Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 69 of 144
Found at i:20981157 original size:5 final size:6
Alignment explanation
Indices: 20981141--20981166 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
20981131 GTAGAAATGC
20981141 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
20981167 GGGGGTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:20981987 original size:30 final size:31
Alignment explanation
Indices: 20981953--20982015 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
20981943 ACTTATTTTA
*
20981953 TTGTTAATTTTGTTATTA-TTTTAAAGGCAT
1 TTGTTAATTTTATTATTATTTTTAAAGGCAT
*
20981983 TTGTTAATTTTATTATTATTTTTAGAGGCAT
1 TTGTTAATTTTATTATTATTTTTAAAGGCAT
20982014 TT
1 TT
20982016 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 17 0.57
31 13 0.43
ACGTcount: A:0.25, C:0.03, G:0.13, T:0.59
Consensus pattern (31 bp):
TTGTTAATTTTATTATTATTTTTAAAGGCAT
Found at i:20982786 original size:13 final size:13
Alignment explanation
Indices: 20982768--20982834 Score: 74
Period size: 13 Copynumber: 5.6 Consensus size: 13
20982758 CTAAATTTTT
20982768 ACTAAATATTATC
1 ACTAAATATTATC
20982781 ACTAAATA--ATC
1 ACTAAATATTATC
20982792 -CTAAATATTATC
1 ACTAAATATTATC
*
20982804 ACCAAATA--AT-
1 ACTAAATATTATC
*
20982814 TCTAAATATTATC
1 ACTAAATATTATC
20982827 ACTAAATA
1 ACTAAATA
20982835 ATTCAAAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
10 13 0.30
11 5 0.11
12 5 0.11
13 21 0.48
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.34
Consensus pattern (13 bp):
ACTAAATATTATC
Found at i:20982837 original size:23 final size:23
Alignment explanation
Indices: 20982769--20982843 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
20982759 TAAATTTTTA
*
20982769 CTAAATATTATCACTAAATAATC
1 CTAAATATTATCACTAAATAATT
*
20982792 CTAAATATTATCACCAAATAATT
1 CTAAATATTATCACTAAATAATT
20982815 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
20982838 CAAAAT
1 CTAAAT
20982844 TGAAAAATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:20984771 original size:19 final size:18
Alignment explanation
Indices: 20984747--20984783 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
20984737 TTTTAATATT
20984747 ATTATTACTATTATATTAC
1 ATTATTACTATTAT-TTAC
*
20984766 ATTATTATTATTATTTAC
1 ATTATTACTATTATTTAC
20984784 TCATCTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTATTACTATTATTTAC
Found at i:20984949 original size:10 final size:10
Alignment explanation
Indices: 20984934--20984963 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
20984924 TTTATACTTT
20984934 ATATATATAC
1 ATATATATAC
20984944 ATATATATAC
1 ATATATATAC
*
20984954 ATATACATAC
1 ATATATATAC
20984964 CTACATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (10 bp):
ATATATATAC
Found at i:20985547 original size:72 final size:72
Alignment explanation
Indices: 20985438--20985644 Score: 342
Period size: 72 Copynumber: 2.9 Consensus size: 72
20985428 CAAACTCAAG
* *
20985438 TTAAACGATCTCAAAAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCTTTTTTTC
1 TTAAACGATCTCGAGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCTTTTTTTC
20985503 TCAAGTT
66 TCAAGTT
* * * *
20985510 TTAGACTATCTCGAGAATTAAGAAGAGACCATGTCCTAACTTACTGGGCATGATCCCTTTTTTTC
1 TTAAACGATCTCGAGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCTTTTTTTC
20985575 TCAAGTT
66 TCAAGTT
* *
20985582 TTAAACGATCTCGAGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCCCTTTTTT
1 TTAAACGATCTCGAGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCTTTTTT
20985645 AAATTCGAGA
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 123 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (72 bp):
TTAAACGATCTCGAGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCTTTTTTTC
TCAAGTT
Found at i:20993961 original size:89 final size:90
Alignment explanation
Indices: 20993848--20994317 Score: 412
Period size: 89 Copynumber: 5.3 Consensus size: 90
20993838 TCTCAATCTA
* * * * * *
20993848 CTCCACTGCAACTTCAGGGGGATAAGATTTG-TTTATTCAGTCTGCCCCAGTGCAATTTCAAGGG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAATTTCAAGGG
20993912 GATAAGACTTGCTTTCTTGAGTCTG
66 GATAAGACTTGCTTTCTTGAGTCTG
*
20993937 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGTAATTTC-AGGG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAATTTCAAGGG
* * * *
20994001 AGATAAGATTTG--AT-ATGA-TCTA
66 -GATAAGACTTGCTTTCTTGAGTCTG
* * * * * * ** *
20994023 CTCTACTGCAACTTCAGAGATATAAGATCCAT-CATTC-T-AATCCACTCCACTACAACTTT--A
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTTCTTGAGTCTGCTCCACTGCAA-TTTCAA
* * * *
20994083 GGGAGATAGGATTTG-TTTATTCAGTCTG
63 GGG-GATAAGACTTGCTTTCTTGAGTCTG
* * *
20994111 C-CCTACTGCAATTTCAGGGGGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAACTTCAAGG
1 CTCC-ACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAATTTCAAGG
* *
20994175 AGATAA-ACTTGCTTTCTTGAATCTG
65 GGATAAGACTTGCTTTCTTGAGTCTG
* * * * * ** *
20994200 CTCCAGTGCAACCTCAGGAAGATAAGACTTGCTTTCTTGAGTCTGCCCCAGTGCAACCTCAGGGG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAATTTCAAGGG
* * *
20994265 GATAAGACCTGCTTAC-TCAGTCTG
66 GATAAGACTTGCTTTCTTGAGTCTG
*
20994289 CTCCACTGCAACTTCAGGAAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
20994318 AGATGCGATC
Statistics
Matches: 304, Mismatches: 60, Indels: 34
0.76 0.15 0.09
Matches are distributed among these distances:
85 27 0.09
86 34 0.11
87 14 0.05
88 33 0.11
89 150 0.49
90 46 0.15
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (90 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAATTTCAAGGG
GATAAGACTTGCTTTCTTGAGTCTG
Found at i:20994200 original size:44 final size:45
Alignment explanation
Indices: 20993848--20994317 Score: 435
Period size: 45 Copynumber: 10.6 Consensus size: 45
20993838 TCTCAATCTA
* * * *
20993848 CTCCACTGCAACTTCAGGGGGATAAGATTTG-TTTATTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
* * *
20993892 CCCCAGTGCAATTTCAAGGG-GATAAGACTTGCTTTCTTGAGTCTG
1 CTCCACTGCAACTTC-AGGGAGATAAGACTTGCTTTCTTGAGTCTG
20993937 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
* * * * * *
20993982 CTCCACTGTAATTTCAGGGAGATAAGATTTG--AT-ATGA-TCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
* * * * * * **
20994023 CTCTACTGCAACTTCAGAGATATAAGATCCAT-CATTC-T-AATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTTCTTGAGTCTG
* * * * * *
20994067 CTCCACTACAACTTTAGGGAGATAGGATTTG-TTTATTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
* *
20994111 C-CCTACTGCAATTTCAGGGGGATAAGACTTGCTTTCTTGAGTCTG
1 CTCC-ACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
* *
20994156 CTCCACTGCAACTTCAAGGAGATAA-ACTTGCTTTCTTGAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
* * *
20994200 CTCCAGTGCAACCTCAGGAAGATAAGACTTGCTTTCTTGAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
* * * * * * *
20994245 CCCCAGTGCAACCTCAGGGGGATAAGACCTGCTTAC-TCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
*
20994289 CTCCACTGCAACTTCAGGAAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
20994318 AGATGCGATC
Statistics
Matches: 344, Mismatches: 66, Indels: 32
0.78 0.15 0.07
Matches are distributed among these distances:
41 25 0.07
42 6 0.02
43 6 0.02
44 146 0.42
45 159 0.46
46 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
Found at i:20994385 original size:44 final size:43
Alignment explanation
Indices: 20994329--20994445 Score: 114
Period size: 44 Copynumber: 2.7 Consensus size: 43
20994319 GATGCGATCT
*
20994329 GCTCT-CTGCAACTTCAGATAGATAAGATCTA-TCACTTTAATCC
1 GCTCTACTGCAACTTCA-ACAGATAAGAT-TATTCACTTTAATCC
* ** *
20994372 GCTGC-ACTGCAACTTCAAGCAGATAGGATTATTGGCTTTAATCT
1 GCT-CTACTGCAACTTCAA-CAGATAAGATTATTCACTTTAATCC
*
20994416 GCTCTACTGCAACTTCAAAGAGATAAGATT
1 GCTCTACTGCAACTTC-AACAGATAAGATT
20994446 TGCCATCTCC
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
43 7 0.11
44 52 0.85
45 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (43 bp):
GCTCTACTGCAACTTCAACAGATAAGATTATTCACTTTAATCC
Found at i:20995366 original size:25 final size:26
Alignment explanation
Indices: 20995338--20995386 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
20995328 AGTATCTTGA
20995338 AAAGAAAAAAGTATT-CAAGAACAGC
1 AAAGAAAAAAGTATTGCAAGAACAGC
*
20995363 AAAGAATAAAGTATTGCAAGAACA
1 AAAGAAAAAAGTATTGCAAGAACA
20995387 AACAAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.59, C:0.10, G:0.16, T:0.14
Consensus pattern (26 bp):
AAAGAAAAAAGTATTGCAAGAACAGC
Found at i:21008737 original size:50 final size:50
Alignment explanation
Indices: 21008683--21009224 Score: 378
Period size: 50 Copynumber: 10.9 Consensus size: 50
21008673 TTTGGCATTA
* *
21008683 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACATCCCTAGCGGTG
1 CAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTG
* * * * ** *
21008733 CAGTGGAACAAAATGAAGCTACAACAGCGAATCTTGCTTCCCT-GACATTA
1 CAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTAG-CGGTG
* * * * *
21008783 CAGTTAAATAGATTGAAGCTACAACAGCTAATCTTACTTCCCTGGTGGTG
1 CAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTG
* * * * * **
21008833 CAGTGGAACAGATTAAAGCTACAA-AGTGAATCTTTCTTCCC-CGACATTG
1 CAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTAG-CGGTG
* * * * * *
21008882 CAGTTAAATAGATTGAAGCTATAACAACGAATCTTACTTCCCTGGTGGTG
1 CAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTG
* * ** ** * **
21008932 TAGTGGAACAGATTGAAGCTACAACAATGAATCTTGTTTCCC-CGACATTG
1 CAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTAG-CGGTG
* * * * * *
21008982 CAGTTAAATAGATTTAACCTGCAACAGCGAATCTTACTTCCTTAGCGGTG
1 CAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTG
* * * ** * *
21009032 TAGTGGAATAGATTGAAGCTACAACAGTTAATCTTACTTTCCCGA-C-ATCG
1 CAGTGAAACAGATTGAAGCTACAACAGCGAATCTTAC-TTCCCTAGCGGT-G
* * * * * * * *
21009082 CAGTTAAATAAATTAAAGCTACAACAACGAATCTTACTTCCCTGGTGATG
1 CAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTG
* * * ** *
21009132 CAATGAAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCC-CGACATTA
1 CAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTAG-CGGTG
* * * *
21009182 CAGTTAAATAGATTGAAGCTACAACAGCAAATTTTACTTCCCT
1 CAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCT
21009225 GGCGAACAGA
Statistics
Matches: 371, Mismatches: 108, Indels: 25
0.74 0.21 0.05
Matches are distributed among these distances:
48 1 0.00
49 44 0.12
50 316 0.85
51 10 0.03
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (50 bp):
CAGTGAAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTG
Found at i:21008834 original size:100 final size:100
Alignment explanation
Indices: 21008678--21009226 Score: 713
Period size: 100 Copynumber: 5.5 Consensus size: 100
21008668 ATCTCTTTGG
** * * * *
21008678 CATTACAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACATCCCTAGCGGTGCAGTGGAACA
1 CATTACAGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGTGGTGCAGTGGAACA
* * * *
21008743 AAATGAAGCTACAACAGCGAATCTTGCTTCCCTGA
66 GATTGAAGCTACAACAGTGAATCTTGCTTCCCCGA
*
21008778 CATTACAGTTAAATAGATTGAAGCTACAACAGCTAATCTTACTTCCCTGGTGGTGCAGTGGAACA
1 CATTACAGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGTGGTGCAGTGGAACA
* *
21008843 GATTAAAGCTACAA-AGTGAATCTTTCTTCCCCGA
66 GATTGAAGCTACAACAGTGAATCTTGCTTCCCCGA
* * * *
21008877 CATTGCAGTTAAATAGATTGAAGCTATAACAACGAATCTTACTTCCCTGGTGGTGTAGTGGAACA
1 CATTACAGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGTGGTGCAGTGGAACA
* *
21008942 GATTGAAGCTACAACAATGAATCTTGTTTCCCCGA
66 GATTGAAGCTACAACAGTGAATCTTGCTTCCCCGA
