Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 47 of 318
Found at i:13194604 original size:93 final size:93
Alignment explanation
Indices: 13194492--13194663 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
13194482 GCCCATAAGT
* *
13194492 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13194557 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
13194585 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13194650 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
13194664 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13194659 original size:46 final size:46
Alignment explanation
Indices: 13194484--13194659 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
13194474 TGTAACCCGC
* * *
13194484 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
13194530 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
13194580 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
13194623 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13194660 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:13197086 original size:30 final size:30
Alignment explanation
Indices: 13197042--13197130 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
13197032 CAAAGATAAC
13197042 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
13197071 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
13197101 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
13197131 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:13197090 original size:15 final size:15
Alignment explanation
Indices: 13197042--13197121 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
13197032 CAAAGATAAC
*
13197042 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
13197056 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
13197071 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
13197086 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
13197101 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
13197116 AAGAAA
1 AAGAAA
13197122 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:13197130 original size:15 final size:15
Alignment explanation
Indices: 13197053--13197130 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
13197043 AGAAAACCGA
13197053 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
13197068 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
13197082 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
13197097 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
13197113 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
13197128 ATA
1 ATA
13197131 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:13200191 original size:93 final size:93
Alignment explanation
Indices: 13200079--13200250 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
13200069 GCCCATAAGT
* *
13200079 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13200144 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
13200172 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13200237 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
13200251 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13200246 original size:46 final size:46
Alignment explanation
Indices: 13200071--13200246 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
13200061 TGTAACCCGC
* * *
13200071 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
13200117 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
13200167 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
13200210 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13200247 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:13203126 original size:57 final size:56
Alignment explanation
Indices: 13202980--13203126 Score: 136
Period size: 57 Copynumber: 2.5 Consensus size: 56
13202970 ATTGACCTTA
* * *
13202980 TCATAGAAAAGGATTTAGCCTAGACGGGTATTCCTGATATGAGTCCTCTCGAGCACATG
1 TCATA-AAAAGGATTTAGCCTAGAC-GGTAATCCAGATA-GAGTCCTCTAGAGCACATG
* * ** * *
13203039 TTATAGATTGGATTTAGCCTGGACGTGTAATCCAGATCA-AGCTCCT-TAGAGCATATG
1 TCATAAAAAGGATTTAGCCTAGACG-GTAATCCAGAT-AGAG-TCCTCTAGAGCACATG
13203096 TCATAAAAAGGATTTAGCCTAGACTGGTAAT
1 TCATAAAAAGGATTTAGCCTAGAC-GGTAAT
13203127 GCTGTTGTAT
Statistics
Matches: 70, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
57 36 0.51
58 29 0.41
59 5 0.07
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (56 bp):
TCATAAAAAGGATTTAGCCTAGACGGTAATCCAGATAGAGTCCTCTAGAGCACATG
Found at i:13216145 original size:40 final size:39
Alignment explanation
Indices: 13215977--13216147 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
13215967 AGAAATTGAA
* *
13215977 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
13216017 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
13216057 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
13216097 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
13216137 TGATATCCGGG
1 TGATATCCGGG
13216148 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:13224182 original size:40 final size:39
Alignment explanation
Indices: 13224014--13224193 Score: 161
Period size: 40 Copynumber: 4.5 Consensus size: 39
13224004 AGAAATTGAA
* *
13224014 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
13224054 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
13224094 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
13224134 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
*
13224174 TGATATCCGGG-TAAGTCCCG
1 TGATATCCGGGCTAAGACCCG
13224194 TTGGCCTTGG
Statistics
Matches: 115, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.03
39 12 0.10
40 95 0.83
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:13230704 original size:44 final size:44
Alignment explanation
Indices: 13230639--13230722 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
13230629 TTGATATCTC
* * *
13230639 AAAGTCCATGGTTGTACCATGGCAATTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTATAACATGGCAATTAAAGAAGAATTGACGGA
* *
13230683 AAAGTCCAT-GTTCATAACATGGCATTTAAAGAGGAATTGA
1 AAAGTCCATGGTT-ATAACATGGCAATTAAAGAAGAATTGA
13230723 TTAAGACCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 3 0.09
44 31 0.91
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCAATTAAAGAAGAATTGACGGA
Found at i:13230873 original size:47 final size:47
Alignment explanation
Indices: 13230816--13230937 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
13230806 GCATTGGCAC
*
13230816 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGAAACATGGCATTTGG
* *
13230863 TATGACAAGGATACCATGTAAGACTATGTTTGAAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGAAACATGGCATTTGG
* *
13230910 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
13230938 CCAAGGCATG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGAAACATGGCATTTGG
Found at i:13231057 original size:55 final size:55
Alignment explanation
Indices: 13230924--13231112 Score: 199
Period size: 55 Copynumber: 3.5 Consensus size: 55
13230914 ATAAGGATAT
* *
13230924 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC-AAGGAAAT
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCAAAGGAAAC
** * **
13230978 CATGTAAGA-CAGTGTTAAGACATGGCATTGATGAGTTACTATAAGGCAAAGG-TCC
1 CATGTAAGACCA-TGCCAAGGCATGGCATTGATGAGTT-CTATAAGGCAAAGGAAAC
* * *
13231033 CATGTAATACCATGCCAAGGCATGGCATTGGTGAGTT-TATAAGGC-AAGGATAC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCAAAGGAAAC
** * *
13231086 CACATAAGACCATGTCAAGACATGGCA
1 CATGTAAGACCATGCCAAGGCATGGCA
13231113 ATGGTAAGTT
Statistics
Matches: 112, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
52 4 0.04
53 34 0.30
54 30 0.27
55 38 0.34
56 6 0.05
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (55 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCAAAGGAAAC
Found at i:13231099 original size:53 final size:54
Alignment explanation
Indices: 13230916--13231123 Score: 215
Period size: 53 Copynumber: 3.9 Consensus size: 54
13230906 TTGGTAAGAT
* *
13230916 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * ** *
13230970 AAGGAAATCATGTAAGA-CAGTGTTAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCA-TGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * * *
13231025 AAAGG-TCCCATGTAATACCATGCCAAGGCATGGCATTGGTGAGTT-TATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
** * * *
13231078 AAGGATACCACATAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
13231124 AAAAGGAAAA
Statistics
Matches: 127, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
52 4 0.03
53 42 0.33
54 37 0.29
55 38 0.30
56 6 0.05
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.24
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:13236239 original size:44 final size:44
Alignment explanation
Indices: 13236187--13236290 Score: 181
Period size: 44 Copynumber: 2.4 Consensus size: 44
13236177 TGCTTTAACA
13236187 TCCGCACACTTAGTGCTTTAAGAATTAGCCGAAGCTAGAACGAT
1 TCCGCACACTTAGTGCTTTAAGAATTAGCCGAAGCTAGAACGAT
* **
13236231 TTCGCACACTTAGTGCTTTAAGGGTTAGCCGAAGCTAGAACGAT
1 TCCGCACACTTAGTGCTTTAAGAATTAGCCGAAGCTAGAACGAT
13236275 TCCGCACACTTAGTGC
1 TCCGCACACTTAGTGC
13236291 CATTTCAATT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 56 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (44 bp):
TCCGCACACTTAGTGCTTTAAGAATTAGCCGAAGCTAGAACGAT
Found at i:13236385 original size:40 final size:40
Alignment explanation
Indices: 13236322--13236418 Score: 167
Period size: 40 Copynumber: 2.4 Consensus size: 40
13236312 TCTCGATATT
*
13236322 GCACACTTAGTGCCTCAGTTAGCCGAAGCTATTTTGAATC
1 GCACACTTAGTGCCTCAGATAGCCGAAGCTATTTTGAATC
* *
13236362 TCATACTTAGTGCCTCAGATAGCCGAAGCTATTTTGAATC
1 GCACACTTAGTGCCTCAGATAGCCGAAGCTATTTTGAATC
13236402 GCACACTTAGTGCCTCA
1 GCACACTTAGTGCCTCA
13236419 TACCATTGAT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (40 bp):
GCACACTTAGTGCCTCAGATAGCCGAAGCTATTTTGAATC
Found at i:13243792 original size:40 final size:40
Alignment explanation
Indices: 13243734--13243831 Score: 162
Period size: 40 Copynumber: 2.5 Consensus size: 40
13243724 ATCTCAATAC
13243734 CGCACACTTAGTGCCTCAGATAGCCGAAGCTATTTTGAATT
1 CGCACACTTAGTGCCTCAGATAGCCGAAGCTATTTTG-ATT
* *
13243775 -GTACACTTAGTACCTCAGATAGCCGAAGCTATTTTGATT
1 CGCACACTTAGTGCCTCAGATAGCCGAAGCTATTTTGATT
