92 final size:93
Alignment explanation
Indices: 20616933--20617103 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
20616923 GCCCATAAGT
* *
20616933 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
20616998 CGAG-TCGGATGCCTAGTTACATCTCTC
66 CGAGTTCGGATGCCTAGTTACATCTCTC
*
20617025 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
20617090 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
20617104 AAATCCTAGT
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 66 0.88
93 9 0.12
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:20617099 original size:46 final size:46
Alignment explanation
Indices: 20616925--20617099 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
20616915 TGTAACCCGC
* * *
20616925 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
20616971 CCATAAGTGAACTCGGACTCAACTCAACGAG-TCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* ***
20617016 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
20617063 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
20617100 TGCCAAATCC
Statistics
Matches: 110, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
45 9 0.08
46 83 0.75
47 9 0.08
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:20675325 original size:27 final size:27
Alignment explanation
Indices: 20675295--20675450 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
20675285 TGCTATTCAC
* *
20675295 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAATTCGCACACTTAGTGCCACATAA
* * * *
20675322 TCAAATCGCACCCTTAGTGCTACATAG
1 TCAATTCGCACACTTAGTGCCACATAA
* * **
20675349 TTAGATTCGCACACTTAGTGCCGCATGG
1 TCA-ATTCGCACACTTAGTGCCACATAA
*
20675377 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAATTCGCACACTTAGTGCCA-CATAA
** *
20675404 TCCTTTCGCACACTTAGTGCAACATAA
1 TCAATTCGCACACTTAGTGCCACATAA
20675431 TCGAA-TCGCACACTTAGTGC
1 TC-AATTCGCACACTTAGTGC
20675451 TGTACAATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 81 0.78
28 22 0.21
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAATTCGCACACTTAGTGCCACATAA
Found at i:20675366 original size:55 final size:55
Alignment explanation
Indices: 20675300--20675451 Score: 182
Period size: 54 Copynumber: 2.8 Consensus size: 55
20675290 TTCACTCAAC
* * *
20675300 TCGCACACTTAGTGCCACGTAATCAAATCGCACCCTTAGTGCTA-CATAGTTAGAT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATA-TTACAT
* ** * * *
20675355 TCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCCTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTACAT
* *
20675409 TCGCACACTTAGTGCAACATAATCGAATCGCACACTTAGTGCT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCT
20675452 GTACAATTTA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 40 0.50
55 40 0.50
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (55 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTACAT
Found at i:20680736 original size:40 final size:40
Alignment explanation
Indices: 20680692--20680782 Score: 121
Period size: 40 Copynumber: 2.3 Consensus size: 40
20680682 GGACTAAGAT
* * * *
20680692 CCGAAGGTATTTGTGTGAGTTATT-AATTCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
20680732 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
*
20680772 CCAAAGGCATT
1 CCGAAGGCATT
20680783 GAATGAGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
39 2 0.04
40 43 0.96
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
Found at i:20694574 original size:43 final size:43
Alignment explanation
Indices: 20694527--20694629 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 43
20694517 TCTCGATTGA
* * **
20694527 GATTTACGTATAAGACCATGTCTGGGACATTGGCATCG-TATTT
1 GATTTACGTGTAAGACCATATCTGGGACAGAGGCATCGATA-TT
*
20694570 GATTT-CGTGTAAGACCCTATCTGGGACAGAGGCATCGATATT
1 GATTTACGTGTAAGACCATATCTGGGACAGAGGCATCGATATT
* *
20694612 GAATTACATGTAAGACCA
1 GATTTACGTGTAAGACCA
20694630 CGTCCAGGAC
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 33 0.66
43 17 0.34
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATATCTGGGACAGAGGCATCGATATT
Found at i:20708341 original size:219 final size:219
Alignment explanation
Indices: 20707955--20708370 Score: 751
Period size: 219 Copynumber: 1.9 Consensus size: 219
20707945 TGCCTTTATA
20707955 TATATATATATTCGAATGGATGTATTAACTTCTATTAATGTATGAAATAAGTAAATTCATGTTAA
1 TATATATATATTCGAATGGATGTATTAACTTCTATTAATGTATGAAATAAGTAAATTCATGTTAA
20708020 CTAATGTAATCATGCCGCAGAAATGAAATTTTGAAACTTGTTTTGTTTGACATGTAATTTGCACA
66 CTAATGTAATCATGCCGCAGAAATGAAATTTTGAAACTTGTTTTGTTTGACATGTAATTTGCACA
* * *
20708085 TACGCAAGTCTTTTAAAATAAAAATATAATGGGTCTGATATTAAATTAATAAAGTTGTTGGTTTG
131 TACACAAGTATTTTAAAATAAAAATATAATAGGTCTGATATTAAATTAATAAAGTTGTTGGTTTG