* * * * * * * * *
21008977 CATTGCAGTTAAATAGATTTAACCTGCAACAGCGAATCTTACTTCCTTAGCGGTGTAGTGGAATA
1 CATTACAGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGTGGTGCAGTGGAACA
* * *
21009042 GATTGAAGCTACAACAGTTAATCTTACTTTCCCGA
66 GATTGAAGCTACAACAGTGAATCTTGCTTCCCCGA
** * * * * * *
21009077 CATCGCAGTTAAATAAATTAAAGCTACAACAACGAATCTTACTTCCCTGGTGATGCAATGAAACA
1 CATTACAGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGTGGTGCAGTGGAACA
*
21009142 GATTGAAGCTACAACAGCGAATCTTGCTTCCCCGA
66 GATTGAAGCTACAACAGTGAATCTTGCTTCCCCGA
* *
21009177 CATTACAGTTAAATAGATTGAAGCTACAACAGCAAATTTTACTTCCCTGG
1 CATTACAGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGG
21009227 CGAACAGATC
Statistics
Matches: 387, Mismatches: 61, Indels: 2
0.86 0.14 0.00
Matches are distributed among these distances:
99 90 0.23
100 297 0.77
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.27
Consensus pattern (100 bp):
CATTACAGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGTGGTGCAGTGGAACA
GATTGAAGCTACAACAGTGAATCTTGCTTCCCCGA
Found at i:21010936 original size:19 final size:18
Alignment explanation
Indices: 21010912--21010948 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
21010902 TTTTAATATT
21010912 ATTATTACTATTATATTAC
1 ATTATTACTATTAT-TTAC
*
21010931 ATTATTATTATTATTTAC
1 ATTATTACTATTATTTAC
21010949 TCATCTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTATTACTATTATTTAC
Found at i:21012333 original size:10 final size:10
Alignment explanation
Indices: 21012318--21012347 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
21012308 TTTATACTTT
21012318 ATATATATAC
1 ATATATATAC
21012328 ATATATATAC
1 ATATATATAC
*
21012338 ATATACATAC
1 ATATATATAC
21012348 GTACATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (10 bp):
ATATATATAC
Found at i:21013140 original size:72 final size:73
Alignment explanation
Indices: 21012819--21013172 Score: 674
Period size: 73 Copynumber: 4.9 Consensus size: 73
21012809 CAAACTCAAG
*
21012819 TTAAACGATCTCGAGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCTTTTTTTT
1 TTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCTTTTTTTT
21012884 CTCAATTT
66 CTCAATTT
21012892 TTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCTTTTTTTT
1 TTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCTTTTTTTT
21012957 CTCAATTT
66 CTCAATTT
21012965 TTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCTTTTTTTT
1 TTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCTTTTTTTT
21013030 CTCAATTT
66 CTCAATTT
21013038 TTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCC-TTTTTTT
1 TTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCTTTTTTTT
*
21013102 CTCAAGTT
66 CTCAATTT
*
21013110 TTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCTTTTTT
1 TTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCTTTTTT
21013173 AAACTCGAGA
Statistics
Matches: 277, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
72 70 0.25
73 207 0.75
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (73 bp):
TTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCTTTTTTTT
CTCAATTT
Found at i:21017252 original size:11 final size:11
Alignment explanation
Indices: 21017232--21017269 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
21017222 GACCCGGCTC
21017232 ATATTAAATAT
1 ATATTAAATAT
*
21017243 ATATTCAATAT
1 ATATTAAATAT
*
21017254 ATATAAAATAT
1 ATATTAAATAT
21017265 ATATT
1 ATATT
21017270 TGATTAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (11 bp):
ATATTAAATAT
Found at i:21023088 original size:19 final size:19
Alignment explanation
Indices: 21023047--21023094 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
21023037 AACTTCGTCT
*
21023047 AAAAAATATAAAAAAAAGG
1 AAAAAATATAAAAAAAAGC
*
21023066 AAAAAATATGAAAAACAA-C
1 AAAAAATAT-AAAAAAAAGC
21023085 -AAAAATATAA
1 AAAAAATATAA
21023095 TTTCCAGTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 2 0.08
18 8 0.31
19 9 0.35
20 7 0.27
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.12
Consensus pattern (19 bp):
AAAAAATATAAAAAAAAGC
Found at i:21023431 original size:60 final size:54
Alignment explanation
Indices: 21023312--21023458 Score: 188
Period size: 54 Copynumber: 2.6 Consensus size: 54
21023302 CTTAGAAGCT
* *
21023312 ACTAGTTATCAATCTGATGAAGAAAAAACTTCAACAGATCAAGATATAAAAGTT
1 ACTAGTTATCAATCTGATGAAGAAAAAACTTCAACAGATCAAGACATAAAAGTC
21023366 ACTAGTTATCAATCTGATGAAGAAAAAACTTCAACAGATCAGGATGAAGACATAAAAGTC
1 ACTAGTTATCAATCTGATGAAGAAAAAACTTCAACAGATC------AAGACATAAAAGTC
* *
21023426 ACTAGTCAT-AATTCTGATGAAGAAAACACTTCA
1 ACTAGTTATCAA-TCTGATGAAGAAAAAACTTCA
21023459 TCTGAAGATG
Statistics
Matches: 82, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
54 40 0.49
59 2 0.02
60 40 0.49
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.24
Consensus pattern (54 bp):
ACTAGTTATCAATCTGATGAAGAAAAAACTTCAACAGATCAAGACATAAAAGTC
Found at i:21023986 original size:13 final size:12
Alignment explanation
Indices: 21023953--21023992 Score: 71
Period size: 12 Copynumber: 3.2 Consensus size: 12
21023943 ACAAATCCTG
21023953 ATGAAATATTAT
1 ATGAAATATTAT
21023965 ATGAAATATTAT
1 ATGAAATATTAT
21023977 ATGAAAATATTAT
1 ATG-AAATATTAT
21023990 ATG
1 ATG
21023993 TTTAATATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 15 0.56
13 12 0.44
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (12 bp):
ATGAAATATTAT
Found at i:21026402 original size:89 final size:89
Alignment explanation
Indices: 21026292--21026470 Score: 313
Period size: 89 Copynumber: 2.0 Consensus size: 89
21026282 GCAACCAACA
* *
21026292 AATTCAATTTCAAAAATCTTTTTTTGAATATTTTCTACAATCTTATGTTTTTACTAATTTTTTAG
1 AATTCAATTTCAAAAATCTTTTTCTGAATATTTTCTACAATCTTATGTTTTTACTAATTTTATAG
*
21026357 GCGAAAGTTTTCTAACTATAAAAT
66 GCGAAAGTTTTCCAACTATAAAAT
*
21026381 AATTCAATTTCAAAGATCTTTTTCTGAATATTTTCTACAATCTTATGTTTTTACTAATTTTATAG
1 AATTCAATTTCAAAAATCTTTTTCTGAATATTTTCTACAATCTTATGTTTTTACTAATTTTATAG
*
21026446 GTGAAAGTTTTCCAACTATAAAAT
66 GCGAAAGTTTTCCAACTATAAAAT
21026470 A
1 A
21026471 TAGATTGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 85 1.00
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (89 bp):
AATTCAATTTCAAAAATCTTTTTCTGAATATTTTCTACAATCTTATGTTTTTACTAATTTTATAG
GCGAAAGTTTTCCAACTATAAAAT
Found at i:21026854 original size:166 final size:166
Alignment explanation
Indices: 21026541--21026872 Score: 612
Period size: 166 Copynumber: 2.0 Consensus size: 166
21026531 AGTTGTACAA
21026541 ATTTTTTTTTCATCTTTTCAAGGATTTTCCCGCCGTGGTAAAATCTAAATTACAAAACATCATAA
1 ATTTTTTTTTCATCTTTTCAAGGATTTTCCCGCCGTGGTAAAATCTAAATTACAAAACATCATAA
* *
21026606 ACAATGGTAACTTTTTTCTACTATTTTATTATTGAAATATGTAGCCTAATTGATATAGCTGAAAA
66 ACAACGATAACTTTTTTCTACTATTTTATTATTGAAATATGTAGCCTAATTGATATAGCTGAAAA
21026671 AGAAAAATTTTATCAGCCATATCAAATATGGATTAT
131 AGAAAAATTTTATCAGCCATATCAAATATGGATTAT
21026707 ATTTTTCTTTTCATCTTTTCAAGGATTTTCCCGCCGTGGTAAAATCTAAATTACAAAACATCATA
1 ATTTTT-TTTTCATCTTTTCAAGGATTTTCCCGCCGTGGTAAAATCTAAATTACAAAACATCATA
* *
21026772 AACAACGATGAC-TTTTTCTACTATTTTCTTATTGAAATATGTAGCCTAATTGATATAGCTGAAA
65 AACAACGATAACTTTTTTCTACTATTTTATTATTGAAATATGTAGCCTAATTGATATAGCTGAAA
21026836 AAGAAAAATTTTATCAGCCATATCAAATATGGATTAT
130 AAGAAAAATTTTATCAGCCATATCAAATATGGATTAT
21026873 TCAAAGGATG
Statistics
Matches: 161, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
166 94 0.58
167 67 0.42
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (166 bp):
ATTTTTTTTTCATCTTTTCAAGGATTTTCCCGCCGTGGTAAAATCTAAATTACAAAACATCATAA
ACAACGATAACTTTTTTCTACTATTTTATTATTGAAATATGTAGCCTAATTGATATAGCTGAAAA
AGAAAAATTTTATCAGCCATATCAAATATGGATTAT
Found at i:21037214 original size:27 final size:27
Alignment explanation
Indices: 21037184--21037239 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
21037174 ACATAGGGCC
* *
21037184 ATAACAGTCATTTAATCTTCTAGGGGT
1 ATAACAGTCATTTAACCTTATAGGGGT
*
21037211 ATAACAGTCATTTTACCTTATAGGGGT
1 ATAACAGTCATTTAACCTTATAGGGGT
21037238 AT
1 AT
21037240 TTCGGTTATT
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:0.14, G:0.18, T:0.38
Consensus pattern (27 bp):
ATAACAGTCATTTAACCTTATAGGGGT
Found at i:21037378 original size:27 final size:27
Alignment explanation
Indices: 21037217--21037416 Score: 186
Period size: 27 Copynumber: 7.3 Consensus size: 27
21037207 GGGTATAACA
*
21037217 GTCATTTTACCTTATAGGGGTATTTCG
1 GTCATTTTACCTTATGGGGGTATTTCG
* *
21037244 GTTATTTTACCTTATGGAGGTTATTTCG
1 GTCATTTTACCTTATGG-GGGTATTTCG
* * * *
21037272 ATCATCTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCTTATGGGGGTATTTCG
* *
21037299 GTCATTTTACCTTATAGGGGTATTTTG
1 GTCATTTTACCTTATGGGGGTATTTCG
* * * *
21037326 GTTATTTAATCC-TACGGGGGTATTTTG
1 GTCATTTTA-CCTTATGGGGGTATTTCG
* **
21037353 GTTATTTTACCTTATGGGGGTATTTTA
1 GTCATTTTACCTTATGGGGGTATTTCG
* * *
21037380 GCCATTTTACCCTACAGGGGGTATTTCG
1 GTCATTTTACCTTA-TGGGGGTATTTCG
*
21037408 ATCATTTTA
1 GTCATTTTA
21037417 TTGACCTCAG
Statistics
Matches: 139, Mismatches: 30, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
26 2 0.01
27 97 0.70
28 40 0.29
ACGTcount: A:0.20, C:0.14, G:0.21, T:0.45
Consensus pattern (27 bp):
GTCATTTTACCTTATGGGGGTATTTCG
Found at i:21043464 original size:11 final size:11
Alignment explanation
Indices: 21043448--21043491 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
21043438 TAAACATTAA
21043448 AAAAATATTTT
1 AAAAATATTTT
21043459 AAAAATA----
1 AAAAATATTTT
21043466 AAAAATATTTT
1 AAAAATATTTT
*
21043477 AAAAGTATTTT
1 AAAAATATTTT
21043488 AAAA
1 AAAA
21043492 TTAAAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
7 7 0.25
11 21 0.75
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:21043801 original size:43 final size:41
Alignment explanation
Indices: 21043752--21043847 Score: 106
Period size: 39 Copynumber: 2.3 Consensus size: 41
21043742 ACCACTCCTG
* *
21043752 TCACATGGGCCCAAGCGTATGGTTTTTCAAGTGTAACAGCTAC
1 TCACATGGGCCC--GCGTATGGATTTTCAAATGTAACAGCTAC
* * *
21043795 TCACATGGG--CTCGTATGGATTTTCAAATTTGACAGCTAC
1 TCACATGGGCCCGCGTATGGATTTTCAAATGTAACAGCTAC
*
21043834 TCACGTGGGCCCGC
1 TCACATGGGCCCGC
21043848 CTCATTCAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
39 32 0.73
41 3 0.07
43 9 0.20
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (41 bp):
TCACATGGGCCCGCGTATGGATTTTCAAATGTAACAGCTAC
Found at i:21043818 original size:39 final size:39
Alignment explanation
Indices: 21043767--21043843 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
21043757 TGGGCCCAAG
* *
21043767 CGTATGGTTTTTCAAGTGTAACAGCTACTCACATGGGCT
1 CGTATGGATTTTCAAATGTAACAGCTACTCACATGGGCT
* * *
21043806 CGTATGGATTTTCAAATTTGACAGCTACTCACGTGGGC
1 CGTATGGATTTTCAAATGTAACAGCTACTCACATGGGC
21043844 CCGCCTCATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (39 bp):
CGTATGGATTTTCAAATGTAACAGCTACTCACATGGGCT
Found at i:21048168 original size:38 final size:38
Alignment explanation
Indices: 21048126--21048198 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
21048116 AGTATGGCAA
*
21048126 GCACAGAGCATACTCTTGAACTTATAAGAGATTTTTTT
1 GCACAGAGCATACTCTTAAACTTATAAGAGATTTTTTT
21048164 GCACAGAGCATACTCTTAAACTTATAAGAGATTTT
1 GCACAGAGCATACTCTTAAACTTATAAGAGATTTT
21048199 CTTCCATAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (38 bp):
GCACAGAGCATACTCTTAAACTTATAAGAGATTTTTTT
Found at i:21048453 original size:63 final size:63
Alignment explanation
Indices: 21048354--21049200 Score: 1667
Period size: 63 Copynumber: 13.4 Consensus size: 63
21048344 AGTAGAAGTG
*
21048354 AGCAGATAAGGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