13243814 CGCACACTTAGTGCCTCA
1 CGCACACTTAGTGCCTCA
13243832 TACCATTAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.06
40 49 0.94
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (40 bp):
CGCACACTTAGTGCCTCAGATAGCCGAAGCTATTTTGATT
Found at i:13247801 original size:21 final size:21
Alignment explanation
Indices: 13247750--13247803 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
13247740 ACAGAGTAGG
*
13247750 CACGACCGTATGAGGGTATCA
1 CACGACCGTGTGAGGGTATCA
13247771 CACGACCGTGTGAGGGTATCA
1 CACGACCGTGTGAGGGTATCA
*
13247792 CACGCCCGTGTG
1 CACGACCGTGTG
13247804 GGATCCCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.28, G:0.31, T:0.19
Consensus pattern (21 bp):
CACGACCGTGTGAGGGTATCA
Found at i:13248496 original size:6 final size:6
Alignment explanation
Indices: 13248485--13248538 Score: 74
Period size: 6 Copynumber: 8.7 Consensus size: 6
13248475 TTTTCATATC
13248485 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAGCAAA- AACAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA--AAAT AA-AAAT AAAAAT
13248535 AAAA
1 AAAA
13248539 TCTAACCTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
6 38 0.84
7 4 0.09
8 3 0.07
ACGTcount: A:0.81, C:0.04, G:0.02, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:13252038 original size:11 final size:11
Alignment explanation
Indices: 13252022--13252064 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
13252012 TTATTTAACA
13252022 TAATTAATAAT
1 TAATTAATAAT
13252033 TAATTAATAAT
1 TAATTAATAAT
*
13252044 TAATTATTAAT
1 TAATTAATAAT
13252055 T-A-TAATAAT
1 TAATTAATAAT
13252064 T
1 T
13252065 TGTTTTTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 7 0.23
10 1 0.03
11 22 0.73
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TAATTAATAAT
Found at i:13254949 original size:22 final size:22
Alignment explanation
Indices: 13254907--13254949 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
13254897 TTGCAACGGG
*
13254907 TTCTTGCACCATTCTTTTCATT
1 TTCTTGCACCATTCTTATCATT
*
13254929 TTCTTGCTATCATT-TTATCAT
1 TTCTTGC-ACCATTCTTATCAT
13254950 AAAATTTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.16, C:0.23, G:0.05, T:0.56
Consensus pattern (22 bp):
TTCTTGCACCATTCTTATCATT
Found at i:13260980 original size:25 final size:26
Alignment explanation
Indices: 13260927--13260986 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 26
13260917 AAATTTAATA
*
13260927 TAATACTT-ATATTAATAGTATTTTAT
1 TAATA-TTAATATTAATAGTATTATAT
*
13260953 TAAT-TTAATATTAA-AGTGATTATCT
1 TAATATTAATATTAATAGT-ATTATAT
13260978 TAATATTAA
1 TAATATTAA
13260987 ATTTAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 5 0.17
25 16 0.55
26 8 0.28
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (26 bp):
TAATATTAATATTAATAGTATTATAT
Found at i:13260985 original size:68 final size:66
Alignment explanation
Indices: 13260907--13261105 Score: 203
Period size: 62 Copynumber: 3.0 Consensus size: 66
13260897 ATTTTAATTG
* * * *
13260907 ATTTACTATTAAATTTAATATAATACTTATATTAATAGTATTTTATTAATTTAATATTAAAGTGA
1 ATTTAATATTAAATTTAATTTAATATTTATATT-ATAGTATTATATTAATTTAATATTAAAGTGA
13260972 TT
65 TT
* * * * *
13260974 ATCTTAATATTAAATTTAATTTAATGTTTATCTTGTAG-ATAAATATT-CTATTAAT-TT-AA-T
1 AT-TTAATATTAAATTTAATTTAATATTTATATTATAGTAT-TATATTAAT-TTAATATTAAAGT
*
13261034 -AAT
63 GATT
*
13261037 ATTTAATATTAAATTTAATTTAATATTTATATTGATAAATATTATATTAATTTAATATTAAAGTG
1 ATTTAATATTAAATTTAATTTAATATTTATATT-AT-AGTATTATATTAATTTAATATTAAAGTG
13261102 ATT
64 ATT
13261105 A
1 A
13261106 AGTTTAATCA
Statistics
Matches: 104, Mismatches: 17, Indels: 21
0.73 0.12 0.15
Matches are distributed among these distances:
62 29 0.28
63 5 0.05
64 12 0.12
65 7 0.07
66 7 0.07
67 15 0.14
68 29 0.28
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.51
Consensus pattern (66 bp):
ATTTAATATTAAATTTAATTTAATATTTATATTATAGTATTATATTAATTTAATATTAAAGTGAT
T
Found at i:13261091 original size:5 final size:6
Alignment explanation
Indices: 13261022--13261097 Score: 53
Period size: 6 Copynumber: 14.0 Consensus size: 6
13261012 ATAAATATTC
* *
13261022 TATTAA T-TTAA TAAT-A T-TTAA TATTAA -ATTTAA T-TTAA TATTTA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TA-TTAA TATTAA TATTAA
*
13261066 TATTGA TA--AA TATT-A TATTAA T-TTAA TATTAA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA
13261098 AGTGATTAAG
Statistics
Matches: 55, Mismatches: 5, Indels: 20
0.69 0.06 0.25
Matches are distributed among these distances:
4 4 0.07
5 25 0.45
6 26 0.47
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (6 bp):
TATTAA
Found at i:13262116 original size:34 final size:34
Alignment explanation
Indices: 13262030--13262118 Score: 124
Period size: 34 Copynumber: 2.6 Consensus size: 34
13262020 TTCTACTATC
* * *
13262030 TTGATTTGTTATAAGCATATCTATTCCTACCGTT
1 TTGATTTGTTATAAGCATGTCCATTACTACCGTT
* *
13262064 TTAATTCGTTATAAGCATGTCCATTACTACCGTT
1 TTGATTTGTTATAAGCATGTCCATTACTACCGTT
*
13262098 TTGATTTATTATAAGCATGTC
1 TTGATTTGTTATAAGCATGTC
13262119 ATATTGCATT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.45
Consensus pattern (34 bp):
TTGATTTGTTATAAGCATGTCCATTACTACCGTT
Found at i:13265139 original size:45 final size:44
Alignment explanation
Indices: 13265071--13265220 Score: 167
Period size: 45 Copynumber: 3.3 Consensus size: 44
13265061 TTATTTGCAC
* * *
13265071 CGATGAGTGGTTTATCCATAATGTATTACCAGCTTTTATATACA
1 CGATGAGTGGTTTATCCACAATGTATTAGCAGCTTTTATCTACA
* * *
13265115 CAGATGAATGGTTTATCCACAATGTACTT-GTAGCTTTTATCTGCA
1 C-GATGAGTGGTTTATCCACAATGTA-TTAGCAGCTTTTATCTACA
* * * *
13265160 TCGATGAGTGGTTTATCTACAAGGTACTAGCAACTTTTATCTACA
1 -CGATGAGTGGTTTATCCACAATGTATTAGCAGCTTTTATCTACA
13265205 CCGATGAGTGGTTTAT
1 -CGATGAGTGGTTTAT
13265221 TGTAATACCC
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
44 2 0.02
45 83 0.94
46 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (44 bp):
CGATGAGTGGTTTATCCACAATGTATTAGCAGCTTTTATCTACA
Found at i:13271893 original size:26 final size:26
Alignment explanation
Indices: 13271857--13271907 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
13271847 TACAAATTGA
13271857 TAATAGGTTAGGTAAATGTTTCATGG
1 TAATAGGTTAGGTAAATGTTTCATGG
13271883 TAATAGGTTAGGTAAATGTTTCATG
1 TAATAGGTTAGGTAAATGTTTCATG
13271908 ATAAGAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.04, G:0.25, T:0.39
Consensus pattern (26 bp):
TAATAGGTTAGGTAAATGTTTCATGG
Found at i:13272542 original size:121 final size:120
Alignment explanation
Indices: 13272330--13272571 Score: 423
Period size: 121 Copynumber: 2.0 Consensus size: 120
13272320 CAGCTAACAT
13272330 GTTGTGCTTTAAAATGATGAAATGGAGATTATACTTAAGTAAAATCATAGATATGTGATGATTGA
1 GTTGTGCTTTAAAATGATGAAATGGAGATTATACTTAAGTAAAATCATAGATATGTGATGATTGA
* *
13272395 TTGGTGATATACATGTTCAAATAACATGCATGCAAGGTA-TGTGTGAAAGAGTGA
66 TTGGTGATATACATGTTCAAATAACATGCATGCAAGATAGTGTATGAAAGAGTGA
13272449 GTTGTGCTTTAAAATGATGAAATGGAGATTATACTTAAGTAAAAAATCATAGATATGTGATGATT
1 GTTGTGCTTTAAAATGATGAAATGGAGATTATACTTAAGT--AAAATCATAGATATGTGATGATT
*
13272514 GATTGGTGATATACATGTTTAAATAACATGCATGCAAGATAGGTGTATGAAAGAGTGA
64 GATTGGTGATATACATGTTCAAATAACATGCATGCAAGATA-GTGTATGAAAGAGTGA
13272572 TTTGGTAATA
Statistics
Matches: 116, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
119 40 0.34
121 62 0.53
123 14 0.12
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (120 bp):
GTTGTGCTTTAAAATGATGAAATGGAGATTATACTTAAGTAAAATCATAGATATGTGATGATTGA
TTGGTGATATACATGTTCAAATAACATGCATGCAAGATAGTGTATGAAAGAGTGA
Found at i:13273569 original size:25 final size:25
Alignment explanation
Indices: 13273521--13273569 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
13273511 ACAGTTTTAC
13273521 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
* *
13273546 CCCTAGG-GTTAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
13273570 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:13275054 original size:64 final size:64
Alignment explanation
Indices: 13274952--13275080 Score: 195
Period size: 64 Copynumber: 2.0 Consensus size: 64
13274942 TTCATATACA
* *
13274952 ATTTAATGCAAATCCTCATACTTATATCTTACTATTCATGCACCTCTTATAGAGTTATTCTTTC
1 ATTTAATGCAAAGCCTCATACTTATATCTTACTATTCATGCACCTCTTACAGAGTTATTCTTTC
* * * * *
13275016 ATTTAATGCAAAGCCTTATACTTATATCTTATTGTTCATGCATCTTTTACAGAGTTATTCTTTC
1 ATTTAATGCAAAGCCTCATACTTATATCTTACTATTCATGCACCTCTTACAGAGTTATTCTTTC
13275080 A
1 A
13275081 GAATTTAACA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.45
Consensus pattern (64 bp):
ATTTAATGCAAAGCCTCATACTTATATCTTACTATTCATGCACCTCTTACAGAGTTATTCTTTC
Found at i:13278794 original size:45 final size:45
Alignment explanation
Indices: 13278745--13278877 Score: 133
Period size: 45 Copynumber: 3.0 Consensus size: 45
13278735 TACTAACAGC
* * *
13278745 TTTTATTTTCACTGATGAGTGATTTATCCATAATTTACTAGCAAA
1 TTTTATATGCACTGATGAGTGGTTTATCCATAATTTACTAGCAAA
* * * ** *
13278790 TTTTATATGCATTGATGAATGGTTTATGCATAACGTACTAGCAAC
1 TTTTATATGCACTGATGAGTGGTTTATCCATAATTTACTAGCAAA
* ** *
13278835 TTTTATCTGCACCAATGAGTGGTTTATCAAT-ATTGTACTAGCA
1 TTTTATATGCACTGATGAGTGGTTTATCCATAATT-TACTAGCA
13278878 GCTTGTCTTC
Statistics
Matches: 69, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
44 1 0.01
45 68 0.99
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (45 bp):
TTTTATATGCACTGATGAGTGGTTTATCCATAATTTACTAGCAAA
Found at i:13278936 original size:20 final size:20
Alignment explanation
Indices: 13278911--13278961 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
13278901 AAAAACTTTG
13278911 GTGGTTCATCCGCCCTACTA
1 GTGGTTCATCCGCCCTACTA
13278931 GTGGTTCATCCGCCCTACTA
1 GTGGTTCATCCGCCCTACTA
13278951 GTGGTTCATCC
1 GTGGTTCATCC
13278962 ATAATGATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.14, C:0.33, G:0.22, T:0.31
Consensus pattern (20 bp):
GTGGTTCATCCGCCCTACTA
Found at i:13279185 original size:67 final size:67
Alignment explanation
Indices: 13279060--13279185 Score: 173
Period size: 67 Copynumber: 1.9 Consensus size: 67
13279050 TGGAGTTAGG
*
13279060 ATTAGGATATTAAAAATAGGGCATAATATGTAAAACCATAGCTCAACTATGGTCACATAGAGAGA
1 ATTAGGATATTAAAAATAGGGCATAATATGTAAAACCATAGCTCAACTATGGACACATAGAGAGA
13279125 TT
66 TT
* * * * * *
13279127 ATTAGGATATTAAACATGGGGCATTATGTGTAAGACCATAGCTCGACTAT-GACAACATA