20708150 TTATATGTTCTGTATATATATATT
196 TTATATGTTCTGTATATATATATT
* *
20708174 TATATATATATTCGAATGGGTGTATTAACTTGTATTAATGTATGAAATAAGTAAATTCATGTTAA
1 TATATATATATTCGAATGGATGTATTAACTTCTATTAATGTATGAAATAAGTAAATTCATGTTAA
* *
20708239 CTAATGTAATCATGCCGCAGAAATGAAATTTTGAAACTTTTTTTGTTTGACTTGTAATTTGCACA
66 CTAATGTAATCATGCCGCAGAAATGAAATTTTGAAACTTGTTTTGTTTGACATGTAATTTGCACA
* *
20708304 TACATAAGTATTTTAGAATAAAAATATAATAGGTCTGATATTAAATTAATAAAGTTGTTGGTTTG
131 TACACAAGTATTTTAAAATAAAAATATAATAGGTCTGATATTAAATTAATAAAGTTGTTGGTTTG
20708369 TT
196 TT
20708371 TTAACATATG
Statistics
Matches: 188, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
219 188 1.00
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (219 bp):
TATATATATATTCGAATGGATGTATTAACTTCTATTAATGTATGAAATAAGTAAATTCATGTTAA
CTAATGTAATCATGCCGCAGAAATGAAATTTTGAAACTTGTTTTGTTTGACATGTAATTTGCACA
TACACAAGTATTTTAAAATAAAAATATAATAGGTCTGATATTAAATTAATAAAGTTGTTGGTTTG
TTATATGTTCTGTATATATATATT
Found at i:20710663 original size:23 final size:23
Alignment explanation
Indices: 20710637--20710704 Score: 127
Period size: 23 Copynumber: 3.0 Consensus size: 23
20710627 TGGCAATAAT
20710637 CAGTCAATAAGGTGATTATAAAC
1 CAGTCAATAAGGTGATTATAAAC
*
20710660 CAGTCAATAAGGTGATTATAGAC
1 CAGTCAATAAGGTGATTATAAAC
20710683 CAGTCAATAAGGTGATTATAAA
1 CAGTCAATAAGGTGATTATAAA
20710705 GAGTAAGTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (23 bp):
CAGTCAATAAGGTGATTATAAAC
Found at i:20718525 original size:14 final size:14
Alignment explanation
Indices: 20718506--20718535 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20718496 CCTAATAGCC
*
20718506 GATGTGGTGAATGT
1 GATGTGATGAATGT
20718520 GATGTGATGAATGT
1 GATGTGATGAATGT
20718534 GA
1 GA
20718536 AAGTGTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.40, T:0.33
Consensus pattern (14 bp):
GATGTGATGAATGT
Found at i:20718528 original size:61 final size:61
Alignment explanation
Indices: 20718459--20718582 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 61
20718449 CCTAATAGCC
*
20718459 GATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGGTGAATGT
1 GATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
20718520 GATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
20718581 GA
1 GA
20718583 AAGTGTATAT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.31, C:0.06, G:0.32, T:0.31
Consensus pattern (61 bp):
GATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:20718534 original size:47 final size:47
Alignment explanation
Indices: 20718335--20718521 Score: 329
Period size: 47 Copynumber: 4.0 Consensus size: 47
20718325 CAGCCAAGAC
* *
20718335 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATTAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
20718382 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
20718429 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
20718476 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGGTGAATGTGA
1 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
20718522 TGTGATGAAT
Statistics
Matches: 135, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 135 1.00
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:20718534 original size:94 final size:94
Alignment explanation
Indices: 20718335--20718743 Score: 512
Period size: 94 Copynumber: 4.2 Consensus size: 94
20718325 CAGCCAAGAC
* * *
20718335 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATTAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
20718400 GGCCTAATGGCCGATGTGATGAATGTGAA
66 GGCCTAATGGCCGATGTGATGAATGTGAA
20718429 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
1 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
*
20718494 GGCCTAATAGCCGATGTGGTGAATGTGATGTGATGAATGTGAA
66 GGCCTAATGGCC--------------GATGTGATGAATGTGAA
*
20718537 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTAATAA
1 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
*
20718602 GGCCAAATGGCCGATGTGATGAATGTGAA
66 GGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * *
20718631 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTCACAG
1 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
* * * * *
20718696 GGCCGAGTGGCCAACGTGATGGATGTGAA
66 GGCCTAATGGCCGATGTGATGAATGTGAA
* **
20718725 AGTGCATAAATGTGATAAG
1 AGTGTATATGTGTGATAAG
20718744 TCCCGAAGGG
Statistics
Matches: 281, Mismatches: 20, Indels: 28
0.85 0.06 0.09
Matches are distributed among these distances:
94 190 0.68
108 91 0.32
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:20718550 original size:108 final size:108
Alignment explanation
Indices: 20718412--20718629 Score: 400