1 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
21048417 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
1 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
21048480 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
1 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
21048543 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
1 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
21048606 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
1 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
21048669 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
1 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
21048732 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
1 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
21048795 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
1 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
21048858 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
1 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
21048921 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
1 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
21048984 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
1 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
21049047 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
1 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
21049110 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
1 AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
* *
21049173 AGCAGATAAGGAGGAATCTACTTTTACA
1 AGCAGATAAAGAGGAATCTGCTTTTACA
21049201 TTAACCTATC
Statistics
Matches: 781, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 781 1.00
ACGTcount: A:0.46, C:0.16, G:0.18, T:0.21
Consensus pattern (63 bp):
AGCAGATAAAGAGGAATCTGCTTTTACAAACATAAAGGACATGACTCATACATAAAGGACATA
Found at i:21056683 original size:28 final size:28
Alignment explanation
Indices: 21056648--21056703 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
21056638 TTGTAGCATT
21056648 GACTAATTCCAACAGGTAACTTCATTCC
1 GACTAATTCCAACAGGTAACTTCATTCC
21056676 GACTAATTCCAACAGGTAACTTCATTCC
1 GACTAATTCCAACAGGTAACTTCATTCC
21056704 TATGAGTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.29
Consensus pattern (28 bp):
GACTAATTCCAACAGGTAACTTCATTCC
Found at i:21062470 original size:15 final size:15
Alignment explanation
Indices: 21062446--21062475 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21062436 GGAGGGTAAA
*
21062446 ACAGAGAGCAAATCG
1 ACAGAAAGCAAATCG
21062461 ACAGAAAGCAAATCG
1 ACAGAAAGCAAATCG
21062476 GCCAAAAAAG
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:0.50, C:0.20, G:0.23, T:0.07
Consensus pattern (15 bp):
ACAGAAAGCAAATCG
Found at i:21064031 original size:37 final size:35
Alignment explanation
Indices: 21063945--21064033 Score: 97
Period size: 38 Copynumber: 2.4 Consensus size: 35
21063935 CAAAACAACA
* * *
21063945 TGAAATTCAAATTTTACAATTTTTATGATTTAGTCCT
1 TGAAA-TCAAA-TTTACAAGTTTTATAATTCAGTCCT
21063982 TGAAATCCCAAATTTACACAGTTTTATAATTCAGTCCT
1 TGAAAT--CAAATTTACA-AGTTTTATAATTCAGTCCT
21064020 TGAAGATCAAATTT
1 TGAA-ATCAAATTT
21064034 TCTTATTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
36 1 0.02
37 18 0.40
38 24 0.53
39 2 0.04
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.42
Consensus pattern (35 bp):
TGAAATCAAATTTACAAGTTTTATAATTCAGTCCT
Found at i:21067310 original size:92 final size:92
Alignment explanation
Indices: 21067181--21068141 Score: 1591
Period size: 92 Copynumber: 10.4 Consensus size: 92
21067171 ATATAGATAT
* * * * * * * * * * *
21067181 ATTAATTCATATATGGTTGTACCTTGCTGAAATTAATTTGTACATGGTTATACATTGTCGAAATT
1 ATTAATTCGTATATGATTATTCATTGTTGAAATTAATTTGTATAAGGTTATATATTGTTGAATTT
* * ** * * *
21067246 GAATTGCT-TATAAATATAGGATGCCGT
66 GATTTG-TAAATGGATATAAGTTGCCGA
* * *
21067273 ATTAATTCGTATATGATTATTCATTGTTAAAATTAATTTGTATATGGTTATACATTGTTGAATTT
1 ATTAATTCGTATATGATTATTCATTGTTGAAATTAATTTGTATAAGGTTATATATTGTTGAATTT
*
21067338 GATTTGTAAATAGATATAAGTTGCCGA
66 GATTTGTAAATGGATATAAGTTGCCGA
* * *
21067365 ATTAATTCGTATATGATTATTCATTGCTGAAATTAATTTGTATATGGTTATATATTTTTGAATTT
1 ATTAATTCGTATATGATTATTCATTGTTGAAATTAATTTGTATAAGGTTATATATTGTTGAATTT
*
21067430 GATTTGTAAATAGATATAAGTTGCCGA
66 GATTTGTAAATGGATATAAGTTGCCGA
21067457 ATTAATTCGTATATGATTATTCATTGTTGAAATTAATTTGTATAAGGTTATATATTGTTGAATTT
1 ATTAATTCGTATATGATTATTCATTGTTGAAATTAATTTGTATAAGGTTATATATTGTTGAATTT
21067522 GATTTGTAAATGGATATAAGTTGCCGA
66 GATTTGTAAATGGATATAAGTTGCCGA
21067549 ATTAATTCGTATATGATTATTCATTGTTGAAATTAATTTGTATAAGGTTATATATTGTTGAATTT
1 ATTAATTCGTATATGATTATTCATTGTTGAAATTAATTTGTATAAGGTTATATATTGTTGAATTT
21067614 GATTTGTAAATGGATATAAGTTGCCGA
66 GATTTGTAAATGGATATAAGTTGCCGA
21067641 ATTAATTCGTATATGATTATTCATTGTTGAAATTAATTTGTATAAGGTTATATATTGTTGAATTT
1 ATTAATTCGTATATGATTATTCATTGTTGAAATTAATTTGTATAAGGTTATATATTGTTGAATTT
21067706 GATTTGTAAATGGATATAAGTTGCCGA
66 GATTTGTAAATGGATATAAGTTGCCGA
21067733 ATTAATTCGTATATGATTATTCATTGTTGAAATTAATTTGTATAAGGTTATATATTGTTGAATTT
1 ATTAATTCGTATATGATTATTCATTGTTGAAATTAATTTGTATAAGGTTATATATTGTTGAATTT
21067798 GATTTGTAAATGGATATAAGTTGCCGA
66 GATTTGTAAATGGATATAAGTTGCCGA
21067825 ATTAATTCGTATATGATTATTCATTGTTGAAATTAATTTGTATAAGGTTATATATTGTTGAATTT
1 ATTAATTCGTATATGATTATTCATTGTTGAAATTAATTTGTATAAGGTTATATATTGTTGAATTT
21067890 GATTTGTAAATGGATATAAGTTGCCGA
66 GATTTGTAAATGGATATAAGTTGCCGA
21067917 ATTAATTCGTATATGATTATTCATTGTTGAAATTAATTTGTATAAGGTTATATATTGTTGAATTT
1 ATTAATTCGTATATGATTATTCATTGTTGAAATTAATTTGTATAAGGTTATATATTGTTGAATTT
21067982 GATTTGTAAATGGATATAAGTTGCCGA
66 GATTTGTAAATGGATATAAGTTGCCGA
* * * *
21068009 ATTAATTCGTATATGATTATTCATTGCTGAAATTAATTTGTATATGGTTATATGTTATTGAATTT
1 ATTAATTCGTATATGATTATTCATTGTTGAAATTAATTTGTATAAGGTTATATATTGTTGAATTT
* *
21068074 GATTTGTAAATGGACATAAGTTTCCGA
66 GATTTGTAAATGGATATAAGTTGCCGA
** *
21068101 ATTAATTCGTATATGATTATTCATTACTAAAATTAATTTGT
1 ATTAATTCGTATATGATTATTCATTGTTGAAATTAATTTGT
21068142 CTATGATTCG
Statistics
Matches: 836, Mismatches: 32, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
91 1 0.00
92 835 1.00
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (92 bp):
ATTAATTCGTATATGATTATTCATTGTTGAAATTAATTTGTATAAGGTTATATATTGTTGAATTT
GATTTGTAAATGGATATAAGTTGCCGA
Found at i:21071244 original size:37 final size:38
Alignment explanation
Indices: 21071185--21071257 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
21071175 AGTACGCTTT
* * *
21071185 ATCGAGCCAAATCTTACTGTTATACTGAATAAAGCTCA
1 ATCGAGCCAAATCATACCGTTATACTAAATAAAGCTCA
21071223 ATCGAG-CAAATCATACCGTTATACTAAATAAAGCT
1 ATCGAGCCAAATCATACCGTTATACTAAATAAAGCT
21071258 TAGCTGAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 26 0.81
38 6 0.19
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (38 bp):
ATCGAGCCAAATCATACCGTTATACTAAATAAAGCTCA
Found at i:21072204 original size:47 final size:48
Alignment explanation
Indices: 21072117--21072209 Score: 138
Period size: 47 Copynumber: 2.0 Consensus size: 48
21072107 AGGGAATTCT
*
21072117 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCTTTATCGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
21072165 GTTGAATCCTTTATCG-TG-GAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCTTTATCGTTGCG-AGTTGA-GCTGACTTAGGCGTTTTTA
21072210 AGCCAAGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
46 2 0.05
47 25 0.60
48 15 0.36
ACGTcount: A:0.18, C:0.14, G:0.27, T:0.41
Consensus pattern (48 bp):
GTTGAATCCTTTATCGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
Found at i:21075721 original size:20 final size:21
Alignment explanation
Indices: 21075676--21075719 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
21075666 ATATCCCTGG
21075676 CCCACACGGGCCTATTGACCC
1 CCCACACGGGCCTATTGACCC
* * *
21075697 CCCACACGGTCGTGTTGACCC
1 CCCACACGGGCCTATTGACCC
21075718 CC
1 CC
21075720 ACTTGGTCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.48, G:0.20, T:0.16
Consensus pattern (21 bp):
CCCACACGGGCCTATTGACCC
Found at i:21078983 original size:19 final size:20
Alignment explanation
Indices: 21078955--21078993 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
21078945 ATTTTTTAAA
*
21078955 AATAACTTTTATAAT-TTTT
1 AATAAATTTTATAATATTTT
21078974 AATAAATTTTATAATATTTT
1 AATAAATTTTATAATATTTT
21078994 GAATCACATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
AATAAATTTTATAATATTTT
Found at i:21084109 original size:18 final size:18
Alignment explanation
Indices: 21084086--21084123 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
21084076 CCGGATTCCC
21084086 CTCTC-TCCTCTCTCCCTT
1 CTCTCTTCC-CTCTCCCTT
*
21084104 CTCTCTTCCCTCTCTCTT
1 CTCTCTTCCCTCTCCCTT
21084122 CT
1 CT
21084124 TTATTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (18 bp):
CTCTCTTCCCTCTCCCTT
Found at i:21084610 original size:3 final size:3
Alignment explanation
Indices: 21084586--21084659 Score: 69
Period size: 3 Copynumber: 24.3 Consensus size: 3
21084576 AATATCCTTG
* * * *
21084586 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
21084633 TTA TGTA TTA GTA TATA TTT TTA TTA T
1 TTA T-TA TTA TTA T-TA TTA TTA TTA T
21084660 GTACGTGTAT
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.04
3 48 0.86
4 6 0.11
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:21084669 original size:23 final size:23
Alignment explanation
Indices: 21084604--21084670 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
21084594 ATATTATTAG
* * *
21084604 TATTATTAGTAT-TACTATTAT-
1 TATTATTATTATGTAGTAGTATA
*
21084625 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
21084648 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
21084671 CATATATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
21 11 0.29
22 7 0.18
23 19 0.50
24 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:21084772 original size:3 final size:3
Alignment explanation
Indices: 21084759--21084791 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
21084749 TATTCCAATG
*
21084759 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21084792 GTTTATGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:21097485 original size:69 final size:70
Alignment explanation
Indices: 21097310--21097485 Score: 210
Period size: 71 Copynumber: 2.5 Consensus size: 70
21097300 CTTTCCAAGG
* ** *
21097310 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTAAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCAAGGTATTTTTAATTTAT
*
21097375 TTTTT
66 GTTTT
* ** * * *
21097380 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCAAGGTATTTTTAATTTA
21097445 TGTTTT
65 TGTTTT
** *
21097451 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
21097486 TTTAATTTTT
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
69 31 0.34
71 59 0.66
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCAAGGTATTTTTAATTTAT
GTTTT
Found at i:21097629 original size:76 final size:74
Alignment explanation
Indices: 21097503--21097833 Score: 374
Period size: 76 Copynumber: 4.5 Consensus size: 74
21097493 TTTGTTTTTC
*
21097503 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
21097568 GTTGTTAAAAA
66 GTT-TT-AAAA
**
21097579 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
21097644 GTTTT--CA
66 GTTTTAAAA
* * ** * * *
21097651 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT-A-TTC--TAT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
**
21097711 -TTCAAAAA
66 GTTTTAAAA
* * *
21097719 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
* *
