Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 38 of 279
Found at i:12881465 original size:105 final size:105
Alignment explanation
Indices: 12881347--12881544 Score: 387
Period size: 105 Copynumber: 1.9 Consensus size: 105
12881337 GTATTCAAGT
12881347 AATGTAAATGATATACTAATGTGTATTGCTATATGTGTATATGTATGTAGAGACGAAATTGTCGA
1 AATGTAAATGATATACTAATGTGTATTGCTATATGTGTATATGTATGTAGAGACGAAATTGTCGA
*
12881412 ATGTAAAAAGGCAGTGAAGCGTATAGAGTGGTTGGTTTTC
66 ATGTAAAAAGGCAGTGAAGCGGATAGAGTGGTTGGTTTTC
12881452 AATGTAAATGATATACTAATGTGTATTGCTATATGTGTATATGTATGTAGAGACGAAATTGTCGA
1 AATGTAAATGATATACTAATGTGTATTGCTATATGTGTATATGTATGTAGAGACGAAATTGTCGA
12881517 ATGTAAAAAGGCAGTGAAGCGGATAGAG
66 ATGTAAAAAGGCAGTGAAGCGGATAGAG
12881545 GGGTGTGAGA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 92 1.00
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.32
Consensus pattern (105 bp):
AATGTAAATGATATACTAATGTGTATTGCTATATGTGTATATGTATGTAGAGACGAAATTGTCGA
ATGTAAAAAGGCAGTGAAGCGGATAGAGTGGTTGGTTTTC
Found at i:12881634 original size:29 final size:29
Alignment explanation
Indices: 12881599--12881672 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
12881589 GTTGTGAGAT
* *
12881599 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
12881628 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
12881657 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
12881673 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:12882042 original size:40 final size:40
Alignment explanation
Indices: 12881985--12882207 Score: 247
Period size: 40 Copynumber: 5.6 Consensus size: 40
12881975 TTGAATGATG
* * * *
12881985 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCT-AGTGA-TATA
*
12882025 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
* *
12882065 TCCGGACTGAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
12882105 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
*** * * *
12882145 TCCGTG-CTAAACCCCGAAGAGCATCCGTGCTGGTGTTATA
1 TCCG-GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
* *
12882185 TCC-GAGCTAGGTCCCGAAGAGCA
1 TCCGGA-CTAAGTTCCGAAGAGCA
12882208 ATCATGCTGG
Statistics
Matches: 161, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
40 145 0.90
41 8 0.05
42 7 0.04
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:12885175 original size:47 final size:47
Alignment explanation
Indices: 12885106--12885517 Score: 806
Period size: 47 Copynumber: 8.8 Consensus size: 47
12885096 NNNNNNNGCT
12885106 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
12885153 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
12885200 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
12885247 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
12885294 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
12885341 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
12885388 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
12885435 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* *
12885482 GATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAG
12885518 TCCCGAAGGG
Statistics
Matches: 363, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 363 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
Found at i:12885692 original size:37 final size:37
Alignment explanation
Indices: 12885636--12885714 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
12885626 CCGAGCTCTA
* * *
12885636 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
12885673 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
12885710 AAGAC
1 AAGAC
12885715 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:12893686 original size:56 final size:56
Alignment explanation
Indices: 12893610--12893909 Score: 360
Period size: 56 Copynumber: 5.4 Consensus size: 56
12893600 ATCCCGATAG
* * * * * *
12893610 GGTCTTACTCGTAAACACATATCGAAATAACCTATCAATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* * *
12893666 GGTCTTACTCGCACAAACATATTGGAATCACATATCGA-GTCCAACGCATTAAACGT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATG-CCAACGTATTAAACGT
* * *
12893722 GGTCTTACTTGCACACACATATCGGAATCACATATCGATACCAACGTATTAAATGT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* * *
12893778 TGTCTTA----CACACACATATCGGAATCACATATTGATGCCAACGTATTAAGCGT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* * * *
12893830 GGTCTTACTCGTACACACATATCAGAATCACATATCAATGCCAACATATTAAACGT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
*
12893886 GGTCTTACTCGTA-ATCACATATCG
1 GGTCTTACTCGCACA-CACATATCG
12893910 ATGCCAATTT
Statistics
Matches: 209, Mismatches: 28, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
52 47 0.22
55 2 0.01
56 160 0.77
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:12893836 original size:108 final size:108
Alignment explanation
Indices: 12893610--12893893 Score: 363
Period size: 108 Copynumber: 2.6 Consensus size: 108
12893600 ATCCCGATAG
* * * *
12893610 GGTCTTACTCGTAAACACATATCGAAATAACCTATCAATGCCAACGTATTAAACGTGGTCTTACT
1 GGTCTTACTCGTACACACATATCGGAATCACATATCAATGCCAACGTATTAAACGTGGTCTTA--
*
12893675 CGCACAAACATATTGGAATCACATATCGAGTCCAACGCATTAAACGT
64 --CACAAACATATCGGAATCACATATCGAGTCCAACGCATTAAACGT
* * * * * *
12893722 GGTCTTACTTGCACACACATATCGGAATCACATATCGATACCAACGTATTAAATGTTGTCTTACA
1 GGTCTTACTCGTACACACATATCGGAATCACATATCAATGCCAACGTATTAAACGTGGTCTTACA
* * * *
12893787 CACACATATCGGAATCACATATTGA-TGCCAACGTATTAAGCGT
66 CAAACATATCGGAATCACATATCGAGT-CCAACGCATTAAACGT
* *
12893830 GGTCTTACTCGTACACACATATCAGAATCACATATCAATGCCAACATATTAAACGTGGTCTTAC
1 GGTCTTACTCGTACACACATATCGGAATCACATATCAATGCCAACGTATTAAACGTGGTCTTAC
12893894 TCGTAATCAC
Statistics
Matches: 148, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
107 1 0.01
108 94 0.64
112 53 0.36
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (108 bp):
GGTCTTACTCGTACACACATATCGGAATCACATATCAATGCCAACGTATTAAACGTGGTCTTACA
CAAACATATCGGAATCACATATCGAGTCCAACGCATTAAACGT
Found at i:12894000 original size:86 final size:86
Alignment explanation
Indices: 12893855--12894042 Score: 261
Period size: 86 Copynumber: 2.2 Consensus size: 86
12893845 CACATATCAG
* * * * * *
12893855 AATCACATATCAATGCCAACATATTAAACGTGGTCTTACTCGTAATCACATATCGATGCCAATTT
1 AATCACATATCGATGCAAACATATTAAACGTGCTCCTACACGTAATCACATATCGATGCCAATGT
*
12893920 CCTAGACGTGATCTTACACGT
66 CCCAGACGTGATCTTACACGT
*
12893941 AATCACATATCGATGTAAACAT-TCTAAACGTGCTCCTACACGTAATCACATATCGATGCCAATG
1 AATCACATATCGATGCAAACATAT-TAAACGTGCTCCTACACGTAATCACATATCGATGCCAATG
*
12894005 TCCCAGACGTGGTCTTACACGT
65 TCCCAGACGTGATCTTACACGT
**
12894027 AATCATGTATCGATGC
1 AATCACATATCGATGC
12894043 TAACGTCCCA
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 1 0.01
86 88 0.99
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (86 bp):
AATCACATATCGATGCAAACATATTAAACGTGCTCCTACACGTAATCACATATCGATGCCAATGT
CCCAGACGTGATCTTACACGT
Found at i:12894015 original size:43 final size:43
Alignment explanation
Indices: 12893855--12894082 Score: 231
Period size: 43 Copynumber: 5.3 Consensus size: 43
12893845 CACATATCAG
* * *** * *
12893855 AATCACATATCAATGCCAACATATTAAACGTGGTCTTACTCGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
** * *
12893898 AATCACATATCGATGCCAATTTCCTAGACGTGATCTTACACGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
** * * * * * *
12893941 AATCACATATCGATGTAAACATTCTAAACGTGCTCCTACACGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
*
12893984 AATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
** * * *
12894027 AATCATGTATCGATGCTAACGTCCCAGACATGGTTTTACACGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
12894070 AATCACATATCGA
1 AATCACATATCGA
12894083 AAATCTATGT
Statistics
Matches: 152, Mismatches: 33, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 152 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (43 bp):
AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
Found at i:12894067 original size:86 final size:86
Alignment explanation
Indices: 12893880--12894082 Score: 255
Period size: 86 Copynumber: 2.4 Consensus size: 86
12893870 CCAACATATT
* * * *
12893880 AAACGTGGTCTTACTCGTAATCACATATCGATGCCAATTTCCTAGACGTGATCTTACACGTAATC
1 AAACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACGTGATCTTACACGTAATC
* *
12893945 ACATATCGATGTAAACATTCT
66 ACATATCGATGTAAACATCCC
* * * *
12893966 AAACGTGCTCCTACACGTAATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACACGTAATC
1 AAACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACGTGATCTTACACGTAATC
** *
12894031 ATGTATCGATGCT-AACGTCCC
66 ACATATCGATG-TAAACATCCC
* *
12894052 AGACATGGTTTTACACGTAATCACATATCGA
1 AAACATGGTCTTACACGTAATCACATATCGA
12894083 AAATCTATGT
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
86 99 0.99
87 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (86 bp):
AAACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACGTGATCTTACACGTAATC
ACATATCGATGTAAACATCCC
Found at i:12899368 original size:43 final size:43
Alignment explanation
Indices: 12899307--12899461 Score: 156
Period size: 42 Copynumber: 3.7 Consensus size: 43
12899297 TGTGTTTCTG
* *
12899307 TGTAAGACCACGTTTGGGACGTTGGCATCGACT-TATGATTTCA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGA-TATATGATTTCA
* ** *
12899350 TGTAAGACCATGTCTGGGACATCAGCATCG-TATATGATTTCG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATATATGATTTCA
* * * *
12899392 TGTAAGACCCTATCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATCGATATATGATTTCA
* *
12899435 TGTTAGAACA-GTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
12899462 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
41 2 0.02
42 47 0.52
43 41 0.46
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATATATGATTTCA
Found at i:12901021 original size:8 final size:9
Alignment explanation
Indices: 12900993--12901032 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
12900983 GTAACTAAAA
12900993 AAAAGAAAT
1 AAAAGAAAT
*
12901002 AATGAGAAAT
1 AA-AAGAAAT
12901012 AAAA-AAAT
1 AAAAGAAAT
12901020 AAAAGAAAT
1 AAAAGAAAT
12901029 AAAA
1 AAAA
12901033 TTGTACACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 8 0.30
9 11 0.41
10 8 0.30
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (9 bp):
AAAAGAAAT
Found at i:12901021 original size:18 final size:18
Alignment explanation
Indices: 12900993--12901032 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
12900983 GTAACTAAAA
*
12900993 AAAAGAAATAATGAGAAAT
