Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 75 of 230
Found at i:20624619 original size:22 final size:22
Alignment explanation
Indices: 20624578--20624619 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
20624568 TTTGAAAGAT
* *
20624578 TTTTGGAATGAAATTGAGAGGA
1 TTTTGAAAGGAAATTGAGAGGA
20624600 TTTTGAAAGGAAATTGAGAG
1 TTTTGAAAGGAAATTGAGAG
20624620 TTTAAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (22 bp):
TTTTGAAAGGAAATTGAGAGGA
Found at i:20624654 original size:22 final size:22
Alignment explanation
Indices: 20624624--20624668 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
20624614 TGAGAGTTTA
20624624 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
*
20624646 AGAGGATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
20624668 A
1 A
20624669 TATAGGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.27
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:20630396 original size:25 final size:25
Alignment explanation
Indices: 20630360--20630428 Score: 120
Period size: 25 Copynumber: 2.8 Consensus size: 25
20630350 GGTCACCGAT
20630360 TTCAGCTCGCATGAGCTTCCCATTA
1 TTCAGCTCGCATGAGCTTCCCATTA
*
20630385 TTCAGCTTGCATGAGCTTCCCATTA
1 TTCAGCTCGCATGAGCTTCCCATTA
*
20630410 TTCAGCTCGTATGAGCTTC
1 TTCAGCTCGCATGAGCTTC
20630429 TTGCTATTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (25 bp):
TTCAGCTCGCATGAGCTTCCCATTA
Found at i:20638241 original size:35 final size:34
Alignment explanation
Indices: 20638141--20638244 Score: 154
Period size: 35 Copynumber: 3.0 Consensus size: 34
20638131 TCTCTATTTG
* *
20638141 GCGTGTTTCGATTGGACTAGCTCTTATAAGCACT
1 GCGTGTTTCGATTGGACTAGCTCTTATGAGCATT
20638175 GACGTGTTTCGATTGGACTAGCTCTTATGAGCATT
1 G-CGTGTTTCGATTGGACTAGCTCTTATGAGCATT
* *
20638210 AGCGTGTTTCGGTTGGACTAGCTCTTGTGAGCATT
1 -GCGTGTTTCGATTGGACTAGCTCTTATGAGCATT
20638245 TGATGTTTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
34 1 0.02
35 62 0.97
36 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (34 bp):
GCGTGTTTCGATTGGACTAGCTCTTATGAGCATT
Found at i:20640656 original size:75 final size:75
Alignment explanation
Indices: 20640571--20640724 Score: 227
Period size: 75 Copynumber: 2.1 Consensus size: 75
20640561 GCGGTTGTCC
* * * * * * *
20640571 TATAATTTTTTGATGTCATGGGACATAGGTTGACAACATGTTTGCAACATGTTGACTGCTTCTAT
1 TATAATTTTTTCATGTCACGGGAAACAAGTTGACAACATGTTCGCAACATGTTGACTACTTCTAT
20640636 TAGGATTTTG
66 TAGGATTTTG
* *
20640646 TATAATTTTTTCATGTCACGTGAAACAAGTTGACAACATGTTCGCAACTTGTTGACTACTTCTAT
1 TATAATTTTTTCATGTCACGGGAAACAAGTTGACAACATGTTCGCAACATGTTGACTACTTCTAT
20640711 TAGGATTTTG
66 TAGGATTTTG
20640721 TATA
1 TATA
20640725 TAAATTACGA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (75 bp):
TATAATTTTTTCATGTCACGGGAAACAAGTTGACAACATGTTCGCAACATGTTGACTACTTCTAT
TAGGATTTTG
Found at i:20641147 original size:73 final size:73
Alignment explanation
Indices: 20640916--20641433 Score: 411
Period size: 73 Copynumber: 7.2 Consensus size: 73
20640906 TGAGACAAAA
* * * * **
20640916 TCTATCCCAACCTTTTTTAGTTTACCTTAGACGGGTTTA-CCCTAACC-TTTTT-AAGGTTGCCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCAATCCC-AACCTTTTTTAAAGGTTGCCT
*
20640978 TAGAC-GGG
65 TAGACAAGG
* * * * * * *
20640986 TTTATCCCAACTTTTTTTAA-GTTGCCTTGGAAAAGGTCTATCCCAA-CTTTTTT-ACGGTTGCT
1 TCTATCCCAAC-CTTTTTAAGGTTGCCTTAG-ACAGGTCAATCCCAACCTTTTTTAAAGGTTGCC
20641048 TTA-A-ATAGG
64 TTAGACA-AGG
* * * * * *
20641057 TCTATCCCAACATTTTTAAGGTTGTCTTAAACGGGTCAATCCCAACCCTTTTTAAAAGTTGCCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCAATCCCAACCTTTTTTAAAGGTTGCCTT
*
20641122 AGACAGGG
66 AGACAAGG
* * * * * * *
20641130 TCTATCCTAACCCTTTTAAGGTTGCTTTAGGCAAGTCTATCCCAACCTTTTTTGAAGGTTGCCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCAATCCCAACCTTTTTTAAAGGTTGCCTT
20641195 AGACAAGG
66 AGACAAGG
* * * * *
20641203 TTTATCCCAACTTTTTTAAAAGGTTGCCTTAGACTGG-CATCTCCCAACTTTTTTTAAAGGTTGC
1 TCTATCCCAACCTTTTT--AAGGTTGCCTTAGACAGGTCA-ATCCCAACCTTTTTTAAAGGTTGC
20641267 CTTAGACAAGG
63 CTTAGACAAGG
* * * *
20641278 TTTATCCCAACCTTTTTAAGGTTGCCTTAGAC--G--AATCTCAATCTTTTTTAAAGGTTACCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCAATCCCAACCTTTTTTAAAGGTTGCCTT
*
20641339 AGATAAGG
66 AGACAAGG
** ** *
20641347 TCTATCCCAATTTTTTTTAAAGGTTGCCTTAGACAAGGTTTATCCCAA-CTTTTTTAAAAGGTTA
1 TCTATCCCAA-CCTTTTT-AAGGTTGCCTTAGAC-AGGTCAATCCCAACCTTTTTT-AAAGGTTG
* *
20641411 TCTTAGAC-TGG
62 CCTTAGACAAGG
*
20641422 TCTATCCTAACC
1 TCTATCCCAACC
20641434 ACTTTCAAAG
Statistics
Matches: 357, Mismatches: 69, Indels: 40
0.77 0.15 0.09
Matches are distributed among these distances:
69 38 0.11
70 44 0.12
71 70 0.20
72 12 0.03
73 90 0.25
74 3 0.01
75 80 0.22
76 20 0.06
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (73 bp):
TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCAATCCCAACCTTTTTTAAAGGTTGCCTT
AGACAAGG
Found at i:20641153 original size:108 final size:108
Alignment explanation
Indices: 20640959--20641356 Score: 348
Period size: 108 Copynumber: 3.7 Consensus size: 108
20640949 GGTTTACCCT
** * *
20640959 AACC-TTTTTAAGGTTGCCTTAGACGGGTTTATCCCAA-CTTTTTTTAAGTTGCCTTGGAAAAGG
1 AACCATTTTTAAGGTTGCCTTAGACGGGTTTATCCCAACCTTTTTAAAAGTTGCCTTAGACAAGG
** * * *
20641022 TCTATCCCAACTTTTTTACGGTTGCTTTAAATAGGTCTATCCC
66 TCTATCCCAACCCTTTTAAGGTTGCTTTAAACAAGTCTATCCC
* * ** *
20641065 AA-CATTTTTAAGGTTGTCTTAAACGGGTCAATCCCAACCCTTTTTAAAAGTTGCCTTAGACAGG
1 AACCATTTTTAAGGTTGCCTTAGACGGGTTTATCCCAA-CCTTTTTAAAAGTTGCCTTAGACAAG
* **
20641129 GTCTATCCTAACCCTTTTAAGGTTGCTTTAGGCAAGTCTATCCC
65 GTCTATCCCAACCCTTTTAAGGTTGCTTTAAACAAGTCTATCCC
* * *
20641173 AACCTTTTTTGAAGGTTGCCTTAGACAAGGTTTATCCCAACTTTTTTAAAAGGTTGCCTTAGAC-
1 AACCATTTTT-AAGGTTGCCTTAGAC-GGGTTTATCCCAACCTTTTTAAAA-GTTGCCTTAGACA
* * ** * * *
20641237 TGG-CATCTCCCAACTTTTTTTAAAGGTTGCCTTAGACAAGGTTTATCCC
63 AGGTC-TATCCCAAC-CCTTTT-AAGGTTGCTTTAAACAA-GTCTATCCC
* * * * * *
20641286 AACC-TTTTTAAGGTTGCCTTAGAC--G--AATCTCAATCTTTTTTAAAGGTTACCTTAGATAAG
1 AACCATTTTTAAGGTTGCCTTAGACGGGTTTATCCCAA-CCTTTTTAAAAGTTGCCTTAGACAAG
20641346 GTCTATCCCAA
65 GTCTATCCCAA
20641357 TTTTTTTTAA
Statistics
Matches: 239, Mismatches: 39, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
105 1 0.00
106 47 0.20
107 19 0.08
108 60 0.25
109 7 0.03
110 32 0.13
111 41 0.17
112 20 0.08
113 12 0.05
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.37
Consensus pattern (108 bp):
AACCATTTTTAAGGTTGCCTTAGACGGGTTTATCCCAACCTTTTTAAAAGTTGCCTTAGACAAGG
TCTATCCCAACCCTTTTAAGGTTGCTTTAAACAAGTCTATCCC
Found at i:20641217 original size:37 final size:36
Alignment explanation
Indices: 20640916--20641403 Score: 398
Period size: 35 Copynumber: 13.5 Consensus size: 36
20640906 TGAGACAAAA
* * *
20640916 TCTATCCCAACCTTTTTT-AGTTTACCTTAGAC-GGG
1 TCTATCCCAA-CTTTTTTAAGGTTGCCTTAGACAAGG
* * *
20640951 TTTA-CCCTAACCTTTTTAAGGTTGCCTTAGAC-GGG
1 TCTATCCC-AACTTTTTTAAGGTTGCCTTAGACAAGG
* * *
20640986 TTTATCCCAACTTTTTTTAA-GTTGCCTTGGAAAAGG
1 TCTATCCCAAC-TTTTTTAAGGTTGCCTTAGACAAGG
* *
20641022 TCTATCCCAACTTTTTTACGGTTGCTTTA-A-ATAGG
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGACA-AGG
* * * *
20641057 TCTATCCCAACATTTTTAAGGTTGTCTTAAAC-GGG
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGACAAGG
* * * *
20641092 TCAATCCCAACCCTTTTTAAAAGTTGCCTTAGACAGGG
1 TCTATCCCAA--CTTTTTTAAGGTTGCCTTAGACAAGG
* ** * *
20641130 TCTATCCTAACCCTTTTAAGGTTGCTTTAGGCAA-G
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGACAAGG
20641165 TCTATCCCAACCTTTTTTGAAGGTTGCCTTAGACAAGG
1 TCTATCCCAA-CTTTTTT-AAGGTTGCCTTAGACAAGG
* *
20641203 TTTATCCCAACTTTTTTAAAAGGTTGCCTTAGAC-TGG
1 TCTATCCCAACTTTTTT--AAGGTTGCCTTAGACAAGG
*
20641240 -CATCTCCCAACTTTTTTTAAAGGTTGCCTTAGACAAGG
1 TC-TATCCCAAC-TTTTTT-AAGGTTGCCTTAGACAAGG
* *
20641278 TTTATCCCAACCTTTTTAAGGTTGCCTTAGACGAA--
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGAC-AAGG
* *
20641313 TC--T--CAATCTTTTTTAAAGGTTACCTTAGATAAGG
1 TCTATCCCAA-CTTTTTT-AAGGTTGCCTTAGACAAGG
*
20641347 TCTATCCCAATTTTTTTTAAAGGTTGCCTTAGACAAGG
1 TCTATCCCAA-CTTTTTT-AAGGTTGCCTTAGACAAGG
*
20641385 TTTATCCCAACTTTTTTAA
1 TCTATCCCAACTTTTTTAA
20641404 AAGGTTATCT
Statistics
Matches: 369, Mismatches: 55, Indels: 57
0.77 0.11 0.12
Matches are distributed among these distances:
31 3 0.01
32 8 0.02
33 14 0.04
34 12 0.03
35 95 0.26
36 70 0.19
37 78 0.21
38 89 0.24
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (36 bp):
TCTATCCCAACTTTTTTAAGGTTGCCTTAGACAAGG
Found at i:20641428 original size:37 final size:36
Alignment explanation
Indices: 20640916--20641428 Score: 406
Period size: 38 Copynumber: 14.2 Consensus size: 36
20640906 TGAGACAAAA
* * *
20640916 TCTATCCCAACCTTTTTT--AGTTTACCTTAGACGGG
1 TCTATCCCAA-CTTTTTTAAAGGTTGCCTTAGACAGG
* * *
20640951 TTTA-CCCTAACCTTTTT-AAGGTTGCCTTAGACGGG
1 TCTATCCC-AACTTTTTTAAAGGTTGCCTTAGACAGG
* * * *
20640986 TTTATCCCAACTTTTTTTAA-GTTGCCTTGGAAAAGG
1 TCTATCCCAACTTTTTTAAAGGTTGCCTTAG-ACAGG
* * * *
20641022 TCTATCCCAACTTTTTT-ACGGTTGCTTTAAATAGG
1 TCTATCCCAACTTTTTTAAAGGTTGCCTTAGACAGG
* * * *
20641057 TCTATCCCAACATTTTT-AAGGTTGTCTTAAACGGG
1 TCTATCCCAACTTTTTTAAAGGTTGCCTTAGACAGG
* * *
20641092 TCAATCCCAACCCTTTTTAAAAGTTGCCTTAGACAGGG
1 TCTATCCCAA-CTTTTTTAAAGGTTGCCTTAGACA-GG
* ** * * *
20641130 TCTATCCTAACCCTTTT-AAGGTTGCTTTAGGCAAG
1 TCTATCCCAACTTTTTTAAAGGTTGCCTTAGACAGG
*
20641165 TCTATCCCAACCTTTTTTGAAGGTTGCCTTAGACAAGG
1 TCTATCCCAA-CTTTTTTAAAGGTTGCCTTAGAC-AGG
* *
20641203 TTTATCCCAACTTTTTTAAAAGGTTGCCTTAGACTGG
1 TCTATCCCAACTTTTTT-AAAGGTTGCCTTAGACAGG
*
20641240 -CATCTCCCAACTTTTTTTAAAGGTTGCCTTAGACAAGG
1 TC-TATCCCAAC-TTTTTTAAAGGTTGCCTTAGAC-AGG
* *
20641278 TTTATCCCAACCTTTTT-AAGGTTGCCTTAGAC--G
1 TCTATCCCAACTTTTTTAAAGGTTGCCTTAGACAGG
* * * *
20641311 --AATCTCAATCTTTTTTAAAGGTTACCTTAGATAAGG
1 TCTATCCCAA-CTTTTTTAAAGGTTGCCTTAGA-CAGG
*
20641347 TCTATCCCAATTTTTTTTAAAGGTTGCCTTAGACAAGG
1 TCTATCCCAA-CTTTTTTAAAGGTTGCCTTAGAC-AGG
* ** *
20641385 TTTATCCCAACTTTTTTAAAAGGTTATCTTAGACTGG