21097783 TCTATTTTTAAA
63 TCTGTTTTAAAA
* *
21097795 AAGATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
21097834 ATTACACACT
Statistics
Matches: 217, Mismatches: 26, Indels: 23
0.82 0.10 0.09
Matches are distributed among these distances:
66 2 0.01
67 2 0.01
68 37 0.17
70 13 0.06
71 1 0.00
72 52 0.24
74 2 0.01
75 3 0.01
76 104 0.48
77 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTAAAA
Found at i:21097783 original size:148 final size:145
Alignment explanation
Indices: 21097489--21097828 Score: 388
Period size: 148 Copynumber: 2.3 Consensus size: 145
21097479 TAAGCCTTTT
* * ** *
21097489 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
* *
21097554 TAATTTCAATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG
66 TAATTTC-A--TATGTTGTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG
21097619 ACACGCTGAGGTAATTTC
128 ACACGCTGAGGTAATTTC
* *
21097637 AATTTCTG-TTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTGTTTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAG
* **
21097701 GT-A-TTC-TAT-TT-TCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTT
65 GTAATTTCATATGTTGTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG--
* *
21097760 CACATGCTGAGGTATTTTC
128 -ACACGCTGAGGTAATTTC
* * **
21097779 AATTTCTATTTTTAAAAAGATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AATTTCTGTTTTT-CAAA-ATCAACTCATATTGCGAGAAATGAGTTGAGC
21097829 TTCAGATTAC
Statistics
Matches: 166, Mismatches: 19, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
139 2 0.01
140 40 0.24
141 2 0.01
142 25 0.15
143 4 0.02
144 30 0.18
145 1 0.01
146 3 0.02
147 10 0.06
148 49 0.30
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (145 bp):
AATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
TAATTTCATATGTTGTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
CGCTGAGGTAATTTC
Found at i:21098418 original size:73 final size:72
Alignment explanation
Indices: 21098234--21098486 Score: 391
Period size: 73 Copynumber: 3.5 Consensus size: 72
21098224 TTTGAAAGAA
*
21098234 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
21098299 TCAAAAT
66 TCAAAAT
*
21098306 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TT
21098371 TTCAAAAT
65 TTCAAAAT
* * * *
21098379 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTATTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
*
21098444 TCAAAAAAA
66 TC--AAAAT
*
21098453 TCAACTCATATTGCGA-AAAGTGAGTGGAGCCTCA
1 TCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
21098487 GTTCACATGT
Statistics
Matches: 168, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
72 64 0.38
73 71 0.42
74 33 0.20
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
TCAAAAT
Found at i:21118116 original size:63 final size:63
Alignment explanation
Indices: 21118037--21118162 Score: 182
Period size: 63 Copynumber: 2.0 Consensus size: 63
21118027 ATTAAAATAG
* * **
21118037 TGAAATTACATTTTTACTATCGTAAAGATATACAATTTAATTCCACCCC-AAAATTTTTTTTGA
1 TGAAATTACATTTTTACTATCATAAAAATATACAATTTAA-TCCACCCCTAAAAAATTTTTTGA
* *
21118100 TGAAATTATATTTTTACTATCATAAAAATATACAATTTAATCTACCCCTAAAAAATTTTTTGA
1 TGAAATTACATTTTTACTATCATAAAAATATACAATTTAATCCACCCCTAAAAAATTTTTTGA
21118163 CTCCGCCACT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
62 7 0.12
63 49 0.88
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (63 bp):
TGAAATTACATTTTTACTATCATAAAAATATACAATTTAATCCACCCCTAAAAAATTTTTTGA
Found at i:21118667 original size:21 final size:21
Alignment explanation
Indices: 21118641--21118703 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
21118631 TCTCAACCCA
* *
21118641 GGACCCTCAACCTTGAACTTT
1 GGACCCTAAACCTTAAACTTT
*
21118662 GGACCCAAAACCTTAAACTCTT
1 GGACCCTAAACCTTAAACT-TT
*
21118684 -GACCCTAAATCTTAAACTTT
1 GGACCCTAAACCTTAAACTTT
21118704 AAACCCAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
20 2 0.06
21 32 0.89
22 2 0.06
ACGTcount: A:0.32, C:0.30, G:0.10, T:0.29
Consensus pattern (21 bp):
GGACCCTAAACCTTAAACTTT
Found at i:21118689 original size:42 final size:42
Alignment explanation
Indices: 21118642--21118721 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 42
21118632 CTCAACCCAG
* * ** *
21118642 GACCCTCAACCTTGAACTTTGGACCCAAAACCTTAAACTCTT
1 GACCCTAAACCTTAAACTTTAAACCCAAAACCCTAAACTCTT
* *
21118684 GACCCTAAATCTTAAACTTTAAACCCAGAACCCTAAAC
1 GACCCTAAACCTTAAACTTTAAACCCAAAACCCTAAAC
21118722 CATAAACCTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 31 1.00
ACGTcount: A:0.36, C:0.33, G:0.07, T:0.24
Consensus pattern (42 bp):
GACCCTAAACCTTAAACTTTAAACCCAAAACCCTAAACTCTT
Found at i:21122091 original size:19 final size:18
Alignment explanation
Indices: 21122049--21122091 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
21122039 CGAAAAAATC
21122049 ATTTTATCTTTTTAATTT
1 ATTTTATCTTTTTAATTT
21122067 -TCTTTATCTTTTTAGATTT
1 AT-TTTATCTTTTTA-ATTT
21122086 ATTTTA
1 ATTTTA
21122092 GTTTTTCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.05
18 12 0.55
19 8 0.36
20 1 0.05
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (18 bp):
ATTTTATCTTTTTAATTT
Found at i:21127160 original size:51 final size:50
Alignment explanation
Indices: 21127092--21127405 Score: 176
Period size: 51 Copynumber: 6.5 Consensus size: 50
21127082 ACCTATTCTG
* *
21127092 CTGCAACTTTAGGGAGATAAGATTTGTAGCTTGTAGCTTTAGTCTATTCCA
1 CTGCAACTTCAGGGAGATAAGATTTGTA-CTTGTAGCTTTAATCTATTCCA
* * * * * *
21127143 GTGCAACTTCAGGGAGATAAGACTTGCTA-TAGTAGATTTAATCCGA-CCCA
1 CTGCAACTTCAGGGAGATAAGATTTG-TACTTGTAGCTTTAAT-CTATTCCA
* * * * * * * **
21127193 CTACAACTTC--GGAGGT---A-TGGGACTTATCGCTTCAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTTGTACTTGTAGCTTTAATCTATTCCA
* * *
21127237 CTGCAACTTTATGGAGATAAGATTTGTAGCTTGTAGCTTTAGTCTATTCCA
1 CTGCAACTTCAGGGAGATAAGATTTGTA-CTTGTAGCTTTAATCTATTCCA
* * * *
21127288 CTGCAACTTCAGAGAGATAAGACTTGCTA-TTGTAGATTTAATCTGA-CCCA
1 CTGCAACTTCAGGGAGATAAGATTTG-TACTTGTAGCTTTAATCT-ATTCCA
* * * **
21127338 CTGCAACTTCA--GAGGTATAG----G-ACTTGTCGCTTCAATCTGCTCCA
1 CTGCAACTTCAGGGAGATA-AGATTTGTACTTGTAGCTTTAATCTATTCCA
*
21127382 CTGCAACTTCAAGGAGATAAGATT
1 CTGCAACTTCAGGGAGATAAGATT
21127406 CGCCATGGTA
Statistics
Matches: 196, Mismatches: 46, Indels: 45
0.68 0.16 0.16
Matches are distributed among these distances:
43 3 0.02
44 47 0.24
45 4 0.02
46 10 0.05
48 10 0.05
49 3 0.02
50 51 0.26
51 64 0.33
52 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (50 bp):
CTGCAACTTCAGGGAGATAAGATTTGTACTTGTAGCTTTAATCTATTCCA
Found at i:21127261 original size:145 final size:145
Alignment explanation
Indices: 21127092--21127405 Score: 529
Period size: 145 Copynumber: 2.2 Consensus size: 145
21127082 ACCTATTCTG
* * *
21127092 CTGCAACTTTAGGGAGATAAGATTTGTAGCTTGTAGCTTTAGTCTATTCCAGTGCAACTTCAGGG
1 CTGCAACTTTAAGGAGATAAGATTTGTAGCTTGTAGCTTTAGTCTATTCCACTGCAACTTCAGAG
* *
21127157 AGATAAGACTTGCTATAGTAGATTTAATCCGACCCACTACAACTTCGGAGGTATGGGACTTATCG
66 AGATAAGACTTGCTATAGTAGATTTAATCCGACCCACTACAACTTCAGAGGTATAGGACTTATCG
21127222 CTTCAATCTGCTCCA
131 CTTCAATCTGCTCCA
*
21127237 CTGCAACTTTATGGAGATAAGATTTGTAGCTTGTAGCTTTAGTCTATTCCACTGCAACTTCAGAG
1 CTGCAACTTTAAGGAGATAAGATTTGTAGCTTGTAGCTTTAGTCTATTCCACTGCAACTTCAGAG
* * * *
21127302 AGATAAGACTTGCTATTGTAGATTTAATCTGACCCACTGCAACTTCAGAGGTATAGGACTTGTCG
66 AGATAAGACTTGCTATAGTAGATTTAATCCGACCCACTACAACTTCAGAGGTATAGGACTTATCG
21127367 CTTCAATCTGCTCCA
131 CTTCAATCTGCTCCA
*
21127382 CTGCAACTTCAAGGAGATAAGATT
1 CTGCAACTTTAAGGAGATAAGATT
21127406 CGCCATGGTA
Statistics
Matches: 158, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
145 158 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (145 bp):
CTGCAACTTTAAGGAGATAAGATTTGTAGCTTGTAGCTTTAGTCTATTCCACTGCAACTTCAGAG
AGATAAGACTTGCTATAGTAGATTTAATCCGACCCACTACAACTTCAGAGGTATAGGACTTATCG
CTTCAATCTGCTCCA
Found at i:21127343 original size:50 final size:49
Alignment explanation
Indices: 21127092--21127364 Score: 163
Period size: 50 Copynumber: 5.6 Consensus size: 49
21127082 ACCTATTCTG
* * * * *
21127092 CTGCAACTTTAGGGAGATAAGATTTGTAGCTTGTAGCTTTAGTCT-ATTCCA
1 CTGCAACTTCAGAGAGATAAGACTTGTA--TTGTAGCTTTAATCTGA-CCCA
* * * * *
21127143 GTGCAACTTCAGGGAGATAAGACTTGCTATAGTAGATTTAATCCGACCCA
1 CTGCAACTTCAGAGAGATAAGACTTG-TATTGTAGCTTTAATCTGACCCA
* * ** * *
21127193 CTACAACTTCGGAG-GTATGGGAC-T-TA---TCGCTTCAATCTG-CTCCA
1 CTGCAACTTCAGAGAG-ATAAGACTTGTATTGTAGCTTTAATCTGAC-CCA
* * * *
21127237 CTGCAACTTTATG-GAGATAAGATTTGTAGCTTGTAGCTTTAGTCT-ATTCCA
1 CTGCAACTTCA-GAGAGATAAGACTTGTA--TTGTAGCTTTAATCTGA-CCCA
*
21127288 CTGCAACTTCAGAGAGATAAGACTTGCTATTGTAGATTTAATCTGACCCA
1 CTGCAACTTCAGAGAGATAAGACTTG-TATTGTAGCTTTAATCTGACCCA
*
21127338 CTGCAACTTCAGAG-GTATAGGACTTGT
1 CTGCAACTTCAGAGAG-ATAAGACTTGT
21127365 CGCTTCAATC
Statistics
Matches: 169, Mismatches: 34, Indels: 40
0.70 0.14 0.16
Matches are distributed among these distances:
43 1 0.01
44 25 0.15
45 3 0.02
46 2 0.01
47 2 0.01
49 4 0.02
50 69 0.41
51 59 0.35
52 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (49 bp):
CTGCAACTTCAGAGAGATAAGACTTGTATTGTAGCTTTAATCTGACCCA
Found at i:21127390 original size:94 final size:91
Alignment explanation
Indices: 21127270--21127535 Score: 284
Period size: 94 Copynumber: 2.9 Consensus size: 91
21127260 TTGTAGCTTG
* * *
21127270 TAGCTTTAGTCTATTCCACTGCAACTTC-AGAGAGATAAGACTTGCTATTGTAGATTTAATCTGA
1 TAGCTTCAATCTACTCCACTGCAACTTCAAG-GAGATAAGA-TTGCTATTGTAGATTTAATCTGA
21127334 CCCACTGCAACTTCAGAGGTATAGGACTT
64 CCCACTGCAACTTCAGAGGTATAGGA-TT
* * * * *
21127363 GTCGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCGCCATGGTAGATTTAATCCGA
1 -TAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATT-GCTATTGTAGATTTAATCTGA
** * *
21127428 CTTAATGCAACTTGAGAGGTATAGGATT
64 CCCACTGCAACTTCAGAGGTATAGGATT
* * * *
21127456 TAGTTTCAATCTACTCCGCTACAACTTCAAGGAGATAAGATT-CGTAACTTGTAGCTTTAATCTG
1 TAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTGC-T-A-TTGTAGATTTAATCTG
**
21127520 TTCCACTGCAACTTCA
63 ACCCACTGCAACTTCA
21127536 AGGAAATAAG
Statistics
Matches: 140, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
90 1 0.01
92 38 0.27
93 27 0.19
94 72 0.51
95 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (91 bp):
TAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTGCTATTGTAGATTTAATCTGACC
CACTGCAACTTCAGAGGTATAGGATT
Found at i:21127567 original size:237 final size:239
Alignment explanation
Indices: 21127139--21127601 Score: 555
Period size: 237 Copynumber: 1.9 Consensus size: 239
21127129 TTTAGTCTAT
* * * *
21127139 TCCAGTGCAACTTCAGGGAGATAAGACTTGCTATAGTAGATTTAATCCGACCCACTACAACTTCG
1 TCCACTGCAACTTCAAGGAGATAAGACTTGCCATAGTAGATTTAATCCGACCCAATACAACTTCG
* * * * * * * *
21127204 GAGGTATGGGACTTATCGCTTCAATCTGCTCCACTGCAACTTTATGGAGATAAGATTTGTAGCTT
66 GAGGTATAGGACTTATAGCTTCAATCTACTCCACTACAACTTCAAGGAGATAAGATTCGTAACTT
* * * *
21127269 GTAGCTTTAGTCTATTCCACTGCAACTTCAGAGAGATAAGACTTGCTATTGTAGATTTAATCTGA
131 GTAGCTTTAATCTATTCCACTGCAACTTCAGAGAAATAAGACTTACTATTGTAGATTTAATCCGA
*
21127334 CCCACTGCAACTTCAGAGGTATAGGACTTGTCGCTTCAATCTGC
196 CCCACTACAACTTCAGAGGTATAGGACTTGTCGCTTCAATCTGC
* ** *
21127378 TCCACTGCAACTTCAAGGAGATAAGA-TTCGCCATGGTAGATTTAATCCGACTTAATGCAACTT-
1 TCCACTGCAACTTCAAGGAGATAAGACTT-GCCATAGTAGATTTAATCCGACCCAATACAACTTC
* *
21127441 GAGAGGTATAGGA-TT-TAGTTTCAATCTACTCCGCTACAACTTCAAGGAGATAAGATTCGTAAC
65 G-GAGGTATAGGACTTATAGCTTCAATCTACTCCACTACAACTTCAAGGAGATAAGATTCGTAAC
*
21127504 TTGTAGCTTTAATCTGTTCCACTGCAACTTCA-AGGAAATAAGA-TTCACTA-TG-ATGACTTTA
129 TTGTAGCTTTAATCTATTCCACTGCAACTTCAGA-GAAATAAGACTT-ACTATTGTA-GA-TTTA