1 AAAAGAAATAA-AAGAAAT
12901012 AAAA-AAATAAAAGAAAT
1 AAAAGAAATAAAAGAAAT
12901029 AAAA
1 AAAA
12901033 TTGTACACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
18 6 0.30
19 4 0.20
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (18 bp):
AAAAGAAATAAAAGAAAT
Found at i:12904983 original size:46 final size:45
Alignment explanation
Indices: 12904837--12905142 Score: 226
Period size: 47 Copynumber: 6.6 Consensus size: 45
12904827 CTTGTGTGCT
* * * *
12904837 AGTGTAAGA-CATGTCTGGGACATGCATTGGCCACATTACGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCA-TCGCCTCA-GATGAGAGCC
** * * *
12904883 AGTGTAAGACCATGTCTGGGACATTGCATCGGTATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACA-TGCATC-G-CCTCAGATGAGAGCC
12904931 AGTGTAAGA-CATGTCTGGGACATGCATCAGCCTCGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGCATC-GCCTC-AGATG-AGAGCC
** * * *
12904977 AGTGTAAGA-CATGTCTGCAACATGCATCGGCT-ACATGATGTGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGCCTCAGATGA-GAGCC
** * * *
12905021 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACAAATACGTGAAAGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATC-GC-CTCAGA--TGAGAGCC
* * * *
12905071 AGTGTAAGACCATGTCTAGGACATGGCATCGACTTAAAATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCG-CCTCAGATGAGAGCC
12905118 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
12905143 GCATTGGCAT
Statistics
Matches: 211, Mismatches: 33, Indels: 32
0.76 0.12 0.12
Matches are distributed among these distances:
42 1 0.00
43 4 0.02
44 12 0.06
45 16 0.08
46 55 0.26
47 58 0.27
48 23 0.11
49 7 0.03
50 32 0.15
51 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGCCTCAGATGAGAGCC
Found at i:12911319 original size:16 final size:16
Alignment explanation
Indices: 12911300--12911330 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12911290 CTTCTTCACT
12911300 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
12911316 TACTTACTTACTTAA
1 TACTCACTTACTTAA
12911331 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:12911336 original size:20 final size:20
Alignment explanation
Indices: 12911297--12911336 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
12911287 AAACTTCTTC
* *
12911297 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
12911317 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
12911337 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:12911713 original size:108 final size:110
Alignment explanation
Indices: 12911569--12911766 Score: 294
Period size: 108 Copynumber: 1.8 Consensus size: 110
12911559 ATCCTTTTGA
* * **
12911569 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTTTCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTACCTTA-GAAACCTCACCAA
12911632 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
12911677 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTACCTTAGAAACCTCACCAAT
12911742 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
12911767 CGGTATCCTT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 46 0.58
109 7 0.09
110 25 0.32
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTACCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:12911776 original size:55 final size:54
Alignment explanation
Indices: 12911522--12911777 Score: 235
Period size: 55 Copynumber: 4.8 Consensus size: 54
12911512 ACACGGGTAC
* * *
12911522 CTTACC-ATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAA
* * **
12911571 CTTACC-ATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTTTCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTA-GAAA
* * * * *
12911624 CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTACC-T-TAGAAA
* * * *
12911679 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAA
* *
12911732 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTTA
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTA
12911778 AACCCTAATG
Statistics
Matches: 169, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
49 39 0.23
52 4 0.02
53 42 0.25
54 12 0.07
55 70 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAA
Found at i:12913988 original size:27 final size:27
Alignment explanation
Indices: 12913957--12914008 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
12913947 AGTAATAGTT
*
12913957 GGGCCT-AGCCCATTAGCAGAATTAGGC
1 GGGCCTAAGCCCAATA-CAGAATTAGGC
12913984 GGGCCTAAGCCCAATACAGAATTAG
1 GGGCCTAAGCCCAATACAGAATTAG
12914009 TATCAGATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.31, C:0.25, G:0.27, T:0.17
Consensus pattern (27 bp):
GGGCCTAAGCCCAATACAGAATTAGGC
Found at i:12914469 original size:14 final size:14
Alignment explanation
Indices: 12914450--12914476 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12914440 AGGGGAATGG
12914450 TCATTTTTCCCTAA
1 TCATTTTTCCCTAA
12914464 TCATTTTTCCCTA
1 TCATTTTTCCCTA
12914477 CAGGGGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.30, G:0.00, T:0.52
Consensus pattern (14 bp):
TCATTTTTCCCTAA
Found at i:12916966 original size:30 final size:30
Alignment explanation
Indices: 12916918--12916976 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
12916908 TTTACGAGCC
* *
12916918 TAGGGGCCAAAGTCCAAATATGTGAAAGTT
1 TAGGGGCCAAAATCCAAATATGTAAAAGTT
* * *
12916948 TAGGGGTCAAAATGCAAATTTGTAAAAGT
1 TAGGGGCCAAAATCCAAATATGTAAAAGT
12916977 ATGATTTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.25
Consensus pattern (30 bp):
TAGGGGCCAAAATCCAAATATGTAAAAGTT
Found at i:12917494 original size:50 final size:50
Alignment explanation
Indices: 12917413--12917645 Score: 227
Period size: 50 Copynumber: 4.6 Consensus size: 50
12917403 TCCGTTATGA
*
12917413 GTCACGTGTGTAGTACTAAGTGCA-GCTTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGC-TACTACGTGTACCAGATTGATAG
* * ** * * *
12917463 GTCACATGTGTAGTACTAAGTGTAGGCTACTATGCATACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * *
12917514 ATCACATGTATAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* ** * * *
12917564 GTCACGTGTGTAGTACTAAGTTTAAGCTACTGCGTGTACCATATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* *
12917614 GTCGCACGTGTAGTACTAAGTGCAGGCTACTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
12917646 TGCATACCCG
Statistics
Matches: 139, Mismatches: 40, Indels: 8
0.74 0.21 0.04
Matches are distributed among these distances:
49 3 0.02
50 97 0.70
51 38 0.27
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:12919052 original size:46 final size:46
Alignment explanation
Indices: 12918983--12919154 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
12918973 TGGTCATCCA
* *
12918983 AGCTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAATGTCTG
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * * * *
12919029 AGCTCATTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* * *
12919076 AGCTCGTTGAGTTGAGTTCGAGTTCACTTAAGGATGCGAATGCCCG
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
*
12919122 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12919155 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 17, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 55 0.55
47 25 0.25
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (46 bp):
AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:12919136 original size:93 final size:93
Alignment explanation
Indices: 12918977--12919147 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
12918967 GATATTTGGT
* * *
12918977 CATCCAAGCTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAATGTCTGAGCTCATTGAGTT
1 CATCCAAGCTCGTTGAGTTAAGTCCGAGTTCACTTAAGGATGCGAATGCCCGAGCTCATTGAGTT
*
12919042 GAGTCTGAGTTCGTGAGATGTAACTAGG
66 GAGTCCGAGTTCGTGAGATGTAACTAGG
* * * *
12919070 CATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTAAGGATGCGAATGCCCGAGCTCGTTGAGTT
1 CATCCAAGCTCGTTGAGTTAAGTCCGAGTTCACTTAAGGATGCGAATGCCCGAGCTCATTGAGTT
12919135 GAGTCCGAGTTCG
66 GAGTCCGAGTTCG
12919148 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
CATCCAAGCTCGTTGAGTTAAGTCCGAGTTCACTTAAGGATGCGAATGCCCGAGCTCATTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAGG
Found at i:12920590 original size:15 final size:15
Alignment explanation
Indices: 12920544--12920591 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
12920534 GAACCTAAAA
*
12920544 AAACTTCGTATCCAT
1 AAACTTCATATCCAT
* * *
12920559 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
12920573 AAACTTCATATCCAT
1 AAACTTCATATCCAT
12920588 AAAC
1 AAAC
12920592 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.27
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:12923491 original size:29 final size:29
Alignment explanation
Indices: 12923458--12923517 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
12923448 ATAACCAAAC
* *
12923458 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
12923487 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
12923516 CT
1 CT
12923518 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:12923510 original size:15 final size:15
Alignment explanation
Indices: 12923464--12923511 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
12923454 AAACCTACAA
*
12923464 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
12923479 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
12923493 AAACTTCATATCCAT
1 AAACTTCATATCCAT
12923508 AAAC
1 AAAC
12923512 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:12923750 original size:12 final size:12
Alignment explanation
Indices: 12923730--12923763 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
12923720 TCAAGTAAGT
12923730 TTCAAAAAAAAA
1 TTCAAAAAAAAA
12923742 -TCGAAAAAAAAA
1 TTC-AAAAAAAAA
12923754 TTCAAAAAAA
1 TTCAAAAAAA
12923764 TTTTTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.10
12 16 0.80
13 2 0.10
ACGTcount: A:0.74, C:0.09, G:0.03, T:0.15
Consensus pattern (12 bp):
TTCAAAAAAAAA
Found at i:12928106 original size:29 final size:29
Alignment explanation
Indices: 12928073--12928132 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
12928063 ATAACCAAAC
* *
12928073 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
12928102 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
12928131 CT
1 CT
12928133 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:12928125 original size:15 final size:15
Alignment explanation
Indices: 12928079--12928126 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
12928069 AAACCTACAA
*
12928079 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