1 ATTAGGATATTAAAAATAGGGCATAATATGTAAAACCATAGCTCAACTATGGAC-ACATA
13279186 TGGAGTTTCC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
66 2 0.04
67 49 0.96
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.27
Consensus pattern (67 bp):
ATTAGGATATTAAAAATAGGGCATAATATGTAAAACCATAGCTCAACTATGGACACATAGAGAGA
TT
Found at i:13283721 original size:16 final size:16
Alignment explanation
Indices: 13283700--13283730 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13283690 GATATTTTAA
13283700 TATATTATATTAATAT
1 TATATTATATTAATAT
*
13283716 TATATTATGTTAATA
1 TATATTATATTAATA
13283731 AAATAATAAA
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:13283827 original size:12 final size:12
Alignment explanation
Indices: 13283810--13283840 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
13283800 GAAGCAGGGG
13283810 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
13283822 AGAAAAAGGGAA
1 AGAAAAAGAGAA
13283834 AGAAAAA
1 AGAAAAA
13283841 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:13289628 original size:40 final size:40
Alignment explanation
Indices: 13289523--13289769 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
13289513 GGATTGATAC
* *
13289523 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
13289563 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
13289602 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
13289642 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
13289682 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
13289722 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
13289762 CC-GGCTAA
1 CCGGGCTAA
13289770 ACTCCGAAGG
Statistics
Matches: 196, Mismatches: 8, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
39 43 0.22
40 153 0.78
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:13294697 original size:16 final size:16
Alignment explanation
Indices: 13294676--13294706 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13294666 GATATTTTAA
13294676 TATATTATATTAATAT
1 TATATTATATTAATAT
*
13294692 TATATTATGTTAATA
1 TATATTATATTAATA
13294707 AAATAATAAA
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:13296864 original size:29 final size:29
Alignment explanation
Indices: 13296830--13296904 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
13296820 TACTCGATTT
*
13296830 CGCACACTTAGTGCCATGCGATTTAG-GCC
1 CGCACACTTAGTGCCATGC-ACTTAGAGCC
** * * *
13296859 CGCACACACAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCACTTAGAGCC
13296888 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
13296905 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTAGAGCC
Found at i:13296921 original size:29 final size:29
Alignment explanation
Indices: 13296888--13296961 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
13296878 CCTTCGAGCT
13296888 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
13296917 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
13296946 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
13296962 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:13299332 original size:39 final size:40
Alignment explanation
Indices: 13299274--13299374 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
13299264 AAATTGAATG
* *
13299274 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTA-AAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
13299313 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
13299353 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
13299375 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 30 0.57
40 23 0.43
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:13299367 original size:40 final size:40
Alignment explanation
Indices: 13299274--13299451 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
13299264 AAATTGAATG
* * * * *
13299274 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTA-AAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
13299313 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
13299353 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
13299393 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
13299433 ATATCCGGGTTAAGTCCCG
1 ATATCCGGGCTAAGACCCG
13299452 TAAGCCTTGG
Statistics
Matches: 117, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 33 0.28
40 82 0.70
41 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:13307917 original size:29 final size:29
Alignment explanation
Indices: 13307884--13307957 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
13307874 CCTTCGAGCT
13307884 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
13307913 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
13307942 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
13307958 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:13307918 original size:58 final size:58
Alignment explanation
Indices: 13307825--13307957 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
13307815 ATACTCGATT
* * * * *
13307825 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
13307883 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
13307941 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
13307958 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:13311771 original size:67 final size:67
Alignment explanation
Indices: 13311657--13311968 Score: 376
Period size: 67 Copynumber: 4.6 Consensus size: 67
13311647 GGTTGTATTA
* *
13311657 GGTATAATGTGTAATACCATAGCTCGACTAT-AGCAACATAGAGAGTCTGCCAGGACATTAAACA
1 GGTATGATGTGTAAGACCATAGCTCGACTATGA-CAACATAGAGAGTCTGCCAGGACATTAAACA
13311721 TGG
65 TGG
* * * * *
13311724 GGTGTGATGTGTAAGACCATAGCTCAACTATGGCAACATAGGGAGTCTGCCAGGCCATTAAACAT
1 GGTATGATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTCTGCCAGGACATTAAACAT
13311789 GG
66 GG
* * ** * *
13311791 AGTATGATGTGTAAAACCATAGCTCGGTTATGACAACATCGAGAGTCTGCTAGGACATTAAACAT
1 GGTATGATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTCTGCCAGGACATTAAACAT
13311856 GG
66 GG
* * * *** * *
13311858 TGTATGATGTGTAAGACCATAGCTCG-GTATGACCACATAGAGAGTCCATCAGAATATTAAACAT
1 GGTATGATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTCTGCCAGGACATTAAACAT
13311922 GG
66 GG
* *
13311924 GGTATGATGTGTAAGACCATAGTTCGATTATGACAGCACATAGAG
1 GGTATGATGTGTAAGACCATAGCTCGACTATGACA--ACATAGAG
13311969 TCCACCAGGA
Statistics
Matches: 208, Mismatches: 33, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
66 55 0.26
67 145 0.70
69 8 0.04
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (67 bp):
GGTATGATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTCTGCCAGGACATTAAACAT
GG
Found at i:13313759 original size:6 final size:6
Alignment explanation
Indices: 13313741--13313816 Score: 59
Period size: 6 Copynumber: 12.3 Consensus size: 6
13313731 AAGAAACATT
* *
13313741 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
*
13313790 ATCACGTA A-CAGA ATCAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
13313817 GTGAATGTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
5 4 0.07
6 43 0.77
7 7 0.12
8 2 0.04
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:13313783 original size:25 final size:25
Alignment explanation
Indices: 13313750--13313816 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
13313740 TATCAGAACT
* *
13313750 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCACGTAAC
*
13313775 AGAATCAGAATCAGTATCACGTAAC
1 AGAATCAGAATCAGAATCACGTAAC
*
13313800 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
13313817 GTGAATGTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCACGTAAC
Found at i:13314241 original size:27 final size:27
Alignment explanation
Indices: 13314211--13314432 Score: 356
Period size: 27 Copynumber: 8.3 Consensus size: 27
13314201 GGGGCAAAAT
* * *
13314211 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13314238 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13314265 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13314292 GGTAATTCT-CCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
13314318 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13314345 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13314372 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13314399 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
13314426 GGTAATT
1 GGTAATT
13314433 TCAAAAATTA
Statistics
Matches: 180, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
26 25 0.14
27 155 0.86
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:13314396 original size:107 final size:108
Alignment explanation
Indices: 13314210--13314432 Score: 376
Period size: 107 Copynumber: 2.1 Consensus size: 108
13314200 AGGGGCAAAA
* * *
13314210 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTA
1 TGGTAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTA
13314275 CCCTACAAGGGTATTTCGGTAATTCT-CCCTACAAGGGTATTT
66 CCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTT
* *
13314317 TGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTA
1 TGGTAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTA
*
13314382 CCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
66 CCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTT
*
13314425 CGGTAATT
1 TGGTAATT
13314433 TCAAAAATTA
Statistics
Matches: 108, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
107 86 0.80
108 22 0.20
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (108 bp):
TGGTAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTA
CCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTT
Found at i:13314448 original size:107 final size:107
Alignment explanation
Indices: 13314225--13314458 Score: 337
Period size: 107 Copynumber: 2.2 Consensus size: 107
13314215 ATTTTACCCC
* * *
13314225 ACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATT
* * ***
13314290 TCGGTAATTCTCCCTACAAGGGTATTTTGGTAATTCTACCCT
66 TCGGTAATTCTCCCTACAAGGGTATTTCGGTAATTCAAAAAT
13314332 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATT
*
13314397 TCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTCAAAAAT
66 TCGGTAATTCT-CCCTACAAGGGTATTTCGGTAA-TTCAAAAAT
* *
13314441 -TAA-GGTATTTTGGTAATT
1 ACAAGGGTATTTCGGTAATT
13314459 TTACAAACCA
Statistics