* * * * *
21127565 ATCCGTCCCACTATAACTTTAGGGGTATAGGATTTGT
190 ATCCGACCCACTACAACTTCAGAGGTATAGGACTTGT
21127602 GGTTTCACTG
Statistics
Matches: 189, Mismatches: 29, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
235 1 0.01
236 7 0.04
237 114 0.60
238 5 0.03
239 62 0.33
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (239 bp):
TCCACTGCAACTTCAAGGAGATAAGACTTGCCATAGTAGATTTAATCCGACCCAATACAACTTCG
GAGGTATAGGACTTATAGCTTCAATCTACTCCACTACAACTTCAAGGAGATAAGATTCGTAACTT
GTAGCTTTAATCTATTCCACTGCAACTTCAGAGAAATAAGACTTACTATTGTAGATTTAATCCGA
CCCACTACAACTTCAGAGGTATAGGACTTGTCGCTTCAATCTGC
Found at i:21133984 original size:79 final size:81
Alignment explanation
Indices: 21133881--21134065 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
21133871 GCTACTCGTT
* * * *
21133881 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
21133944 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* * **
21133961 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGTACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
21134025 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
21134041 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21134066 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.60
80 33 0.37
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:21134065 original size:40 final size:40
Alignment explanation
Indices: 21133862--21134065 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
21133852 CGGAATTTAA
** * *
21133862 CCGGATATAGCT-ACTCGTTCAAATGCCTTTGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
21133902 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
21133942 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
21133981 CCGGA-ATTAGTATCTCGTACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
21134021 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21134061 CCGGA
1 CCGGA
21134066 CATCATTCAA
Statistics
Matches: 136, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.24
40 91 0.67
41 11 0.08
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21158177 original size:19 final size:19
Alignment explanation
Indices: 21158153--21158239 Score: 78
Period size: 19 Copynumber: 4.7 Consensus size: 19
21158143 CCAGCAATTA
21158153 AATTAACTAAGATGAACTT
1 AATTAACTAAGATGAACTT
21158172 AATTAACTAAGATGAGTAACTT
1 AATTAACTAAGAT--G-AACTT
* *
21158194 -ATT--C-CA-A-CAACTT
1 AATTAACTAAGATGAACTT
*
21158207 AATTAACTAAGATGAACTC
1 AATTAACTAAGATGAACTT
21158226 AATTAACTAAGATG
1 AATTAACTAAGATG
21158240 CGTAATTTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 18
0.70 0.06 0.23
Matches are distributed among these distances:
13 5 0.09
14 3 0.06
16 1 0.02
17 2 0.04
18 2 0.04
19 32 0.59
21 4 0.07
22 5 0.09
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (19 bp):
AATTAACTAAGATGAACTT
Found at i:21158211 original size:54 final size:55
Alignment explanation
Indices: 21158138--21158259 Score: 194
Period size: 54 Copynumber: 2.3 Consensus size: 55
21158128 CAACAATAAA
*
21158138 TTATTCCAGCAA-TTAAATTAACTAAGATGAACTTAATTAACTAAGATGAGTAAC
1 TTATTCCAGCAACTTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAC
* * *
21158192 TTATTCCAACAACTT-AATTAACTAAGATGAACTCAATTAACTAAGATGCGTAAT
1 TTATTCCAGCAACTTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAC
21158246 TTATTCCAGCAACT
1 TTATTCCAGCAACT
21158260 AAGTACTTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 60 0.97
55 2 0.03
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (55 bp):
TTATTCCAGCAACTTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAC
Found at i:21158673 original size:30 final size:29
Alignment explanation
Indices: 21158587--21158675 Score: 99
Period size: 30 Copynumber: 2.9 Consensus size: 29
21158577 CCATCTCTCT
21158587 TTATTTTTTGATTATTTGAAAATTTATTTGA
1 TTATTTTTTGATTA-TTGAAAATTTA-TTGA
* * *
21158618 TTACCTTTTTGATCAAT-AAAGATTTATTGA
1 TTA-TTTTTTGATTATTGAAA-ATTTATTGA
21158648 TTATTTTTTGATTACTTGAAAATTTATT
1 TTATTTTTTGATTA-TTGAAAATTTATT
21158676 TTTTTAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
29 9 0.19
30 18 0.38
31 12 0.25
32 9 0.19
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.56
Consensus pattern (29 bp):
TTATTTTTTGATTATTGAAAATTTATTGA
Found at i:21159116 original size:24 final size:23
Alignment explanation
Indices: 21159078--21159123 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
21159068 TTTCAATTAA
21159078 TAAAATAATTAAATAAATAAAAC
1 TAAAATAATTAAATAAATAAAAC
* *
21159101 TAAAAGTAATTGAATATATAAAA
1 TAAAA-TAATTAAATAAATAAAA
21159124 TACAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (23 bp):
TAAAATAATTAAATAAATAAAAC
Found at i:21159354 original size:31 final size:31
Alignment explanation
Indices: 21159317--21159395 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
21159307 GACCCCCAAA
* *
21159317 AAGTTTAAGTACCAACTTATGAAAAAGTGTC
1 AAGTTTAAGTACCAAATTAAGAAAAAGTGTC
*
21159348 AAGTTT-AGATACCAAATTAAGAAAAAGTGTT
1 AAGTTTAAG-TACCAAATTAAGAAAAAGTGTC
*
21159379 AAGTTCAAGTACCAAAT
1 AAGTTTAAGTACCAAAT
21159396 GTTATATTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 2 0.05
31 38 0.90
32 2 0.05
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAAGAAAAAGTGTC
Found at i:21164844 original size:16 final size:16
Alignment explanation
Indices: 21164825--21164856 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21164815 TGATAAATAA
21164825 ATCCCATCCCAAATCT
1 ATCCCATCCCAAATCT
21164841 ATCCCATCCCAAATCT
1 ATCCCATCCCAAATCT
21164857 GCCATTTCTA
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:0.31, C:0.44, G:0.00, T:0.25
Consensus pattern (16 bp):
ATCCCATCCCAAATCT
Found at i:21165958 original size:21 final size:21
Alignment explanation
Indices: 21165934--21165975 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
21165924 TTTTTATTGG
*
21165934 TTATATTTTAT-TATTTAAAAT
1 TTATATTTCATATA-TTAAAAT
21165955 TTATATTTCATATATTAAAAT
1 TTATATTTCATATATTAAAAT
21165976 GTTAACAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTATATTTCATATATTAAAAT
Found at i:21166671 original size:13 final size:13
Alignment explanation
Indices: 21166655--21166707 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
21166645 TTTAAACCAA
*
21166655 ACTTTTCAAAATC
1 ACTTTTCAAAAGC
21166668 ACTTCTT-AAAAGC
1 ACTT-TTCAAAAGC
*
21166681 ACTTTTTC-ACAGC
1 AC-TTTTCAAAAGC
21166694 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
21166707 A
1 A
21166708 TTGTCAAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
12 5 0.15
13 24 0.73
14 4 0.12
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.34
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:21166806 original size:91 final size:91
Alignment explanation
Indices: 21166641--21166806 Score: 237
Period size: 91 Copynumber: 1.8 Consensus size: 91
21166631 TGCTAAACTC
* * * * *
21166641 AAATTTTAAACCAAACTTTTCAAAATCACTTCTTAAAAGCACTTTTTCACAGCACTTTTCAAAAG
1 AAATCTTAAACCAAAATTTTCAAAATCACTTCTCAAAAGCACTTTTCCACAGCACTTTTCAAAAA
*
21166706 CATTGTCAAACTAGTCCTAAACACTT
66 CATTCTCAAACTAGTCCTAAACACTT
*
21166732 AAATCTTAAACCAAAATTTTCAAAAGT-ACTTCTCAAAATCACTTTTCCACAGCACTTTT-AAAA
1 AAATCTTAAACCAAAATTTTCAAAA-TCACTTCTCAAAAGCACTTTTCCACAGCACTTTTCAAAA
21166795 ACACTTCTCAAA
65 ACA-TTCTCAAA
21166807 AGCAATGCTA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
90 6 0.09
91 59 0.89
92 1 0.02
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.32
Consensus pattern (91 bp):
AAATCTTAAACCAAAATTTTCAAAATCACTTCTCAAAAGCACTTTTCCACAGCACTTTTCAAAAA
CATTCTCAAACTAGTCCTAAACACTT
Found at i:21169987 original size:49 final size:49
Alignment explanation
Indices: 21169910--21170003 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
21169900 TGCTATGCAA
* * *
21169910 TGCTAAACTTGGTCTTCCATTGTTTACACTCTTATCACTATTTATACAT
1 TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
21169959 TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTAT
1 TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTAT
21170004 CCCTTCTTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.44
Consensus pattern (49 bp):
TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
Found at i:21171477 original size:43 final size:43
Alignment explanation
Indices: 21171424--21171509 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
21171414 TCATATTTCA
* * * *
21171424 TTTCTTATCTCATAATCATTTCTTATATTTTTCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTTCCATTTCAATAT
* *
21171467 TTTCTCATCTCATATTCATTTATCATCTTTTCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTTCCATTTCAATAT
21171510 CAATCACATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.56
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTATCATATTTTCCATTTCAATAT
Found at i:21173802 original size:15 final size:15
Alignment explanation
Indices: 21173782--21173812 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
21173772 ACGAATGAGG
21173782 TAAAAATTATTAAAT
1 TAAAAATTATTAAAT
21173797 TAAAAATTATTAAAT
1 TAAAAATTATTAAAT
21173812 T
1 T
21173813 TGATTTCGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAAAATTATTAAAT
Found at i:21174498 original size:31 final size:31
Alignment explanation
Indices: 21174452--21174510 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
21174442 AAAAAATCAA
21174452 TAAATAAAAATATATAAA-ATTATTAAATAT
1 TAAATAAAAATATATAAATATTATTAAATAT
* *
21174482 TAAATTAAAATAATATAAATATTTTTAAA
1 TAAATAAAAAT-ATATAAATATTATTAAA
21174511 AAATTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 10 0.40
31 7 0.28
32 8 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (31 bp):
TAAATAAAAATATATAAATATTATTAAATAT
Found at i:21174500 original size:15 final size:14
Alignment explanation
Indices: 21174451--21174501 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
21174441 TAAAAAATCA
*
21174451 ATAAATAAAAATAT
1 ATAAATTAAAATAT
21174465 ATAAAATTATTAAATAT
1 AT-AAATTA--AAATAT
21174482 -TAAATTAAAATAAT
1 ATAAATTAAAAT-AT
21174496 ATAAAT
1 ATAAAT
21174502 ATTTTTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
13 4 0.13
14 4 0.13
15 16 0.52
16 1 0.03
17 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAAATTAAAATAT
Found at i:21174517 original size:33 final size:30
Alignment explanation
Indices: 21174452--21174518 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 30
21174442 AAAAAATCAA
*
21174452 TAAATAAAAATATATAAAATTATTAAATAT
1 TAAATAAAAATATATAAAATTATTAAAAAT
* *
21174482 TAAATTAAAATAATATAAATATTTTTAAAAAAT
1 TAAATAAAAAT-ATATAAA-ATTATT-AAAAAT
21174515 TAAA
1 TAAA
21174519 AATTAATATG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 10 0.32
31 7 0.23
32 5 0.16
33 9 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (30 bp):
TAAATAAAAATATATAAAATTATTAAAAAT
Found at i:21175616 original size:5 final size:5
Alignment explanation
Indices: 21175608--21175633 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
21175598 AAGCTAATGT
21175608 AATAA AATAA AATAA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AATAA A
21175634 GTGTTTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:21181753 original size:16 final size:18
Alignment explanation
Indices: 21181732--21181769 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
21181722 TTTAATTTCT
21181732 TAAAAGTT-TCAAAA-AA
1 TAAAAGTTATCAAAATAA
*
21181748 TAAAAGTTATTAAAATAA
1 TAAAAGTTATCAAAATAA
21181766 TAAA
1 TAAA
21181770 TTTATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 5 0.26
18 6 0.32
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (18 bp):
TAAAAGTTATCAAAATAA