1 TCTATCCCAACTTTTTT-AAAGGTTGCCTTAGACAGG
20641422 TCTATCC
1 TCTATCC
20641429 TAACCACTTT
Statistics
Matches: 388, Mismatches: 64, Indels: 50
0.77 0.13 0.10
Matches are distributed among these distances:
31 6 0.02
32 6 0.02
33 14 0.04
34 9 0.02
35 94 0.24
36 71 0.18
37 83 0.21
38 105 0.27
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (36 bp):
TCTATCCCAACTTTTTTAAAGGTTGCCTTAGACAGG
Found at i:20644340 original size:32 final size:33
Alignment explanation
Indices: 20644253--20644340 Score: 88
Period size: 32 Copynumber: 2.6 Consensus size: 33
20644243 CGAATTTGAC
* * * *
20644253 TTAAAAAAACTTGAATCTAGAATTTTATTTTTAAA
1 TTAAAAAAA-TTAAATCT-GAATTTAATATATAAA
* *
20644288 TTAAAAAAATTATATTTGAATTTAATATATAAA
1 TTAAAAAAATTAAATCTGAATTTAATATATAAA
*
20644321 -TAAAAAATTTAAATCTGAAT
1 TTAAAAAAATTAAATCTGAAT
20644341 AATAGATAGA
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
32 17 0.39
33 13 0.30
34 5 0.11
35 9 0.20
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (33 bp):
TTAAAAAAATTAAATCTGAATTTAATATATAAA
Found at i:20651342 original size:16 final size:17
Alignment explanation
Indices: 20651321--20651362 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
20651311 GAAATAACCT
*
20651321 ATAATTTGAA-TTAAAA
1 ATAATTTAAACTTAAAA
20651337 ATAATTTAAACTT-AAA
1 ATAATTTAAACTTAAAA
*
20651353 ATAACTTAAA
1 ATAATTTAAA
20651363 AACCCAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 21 0.91
17 2 0.09
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (17 bp):
ATAATTTAAACTTAAAA
Found at i:20656590 original size:20 final size:20
Alignment explanation
Indices: 20656565--20656604 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
20656555 ATTTATTATT
20656565 ATTTCAATTTATATTTGAAG
1 ATTTCAATTTATATTTGAAG
20656585 ATTTCAATTTATATTTGAAG
1 ATTTCAATTTATATTTGAAG
20656605 TTCTAAGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (20 bp):
ATTTCAATTTATATTTGAAG
Found at i:20660768 original size:21 final size:21
Alignment explanation
Indices: 20660742--20660785 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
20660732 TTTATAATGT
20660742 ATGTATAT-TATTATAAAAATA
1 ATGTATATGTA-TATAAAAATA
*
20660763 ATGTATATGTATATAATAATA
1 ATGTATATGTATATAAAAATA
20660784 AT
1 AT
20660786 AATAGTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (21 bp):
ATGTATATGTATATAAAAATA
Found at i:20660783 original size:3 final size:3
Alignment explanation
Indices: 20660775--20660820 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
20660765 GTATATGTAT
*
20660775 ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
20660821 CAAGTAGGGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:20662367 original size:6 final size:6
Alignment explanation
Indices: 20662352--20662405 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
20662342 GGTTTTCTCC
* * * * *
20662352 AAATGA AAATTG AAATGA AAATGG AAATGG AAATGT AAATGA AAATGAG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G
20662401 AAATG
1 AAATG
20662406 ATTCATTTGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
6 34 0.87
7 5 0.13
ACGTcount: A:0.57, C:0.00, G:0.22, T:0.20
Consensus pattern (6 bp):
AAATGG
Found at i:20662379 original size:18 final size:18
Alignment explanation
Indices: 20662352--20662406 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
20662342 GGTTTTCTCC
*
20662352 AAATGAAAATTGAAATGA
1 AAATGAAAATGGAAATGA
* *
20662370 AAATGGAAATGGAAATGT
1 AAATGAAAATGGAAATGA
20662388 AAATGAAAATGAGAAATGA
1 AAATGAAAATG-GAAATGA
20662407 TTCATTTGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
18 25 0.81
19 6 0.19
ACGTcount: A:0.58, C:0.00, G:0.22, T:0.20
Consensus pattern (18 bp):
AAATGAAAATGGAAATGA
Found at i:20662398 original size:12 final size:12
Alignment explanation
Indices: 20662352--20662398 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
20662342 GGTTTTCTCC
20662352 AAATGAAAAT-T
1 AAATGAAAATGT
*
20662363 GAAATGAAAATGG
1 -AAATGAAAATGT
*
20662376 AAATGGAAATGT
1 AAATGAAAATGT
20662388 AAATGAAAATG
1 AAATGAAAATG
20662399 AGAAATGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.57, C:0.00, G:0.21, T:0.21
Consensus pattern (12 bp):
AAATGAAAATGT
Found at i:20665815 original size:27 final size:27
Alignment explanation
Indices: 20665774--20665829 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
20665764 TTAATAACTG
* * *
20665774 TTATAGTATTGTTTTGGATATAGATCA
1 TTATAGCATTATTTTGGATATACATCA
20665801 TTATAGCATTATTTTGGATATACATCA
1 TTATAGCATTATTTTGGATATACATCA
20665828 TT
1 TT
20665830 TATTTGCATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.48
Consensus pattern (27 bp):
TTATAGCATTATTTTGGATATACATCA
Found at i:20669944 original size:27 final size:27
Alignment explanation
Indices: 20669913--20670090 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
20669903 TAAATTGTAC
20669913 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
20669940 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20669966 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
20669994 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
20670022 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20670049 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
20670076 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20670091 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:20670027 original size:82 final size:81
Alignment explanation
Indices: 20669914--20670069 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
20669904 AAATTGTACA
* *
20669914 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
20669978 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
20669995 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
20670060 TGCGAGTTGA
65 TGCGAATTGA
20670070 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:20670081 original size:82 final size:81
Alignment explanation
Indices: 20669910--20670090 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
20669900 GATTAAATTG
* *
20669910 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
20669975 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
20669991 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
20670055 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
20670073 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
20670091 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:20679135 original size:42 final size:42
Alignment explanation
Indices: 20678997--20679214 Score: 239
Period size: 42 Copynumber: 5.2 Consensus size: 42
20678987 TTTAAACAGA
* * * *
20678997 TTCACTGGCACTT-AGCCTGCTAGACTTAAAGCCTGAT-TCAG-
1 TTCACCGGCA-TTAAGCCTGCTAGACATAAAGTCTGATAT-TGT
* * *
20679038 TACACCGGCACTT-AGCCTGCTAGACATATAGTCTGA-AATGT
1 TTCACCGGCA-TTAAGCCTGCTAGACATAAAGTCTGATATTGT
* *
20679079 TTCACCGGCATTAAGCCTCCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGATATTGT
* * * *
20679121 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTAAAATTAT
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGATATTGT
*
20679163 TTCACCGGCATTAAGCCTGCTAGACATAAAGTTTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGATATTGT
*
20679205 TTCACTGGCA
1 TTCACCGGCA
20679215 ATAAACTTGA
Statistics
Matches: 151, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
40 3 0.02
41 60 0.40
42 88 0.58
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (42 bp):
TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGATATTGT
Found at i:20696217 original size:21 final size:21
Alignment explanation
Indices: 20696193--20696234 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20696183 TATTTCAGTC
20696193 AGAGTCACTAAACCATTTTTA
1 AGAGTCACTAAACCATTTTTA
20696214 AGAGTCACTAAACCATTTTTA
1 AGAGTCACTAAACCATTTTTA
20696235 TCTGGAGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (21 bp):
AGAGTCACTAAACCATTTTTA
Found at i:20697108 original size:51 final size:50
Alignment explanation
Indices: 20697046--20697234 Score: 231
Period size: 51 Copynumber: 3.7 Consensus size: 50
20697036 ATACCCGGTT
* *
20697046 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCTGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCTGATA
* * *
20697097 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTAT-TCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCT-GATA
* * * *
20697148 CGCATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCTGATA
20697198 CACATAGTAGCCTGCACATAGTACTACACACGTGACC
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC
20697235 TAGCAACTTC
Statistics
Matches: 118, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
49 1 0.01
50 44 0.37
51 71 0.60
52 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCTGATA
Found at i:20697231 original size:101 final size:101
Alignment explanation
Indices: 20697048--20697232 Score: 309
Period size: 101 Copynumber: 1.8 Consensus size: 101
20697038 ACCCGGTTCA
* * *
20697048 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCA-TATCATCCGATACACATAGTAGCCTGCA
20697113 CATAGTACTACACACGTGATCGAAGCTATTCGATACG
65 CATAGTACTACACACGTGATCGAAGCTATTCGATACG
*
20697150 CATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTCCGGTACACATAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCATATCA-TCCGATACACATAGTAGCCTGCA
20697214 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
20697233 CCTAGCAACT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.50
102 35 0.45
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGTGACCATATCATCCGATACACATAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATTCGATACG
Found at i:20702374 original size:18 final size:19
Alignment explanation
Indices: 20702339--20702388 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
20702329 AGTAAAGTTT
* * *
20702339 ATATTAAAATCCTTGAAGG
1 ATATTAAAATTCTAGAAGC
20702358 AT-TTAAAATTCTAGAAGC
1 ATATTAAAATTCTAGAAGC
*
20702376 ATATTAGAATTCT
1 ATATTAAAATTCT