Matches: 114, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
107 87 0.76
108 22 0.19
109 5 0.04
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (107 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATT
TCGGTAATTCTCCCTACAAGGGTATTTCGGTAATTCAAAAAT
Found at i:13314478 original size:27 final size:27
Alignment explanation
Indices: 13314417--13314729 Score: 222
Period size: 27 Copynumber: 11.6 Consensus size: 27
13314407 TACCCTACAG
* * * *
13314417 GGGTATTTCGGTAATTTCAAAAAT-TA
1 GGGTATTTTGGTAATTTTACAAATCGA
* *
13314443 AGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTTGGTAATTTTACAAATCGA
*** *
13314469 GGGGTATTTTGGTAATTTTATTGATGGA
1 -GGGTATTTTGGTAATTTTACAAATCGA
* ** * *
13314497 AGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCGA
** * **
13314524 GGGTATTTCAGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
*** * * **
13314551 GGGTAAAATGGCAATTCTATCTTA-C-A
1 GGGTATTTTGGTAATTTTA-CAAATCGA
**
13314577 GGAGTATTTCAGTAATTTTACAAATCGA
1 GG-GTATTTTGGTAATTTTACAAATCGA
*
13314605 GGGTATTTTAGTAATTTTACAAA-CTGA
1 GGGTATTTTGGTAATTTTACAAATC-GA
*
13314632 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* * *
13314659 GGATATTTGGGTAATTTTATAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* *
13314686 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
*
13314713 GGGTATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
13314730 GGTAAACTAA
Statistics
Matches: 222, Mismatches: 56, Indels: 17
0.75 0.19 0.06
Matches are distributed among these distances:
26 26 0.12
27 190 0.86
28 6 0.03
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCGA
Found at i:13314638 original size:54 final size:53
Alignment explanation
Indices: 13314417--13314729 Score: 254
Period size: 54 Copynumber: 5.8 Consensus size: 53
13314407 TACCCTACAG
* * * * *
13314417 GGGTATTTCGGTAATTTCAAAAAT-TAAGGTATTTTGGTAATTTTACAAACCA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACGA
* *** * * ** *
13314469 GGGGTATTTTGGTAATTTTATTGATGGAAGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAA-CGA
* * ** *** * * **
13314524 GGGTATTTCAGTAATTCTGTAAATCGAGGGTAAAATGGCAATTCTATCTTAC-A
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTA-CAAACGA
* *
13314577 GGAGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAACTGA
1 GG-GTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAAC-GA
* * *
13314632 GGGTATTTCGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAA-CGA
* *
13314686 GGGTACTTT-GGTAATTTTACAAGTCGAGGGTATTTTAGTAATTT
1 GGGTA-TTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTT
13314730 GGTAAACTAA
Statistics
Matches: 206, Mismatches: 46, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
53 25 0.12
54 171 0.83
55 10 0.05
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (53 bp):
GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACGA
Found at i:13314945 original size:19 final size:19
Alignment explanation
Indices: 13314921--13314964 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
13314911 AGGCCCATTG
13314921 GGCCCACATGGCCCCTTTT
1 GGCCCACATGGCCCCTTTT
13314940 GGCCCACATGGCCCCTTTT
1 GGCCCACATGGCCCCTTTT
13314959 GGCCCA
1 GGCCCA
13314965 TCGCGGCCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.11, C:0.43, G:0.23, T:0.23
Consensus pattern (19 bp):
GGCCCACATGGCCCCTTTT
Found at i:13316713 original size:6 final size:6
Alignment explanation
Indices: 13316695--13316782 Score: 83
Period size: 6 Copynumber: 14.3 Consensus size: 6
13316685 AAGAAACATT
*
13316695 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
13316744 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
13316783 GTAAATGAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
5 4 0.06
6 55 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:13316716 original size:18 final size:18
Alignment explanation
Indices: 13316695--13316782 Score: 83
Period size: 19 Copynumber: 4.8 Consensus size: 18
13316685 AAGAAACATT
13316695 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
13316713 ATCAGAATCAGAATCAG-
1 ATCAGAATCAGAATCAGA
*
13316730 GTGACAGAATCAGAATCAGA
1 AT--CAGAATCAGAATCAGA
*
13316750 ATCAGTATCAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAGA
*
13316769 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
13316783 GTAAATGAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
17 3 0.05
18 23 0.40
19 29 0.50
20 3 0.05
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:13316742 original size:31 final size:31
Alignment explanation
Indices: 13316704--13316782 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
13316694 TATCAGAACT
*
13316704 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
13316735 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
13316766 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
13316783 GTAAATGAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:13316772 original size:25 final size:24
Alignment explanation
Indices: 13316709--13316755 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
13316699 GAACTAGAAT
13316709 CAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCA-GTGA
13316734 CAGAATCAGAATCAGAATCAGT
1 CAGAATCAGAATCAGAATCAGT
13316756 ATCAGGTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (24 bp):
CAGAATCAGAATCAGAATCAGTGA
Found at i:13317207 original size:27 final size:27
Alignment explanation
Indices: 13317177--13317399 Score: 365
Period size: 27 Copynumber: 8.3 Consensus size: 27
13317167 GGGGCAAAAT
* * *
13317177 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13317204 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13317231 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13317258 GGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
13317285 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13317312 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13317339 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13317366 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
13317393 GGTAATT
1 GGTAATT
13317400 TCAAAAATTA
Statistics
Matches: 182, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 182 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:13317445 original size:27 final size:27
Alignment explanation
Indices: 13317384--13317696 Score: 213
Period size: 27 Copynumber: 11.6 Consensus size: 27
13317374 TACCCTACAG
* * * *
13317384 GGGTATTTCGGTAATTTCAAAAAT-TA
1 GGGTATTTTGGTAATTTTACAAATCGA
* *
13317410 AGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTTGGTAATTTTACAAATCGA
*** *
13317436 GGGGTATTTTGGTAATTTTATTGATGGA
1 -GGGTATTTTGGTAATTTTACAAATCGA
* ** * *
13317464 AGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCGA
** * **
13317491 GGGTATTTCAGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
*** * * **
13317518 GGGTAAAATGGCAATTCTATCTTA-C-A
1 GGGTATTTTGGTAATTTTA-CAAATCGA
**
13317544 GGAGTATTTCAGTAATTTTACAAATCGA
1 GG-GTATTTTGGTAATTTTACAAATCGA
* *
13317572 GGGTATTTTAGTAATTTTGCAAA-CTGA
1 GGGTATTTTGGTAATTTTACAAATC-GA
*
13317599 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* * *
13317626 GGATATTTGGGTAATTTTATAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* *
13317653 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
*
13317680 GGGTATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
13317697 GGTAAACTAA
Statistics
Matches: 220, Mismatches: 58, Indels: 17
0.75 0.20 0.06
Matches are distributed among these distances:
26 26 0.12
27 188 0.85
28 6 0.03
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCGA
Found at i:13317912 original size:19 final size:19
Alignment explanation
Indices: 13317888--13317931 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
13317878 AGGCCCATTG
13317888 GGCCCACATGGCCCCTTTT
1 GGCCCACATGGCCCCTTTT
13317907 GGCCCACATGGCCCCTTTT
1 GGCCCACATGGCCCCTTTT
13317926 GGCCCA
1 GGCCCA
13317932 TCGCGGCCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.11, C:0.43, G:0.23, T:0.23
Consensus pattern (19 bp):
GGCCCACATGGCCCCTTTT
Found at i:13319680 original size:6 final size:6
Alignment explanation
Indices: 13319662--13319755 Score: 95
Period size: 6 Copynumber: 15.3 Consensus size: 6
13319652 AAGAAACATT
*
13319662 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
13319711 ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
13319756 GTAAATGAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
5 4 0.05
6 61 0.82
7 7 0.09
8 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:13319713 original size:31 final size:31
Alignment explanation
Indices: 13319676--13319755 Score: 133
Period size: 31 Copynumber: 2.6 Consensus size: 31
13319666 GAACTAGAAT
*
13319676 CAGAATCAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
*
13319707 CAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
*
13319738 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
13319756 GTAAATGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.17
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:13319743 original size:25 final size:24
Alignment explanation
Indices: 13319662--13319752 Score: 98
Period size: 25 Copynumber: 3.7 Consensus size: 24
13319652 AAGAAACATT
*
13319662 ATCAGAA-CTAGAATCAGAATCAGA
1 ATCAGAATC-AGAATCAGTATCAGA
13319686 ATCAGAATCAGAATCAGGTGA-CAGA
1 ATCAGAATCAGAATCA-GT-ATCAGA
13319711 ATCAGAATCAGAATCAGTATCAGGTA
1 ATCAGAATCAGAATCAGTATCA-G-A
*
13319737 A-CAGAATCAAAATCAG
1 ATCAGAATCAGAATCAG
13319753 AATGTAAATG
Statistics
Matches: 59, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.02
24 18 0.31
25 37 0.63
26 3 0.05
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (24 bp):
ATCAGAATCAGAATCAGTATCAGA
Found at i:13320180 original size:27 final size:27
Alignment explanation
Indices: 13320150--13320372 Score: 365
Period size: 27 Copynumber: 8.3 Consensus size: 27
13320140 GGGGCAAAAT
* * *
13320150 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13320177 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13320204 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13320231 GGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
13320258 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13320285 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13320312 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13320339 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