12928094 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
12928108 AAACTTCATATCCAT
1 AAACTTCATATCCAT
12928123 AAAC
1 AAAC
12928127 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:12930886 original size:10 final size:10
Alignment explanation
Indices: 12930869--12930897 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
12930859 AATTGTAGAT
12930869 TCAAAAAAAA
1 TCAAAAAAAA
12930879 T-AAAAAAAA
1 TCAAAAAAAA
12930888 TCAAAAAAAA
1 TCAAAAAAAA
12930898 AATTGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (10 bp):
TCAAAAAAAA
Found at i:12930908 original size:25 final size:25
Alignment explanation
Indices: 12930880--12930927 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
12930870 CAAAAAAAAT
12930880 AAAAAAAATCAAAAAAAAAATTGAA
1 AAAAAAAATCAAAAAAAAAATTGAA
***
12930905 AAAAAAAATTTGAAAAAAAATTG
1 AAAAAAAATCAAAAAAAAAATTG
12930928 CATACGGTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (25 bp):
AAAAAAAATCAAAAAAAAAATTGAA
Found at i:12930917 original size:14 final size:13
Alignment explanation
Indices: 12930880--12930924 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
12930870 CAAAAAAAAT
*
12930880 AAAAAAAA-TCAA
1 AAAAAAAATTGAA
12930892 AAAAAAAATTGAA
1 AAAAAAAATTGAA
12930905 AAAAAAAATTTGAA
1 AAAAAAAA-TTGAA
12930919 AAAAAA
1 AAAAAA
12930925 TTGCATACGG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 8 0.27
13 11 0.37
14 11 0.37
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.13
Consensus pattern (13 bp):
AAAAAAAATTGAA
Found at i:12940671 original size:20 final size:20
Alignment explanation
Indices: 12940648--12940701 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
12940638 AGTTTTTCCC
*
12940648 AGCTCGATTTAGCTCACGTG
1 AGCTCAATTTAGCTCACGTG
* ***
12940668 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACGTG
12940688 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
12940702 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACGTG
Found at i:12940683 original size:30 final size:30
Alignment explanation
Indices: 12940648--12940721 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
12940638 AGTTTTTCCC
*
12940648 AGCTCGATTT-AGCTCACGTGAGCTTAATTT
1 AGCTCG-TTTGAGCTCAAGTGAGCTTAATTT
* * *
12940678 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAAGTGAGCTTAATTT
12940708 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
12940722 TGGCTTAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 3 0.08
30 36 0.92
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAAGTGAGCTTAATTT
Found at i:12940711 original size:20 final size:20
Alignment explanation
Indices: 12940648--12940712 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
12940638 AGTTTTTCCC
* * * *
12940648 AGCTCGATTTAGCTCACGTG
1 AGCTCAATTTAGCTTACTTT
*
12940668 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
12940687 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
12940708 AGCTC
1 AGCTC
12940713 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:12942636 original size:15 final size:15
Alignment explanation
Indices: 12942618--12942656 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
12942608 AAAATCGAGC
12942618 AAAAAAAAAGAAAAG
1 AAAAAAAAAGAAAAG
***
12942633 AAAAAAAAAGGTGAG
1 AAAAAAAAAGAAAAG
12942648 AAAAAAAAA
1 AAAAAAAAA
12942657 TCAAGTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAGAAAAG
Found at i:12943690 original size:12 final size:12
Alignment explanation
Indices: 12943678--12943795 Score: 50
Period size: 12 Copynumber: 9.8 Consensus size: 12
12943668 GAAAGAGATT
*
12943678 GAAAAAGAAATT
1 GAAAAAGAAATA
12943690 G--AAAGAAA-A
1 GAAAAAGAAATA
*
12943699 CAAAAAGAAA-A
1 GAAAAAGAAATA
*
12943710 CGAAAAAGAAAAA
1 -GAAAAAGAAATA
**
12943723 GAAATTGCAAA-A
1 GAAAAAG-AAATA
*
12943735 GAAAAAGAAATC
1 GAAAAAGAAATA
** *
12943747 GAAAAAGTGAGA
1 GAAAAAGAAATA
12943759 GAAAAAGAAA-A
1 GAAAAAGAAATA
*
12943770 TGAAGAAAAGAAAATT
1 -G-A-AAAAG-AAATA
12943786 GAAAAAGAAA
1 GAAAAAGAAA
12943796 AAGCGAAAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
10 7 0.09
11 12 0.15
12 41 0.51
13 10 0.12
14 6 0.08
15 4 0.05
ACGTcount: A:0.70, C:0.03, G:0.19, T:0.08
Consensus pattern (12 bp):
GAAAAAGAAATA
Found at i:12943721 original size:18 final size:18
Alignment explanation
Indices: 12943695--12943798 Score: 82
Period size: 18 Copynumber: 5.6 Consensus size: 18
12943685 AAATTGAAAG
*
12943695 AAAACAAAAAGAAAACGA
1 AAAAGAAAAAGAAAACGA
** *
12943713 AAAAGAAAAAGAAATTGC
1 AAAAGAAAAAGAAAACGA
*
12943731 AAAAGAAAAAGAAATCGA
1 AAAAGAAAAAGAAAACGA
** * *
12943749 AAAAGTGAGAGAAAAAGA
1 AAAAGAAAAAGAAAACGA
* *
12943767 AAATGAAGAAAAGAAAATTGA
1 AAAAG-A-AAAAGAAAA-CGA
12943788 AAAAGAAAAAG
1 AAAAGAAAAAG
12943799 CGAAAAAAGA
Statistics
Matches: 66, Mismatches: 17, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
18 47 0.71
19 5 0.08
20 8 0.12
21 6 0.09
ACGTcount: A:0.71, C:0.04, G:0.18, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAACGA
Found at i:12943723 original size:6 final size:6
Alignment explanation
Indices: 12943691--12943798 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
12943681 AAAGAAATTG
* * ** *
12943691 AAAG-A AAACAA AAAGAA AACGAA AAAGAA AAAGAA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** ** * * *
12943738 AAAGAA ATCGAA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA
12943789 AAAGAA AAAG
1 AAAGAA AAAG
12943799 CGAAAAAAGA
Statistics
Matches: 75, Mismatches: 24, Indels: 7
0.71 0.23 0.07
Matches are distributed among these distances:
5 3 0.04
6 61 0.81
7 7 0.09
8 4 0.05
ACGTcount: A:0.71, C:0.04, G:0.19, T:0.06
Consensus pattern (6 bp):
AAAGAA
Found at i:12943780 original size:14 final size:13
Alignment explanation
Indices: 12943759--12943796 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
12943749 AAAAGTGAGA
12943759 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
12943771 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
12943786 GAAAAAGAAAA
1 GAAAAAGAAAA
12943797 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:12943810 original size:21 final size:21
Alignment explanation
Indices: 12943760--12943810 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
12943750 AAAGTGAGAG
*
12943760 AAAAAGAAAATGAAGAAAAGA
1 AAAAAGAAAAAGAAGAAAAGA
** *
12943781 AAATTGAAAAAGAA-AAAGCGA
1 AAAAAGAAAAAGAAGAAA-AGA
12943802 AAAAAGAAA
1 AAAAAGAAA
12943811 TTGAAAGAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.06
Consensus pattern (21 bp):
AAAAAGAAAAAGAAGAAAAGA
Found at i:12943850 original size:33 final size:33
Alignment explanation
Indices: 12943813--12943875 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
12943803 AAAAGAAATT
12943813 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTAT-AAAAGAAA-CAAGTGAAAAA
*
12943846 GAAAGAGAGTCTATAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTATAAAAGAAACAAGTGAA
12943876 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.25, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTATAAAAGAAACAAGTGAAAAA
Found at i:12945819 original size:20 final size:20
Alignment explanation
Indices: 12945796--12945849 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
12945786 AGTTTGTCCC
*
12945796 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
12945816 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
12945836 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
12945850 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:12945831 original size:30 final size:30
Alignment explanation
Indices: 12945796--12945869 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
12945786 AGTTTGTCCC
12945796 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
12945826 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
12945856 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
12945870 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:12945859 original size:20 final size:20
Alignment explanation
Indices: 12945796--12945860 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
12945786 AGTTTGTCCC
* * * *
12945796 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
12945816 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
12945835 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
12945856 AGCTC
1 AGCTC
12945861 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:12949905 original size:46 final size:46
Alignment explanation
Indices: 12949855--12950028 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
12949845 TGATTGAGCA
12949855 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
12949901 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
12949946 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
12949994 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTAT
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
12950029 AGGCGGGTTA
Statistics
Matches: 109, Mismatches: 9, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.54
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:12950011 original size:93 final size:93
Alignment explanation
Indices: 12949852--12950023 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
12949842 GGATGATTGA
*
12949852 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
12949917 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
12949945 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
12950009 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
12950024 CTTATAGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:12963229 original size:25 final size:25
Alignment explanation
Indices: 12963201--12963248 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
12963191 ATCTTAATAG
*
12963201 TATTTTATTAAT-TTAATATTAAAGT
1 TATTATATTAATATTAA-ATTAAAGT
*
12963226 TATTATCTTAATATTAAATTAAA
1 TATTATATTAATATTAAATTAAA
12963249 TTTAATCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
TATTATATTAATATTAAATTAAAGT
Found at i:12963230 original size:20 final size:19
Alignment explanation
Indices: 12963205--12963254 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
12963195 TAATAGTATT
12963205 TTATTAATTTAATATTAAA
1 TTATTAATTTAATATTAAA
12963224 GTTATT-ATCTTAATATTAAA
1 -TTATTAAT-TTAATATTAAA
12963244 TTA--AATTTAAT
1 TTATTAATTTAAT
12963255 CTTTATCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 5 0.18
18 2 0.07
19 5 0.18
20 16 0.57
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
