Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 227 of 345
Found at i:66091403 original size:101 final size:101
Alignment explanation
Indices: 66091274--66091455 Score: 296
Period size: 101 Copynumber: 1.8 Consensus size: 101
66091264 TGGTTTTAGG
*
66091274 TCACGTGTGTAGTACTAAGTGCAGGCTACTACCTGTACCAGATAGTTAGGTCGCATGTGT-T-GT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACCTGTACCAGATAGTTAGGT--CATGTGTGTAGT
66091337 ACTAAGTGCAGGCTACTATGCATACCCAAAAATTTCAA
64 ACTAAGTGCAGGCTACTATGCATACCCAAAAATTTCAA
* * *
66091375 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACCTGTACCAGATAGTTAGGTCATGTGTGTAGTAC
66091440 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
66091456 CGTGTACCAG
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
99 7 0.09
100 1 0.01
101 67 0.89
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACCTGTACCAGATAGTTAGGTCATGTGTGTAGTAC
TAAGTGCAGGCTACTATGCATACCCAAAAATTTCAA
Found at i:66091526 original size:150 final size:151
Alignment explanation
Indices: 66091223--66091619 Score: 571
Period size: 150 Copynumber: 2.6 Consensus size: 151
66091213 ATTGTGAGAA
* * * * *
66091223 CACATGTGTAGTACTATGTACAAGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGG--TTAGGTCACGTGTGTAGTA
* *
66091288 CTAAGTGCAGGCTACTACCTGTACCAGATAGTTAGGTCGCATGTGTTGTACTAAGTGCAGGCTAC
64 CTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTAC
* *
66091353 TATGCATACCCAAAAATTTCAAT
129 TATGCATACACAAAAACTTCAAT
* *
66091376 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
66091441 AAGTGCAGGCTACTACGTGTACCAGAT-GTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
66 AAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
* ** *
66091505 TGCGTACATGACAACTTCAAT
131 TGCATACACAAAAACTTCAAT
* * * * *
66091526 CACATGTGTAGTACTAAGTGTAGGATATTACATGTATCAGATGGTTAGGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
* *
66091591 AAGTGCAGGCTACTATGCGTACCAGATAG
66 AAGTGCAGGCTACTACGTGTACCAGATAG
66091620 CTTCGGTTAC
Statistics
Matches: 219, Mismatches: 24, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
150 134 0.61
151 47 0.21
153 38 0.17
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (151 bp):
CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
AAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
TGCATACACAAAAACTTCAAT
Found at i:66091604 original size:101 final size:100
Alignment explanation
Indices: 66091430--66091612 Score: 294
Period size: 101 Copynumber: 1.8 Consensus size: 100
66091420 TTAGGTCATG
* * *
66091430 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTTAGGTCGCATGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGATACTACATGTACCAGATGTTAGGTCACATGTGTAGTACTAAGTG
66091495 CAGGCTACTATGCGTACATGACAACTTCAATCACA
66 CAGGCTACTATGCGTACATGACAACTTCAATCACA
* * * *
66091530 TGTGTAGTACTAAGTGTAGGATATTACATGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGATACTACATGTACCAGAT-GTTAGGTCACATGTGTAGTACTAAGT
66091595 GCAGGCTACTATGCGTAC
65 GCAGGCTACTATGCGTAC
66091613 CAGATAGCTT
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
100 33 0.44
101 42 0.56
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGATACTACATGTACCAGATGTTAGGTCACATGTGTAGTACTAAGTG
CAGGCTACTATGCGTACATGACAACTTCAATCACA
Found at i:66097515 original size:40 final size:40
Alignment explanation
Indices: 66097470--66097559 Score: 121
Period size: 40 Copynumber: 2.2 Consensus size: 40
66097460 CGGAATACAA
*
66097470 CCGGATATAACCACGT-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCAC-AATTGCCTTCGGGTCTTAAC
* *
66097510 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
66097550 CCGGATATAA
1 CCGGATATAA
66097560 TTTCCAGCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
39 3 0.07
40 40 0.93
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
Found at i:66105449 original size:40 final size:40
Alignment explanation
Indices: 66105404--66105493 Score: 121
Period size: 40 Copynumber: 2.2 Consensus size: 40
66105394 CGGAATACAA
*
66105404 CCGGATATAACCACGT-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCAC-AATTGCCTTCGGGTCTTAAC
* *
66105444 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
66105484 CCGGATATAA
1 CCGGATATAA
66105494 TTTCCAGCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
39 3 0.07
40 40 0.93
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
Found at i:66109666 original size:27 final size:27
Alignment explanation
Indices: 66109629--66109742 Score: 146
Period size: 27 Copynumber: 4.3 Consensus size: 27
66109619 AGCATGGCCG
* *
66109629 CCAGAACAGATA-TTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
66109655 CCAGATACAG--ATTTGTGGCAGAGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
66109681 CCAGAACAGATATTTGTGGC-GTAGCCA
1 CCAGAACAGATATTTGTGGCAG-AGCCA
*
66109708 CCAGAAACAGATATTTGTGGCATAGCCA
1 CCAG-AACAGATATTTGTGGCAGAGCCA
66109736 CCAGAAC
1 CCAGAAC
66109743 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 3, Indels: 13
0.83 0.03 0.14
Matches are distributed among these distances:
25 5 0.06
26 23 0.29
27 25 0.32
28 25 0.32
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:66109725 original size:28 final size:28