Period size: 108 Copynumber: 2.0 Consensus size: 108
20718402 CCTAATGGCC
20718412 GATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
* * *
20718477 GTGTATATGTGTGATAAGGCCTAATAGCCGATGTGGTGAATGT
66 GTGTATATGTGTAATAAGGCCAAATAGCCGATGTGATGAATGT
20718520 GATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
*
20718585 GTGTATATGTGTAATAAGGCCAAATGGCCGATGTGATGAATGT
66 GTGTATATGTGTAATAAGGCCAAATAGCCGATGTGATGAATGT
20718628 GA
1 GA
20718630 AAGTGTATAT
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
108 106 1.00
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30
Consensus pattern (108 bp):
GATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
GTGTATATGTGTAATAAGGCCAAATAGCCGATGTGATGAATGT
Found at i:20718571 original size:47 final size:47
Alignment explanation
Indices: 20718520--20718743 Score: 304
Period size: 47 Copynumber: 4.8 Consensus size: 47
20718510 TGGTGAATGT
*
20718520 GATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCC
* *
20718567 GATGTGATGAATGTGAAAGTGTATATGTGTAATAAGGCCAAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCC
*
20718614 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCC
* * * * * *
20718661 GATGTGATGAATGTGAAAGTGTATATATGTCACAGGGCCGAGTGGCC
1 GATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCC
* * * * **
20718708 AACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 GATGTGATGAATGTGAAAGTGTATATGTGTGATAAG
20718744 TCCCGAAGGG
Statistics
Matches: 158, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 158 1.00
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
GATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCC
Found at i:20718647 original size:155 final size:155
Alignment explanation
Indices: 20718365--20718676 Score: 543
Period size: 155 Copynumber: 2.0 Consensus size: 155
20718355 CCTAATAGCC
* *
20718365 GATGTGATTAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
* * *
20718430 GTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAG
66 GTGTATATGTGTAATAAGGCCAAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
*
20718495 GCCTAATAGCCGATGTGGTGAATGT
131 GCCTAATAGCCGATGTGATGAATGT
*
20718520 GATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
*
20718585 GTGTATATGTGTAATAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
66 GTGTATATGTGTAATAAGGCCAAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
*
20718650 GCCTAATGGCCGATGTGATGAATGT
131 GCCTAATAGCCGATGTGATGAATGT
20718675 GA
1 GA
20718677 AAGTGTATAT
Statistics
Matches: 148, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
155 148 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (155 bp):
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
GTGTATATGTGTAATAAGGCCAAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
GCCTAATAGCCGATGTGATGAATGT
Found at i:20718918 original size:37 final size:37
Alignment explanation
Indices: 20718862--20718940 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
20718852 CCGAGCTCTA
* *
20718862 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
20718899 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
20718936 AAGAC
1 AAGAC
20718941 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:20723689 original size:45 final size:42
Alignment explanation
Indices: 20723634--20723796 Score: 150
Period size: 43 Copynumber: 3.8 Consensus size: 42
20723624 TTCTGATATG
20723634 TGATTTTGTGTAAGACCACATCTAGGACATTGTGCATCA-ATCT
1 TGATTTTGTGTAAGACCACATCTAGGACATTG-GCATCACAT-T
**
20723677 TAGATTTATGTGTAAGACCATGTCTAGGACATTGGCATCACATT
1 T-GATTT-TGTGTAAGACCACATCTAGGACATTGGCATCACATT
* * * * * *
20723721 TGATTTCGTGTAAGACC-CTGTTTAGGGCAGTGGCATCGATATT
1 TGATTTTGTGTAAGACCAC-ATCTAGGACATTGGCATC-ACATT
*** *
20723764 TGATTACATGTAAGACCACGTCTAGGACATTGG
1 TGATTTTGTGTAAGACCACATCTAGGACATTGG
20723797 TATTGTACGA
Statistics
Matches: 101, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
42 25 0.25
43 36 0.36
44 14 0.14
45 26 0.26
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (42 bp):
TGATTTTGTGTAAGACCACATCTAGGACATTGGCATCACATT
Found at i:20725426 original size:30 final size:31
Alignment explanation
Indices: 20725382--20725441 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
20725372 AGCTTCAACC
*
20725382 AGCTCACTTGAGCTT-GTTTCAACTCGTTTG
1 AGCTCAATTGAGCTTCGTTTCAACTCGTTTG
* * *
20725412 AGCTCAATTTAGCTTCTTTTCAGCTCGTTT
1 AGCTCAATTGAGCTTCGTTTCAACTCGTTT
20725442 CTTTTACTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (31 bp):
AGCTCAATTGAGCTTCGTTTCAACTCGTTTG
Found at i:20729197 original size:15 final size:15
Alignment explanation
Indices: 20729177--20729206 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20729167 AAAAGAAAGT