TTATTAATTTAATATTAAA
Found at i:12963303 original size:62 final size:59
Alignment explanation
Indices: 12963233--12963350 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 59
12963223 AGTTATTATC
* * * *
12963233 TTAATATTAAATTAAATTTAATCTTTATCTTGTAGATAAATATTCTATTAATTTAATAAGAT
1 TTAATATTAAATTAAATATAATATTTATC-T-T-GATAAATATTATATCAATTTAATAAGAT
* * *
12963295 TTAATATTAAATTTAATATAATATTTTTCTTGATAAGTATTATATCAATTTAATAA
1 TTAATATTAAATTAAATATAATATTTATCTTGATAAATATTATATCAATTTAATAA
12963351 TAAAGTGATT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 22 0.45
60 1 0.02
61 1 0.02
62 25 0.51
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (59 bp):
TTAATATTAAATTAAATATAATATTTATCTTGATAAATATTATATCAATTTAATAAGAT
Found at i:12968746 original size:43 final size:43
Alignment explanation
Indices: 12968685--12968766 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
12968675 GGTGGGTGTT
*
12968685 AAAGGTAACCCACTCACAAAGTCTATTGTTACTCTTTCCTGTC
1 AAAGGTAACCCACTCACAAAGTCCATTGTTACTCTTTCCTGTC
12968728 AAAGGTAACCCACTCACAAAGTCCATTGTTACTCTTTCC
1 AAAGGTAACCCACTCACAAAGTCCATTGTTACTCTTTCC
12968767 CACTTCCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.30
Consensus pattern (43 bp):
AAAGGTAACCCACTCACAAAGTCCATTGTTACTCTTTCCTGTC
Found at i:12971980 original size:10 final size:11
Alignment explanation
Indices: 12971958--12971993 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
12971948 AAAAAAAAAA
12971958 TTTGAATTTTT
1 TTTGAATTTTT
12971969 TTTGAATTTTTT
1 TTTGAA-TTTTT
12971981 TTTG-ATTTTT
1 TTTGAATTTTT
12971991 TTT
1 TTT
12971994 CAAATTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 8 0.33
11 7 0.29
12 9 0.38
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (11 bp):
TTTGAATTTTT
Found at i:12971981 original size:12 final size:12
Alignment explanation
Indices: 12971958--12971993 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
12971948 AAAAAAAAAA
12971958 TTTGAA-TTTTT
1 TTTGAATTTTTT
12971969 TTTGAATTTTTT
1 TTTGAATTTTTT
12971981 TTTG-ATTTTTT
1 TTTGAATTTTTT
12971992 TT
1 TT
12971994 CAAATTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (12 bp):
TTTGAATTTTTT
Found at i:12978220 original size:40 final size:40
Alignment explanation
Indices: 12977259--12978208 Score: 1796
Period size: 40 Copynumber: 23.8 Consensus size: 40
12977249 GATGATAACG
* * *
12977259 GGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
12977299 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
12977339 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
12977379 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
12977419 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
12977459 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
12977499 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
12977539 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
12977579 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
12977619 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
12977659 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
12977699 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
12977739 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
12977779 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
12977819 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
12977859 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
12977899 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
12977939 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
12977979 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
12978019 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
12978059 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
12978099 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
* **
12978139 GGGCTAAGCCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
12978179 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
12978209 AGCTATATCC
Statistics
Matches: 897, Mismatches: 12, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
39 2 0.00
40 895 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:12984897 original size:93 final size:93
Alignment explanation
Indices: 12984785--12984956 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
12984775 CGCCCATAAG
*
12984785 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
*
12984849 AATGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
12984878 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
12984943 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
12984957 TCAATCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:12984951 original size:46 final size:46
Alignment explanation
Indices: 12984778--12984953 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
12984768 TGTAACCCGC
* *
12984778 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* * *
12984824 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
12984874 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
12984917 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
12984954 TGCTCAATCA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:12990067 original size:93 final size:93
Alignment explanation
Indices: 12989952--12990120 Score: 293
Period size: 93 Copynumber: 1.8 Consensus size: 93
12989942 CATAAGCGAC
* * *
12989952 CTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCACAAGTGAACTCGGGCTCAACTCAACGA
1 CTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAACGA
12990017 GCTCGGATGCCTAGTTACATCTCTCGAA
66 GCTCGGATGCCTAGTTACATCTCTCGAA
*
12990045 CTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGA
1 CTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAACGA
*
12990110 GTTCGGATGCC
66 GCTCGGATGCC
12990121 CAAATATCCT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.26, C:0.32, G:0.22, T:0.20
Consensus pattern (93 bp):
CTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAACGA
GCTCGGATGCCTAGTTACATCTCTCGAA
Found at i:12990116 original size:46 final size:46
Alignment explanation
Indices: 12989941--12990116 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
12989931 TGTAACCCGC
* * * *
12989941 CCATAAGCGACCTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
12989987 CCACAAGTGAACTCGGGCTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* ***
12990033 ACATCTCTCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
12990080 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
12990117 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 64 0.61
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:12990135 original size:46 final size:44
Alignment explanation
Indices: 12989992--12990135 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
12989982 CGCATCCACA
* *
12989992 AGTGAACTCGGGCTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCA---A-ATC-CT
* * *
12990041 --CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCCCAAATCC-T
*
12990084 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCC-AA-ATCCT
12990131 AGTGA
1 AGTGA
12990136 CATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 32 0.42
47 28 0.37
48 4 0.05
49 3 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATCCT
Found at i:12991242 original size:72 final size:72
Alignment explanation
Indices: 12991156--12991294 Score: 269
Period size: 72 Copynumber: 1.9 Consensus size: 72
12991146 AAATTGCTAT
12991156 TTAAGAACTCCTAATTAATATTTCAAAACAATTTCATACTAGAAACTTCTAGAATGCAAGTTTTG
1 TTAAGAACTCCTAATTAATATTTCAAAACAATTTCATACTAGAAACTTCTAGAATGCAAGTTTTG
12991221 CATCTAC
66 CATCTAC
*
12991228 TTAAGACCTCCTAATTAATATTTCAAAACAATTTCATACTAGAAACTTCTAGAATGCAAGTTTTG
1 TTAAGAACTCCTAATTAATATTTCAAAACAATTTCATACTAGAAACTTCTAGAATGCAAGTTTTG
12991293 CA
66 CA
12991295 AATTATTCGA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.35
Consensus pattern (72 bp):
TTAAGAACTCCTAATTAATATTTCAAAACAATTTCATACTAGAAACTTCTAGAATGCAAGTTTTG
CATCTAC
Found at i:12993146 original size:40 final size:40
Alignment explanation
Indices: 12992974--12993139 Score: 237
Period size: 40 Copynumber: 4.2 Consensus size: 40
12992964 AACCCAAGTA
* * * * *
12992974 CCTTCGGAATTTAG-CCGGATAT-AGCAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAATC-ACTAGCACAAATG
* * *
12993013 CCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
12993053 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
12993093 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
12993133 CCTTCGG
1 CCTTCGG
12993140 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 12 0.11
40 101 0.89
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
Found at i:12995709 original size:14 final size:15
Alignment explanation
Indices: 12995690--12995769 Score: 76
Period size: 15 Copynumber: 5.4 Consensus size: 15
12995680 CAAAGATAAC
12995690 AAGAAAACC-GAATA
1 AAGAAAACCAGAATA
*
12995704 AAGAAATCCA-AGATA
1 AAGAAAACCAGA-ATA
12995719 AAG-AAACCTAGAATA
1 AAGAAAACC-AGAATA
*
12995734 AAGAAATCCAGAATA
1 AAGAAAACCAGAATA
* * *
12995749 AAGAGATCCAGGATA
1 AAGAAAACCAGAATA
12995764 AAGAAA
1 AAGAAA
12995770 CCCAAGATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
14 13 0.24
15 37 0.67
16 5 0.09
ACGTcount: A:0.60, C:0.12, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAAACCAGAATA
Found at i:12995721 original size:15 final size:15
Alignment explanation
Indices: 12995701--12995778 Score: 88
Period size: 15 Copynumber: 5.2 Consensus size: 15
12995691 AGAAAACCGA
12995701 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
12995716 ATAAAGAAA-CCTAG
1 ATAAAGAAATCCAAG
12995730 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
12995745 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
12995761 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
12995776 ATA
1 ATA
12995779 TGATACTATG
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.07
15 47 0.87
16 3 0.06
ACGTcount: A:0.58, C:0.14, G:0.15, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:12995735 original size:30 final size:30
Alignment explanation
Indices: 12995690--12995778 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 30
12995680 CAAAGATAAC
*
12995690 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAGAACCAGAATAAAGAAATCCAAGATA
12995719 AAGA-AACCTAGAATAAAGAAATCC-AGAATA
1 AAGAGAACC-AGAATAAAGAAATCCAAG-ATA
* * *
12995749 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAGAACCAGAATAAAGAAATCCAAGATA