Found at i:21183630 original size:40 final size:38
Alignment explanation
Indices: 21183586--21183687 Score: 98
Period size: 40 Copynumber: 2.6 Consensus size: 38
21183576 CGGCCCATTT
*
21183586 TTAAAATAAACATTAAAAAATTATTTTGAAAATAAAAAAA
1 TTAAAATAAAAATTAAAAAATTATTTT-AAAAT-AAAAAA
** * *
21183626 TTAAAA-AAAATTATTTTAAAAGTATTTTAAAATTAAAAA
1 TTAAAATAAAA--ATTAAAAAATTATTTTAAAATAAAAAA
21183665 TTAAAAATTAAAAATTAAAAAAT
1 TT-AAAA-TAAAAATTAAAAAAT
21183688 AAAAATAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
39 10 0.20
40 22 0.45
41 13 0.27
42 4 0.08
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (38 bp):
TTAAAATAAAAATTAAAAAATTATTTTAAAATAAAAAA
Found at i:21183664 original size:30 final size:28
Alignment explanation
Indices: 21183590--21183664 Score: 71
Period size: 30 Copynumber: 2.5 Consensus size: 28
21183580 CCATTTTTAA
21183590 AATAAACATTAAAAAATTATTTTGAAAAT
1 AATAAA-ATTAAAAAATTATTTTGAAAAT
*
21183619 AAAAAAATTAAAAAAAATTATTTT-AAAAGT
1 AATAAAATT--AAAAAATTATTTTGAAAA-T
*
21183649 ATTTTAAAATTAAAAA
1 A--ATAAAATTAAAAA
21183665 TTAAAAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
28 3 0.08
29 9 0.24
30 20 0.53
32 6 0.16
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (28 bp):
AATAAAATTAAAAAATTATTTTGAAAAT
Found at i:21183701 original size:7 final size:7
Alignment explanation
Indices: 21183654--21183700 Score: 76
Period size: 7 Copynumber: 6.7 Consensus size: 7
21183644 AAAGTATTTT
21183654 AAAATTA
1 AAAATTA
21183661 AAAATTA
1 AAAATTA
21183668 AAAATTA
1 AAAATTA
21183675 AAAATTA
1 AAAATTA
*
21183682 AAAAATA
1 AAAATTA
*
21183689 AAAATAA
1 AAAATTA
21183696 AAAAT
1 AAAAT
21183701 ATATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAATTA
Found at i:21184915 original size:24 final size:23
Alignment explanation
Indices: 21184868--21184915 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 23
21184858 TTTTATTATT
*
21184868 ATTTTATAAAATAATTTTTATAA
1 ATTTTATAAAATAATTTCTATAA
21184891 ATTTATATAAAAATAATTTCT-TAA
1 ATTT-TAT-AAAATAATTTCTATAA
21184915 A
1 A
21184916 CTTAGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 4 0.18
24 7 0.32
25 11 0.50
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTTTATAAAATAATTTCTATAA
Found at i:21185051 original size:33 final size:28
Alignment explanation
Indices: 21184985--21185067 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 28
21184975 ATTTATAAAT
21184985 TTATTTTTAAAATTATTAATAATATTAA
1 TTATTTTTAAAATTATTAATAATATTAA
21185013 TTATTTTTAAAATTCAATTAA-AATATGTAAA
1 TTATTTTTAAAATT--ATTAATAATAT-T-AA
21185044 CTATATTTTT-AAA-TATTAA-AATAT
1 -T-TATTTTTAAAATTATTAATAATAT
21185068 AACCATAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
28 14 0.29
29 15 0.31
30 6 0.12
31 3 0.06
32 4 0.08
33 7 0.14
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (28 bp):
TTATTTTTAAAATTATTAATAATATTAA
Found at i:21190427 original size:67 final size:65
Alignment explanation
Indices: 21190316--21190452 Score: 229
Period size: 67 Copynumber: 2.1 Consensus size: 65
21190306 CAAAAGTCCT
* * *
21190316 CCAAAATACATGAAAAAAAGCTCGAGTAATTGAATGTATTTAGTCGTACACGTATCTGTGAATGC
1 CCAAGATACATGAAAAAAAGCCCGAGTAATTGAATGTATTTAGTCGGACACGTATCTGTGAATGC
21190381 CCAAGATACATGAAAAAAAGTTCCCGAGTAATTGAATGTATTTAGTCGGACACGTATCTGTGAAT
1 CCAAGATACATGAAAAAAAG--CCCGAGTAATTGAATGTATTTAGTCGGACACGTATCTGTGAAT
21190446 GC
64 GC
21190448 CCAAG
1 CCAAG
21190453 TTCGAGTAAC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
65 19 0.28
67 48 0.72
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (65 bp):
CCAAGATACATGAAAAAAAGCCCGAGTAATTGAATGTATTTAGTCGGACACGTATCTGTGAATGC
Found at i:21191675 original size:91 final size:92
Alignment explanation
Indices: 21191487--21191675 Score: 267
Period size: 91 Copynumber: 2.1 Consensus size: 92
21191477 ATGAAATAAG
* *
21191487 GTTACTTGTACTTTTATAAAATGTCCAATGTGGTATTTGTACTTTAAAAATATTCAATATGATAC
1 GTTACTTGTACTTTTATAAAATGACCAATGTGGTACTTGTACTTTAAAAATATTCAATATGATAC
*
21191552 CTAAACTATCAATTTATGTATTTTTTC
66 CTAAACTATCAATTTATGTATTATTTC
* *
21191579 G-TACTTGTTCTTTTATAAAATGACCAATGTGGTACTTGTACTTTAAAAATA-TCGAATGTGATA
1 GTTACTTGTACTTTTATAAAATGACCAATGTGGTACTTGTACTTTAAAAATATTC-AATATGATA
** * *
21191642 TTTAAAGTATCAATTTGTGTATTATTT-
65 CCTAAACTATCAATTTATGTATTATTTC
21191669 GTTACTT
1 GTTACTT
21191676 AGGTATTTAT
Statistics
Matches: 86, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
90 3 0.03
91 82 0.95
92 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.46
Consensus pattern (92 bp):
GTTACTTGTACTTTTATAAAATGACCAATGTGGTACTTGTACTTTAAAAATATTCAATATGATAC
CTAAACTATCAATTTATGTATTATTTC
Found at i:21192333 original size:91 final size:91
Alignment explanation
Indices: 21192238--21192403 Score: 224
Period size: 91 Copynumber: 1.8 Consensus size: 91
21192228 TACATTGCAT
* ** * * * *
21192238 ATTTTCAAAGTATAAGTATTATAGTAGACATTTTATGAAATTATAAGTACCAAATAATACACAAA
1 ATTTTCAAAGTACAAGTACCACAGTAAACATTTTATGAAAGTACAAGTACCAAATAATACACAAA
*
21192303 TTGATAGTTCTAGTGCCACAATGTAC
66 TTAATAGTTCTAGTGCCACAATGTAC
* * * *
21192329 ATTTTTAAAGTACAAGTACCACATTAAACATTTTATGAAAGTACAGGTACCAAATAATACACTAA
1 ATTTTCAAAGTACAAGTACCACAGTAAACATTTTATGAAAGTACAAGTACCAAATAATACACAAA
21192394 TTAATAGTTC
66 TTAATAGTTC
21192404 AAGTATCACA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
91 63 1.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (91 bp):
ATTTTCAAAGTACAAGTACCACAGTAAACATTTTATGAAAGTACAAGTACCAAATAATACACAAA
TTAATAGTTCTAGTGCCACAATGTAC
Found at i:21192440 original size:91 final size:91
Alignment explanation
Indices: 21192265--21192440 Score: 221
Period size: 91 Copynumber: 1.9 Consensus size: 91
21192255 ATTATAGTAG
* * * * *
21192265 ACATTTTATGAAATTATAAGTACCAAATAATACACAAATTGATAGTTCTAGTGCCACAATGTACA
1 ACATTTTATGAAAGTACAAGTACCAAATAATACACAAATTAATAGTTCAAGTACCACAATGTACA
* * *
21192330 TTTTTAAAGTACAAGTACCACATTAA
66 TTTTTAAAATAAAAATACCACATTAA
* * *
21192356 ACATTTTATGAAAGTACAGGTACCAAATAATACACTAATTAATAGTTCAAGTATCAC-AT-TAGC
1 ACATTTTATGAAAGTACAAGTACCAAATAATACACAAATTAATAGTTCAAGTACCACAATGTA--
21192419 CATTTTTAAAATAAAAATACCA
64 CATTTTTAAAATAAAAATACCA
21192441 TATTTGAATG
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
89 2 0.03
90 2 0.03
91 68 0.94
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.31
Consensus pattern (91 bp):
ACATTTTATGAAAGTACAAGTACCAAATAATACACAAATTAATAGTTCAAGTACCACAATGTACA
TTTTTAAAATAAAAATACCACATTAA
Found at i:21194926 original size:17 final size:18
Alignment explanation
Indices: 21194893--21194926 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21194883 ATGTATCTCA
*
21194893 TTTCTTTTATATATTTAT
1 TTTCTTTAATATATTTAT
21194911 TTTCTTTAATAT-TTTA
1 TTTCTTTAATATATTTA
21194927 CCATACCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTCTTTAATATATTTAT
Found at i:21195914 original size:9 final size:9
Alignment explanation
Indices: 21195895--21195949 Score: 85
Period size: 9 Copynumber: 6.2 Consensus size: 9
21195885 TCGGGTATTT
21195895 TTCGG-TAA
1 TTCGGTTAA
21195903 TTCGGTTAA
1 TTCGGTTAA
21195912 TTCGGTTAA
1 TTCGGTTAA
21195921 TTCGGTTAA
1 TTCGGTTAA
*
21195930 TTCGGGTAA
1 TTCGGTTAA
*
21195939 TTCGGGTAA
1 TTCGGTTAA
21195948 TT
1 TT
21195950 TTTAACCAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
8 5 0.11
9 40 0.89
ACGTcount: A:0.22, C:0.11, G:0.25, T:0.42
Consensus pattern (9 bp):
TTCGGTTAA
Found at i:21196127 original size:12 final size:12
Alignment explanation
Indices: 21196110--21196134 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21196100 AGTAATTTCG
21196110 GGTCGGTTAACC
1 GGTCGGTTAACC
21196122 GGTCGGTTAACC
1 GGTCGGTTAACC
21196134 G
1 G
21196135 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:21198254 original size:89 final size:90
Alignment explanation
Indices: 21198082--21198262 Score: 355
Period size: 90 Copynumber: 2.0 Consensus size: 90
21198072 ACAATAGACT
21198082 CAGGTGGAGATTTTTTTTCTCACCTTGCCCTGAATTTTATTTAATATTTTAGCCTCACCTAACCC
1 CAGGTGGAGATTTTTTTTCTCACCTTGCCCTGAATTTTATTTAATATTTTAGCCTCACCTAACCC
21198147 ATCATTGAAAAGATTTTCTTGATCC
66 ATCATTGAAAAGATTTTCTTGATCC
21198172 CAGGTGGAGATTTTTTTTCTCACCTTGCCCTGAATTTTATTTAATATTTTAGCCTCA-CTAACCC
1 CAGGTGGAGATTTTTTTTCTCACCTTGCCCTGAATTTTATTTAATATTTTAGCCTCACCTAACCC
21198236 ATCATTGAAAAGATTTTCTTGATCC
66 ATCATTGAAAAGATTTTCTTGATCC
21198261 CA
1 CA
21198263 TCTTGATTCA
Statistics
Matches: 91, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
89 34 0.37
90 57 0.63
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (90 bp):
CAGGTGGAGATTTTTTTTCTCACCTTGCCCTGAATTTTATTTAATATTTTAGCCTCACCTAACCC
ATCATTGAAAAGATTTTCTTGATCC
Found at i:21199878 original size:12 final size:13
Alignment explanation
Indices: 21199850--21199892 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
21199840 CTATCAAATC
**
21199850 TTTTTAAAAGCAT
1 TTTTTAAAAATAT
* *
21199863 TTTTTTACAATAT
1 TTTTTAAAAATAT
21199876 TTTTTAAAAATAT
1 TTTTTAAAAATAT
21199889 TTTT
1 TTTT
21199893 CAACCTCAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (13 bp):
TTTTTAAAAATAT
Found at i:21206061 original size:10 final size:10
Alignment explanation
Indices: 21206046--21206071 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
21206036 ATGGAGTCAA
21206046 AAAATAAAAC
1 AAAATAAAAC
21206056 AAAATAAAAC
1 AAAATAAAAC
21206066 AAAATA
1 AAAATA
21206072 TTTTATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.12
Consensus pattern (10 bp):
AAAATAAAAC
Found at i:21207441 original size:18 final size:17
Alignment explanation
Indices: 21207426--21207460 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
21207416 TTAAAATTGG
21207426 ATTAGATAAAAAAATTA
1 ATTAGATAAAAAAATTA
*
21207443 ATTATAT-AAAAAATTA
1 ATTAGATAAAAAAATTA
21207459 AT
1 AT
21207461 AATCTAATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
ATTAGATAAAAAAATTA
Found at i:21218430 original size:40 final size:40
Alignment explanation
Indices: 21218377--21218516 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 40
21218367 AACACACAAG
* *
21218377 TTTGGCATCCAGTGCCTCATCGGATAATTCGAAGTAATAA
1 TTTGACATCCAGTGCCTCATCGGATAAATCGAAGTAATAA
* * *
21218417 TTTGACATTCAGTGTCTCATCGGCTAAATCGAAGT-A-AA
1 TTTGACATCCAGTGCCTCATCGGATAAATCGAAGTAATAA
* * * * *
21218455 -TTGGCACCCAGTGCCTCATCGAATTAATCTGAAGTAGTAA
1 TTTGACATCCAGTGCCTCATCGGATAAATC-GAAGTAATAA
* * *
21218495 ATTGACACCCAGTGTCTCATCG
1 TTTGACATCCAGTGCCTCATCG
21218517 ACTCGAAGTC
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
37 22 0.27
38 7 0.09
39 1 0.01
40 32 0.40
41 19 0.23
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (40 bp):
TTTGACATCCAGTGCCTCATCGGATAAATCGAAGTAATAA
Found at i:21225978 original size:40 final size:40
Alignment explanation
Indices: 21225929--21226068 Score: 126
Period size: 40 Copynumber: 3.5 Consensus size: 40
21225919 AACACACCAG
*
21225929 TTTGGCACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
1 TTTGGCACCCAGTGCCTCATCGGATAATACGAAGTAATAA
* * * *
21225969 TTTGACACCCAGTGTCTCATTGGCTAA-ACTGAAGT-A-AA
1 TTTGGCACCCAGTGCCTCATCGGATAATAC-GAAGTAATAA
* * * *
21226007 -TTGGCACCTAGTGCCTCATCGAATTAATCCGAAGTAGTAA
1 TTTGGCACCCAGTGCCTCATCGGA-TAATACGAAGTAATAA
** *
21226047 TTTTTCACCCAGTGTCTCATCG
1 TTTGGCACCCAGTGCCTCATCG
21226069 ACTCGAAGTC
Statistics
Matches: 77, Mismatches: 17, Indels: 11
0.73 0.16 0.10
Matches are distributed among these distances:
37 17 0.22
38 10 0.13
39 3 0.04
40 30 0.39
41 17 0.22
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (40 bp):
TTTGGCACCCAGTGCCTCATCGGATAATACGAAGTAATAA
Found at i:21226555 original size:19 final size:20