20729177 GAAAATGAAAAAGAA
1 GAAAATGAAAAAGAA
*
20729192 GAAAATGAAAGAGAA
1 GAAAATGAAAAAGAA
20729207 AAGCAAGAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (15 bp):
GAAAATGAAAAAGAA
Found at i:20734877 original size:28 final size:29
Alignment explanation
Indices: 20734781--20734879 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
20734771 CATGAGATTG
* *
20734781 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
20734810 GCACTAAGTGTACGAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
20734838 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
20734866 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
20734880 GGCTTATTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:20741917 original size:42 final size:41
Alignment explanation
Indices: 20741834--20741973 Score: 113
Period size: 43 Copynumber: 3.3 Consensus size: 41
20741824 TCCCGAACGT
* * * * *
20741834 GGTCTTACATGTAACTCAATATCGATGCCTCTGTCCGAGACAA
1 GGTCTTACACGAAACTC-A-ATCGAGGCCTGTGTCCCAGACAA
* * *
20741877 GTTCTTACACGAAA-TCAGATACGATG-CTGATGTCCCAGACAT
1 GGTCTTACACGAAACTCA-AT-CGAGGCCTG-TGTCCCAGACAA
* *
20741919 GGTCTTATACGTAAATCTCAATCGAGGCCTGTGTCCCAGACAC
1 GGTCTTACACG-AAA-CTCAATCGAGGCCTGTGTCCCAGACAA
20741962 GGTCTTACACGA
1 GGTCTTACACGA
20741974 TGTCTCAGAC
Statistics
Matches: 79, Mismatches: 12, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
41 5 0.06
42 27 0.34
43 39 0.49
44 5 0.06
45 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (41 bp):
GGTCTTACACGAAACTCAATCGAGGCCTGTGTCCCAGACAA
Found at i:20756602 original size:40 final size:40
Alignment explanation
Indices: 20756508--20756652 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
20756498 TACTCGAATG
*
20756508 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
20756549 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
20756589 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
20756629 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
20756653 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:20760504 original size:38 final size:39
Alignment explanation
Indices: 20760455--20760537 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 39
20760445 GACTTAATGT
*
20760455 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTA-AC
1 CTAGCAAGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
* *
20760493 CTAGCAAGCCTCGTGCCGGTGATAAGTTTAGGTTTATAC
1 CTAGCAAGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
20760532 CTAGCA
1 CTAGCA
20760538 GGCTAATTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 33 0.80
39 8 0.20
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (39 bp):
CTAGCAAGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
Found at i:20762034 original size:19 final size:17
Alignment explanation
Indices: 20761994--20762034 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
20761984 TCAGTGACGA
20761994 GCCCACAAGCCCATTCG
1 GCCCACAAGCCCATTCG
*
20762011 CCCCACACAGCCCATGTCG
1 GCCCACA-AGCCCAT-TCG
20762030 GCCCA
1 GCCCA
20762035 TCGTGGCCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 6 0.30
18 7 0.35
19 7 0.35
ACGTcount: A:0.22, C:0.51, G:0.17, T:0.10
Consensus pattern (17 bp):
GCCCACAAGCCCATTCG
Found at i:20770192 original size:13 final size:13
Alignment explanation
Indices: 20770174--20770207 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
20770164 TATTTTATTA
20770174 ATATTTTAATAAG
1 ATATTTTAATAAG
20770187 ATATTTTAATAAG
1 ATATTTTAATAAG
20770200 ATATTTTA
1 ATATTTTA
20770208 TTATTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (13 bp):
ATATTTTAATAAG
Found at i:20781541 original size:13 final size:13
Alignment explanation
Indices: 20781525--20781558 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
20781515 CAATAGACAC
20781525 GGCCGTGTGCCAT
1 GGCCGTGTGCCAT
20781538 GGCCGTGTGCCAT
1 GGCCGTGTGCCAT
*
20781551 GACCGTGT
1 GGCCGTGT
20781559 AAAATTTAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.09, C:0.29, G:0.38, T:0.24
Consensus pattern (13 bp):
GGCCGTGTGCCAT
Found at i:20781784 original size:12 final size:13
Alignment explanation
Indices: 20781767--20781798 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
20781757 ATAGCACATT
20781767 TCAAAAC-ATGCA
1 TCAAAACTATGCA
20781779 TCAAAACTATGCA
1 TCAAAACTATGCA
20781792 -CAAAACT
1 TCAAAACT
20781799 TAACATTTGC
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:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:20788806 original size:29 final size:29
Alignment explanation
Indices: 20788745--20788844 Score: 123
Period size: 29 Copynumber: 3.5 Consensus size: 29