12995779 TGATACTATG
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
28 4 0.08
29 6 0.12
30 37 0.71
31 5 0.10
ACGTcount: A:0.58, C:0.15, G:0.16, T:0.11
Consensus pattern (30 bp):
AAGAGAACCAGAATAAAGAAATCCAAGATA
Found at i:12998850 original size:93 final size:93
Alignment explanation
Indices: 12998723--12998893 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
12998713 CTCATAAGCG
* * *
12998723 AACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCATCCACAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAAC
12998788 GAGCTCGGATGCCTAGTTACATCTCCCA
66 GAGCTCGGATGCCTAGTTACATCTCCCA
* *
12998816 AACTTGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAAC
*
12998881 GAGTTCGGATGCC
66 GAGCTCGGATGCC
12998894 CAAATTTCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.20
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCCCA
Found at i:12998889 original size:46 final size:46
Alignment explanation
Indices: 12998722--12998889 Score: 175
Period size: 46 Copynumber: 3.6 Consensus size: 46
12998712 GCTCATAAGC
* * *
12998722 GAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCATCCACAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGT
* *
12998768 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATCTC-CCA--
1 GAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCATC-CACAAGT
* *
12998816 -AACTTGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGT
*
12998861 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
12998890 TGCCCAAATT
Statistics
Matches: 100, Mismatches: 11, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 1 0.01
46 53 0.53
47 27 0.27
49 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGT
Found at i:12999023 original size:46 final size:46
Alignment explanation
Indices: 12998970--12999062 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
12998960 CAATCATGTG
* *
12998970 TCTCAACCATTTTCTACGGAATGTCGATACCGATACTCGATAGTAT
1 TCTCAACCATCTTCTACGGAATGCCGATACCGATACTCGATAGTAT
12999016 TCTCAACCATCTTCTACGGAATGCCGATACCGATACTCGATAGTAT
1 TCTCAACCATCTTCTACGGAATGCCGATACCGATACTCGATAGTAT
12999062 T
1 T
12999063 TCACATTTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (46 bp):
TCTCAACCATCTTCTACGGAATGCCGATACCGATACTCGATAGTAT
Found at i:13012084 original size:20 final size:20
Alignment explanation
Indices: 13012061--13012110 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
13012051 TTAGCTCGAC
13012061 TCAGCTTGATG-GAGCTCAAT
1 TCAGCTTGATGAGAGCTC-AT
*
13012081 TCAGCTTGATGATAGCTCAT
1 TCAGCTTGATGAGAGCTCAT
*
13012101 TGAGCTTGAT
1 TCAGCTTGAT
13012111 TCTATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TCAGCTTGATGAGAGCTCAT
Found at i:13013555 original size:16 final size:17
Alignment explanation
Indices: 13013520--13013561 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
13013510 GTATTTTGTT
*
13013520 AAAAAAATTTCGTGACAA
1 AAAAAAAATTCGTGA-AA
13013538 AAAAAAAATTCGTGAAA
1 AAAAAAAATTCGTGAAA
13013555 AAAAAAA
1 AAAAAAA
13013562 GAGAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (17 bp):
AAAAAAAATTCGTGAAA
Found at i:13017862 original size:40 final size:40
Alignment explanation
Indices: 13017778--13017963 Score: 184
Period size: 40 Copynumber: 4.7 Consensus size: 40
13017768 TTGAATGGTG
* * * *
13017778 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
** *
13017818 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* *
13017858 TCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
13017898 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGA-ATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AA
* *
13017939 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
13017964 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 1 0.01
40 111 0.89
41 12 0.10
42 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:13018071 original size:153 final size:153
Alignment explanation
Indices: 13017896--13018202 Score: 605
Period size: 153 Copynumber: 2.0 Consensus size: 153
13017886 CGAGTTACTA
*
13017896 AATCCGGGTTAAGTCCCGAAGGCATTTGTGTGAATTACTATAACCGGGCTATGTCCCGAAGGCAT
1 AATCCAGGTTAAGTCCCGAAGGCATTTGTGTGAATTACTATAACCGGGCTATGTCCCGAAGGCAT
13017961 TTGAACGAGGAGCTATATCCGGTTAAATCCCGAAGGTACGTGATTTGGGAATGAATGATCTTGCT
66 TTGAACGAGGAGCTATATCCGGTTAAATCCCGAAGGTACGTGATTTGGGAATGAATGATCTTGCT
13018026 GTAAAAATTTCAGTTAATGCTCT
131 GTAAAAATTTCAGTTAATGCTCT
13018049 AATCCAGGTTAAGTCCCGAAGGCATTTGTGTGAATTACTATAACCGGGCTATGTCCCGAAGGCAT
1 AATCCAGGTTAAGTCCCGAAGGCATTTGTGTGAATTACTATAACCGGGCTATGTCCCGAAGGCAT
13018114 TTGAACGAGGAGCTATATCCGGTTAAATCCCGAAGGTACGTGATTTGGGAATGAATGATCTTGCT
66 TTGAACGAGGAGCTATATCCGGTTAAATCCCGAAGGTACGTGATTTGGGAATGAATGATCTTGCT
13018179 GTAAAAATTTCAGTTAATGCTCT
131 GTAAAAATTTCAGTTAATGCTCT
13018202 A
1 A
13018203 GAAACATCCC
Statistics
Matches: 153, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 153 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (153 bp):
AATCCAGGTTAAGTCCCGAAGGCATTTGTGTGAATTACTATAACCGGGCTATGTCCCGAAGGCAT
TTGAACGAGGAGCTATATCCGGTTAAATCCCGAAGGTACGTGATTTGGGAATGAATGATCTTGCT
GTAAAAATTTCAGTTAATGCTCT
Found at i:13024033 original size:7 final size:7
Alignment explanation
Indices: 13024021--13024045 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13024011 TTCTGTTCCC
13024021 CTTTCTT
1 CTTTCTT
13024028 CTTTCTT
1 CTTTCTT
13024035 CTTTCTT
1 CTTTCTT
13024042 CTTT
1 CTTT
13024046 GTTTCAACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
CTTTCTT
Found at i:13027299 original size:30 final size:29
Alignment explanation
Indices: 13027256--13027316 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
13027246 CAAATAGCCG
13027256 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
13027285 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
13027315 AA
1 AA
13027317 ACTTCCGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:13031327 original size:16 final size:16
Alignment explanation
Indices: 13031308--13031345 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
13031298 CGCTCTTTCT
13031308 TTTTTCTGT-TTTTTTA
1 TTTTT-TGTATTTTTTA
*
13031324 TTTTTTTTATTTTTTA
1 TTTTTTGTATTTTTTA
13031340 TTTTTT
1 TTTTTT
13031346 TAGCATGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.08, C:0.03, G:0.03, T:0.87
Consensus pattern (16 bp):
TTTTTTGTATTTTTTA
Found at i:13048561 original size:20 final size:20
Alignment explanation
Indices: 13048522--13048562 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
13048512 ATGTGTGTTT
13048522 TGATTTTTGATGATAGATTA
1 TGATTTTTGATGATAGATTA
*
13048542 TGATTGTTTGTTGATA-ATTA
1 TGATT-TTTGATGATAGATTA
13048562 T
1 T
13048563 ACAAGTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.54
Consensus pattern (20 bp):
TGATTTTTGATGATAGATTA
Found at i:13049048 original size:11 final size:11
Alignment explanation
Indices: 13049032--13049056 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13049022 ACACGAACAT
13049032 ATTCGACAATG
1 ATTCGACAATG
13049043 ATTCGACAATG
1 ATTCGACAATG
13049054 ATT
1 ATT
13049057 TGCCATTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (11 bp):
ATTCGACAATG
Found at i:13050450 original size:51 final size:51
Alignment explanation
Indices: 13050377--13050481 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
13050367 CAGGAGACTC
13050377 AAAATGAAAGTTTCTTTTTCGCACTCACTCTCCATCACATTGGCAGAACAA
1 AAAATGAAAGTTTCTTTTTCGCACTCACTCTCCATCACATTGGCAGAACAA
13050428 AAAATGAAAGTTTCTTTTTCGCACTCACTCTCCATCACATTGGCAGAACAA
1 AAAATGAAAGTTTCTTTTTCGCACTCACTCTCCATCACATTGGCAGAACAA
13050479 AAA
1 AAA
13050482 TGTCATATGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (51 bp):
AAAATGAAAGTTTCTTTTTCGCACTCACTCTCCATCACATTGGCAGAACAA
Found at i:13051743 original size:43 final size:43
Alignment explanation
Indices: 13051662--13051744 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
13051652 AAGTCATACA
**
13051662 ATGCCAATGTCCCAGACGTGGTCTTACATGTAGTCACATAATG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGTAAACACATAATG
*
13051705 ATGCCACTGTCCCAGACAG-GGTCTTAC-TCGTAAACACATA
1 ATGCCAATGTCCCAGAC-GTGGTCTTACAT-GTAAACACATA
13051745 TCGGAATCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 1 0.03
43 33 0.94
44 1 0.03
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGTAAACACATAATG
Found at i:13059839 original size:43 final size:43
Alignment explanation
Indices: 13059758--13059841 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
13059748 AAGTAGTACA
**
13059758 ATGCCAATGTCCCAGACGTGGTCTTACATGTAGTCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGTAAACACATATCG
*
13059801 ATGCCACTGTCCCAGACAG-GGTCTTAC-TCGTAAACACATAT
1 ATGCCAATGTCCCAGAC-GTGGTCTTACAT-GTAAACACATAT
13059842 TGAAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 34 0.94
44 1 0.03
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGTAAACACATATCG
Found at i:13066693 original size:27 final size:27
Alignment explanation
Indices: 13066662--13066839 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
13066652 TAAATTGTAC
13066662 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
13066689 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
13066715 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
13066743 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
13066771 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
13066798 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
13066825 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13066840 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:13066776 original size:82 final size:81
Alignment explanation
Indices: 13066663--13066818 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
13066653 AAATTGTACA
* *
13066663 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
13066727 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
13066744 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
13066809 TGCGAGTTGA
65 TGCGAATTGA
13066819 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:13066830 original size:82 final size:81
Alignment explanation
Indices: 13066659--13066839 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
13066649 GATTAAATTG
* *
13066659 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
13066724 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
13066740 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
13066804 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