20702389 CGGGAAATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (19 bp):
ATATTAAAATTCTAGAAGC
Found at i:20705170 original size:21 final size:19
Alignment explanation
Indices: 20705146--20705194 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
20705136 TGTATAACTA
20705146 AATTGTGTAATTATATGCTTG
1 AATTGTGTAATTATATG--TG
** *
20705167 AATTGAATAATTGTATGTG
1 AATTGTGTAATTATATGTG
20705186 AATTGTGTA
1 AATTGTGTA
20705195 TTGGCCATGT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 9 0.39
21 14 0.61
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (19 bp):
AATTGTGTAATTATATGTG
Found at i:20705618 original size:24 final size:24
Alignment explanation
Indices: 20705586--20705636 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
20705576 TGCTTCCTGA
*
20705586 TTAAGTGCTTTTC-GAAGCTACCCG
1 TTAAGTGCTCTTCAG-AGCTACCCG
20705610 TTAAGTGCTCTTCAGAGCTACCCG
1 TTAAGTGCTCTTCAGAGCTACCCG
20705634 TTA
1 TTA
20705637 TATGCTCGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (24 bp):
TTAAGTGCTCTTCAGAGCTACCCG
Found at i:20712220 original size:20 final size:21
Alignment explanation
Indices: 20712192--20712230 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
20712182 TGTAAACTTG
*
20712192 AGTGTTTAAATTG-TATTTGT
1 AGTGGTTAAATTGTTATTTGT
20712212 AGTGGTTAAATTGTTATTT
1 AGTGGTTAAATTGTTATTT
20712231 AAGCTTGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.54
Consensus pattern (21 bp):
AGTGGTTAAATTGTTATTTGT
Found at i:20715501 original size:26 final size:26
Alignment explanation
Indices: 20715443--20715513 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
20715433 CTTTCACATT
* * *
20715443 ATGCCACACAGGCATTTCCTTCATGTT
1 ATGCCACAAAGGC-TTTCCTTCATATC
* *
20715470 ACGCCACAAAGGCTTTCCTTTATATC
1 ATGCCACAAAGGCTTTCCTTCATATC
20715496 ATGCCACAAAGGCTTTCC
1 ATGCCACAAAGGCTTTCC
20715514 ACTTGAGAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
26 27 0.71
27 11 0.29
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (26 bp):
ATGCCACAAAGGCTTTCCTTCATATC
Found at i:20717179 original size:16 final size:17
Alignment explanation
Indices: 20717136--20717180 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
20717126 GATTGTGTGA
*
20717136 AATGTGATACATG-ATT
1 AATGTGATATATGTATT
20717152 AATG-GA-ATATGTATT
1 AATGTGATATATGTATT
20717167 -ATGTGATATATGTA
1 AATGTGATATATGTA
20717181 AATTCTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 7 0.28
15 7 0.28
16 11 0.44
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.40
Consensus pattern (17 bp):
AATGTGATATATGTATT
Found at i:20719933 original size:48 final size:47
Alignment explanation
Indices: 20719875--20719989 Score: 158
Period size: 48 Copynumber: 2.4 Consensus size: 47
20719865 TATCTGCAAT
* *
20719875 TATGTAGTGGTGTATCCACGATGTGCTATGTGACCGTTCATCGATATC
1 TATGTGGTGGT-TATCCACGATGTGCTATGTGACCGTTCATCGACATC
* * *
20719923 TATGTGGTGGTTTATCCTCGATGTGCTATGTGACTGTTCATCGGCATC
1 TATGTGGTGG-TTATCCACGATGTGCTATGTGACCGTTCATCGACATC
20719971 TATGTGGTGGCTTATCCAC
1 TATGTGGTGG-TTATCCAC
20719990 AAACTGGTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 58 0.98
49 1 0.02
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.37
Consensus pattern (47 bp):
TATGTGGTGGTTATCCACGATGTGCTATGTGACCGTTCATCGACATC
Found at i:20720502 original size:37 final size:38
Alignment explanation
Indices: 20720450--20720522 Score: 130
Period size: 37 Copynumber: 1.9 Consensus size: 38
20720440 GACACTATTT
*
20720450 TGATTTAATAGGGTATTATGTATGAATTGT-TTTAATG
1 TGATTTAATAAGGTATTATGTATGAATTGTCTTTAATG
20720487 TGATTTAATAAGGTATTATGTATGAATTGTCTTTAA
1 TGATTTAATAAGGTATTATGTATGAATTGTCTTTAA
20720523 ATGGTTCAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 29 0.85
38 5 0.15
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (38 bp):
TGATTTAATAAGGTATTATGTATGAATTGTCTTTAATG
Found at i:20726531 original size:16 final size:16
Alignment explanation
Indices: 20726512--20726549 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
20726502 GATGTGATGA
20726512 ATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATAT
20726528 ATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATAT
20726544 ATGTGA
1 ATGTGA
20726550 TAAGGCCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (16 bp):
ATGTGAAAGTGTATAT
Found at i:20726564 original size:63 final size:63
Alignment explanation
Indices: 20726477--20726596 Score: 231
Period size: 63 Copynumber: 1.9 Consensus size: 63
20726467 GTGAACATGC
20726477 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAAAGTGT
1 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAAAGTGT
*
20726540 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20726597 TAAGGCCTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (63 bp):
ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAAAGTGT
Found at i:20726597 original size:47 final size:47
Alignment explanation
Indices: 20726528--20726741 Score: 347
Period size: 47 Copynumber: 4.6 Consensus size: 47
20726518 AAGTGTATAT
20726528 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20726575 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
20726622 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
20726669 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20726716 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
20726742 TCCCGAAGGG
Statistics
Matches: 155, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 155 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:20726910 original size:37 final size:37
Alignment explanation
Indices: 20726860--20726975 Score: 180
Period size: 37 Copynumber: 3.1 Consensus size: 37
20726850 CCGAGCTCTA
20726860 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
20726897 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
* * * *
20726934 AAGACCCGAT-AGCTTCATGTGGAGATTATGTCCGGGT
1 AAGACCCGATGA-CTACGTGTGGGGATTTTGTCCGGGT
20726971 AAGAC
1 AAGAC
20726976 TTCGTAATAA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
36 1 0.01
37 73 0.99
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
Found at i:20728809 original size:27 final size:28
Alignment explanation
Indices: 20728779--20728890 Score: 133
Period size: 27 Copynumber: 4.1 Consensus size: 28
20728769 TATAATAGTC
* *
20728779 ATTTTACTCC-TCGGGGGTATTTCGGTA
1 ATTTTACTCCTTCGAGGGTATTTCGATA
* *
20728806 ATTTTACT-CTTTGGGGGTATTTCGATA
1 ATTTTACTCCTTCGAGGGTATTTCGATA
*
20728833 ATTTTAC-CCTTTGAGGGTATTTCGATA
1 ATTTTACTCCTTCGAGGGTATTTCGATA
* *
20728860 ATTTTA-TCCTTCGAGGCTATTTCGGTA
1 ATTTTACTCCTTCGAGGGTATTTCGATA
20728887 ATTT
1 ATTT
20728891 ACCCCTCAAG
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.01
27 75 0.99
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.46
Consensus pattern (28 bp):
ATTTTACTCCTTCGAGGGTATTTCGATA
Found at i:20729847 original size:17 final size:19
Alignment explanation
Indices: 20729811--20729850 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
20729801 AACCAACAAC
*
20729811 AAGAGAAGAAGAAACCGAA
1 AAGAGAAGAAGAAACAGAA
20729830 AAGA-AAGAAGAAA-AGAA
1 AAGAGAAGAAGAAACAGAA
20729847 AAGA
1 AAGA
20729851 TGACGGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.70, C:0.05, G:0.25, T:0.00
Consensus pattern (19 bp):
AAGAGAAGAAGAAACAGAA
Found at i:20731587 original size:25 final size:23
Alignment explanation
Indices: 20731552--20731596 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
20731542 AAGTATGTGT
*
20731552 ATATATATATAAATTATAAAAAA
1 ATATATATATATATTATAAAAAA
*
20731575 ATATATATGTATATTATAAAAA
1 ATATATATATATATTATAAAAA
20731597 CGTATGCAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
ATATATATATATATTATAAAAAA
Found at i:20734012 original size:17 final size:19
Alignment explanation
Indices: 20733976--20734015 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
20733966 AATCGGCAAC
*
20733976 AAGAGAAGAAGAAATTGAA
1 AAGAGAAGAAGAAATAGAA
20733995 AAGA-AAGAAGAAA-AGAA
1 AAGAGAAGAAGAAATAGAA
20734012 AAGA
1 AAGA
20734016 TGAGGGAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (19 bp):
AAGAGAAGAAGAAATAGAA
Found at i:20738057 original size:25 final size:25
Alignment explanation
Indices: 20738006--20738073 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
20737996 CTGTACATGT
*
20738006 ATGCTCGCACAAGCTGT-AATCAGA
1 ATGCTCACACAAGCTGTGAATCAGA
*
20738030 ATGCTCACACGAGCTGTGAATCAGA
1 ATGCTCACACAAGCTGTGAATCAGA
20738055 ATGCTCACACAAGCTGTGA
1 ATGCTCACACAAGCTGTGA
20738074 GAATGGGCCA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
24 15 0.38
25 25 0.62
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.21
Consensus pattern (25 bp):
ATGCTCACACAAGCTGTGAATCAGA
Found at i:20739909 original size:44 final size:44
Alignment explanation
Indices: 20739846--20739933 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
20739836 GTCTATCAAA
20739846 ATGTAACCAAGAAACCTGAATTATCAAACTTTTACTAGTGCTTC
1 ATGTAACCAAGAAACCTGAATTATCAAACTTTTACTAGTGCTTC
20739890 ATGTAACCAAGAAACCTGAATTATCAAACTTTTACTAGTGCTTC
1 ATGTAACCAAGAAACCTGAATTATCAAACTTTTACTAGTGCTTC
20739934 TAACATGTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.32
Consensus pattern (44 bp):
ATGTAACCAAGAAACCTGAATTATCAAACTTTTACTAGTGCTTC
Found at i:20743049 original size:15 final size:16
Alignment explanation
Indices: 20743020--20743049 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20743010 CAAACATGCT
20743020 TTAACACATTATCAAA
1 TTAACACATTATCAAA
20743036 TTAACACA-TATCAA
1 TTAACACATTATCAA
20743050 TAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:20750158 original size:35 final size:35
Alignment explanation
Indices: 20750107--20750175 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
20750097 TTTGATTTAC
* * *
20750107 GAACAGTTCAAAAGTGTAGTATACCAATTATTCAT
1 GAACAATTCAAAAGTGTAATATACAAATTATTCAT
*
20750142 GAACAATTCAAGAGTGTAATATACAAATTATTCA
1 GAACAATTCAAAAGTGTAATATACAAATTATTCA