20788735 ATAGTAAGTC
*
20788745 CGCACACTTAGTG-TTATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
20788773 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
* * * * *
20788802 TGCACACTTAGTGCTATGCA-ATTTAAACC
1 CGCACACTTAGTGCT-TACATAATCAAACT
20788831 CGCACACTTAGTGC
1 CGCACACTTAGTGC
20788845 CAATCTCATG
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
28 13 0.21
29 47 0.75
30 3 0.05
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCAAACT
Found at i:20801459 original size:45 final size:44
Alignment explanation
Indices: 20801407--20801538 Score: 151
Period size: 45 Copynumber: 2.9 Consensus size: 44
20801397 ATGGTTGAGC
20801407 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-GCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATAG-GA
* * * * *
20801451 ATGTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAGGC
1 AT-CCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-TAGGA
20801499 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT
20801539 CTGAACGCCC
Statistics
Matches: 72, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
44 4 0.06
45 28 0.39
46 6 0.08
47 28 0.39
48 5 0.07
49 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.30
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATAGGA
Found at i:20808028 original size:47 final size:47
Alignment explanation
Indices: 20807973--20808256 Score: 222
Period size: 47 Copynumber: 6.2 Consensus size: 47
20807963 TTAGGATTTT
20807973 AATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCC
* *
20808020 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAAT----
1 AATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCC
* * * * * * *
20808063 -ATGTG-TGATAAG-GCCGAATGGC-CA-AGGTGATGAATG-TGAACAT-G-C
1 AATGTGATGA-ATGTG-AGCAT-GCATATATGTGAT-AAGGCCG-A-ATGGCC
** * * *
20808108 ATATGTG-TG-ATAAG-GC-CGAATATGTGTGATAAGGCCGAATGGCC
1 A-ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCC
* *
20808152 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGACGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCC
* **
20808199 AATGTGATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCC
20808246 AATGTGATGAA
1 AATGTGATGAA
20808257 CGTGGAAGTG
Statistics
Matches: 187, Mismatches: 30, Indels: 40
0.73 0.12 0.16
Matches are distributed among these distances:
41 10 0.05
42 17 0.09
43 15 0.08
44 11 0.06
45 4 0.02
46 3 0.02
47 127 0.68
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCC
Found at i:20808066 original size:19 final size:19
Alignment explanation
Indices: 20808042--20808147 Score: 88
Period size: 19 Copynumber: 5.1 Consensus size: 19
20808032 GTGAACATGC
20808042 ATATGTGTGATAAGGCCGA
1 ATATGTGTGATAAGGCCGA
20808061 ATATGTGTGATAAGGCCGA
1 ATATGTGTGATAAGGCCGA
* * *
20808080 ATGGCCAAG-GTGATGAATGTGAACATGC
1 AT----ATGTGTGAT-AA-G-G--C-CGA
20808108 ATATGTGTGATAAGGCCGA
1 ATATGTGTGATAAGGCCGA
20808127 ATATGTGTGATAAGGCCGA
1 ATATGTGTGATAAGGCCGA
20808146 AT
1 AT
20808148 GGCCAATGTG
Statistics
Matches: 70, Mismatches: 6, Indels: 22
0.71 0.06 0.22
Matches are distributed among these distances:
19 43 0.61
20 1 0.01
22 6 0.09
23 5 0.07
24 5 0.07
25 6 0.09
27 1 0.01
28 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.25
Consensus pattern (19 bp):
ATATGTGTGATAAGGCCGA
Found at i:20808101 original size:66 final size:66
Alignment explanation
Indices: 20807995--20808194 Score: 364
Period size: 66 Copynumber: 3.0 Consensus size: 66
20807985 GTGAGCATGC
*
20807995 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCG
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCG
20808060 A
66 A
*
20808061 ATATGTGTGATAAGGCCGAATGGCCAAGGTGATGAATGTGAACATGCATATGTGTGATAAGGCCG
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCG
20808126 A
66 A
* *
20808127 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGACG
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCG
20808192 A
66 A
20808193 AT
1 AT
20808195 GGCCAATGTG
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 129 1.00
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.26
Consensus pattern (66 bp):
ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCG
A
Found at i:20808156 original size:24 final size:23
Alignment explanation
Indices: 20808129--20808204 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 23
20808119 AAGGCCGAAT
20808129 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGG-CGAATGGCCA
* * *
20808153 ATGTGATGA-ATGTGAGCAT-G-CA
1 ATGTG-TGATAAG-GCGAATGGCCA
20808175 TATGTGTGATAAGGACGAATGGCCA
1 -ATGTGTGATAAGG-CGAATGGCCA
20808200 ATGTG
1 ATGTG
20808205 ATGAATGTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 16 0.41