13066822 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
13066840 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:13071507 original size:28 final size:28
Alignment explanation
Indices: 13071467--13071558 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
13071457 TGTACTAGAG
13071467 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
13071495 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
*
13071523 TACCCCTATGTATGCAAAATGACC-TCTA
1 TACCCCTATGTATGCAAAATTACCAT-TA
13071551 TACCCCTA
1 TACCCCTA
13071559 GGGTTAATTT
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
27 1 0.02
28 61 0.98
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.30
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATTACCATTA
Found at i:13071721 original size:27 final size:28
Alignment explanation
Indices: 13071674--13071753 Score: 108
Period size: 27 Copynumber: 2.9 Consensus size: 28
13071664 CTAGTGGCTA
* *
13071674 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGGCAC
**
13071702 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGGCAC
13071729 TGCCACAAAATATCTGTATCTGGTG
1 TGCCACAAAATATCTGT-TCTGGTG
13071754 ACTCTGTCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 23 0.52
28 14 0.32
29 7 0.16
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGGCAC
Found at i:13071764 original size:29 final size:28
Alignment explanation
Indices: 13071674--13071764 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
13071664 CTAGTGGCTA
* * *
13071674 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
13071702 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
13071729 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
13071758 TGTCACA
1 TGCCACA
13071765 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:13071772 original size:55 final size:56
Alignment explanation
Indices: 13071674--13071778 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 56
13071664 CTAGTGGCTA
* * *
13071674 TGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-TCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTATCTGGTGGCAC
* * *
13071729 TGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTATCTGG
1 TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTATCTGG
13071779 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
55 22 0.52
56 20 0.48
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (56 bp):
TGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTATCTGGTGGCAC
Found at i:13075537 original size:15 final size:15
Alignment explanation
Indices: 13075481--13075560 Score: 69
Period size: 15 Copynumber: 5.4 Consensus size: 15
13075471 TAAAGATAAC
*
13075481 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
13075495 AAGAAATTCA-AGATA
1 AAGAAATCCAGA-ATA
*
13075510 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
13075525 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
13075540 AA-AAGATCCAGGATA
1 AAGAA-ATCCAGAATA
13075555 AAGAAA
1 AAGAAA
13075561 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
14 12 0.23
15 36 0.68
16 5 0.09
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:13075556 original size:30 final size:30
Alignment explanation
Indices: 13075490--13075569 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
13075480 CAAGAAAACC
*
13075490 GAATAAAGAAATTCAAGATAGAAAAACCCA
1 GAATAAAGAAATCCAAGATAGAAAAACCCA
*
13075520 GAATAAAGAAATCC-AGAATA-AAAAGATCCA
1 GAATAAAGAAATCCAAG-ATAGAAAA-ACCCA
* *
13075550 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
13075570 CGATACTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 6 0.14
30 35 0.81
31 2 0.05
ACGTcount: A:0.59, C:0.14, G:0.15, T:0.12
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAGAAAAACCCA
Found at i:13075569 original size:15 final size:15
Alignment explanation
Indices: 13075492--13075569 Score: 56
Period size: 15 Copynumber: 5.2 Consensus size: 15
13075482 AGAAAACCGA
*
13075492 ATAAAGAAATTCAAG
1 ATAAAGAAATCCAAG
*
13075507 ATAGAA-AAA-CCCAG
1 ATA-AAGAAATCCAAG
13075521 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
*
13075536 AATAAA-AAGATCCAGG
1 -ATAAAGAA-ATCCAAG
*
13075552 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
13075567 ATA
1 ATA
13075570 CGATACTATG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 7 0.14
15 37 0.73
16 7 0.14
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:13077751 original size:72 final size:72
Alignment explanation
Indices: 13077634--13077776 Score: 277
Period size: 72 Copynumber: 2.0 Consensus size: 72
13077624 TTTTTTTTAC
*
13077634 AATTTATAGTGAATTTTTAAATTCAGAATAGGGGATACAGAGATTACTCTCACCCTGTTCCATGA
1 AATTTATAGTGAATTTTTAAATTCAGAATAGGGGATACAGAGATTACTCTCACCCTGTTCCACGA
13077699 AAACTTT
66 AAACTTT
13077706 AATTTATAGTGAATTTTTAAATTCAGAATAGGGGATACAGAGATTACTCTCACCCTGTTCCACGA
1 AATTTATAGTGAATTTTTAAATTCAGAATAGGGGATACAGAGATTACTCTCACCCTGTTCCACGA
13077771 AAACTT
66 AAACTT
13077777 AAATATCTCA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (72 bp):
AATTTATAGTGAATTTTTAAATTCAGAATAGGGGATACAGAGATTACTCTCACCCTGTTCCACGA
AAACTTT
Found at i:13081686 original size:17 final size:18
Alignment explanation
Indices: 13081650--13081687 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
13081640 AAAATGGACT
*
13081650 CACACGCCTATGTGGGCC
1 CACACGCCCATGTGGGCC
*
13081668 CACACGCCCGTGT-GGCC
1 CACACGCCCATGTGGGCC
13081685 CAC
1 CAC
13081688 TCGGCCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.16, C:0.45, G:0.26, T:0.13
Consensus pattern (18 bp):
CACACGCCCATGTGGGCC
Found at i:13085268 original size:22 final size:24
Alignment explanation
Indices: 13085224--13085279 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
13085214 TTTACTAAAA
*
13085224 AAAATAAAAACACCACAATACAT-T
1 AAAA-AAAAACAACACAATACATCT
* *
13085248 AAGAAAAAACAACAGAA-ACATCT
1 AAAAAAAAACAACACAATACATCT
13085271 AAAAAAAAA
1 AAAAAAAAA
13085280 TCAAAGTATG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 4 0.15
23 20 0.74
24 3 0.11
ACGTcount: A:0.70, C:0.16, G:0.04, T:0.11
Consensus pattern (24 bp):
AAAAAAAAACAACACAATACATCT
Found at i:13086383 original size:25 final size:26
Alignment explanation
Indices: 13086320--13086391 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 26
13086310 CGTTTTGACC
* *
13086320 CACAACTTGTGTGAGCAGACCCATTTT
1 CACAGCTTGTGTGAGCATACCCA-TTT
* * *
13086347 CATAGCTCGTGTGAGCATACCGA-TT
1 CACAGCTTGTGTGAGCATACCCATTT
13086372 CACAGCTTGTGTGAGCATAC
1 CACAGCTTGTGTGAGCATAC
13086392 ATGTACAAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 20 0.53
27 18 0.47
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (26 bp):
CACAGCTTGTGTGAGCATACCCATTT
Found at i:13089988 original size:760 final size:757
Alignment explanation
Indices: 13088811--13091087 Score: 3117
Period size: 752 Copynumber: 3.0 Consensus size: 757
13088801 ACACAGTCGT
* ** * * *
13088811 GTGGTGTCGACAGTCCAGTTTTTCAACTTTCAGCCGTTTGTGATTTTTCTAGTTTTCATTACACA
1 GTGGTGTCGACAGTCCAATTTTTCGGCTTTTAGCCGTTCGTGATTTTTCTAGTTTTCGTTACACA
* * *
13088876 CCTTGGTTTTTTTTATGCGAATCCACCCACGAGGCTTCCAAAACCTAAAAACATCAATTAA-CCA
66 CCTTGGCTTTTTTTATGCGAATCCACTCACGAGGCTTCCAGAACCTAAAAACATCAATTAATCC-
* * * *
13088940 TCTAAATTAGCAATGATTTATTAATTCCAAGTAATACTTATGATTAAAAATGCTAACATACACCT
130 TCCAAATTAGCAATGATTTACTAATTCCAATTAACACTTATGATTAAAAATGCTAACATACACCT
* * *
13089005 TACTAAACAAAAATTTTACCCCTTTTTGGGTGTTCGATCACTTACCCAAACGAACAGCCACTACC
195 TACTAAACCAAAATTCTA-CCCTTTTTGGGTGTTCGATCACTTACCCAAACGAACAGCCACCACC
* * * *
13089070 CACACTTAATTTGCTGGTAGGTCACTGAAAGCTTCATGGTTTTCTCCTAATAACAGAAAAGAACC
259 CACACTTAATTTGCTAGTGGGTCACTGAAAGCTTCACGGTCTTCTCCTAATAACAGAAAAGAACC
* * *
13089135 CAATCAAACAATCTTACGTCACAATTACAACCAACCTGAACATAATAATTCTCCATACCAACAAG
324 GAATCAAACAACCTTACGCCACAATTACAACCAACCTGAACATAATAATTCTCCATACCAACAAG
* * *
13089200 GAAATAATTCCACCACTGACAA-AAACACCAAAACCACTTACTAACAAGCTACGACAATCGACTG
389 GAAATAATTCCACCACTGACAACAAACACCACAACCACTTACCAACAAGGTACGACAATCGACTG
*
13089264 TGTAGAAGATGGGAACTGAAACAGAAGCAAAAGAAAAAGGGAAAGGAACAAAAAGAAA-AAA-AT
454 TGTAGAAGATGGGAACTGAAACA-AAGCAAAAGCAAAAGGGAAAGGAACAAAAAGAAAGAAACAT
* * *
13089327 ATAATATGGTGTGAAGAAGGAATAATTGAAAAGTAAAGATGAAGAATGGGGGAAGAAAACATTAG
518 ATAATATGGTGTGAAGAAGAAATAATTGAAAAGCAAAGATGAAGAATGGGGGAAGAAAACGTTAG
*
13089392 ACGTCAGAAAAGAAAAGTGAATTTTTGGGGATTTCAAAAAAAATAATTAAAATTACTTTTCTAAA
583 ACGT-AGAAAAGAAAAG-GAATTTTTGGGGATTTC-AAAAAAATAATTAAAATTTCTTTT-TAAA
* *
13089457 AAAACCACTAACCATTTCCCCTACTAACTTCACCAAATTAGGTACCCACTTCTATTAGATTTCCC
644 AAAACCACTAACCATTTCCCCTACTAACTCCACCAAATTAGGTACCCACTTCTATCAGATTTCCC
* *
13089522 ATAGAATTCGAAACCCATGCAAACTCTACCACCTAGGTGGCTCAAGCAG
709 ATAGAATTCGAAACCCATCCAAACTCTACCACCTGGGTGGCTCAAGCAG
* * *
13089571 GTGGTGTCGACAATCCAATTTTTTGGCTTTTAGCCATTCGTGATTTTTCTAGTTTTCGTTACACA
1 GTGGTGTCGACAGTCCAATTTTTCGGCTTTTAGCCGTTCGTGATTTTTCTAGTTTTCGTTACACA
* * *
13089636 CCTTGGCTTTCTTTATCCGAATCCACTCACGAGGCTTCCAGAACCTAAAAACGTCAATTAATCCT
66 CCTTGGCTTTTTTTATGCGAATCCACTCACGAGGCTTCCAGAACCTAAAAACATCAATTAATCCT
13089701 CCAAATTAGCAATGATTTACTAATTCCAATTAACACTTATGATTAAAAATGCTAACATACACCTT
131 CCAAATTAGCAATGATTTACTAATTCCAATTAACACTTATGATTAAAAATGCTAACATACACCTT
* * * * *
13089766 ACTTAACCAAAATTCTACCTTTTTTTGGGTGTTCGATCACTTGCCCAAATGAACAACCACCACCC
196 ACTAAACCAAAATTCTACC-CTTTTTGGGTGTTCGATCACTTACCCAAACGAACAGCCACCACCC
* * * *
13089831 ATACTTAATTTGCTAGTGGGTCACTAAAAACTTCACGGTCTTCTCCTAGTAACAGAAAA-AACCG
260 ACACTTAATTTGCTAGTGGGTCACTGAAAGCTTCACGGTCTTCTCCTAATAACAGAAAAGAACCG
* * *
13089895 AATCAAACAACCTTACACCATAATTACAACCAACCTGAACATAATAATTCTCCATACCAATAAGG
325 AATCAAACAACCTTACGCCACAATTACAACCAACCTGAACATAATAATTCTCCATACCAACAAGG
*
13089960 AAATAATTCCACCACTGACAACAAACACCACAACCACTTACCAACAAGGTACGACAATCGACTAT
390 AAATAATTCCACCACTGACAACAAACACCACAACCACTTACCAACAAGGTACGACAATCGACTGT
** *
13090025 GTAG-A-A---GAACTG----AAA-CAAAAGCAAAAGGGAAAAAAACAAAAAGAAAGAAACAAAT
455 GTAGAAGATGGGAACTGAAACAAAGCAAAAGCAAAAGGGAAAGGAACAAAAAGAAAGAAACATAT
* *
13090080 AATATGGTGTGAAGAAGAAAAAAATTGAAAAGCAAAGATGAAGAATGGGGAAAGAAAACGTTAGA
520 AATATGGTGTGAAGAAG-AAATAATTGAAAAGCAAAGATGAAGAATGGGGGAAGAAAACGTTAGA
* * * **
13090145 CGTAAAACAAGAACA-GAAATTTTAAGGATTTCAAAAAAATAATTACTAAATTTTCTTTTTAAAG
584 CGTAGAA-AAGAAAAGGAATTTTTGGGGATTTCAAAAAAATAATTA--AAA-TTTCTTTTTAAA-
* * * *
13090209 AAAACCATTAACCATTTCCCCCACTAAATCCACCAAATTAGGTGCCCACTTCTATCAGATTTCCC
644 AAAACCACTAACCATTTCCCCTACTAACTCCACCAAATTAGGTACCCACTTCTATCAGATTTCCC
* ** *
13090274 ATAGAATTCGAAACCTATCCAAACT-TCACCACCTGGGCAGCTCAAGGAG