20750176 ATATGGGATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (35 bp):
GAACAATTCAAAAGTGTAATATACAAATTATTCAT
Found at i:20754416 original size:5 final size:5
Alignment explanation
Indices: 20754406--20754432 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
20754396 TAGGGAATCG
20754406 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
20754433 GGCAGAACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:20756299 original size:31 final size:31
Alignment explanation
Indices: 20756261--20756326 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
20756251 TAATTTTTAA
* * *
20756261 AAATAAATAAATATAATAATAGATAATATTT
1 AAATAAATAAATATAATAATACATAAAATAT
* *
20756292 AAATAAATTAATATAATGATACATAAAATAT
1 AAATAAATAAATATAATAATACATAAAATAT
20756323 AAAT
1 AAAT
20756327 TAATTTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (31 bp):
AAATAAATAAATATAATAATACATAAAATAT
Found at i:20761131 original size:51 final size:50
Alignment explanation
Indices: 20761067--20761186 Score: 136
Period size: 51 Copynumber: 2.4 Consensus size: 50
20761057 TTCAGGTCAT
* * * *
20761067 TTTCATTT-T-CATTTTTACTTTGGAGAAAACCACATTTATTTCCAAATAA
1 TTTCATTTCTCCATTTTCACTTTGAAG-AAACCACAATCATTTCCAAATAA
* * **
20761116 TTTCATTTCTCCATTTTCATTTTGAAGAAACCATAATCATTTCCAAATGT
1 TTTCATTTCTCCATTTTCACTTTGAAGAAACCACAATCATTTCCAAATAA
20761166 TTCTCATTTCTCCATTTTCAC
1 TT-TCATTTCTCCATTTTCAC
20761187 AATTTCTATT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 8 0.14
50 21 0.36
51 30 0.51
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.46
Consensus pattern (50 bp):
TTTCATTTCTCCATTTTCACTTTGAAGAAACCACAATCATTTCCAAATAA
Found at i:20762670 original size:46 final size:44
Alignment explanation
Indices: 20762620--20762725 Score: 113
Period size: 46 Copynumber: 2.3 Consensus size: 44
20762610 TTTCATGATT
* * * *
20762620 CACCATAAAGGCAACATAGAATATGCCACACGGGGCAAACAAAATA
1 CACCACAAAGGCAACAT--AATACGCCACACAGGCCAAACAAAATA
* *
20762666 CACCACATAGGCTAAACATAATACGCCACATAGGCCAAACAAAATA
1 CACCACAAAGGC--AACATAATACGCCACACAGGCCAAACAAAATA
*
20762712 CTCCACAAAGGCAA
1 CACCACAAAGGCAA
20762726 TACCAAAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
44 2 0.04
46 43 0.86
48 5 0.10
ACGTcount: A:0.47, C:0.27, G:0.14, T:0.11
Consensus pattern (44 bp):
CACCACAAAGGCAACATAATACGCCACACAGGCCAAACAAAATA
Found at i:20762671 original size:23 final size:22
Alignment explanation
Indices: 20762652--20762725 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 22
20762642 ATGCCACACG
20762652 GGGCAAACAAAATACACCACATA
1 GGGCAAACAAAATACACCACA-A
* *
20762675 -GGCTAAACATAATACGCCACATA
1 GGGC-AAACAAAATACACCACA-A
* *
20762698 GGCCAAACAAAATACTCCACAA
1 GGGCAAACAAAATACACCACAA
*
20762720 AGGCAA
1 GGGCAA
20762726 TACCAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
22 8 0.19
23 32 0.76
24 2 0.05
ACGTcount: A:0.49, C:0.27, G:0.14, T:0.11
Consensus pattern (22 bp):
GGGCAAACAAAATACACCACAA
Found at i:20765579 original size:27 final size:27
Alignment explanation
Indices: 20765541--20765594 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
20765531 ACCAAGTTTT
20765541 TTCATTAGACTACATTATAAAAGAGGA
1 TTCATTAGACTACATTATAAAAGAGGA
*
20765568 TTCATTAGACTACATTATAAAGGAGGA
1 TTCATTAGACTACATTATAAAAGAGGA
20765595 GGAGTAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.30
Consensus pattern (27 bp):
TTCATTAGACTACATTATAAAAGAGGA
Found at i:20768446 original size:31 final size:32
Alignment explanation
Indices: 20768387--20768451 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
20768377 GGCAAATTAC
20768387 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
20768419 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
20768450 AA
1 AA
20768452 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:20771633 original size:32 final size:32
Alignment explanation
Indices: 20771590--20771657 Score: 111
Period size: 32 Copynumber: 2.1 Consensus size: 32
20771580 GGTAGGCAAC
*
20771590 TTTTTTTTGCGCTTTTTGCTTTTTTTT-CTTT
1 TTTTTTTTGCGCTTTTTGCTTTTTTTTGCTGT
20771621 TTTTCTTTTGCGCTTTTTGCTTTTTTTTGCTGT
1 TTTT-TTTTGCGCTTTTTGCTTTTTTTTGCTGT
20771654 TTTT
1 TTTT
20771658 GCTATTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 4 0.12
32 23 0.68
33 7 0.21
ACGTcount: A:0.00, C:0.13, G:0.12, T:0.75
Consensus pattern (32 bp):
TTTTTTTTGCGCTTTTTGCTTTTTTTTGCTGT
Found at i:20771676 original size:19 final size:19
Alignment explanation
Indices: 20771589--20771668 Score: 68
Period size: 19 Copynumber: 4.5 Consensus size: 19
20771579 AGGTAGGCAA
20771589 CTTTTTTTTGC-GCTTTTTG
1 CTTTTTTTTGCTG-TTTTTG
20771608 CTTTTTTTT-C---TTTT-
1 CTTTTTTTTGCTGTTTTTG
*
20771622 -TTTCTTTTGC-GCTTTTTG
1 CTTTTTTTTGCTG-TTTTTG
20771640 CTTTTTTTTGCTGTTTTTG
1 CTTTTTTTTGCTGTTTTTG
20771659 CTATTTTTTT
1 CT-TTTTTTT
20771669 TCTTTTTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
13 7 0.14
14 1 0.02
15 4 0.08
17 4 0.08
18 1 0.02
19 26 0.51
20 8 0.16
ACGTcount: A:0.01, C:0.14, G:0.11, T:0.74
Consensus pattern (19 bp):
CTTTTTTTTGCTGTTTTTG
Found at i:20771685 original size:12 final size:12
Alignment explanation
Indices: 20771653--20771686 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
20771643 TTTTTTGCTG
*
20771653 TTTTTGCTATTT
1 TTTTTGCTTTTT
20771665 TTTTT-CTTTTT
1 TTTTTGCTTTTT
20771676 TTTTTGCTTTT
1 TTTTTGCTTTT
20771687 ATTTAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.03, C:0.09, G:0.06, T:0.82
Consensus pattern (12 bp):
TTTTTGCTTTTT
Found at i:20771686 original size:9 final size:9
Alignment explanation
Indices: 20771591--20771677 Score: 56
Period size: 9 Copynumber: 9.8 Consensus size: 9
20771581 GTAGGCAACT
20771591 TTTTTTTGC
1 TTTTTTTGC
**
20771600 GCTTTTTGC
1 TTTTTTTGC
*
20771609 TTTTTTTTC
1 TTTTTTTGC
20771618 TTTTTTT-C
1 TTTTTTTGC
20771626 ---TTTTGC
1 TTTTTTTGC
**
20771632 GCTTTTTGC
1 TTTTTTTGC
20771641 TTTTTTTTGC
1 -TTTTTTTGC
*
20771651 TGTTTTTGC
1 TTTTTTTGC
*
20771660 TATTTTTTTTC
1 --TTTTTTTGC
20771671 TTTTTTT
1 TTTTTTT
20771678 TTTGCTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
5 4 0.07
6 1 0.02
8 1 0.02
9 41 0.67
10 7 0.11
11 7 0.11
ACGTcount: A:0.01, C:0.13, G:0.10, T:0.76
Consensus pattern (9 bp):
TTTTTTTGC
Found at i:20771686 original size:10 final size:10
Alignment explanation
Indices: 20771634--20771678 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
20771624 TCTTTTGCGC
20771634 TTTTTGCTTT
1 TTTTTGCTTT
*
20771644 TTTTTGC-TG
1 TTTTTGCTTT
20771653 TTTTTGCTATT
1 TTTTTGCT-TT
*
20771664 TTTTTTCTTT
1 TTTTTGCTTT
20771674 TTTTT
1 TTTTT
20771679 TTGCTTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 8 0.27
10 14 0.47
11 8 0.27
ACGTcount: A:0.02, C:0.09, G:0.09, T:0.80
Consensus pattern (10 bp):
TTTTTGCTTT
Found at i:20772288 original size:31 final size:32
Alignment explanation
Indices: 20772229--20772293 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
20772219 GGCAAATTAC
20772229 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
20772261 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
20772292 AA
1 AA
20772294 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:20773344 original size:19 final size:20
Alignment explanation
Indices: 20773307--20773362 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
20773297 TATTAAATTA
20773307 AATTTAATATTAAGATAATC
1 AATTTAATATTAAGATAATC
*
20773327 AATTTAATA-TAAGTTAAT-
1 AATTTAATATTAAGATAATC
** *
20773345 AAAATACTATTAAGATAA
1 AATTTAATATTAAGATAA
20773363 GTATAAAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 6 0.20
19 15 0.50
20 9 0.30
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.38
Consensus pattern (20 bp):
AATTTAATATTAAGATAATC
Found at i:20778942 original size:23 final size:22
Alignment explanation
Indices: 20778899--20778942 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
20778889 TTCTAAGTTG
20778899 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
20778922 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
20778943 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:20779144 original size:51 final size:49
Alignment explanation
Indices: 20779086--20779272 Score: 187
Period size: 51 Copynumber: 3.7 Consensus size: 49
20779076 TCGGTTCACA
** *
20779086 TAGTAGCCTGCACATAGTACTACACGTGTGACCATTACCATCCGATACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCG-TACACG
* * * * * * *
20779137 TAGTAGCCTGCACATAGTATTACACACGTGATCGAAACTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC-CGTACACG
* * *
20779188 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCTGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCC-GTACACG
*
20779238 TAGTAGCCTGCACATAGTATTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
20779273 CACTTTCACT
Statistics
Matches: 108, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
49 2 0.02
50 38 0.35
51 65 0.60
52 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGTACACG
Found at i:20779263 original size:101 final size:101
Alignment explanation
Indices: 20779084--20779268 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 101
20779074 ATTCGGTTCA
* * *
20779084 CATAGTAGCCTGCACATAGTACTACACGTGTGACCATTACCATCCGATACATGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
20779149 CATAGTATTACACACGTGATCGAAACTATCTGGTACG
65 CATAGTATTACACACGTGATCGAAACTATCTGGTACG
*
20779186 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCTG-TACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCC-GATACACGTAGTAGCCTGC
20779249 ACATAGTATTACACACGTGA
64 ACATAGTATTACACACGTGA
20779269 CCATCACTTT
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
100 4 0.05
101 39 0.51
102 34 0.44
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTATTACACACGTGATCGAAACTATCTGGTACG
Found at i:20792714 original size:27 final size:26
Alignment explanation
Indices: 20792653--20792714 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
20792643 AAGTACCATA