25 6 0.15
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.25
Consensus pattern (23 bp):
ATGTGTGATAAGGCGAATGGCCA
Found at i:20808206 original size:22 final size:22
Alignment explanation
Indices: 20808132--20808206 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
20808122 GCCGAATATG
*
20808132 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGACGAATGGCCAA
*
20808154 TGTGATGAATGTGA-GCAT-G-CATA
1 TGTGAT-AA-G-GACGAATGGCCA-A
20808177 TGTGTGATAAGGACGAATGGCCAA
1 --TGTGATAAGGACGAATGGCCAA
20808201 TGTGAT
1 TGTGAT
20808207 GAATGTGAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 18
0.66 0.05 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.31, C:0.12, G:0.32, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGACGAATGGCCAA
Found at i:20808291 original size:47 final size:46
Alignment explanation
Indices: 20808127--20808276 Score: 192
Period size: 47 Copynumber: 3.2 Consensus size: 46
20808117 ATAAGGCCGA
* *
20808127 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG-GAATGC
* * *
20808174 ATATGTGTGATAAGGACGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGGA-ATGC
** * *
20808221 ATATATGTGATAAGGTAGAATGGCCAATGTGATGAACGTGGAAGTGT
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGGAA-TGC
20808268 ATATATGTG
1 ATATATGTG
20808277 GCGAAGCCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
46 1 0.01
47 91 0.99
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (46 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGGAATGC
Found at i:20808330 original size:46 final size:46
Alignment explanation
Indices: 20808280--20808406 Score: 173
Period size: 46 Copynumber: 2.8 Consensus size: 46
20808270 ATATGTGGCG
*
20808280 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATACGAGGTA
* * * *
20808326 AAGCCGAGTGGCTAATGCAAAACGTGTATGAGATGGATACGTGGTA
1 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATACGAGGTA
* * * *
20808372 AAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
20808407 TGTATATATA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.35, C:0.10, G:0.31, T:0.24
Consensus pattern (46 bp):
AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATACGAGGTA
Found at i:20810553 original size:28 final size:28
Alignment explanation
Indices: 20810519--20810645 Score: 146
Period size: 28 Copynumber: 4.5 Consensus size: 28
20810509 ATAGTAAGTC
20810519 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGTTATATAATCAAACT
* *
20810547 CACACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTG-TTATATAATCAAACT
**
20810576 CGCACACTTAGTCCTATATAATCAAACT
1 CGCACACTTAGTGTTATATAATCAAACT
* * ** * *
20810604 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGTTATATAA-TCAAACT
20810633 CGCACACTTAGTG
1 CGCACACTTAGTG
20810646 CCAATCTCAT
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
28 42 0.50
29 42 0.50
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGTTATATAATCAAACT
Found at i:20810575 original size:29 final size:29
Alignment explanation
Indices: 20810519--20810646 Score: 154
Period size: 29 Copynumber: 4.5 Consensus size: 29
20810509 ATAGTAAGTC
20810519 CGCACACTTAGTG-TTATATAATCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
* *
20810547 CACACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
*
20810576 CGCACACTTAGT-CCTATATAATCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
* ** * *
20810604 TGCACACTTAGTGC-TATGCAATTTAAACC
1 CGCACACTTAGTGCTTATATAA-TCAAACT
20810633 CGCACACTTAGTGC
1 CGCACACTTAGTGC
20810647 CAATCTCATG
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
28 42 0.49
29 44 0.51
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTATATAATCAAACT
Found at i:20810594 original size:57 final size:57
Alignment explanation
Indices: 20810518--20810644 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 57
20810508 TATAGTAAGT
**
20810518 CCGCACACTTAGTGTTATATAATCAAACTCACACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTCCTATATAATCAAACTCACACACTTAGTGCTATACA-AATCAAAC
* ** * * *
20810575 TCGCACACTTAGTCCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTCCTATATAATCAAACTCACACACTTAGTGCTATACAAATCAAAC
20810632 CCGCACACTTAGT
1 CCGCACACTTAGT
20810645 GCCAATCTCA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
57 57 0.95
58 3 0.05
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTCCTATATAATCAAACTCACACACTTAGTGCTATACAAATCAAAC
Found at i:20813171 original size:40 final size:40
Alignment explanation
Indices: 20813116--20813349 Score: 366
Period size: 40 Copynumber: 5.9 Consensus size: 40
20813106 ATTGAGAGTT
20813116 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