13320366 GGTAATT
1 GGTAATT
13320373 TCAAAAATTA
Statistics
Matches: 182, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 182 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:13320418 original size:27 final size:27
Alignment explanation
Indices: 13320357--13320669 Score: 213
Period size: 27 Copynumber: 11.6 Consensus size: 27
13320347 TACCCTACAG
* * * *
13320357 GGGTATTTCGGTAATTTCAAAAAT-TA
1 GGGTATTTTGGTAATTTTACAAATCGA
* *
13320383 AGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTTGGTAATTTTACAAATCGA
*** *
13320409 GGGGTATTTTGGTAATTTTATTGATGGA
1 -GGGTATTTTGGTAATTTTACAAATCGA
* ** * *
13320437 AGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCGA
** * **
13320464 GGGTATTTCAGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
*** * * **
13320491 GGGTAAAATGGCAATTCTATCTTA-C-A
1 GGGTATTTTGGTAATTTTA-CAAATCGA
**
13320517 GGAGTATTTCAGTAATTTTACAAATCGA
1 GG-GTATTTTGGTAATTTTACAAATCGA
* *
13320545 GGGTATTTTAGTAATTTTGCAAA-CTGA
1 GGGTATTTTGGTAATTTTACAAATC-GA
*
13320572 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* * *
13320599 GGATATTTGGGTAATTTTATAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* *
13320626 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
*
13320653 GGGTATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
13320670 GGTAAACTAA
Statistics
Matches: 220, Mismatches: 58, Indels: 17
0.75 0.20 0.06
Matches are distributed among these distances:
26 26 0.12
27 188 0.85
28 6 0.03
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCGA
Found at i:13320885 original size:19 final size:19
Alignment explanation
Indices: 13320861--13320904 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
13320851 AGGCCCATTG
13320861 GGCCCACATGGCCCCTTTT
1 GGCCCACATGGCCCCTTTT
13320880 GGCCCACATGGCCCCTTTT
1 GGCCCACATGGCCCCTTTT
13320899 GGCCCA
1 GGCCCA
13320905 TCGCGGCCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.11, C:0.43, G:0.23, T:0.23
Consensus pattern (19 bp):
GGCCCACATGGCCCCTTTT
Found at i:13322653 original size:6 final size:6
Alignment explanation
Indices: 13322635--13322734 Score: 107
Period size: 6 Copynumber: 16.3 Consensus size: 6
13322625 AAGAAACATT
13322635 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
13322682 GTGACAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
13322733 AT
1 AT
13322735 GTAAATGAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
5 4 0.05
6 67 0.84
7 7 0.09
8 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:13322693 original size:31 final size:31
Alignment explanation
Indices: 13322635--13322734 Score: 134
Period size: 31 Copynumber: 3.3 Consensus size: 31
13322625 AAGAAACATT
13322635 ATCAGAA-CTAGAATCA-G-AATCAGAATCAGA
1 ATCAGAATC-AGAATCAGGTAA-CAGAATCAGA
*
13322665 ATCAGAATCAGAATCAGGTGACAGAATCAGA
1 ATCAGAATCAGAATCAGGTAACAGAATCAGA
* *
13322696 ATCAGAATCAGTATCAGGTAACAGAATCAAA
1 ATCAGAATCAGAATCAGGTAACAGAATCAGA
13322727 ATCAGAAT
1 ATCAGAAT
13322735 GTAAATGAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
30 14 0.22
31 48 0.76
32 1 0.02
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (31 bp):
ATCAGAATCAGAATCAGGTAACAGAATCAGA
Found at i:13323159 original size:27 final size:27
Alignment explanation
Indices: 13323129--13323351 Score: 356
Period size: 27 Copynumber: 8.3 Consensus size: 27
13323119 GGGGCAAAAT
* * *
13323129 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13323156 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13323183 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
13323210 GGTAATTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
13323237 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13323264 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13323291 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13323318 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
13323345 GGTAATT
1 GGTAATT
13323352 TCAAAAATTA
Statistics
Matches: 180, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 180 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:13323397 original size:27 final size:27
Alignment explanation
Indices: 13323336--13323648 Score: 213
Period size: 27 Copynumber: 11.6 Consensus size: 27
13323326 TACCCTACAG
* * * *
13323336 GGGTATTTCGGTAATTTCAAAAAT-TA
1 GGGTATTTTGGTAATTTTACAAATCGA
* *
13323362 AGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTTGGTAATTTTACAAATCGA
*** *
13323388 GGGGTATTTTGGTAATTTTATTGATGGA
1 -GGGTATTTTGGTAATTTTACAAATCGA
* ** * *
13323416 AGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCGA
** * **
13323443 GGGTATTTCAGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
*** * * **
13323470 GGGTAAAATGGCAATTCTATCTTA-C-A
1 GGGTATTTTGGTAATTTTA-CAAATCGA
**
13323496 GGAGTATTTCAGTAATTTTACAAATCGA
1 GG-GTATTTTGGTAATTTTACAAATCGA
* *
13323524 GGGTATTTTAGTAATTTTGCAAA-CTGA
1 GGGTATTTTGGTAATTTTACAAATC-GA
*
13323551 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* * *
13323578 GGATATTTGGGTAATTTTATAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* *
13323605 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
*
13323632 GGGTATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
13323649 GGTAAACTAA
Statistics
Matches: 220, Mismatches: 58, Indels: 17
0.75 0.20 0.06
Matches are distributed among these distances:
26 26 0.12
27 188 0.85
28 6 0.03
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCGA
Found at i:13323863 original size:19 final size:19
Alignment explanation
Indices: 13323839--13323882 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
13323829 AGGCCCATTG
13323839 GGCCCACATGGCCCCTTTT
1 GGCCCACATGGCCCCTTTT
13323858 GGCCCACATGGCCCCTTTT
1 GGCCCACATGGCCCCTTTT
13323877 GGCCCA
1 GGCCCA
13323883 TCGCGGCCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.11, C:0.43, G:0.23, T:0.23
Consensus pattern (19 bp):
GGCCCACATGGCCCCTTTT
Found at i:13325629 original size:6 final size:6
Alignment explanation
Indices: 13325611--13325716 Score: 119
Period size: 6 Copynumber: 17.3 Consensus size: 6
13325601 AAGAAACATT
13325611 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
13325659 ATCAG- GTGACAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
13325709 ATCAGA AT
1 ATCAGA AT
13325717 GTAAATGAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 16
0.80 0.06 0.15
Matches are distributed among these distances:
5 4 0.05
6 73 0.85
7 7 0.08
8 2 0.02
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:13325675 original size:31 final size:31
Alignment explanation
Indices: 13325611--13325716 Score: 146
Period size: 31 Copynumber: 3.5 Consensus size: 31
13325601 AAGAAACATT
13325611 ATCAGAA-CTAGAATCAGAATCA-G-AATCAGA
1 ATCAGAATC-AGAATCAGAATCAGGTAA-CAGA
*
13325641 ATCAGAATCAGAATCAGAATCAGGTGACAGA
1 ATCAGAATCAGAATCAGAATCAGGTAACAGA
*
13325672 ATCAGAATCAGAATCAGTATCAGGTAACAGA
1 ATCAGAATCAGAATCAGAATCAGGTAACAGA
*
13325703 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
13325717 GTAAATGAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
30 20 0.29
31 48 0.70
32 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (31 bp):
ATCAGAATCAGAATCAGAATCAGGTAACAGA
Found at i:13326141 original size:27 final size:27
Alignment explanation
Indices: 13326111--13326333 Score: 356
Period size: 27 Copynumber: 8.3 Consensus size: 27
13326101 GGGGCAAAAT
* * *
13326111 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13326138 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13326165 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
13326192 GGTAATTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
13326219 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13326246 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13326273 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13326300 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
13326327 GGTAATT
1 GGTAATT
13326334 TCAAAAATTA
Statistics
Matches: 180, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 180 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:13326379 original size:27 final size:27
Alignment explanation
Indices: 13326318--13326630 Score: 213
Period size: 27 Copynumber: 11.6 Consensus size: 27
13326308 TACCCTACAG
* * * *
13326318 GGGTATTTCGGTAATTTCAAAAAT-TA
1 GGGTATTTTGGTAATTTTACAAATCGA
* *
13326344 AGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTTGGTAATTTTACAAATCGA
*** *
13326370 GGGGTATTTTGGTAATTTTATTGATGGA
1 -GGGTATTTTGGTAATTTTACAAATCGA
* ** * *
13326398 AGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCGA
** * **
13326425 GGGTATTTCAGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
*** * * **
13326452 GGGTAAAATGGCAATTCTATCTTA-C-A
1 GGGTATTTTGGTAATTTTA-CAAATCGA
**
13326478 GGAGTATTTCAGTAATTTTACAAATCGA
1 GG-GTATTTTGGTAATTTTACAAATCGA
* *
13326506 GGGTATTTTAGTAATTTTGCAAA-CTGA
1 GGGTATTTTGGTAATTTTACAAATC-GA
*
13326533 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* * *
13326560 GGATATTTGGGTAATTTTATAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* *
13326587 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
*
13326614 GGGTATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
13326631 GGTAAACTAA
Statistics
Matches: 220, Mismatches: 58, Indels: 17
0.75 0.20 0.06
Matches are distributed among these distances:
26 26 0.12
27 188 0.85
28 6 0.03
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCGA
Found at i:13326845 original size:19 final size:19
Alignment explanation
Indices: 13326821--13326864 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
13326811 AGGCCCATTG
13326821 GGCCCACATGGCCCCTTTT
1 GGCCCACATGGCCCCTTTT
13326840 GGCCCACATGGCCCCTTTT
1 GGCCCACATGGCCCCTTTT
13326859 GGCCCA
1 GGCCCA
13326865 TCGCGGCCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.11, C:0.43, G:0.23, T:0.23
Consensus pattern (19 bp):
GGCCCACATGGCCCCTTTT
Found at i:13328613 original size:6 final size:6
Alignment explanation
Indices: 13328595--13328700 Score: 119
Period size: 6 Copynumber: 17.3 Consensus size: 6
13328585 AAGAAACATT
13328595 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