20792653 AAATTAAA-TATATTTGACTTTTTTC
1 AAATTAAATTATATTTGACTTTTTTC
**
20792678 ATAAACAAATTATATTTGACTTTAATTT-
1 A-AATTAAATTATATTTGACTTT--TTTC
20792706 AAATTAAAT
1 AAATTAAAT
20792715 ATTTTAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
25 1 0.03
26 5 0.17
27 19 0.66
28 1 0.03
29 3 0.10
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (26 bp):
AAATTAAATTATATTTGACTTTTTTC
Found at i:20797729 original size:95 final size:93
Alignment explanation
Indices: 20797564--20797759 Score: 211
Period size: 95 Copynumber: 2.1 Consensus size: 93
20797554 TAATACATAC
* * * * ** *
20797564 ATAATAATATATAAAAAGGTTGAAACAAGCGAAATATATAAAGTAGGGTTTTTAAAAGAAAATAA
1 ATAATAATATATAAAAAGGTTGAAACAAACAAAATAAATAAAATAGGGTTCCTAAAAAAAAATAA
*
20797629 TTATATATATATAGGAATAAGTAAATAT-AT
66 TTATATATATATA-G-ATAAATAAA-ATGAT
*
20797659 ATAATAATATATACAAAA-GTTGAAATAAACAAAATAAATTAAAATAGGG-TCCTAAAAAATAAA
1 ATAATAATATATA-AAAAGGTTGAAACAAACAAAATAAA-TAAAATAGGGTTCCTAAAAAA-AAA
* *
20797722 TTA-TATATATGTATAGATAAATAAAATGAT
63 TAATTATATATATATAGATAAATAAAATGAT
20797752 ATAATAAT
1 ATAATAAT
20797760 GTATTATATA
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
92 2 0.02
93 18 0.21
94 1 0.01
95 47 0.55
96 18 0.21
ACGTcount: A:0.56, C:0.03, G:0.11, T:0.30
Consensus pattern (93 bp):
ATAATAATATATAAAAAGGTTGAAACAAACAAAATAAATAAAATAGGGTTCCTAAAAAAAAATAA
TTATATATATATAGATAAATAAAATGAT
Found at i:20798002 original size:17 final size:16
Alignment explanation
Indices: 20797964--20798006 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
20797954 AATAACGGTG
20797964 ATAATAATAATAAAAA
1 ATAATAATAATAAAAA
**
20797980 ATTAATAATAATAGATTA
1 A-TAATAATAATA-AAAA
20797998 ATAATAATA
1 ATAATAATA
20798007 TTACTGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.04
17 19 0.83
18 3 0.13
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
ATAATAATAATAAAAA
Found at i:20798005 original size:14 final size:14
Alignment explanation
Indices: 20797968--20798006 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
20797958 ACGGTGATAA
*
20797968 TAATAATAAAAAAT
1 TAATAATAATAAAT
*
20797982 TAATAATAATAGAT
1 TAATAATAATAAAT
20797996 TAATAATAATA
1 TAATAATAATA
20798007 TTACTGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
TAATAATAATAAAT
Found at i:20799800 original size:9 final size:9
Alignment explanation
Indices: 20799786--20799814 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
20799776 GGAGATGAAA
20799786 TTAATTAAT
1 TTAATTAAT
20799795 TTAATTAAT
1 TTAATTAAT
20799804 TTAATTAAT
1 TTAATTAAT
20799813 TT
1 TT
20799815 CAATGTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTAATTAAT
Found at i:20801318 original size:15 final size:15
Alignment explanation
Indices: 20801295--20801332 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
20801285 CAAAAGTAAA
* *
20801295 AAATCAAATTATGTT
1 AAATTAAATTATATT
20801310 AAATTAAATTATATT
1 AAATTAAATTATATT
20801325 -AATTAAAT
1 AAATTAAAT
20801333 CACTAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (15 bp):
AAATTAAATTATATT
Found at i:20803574 original size:24 final size:23
Alignment explanation
Indices: 20803542--20803587 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
20803532 TGCTTCGATT
*
20803542 TTTATTTTTAATGCATATATTTTC
1 TTTATTTTTAATCCATAT-TTTTC
20803566 TTTATTTTTAATCCATATTTTT
1 TTTATTTTTAATCCATATTTTT
20803588 AATAATAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTATTTTTAATCCATATTTTTC
Found at i:20803658 original size:13 final size:13
Alignment explanation
Indices: 20803632--20803669 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
20803622 TAAATATGTA
20803632 ATATTTTGATATAT
1 ATATTTT-ATATAT
20803646 ATATTTTATATAT
1 ATATTTTATATAT
20803659 A-ATTTT-TATAT
1 ATATTTTATATAT
20803670 GTTAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 5 0.21
12 5 0.21
13 7 0.29
14 7 0.29
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (13 bp):
ATATTTTATATAT
Found at i:20804060 original size:19 final size:19
Alignment explanation
Indices: 20804036--20804087 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
20804026 TAGTATGGTA
20804036 AATTATATTTAATAAAAAT
1 AATTATATTTAATAAAAAT
* *
20804055 AATTATATTTGA-AACAAT
1 AATTATATTTAATAAAAAT
* *
20804073 TATTTTATTTAATAA
1 AATTATATTTAATAA
20804088 TAGTAGAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (19 bp):
AATTATATTTAATAAAAAT
Found at i:20809671 original size:21 final size:21
Alignment explanation
Indices: 20809647--20809696 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
20809637 TATAGTAGAT
*
20809647 TTTTATTTATTTATTTA-TTTA
1 TTTTATTTA-ATATTTATTTTA
*
20809668 TTTT-TCTTAATGTTTATTTTA
1 TTTTAT-TTAATATTTATTTTA
20809689 TTTTATTT
1 TTTTATTT
20809697 TTGGTTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
20 6 0.25
21 17 0.71
22 1 0.04
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTATTTAATATTTATTTTA
Found at i:20818387 original size:15 final size:15
Alignment explanation
Indices: 20818367--20818396 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
20818357 CTTTGTGTTC
20818367 CCTTTTAAAAGTATA
1 CCTTTTAAAAGTATA
20818382 CCTTTTAAAAGTATA
1 CCTTTTAAAAGTATA
20818397 GTAAAAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (15 bp):
CCTTTTAAAAGTATA
Found at i:20823897 original size:20 final size:21
Alignment explanation
Indices: 20823849--20823898 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
20823839 TCAATGACCC
*
20823849 TCAAAATTTTAATTAAACTTT
1 TCAAAATTTTAATTAAACTTA
20823870 TCAAAATTTTAATTAAA-TTCA
1 TCAAAATTTTAATTAAACTT-A
20823891 T-AAAATTT
1 TCAAAATTT
20823899 AATGCACCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (21 bp):
TCAAAATTTTAATTAAACTTA
Found at i:20824393 original size:16 final size:16
Alignment explanation
Indices: 20824369--20824402 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
20824359 CATTTAAAGG
*
20824369 AAAATGAATATTGTAA
1 AAAAGGAATATTGTAA
20824385 AAAAGGAATATTGTAA
1 AAAAGGAATATTGTAA
20824401 AA
1 AA
20824403 GTTTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (16 bp):
AAAAGGAATATTGTAA
Found at i:20824656 original size:31 final size:31
Alignment explanation
Indices: 20824621--20824680 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
20824611 TTTATAAGGG
20824621 TTTTGAAAATATTAATTAAATTATTTAAAAT
1 TTTTGAAAATATTAATTAAATTATTTAAAAT
* * * *
20824652 TTTTGAAAATTTTCATTAATTTCTTTAAA
1 TTTTGAAAATATTAATTAAATTATTTAAA
20824681 TTTAAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (31 bp):
TTTTGAAAATATTAATTAAATTATTTAAAAT
Found at i:20824768 original size:885 final size:883
Alignment explanation
Indices: 20823720--20825432 Score: 3029
Period size: 885 Copynumber: 1.9 Consensus size: 883
20823710 AAAAAATTTA
* *
20823720 ATTAAGTTTTATAAGGGTTTTAAAAATATTAATTAAATTCTTTAAAATTTTGAAAATTTTCGTTA
1 ATTAAGTTTTATAAGGGTTTTAAAAATATTAATTAAATTATTTAAAATTTTGAAAATTTTCATTA
*
20823785 ATTTCTTTAAATTAAAAAAAAATAATTGTATCCCTATTTTTTTTTTGAAAATTCTCAATGACCCT
66 ATTTCTTTAAATTAAAAAAAAATAATTGTATCCCTATTTTTTTTTTGAAAATTCTCAATAACCCT
*
20823850 CAAAATTTTAATTAAACTTTTCAAAATTTTAATTAAATTCATAAAATTTAATGCACCATCCCACC
131 CAAAATTTTAATTAAACTTTTCAAAAATTTAATTAAATTCATAAAATTTAATGCACCATCCCACC
*
20823915 CCTAACTCCATAGGCCACAAATATAAATAATTCAAATTAAAAAAACAAACTACATAAATGTACTT
196 CCTAACTCCATAGGCCACAAATATAAATAATTCAAATTAAAAAAACAAACTACATAAATGCACTT
*
20823980 AGACCTGTTCATGGATCGGGTCATCCAATTCGG-CTTGAAAGCCCGCTTGAAAAATAGAAAGGTT
261 AGACCTGTTCATGGATCGAGTCATCCAATTCGGTC-TGAAAGCCCGCTTGAAAAATAGAAAGGTT
*
20824044 GGAGTAAAAATATAGACTCGAAAAATTGGCTTGAGAAAAAAATAAGACCCATTTATCCGGTCCGG
325 GGAGTAAAAATATAGACCCGAAAAATTGGCTTGAGAAAAAAATAAGACCCATTTATCCGGTCCGG
* * ** *
20824109 GCTTGGGCAAAATTTTAGGCTCATTTTTTGGGTTGGGTCAGGCCCATCAAACGGGCCTAAAATTT
390 GCTTGGGAAAAATTTTAGGCCCATTTTTTGGGCCGAGTCAGGCCCATCAAACGGGCCTAAAATTT
* *
20824174 TAGTTGGGTCCGACCCATGAACACCTCTAAACACACTTATATATAAATAAATATATAGAGTTAAA
455 TAGTTGGATCCGAACCATGAACACCTCTAAACACACTTATATATAAATAAATATATAGAGTTAAA
20824239 ATCACCATACACCTCTAAATTATAGTCTTCATTCTCAATTGGTCCAT-AAATTTTAAAACATTTT
520 ATCACCATACACCTCTAAATTATAGTCTTCATTCTCAATTGGTCC-TCAAATTTTAAAACATTTT
* *
20824303 AATTACATCAATAAACCATCGATGTTATATGAATAAAGTTATTTTATTACTAAAACCATTTAAAG
584 AATTACATCAATAAACCATCGATGTTATATGAATAAAGTCATTTCATTACTAAAACCATTTAAAG
*
20824368 GAAAATGAATATTGTAAAAA-AGGAATATTGTAAAAGTTTTATTTTGAGTTTGTCAAAACTTACA
649 GAAAATGAATATTATAAAAATA-G-ATATTGTAAAAGTTTTATTTTGAGTTTGTCAAAACTTACA
*
20824432 CAACACCTTTATCGTTCACTCTCTATTTTTTCAGTTTTATTTTATTTTTAATTTTAACTATAACG
712 CAACACCTTTATCGTTAACTCTCTATTTTTTCAGTTTTATTTTATTTTTAATTTTAACTATAACG
*
20824497 TTTTATTTTTCTTTAGAATTTCCATTTTAAATCATGTCAAATAAGAATTCAAAAAAATTAAGTAA
777 TTTTATTTTTCTTTAAAATTTCCATTTTAAATCATGTCAAATAAGAATTCAAAAAAATTAAGTAA
20824562 TAAAATATTTCACAAAATTAAATCATTGTAACATATTAAATT
842 TAAAATATTTCACAAAATTAAATCATTGTAACATATTAAATT
*
20824604 ATTAAGTTTTATAAGGGTTTTGAAAATATTAATTAAATTATTTAAAATTTTTGAAAATTTTCATT
1 ATTAAGTTTTATAAGGGTTTTAAAAATATTAATTAAATTATTTAAAA-TTTTGAAAATTTTCATT
*
20824669 AATTTCTTTAAATTTAAAAAAAATTAATTGTATCCCTA-TTTTTTTTTGAAAATTCTCAATAACC
65 AATTTCTTTAAA-TTAAAAAAAAATAATTGTATCCCTATTTTTTTTTTGAAAATTCTCAATAACC
* *
20824733 CTCAAAATTTTAATTAAACTTTTCAAAAATTTAATTAAATTCGTAAAATTTAATGCACCATTCCA
129 CTCAAAATTTTAATTAAACTTTTCAAAAATTTAATTAAATTCATAAAATTTAATGCACCATCCCA
* *
20824798 CCCCTAACTCTATAGGCCACAAATATAAATAATTCAAATTAAAAAAACAAACTACATAAATGCAT
194 CCCCTAACTCCATAGGCCACAAATATAAATAATTCAAATTAAAAAAACAAACTACATAAATGCAC
* *
20824863 TTAGACCTGTTCATGGATCGAGTCATCCAGTTCGGTCTGAAAGCCCGCTTGAAAAGTAGAAAGGT
259 TTAGACCTGTTCATGGATCGAGTCATCCAATTCGGTCTGAAAGCCCGCTTGAAAAATAGAAAGGT
20824928 TGGAGTAAAAATATAGACCCGAAAAATTGGCTTGAGAAAAAAATAAGACCCATTTATCCGGTCCG
324 TGGAGTAAAAATATAGACCCGAAAAATTGGCTTGAGAAAAAAATAAGACCCATTTATCCGGTCCG
*
20824993 GGCTTGGGAAAAATTTTAGGCCCATTTTTTGGGCCGAGTCGGGCCCATCAAACGGGCCTAAAATT
389 GGCTTGGGAAAAATTTTAGGCCCATTTTTTGGGCCGAGTCAGGCCCATCAAACGGGCCTAAAATT