709 ATAGAATTCGAAACCCATCCAAACTCT-ACCACCTGGGTGGCTCAAGCAG
* * * *
13090323 GTGGCGTCAACAGTCCAATTTTTCGGCTTTTAGCCGTTC-TCAATTTTTCTAGTTTTTGTTACAC
1 GTGGTGTCGACAGTCCAATTTTTCGGCTTTTAGCCGTTCGT-GATTTTTCTAGTTTTCGTTACAC
* * *
13090387 ACCTTGGCTTTTTTTTATGCGAATCCA-TCCATGAGGCTTCTAGAACCTAAAAACATTAATTAAT
65 ACCTTGGC-TTTTTTTATGCGAATCCACT-CACGAGGCTTCCAGAACCTAAAAACATCAATTAAT
** ***
13090451 CCTCCAAATTAGCAACAATTTACTAATTCCAATTAACACTTATGATTAAAAACATTAACATACAC
128 CCTCCAAATTAGCAATGATTTACTAATTCCAATTAACACTTATGATTAAAAATGCTAACATACAC
* * *
13090516 CTTACTAAACCGAAATTC-AGCCCCTTTTGGGTGTTCGATCACTTACCCAAACGAACAGTCACCA
193 CTTACTAAACCAAAATTCTA-CCCTTTTTGGGTGTTCGATCACTTACCCAAACGAACAGCCACCA
* * ** * *
13090580 CCCACATTTAATTTGCTTGTGGGT-TGTCGAATGCTTCACGATCTTCTCCTAATAACAGAAAAGA
257 CCCACACTTAATTTGCTAGTGGGTCACT-GAAAGCTTCACGGTCTTCTCCTAATAACAGAAAAGA
* *
13090644 A-TGCAATCAAACAACCTTACGCCACAATTACAACCAACCTGAACATAATAATTCTCTATACCAA
321 ACCG-AATCAAACAACCTTACGCCACAATTACAACCAACCTGAACATAATAATTCTCCATACCAA
* *
13090708 CAAGGAAATAATTCCACCATTGAC-ACAAACACCACAACCACTTACCAACAAGGTACGACAATTG
385 CAAGGAAATAATTCCACCACTGACAACAAACACCACAACCACTTACCAACAAGGTACGACAATCG
* *
13090772 ACTGTGTAGAAGATGGGAA-TGGAAACAAAAGTAAAAGCAAAATGGAAAGGAACAAAAAGAAAGA
450 ACTGTGTAGAAGATGGGAACT-GAAAC-AAAGCAAAAGCAAAAGGGAAAGGAACAAAAAGAAAGA
* * * * *
13090836 AACATATAAGATGGTGTGAAGAAGAAATAATTGTAAAGCAAAGGTTAAGAATGGAGGAAGAAAAC
513 AACATATAATATGGTGTGAAGAAGAAATAATTGAAAAGCAAAGATGAAGAATGGGGGAAGAAAAC
* *
13090901 GTTAGACGTTAGAAAATAAAAGAGAATTTTTGGGGATTTCAAAAAAATAATTAAATTTTCTTTTT
578 GTTAGACG-TAGAAAAGAAAAG-GAATTTTTGGGGATTTCAAAAAAATAATTAAAATTTC---TT
* *
13090966 TTTAAAAAAAAACCACTAACCATTTCCCCTACTAACTCCACCATATTAGGTACTCACTTCTATCA
638 TTT--AAAAAAACCACTAACCATTTCCCCTACTAACTCCACCAAATTAGGTACCCACTTCTATCA
* * *
13091031 GATTTCCCACAGAATTCGAAACCCATCCAAGCTCCACCACCTGGGTGGCTCAAGCAG
701 GATTTCCCATAGAATTCGAAACCCATCCAAACTCTACCACCTGGGTGGCTCAAGCAG
13091088 AAATAGTAAA
Statistics
Matches: 1329, Mismatches: 148, Indels: 75
0.86 0.10 0.05
Matches are distributed among these distances:
749 41 0.03
750 19 0.01
751 34 0.03
752 357 0.27
753 207 0.16
754 1 0.00
755 6 0.00
756 1 0.00
757 4 0.00
758 1 0.00
759 88 0.07
760 321 0.24
761 6 0.00
762 53 0.04
763 55 0.04
764 32 0.02
765 100 0.08
766 3 0.00
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.26
Consensus pattern (757 bp):
GTGGTGTCGACAGTCCAATTTTTCGGCTTTTAGCCGTTCGTGATTTTTCTAGTTTTCGTTACACA
CCTTGGCTTTTTTTATGCGAATCCACTCACGAGGCTTCCAGAACCTAAAAACATCAATTAATCCT
CCAAATTAGCAATGATTTACTAATTCCAATTAACACTTATGATTAAAAATGCTAACATACACCTT
ACTAAACCAAAATTCTACCCTTTTTGGGTGTTCGATCACTTACCCAAACGAACAGCCACCACCCA
CACTTAATTTGCTAGTGGGTCACTGAAAGCTTCACGGTCTTCTCCTAATAACAGAAAAGAACCGA
ATCAAACAACCTTACGCCACAATTACAACCAACCTGAACATAATAATTCTCCATACCAACAAGGA
AATAATTCCACCACTGACAACAAACACCACAACCACTTACCAACAAGGTACGACAATCGACTGTG
TAGAAGATGGGAACTGAAACAAAGCAAAAGCAAAAGGGAAAGGAACAAAAAGAAAGAAACATATA
ATATGGTGTGAAGAAGAAATAATTGAAAAGCAAAGATGAAGAATGGGGGAAGAAAACGTTAGACG
TAGAAAAGAAAAGGAATTTTTGGGGATTTCAAAAAAATAATTAAAATTTCTTTTTAAAAAAACCA
CTAACCATTTCCCCTACTAACTCCACCAAATTAGGTACCCACTTCTATCAGATTTCCCATAGAAT
TCGAAACCCATCCAAACTCTACCACCTGGGTGGCTCAAGCAG
Found at i:13094132 original size:20 final size:20
Alignment explanation
Indices: 13094107--13094154 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
13094097 AATTGAAGTG
13094107 AATGTGATATTGAGTTATGA
1 AATGTGATATTGAGTTATGA
* *
13094127 AATGTGATATTGGGTTGTGA
1 AATGTGATATTGAGTTATGA
13094147 AATGTGAT
1 AATGTGAT
13094155 TTTATGGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (20 bp):
AATGTGATATTGAGTTATGA
Found at i:13094280 original size:34 final size:34
Alignment explanation
Indices: 13094242--13094348 Score: 108
Period size: 35 Copynumber: 3.1 Consensus size: 34
13094232 TAACTAGTGC
13094242 TGGGCACAACCATCGTCGGTTATTCGACTAGCGT
1 TGGGCACAACCATCGTCGGTTATTCGACTAGCGT
* * * ** * *
13094276 TGGGCGCAA-CTTCTGTCAGTTCCTCTGACTGGTGT
1 TGGGCACAACCATC-GTCGGTTATTC-GACTAGCGT
*
13094311 TGGGCACAACCATCGTCGGTTATCCGACTAGCGCT
1 TGGGCACAACCATCGTCGGTTATTCGACTAGCG-T
13094346 TGG
1 TGG
13094349 TGCAACTTCT
Statistics
Matches: 54, Mismatches: 15, Indels: 7
0.71 0.20 0.09
Matches are distributed among these distances:
33 3 0.06
34 22 0.41
35 26 0.48
36 3 0.06
ACGTcount: A:0.17, C:0.27, G:0.28, T:0.28
Consensus pattern (34 bp):
TGGGCACAACCATCGTCGGTTATTCGACTAGCGT
Found at i:13094313 original size:35 final size:35
Alignment explanation
Indices: 13094207--13094638 Score: 102
Period size: 35 Copynumber: 12.2 Consensus size: 35
13094197 CGACTAACGC
* * * *
13094207 TGGGCGCAACTTCTGTTAGTTCATCTAACTAGTGC
1 TGGGCACAACTTCTGTCAGTTCATCTGACTAGTGT
* * *
13094242 TGGGCACAACCATC-GTCGGTT-AT-TCGACTAGCGT
1 TGGGCACAA-CTTCTGTCAGTTCATCT-GACTAGTGT
* * *
13094276 TGGGCGCAACTTCTGTCAGTTCCTCTGACTGGTGT
1 TGGGCACAACTTCTGTCAGTTCATCTGACTAGTGT
* * * *
13094311 TGGGCACAACCATC-GTCGGTT-ATCCGACTAGCGCT
1 TGGGCACAA-CTTCTGTCAGTTCATCTGACTAGTG-T
* * * *
13094346 TGGTG--CAACTTCTATCAATTTATCTGCAC-AGTGC
1 TGG-GCACAACTTCTGTCAGTTCATCTG-ACTAGTGT
* * *
13094380 TGGGCACAACCAATGCAACTTCTGTCAGTTTATCTAACTAGTGC
1 TGGG------C-A--CAACTTCTGTCAGTTCATCTGACTAGTGT
* * * *
13094424 TAGGCACAACTATC-GTTAGTT-AT-TCGACTAGCGC
1 TGGGCACAACT-TCTGTCAGTTCATCT-GACTAGTGT
* * * * * *
13094458 TAGGCTCAACTTTTGTCAGTTCATTTGACCAGTGC
1 TGGGCACAACTTCTGTCAGTTCATCTGACTAGTGT
* * *
13094493 TGGGCACAACCAT-TGTCGGTT-ATCTGACTAGTGC
1 TGGGCACAA-CTTCTGTCAGTTCATCTGACTAGTGT
** * * * * *
13094527 TGGGTGCAACATCTGTTAGTTCACCTTACTAGTGC
1 TGGGCACAACTTCTGTCAGTTCATCTGACTAGTGT
* * * * * * *
13094562 TGAGTAGAACCATC-GTCGGTT-ATCCGACTAGTGC
1 TGGGCACAA-CTTCTGTCAGTTCATCTGACTAGTGT
* ** * * *
13094596 TGAGTGCAACTTCTCTCAATTTATCTGACTAGTGT
1 TGGGCACAACTTCTGTCAGTTCATCTGACTAGTGT
13094631 TGGGCACA
1 TGGGCACA
13094639 CTCTTTATAT
Statistics
Matches: 293, Mismatches: 70, Indels: 68
0.68 0.16 0.16
Matches are distributed among these distances:
33 16 0.05
34 110 0.38
35 118 0.40
36 19 0.06
37 1 0.00
38 1 0.00
43 2 0.01
44 26 0.09
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.31
Consensus pattern (35 bp):
TGGGCACAACTTCTGTCAGTTCATCTGACTAGTGT
Found at i:13094315 original size:69 final size:69
Alignment explanation
Indices: 13094186--13094391 Score: 245
Period size: 69 Copynumber: 3.0 Consensus size: 69
13094176 AATTGATATT
* * * *
13094186 GTCGGTTCACCCGACTAACGCTGGGCGCAACTTCTGTTAGTTCATCTAACTAGTGCTGGGCACAA
1 GTCGGTT-ATCCGACTAGCGTTGGGCGCAACTTCTGTCAGTTCATCTAACTAGTGCTGGGCACAA
13094251 CCATC
65 CCATC
* * * * *
13094256 GTCGGTTATTCGACTAGCGTTGGGCGCAACTTCTGTCAGTTCCTCTGACTGGTGTTGGGCACAAC
1 GTCGGTTATCCGACTAGCGTTGGGCGCAACTTCTGTCAGTTCATCTAACTAGTGCTGGGCACAAC
13094321 CATC
66 CATC
* * * * *
13094325 GTCGGTTATCCGACTAGCGCTT-GGTGCAACTTCTATCAATTTATCTGCAC-AGTGCTGGGCACA
1 GTCGGTTATCCGACTAGCG-TTGGGCGCAACTTCTGTCAGTTCATCT-AACTAGTGCTGGGCACA
13094388 ACCA
64 ACCA
13094392 ATGCAACTTC
Statistics
Matches: 116, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
69 105 0.91
70 11 0.09
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (69 bp):
GTCGGTTATCCGACTAGCGTTGGGCGCAACTTCTGTCAGTTCATCTAACTAGTGCTGGGCACAAC
CATC
Found at i:13094412 original size:44 final size:44
Alignment explanation
Indices: 13094349--13094433 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
13094339 TAGCGCTTGG
* *
13094349 TGCAACTTCTATCAATTTATCTGCAC-AGTGCTGGGCACAACCAA
1 TGCAACTTCTATCAATTTATCT-AACTAGTGCTAGGCACAACCAA
* *
13094393 TGCAACTTCTGTCAGTTTATCTAACTAGTGCTAGGCACAAC
1 TGCAACTTCTATCAATTTATCTAACTAGTGCTAGGCACAAC
13094434 TATCGTTAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (44 bp):
TGCAACTTCTATCAATTTATCTAACTAGTGCTAGGCACAACCAA
Found at i:13094491 original size:113 final size:113
Alignment explanation
Indices: 13094281--13094504 Score: 272
Period size: 113 Copynumber: 2.0 Consensus size: 113
13094271 AGCGTTGGGC
* * * * * *
13094281 GCAACTTCTGTCAGTTCCTCTGACTGGTGTTGGGCACAACCATCGTCGGTTATCCGACTAGCGCT
1 GCAACTTCTGTCAGTTCATCTAACTAGTGCTAGGCACAACCATCGTCAGTTATCCGACTAGCGCT
* *
13094346 TGGTGCAACTTCTATCAATTTATCTGCACAGTGCTGGGCACAACCAAT
66 AGGTGCAACTTCTATCAATTCATCTGCACAGTGCTGGGCACAACCAAT
* * * *
13094394 GCAACTTCTGTCAGTTTATCTAACTAGTGCTAGGCACAACTATCGTTAGTTATTCGACTAGCGCT
1 GCAACTTCTGTCAGTTCATCTAACTAGTGCTAGGCACAACCATCGTCAGTTATCCGACTAGCGCT
* * * *
13094459 AGGCT-CAACTTTTGTCAGTTCATTTG-ACCAGTGCTGGGCACAACCA
66 AGG-TGCAACTTCTATCAATTCATCTGCA-CAGTGCTGGGCACAACCA
13094505 TTGTCGGTTA
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
112 1 0.01
113 91 0.98
114 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (113 bp):
GCAACTTCTGTCAGTTCATCTAACTAGTGCTAGGCACAACCATCGTCAGTTATCCGACTAGCGCT
AGGTGCAACTTCTATCAATTCATCTGCACAGTGCTGGGCACAACCAAT
Found at i:13094515 original size:69 final size:69
Alignment explanation
Indices: 13094395--13094592 Score: 159
Period size: 69 Copynumber: 2.9 Consensus size: 69
13094385 ACAACCAATG
* * * *
13094395 CAACTTCTGTCAGTTTATCTAACTAGTGCTAGGCACAACTATCGTTAGTTAT-TCGACTAGCGCT
1 CAACTTCTGTCAGTTCATCTAACCAGTGCTAGGCACAACCATCGTCAGTTATCT-GACTAGCGCT
13094459 AGGCT
65 AGGCT
* * * * * * *
13094464 CAACTTTTGTCAGTTCATTTGACCAGTGCTGGGCACAACCATTGTCGGTTATCTGACTAGTGCT-
1 CAACTTCTGTCAGTTCATCTAACCAGTGCTAGGCACAACCATCGTCAGTTATCTGACTAGCGCTA
*
13094528 GGGT
66 GGCT
* * * * * * * * *
13094532 GCAACATCTGTTAGTTCACCTTACTAGTGCT-GAGTAGAACCATCGTCGGTTATCCGACTAG
1 -CAACTTCTGTCAGTTCATCTAACCAGTGCTAG-GCACAACCATCGTCAGTTATCTGACTAG
13094593 TGCTGAGTGC
Statistics
Matches: 103, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
68 4 0.04
69 98 0.95
70 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (69 bp):
CAACTTCTGTCAGTTCATCTAACCAGTGCTAGGCACAACCATCGTCAGTTATCTGACTAGCGCTA
GGCT
Found at i:13094528 original size:34 final size:34
Alignment explanation
Indices: 13094402--13094597 Score: 117
Period size: 34 Copynumber: 5.7 Consensus size: 34
13094392 ATGCAACTTC
* * *
13094402 TGTCAGTTTATCTAACTAGTGCTAGGCACAACTAT
1 TGTCAG-TTATCTGACTAGTGCTGGGCACAACCAT
* * * * * **
13094437 CGTTAGTTAT-TCGACTAGCGCTAGGCTCAACTTT
1 TGTCAGTTATCT-GACTAGTGCTGGGCACAACCAT
* *
13094471 TGTCAGTTCATTTGACCAGTGCTGGGCACAACCAT
1 TGTCAGTT-ATCTGACTAGTGCTGGGCACAACCAT
* **
13094506 TGTCGGTTATCTGACTAGTGCTGGGTGCAA-CAT
1 TGTCAGTTATCTGACTAGTGCTGGGCACAACCAT
* * * * * *
13094539 CTGTTAGTTCACCTTACTAGTGCTGAGTAGAACCAT
1 -TGTCAGTT-ATCTGACTAGTGCTGGGCACAACCAT
* * *
13094575 CGTCGGTTATCCGACTAGTGCTG
1 TGTCAGTTATCTGACTAGTGCTG
13094598 AGTGCAACTT
Statistics
Matches: 123, Mismatches: 32, Indels: 13