13328643 ATCAG- GTGACAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
13328693 ATCAGA AT
1 ATCAGA AT
13328701 GTAAATGAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 16
0.80 0.06 0.15
Matches are distributed among these distances:
5 4 0.05
6 73 0.85
7 7 0.08
8 2 0.02
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:13328659 original size:31 final size:31
Alignment explanation
Indices: 13328595--13328700 Score: 146
Period size: 31 Copynumber: 3.5 Consensus size: 31
13328585 AAGAAACATT
13328595 ATCAGAA-CTAGAATCAGAATCA-G-AATCAGA
1 ATCAGAATC-AGAATCAGAATCAGGTAA-CAGA
*
13328625 ATCAGAATCAGAATCAGAATCAGGTGACAGA
1 ATCAGAATCAGAATCAGAATCAGGTAACAGA
*
13328656 ATCAGAATCAGAATCAGTATCAGGTAACAGA
1 ATCAGAATCAGAATCAGAATCAGGTAACAGA
*
13328687 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
13328701 GTAAATGAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
30 20 0.29
31 48 0.70
32 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (31 bp):
ATCAGAATCAGAATCAGAATCAGGTAACAGA
Found at i:13329125 original size:27 final size:27
Alignment explanation
Indices: 13329095--13329263 Score: 248
Period size: 27 Copynumber: 6.3 Consensus size: 27
13329085 GGGGCAAAAT
* * *
13329095 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13329122 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13329149 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
13329176 GGTAATTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
13329203 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
13329230 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13329257 GATAATT
1 GGTAATT
13329264 TCACAAATCA
Statistics
Matches: 128, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:13329276 original size:27 final size:26
Alignment explanation
Indices: 13329246--13329296 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
13329236 TCTACCCTAT
13329246 AGGGGTATTTCGATAATTTCACAAATC
1 AGGGGTATTTCGATAATTT-ACAAATC
* *
13329273 AGGGGTATTTTGGTAATTTACAAA
1 AGGGGTATTTCGATAATTTACAAA
13329297 CTAGGCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (26 bp):
AGGGGTATTTCGATAATTTACAAATC
Found at i:13329279 original size:81 final size:81
Alignment explanation
Indices: 13329111--13329290 Score: 238
Period size: 81 Copynumber: 2.2 Consensus size: 81
13329101 TTTACCCCAC
* * * *
13329111 AAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 AAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* **
13329176 GGTAATTCTACCCTAT
66 GATAATTCTACCAAAT
* *
13329192 AAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
1 AAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
13329257 GATAATT-T-CACAAAT
66 GATAATTCTAC-CAAAT
*
13329272 CAGGGGTATTTTGGTAATT
1 -AAGGGTATTTTGGTAATT
13329291 TACAAACTAG
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 1 0.01
80 4 0.05
81 82 0.94
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (81 bp):
AAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
GATAATTCTACCAAAT
Found at i:13329357 original size:27 final size:27
Alignment explanation
Indices: 13329304--13329701 Score: 197
Period size: 27 Copynumber: 14.7 Consensus size: 27
13329294 AAACTAGGCA
* **
13329304 TATTTTGGTAATTTTATTGATCGAGGG
1 TATTTTGGTAATTTTGTAAATCGAGGG
* *
13329331 TATTTTGGTAATTTTGTAAACCAAGGG
1 TATTTTGGTAATTTTGTAAATCGAGGG
**
13329358 TATTTCAGTAATTTTGTAAATCGAGGG
1 TATTTTGGTAATTTTGTAAATCGAGGG
*** * *
13329385 TAAAATGGTAATTCTATAAATCGAGGG
1 TATTTTGGTAATTTTGTAAATCGAGGG
*** * * *
13329412 TAAAATGGTAATTCTATAAATCAAGGG
1 TATTTTGGTAATTTTGTAAATCGAGGG
**** *
13329439 TAAGACGGTAATTCTGTAAATCGAGGG
1 TATTTTGGTAATTTTGTAAATCGAGGG
*** * * *
13329466 TAAAATGGTAATTCTATAAATCGAGAG
1 TATTTTGGTAATTTTGTAAATCGAGGG
**** * *
13329493 TAAAACGGTAATTCTGTAAATAGAGGG
1 TATTTTGGTAATTTTGTAAATCGAGGG
*** * * * *
13329520 TAAAATGGTAATTCTATCT-TA-CAAGAG
1 TATTTTGGTAATT-T-TGTAAATCGAGGG
* **
13329547 TATTTTAGTAATTTTACAAATCGAGGG
1 TATTTTGGTAATTTTGTAAATCGAGGG
* ** *
13329574 TATTTTAGTAATTTTACAAATTGAGGG
1 TATTTTGGTAATTTTGTAAATCGAGGG
* * ** *
13329601 TATTTCGATAATTTTACAAATCGAGGA
1 TATTTTGGTAATTTTGTAAATCGAGGG
* *
13329628 TATTTGGGTAATTTTATAAATCGAGGG
1 TATTTTGGTAATTTTGTAAATCGAGGG
** ** *
13329655 TCCTTTGGTAATTTTACAAGTCGAGGG
1 TATTTTGGTAATTTTGTAAATCGAGGG
* *
13329682 TATTTTAGTAATTTGGTAAA
1 TATTTTGGTAATTTTGTAAA
13329702 CTAAAGTATT
Statistics
Matches: 300, Mismatches: 67, Indels: 8
0.80 0.18 0.02
Matches are distributed among these distances:
25 1 0.00
26 2 0.01
27 294 0.98
28 1 0.00
29 2 0.01
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (27 bp):
TATTTTGGTAATTTTGTAAATCGAGGG
Found at i:13329412 original size:54 final size:54
Alignment explanation
Indices: 13329365--13329536 Score: 272
Period size: 54 Copynumber: 3.2 Consensus size: 54
13329355 GGGTATTTCA
* * * *
13329365 GTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATG
* *
13329419 GTAATTCTATAAATCAAGGGTAAGACGGTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATG
* *
13329473 GTAATTCTATAAATCGAGAGTAAAACGGTAATTCTGTAAATAGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATG
13329527 GTAATTCTAT
1 GTAATTCTAT
13329537 CTTACAAGAG
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 108 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.30
Consensus pattern (54 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATG
Found at i:13329421 original size:81 final size:81
Alignment explanation
Indices: 13329309--13329512 Score: 264
Period size: 81 Copynumber: 2.5 Consensus size: 81
13329299 AGGCATATTT
* ** *** * *** *
13329309 TGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTG
1 TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAACCAAGGGTAAGACAGTAATTCTG
13329374 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * *
13329390 TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAGACGGTAATTCTG
1 TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAACCAAGGGTAAGACAGTAATTCTG
13329455 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* *
13329471 TGGTAATTCTATAAATCGAGAGTAAAACGGTAATTCTGTAAA
1 TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAA
13329513 TAGAGGGTAA
Statistics
Matches: 106, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 106 1.00
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (81 bp):
TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAACCAAGGGTAAGACAGTAATTCTG
TAAATCGAGGGTAAAA
Found at i:13329513 original size:81 final size:81
Alignment explanation
Indices: 13329337--13329534 Score: 272
Period size: 81 Copynumber: 2.4 Consensus size: 81
13329327 AGGGTATTTT
* * *** * *
13329337 GGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTAT
1 GGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTAT
* *
13329402 AAATCGAGGGTAAAAT
66 AAATCGAGAGTAAAAC
* *
13329418 GGTAATTCTATAAATCAAGGGTAAGACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTAT
1 GGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTAT
13329483 AAATCGAGAGTAAAAC
66 AAATCGAGAGTAAAAC
*
13329499 GGTAATTCTGTAAAT-AGAGGGTAAAATGGTAATTCT
1 GGTAATTCTGTAAATCA-AGGGTAAAACGGTAATTCT
13329535 ATCTTACAAG
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 102 0.99
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (81 bp):
GGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTAT
AAATCGAGAGTAAAAC
Found at i:13334568 original size:2 final size:2
Alignment explanation
Indices: 13334561--13334597 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13334551 GCGGCTTAGT
13334561 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13334598 TAGCAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13335114 original size:12 final size:12
Alignment explanation
Indices: 13335097--13335121 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13335087 GTATTTTTCA
13335097 TTTTTTCTATTT
1 TTTTTTCTATTT
13335109 TTTTTTCTATTT
1 TTTTTTCTATTT
13335121 T
1 T
13335122 AACATCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTCTATTT
Found at i:13341558 original size:21 final size:19
Alignment explanation
Indices: 13341524--13341585 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 19
13341514 TAAGTTATAT
13341524 ATAATAATATAATATGAATAAA
1 ATAATAA-A-AATAT-AATAAA
13341546 AT-ATAAGGAAATATAATATAAA
1 ATAATAA--AAATAT-A-ATAAA
13341568 ATAATAAAAATATAATAA
1 ATAATAAAAATATAATAA
13341586 GTAATTTGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 16 0.46
22 10 0.29
23 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
ATAATAAAAATATAATAAA
Found at i:13341635 original size:21 final size:22
Alignment explanation
Indices: 13341609--13341650 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
13341599 AAAATATAGT
*
13341609 AAAATAAATAGTATA-AAAAAC
1 AAAATAAATAATATATAAAAAC
13341630 AAAATAAATAATATATAAAAA
1 AAAATAAATAATATATAAAAA
13341651 TATAAGAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAATAAATAATATATAAAAAC
Found at i:13341997 original size:14 final size:14
Alignment explanation
Indices: 13341965--13342031 Score: 57
Period size: 14 Copynumber: 4.8 Consensus size: 14
13341955 ATACAATTTT
13341965 ATAAAATATAT-AA
1 ATAAAATATATAAA
*
13341978 A-GAAATATATAAA
1 ATAAAATATATAAA
*
13341991 ATAAAATATATAAT
1 ATAAAATATATAAA
* * *
13342005 ATAATATAATTTATAG
1 ATAAAAT-ATATA-AA
13342021 ATAAAATATAT
1 ATAAAATATAT
13342032 GATAAAATAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
12 8 0.19
13 4 0.10
14 16 0.38
15 7 0.17
16 7 0.17
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
ATAAAATATATAAA
Found at i:13341999 original size:12 final size:12
Alignment explanation
Indices: 13341965--13342013 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
13341955 ATACAATTTT
13341965 ATAAAATATATAA
1 ATAAAATATA-AA
*
13341978 AGAAATATATAAA
1 ATAAA-ATATAAA
*
13341991 ATAAAATATATA
1 ATAAAATATAAA
*
13342003 ATATAATATAA
1 ATAAAATATAA
13342014 TTTATAGATA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 15 0.50
13 10 0.33
14 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
ATAAAATATAAA
Found at i:13344038 original size:207 final size:207
Alignment explanation
Indices: 13343683--13344170 Score: 852
Period size: 207 Copynumber: 2.4 Consensus size: 207
13343673 GGTCTGCTTC
* *