20825058 TTAGTTGGATCCGAACCATGAACACCTCTAAACACACTTATATATAAATAAATATATAGAGTTAA
454 TTAGTTGGATCCGAACCATGAACACCTCTAAACACACTTATATATAAATAAATATATAGAGTTAA
20825123 AATCACCATACACCTCTAAATTATAGTCTTCATTCTCAATTGGTCCTCAAATTTTAAAACATTTT
519 AATCACCATACACCTCTAAATTATAGTCTTCATTCTCAATTGGTCCTCAAATTTTAAAACATTTT
20825188 AATTACATCAATAAACCATCGATGTTATATGAATAAAGTCATTTCATTACTAAAACCATTTAAAG
584 AATTACATCAATAAACCATCGATGTTATATGAATAAAGTCATTTCATTACTAAAACCATTTAAAG
* * *
20825253 GAAAATGAATATTATAAAAATAGATGTTGTAAAAGTTTTATTTTGAGTTTTTCAAAACTTACGCA
649 GAAAATGAATATTATAAAAATAGATATTGTAAAAGTTTTATTTTGAGTTTGTCAAAACTTACACA
* *
20825318 ATACCTTTATCGTTAACTCTCTATTTTTTCAGTTTTATTTTATTTTTAATTTTAACTGTAACGTT
714 ACACCTTTATCGTTAACTCTCTATTTTTTCAGTTTTATTTTATTTTTAATTTTAACTATAACGTT
* *
20825383 TTATTTTTCTTTAAAATTTCTATTTTAAATTATGTCAAATAAGAATTCAA
779 TTATTTTTCTTTAAAATTTCCATTTTAAATCATGTCAAATAAGAATTCAA
20825433 CAATTAAATT
Statistics
Matches: 789, Mismatches: 35, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
884 194 0.25
885 569 0.72
886 26 0.03
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (883 bp):
ATTAAGTTTTATAAGGGTTTTAAAAATATTAATTAAATTATTTAAAATTTTGAAAATTTTCATTA
ATTTCTTTAAATTAAAAAAAAATAATTGTATCCCTATTTTTTTTTTGAAAATTCTCAATAACCCT
CAAAATTTTAATTAAACTTTTCAAAAATTTAATTAAATTCATAAAATTTAATGCACCATCCCACC
CCTAACTCCATAGGCCACAAATATAAATAATTCAAATTAAAAAAACAAACTACATAAATGCACTT
AGACCTGTTCATGGATCGAGTCATCCAATTCGGTCTGAAAGCCCGCTTGAAAAATAGAAAGGTTG
GAGTAAAAATATAGACCCGAAAAATTGGCTTGAGAAAAAAATAAGACCCATTTATCCGGTCCGGG
CTTGGGAAAAATTTTAGGCCCATTTTTTGGGCCGAGTCAGGCCCATCAAACGGGCCTAAAATTTT
AGTTGGATCCGAACCATGAACACCTCTAAACACACTTATATATAAATAAATATATAGAGTTAAAA
TCACCATACACCTCTAAATTATAGTCTTCATTCTCAATTGGTCCTCAAATTTTAAAACATTTTAA
TTACATCAATAAACCATCGATGTTATATGAATAAAGTCATTTCATTACTAAAACCATTTAAAGGA
AAATGAATATTATAAAAATAGATATTGTAAAAGTTTTATTTTGAGTTTGTCAAAACTTACACAAC
ACCTTTATCGTTAACTCTCTATTTTTTCAGTTTTATTTTATTTTTAATTTTAACTATAACGTTTT
ATTTTTCTTTAAAATTTCCATTTTAAATCATGTCAAATAAGAATTCAAAAAAATTAAGTAATAAA
ATATTTCACAAAATTAAATCATTGTAACATATTAAATT
Found at i:20828044 original size:17 final size:17
Alignment explanation
Indices: 20828022--20828058 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
20828012 ATCCCAACAA
20828022 AATCAATTAATGACTCT
1 AATCAATTAATGACTCT
20828039 AATCAATTAATGACTCT
1 AATCAATTAATGACTCT
20828056 AAT
1 AAT
20828059 TAACCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.35
Consensus pattern (17 bp):
AATCAATTAATGACTCT
Found at i:20834850 original size:41 final size:41
Alignment explanation
Indices: 20834805--20834924 Score: 186
Period size: 41 Copynumber: 2.9 Consensus size: 41
20834795 ACTGACATTT
* *
20834805 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
20834846 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
* * * *
20834887 AGCCTACTAGACTTAAAGTCTAAAAGGTTTCACTGGCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCA
20834925 ATAAACCTGA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
Found at i:20835451 original size:2 final size:2
Alignment explanation
Indices: 20835444--20835468 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20835434 AATCTTAAGT
20835444 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
20835469 TATATACCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:20840515 original size:29 final size:30
Alignment explanation
Indices: 20840456--20840516 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
20840446 GCTTTTTGAA
* * * *
20840456 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAACAGACAACCAAATTTT
20840486 AATATTTACAAAAACA-ACAACCAAATTTT
1 AATATTTACAAAAACAGACAACCAAATTTT
20840515 AA
1 AA
20840517 AAATAATTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAACAGACAACCAAATTTT
Found at i:20850824 original size:22 final size:22
Alignment explanation
Indices: 20850773--20850824 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
20850763 TTAGATACTA
* *
20850773 AATTGAAGAAATTGAAATTTCT
1 AATTGAATAAACTGAAATTTCT
20850795 AATTGAATAAACTGAAAATTT-T
1 AATTGAATAAACTG-AAATTTCT
20850817 AATTGAAT
1 AATTGAAT
20850825 GTAATTTGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.37
Consensus pattern (22 bp):
AATTGAATAAACTGAAATTTCT
Found at i:20853880 original size:17 final size:17
Alignment explanation
Indices: 20853858--20853899 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
20853848 CAAATATGGA
*
20853858 ATGTGATTTTCAAAGAT
1 ATGTGATCTTCAAAGAT
20853875 ATGTGATCTTCAAAGAT
1 ATGTGATCTTCAAAGAT
20853892 ATGTGATC
1 ATGTGATC
20853900 CTAGACATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (17 bp):
ATGTGATCTTCAAAGAT
Found at i:20854634 original size:39 final size:39
Alignment explanation
Indices: 20854578--20854654 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
20854568 ATGTTGAAAA
20854578 GATGACTGGTGGAGATGATGCCATTGAGGCTATGATGAC
1 GATGACTGGTGGAGATGATGCCATTGAGGCTATGATGAC
*
20854617 GATGATTGGTAGG-GATGATGCCATTGAGGCTATGATGA
1 GATGACTGGT-GGAGATGATGCCATTGAGGCTATGATGA
20854655 AGGCCTTGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 34 0.94
40 2 0.06
ACGTcount: A:0.26, C:0.10, G:0.36, T:0.27
Consensus pattern (39 bp):
GATGACTGGTGGAGATGATGCCATTGAGGCTATGATGAC
Found at i:20859867 original size:51 final size:50
Alignment explanation
Indices: 20859710--20859904 Score: 203
Period size: 51 Copynumber: 3.8 Consensus size: 50
20859700 ATGATCAATG
* * *
20859710 CTATCTGGTACACATAGTAGCCTACACTTTGTACTACACATGTGACCAATA
1 CTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAA-A
* * * * * *
20859761 CCATCCGGTACACGTAGTAGGCTGCACATAGTACTACACACGTGCCCAAA
1 CTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAA
*
20859811 GCTATCCGGTACAAATAGTAGCCTGCACTTAGTACTACACATGTGACCATAA
1 -CTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCA-AA
*** * * *
20859863 CTATCTTATACTCAT-GCTAGCCTACACATAGTACTACACATG
1 CTATCCGGTACACATAG-TAGCCTGCACTTAGTACTACACATG
20859905 AGTTCTCATG
Statistics
Matches: 118, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 2 0.02
51 114 0.97
52 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (50 bp):
CTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAA
Found at i:20859891 original size:102 final size:102
Alignment explanation
Indices: 20859709--20859902 Score: 248
Period size: 102 Copynumber: 1.9 Consensus size: 102
20859699 TATGATCAAT
* * * *
20859709 GCTATCTGGTACACATAGTAGCCTACACTTTGTACTACACATGTGACCAATACCATCCGGTACAC
1 GCTATCCGGTACAAATAGTAGCCTACACTTAGTACTACACATGTGACCAATACCATCCGATACAC
* * *
20859774 GTAGTAGGCTGCACATAGTACTACACACGTGCCCAAA
66 ATAGTAGCCTACACATAGTACTACACACGTGCCCAAA
* * ** *
20859811 GCTATCCGGTACAAATAGTAGCCTGCACTTAGTACTACACATGTGACC-ATAACTATCTTATACT
1 GCTATCCGGTACAAATAGTAGCCTACACTTAGTACTACACATGTGACCAAT-ACCATCCGATACA
20859875 CAT-GCTAGCCTACACATAGTACTACACA
65 CATAG-TAGCCTACACATAGTACTACACA
20859903 TGAGTTCTCA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
101 3 0.04
102 75 0.96
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.25
Consensus pattern (102 bp):
GCTATCCGGTACAAATAGTAGCCTACACTTAGTACTACACATGTGACCAATACCATCCGATACAC
ATAGTAGCCTACACATAGTACTACACACGTGCCCAAA
Found at i:20863798 original size:14 final size:14
Alignment explanation
Indices: 20863770--20863801 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
20863760 TTTTTACTGC
20863770 TTTGTTGCTACTAT
1 TTTGTTGCTACTAT
*
20863784 TTTGTTGCTATTAT
1 TTTGTTGCTACTAT
20863798 TTTG
1 TTTG
20863802 GATATTGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.12, C:0.09, G:0.16, T:0.62
Consensus pattern (14 bp):
TTTGTTGCTACTAT
Found at i:20865181 original size:27 final size:26
Alignment explanation
Indices: 20865129--20865203 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
20865119 ACATAAAGCC
*
20865129 ATAACAGTCATTTCATCTCCTA-GGGGT
1 ATAACAGTCATTTTA-C-CCTATGGGGT
20865156 ATAACAGTCATTTTACCCTATGGGGGT
1 ATAACAGTCATTTTACCCTAT-GGGGT
* **
20865183 ATTATGGTCATTTTACCCTAT
1 ATAACAGTCATTTTACCCTAT
20865204 AGGGATCTCG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.10
26 1 0.02
27 37 0.88
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (26 bp):
ATAACAGTCATTTTACCCTATGGGGT
Found at i:20865918 original size:24 final size:25
Alignment explanation
Indices: 20865874--20865920 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
20865864 CCCAAATCTC
*
20865874 AATATTCTCTCCTCAAATCTCTCCA
1 AATATCCTCTCCTCAAATCTCTCCA
*
20865899 AATATCCT-TCCTCAATTCTCTC
1 AATATCCTCTCCTCAAATCTCTC
20865921 TATGACAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.26, C:0.36, G:0.00, T:0.38
Consensus pattern (25 bp):
AATATCCTCTCCTCAAATCTCTCCA
Found at i:20883891 original size:19 final size:20
Alignment explanation
Indices: 20883867--20883909 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
20883857 CTAATGTACA
*
20883867 ATTTTATACA-GAAACTTTG
1 ATTTTATACATGAAAATTTG
*
20883886 ATTTTATGCATGAAAATTTG
1 ATTTTATACATGAAAATTTG
20883906 ATTT
1 ATTT
20883910 GATTCAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.47
Consensus pattern (20 bp):
ATTTTATACATGAAAATTTG
Found at i:20887507 original size:25 final size:25
Alignment explanation
Indices: 20887452--20887499 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
20887442 TTGCAAGATA
*
20887452 TATATGTTAAAAGAATTGCAAGCCT
1 TATATGTTAAAAGAATTACAAGCCT
* *
20887477 TATATGTTATAAGCATTACAAGC
1 TATATGTTAAAAGAATTACAAGC
20887500 TTTTTATGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (25 bp):
TATATGTTAAAAGAATTACAAGCCT
Found at i:20889191 original size:27 final size:27
Alignment explanation
Indices: 20889159--20889226 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
20889149 TGAGCTATGC
*
20889159 TCGCAAATATGTTTTGGCGAA-TAGTGT
1 TCGCAAATATGTTTTGGCGAACCA-TGT
* * *
20889186 TTGCAAATGTGTTATGGCGAACCATGT
1 TCGCAAATATGTTTTGGCGAACCATGT
20889213 TCGCAAATATGTTT
1 TCGCAAATATGTTT
20889227 GTTAAAATGT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (27 bp):
TCGCAAATATGTTTTGGCGAACCATGT