Alignment explanation
Indices: 21226516--21226556 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
21226506 TACAACACAA
* *
21226516 TTCAATTTCTTATTGAATAT
1 TTCAATTTCTTACTCAATAT
21226536 TTCAATTT-TTACTCAATAT
1 TTCAATTTCTTACTCAATAT
21226555 TT
1 TT
21226557 GCCTAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCTTACTCAATAT
Found at i:21229018 original size:5 final size:5
Alignment explanation
Indices: 21229008--21229047 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
21228998 TCAAGAAGCT
21229008 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
21229048 CTAATTCTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:21234510 original size:27 final size:27
Alignment explanation
Indices: 21234474--21234718 Score: 159
Period size: 27 Copynumber: 9.1 Consensus size: 27
21234464 AGAGTTCAAT
*
21234474 AAATTACCGAAATACCCTCGATAGGTA
1 AAATAACCGAAATACCCTCGATAGGTA
* *
21234501 AAATTACCGAAATA-CCTCGAAAGGTA
1 AAATAACCGAAATACCCTCGATAGGTA
* * * *
21234527 AAATTATCAAAATAACCTCGA-AGGGTA
1 AAATAACCGAAATACCCTCGATA-GGTA
* **
21234554 AAATGATTGAAATACCCTCGA-ATGGTA
1 AAATAACCGAAATACCCTCGATA-GGTA
*
21234581 AAATGACCGAAATACCCTCGA-AGGGTA
1 AAATAACCGAAATACCCTCGATA-GGTA
* *
21234608 AAATAATCAGAAA-ACCC-CTATAGGATA
1 AAATAA-CCGAAATACCCTCGATAGG-TA
* *
21234635 AAATAACCGTAATGCACCT-G-TAGGTA
1 AAATAACCGAAATAC-CCTCGATAGGTA
* * *
21234661 AAATAATCGTAATACCCTC-ATAGGGTT
1 AAATAACCGAAATACCCTCGATA-GGTA
* * *
21234688 AAATGACTGAAATACCCT-TATAAGGTA
1 AAATAACCGAAATACCCTCGAT-AGGTA
21234715 AAAT
1 AAAT
21234719 GACTGTAATA
Statistics
Matches: 179, Mismatches: 26, Indels: 26
0.77 0.11 0.11
Matches are distributed among these distances:
25 3 0.02
26 49 0.27
27 119 0.66
28 8 0.04
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (27 bp):
AAATAACCGAAATACCCTCGATAGGTA
Found at i:21234600 original size:54 final size:53
Alignment explanation
Indices: 21234474--21234611 Score: 179
Period size: 54 Copynumber: 2.6 Consensus size: 53
21234464 AGAGTTCAAT
*
21234474 AAATTACCGAAATACCCTCGATA-GGTAAAATTACCGAAATACCTCGAAAGGTA
1 AAATTACCGAAATACCCTCGA-AGGGTAAAATGACCGAAATACCTCGAAAGGTA
* * * ** *
21234527 AAATTATCAAAATAACCTCGAAGGGTAAAATGATTGAAATACCCTCGAATGGTA
1 AAATTACCGAAATACCCTCGAAGGGTAAAATGACCGAAATA-CCTCGAAAGGTA
*
21234581 AAATGACCGAAATACCCTCGAAGGGTAAAAT
1 AAATTACCGAAATACCCTCGAAGGGTAAAAT
21234612 AATCAGAAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
52 1 0.01
53 33 0.46
54 38 0.53
ACGTcount: A:0.44, C:0.18, G:0.17, T:0.21
Consensus pattern (53 bp):
AAATTACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCTCGAAAGGTA
Found at i:21234719 original size:27 final size:26
Alignment explanation
Indices: 21234671--21234748 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 26
21234661 AAATAATCGT
*
21234671 AATACCCTCATAGGGTTAAATGACTGA
1 AATACCCTTATAGGG-TAAATGACTGA
* *
21234698 AATACCCTTATAAGGTAAAATGACTGT
1 AATACCCTTATAGGGT-AAATGACTGA
* *
21234725 AATACCCCTAGAGGGTAAATGACT
1 AATACCCTTATAGGGTAAATGACT
21234749 ATTTTGCCCC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 9 0.20
27 35 0.80
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (26 bp):
AATACCCTTATAGGGTAAATGACTGA
Found at i:21234780 original size:26 final size:25
Alignment explanation
Indices: 21234729--21234828 Score: 80
Period size: 24 Copynumber: 4.0 Consensus size: 25
21234719 GACTGTAATA
*
21234729 CCCCTAGAGGGTAAATGACT-ATTTTG
1 CCCCT-GAGTGTAAATGACTGA-TTTG
*
21234755 CCCCTCGAGTGTAAATGATTGATTTG
1 CCCCT-GAGTGTAAATGACTGATTTG
* *
21234781 TCCGTGA-TGTAAATGACTGATTTG
1 CCCCTGAGTGTAAATGACTGATTTG
* ** *
21234805 TCTGTGA-TTTAAATGACTGATTTG
1 CCCCTGAGTGTAAATGACTGATTTG
21234829 TTATTGATTG
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
24 38 0.58
25 2 0.03
26 24 0.37
27 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (25 bp):
CCCCTGAGTGTAAATGACTGATTTG
Found at i:21234796 original size:24 final size:24
Alignment explanation
Indices: 21234764--21234829 Score: 105
Period size: 24 Copynumber: 2.8 Consensus size: 24
21234754 GCCCCTCGAG
*
21234764 TGTAAATGATTGATTTGTCCGTGA
1 TGTAAATGACTGATTTGTCCGTGA
*
21234788 TGTAAATGACTGATTTGTCTGTGA
1 TGTAAATGACTGATTTGTCCGTGA
*
21234812 TTTAAATGACTGATTTGT
1 TGTAAATGACTGATTTGT
21234830 TATTGATTGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.44
Consensus pattern (24 bp):
TGTAAATGACTGATTTGTCCGTGA
Found at i:21234826 original size:48 final size:48
Alignment explanation
Indices: 21234766--21234874 Score: 132
Period size: 48 Copynumber: 2.3 Consensus size: 48
21234756 CCCTCGAGTG
* *
21234766 TAAATGATTGATTTGTCCGTGA-T-GTAAATGACTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCAGTGATTGGT--ATGACTGATTTGTCTGTGATT
* *
21234814 TAAATGACTGATTTGTTATTGATTGGTATGACTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCAGTGATTGGTATGACTGATTTGTCTGTGATT
**
21234862 TGTATGACTGATT
1 TAAATGACTGATT
21234875 CTGAGCATGA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
48 50 0.94
49 1 0.02
50 2 0.04
ACGTcount: A:0.24, C:0.07, G:0.23, T:0.46
Consensus pattern (48 bp):
TAAATGACTGATTTGTCAGTGATTGGTATGACTGATTTGTCTGTGATT
Found at i:21234836 original size:24 final size:23
Alignment explanation
Indices: 21234766--21234874 Score: 101
Period size: 24 Copynumber: 4.6 Consensus size: 23
21234756 CCCTCGAGTG
* * *
21234766 TAAATGATTGATTTGTCCGTGATG
1 TAAATGACTGATTTGT-TGTGATT
21234790 TAAATGACTGATTTGTCTGTGATT
1 TAAATGACTGATTTGT-TGTGATT
*
21234814 TAAATGACTGATTTGTTATTGATT
1 TAAATGACTGATTTGTT-GTGATT
***
21234838 GGTATGACTGATTTGTCTGTGATT
1 TAAATGACTGATTTGT-TGTGATT
**
21234862 TGTATGACTGATT
1 TAAATGACTGATT
21234875 CTGAGCATGA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
23 1 0.01
24 72 0.97
25 1 0.01
ACGTcount: A:0.24, C:0.07, G:0.23, T:0.46
Consensus pattern (23 bp):
TAAATGACTGATTTGTTGTGATT
Found at i:21234999 original size:27 final size:27
Alignment explanation
Indices: 21234943--21234999 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
21234933 GGAAGTACTG
* *
21234943 TACTGGTGGCTCTACCACAATCACTGT
1 TACTAGTGGCTCTACCACAATCACTAT
21234970 TACTAGTGGCT-TGACCACATAT-ACTAT
1 TACTAGTGGCTCT-ACCACA-ATCACTAT
21234997 TAC
1 TAC
21235000 GGGCAACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 1 0.04
27 23 0.88
28 2 0.08
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (27 bp):
TACTAGTGGCTCTACCACAATCACTAT
Found at i:21235019 original size:26 final size:26
Alignment explanation
Indices: 21234990--21235040 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
21234980 TTGACCACAT
21234990 ATACTATTACGGGCAACTTTGCTGCG
1 ATACTATTACGGGCAACTTTGCTGCG
* * *
21235016 ATACTATTGCTGGCAGCTTTGCTGC
1 ATACTATTACGGGCAACTTTGCTGC
21235041 AATGCTGCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (26 bp):
ATACTATTACGGGCAACTTTGCTGCG
Found at i:21235090 original size:32 final size:32
Alignment explanation
Indices: 21235048--21235184 Score: 168
Period size: 32 Copynumber: 4.3 Consensus size: 32
21235038 TGCAATGCTG
*
21235048 CTGATGGCTTTGTGCCGATCATATTACCATTA
1 CTGATGGCTTTGTGCCGATCATATTACCGTTA
* *
21235080 TTGATGGCTTTGTGCTGATCATATTACCGTTA
1 CTGATGGCTTTGTGCCGATCATATTACCGTTA
* * * * *
21235112 CTGATGGCTGTGTGCCGGTCATATCACTGCTA
1 CTGATGGCTTTGTGCCGATCATATTACCGTTA
* *
21235144 CTGATGGCTTTGTGCCAATCATATTACTG-TA
1 CTGATGGCTTTGTGCCGATCATATTACCGTTA
*
21235175 CTTATGGCTT
1 CTGATGGCTT
21235185 GTAGCCATTC
Statistics
Matches: 90, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
31 11 0.12
32 79 0.88
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (32 bp):
CTGATGGCTTTGTGCCGATCATATTACCGTTA
Found at i:21239446 original size:62 final size:62
Alignment explanation
Indices: 21239374--21239502 Score: 231
Period size: 62 Copynumber: 2.1 Consensus size: 62
21239364 GTAATATCTA
21239374 AAGTAATAAACACTTAATCAAAATCGTATCTTTTTGATTTGTCTAGGATGAGCGCTTCGATC
1 AAGTAATAAACACTTAATCAAAATCGTATCTTTTTGATTTGTCTAGGATGAGCGCTTCGATC
* * *
21239436 GAGTAATAAACACTTAATCAAAATTGTATCTTTTTGATTTGTCTAGGATGAGCGCTTTGATC
1 AAGTAATAAACACTTAATCAAAATCGTATCTTTTTGATTTGTCTAGGATGAGCGCTTCGATC
21239498 AAGTA
1 AAGTA
21239503 GTTTTCTCCA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (62 bp):
AAGTAATAAACACTTAATCAAAATCGTATCTTTTTGATTTGTCTAGGATGAGCGCTTCGATC
Found at i:21239942 original size:25 final size:27
Alignment explanation
Indices: 21239886--21239951 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 27
21239876 ATAAACATTA
*
21239886 TATTAAAATTAATATTAAGATAATCAC
1 TATTAAAATTAATATTAAGAAAATCAC
* *
21239913 T-TTAATATTAA-ATTAATAAAAT-AC
1 TATTAAAATTAATATTAAGAAAATCAC
* *
21239937 TATTAAGATAAATAT
1 TATTAAAATTAATAT
21239952 AAAATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
24 3 0.09
25 17 0.53
26 11 0.34
27 1 0.03
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (27 bp):
TATTAAAATTAATATTAAGAAAATCAC
Found at i:21241618 original size:15 final size:15
Alignment explanation
Indices: 21241598--21241627 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21241588 CTATGCATGC
*
21241598 AAAATATAAAAGACA
1 AAAATACAAAAGACA
21241613 AAAATACAAAAGACA
1 AAAATACAAAAGACA
21241628 TAATAGGGAA
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:0.73, C:0.10, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAATACAAAAGACA
Found at i:21245816 original size:18 final size:18
Alignment explanation
Indices: 21245793--21245827 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21245783 CAAGAATGGT
*
21245793 AAGCATCAAAATGGTTTC
1 AAGCATCAAAATAGTTTC
*
21245811 AAGCATGAAAATAGTTT
1 AAGCATCAAAATAGTTT
21245828 GGCACATCGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (18 bp):
AAGCATCAAAATAGTTTC
Found at i:21259499 original size:3 final size:3
Alignment explanation
Indices: 21259481--21259528 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
21259471 TGCCCCTACA
* *
21259481 ACC ACC AGC ACG ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC
1 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC
21259529 GCGACATCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.33, C:0.62, G:0.04, T:0.00
Consensus pattern (3 bp):
ACC
Found at i:21259778 original size:281 final size:281
Alignment explanation
Indices: 21259275--21259836 Score: 1097
Period size: 281 Copynumber: 2.0 Consensus size: 281
21259265 GATGATATAT
*
21259275 CGAGTCCAACCAACGTTCCGTTTTTATATTTTTCCGATGCCGATCTTTTCTCAGAAGCCTTGCAA
1 CGAGTCCAACCAACGTTCCGTTTTTATATTTTTCCGATGCCGATCTTTTCTCAGAAGCCTTACAA
*
21259340 AACTCTGAGGTTACTTCTAATTGTTGTTACAAAGATCAGAACTCTTCGTTTGGCAATAATCTTAC
66 AACTCTGAGGTTACTTCTAATTGTTGTTACAAAGATCACAACTCTTCGTTTGGCAATAATCTTAC
21259405 TATACCACTAGATATTGAACAACTCAACAATGGACACCATGACAATACAGGAAATACTAACCCAA
131 TATACCACTAGATATTGAACAACTCAACAATGGACACCATGACAATACAGGAAATACTAACCCAA
21259470 TTGCCCCTACAACCACCAGCACGACCACCACCACCACCACCACCACCACCACCACCACCGCGACA
196 TTGCCCCTACAACCACCAGCACGACCACCACCACCACCACCACCACCACCACCACCACCGCGACA
21259535 TCCTCCGCTAACTACAACATC
261 TCCTCCGCTAACTACAACATC
*
21259556 CGAGTCCAACCAACGTTCCGTTTTTATATTTTTCCGATGCCGATCTTTTCTCAGCAGCCTTACAA
1 CGAGTCCAACCAACGTTCCGTTTTTATATTTTTCCGATGCCGATCTTTTCTCAGAAGCCTTACAA
21259621 AACTCTGAGGTTACTTCTAATTGTTGTTACAAAGATCACAACTCTTCGTTTGGCAATAATCTTAC
66 AACTCTGAGGTTACTTCTAATTGTTGTTACAAAGATCACAACTCTTCGTTTGGCAATAATCTTAC
21259686 TATACCACTAGATATTGAACAACTCAACAATGGACACCATGACAATACAGGAAATACTAACCCAA
131 TATACCACTAGATATTGAACAACTCAACAATGGACACCATGACAATACAGGAAATACTAACCCAA
21259751 TTGCCCCTACAACCACCAGCACGACCACCACCACCACCACCACCACCACCACCACCACCGCGACA