13343683 AGCCAAATCAGCTATG-TCTTCGATTTATTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGAT
1 AGCCAAATCAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGAT
13343747 CTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTACTCTCCGTCAAATATGGAG
65 CTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTACTCTCCGTCAAATATGGAG
*
13343812 ACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTATC
130 ACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATC
13343877 GTAAGCACGTGAA
195 GTAAGCACGTGAA
* * *
13343890 AGCCAAATCAGCTATGATTTTGATTTGTTCCTTGTAAACACAAGGATGCTAAATCATCTTGGATC
1 AGCCAAATCAGCTATGATTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATC
* *
13343955 TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGA
66 TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTACTCTCCGTCAAATATGGAGA
13344020 CGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCG
131 CGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCG
13344085 TAAGCACGTGAA
196 TAAGCACGTGAA
* * *
13344097 AGCCAAAGCAACTATGATTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATATTGGATC
1 AGCCAAATCAGCTATGATTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATC
*
13344162 TTGCCTCAG
66 TTGCTTCAG
13344171 CCAGATCTGC
Statistics
Matches: 265, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
207 264 1.00
208 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (207 bp):
AGCCAAATCAGCTATGATTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATC
TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTACTCTCCGTCAAATATGGAGA
CGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCG
TAAGCACGTGAA
Found at i:13356010 original size:21 final size:19
Alignment explanation
Indices: 13355976--13356037 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 19
13355966 ATAAGTTATT
13355976 ATAATAATATAATATGAATAAA
1 ATAATAA-A-AATAT-AATAAA
13355998 AT-ATAAGGAAATATAATATAAA
1 ATAATAA--AAATAT-A-ATAAA
13356020 ATAATAAAAATATAATAA
1 ATAATAAAAATATAATAA
13356038 GTAATTTGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 16 0.46
22 10 0.29
23 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
ATAATAAAAATATAATAAA
Found at i:13356058 original size:56 final size:50
Alignment explanation
Indices: 13355993--13356109 Score: 128
Period size: 49 Copynumber: 2.2 Consensus size: 50
13355983 TATAATATGA
* *
13355993 ATAAAATATAAGGAAATATAATATAAAATAATAAAAATATAATAAGTAATTTGCAT
1 ATAAAATATAAGGAAA-ATAA-ATAAAATAA-AAAAACA-AATAAATAATTT--AT
* **
13356049 ATAAAATAT-AGTAAAATAAATAGTATAAAAAAACAAATAAATAATTTAT
1 ATAAAATATAAGGAAAATAAATAAAATAAAAAAACAAATAAATAATTTAT
13356098 ATAAAATATAAG
1 ATAAAATATAAG
13356110 AAAGATAGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
49 11 0.20
50 2 0.04
51 11 0.20
52 6 0.11
53 7 0.13
54 4 0.07
55 5 0.09
56 9 0.16
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (50 bp):
ATAAAATATAAGGAAAATAAATAAAATAAAAAAACAAATAAATAATTTAT
Found at i:13356431 original size:14 final size:15
Alignment explanation
Indices: 13356411--13356443 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
13356401 AATACAATTT
13356411 TATAAAAATATATAA
1 TATAAAAATATATAA
13356426 -AT-AAAATATATAA
1 TATAAAAATATATAA
13356439 TATAA
1 TATAA
13356444 TTTATAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 4
0.80 0.00 0.20
Matches are distributed among these distances:
13 11 0.69
14 4 0.25
15 1 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TATAAAAATATATAA
Found at i:13356433 original size:13 final size:12
Alignment explanation
Indices: 13356415--13356470 Score: 67
Period size: 12 Copynumber: 4.5 Consensus size: 12
13356405 CAATTTTATA
13356415 AAAATATATAAAT
1 AAAATATAT-AAT
13356428 AAAATATATAAT
1 AAAATATATAAT
* *
13356440 ATAATTTATAGAT
1 AAAATATATA-AT
*
13356453 AAAATATATGAT
1 AAAATATATAAT
13356465 AAAATA
1 AAAATA
13356471 ATGTATTGGA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
12 19 0.51
13 18 0.49
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (12 bp):
AAAATATATAAT
Found at i:13356440 original size:36 final size:37
Alignment explanation
Indices: 13356400--13356470 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
13356390 TAGTAAATAG
*
13356400 TAATACAATTT-TATA-AAAATATATAAATAAAATATA
1 TAATACAATTTATAGATAAAATATAT-AATAAAATATA
* *
13356436 TAATATAATTTATAGATAAAATATATGATAAAATA
1 TAATACAATTTATAGATAAAATATATAATAAAATA
13356471 ATGTATTGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 10 0.33
37 11 0.37
38 9 0.30
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (37 bp):
TAATACAATTTATAGATAAAATATATAATAAAATATA
Found at i:13357659 original size:205 final size:205
Alignment explanation
Indices: 13357224--13357806 Score: 902
Period size: 205 Copynumber: 2.8 Consensus size: 205
13357214 AAATCTGCTT
* * * *
13357224 CTTCGATTTGTTCTCTGACATTACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATCAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * *
13357289 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTTTAAGCACAAGAATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* ** *
13357354 GGATCTTGCTTCAGTGA-AATTATCTGAAGGTGAGATCTGCTATGTATCTGCTGCCCATCGAAGT
131 GGATC-TCCTTCAGT-ATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCATCGAAGT
13357418 GGAGATACCAGA
194 GGAGATACCAGA
*
13357430 CTTCGATTTGTTCTC-GACAATACAGAGAGGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
*
13357494 GTGAAAGCCAAATCAGTTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* *
13357559 GGATCTCCTTCAGTATAAACATCT-AGAGGTGAGATTTGCTATGTATCTGCTCCCCGTCGAAGTG
131 GGATCTCCTTCAGTATAAACATCTGA-AGGTGAGATCTGCTATGTATCTGCTCCCCATCGAAGTG
* *
13357623 GAGATGCTAGA
195 GAGATACCAGA
*
13357634 CTTCGATTTGTTCTCTGAGAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * *
13357699 ATGAAAGCCAAATCAGCTATGTCTTCGATTCACTCCTTGTAAGCACAAGGATGCCAAATCATATT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* *
13357764 GGATCTTCTTCAGTATAAACATCTGAAGGTGAGATCTACTATG
131 GGATCTCCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATG
13357807 CTGCAACCTA
Statistics
Matches: 346, Mismatches: 27, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
203 2 0.01
204 73 0.21
205 255 0.74
206 16 0.05
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
GGATCTCCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCATCGAAGTGG
AGATACCAGA
Found at i:13370063 original size:38 final size:38
Alignment explanation
Indices: 13370012--13370122 Score: 183
Period size: 38 Copynumber: 2.9 Consensus size: 38
13370002 AACATTGGAA
13370012 ATATATCCGGGCTAAGACCCGAAGGCATTCGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGCGAGTTG
13370050 ATATATCCGGGCTAAGACCCGAA-GCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTC--GCGAGTTG
13370089 ATATAT-CGGGCTAAGA-CCGAAGGCATTCGCGAGT
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGCGAGT
13370123 ACCTAAGAAA
Statistics
Matches: 70, Mismatches: 0, Indels: 8
0.90 0.00 0.10
Matches are distributed among these distances:
36 6 0.09
37 11 0.16
38 39 0.56
39 14 0.20
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.22
Consensus pattern (38 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGCGAGTTG
Found at i:13370238 original size:40 final size:40
Alignment explanation
Indices: 13370131--13370239 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
13370121 GTACCTAAGA
* *
13370131 AAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCG
1 AAGGCATTCGTGCGAGTCGCTATATCCGGGCTAAGACCCG
* * * * * * * *
13370171 AAGGCCTTTGTGCAAGTCACCAAATCCGGGTTATGACCCG
1 AAGGCATTCGTGCGAGTCGCTATATCCGGGCTAAGACCCG
*
13370211 AAGGCAATCGTGCGAGTCGCTATATCCGG
1 AAGGCATTCGTGCGAGTCGCTATATCCGG
13370240 TTAAATCCCG
Statistics
Matches: 52, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
AAGGCATTCGTGCGAGTCGCTATATCCGGGCTAAGACCCG
Found at i:13378361 original size:40 final size:40
Alignment explanation
Indices: 13378152--13378337 Score: 372
Period size: 40 Copynumber: 4.7 Consensus size: 40
13378142 AACATTGGAA
13378152 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
13378192 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
13378232 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
13378272 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
13378312 ATATATCCGGGCTAAGACCCGAAGGC
1 ATATATCCGGGCTAAGACCCGAAGGC
13378338 CTTTGTGCAA
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 146 1.00
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:13378371 original size:120 final size:120
Alignment explanation
Indices: 13378152--13378401 Score: 367
Period size: 120 Copynumber: 2.1 Consensus size: 120
13378142 AACATTGGAA
13378152 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
* * * * * * * *
13378217 CATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
66 CATTCGTGCAAGTTCACAAATCCGGACTAAGACCCGAAGGAAATCGTGCGAGTCG
13378272 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
* * * *
13378337 CCTTTGTGCAAG-TCACCAAATCCGGATTATGACCCGAAGGAAATCGTGCGAGTCG
66 CATTCGTGCAAGTTCA-CAAATCCGGACTAAGACCCGAAGGAAATCGTGCGAGTCG
*
13378392 CTATATCCGG
1 ATATATCCGG
13378402 TTAAATCCCG
Statistics
Matches: 116, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
119 2 0.02
120 114 0.98
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (120 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
CATTCGTGCAAGTTCACAAATCCGGACTAAGACCCGAAGGAAATCGTGCGAGTCG
Found at i:13381661 original size:44 final size:44
Alignment explanation
Indices: 13381613--13381705 Score: 127
Period size: 43 Copynumber: 2.1 Consensus size: 44
13381603 TAAAAAAATA
* * *
13381613 CCGCTAAAAG-GTCATGACTTTTAGCGGCGCTTTTCCTAAAAACG
1 CCGCTAAAAGACT-ATGACCTTTAGCGGCACTTTTCCTAAAAACG
*
13381657 CCGCT-AAAGACTATGACCTTTAGCGGCACTTTTTCTAAAAACG
1 CCGCTAAAAGACTATGACCTTTAGCGGCACTTTTCCTAAAAACG
13381700 CCGCTA
1 CCGCTA
13381706 TATAACAGAC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 37 0.86
44 6 0.14
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (44 bp):
CCGCTAAAAGACTATGACCTTTAGCGGCACTTTTCCTAAAAACG
Found at i:13381733 original size:43 final size:43
Alignment explanation
Indices: 13381626--13381749 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 43
13381616 CTAAAAGGTC
* *
13381626 ATGACTTTTAGCGGCGCTTTTCCTAAAAACGCCGCTAAAGACT