Found at i:20901855 original size:19 final size:19
Alignment explanation
Indices: 20901831--20901941 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
20901821 AATTTTCAGG
20901831 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
20901850 GATATGCAATCTTACATAT
1 GATATGCAATCTTAGATAT
* **
20901869 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20901888 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
20901907 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20901926 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
20901942 AGATATGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:20901940 original size:38 final size:38
Alignment explanation
Indices: 20901838--20901941 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
20901828 AGGGATATGC
*
20901838 AATCTTAGATATGATATGCAATCTTACATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
20901876 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
20901914 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
20901942 AGATATGATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:20901967 original size:22 final size:21
Alignment explanation
Indices: 20901831--20901967 Score: 105
Period size: 19 Copynumber: 6.9 Consensus size: 21
20901821 AATTTTCAGG
*
20901831 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
20901850 GATATGCAATCTT--ACATAT
1 GATATGTAATCTTAGAGATAT
* *
20901869 AATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
20901888 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
20901907 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
20901926 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
20901948 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
20901968 TTAATTTGTA
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
19 77 0.77
22 12 0.12
23 11 0.11
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:20902626 original size:9 final size:9
Alignment explanation
Indices: 20902614--20902656 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
20902604 TATACACATG
20902614 TTTAATTTA
1 TTTAATTTA
20902623 TTTAATTTA
1 TTTAATTTA
20902632 TTTTAATATTA
1 -TTTAAT-TTA
20902643 TATTAA-TTA
1 T-TTAATTTA
20902652 TTTAA
1 TTTAA
20902657 AACTTATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 4 0.13
9 13 0.42
10 7 0.23
11 7 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTAATTTA
Found at i:20904842 original size:24 final size:24
Alignment explanation
Indices: 20904815--20904860 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
20904805 AGAACAATCC
*
20904815 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGGAAATGAAGGAGCAGCTT
* *
20904839 CAAAAGTAAATGAATGAGCAGC
1 CAAAAGGAAATGAAGGAGCAGC
20904861 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.26, T:0.13
Consensus pattern (24 bp):
CAAAAGGAAATGAAGGAGCAGCTT
Found at i:20909017 original size:132 final size:132
Alignment explanation
Indices: 20908780--20909278 Score: 768
Period size: 132 Copynumber: 3.8 Consensus size: 132
20908770 TTGACAGCGA
* * *
20908780 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCAGTAAT
* *
20908845 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
20908910 GG
131 GG
* * *
20908912 AGCAGATCGGAGATGGCGGATTTTACCTCCCTGGGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCAGTAAT
*
20908977 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAAATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
20909042 GG
131 GG
* * *
20909044 AGCAGATCGAAGTTGGCAGATTTTACCTCCCTGTGGTTATAGTAGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCAGTAAT
* * *
20909109 TCTACTTCCTTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCACTAGT
66 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
20909174 GG
131 GG
** *
20909176 AGTGGATCGAAGATGGCGGATTTTACCTCCATGTGGTTACAGTAGAGTACATTGAAGCCAGTAA-
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCAGTAAT
** * *
20909240 TCATA-TCTCCCTATTCAGCAGTGGAATAGGTTGAAGATT
66 TC-TACT-TCCCTAGACAACAGTGGAATAGATTGAAGATT
20909279 GTAAGTCCTA
Statistics
Matches: 336, Mismatches: 29, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
131 3 0.01
132 333 0.99
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:20909695 original size:19 final size:19
Alignment explanation
Indices: 20909605--20909696 Score: 103
Period size: 19 Copynumber: 4.8 Consensus size: 19
20909595 AATCTTCAGG
*
20909605 GATATGCAATCTTACATAT
1 GATATGCAATCTTAGATAT
* ** *
20909624 AATATATAATCTTAGATAA
1 GATATGCAATCTTAGATAT
*
20909643 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
**
20909662 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
20909681 GATATGCAATATTAGA
1 GATATGCAATCTTAGA
20909697 AGATATGATT
Statistics
Matches: 57, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 57 1.00
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:20909696 original size:38 final size:38
Alignment explanation
Indices: 20909605--20909696 Score: 139
Period size: 38 Copynumber: 2.4 Consensus size: 38
20909595 AATCTTCAGG
*
20909605 GATATGCAATCTTACATATAATATATAATCTTAGATAA
1 GATATGCAATCTTAGATATAATATATAATCTTAGATAA
* * *
20909643 GATATGCAATCTTAGATGTGATATATAATCTTAGATAT
1 GATATGCAATCTTAGATATAATATATAATCTTAGATAA
*
20909681 GATATGCAATATTAGA
1 GATATGCAATCTTAGA
20909697 AGATATGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATAATATATAATCTTAGATAA
Found at i:20909722 original size:22 final size:21
Alignment explanation
Indices: 20909620--20909722 Score: 65
Period size: 19 Copynumber: 5.1 Consensus size: 21
20909610 GCAATCTTAC
* *
20909620 ATATAATATATAATCTT--AG
1 ATATGATATGTAATCTTAGAG
* *
20909639 ATAAGATATGCAATCTT--AG
1 ATATGATATGTAATCTTAGAG
* *
20909658 ATGTGATATATAATCTT--AG
1 ATATGATATGTAATCTTAGAG
* *
20909677 ATATGATATGCAATATTAGAAG
1 ATATGATATGTAATCTTAG-AG
*
20909699 ATATGATTTTGTAATCTTAGAG
1 ATATGA-TATGTAATCTTAGAG
20909721 AT
1 AT
20909723 TTAATTTGTA
Statistics
Matches: 65, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
19 43 0.66
22 12 0.18
23 10 0.15
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.39
Consensus pattern (21 bp):
ATATGATATGTAATCTTAGAG
Found at i:20917367 original size:42 final size:41
Alignment explanation
Indices: 20917275--20917371 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 41
20917265 GCTCCCTATC
* *
20917275 TGAGCATAAGTGACAAGCTGTGTATAAGCAAAGCTCCCCACG
1 TGAGCTTAAGTGACAAGCTATGTATAAGCAAAGCT-CCCACG
* * * *
20917317 TGATCTTAAGTGACAAGTTATGTATCAGCAAAGCT-CCTCG
1 TGAGCTTAAGTGACAAGCTATGTATAAGCAAAGCTCCCACG
20917357 TGCAAGCTTAAGTGA
1 TG--AGCTTAAGTGA
20917372 TTGTGCTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
40 6 0.13
42 40 0.87
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (41 bp):
TGAGCTTAAGTGACAAGCTATGTATAAGCAAAGCTCCCACG
Found at i:20919386 original size:39 final size:39
Alignment explanation
Indices: 20919319--20919396 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 39
20919309 CATCAACATT
*
20919319 TAATATTTAAAAAAAATTAAATTTTTTTATAATTTTTAAA
1 TAATATTTAAAAAAAATTAAATTCTTTTA-AATTTTTAAA
* *
20919359 TAAT-TTTAATAAAAATTATAA-TCTTTTAATTTTTTAAA
1 TAATATTTAAAAAAAATTA-AATTCTTTTAAATTTTTAAA
20919397 CTTAATACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 9 0.26
39 19 0.56
40 6 0.18
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (39 bp):
TAATATTTAAAAAAAATTAAATTCTTTTAAATTTTTAAA
Found at i:20921560 original size:4 final size:4
Alignment explanation
Indices: 20921551--20921591 Score: 55
Period size: 4 Copynumber: 10.0 Consensus size: 4
20921541 CAGGAACACT
**
20921551 TAAA TAAA TAAA TAAA TAAA TAAA TACTC TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TA-AA TAAA TAAA TAAA
20921592 CAACGAAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 30 0.94
5 2 0.06
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:20922304 original size:3 final size:3
Alignment explanation
Indices: 20922298--20922373 Score: 152
Period size: 3 Copynumber: 25.3 Consensus size: 3
20922288 AGATGATGAT
20922298 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
20922346 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
20922374 AAGATACCAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:20923387 original size:13 final size:14
Alignment explanation
Indices: 20923359--20923392 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
20923349 ATGAGTTGCT
20923359 ATATAATATGATATA
1 ATATAATA-GATATA
20923374 ATATAATA-ATATA
1 ATATAATAGATATA
20923387 ATATAA
1 ATATAA
20923393 ATGGATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
15 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
ATATAATAGATATA
Found at i:20950465 original size:31 final size:35
Alignment explanation
Indices: 20950422--20950494 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
20950412 TATGCTATAA
*
20950422 AATAA-TATTATA-TTA-ATTATA-TATGTTAAAT
1 AATAATTATTATATTTATATTATATTATATTAAAT
20950453 AATAATTA-TATATTTATATTATATTTATATTAAAT
1 AATAATTATTATATTTATATTATA-TTATATTAAAT
20950488 AACTAAT
1 AA-TAAT
20950495 CCATTACCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
31 9 0.26
32 5 0.14
33 6 0.17
35 11 0.31
36 4 0.11
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (35 bp):
AATAATTATTATATTTATATTATATTATATTAAAT
Found at i:20952608 original size:20 final size:18
Alignment explanation
Indices: 20952569--20952606 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
20952559 TTGAGTTGCA
20952569 TGCAAGCCTATATACATG
1 TGCAAGCCTATATACATG
20952587 TGCAAGCCTATATACATG
1 TGCAAGCCTATATACATG
20952605 TG
1 TG
20952607 TGAGCTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (18 bp):
TGCAAGCCTATATACATG
Found at i:20958650 original size:24 final size:27
Alignment explanation
Indices: 20958618--20958669 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 27
20958608 TGATCTTATT
*
20958618 TTATCTCATGGAAA-TC-ATTAC-ATC