0.73 0.19 0.08
Matches are distributed among these distances:
33 4 0.03
34 64 0.52
35 51 0.41
36 4 0.03
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (34 bp):
TGTCAGTTATCTGACTAGTGCTGGGCACAACCAT
Found at i:13094563 original size:182 final size:182
Alignment explanation
Indices: 13094212--13094540 Score: 460
Period size: 182 Copynumber: 1.8 Consensus size: 182
13094202 AACGCTGGGC
* * * *
13094212 GCAACTTCTGTTAGTTCATCTAACTAGTGCTGGGCACAACCATCGTCGGTTATTCGACTAGCGTT
1 GCAACTTCTGTCAGTTCATCTAACTAGTGCTAGGCACAACCATCGTCAGTTATTCGACTAGCGCT
* * ** *
13094277 GGGCGCAACTTCTGTCAGTTCCTCTGACTGGTGTTGGGCACAACCATCGTCGGTTATCCGACTAG
66 AGGCGCAACTTCTGTCAGTTCATCTGACCAGTGCTGGGCACAACCATCGTCGGTTATCCGACTAG
* * * *
13094342 CGCTTGGTGCAACTTCTATCAATTTATCTGCACAGTGCTGGGCACAACCAAT
131 CGCTGGGTGCAACATCTATCAATTCACCTGCACAGTGCTGGGCACAACCAAT
* * *
13094394 GCAACTTCTGTCAGTTTATCTAACTAGTGCTAGGCACAACTATCGTTAGTTATTCGACTAGCGCT
1 GCAACTTCTGTCAGTTCATCTAACTAGTGCTAGGCACAACCATCGTCAGTTATTCGACTAGCGCT
* * * * *
13094459 AGGCTCAACTTTTGTCAGTTCATTTGACCAGTGCTGGGCACAACCATTGTCGGTTATCTGACTAG
66 AGGCGCAACTTCTGTCAGTTCATCTGACCAGTGCTGGGCACAACCATCGTCGGTTATCCGACTAG
*
13094524 TGCTGGGTGCAACATCT
131 CGCTGGGTGCAACATCT
13094541 GTTAGTTCAC
Statistics
Matches: 127, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
182 127 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (182 bp):
GCAACTTCTGTCAGTTCATCTAACTAGTGCTAGGCACAACCATCGTCAGTTATTCGACTAGCGCT
AGGCGCAACTTCTGTCAGTTCATCTGACCAGTGCTGGGCACAACCATCGTCGGTTATCCGACTAG
CGCTGGGTGCAACATCTATCAATTCACCTGCACAGTGCTGGGCACAACCAAT
Found at i:13094627 original size:69 final size:69
Alignment explanation
Indices: 13094500--13094629 Score: 170
Period size: 69 Copynumber: 1.9 Consensus size: 69
13094490 TGCTGGGCAC
* * * * * * *
13094500 AACCATTGTCGGTTATCTGACTAGTGCTGGGTGCAACATCTGTTAGTTCACCTTACTAGTGCTGA
1 AACCATCGTCGGTTATCCGACTAGTGCTGAGTGCAACATCTCTCAATTCACCTGACTAGTGCTGA
13094565 GTAG
66 GTAG
* * *
13094569 AACCATCGTCGGTTATCCGACTAGTGCTGAGTGCAACTTCTCTCAATTTATCTGACTAGTG
1 AACCATCGTCGGTTATCCGACTAGTGCTGAGTGCAACATCTCTCAATTCACCTGACTAGTG
13094630 TTGGGCACAC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 51 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (69 bp):
AACCATCGTCGGTTATCCGACTAGTGCTGAGTGCAACATCTCTCAATTCACCTGACTAGTGCTGA
GTAG
Found at i:13103668 original size:22 final size:22
Alignment explanation
Indices: 13103640--13103762 Score: 72
Period size: 22 Copynumber: 6.1 Consensus size: 22
13103630 CTTATGGTGA
13103640 TGTTATTCAGGCTTTGTGCCGG
1 TGTTATTCAGGCTTTGTGCCGG
* *
13103662 TGTTATTTAGGCGTTGTGCC--
1 TGTTATTCAGGCTTTGTGCCGG
* *
13103682 ---TA-GCAGGCTTTATGCCGG
1 TGTTATTCAGGCTTTGTGCCGG
* *
13103700 TGTTATTTAGGCTCTGTGCC--
1 TGTTATTCAGGCTTTGTGCCGG
* * *
13103720 ---TAGT-AGGCTTTGTGTCAG
1 TGTTATTCAGGCTTTGTGCCGG
*
13103738 TGTTATTCAGGCTTTGTGCTGG
1 TGTTATTCAGGCTTTGTGCCGG
13103760 TGT
1 TGT
13103763 ATTAAAAGTT
Statistics
Matches: 72, Mismatches: 17, Indels: 24
0.64 0.15 0.21
Matches are distributed among these distances:
16 20 0.28
17 5 0.07
21 5 0.07
22 42 0.58
ACGTcount: A:0.11, C:0.16, G:0.31, T:0.41
Consensus pattern (22 bp):
TGTTATTCAGGCTTTGTGCCGG
Found at i:13103689 original size:38 final size:37
Alignment explanation
Indices: 13103647--13103756 Score: 148
Period size: 38 Copynumber: 2.9 Consensus size: 37
13103637 TGATGTTATT
13103647 CAGGCTTTGTGCCGGTGTTATTTAGGCGTTGTGCCTAG
1 CAGGCTTTGTGCCGGTGTTATTTAGGC-TTGTGCCTAG
*
13103685 CAGGCTTTATGCCGGTGTTATTTAGGCTCTGTGCCTAG
1 CAGGCTTTGTGCCGGTGTTATTTAGGCT-TGTGCCTAG
* * * *
13103723 TAGGCTTTGTGTCAGTGTTATTCAGGCTTTGTGC
1 CAGGCTTTGTGCCGGTGTTATTTAGGC-TTGTGC
13103757 TGGTGTATTA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
37 1 0.02
38 62 0.97
39 1 0.02
ACGTcount: A:0.12, C:0.18, G:0.31, T:0.39
Consensus pattern (37 bp):
CAGGCTTTGTGCCGGTGTTATTTAGGCTTGTGCCTAG
Found at i:13104917 original size:16 final size:16
Alignment explanation
Indices: 13104874--13104920 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
13104864 TAAAGTTACG
13104874 TTTTTACTATAATGCT
1 TTTTTACTATAATGCT
*
13104890 TTGTAATACTATAAT-CT
1 TT-T-TTACTATAATGCT
13104907 ATTTTTACTATAAT
1 -TTTTTACTATAAT
13104921 TGGATATGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 11 0.42
17 4 0.15
18 11 0.42
ACGTcount: A:0.32, C:0.11, G:0.04, T:0.53
Consensus pattern (16 bp):
TTTTTACTATAATGCT
Found at i:13109391 original size:40 final size:40
Alignment explanation
Indices: 13109343--13109530 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
13109333 GCAAACACAT
* * *
13109343 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
13109383 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
13109423 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
13109463 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
13109503 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
13109531 TCCAATGCTC
Statistics
Matches: 137, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 137 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:13113463 original size:57 final size:57
Alignment explanation
Indices: 13113400--13113512 Score: 183
Period size: 57 Copynumber: 2.0 Consensus size: 57
13113390 GTGAGGGAGA
*
13113400 GGGAAAGAATCAGAGTAGA-AGGAGGGATGGTGGGGAAGAGGGGGAGAGGGGGAAAGG
1 GGGAAAGAATCAGAGTAGAGA-GAGGGATGGTGGGGAAGAGGAGGAGAGGGGGAAAGG
* *
13113457 GGGAAAGAATCATAGTAGGGAGAGGGATGGTGGGGAAGAGGAGGAGAGGGGGAAAG
1 GGGAAAGAATCAGAGTAGAGAGAGGGATGGTGGGGAAGAGGAGGAGAGGGGGAAAG
13113513 AATCAGAGTA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
57 51 0.98
58 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.55, T:0.08
Consensus pattern (57 bp):
GGGAAAGAATCAGAGTAGAGAGAGGGATGGTGGGGAAGAGGAGGAGAGGGGGAAAGG
Found at i:13113497 original size:49 final size:49
Alignment explanation
Indices: 13113439--13113547 Score: 157
Period size: 49 Copynumber: 2.2 Consensus size: 49
13113429 GTGGGGAAGA
* * *
13113439 GGGGGAGAGGGGGAAAGGGGGAAAGAATCATAGT-AGGGAGAGGGATGGT
1 GGGGAAGAGGGGGAAAGGGGGAAAGAATCAGAGTAAGGG-GAGGGATAGT
* *
13113488 GGGGAAGAGGAGGAGAGGGGGAAAGAATCAGAGTAAGGGGAGGGATAGT
1 GGGGAAGAGGGGGAAAGGGGGAAAGAATCAGAGTAAGGGGAGGGATAGT
13113537 GGGGAAGAGGG
1 GGGGAAGAGGG
13113548 AGAGGAATAG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
49 49 0.92
50 4 0.08
ACGTcount: A:0.34, C:0.02, G:0.56, T:0.08
Consensus pattern (49 bp):
GGGGAAGAGGGGGAAAGGGGGAAAGAATCAGAGTAAGGGGAGGGATAGT
Found at i:13118602 original size:16 final size:16
Alignment explanation
Indices: 13118583--13118617 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
13118573 TGCTGAAAGT
*
13118583 GCTTCCAGCTGGACGC
1 GCTTCCAACTGGACGC
13118599 GCTTCCAACTGGACGC
1 GCTTCCAACTGGACGC
13118615 GCT
1 GCT
13118618 ATCAGTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.37, G:0.29, T:0.20
Consensus pattern (16 bp):
GCTTCCAACTGGACGC
Found at i:13119086 original size:16 final size:16
Alignment explanation
Indices: 13119052--13119085 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
13119042 CATACTTTAT
13119052 AAACCCTATCCTTAAA
1 AAACCCTATCCTTAAA
*
13119068 AAACCCTA-CTTTAAA
1 AAACCCTATCCTTAAA
13119083 AAA
1 AAA
13119086 ATAAAACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (16 bp):
AAACCCTATCCTTAAA
Found at i:13119911 original size:27 final size:27
Alignment explanation
Indices: 13119868--13119921 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
13119858 ACCTATTATG
*
13119868 CTCTATTTTTGGATTTCTTGAAACTTC
1 CTCTATATTTGGATTTCTTGAAACTTC
*
13119895 CTCTATATTT-GAGTTTCTTGAAGCTTC
1 CTCTATATTTGGA-TTTCTTGAAACTTC
13119922 GACAACCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.50
Consensus pattern (27 bp):
CTCTATATTTGGATTTCTTGAAACTTC
Found at i:13122409 original size:19 final size:19
Alignment explanation
Indices: 13122387--13122423 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13122377 TTGTTATTAC
*
13122387 TATTTATTATTATTAATGT
1 TATTTACTATTATTAATGT
*
13122406 TATTTACTATTGTTAATG
1 TATTTACTATTATTAATG
13122424 ACTAAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (19 bp):
TATTTACTATTATTAATGT
Found at i:13122928 original size:21 final size:21
Alignment explanation
Indices: 13122902--13122944 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
13122892 TAATTTTGAA
*
13122902 AATTAGATATTAAAGTTT-TGC
1 AATTAGAAATTAAA-TTTGTGC
13122923 AATTAGAAATTAAATTTGTGC
1 AATTAGAAATTAAATTTGTGC
13122944 A
1 A
13122945 TAAGTATCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.40
Consensus pattern (21 bp):
AATTAGAAATTAAATTTGTGC
Found at i:13127309 original size:20 final size:20
Alignment explanation
Indices: 13127284--13127324 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
13127274 AGACAAGTAA
13127284 TCCATATAAAATGTTTGAAT
1 TCCATATAAAATGTTTGAAT
13127304 TCCATATAAAATGTTTGAAT
1 TCCATATAAAATGTTTGAAT
13127324 T
1 T
13127325 TCTGTTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
TCCATATAAAATGTTTGAAT
Found at i:13131803 original size:18 final size:19
Alignment explanation
Indices: 13131780--13131825 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
13131770 CGAACTAGCA
13131780 AGCTGGG-GGAAAGTGGCG
1 AGCTGGGAGGAAAGTGGCG
* *
13131798 AGCTGGGAGTAGAGTGGCG
1 AGCTGGGAGGAAAGTGGCG
13131817 AGCTGGGAG
1 AGCTGGGAG
13131826 TAGAGTGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.22, C:0.11, G:0.54, T:0.13
Consensus pattern (19 bp):
AGCTGGGAGGAAAGTGGCG
Found at i:13131815 original size:19 final size:19
Alignment explanation
Indices: 13131791--13131833 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
13131781 GCTGGGGGAA
13131791 AGTGGCGAGCTGGGAGTAG
1 AGTGGCGAGCTGGGAGTAG
13131810 AGTGGCGAGCTGGGAGTAG
1 AGTGGCGAGCTGGGAGTAG
13131829 AGTGG
1 AGTGG
13131834 TACGAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.21, C:0.09, G:0.53, T:0.16
Consensus pattern (19 bp):
AGTGGCGAGCTGGGAGTAG
Found at i:13133144 original size:18 final size:18
Alignment explanation
Indices: 13133121--13133200 Score: 97
Period size: 18 Copynumber: 4.4 Consensus size: 18
13133111 TATCAGTATC
*
13133121 ATTCAGTAACAACCAATT
1 ATTCAGTAACAATCAATT
* *
13133139 ATTCAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATT
*
13133157 ATTCAGTAACAATCAATC
1 ATTCAGTAACAATCAATT
* * *
13133175 ATTCAGTAACAGTCAGTC
1 ATTCAGTAACAATCAATT
13133193 ATTCAGTA
1 ATTCAGTA
13133201 CCTTTATTCA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (18 bp):
ATTCAGTAACAATCAATT
Done.