196 TTGCCCCTACAACCACCAGCACGACCACCACCACCACCACCACCACCACCACCACCACCGCGACA
21259816 TCCTCCGCTAACTACAACATC
261 TCCTCCGCTAACTACAACATC
21259837 ACCGCCACCG
Statistics
Matches: 278, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
281 278 1.00
ACGTcount: A:0.32, C:0.33, G:0.11, T:0.24
Consensus pattern (281 bp):
CGAGTCCAACCAACGTTCCGTTTTTATATTTTTCCGATGCCGATCTTTTCTCAGAAGCCTTACAA
AACTCTGAGGTTACTTCTAATTGTTGTTACAAAGATCACAACTCTTCGTTTGGCAATAATCTTAC
TATACCACTAGATATTGAACAACTCAACAATGGACACCATGACAATACAGGAAATACTAACCCAA
TTGCCCCTACAACCACCAGCACGACCACCACCACCACCACCACCACCACCACCACCACCGCGACA
TCCTCCGCTAACTACAACATC
Found at i:21259780 original size:3 final size:3
Alignment explanation
Indices: 21259762--21259809 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
21259752 TGCCCCTACA
* *
21259762 ACC ACC AGC ACG ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC
1 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC
21259810 GCGACATCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.33, C:0.62, G:0.04, T:0.00
Consensus pattern (3 bp):
ACC
Found at i:21260673 original size:15 final size:14
Alignment explanation
Indices: 21260654--21260683 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
21260644 CAACTCTTAA
21260654 TAAAAAATCTTAGG
1 TAAAAAATCTTAGG
21260668 TAAAAAATCTTAGG
1 TAAAAAATCTTAGG
21260682 TA
1 TA
21260684 GTACATTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (14 bp):
TAAAAAATCTTAGG
Found at i:21265411 original size:20 final size:20
Alignment explanation
Indices: 21265339--21265413 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 20
21265329 AAAGAATATT
*
21265339 TAAAATAATGCATAATAAAA
1 TAAAATAATACATAATAAAA
* *
21265359 TAGAATAATACATGATAAAAGCA
1 TAAAATAATACATAAT-AAA--A
21265382 TTACAAAATAATACATAATAAAA
1 -T--AAAATAATACATAATAAAA
21265405 TAAAATAAT
1 TAAAATAAT
21265414 GTAAAATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
20 21 0.48
21 3 0.07
22 1 0.02
23 2 0.05
24 1 0.02
25 3 0.07
26 13 0.30
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.25
Consensus pattern (20 bp):
TAAAATAATACATAATAAAA
Found at i:21265490 original size:15 final size:15
Alignment explanation
Indices: 21265472--21265508 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
21265462 CTATATTAAT
21265472 AATAGTAATAATAAC
1 AATAGTAATAATAAC
* *
21265487 AATAATGATAATAAC
1 AATAGTAATAATAAC
21265502 AATAGTA
1 AATAGTA
21265509 TTATAAATTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.27
Consensus pattern (15 bp):
AATAGTAATAATAAC
Found at i:21267129 original size:44 final size:42
Alignment explanation
Indices: 21266984--21267187 Score: 153
Period size: 44 Copynumber: 4.7 Consensus size: 42
21266974 CTATTCTCAG
* * * * * *
21266984 TCTGCCCCACTGCAACTTTAGGGGGATATGACTTGCTTCTTATG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGGTT-TTA-A
* ***
21267028 TCTGCTCCACTGCAACTTCAGGGAGATAAGAC-TGGATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGGTTTTAA
* * * *
21267069 TCTACTCTACTGCAACTTTAGAGAGATAAGATCTATGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGGTTTTAA
* *
21267113 TCTGCTCCACTGCAACTTCAGGGAGATAGGA-TTGG-TTTAT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGGTTTTAA
* *
21267153 TCTGTCTGCTTCACTGTAACTTTAGGGAGATAAGA
1 TCTG-CT-C--CACTGCAACTTCAGGGAGATAAGA
21267188 TTCACAATCT
Statistics
Matches: 126, Mismatches: 27, Indels: 14
0.75 0.16 0.08
Matches are distributed among these distances:
40 8 0.06
41 32 0.25
42 3 0.02
43 3 0.02
44 80 0.63
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (42 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGGTTTTAA
Found at i:21267547 original size:88 final size:88
Alignment explanation
Indices: 21267440--21267995 Score: 599
Period size: 88 Copynumber: 6.3 Consensus size: 88
21267430 GCTATTAGTG
* * * *
21267440 CAGGAAGGCAAGATTTGCTATTTTCAACCTGTTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTC
* * * *
21267505 TTCGATCTGCTTCAATGTCAGCA
66 TTCAATCTGCTTCACTGTCGGTA
*** * * *
21267528 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCTATTTGCAACTCAGGGAGGTAAGGCTGGTAT
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC-CGCTGCAACCCAGGGAGGCAAGGCTGGTGT
*
21267593 CTTCAATCTGCTTCACTGTCGGTG
65 CTTCAATCTGCTTCACTGTCGGTA
* ** * *
21267617 CAGAAAAACAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTGTC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTC
** *
21267682 TTTGATCTGCTTCACTATCGGTA
66 TTCAATCTGCTTCACTGTCGGTA
* * * * * * * * * *
21267705 CAGGAAAGCAAAATCTGCTATTTTTAGCCTACTCTGTTGCAACACAGGGAGGCAAGGCTGGTATC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTC
* * * *
21267770 TTCAATCTGCTTCGCTATCAGTG
66 TTCAATCTGCTTCACTGTCGGTA
* **** * *
21267793 CAGGAAGGCAAGATCTTCTATCTTCAACCTGCTTAATTGCAACCGAGAGAGGCAAGGCTGGTGTC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTC
* * * *
21267858 TTTAATCTGATTCACTGTCGATG
66 TTCAATCTGCTTCACTGTCGGTA
* * * **
21267881 CAGGAAGGCAAGATCTGCTATTTTTTAACCTACTCCGCTATAACCCAGGGAGGCAAGGCTGGTGT
1 CAGGAAGGCAAGATCTGCTA-TCTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGT
* *
21267946 CTTCAATCTGCTTCGCTGTCGGTG
65 CTTCAATCTGCTTCACTGTCGGTA
21267970 CAGGAAGGCAAGATCTGCTATCTTCA
1 CAGGAAGGCAAGATCTGCTATCTTCA
21267996 CTGATCTGTT
Statistics
Matches: 381, Mismatches: 85, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
88 235 0.62
89 146 0.38
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (88 bp):
CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTC
TTCAATCTGCTTCACTGTCGGTA
Found at i:21267560 original size:45 final size:45
Alignment explanation
Indices: 21267511--21267649 Score: 111
Period size: 45 Copynumber: 3.1 Consensus size: 45
21267501 TGTCTTCGAT
21267511 CTGCTTCAATGTCAGCACAGGAAGGCAAGATCTGCTATCTTCAAC
1 CTGCTTCAATGTCAGCACAGGAAGGCAAGATCTGCTATCTTCAAC
* * * * * * * * *
21267556 CTGC-TCTATTTGCAACTCAGGGAGGTAAG-GCTGGTATCTTCAAT
1 CTGCTTCAATGT-CAGCACAGGAAGGCAAGATCTGCTATCTTCAAC
* * ** * **
21267600 CTGCTTCACTGTCGGTGCAGAAAAACAAGATCTGCTATCTTCAAC
1 CTGCTTCAATGTCAGCACAGGAAGGCAAGATCTGCTATCTTCAAC
21267645 CTGCT
1 CTGCT
21267650 CCACTGCAAC
Statistics
Matches: 67, Mismatches: 24, Indels: 6
0.69 0.25 0.06
Matches are distributed among these distances:
44 29 0.43
45 38 0.57
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (45 bp):
CTGCTTCAATGTCAGCACAGGAAGGCAAGATCTGCTATCTTCAAC
Found at i:21267683 original size:177 final size:174
Alignment explanation
Indices: 21267437--21267995 Score: 704
Period size: 177 Copynumber: 3.2 Consensus size: 174
21267427 TTCGCTATTA
* * * * * *
21267437 GTGCAGGAAGGCAAGATTTGCTATTTTCAACCTGTTCCGCTGCAACCCAGGGAGGCAAGGCTAGT
1 GTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGT
* * * * *
21267502 GTCTTCGATCTGCTTCAATGTCAGCACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCTATTT
66 GTCTTTGATCTGCTTCACTGTC-G-ACAGGAAGGCAAGATCTGCTATTTTTAACCTACTCT-TTT
* * *
21267567 GCAACTCAGGGAGGTAAGGCTGGTATCTTCAATCTGCTTCACTGTCG
128 GCAACACAGGGAGGCAAGGCTGGTATCTTCAATCTGCTTCGCTGTCG
* **
21267614 GTGCAGAAAAACAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGT
1 GTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGT
* * * * *
21267679 GTCTTTGATCTGCTTCACTATCGGTACAGGAAAGCAAAATCTGCTATTTTTAGCCTACTCTGTTG
66 GTCTTTGATCTGCTTCACTGTC-G-ACAGGAAGGCAAGATCTGCTATTTTTAACCTACTCTTTTG
* *
21267744 CAACACAGGGAGGCAAGGCTGGTATCTTCAATCTGCTTCGCTATCA
129 CAACACAGGGAGGCAAGGCTGGTATCTTCAATCTGCTTCGCTGTCG
* ** * *
21267790 GTGCAGGAAGGCAAGATCTTCTATCTTCAACCTGCTTAATTGCAACCGAGAGAGGCAAGGCTGGT
1 GTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGT
* * ***
21267855 GTCTTTAATCTGATTCACTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTTAACCTACTCCGCT
66 GTCTTTGATCTGCTTCACTGTCGA--CAGGAAGGCAAGATCTGCTA-TTTTTAACCTACTCTTTT
** * *
21267920 ATAACCCAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCG
128 GCAACACAGGGAGGCAAGGCTGGTATCTTCAATCTGCTTCGCTGTCG
21267967 GTGCAGGAAGGCAAGATCTGCTATCTTCA
1 GTGCAGGAAGGCAAGATCTGCTATCTTCA
21267996 CTGATCTGTT
Statistics
Matches: 330, Mismatches: 49, Indels: 6
0.86 0.13 0.02
Matches are distributed among these distances:
174 1 0.00
175 1 0.00
176 138 0.42
177 190 0.58
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (174 bp):
GTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGT
GTCTTTGATCTGCTTCACTGTCGACAGGAAGGCAAGATCTGCTATTTTTAACCTACTCTTTTGCA
ACACAGGGAGGCAAGGCTGGTATCTTCAATCTGCTTCGCTGTCG
Found at i:21267821 original size:265 final size:265
Alignment explanation
Indices: 21267477--21267990 Score: 690
Period size: 265 Copynumber: 1.9 Consensus size: 265
21267467 CCTGTTCCGC
* * * *
21267477 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCAATGTCAGCACAGGAAGGCAAGAT
1 TGCAACACAGGGAGGCAAGGCTAGTATCTTCAATCTGCTTCAATATCAGCACAGGAAGGCAAGAT
* * * *
21267542 CTGCTATCTTCAACCTGCTCTATTTGCAACTC-AGGGAGGTAAGGCTGGTATCTTCAATCTGCTT
66 CTGCTATCTTCAACCTGCT-TAATTGCAAC-CGAGAGAGGCAAGGCTGGTATCTTCAATCTGATT
* * * *
21267606 CACTGTCGGTGCAGAAAAACAAGATCTGCTA-TCTTCAACCTGCTCCACTGCAACCGAGGGAGGC
129 CACTGTCGATGCAGAAAAACAAGATCTGCTATTCTTCAACCTACTCCACTACAACCCAGGGAGGC
**
21267670 AAGGCTGGTGTCTTTGATCTGCTTCACTATCGGTACAGGAAAGCAAAATCTGCTATTTTTAGCCT
194 AAGGCTGGTGTCTTCAATCTGCTTCACTATCGGTACAGGAAAGCAAAATCTGCTATTTTTAGCCT
21267735 ACTCTGT
259 ACTCTGT
* ** **
21267742 TGCAACACAGGGAGGCAAGGCTGGTATCTTCAATCTGCTTCGCTATCAGTGCAGGAAGGCAAGAT
1 TGCAACACAGGGAGGCAAGGCTAGTATCTTCAATCTGCTTCAATATCAGCACAGGAAGGCAAGAT
* * *
21267807 CTTCTATCTTCAACCTGCTTAATTGCAACCGAGAGAGGCAAGGCTGGTGTCTTTAATCTGATTCA
66 CTGCTATCTTCAACCTGCTTAATTGCAACCGAGAGAGGCAAGGCTGGTATCTTCAATCTGATTCA
* ** * * * *
21267872 CTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTTAACCTACTCCGCTATAACCCAGGGAGGCAA
131 CTGTCGATGCAGAAAAACAAGATCTGCTATTCTTCAACCTACTCCACTACAACCCAGGGAGGCAA
* * * * *
21267937 GGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAT
196 GGCTGGTGTCTTCAATCTGCTTCACTATCGGTACAGGAAAGCAAAATCTGCTAT
21267991 CTTCACTGAT
Statistics
Matches: 213, Mismatches: 34, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
263 1 0.00
264 63 0.30
265 149 0.70
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.27
Consensus pattern (265 bp):
TGCAACACAGGGAGGCAAGGCTAGTATCTTCAATCTGCTTCAATATCAGCACAGGAAGGCAAGAT
CTGCTATCTTCAACCTGCTTAATTGCAACCGAGAGAGGCAAGGCTGGTATCTTCAATCTGATTCA
CTGTCGATGCAGAAAAACAAGATCTGCTATTCTTCAACCTACTCCACTACAACCCAGGGAGGCAA
GGCTGGTGTCTTCAATCTGCTTCACTATCGGTACAGGAAAGCAAAATCTGCTATTTTTAGCCTAC
TCTGT
Found at i:21269253 original size:7 final size:7
Alignment explanation
Indices: 21269232--21269284 Score: 74
Period size: 7 Copynumber: 7.6 Consensus size: 7
21269222 CCTTAGCCTC
21269232 TTCATTT
1 TTCATTT
21269239 TT-ACTTT
1 TTCA-TTT
21269246 TTCATTT
1 TTCATTT
21269253 TTCATTT
1 TTCATTT
21269260 TTCA-TT
1 TTCATTT
21269266 TTCATTTT
1 TTCA-TTT
21269274 TTCATTT
1 TTCATTT
21269281 TTCA
1 TTCA
21269285 CATTTTTTCG
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
6 7 0.17
7 28 0.67
8 7 0.17
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (7 bp):
TTCATTT
Found at i:21269256 original size:21 final size:22
Alignment explanation
Indices: 21269232--21269291 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 22
21269222 CCTTAGCCTC
21269232 TTCATTTTTACTTTTTCA-TTT
1 TTCATTTTTACTTTTTCATTTT
*
21269253 TTCATTTTT-CATTTTCATTTT
1 TTCATTTTTACTTTTTCATTTT
21269274 TTCATTTTTCACATTTTT
1 TTCATTTTT-AC-TTTTT
21269292 TCGACTCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 7 0.21
21 21 0.64
23 1 0.03
24 4 0.12
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (22 bp):
TTCATTTTTACTTTTTCATTTT
Done.