1 TTATCTCATGAAAAGTCAATTACTATC
*
20958642 TTATTTCATGAAAAGTCAATTACTATC
1 TTATCTCATGAAAAGTCAATTACTATC
20958669 T
1 T
20958670 CATAGTAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 12 0.52
25 2 0.09
26 5 0.22
27 4 0.17
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (27 bp):
TTATCTCATGAAAAGTCAATTACTATC
Found at i:20960083 original size:17 final size:17
Alignment explanation
Indices: 20960061--20960094 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20960051 AGAAAATTTT
*
20960061 GAAGAAATTTTTAAATA
1 GAAGAAATTTTAAAATA
20960078 GAAGAAATTTTAAAATA
1 GAAGAAATTTTAAAATA
20960095 CCAATTCACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (17 bp):
GAAGAAATTTTAAAATA
Found at i:20965182 original size:8 final size:8
Alignment explanation
Indices: 20965171--20965198 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
20965161 TAAATAGAAT
20965171 AATAATAA
1 AATAATAA
20965179 AATAATAA
1 AATAATAA
20965187 AATAATAA
1 AATAATAA
20965195 AATA
1 AATA
20965199 TCATTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
AATAATAA
Found at i:20967321 original size:50 final size:50
Alignment explanation
Indices: 20967205--20967739 Score: 644
Period size: 50 Copynumber: 10.6 Consensus size: 50
20967195 ATAATAACAA
* * * ** * * *
20967205 GCCAAAGCCATGTCCTAGACATAGTCTTACATGGGATGTTTCCTGTAC--T
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGT
* * ** *
20967254 GCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* * *
20967304 GCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTTGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
** * * * *
20967354 GCCAACACCATGTCCTAGACACGGTTTTACATGGGACCTCTCATCTAGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
** *
20967404 GCCAACACCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* *
20967454 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCACATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* * *
20967504 GCC-ATGCCATGTCCTAGATATGGTCTTACATGAGACCTCTCATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* * *
20967553 GCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCTCTTATCTCAGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* *
20967603 GCCAATGCCATGTCCCAAACATGGTGTTACATGGGACCTCTCATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* * *
20967653 GCGAATGCCATGTCCCAGACATGATCTTACATGGGACCTCTCATAATCTCAATGAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GGT
20967709 GCCAATGCCATGTCCCAGACATGGTCTTACA
1 GCCAATGCCATGTCCCAGACATGGTCTTACA
20967740 CTGGCTCACA
Statistics
Matches: 420, Mismatches: 57, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
48 1 0.00
49 80 0.19
50 303 0.72
53 5 0.01
56 31 0.07
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
Found at i:20967556 original size:199 final size:200
Alignment explanation
Indices: 20967253--20967739 Score: 654
Period size: 199 Copynumber: 2.4 Consensus size: 200
20967243 TTTCCTGTAC
* * ** *
20967253 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCACATATCGGTGCCCATGCCATGTC
* * * *
20967318 CCAGACATGGTCTTACAGGGGACCTCTCATCTTGGTGCCAACACCATGTCCTAGACACGGTTTTA
66 CCAGACATGGTCTTACAGGAGACCTCTCATCTCGGTGCCAACACCATGTCCCAGACACGGTCTTA
*
20967383 CATGGGACCTCTCATCT-AGGTGCCAACACCATGTCCCAAACATGGTCTTACATGGGACCTCTCA
131 CATAGGACCTCTCATCTCA-GTGCCAACACCATGTCCCAAACATGGTCTTACATGGGACCTCTCA
20967447 TCTCGG
195 TCTCGG
* *
20967453 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCACATCTCGGTG-CCATGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCACATATCGGTGCCCATGCCATGTC
* * * ** *
20967517 CTAGATATGGTCTTACATGAGACCTCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTA
66 CCAGACATGGTCTTACAGGAGACCTCTCATCTCGGTGCCAACACCATGTCCCAGACACGGTCTTA
* ** *
20967582 CATAGGACCTCTTATCTCAGTGCCAATGCCATGTCCCAAACATGGTGTTACATGGGACCTCTCAT
131 CATAGGACCTCTCATCTCAGTGCCAACACCATGTCCCAAACATGGTCTTACATGGGACCTCTCAT
20967647 CTCGG
196 CTCGG
* * * * *
20967652 TGCGAATGCCATGTCCCAGACATGATCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCACAT-A--TC---GGTGCCCATGC
20967717 CATGTCCCAGACATGGTCTTACA
60 CATGTCCCAGACATGGTCTTACA
20967740 CTGGCTCACA
Statistics
Matches: 248, Mismatches: 31, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
199 171 0.69
200 46 0.19
202 2 0.01
205 3 0.01
206 26 0.10
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (200 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCACATATCGGTGCCCATGCCATGTC
CCAGACATGGTCTTACAGGAGACCTCTCATCTCGGTGCCAACACCATGTCCCAGACACGGTCTTA
CATAGGACCTCTCATCTCAGTGCCAACACCATGTCCCAAACATGGTCTTACATGGGACCTCTCAT
CTCGG
Found at i:20967823 original size:42 final size:41
Alignment explanation
Indices: 20967751--20967832 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
20967741 TGGCTCACAT
* * *
20967751 ATCGACGTTGATGCCATGTCCCAAACATGGTCTTATATGAG
1 ATCGACGTCGATGCCATATCCCAAACATGGTCTTACATGAG
* * *
20967792 ATCGCACGTCGATGCCATATCTCAGATATGGTCTTACATGA
1 ATCG-ACGTCGATGCCATATCCCAAACATGGTCTTACATGA
20967833 AAATCACATA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 4 0.12
42 30 0.88
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (41 bp):
ATCGACGTCGATGCCATATCCCAAACATGGTCTTACATGAG
Found at i:20980613 original size:51 final size:51
Alignment explanation
Indices: 20980482--20980673 Score: 174
Period size: 51 Copynumber: 3.8 Consensus size: 51
20980472 GAAATTGAAT
* * * * * * *
20980482 GTGATGGTCACGTGTGTAGTCCTATGTGCATGCTACTACGTGTACC--AAA
1 GTGATGATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA
* * *
20980531 ATGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA
1 GTGAT-GATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA
* * * *** *
20980583 G-GTTCGATCACGTGTGTAGTACTATATGCAGGCTACTACATGTATCGGATA
1 GTGAT-GATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA
* *
20980634 GTGATGGTCACATGTGTAGTGCTATGTGCAGGCTACTATG
1 GTGATGATCACATGTGTAGTACTATGTGCAGGCTACTATG
20980674 TGAACCGGTA
Statistics
Matches: 113, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 4 0.04
50 35 0.31
51 70 0.62
52 4 0.04
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (51 bp):
GTGATGATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA
Found at i:20980671 original size:102 final size:101
Alignment explanation
Indices: 20980489--20980673 Score: 264
Period size: 102 Copynumber: 1.8 Consensus size: 101
20980479 AATGTGATGG
* * * * *
20980489 TCACGTGTGTAGTCCTATGTGCATGCTACTACGTGTACCAAAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATATGCAGGCTACTACATGTACCAAAATGATAGGTCACATGTGTAGTAC
20980554 TATGTGCAGGCTACTATGCGTACCGGATAGGTTCGA
66 TATGTGCAGGCTACTATGCGTACCGGATAGGTTCGA
* * *
20980590 TCACGTGTGTAGTACTATATGCAGGCTACTACATGTATCGGATAGTGAT-GGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATATGCAGGCTACTACATGTA-C-CAAAATGATAGGTCACATGTGTAGT
*
20980654 GCTATGTGCAGGCTACTATG
64 ACTATGTGCAGGCTACTATG
20980674 TGAACCGGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 33 0.45
102 34 0.47
103 6 0.08
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATATGCAGGCTACTACATGTACCAAAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGGATAGGTTCGA
Found at i:20980920 original size:16 final size:16
Alignment explanation
Indices: 20980899--20980930 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20980889 TGATTGAAAG
*
20980899 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
20980915 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
20980931 GCAACAAAAC
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:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:21010000 original size:51 final size:51
Alignment explanation
Indices: 21009869--21010060 Score: 174
Period size: 51 Copynumber: 3.8 Consensus size: 51
21009859 GAAATTGAAT
* * * * * * *
21009869 GTGATGGTCACGTGTGTAGTCCTATGTGCATGCTACTACGTGTACC--AAA
1 GTGATGATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA
* * *
21009918 ATGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA
1 GTGAT-GATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA
* * * *** *
21009970 G-GTTCGATCACGTGTGTAGTACTATATGCAGGCTACTACATGTATCGGATA
1 GTGAT-GATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA
* *
21010021 GTGATGGTCACATGTGTAGTGCTATGTGCAGGCTACTATG
1 GTGATGATCACATGTGTAGTACTATGTGCAGGCTACTATG
21010061 TGAACCGGTA
Statistics
Matches: 113, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 4 0.04
50 35 0.31
51 70 0.62
52 4 0.04
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (51 bp):
GTGATGATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA
Found at i:21010058 original size:102 final size:101
Alignment explanation
Indices: 21009876--21010060 Score: 264
Period size: 102 Copynumber: 1.8 Consensus size: 101
21009866 AATGTGATGG
* * * * *
21009876 TCACGTGTGTAGTCCTATGTGCATGCTACTACGTGTACCAAAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATATGCAGGCTACTACATGTACCAAAATGATAGGTCACATGTGTAGTAC
21009941 TATGTGCAGGCTACTATGCGTACCGGATAGGTTCGA
66 TATGTGCAGGCTACTATGCGTACCGGATAGGTTCGA
* * *
21009977 TCACGTGTGTAGTACTATATGCAGGCTACTACATGTATCGGATAGTGAT-GGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATATGCAGGCTACTACATGTA-C-CAAAATGATAGGTCACATGTGTAGT
*
21010041 GCTATGTGCAGGCTACTATG
64 ACTATGTGCAGGCTACTATG
21010061 TGAACCGGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 33 0.45
102 34 0.47
103 6 0.08
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATATGCAGGCTACTACATGTACCAAAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGGATAGGTTCGA
Found at i:21010307 original size:16 final size:16
Alignment explanation
Indices: 21010286--21010317 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21010276 TGATTGAAAG
*
21010286 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
21010302 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
21010318 GCAACAAAAC
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:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Done.