20813156 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
20813196 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
20813236 ACATATCCGGGCTAA-TCTCGAAGAGCATTCGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
20813275 TTATATCCGGGCTAAGTCCTGAAGAGCATTCGTTCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
20813315 ATATATCCGTGCTAA-ACCTCGAAG-GCATTCGTGCT
1 ATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
20813350 GGAATTATGA
Statistics
Matches: 178, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 47 0.26
40 131 0.74
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:20813306 original size:79 final size:79
Alignment explanation
Indices: 20813116--20813351 Score: 375
Period size: 79 Copynumber: 3.0 Consensus size: 79
20813106 ATTGAGAGTT
*
20813116 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGA
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAA-TCTCGAAGA
*
20813181 GCATTCGTGCTAGTG
65 GCATTCGTGCTGGTG
*
20813196 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACATATCCGGGCTAATCTCGAAGAG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAATCTCGAAGAG
20813261 CATTCGTGCTGGTG
66 CATTCGTGCTGGTG
* * * * *
20813275 TTATATCCGGGCTAAGTCCTGAAGAGCATTCGTTCTAGTGATATATCCGTGCTAAACCTCGAAG-
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCT-AATCTCGAAGA
20813339 GCATTCGTGCTGG
65 GCATTCGTGCTGG
20813352 AATTATGAGG
Statistics
Matches: 146, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
79 83 0.57
80 63 0.43
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAATCTCGAAGAG
CATTCGTGCTGGTG
Found at i:20813447 original size:57 final size:57
Alignment explanation
Indices: 20813357--20813467 Score: 177
Period size: 57 Copynumber: 1.9 Consensus size: 57
20813347 GCTGGAATTA
* *
20813357 TGAGGCACTGTGTGTGCAAGCTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCAAGCTCTTCAACCGAGCACTATGTGTGCCAAATCAGTAGT
* * *
20813414 TGAGGCACTATGTGTGCAAGTTCTTCAATCGAGCACTATGTGTGCGAAATCAGT
1 TGAGGCACTATGTGTGCAAGCTCTTCAACCGAGCACTATGTGTGCCAAATCAGT
20813468 CAGTGGGCAC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCAAGCTCTTCAACCGAGCACTATGTGTGCCAAATCAGTAGT
Found at i:20813458 original size:28 final size:28
Alignment explanation
Indices: 20813361--20813458 Score: 99
Period size: 28 Copynumber: 3.5 Consensus size: 28
20813351 GAATTATGAG
* * *
20813361 GCACTGTGTGTGCAAGCTCTTCAACCGA
1 GCACTATGTGTGCAAGATCTTCAATCGA
* * * *
20813389 GCACTATGTGTGCCAGATCAGT-AGTTGA
1 GCACTATGTGTGCAAGATC-TTCAATCGA
*
20813417 GGCACTATGTGTGCAAGTTCTTCAATCGA
1 -GCACTATGTGTGCAAGATCTTCAATCGA
20813446 GCACTATGTGTGC
1 GCACTATGTGTGC
20813459 GAAATCAGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
28 33 0.60
29 22 0.40
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (28 bp):
GCACTATGTGTGCAAGATCTTCAATCGA
Found at i:20813477 original size:28 final size:28
Alignment explanation
Indices: 20813389--20813489 Score: 73
Period size: 28 Copynumber: 3.6 Consensus size: 28
20813379 CTTCAACCGA
* *
20813389 GCACTATGTGTGCCAGATCAGT-AGTTGAG
1 GCACTATGTGTGCGAAATCAGTCAG-TG-G
* * * *
20813418 GCACTATGTGTGC-AAGTTC-TTCAATCGA
1 GCACTATGTGTGCGAA-ATCAGTCAGT-GG
20813446 GCACTATGTGTGCGAAATCAGTCAGTGG
1 GCACTATGTGTGCGAAATCAGTCAGTGG
* *
20813474 GCACTGTGTATGCGAA
1 GCACTATGTGTGCGAA
20813490 GTGTGTTTCA
Statistics
Matches: 56, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
28 33 0.59
29 23 0.41
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (28 bp):
GCACTATGTGTGCGAAATCAGTCAGTGG
Found at i:20817373 original size:47 final size:47
Alignment explanation
Indices: 20817319--20817408 Score: 162
Period size: 47 Copynumber: 1.9 Consensus size: 47
20817309 TTTAGGATTT
*
20817319 AATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
20817366 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAAT
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAAT
20817409 ATGTGTGATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:20817412 original size:19 final size:19
Alignment explanation
Indices: 20817388--20817427 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
20817378 GTGAACATGC
20817388 ATATGTGTGATAAGGCCGA
1 ATATGTGTGATAAGGCCGA
20817407 ATATGTGTGATAAGGCCGA
1 ATATGTGTGATAAGGCCGA
20817426 AT
1 AT
20817428 GGCCAATGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (19 bp):
ATATGTGTGATAAGGCCGA
Found at i:20817447 original size:66 final size:66
Alignment explanation
Indices: 20817341--20817474 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 66
20817331 GTGAGCATGC
20817341 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCG
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCG
20817406 A
66 A
*
20817407 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCG
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCG
20817472 A
66 A
20817473 AT
1 AT
20817475 GGCCAATGTG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (66 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCG
A
Found at i:20817463 original size:47 final size:47
Alignment explanation
Indices: 20817407--20817583 Score: 291
Period size: 47 Copynumber: 3.8 Consensus size: 47
20817397 ATAAGGCCGA
20817407 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
20817454 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
20817501 ATATGTGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAACATGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* *** *
20817548 ATATATGTGATAAGATAGAATGGCTAATGTGATGAA
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
20817584 CGTGGAAGTG
Statistics
Matches: 121, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 121 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
Found at i:20817486 original size:22 final size:22
Alignment explanation
Indices: 20817412--20817486 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
20817402 GCCGAATATG
20817412 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
20817434 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
20817457 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
20817481 TGTGAT
1 TGTGAT
20817487 GAATGTGAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:20817517 original size:113 final size:113
Alignment explanation
Indices: 20817319--20817522 Score: 381
Period size: 113 Copynumber: 1.8 Consensus size: 113
20817309 TTTAGGATTT
*
20817319 AATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
20817384 ATGCATATGTGTGATAAGGCCGAATATGTGTGATAAGGCCGAATGGCC
66 ATGCATATGTGTGATAAGGCCGAATATGTGTGATAAGGCCGAATGGCC
* *
20817432 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
20817497 ATGCATATGTGTGATAAGGCCGAATA
66 ATGCATATGTGTGATAAGGCCGAATA
20817523 GCCAATGTGA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 88 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (113 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
ATGCATATGTGTGATAAGGCCGAATATGTGTGATAAGGCCGAATGGCC
Found at i:20817599 original size:47 final size:47
Alignment explanation
Indices: 20817407--20817623 Score: 274
Period size: 47 Copynumber: 4.6 Consensus size: 47
20817397 ATAAGGCCGA
*
20817407 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* *
20817454 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* *
20817501 ATATGTGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*** * * * *
20817548 ATATATGTGATAAGATAGAATGGCTAATGTGATGAACGTGGAA-GTGT
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATGC
** * *
20817595 ATATATGTGGCAAAGCCGAATGGCTAATG
1 ATATATGTGATAAGGCCGAATGGCCAATG
20817624 CGAAATGTGT
Statistics
Matches: 151, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
47 148 0.98
48 3 0.02
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
Found at i:20817667 original size:46 final size:46
Alignment explanation
Indices: 20817610--20817733 Score: 158
Period size: 46 Copynumber: 2.7 Consensus size: 46
20817600 TGTGGCAAAG
*
20817610 CCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTAAAC
1 CCGAATGGCTAATGCGAAATGTGTATGAGATGGATACGAGGTAAAC
* * * * *
20817656 CCGAGTGGCTAATGCAAAACGTGTATGAGATGGATACGTGGTAAAG
1 CCGAATGGCTAATGCGAAATGTGTATGAGATGGATACGAGGTAAAC
* * * *
20817702 CCAAATGGCTAATGTGAGATATGTATGAGATG
1 CCGAATGGCTAATGCGAAATGTGTATGAGATG
20817734 TGTATATATA
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.34, C:0.11, G:0.31, T:0.24
Consensus pattern (46 bp):
CCGAATGGCTAATGCGAAATGTGTATGAGATGGATACGAGGTAAAC
Found at i:20831400 original size:9 final size:10
Alignment explanation
Indices: 20831388--20831424 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
20831378 TTTGATATAC
20831388 ATGAT-TGAT
1 ATGATATGAT
20831397 ATGATATGTAT
1 ATGATATG-AT
20831408 ATGATATG-T
1 ATGATATGAT
20831417 ATGATATG
1 ATGATATG
20831425 CTCATGATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 14 0.54
10 2 0.08
11 10 0.38
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (10 bp):
ATGATATGAT
Found at i:20831432 original size:20 final size:20
Alignment explanation
Indices: 20831385--20831424 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
20831375 GATTTTGATA
20831385 TACATGATTGATATGATATG
1 TACATGATTGATATGATATG
*
20831405 TATATGATATG-TATGATATG
1 TACATGAT-TGATATGATATG
20831425 CTCATGATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (20 bp):
TACATGATTGATATGATATG
Done.