1 ATGACCTTTAGCGGCGCTTTTTCTAAAAACGCCGCTAAAGACT
*
13381669 ATGACCTTTAGCGGCACTTTTTCTAAAAACGCCGCTATATA-AC-
1 ATGACCTTTAGCGGCGCTTTTTCTAAAAACGCCGCTA-A-AGACT
* * *
13381712 A-GACCTTTAGCGACGCTTTTT-TGACAAACGCCACTAAA
1 ATGACCTTTAGCGGCGCTTTTTCT-AAAAACGCCGCTAAA
13381750 AAATATAAAC
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
40 1 0.01
41 2 0.03
42 29 0.41
43 35 0.49
44 3 0.04
45 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGACCTTTAGCGGCGCTTTTTCTAAAAACGCCGCTAAAGACT
Found at i:13388011 original size:15 final size:15
Alignment explanation
Indices: 13387988--13388038 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
13387978 ATACCCATGG
*
13387988 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
13388003 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
* *
13388018 TCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
13388032 CCTTAAA
1 CCATAAA
13388039 TATTAAACCG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:13388343 original size:41 final size:41
Alignment explanation
Indices: 13388284--13388486 Score: 196
Period size: 41 Copynumber: 5.0 Consensus size: 41
13388274 GGGGTTATAT
* *
13388284 GACTTTTAACGGCGTTTTATCAAAAACGCCGCTAATGCTCC
1 GACTTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCC
* **
13388325 GACTTTTAGCGGCATTTTACCAAAAGTGCCGCTAATGCTCC
1 GACTTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCC
* * * *
13388366 GACTTTTAGCGGCGTTTTACCAAAAGCACCGCTATTGCTCT
1 GACTTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCC
* * * * * *
13388407 G-TTTTTAGCGCCGTTTTAACAAAAAATGCCGCTATTGCTCT
1 GACTTTTAGCGGCGTTTT-ACCAAAAACGCCGCTAATGCTCC
* ** *
13388448 G-TTTTTAGCGGCGTTTTTA-GTAAAACGCCGCTACTGCTC
1 GACTTTTAGCGGCG-TTTTACCAAAAACGCCGCTAATGCTC
13388487 TGTGTTTTAC
Statistics
Matches: 139, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
40 30 0.22
41 105 0.76
42 4 0.03
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (41 bp):
GACTTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCC
Found at i:13388463 original size:81 final size:80
Alignment explanation
Indices: 13388284--13388495 Score: 219
Period size: 82 Copynumber: 2.6 Consensus size: 80
13388274 GGGGTTATAT
* * * * * *
13388284 GACTTTTAACGGCGTTTTATCAAAAACGCCGCTAATGCTCCGACTTTTAGCGGCATTTTACCAAA
1 GACTTTTAGCGGCGTTTTA-CCAAAACGCCGCTAATGCTCTG-TTTTTAGCGCCATTTTACAAAA
*
13388349 AGTGCCGCTAATGCTCC
64 AATGCCGCTAATGCTCC
* * *
13388366 GACTTTTAGCGGCGTTTTACCAAAAGCACCGCTATTGCTCTGTTTTTAGCGCCGTTTTAACAAAA
1 GACTTTTAGCGGCGTTTTACCAAAA-CGCCGCTAATGCTCTGTTTTTAGCGCCATTTT-ACAAAA
* *
13388431 AATGCCGCTATTGCTCT
64 AATGCCGCTAATGCTCC
* ** *
13388448 G-TTTTTAGCGGCGTTTTTAGTAAAACGCCGCTACTGCTCTGTGTTTTA
1 GACTTTTAGCGGCG-TTTTACCAAAACGCCGCTAATGCTCTGT-TTTTA
13388496 CAATTTTTGT
Statistics
Matches: 109, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
81 44 0.40
82 65 0.60
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (80 bp):
GACTTTTAGCGGCGTTTTACCAAAACGCCGCTAATGCTCTGTTTTTAGCGCCATTTTACAAAAAA
TGCCGCTAATGCTCC
Found at i:13389287 original size:47 final size:48
Alignment explanation
Indices: 13389233--13389361 Score: 188
Period size: 48 Copynumber: 2.7 Consensus size: 48
13389223 TTAACATGTA
*
13389233 TAACCGTGGCATATCCATTTAGCACCACGTTA-ATGAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATG
* * *
13389280 TAACCGTGGCATATTCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATG
* * *
13389328 TAATCATGGTATATCCACTTAGCACCACGTTACA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACA
13389362 CGTATAACCG
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
47 30 0.41
48 43 0.59
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (48 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATG
Found at i:13400157 original size:21 final size:24
Alignment explanation
Indices: 13400128--13400173 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
13400118 TGCTTTTAAC
13400128 TAATAA-TTTTAAAT-TA-AATTA
1 TAATAATTTTTAAATGTATAATTA
*
13400149 TAATTATTTTTAAATGTATAATTA
1 TAATAATTTTTAAATGTATAATTA
13400173 T
1 T
13400174 CACAATTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 8 0.38
23 2 0.10
24 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TAATAATTTTTAAATGTATAATTA
Found at i:13401339 original size:20 final size:20
Alignment explanation
Indices: 13401278--13401342 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 20
13401268 ATAACGGTAA
13401278 ATTAAATTATAATTATTTTT
1 ATTAAATTATAATTATTTTT
* * **
13401298 AAATATGTAATTATCACAATTTTT
1 --AT-T-AAATTATAATTATTTTT
13401322 ATTAAATTATAATTATTTTT
1 ATTAAATTATAATTATTTTT
13401342 A
1 A
13401343 AATGTATAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
20 14 0.42
21 1 0.03
22 4 0.12
23 1 0.03
24 13 0.39
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTAAATTATAATTATTTTT
Found at i:13409551 original size:18 final size:18
Alignment explanation
Indices: 13409528--13409599 Score: 117
Period size: 18 Copynumber: 4.0 Consensus size: 18
13409518 TCCAACTACT
*
13409528 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
**
13409546 GTATACGTGAATAGTTTC
1 GTATACGTGAATAGTACC
13409564 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
13409582 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
13409600 ATAAACGGTC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:13409580 original size:36 final size:36
Alignment explanation
Indices: 13409528--13409596 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
13409518 TCCAACTACT
13409528 GTATACGTGAACAGTACCGTATACGTGAATAGTTTC
1 GTATACGTGAACAGTACCGTATACGTGAATAGTTTC
*
13409564 GTATACGTGAATAGTACCGTATACGTGAATAGT
1 GTATACGTGAACAGTACCGTATACGTGAATAGT
13409597 ACCATAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.30
Consensus pattern (36 bp):
GTATACGTGAACAGTACCGTATACGTGAATAGTTTC
Found at i:13410161 original size:21 final size:22
Alignment explanation
Indices: 13410135--13410176 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
13410125 TGACCTTTCC
*
13410135 AAGGTATGGG-TAGGTATGGGA
1 AAGGTATGGGCAAGGTATGGGA
13410156 AAGGTATGGGCAAGGTATGGG
1 AAGGTATGGGCAAGGTATGGG
13410177 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (22 bp):
AAGGTATGGGCAAGGTATGGGA
Found at i:13410162 original size:11 final size:10
Alignment explanation
Indices: 13410135--13410176 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 10
13410125 TGACCTTTCC
13410135 AAGGTATGGG
1 AAGGTATGGG
*
13410145 TAGGTATGGG
1 AAGGTATGGG
13410155 AAAGGTATGGG
1 -AAGGTATGGG
13410166 CAAGGTATGGG
1 -AAGGTATGGG
13410177 GTATATTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (10 bp):
AAGGTATGGG
Found at i:13410780 original size:24 final size:24
Alignment explanation
Indices: 13410734--13410780 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
13410724 TATATGAAAT
* *
13410734 AATAAATTTTAAATATTTTTAAAC
1 AATAAATATTAAATATTTATAAAC
* *
13410758 AATAAATATTAATTGTTTATAAA
1 AATAAATATTAAATATTTATAAA
13410781 ATTTAATTAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
AATAAATATTAAATATTTATAAAC
Found at i:13413014 original size:18 final size:19
Alignment explanation
Indices: 13412991--13413029 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
13412981 CTTGACCCAT
* *
13412991 TACAGTATCA-ATATTCAG
1 TACAGTAACATATATACAG
13413009 TACAGTAACATATATACAG
1 TACAGTAACATATATACAG
13413028 TA
1 TA
13413030 TCAAATTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (19 bp):
TACAGTAACATATATACAG
Found at i:13416310 original size:23 final size:23
Alignment explanation
Indices: 13416284--13416336 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
13416274 TCATTTCATA
*
13416284 ATGGATGATTTCTTGAAATAAGT
1 ATGGATGATTTCATGAAATAAGT
13416307 ATGGATGATTTCATGAAATAAGT
1 ATGGATGATTTCATGAAATAAGT
13416330 ATGGATG
1 ATGGATG
13416337 TTTGCTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.36
Consensus pattern (23 bp):
ATGGATGATTTCATGAAATAAGT
Found at i:13426012 original size:23 final size:23
Alignment explanation
Indices: 13425986--13426055 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
13425976 TTACATGAAT
13425986 ATCAAGAAAACAAAGATGAGCTC
1 ATCAAGAAAACAAAGATGAGCTC
* *** * **
13426009 ATCATG-AAATTTACAT-AAAT-
1 ATCAAGAAAACAAAGATGAGCTC
13426029 ATCAAGAAAACAAAGATGAGCTC
1 ATCAAGAAAACAAAGATGAGCTC
13426052 ATCA
1 ATCA
13426056 TGCAACGATT
Statistics
Matches: 30, Mismatches: 14, Indels: 6
0.60 0.28 0.12
Matches are distributed among these distances:
20 5 0.17
21 8 0.27
22 8 0.27
23 9 0.30
ACGTcount: A:0.51, C:0.16, G:0.13, T:0.20
Consensus pattern (23 bp):
ATCAAGAAAACAAAGATGAGCTC
Found at i:13426030 original size:43 final size:43
Alignment explanation
Indices: 13425967--13426057 Score: 173
Period size: 43 Copynumber: 2.1 Consensus size: 43
13425957 AACAAGTTAG
*
13425967 TCATGAAATTTACATGAATATCAAGAAAACAAAGATGAGCTCA
1 TCATGAAATTTACATAAATATCAAGAAAACAAAGATGAGCTCA
13426010 TCATGAAATTTACATAAATATCAAGAAAACAAAGATGAGCTCA
1 TCATGAAATTTACATAAATATCAAGAAAACAAAGATGAGCTCA
13426053 TCATG
1 TCATG
13426058 CAACGATTTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.48, C:0.14, G:0.13, T:0.24
Consensus pattern (43 bp):
TCATGAAATTTACATAAATATCAAGAAAACAAAGATGAGCTCA
Found at i:13426391 original size:24 final size:24
Alignment explanation
Indices: 13426354--13426413 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
13426344 GGAAACTCAT
* *
13426354 AAGAGCCATAATCAGGAAGTTCACA
1 AAGAGCCAT-ATCAGAAAGCTCACA
*
13426379 AAGAACCATATCAGAAAGCTCACA
1 AAGAGCCATATCAGAAAGCTCACA
13426403 AAGAGCCATAT
1 AAGAGCCATAT
13426414 AACAGGAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 23 0.74
25 8 0.26
ACGTcount: A:0.47, C:0.22, G:0.17, T:0.15
Consensus pattern (24 bp):
AAGAGCCATATCAGAAAGCTCACA
Found at i:13426522 original size:27 final size:25
Alignment explanation
Indices: 13426492--13426549 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 25
13426482 TAATTTAACA
*
13426492 AGAAGCTCATGAAAGAGCCCT-TAATCG
1 AGAAGCTC-T-AAAGAGCCATAT-ATCG
13426519 AGAAGCTCTAAAGAGCCATATATCG
1 AGAAGCTCTAAAGAGCCATATATCG
13426544 AGAAGC
1 AGAAGC
13426550 CTGAGAGGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 19 0.66
26 2 0.07
27 8 0.28
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (25 bp):
AGAAGCTCTAAAGAGCCATATATCG
Done.