Alignment explanation
Indices: 66109629--66109741 Score: 139
Period size: 28 Copynumber: 4.2 Consensus size: 28
66109619 AGCATGGCCG
* *
66109629 CCAG-AACAGATA-TTGTGACAGAGTCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
*
66109655 CCAGATACAG--ATTTGTGGCAGAGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
66109681 CCAG-AACAGATATTTGTGGC-GTAGCCA
1 CCAGAAACAGATATTTGTGGCAG-AGCCA
*
66109708 CCAGAAACAGATATTTGTGGCATAGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
66109736 CCAGAA
1 CCAGAA
66109742 CGCTTCCTCC
Statistics
Matches: 75, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
25 5 0.07
26 21 0.28
27 22 0.29
28 27 0.36
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGAAACAGATATTTGTGGCAGAGCCA
Found at i:66109738 original size:55 final size:52
Alignment explanation
Indices: 66109620--66109742 Score: 149
Period size: 55 Copynumber: 2.3 Consensus size: 52
66109610 AGAGTTTGCA
* * * *
66109620 GCATGGCCGCCAGAACAGATATTGTGACAGAGTCACCAGATACAGATTTGTG
1 GCATAGCCACCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATTTGTG
* *
66109672 GCAGAGCCACCAGAACAGATATTTGTGGC-GTAGCCACCAGAAACAGATATTTGTG
1 GCATAGCCACCAGAACAGATA-TTGTGACAG-AGCCACCAGAAACAG--ATTTGTG
66109727 GCATAGCCACCAGAAC
1 GCATAGCCACCAGAAC
66109743 GCTTCCTCCA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
52 19 0.32
53 19 0.32
55 22 0.37
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.19
Consensus pattern (52 bp):
GCATAGCCACCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATTTGTG
Found at i:66114214 original size:26 final size:26
Alignment explanation
Indices: 66114185--66114246 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
66114175 GTGATGGAGT
66114185 CACCAGATACAG-ATTTGTGGAAGAGC
1 CACCAGA-ACAGAATTTGTGGAAGAGC
* *
66114211 CACCAGAACAGATATTTGTGGCATAGC
1 CACCAGAACAGA-ATTTGTGGAAGAGC
66114238 CACCAGAAC
1 CACCAGAAC
66114247 GCTTCCTCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 4 0.12
26 7 0.22
27 21 0.66
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (26 bp):
CACCAGAACAGAATTTGTGGAAGAGC
Found at i:66116716 original size:49 final size:49
Alignment explanation
Indices: 66116660--66116761 Score: 177
Period size: 49 Copynumber: 2.1 Consensus size: 49
66116650 TAAGTTACTA
* *
66116660 TAAGTTTCAAAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGG
1 TAAGTTTCAAAAGGATACCACGTAAGACCATGACAAGACATGGCAATGG
*
66116709 TAAGTTTCAAAAGGATACCACGTAAGACCATGACAAGTCATGGCAATGG
1 TAAGTTTCAAAAGGATACCACGTAAGACCATGACAAGACATGGCAATGG
66116758 TAAG
1 TAAG
66116762 GTACCCGCGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.22
Consensus pattern (49 bp):
TAAGTTTCAAAAGGATACCACGTAAGACCATGACAAGACATGGCAATGG
Found at i:66118955 original size:40 final size:40
Alignment explanation
Indices: 66118827--66118957 Score: 165
Period size: 40 Copynumber: 3.3 Consensus size: 40
66118817 TATGCTGGAA
* * *
66118827 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * *
66118867 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
66118907 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
66118947 ATTATATCCGG
1 ATTATATCCGG
66118958 TTATATTCCG
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:66126880 original size:40 final size:40
Alignment explanation
Indices: 66126795--66126945 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
66126785 AATTGAATGA
* * *
66126795 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
66126835 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
66126876 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
66126915 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
66126946 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:66126959 original size:40 final size:40
Alignment explanation
Indices: 66126831--66126961 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
66126821 TATGCTGGAA
* * *
66126831 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
66126871 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
66126911 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
66126951 ATTATATCCGG
1 ATTATATCCGG
66126962 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:66135409 original size:23 final size:23
Alignment explanation
Indices: 66135383--66135428 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
66135373 AATGTTATAT
66135383 GTGAATGTTAATTCTTGATATTA
1 GTGAATGTTAATTCTTGATATTA
66135406 GTGAATGTTAATTCTTGATATTA
1 GTGAATGTTAATTCTTGATATTA
66135429 CATGAATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.17, T:0.48
Consensus pattern (23 bp):
GTGAATGTTAATTCTTGATATTA
Found at i:66135717 original size:19 final size:19
Alignment explanation
Indices: 66135695--66135760 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 19
66135685 TGTTCTGAAC
66135695 TCATTGAGTTGGTCTGAGT
1 TCATTGAGTTGGTCTGAGT
* *
66135714 TCA-TGATATATGTGACATCTGAGC
1 TCATTGA-GT-TG-G---TCTGAGT
66135738 TCATTGAGTTGGTCTGAGT
1 TCATTGAGTTGGTCTGAGT
66135757 TCAT
1 TCAT
66135761 GATGTACGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
18 3 0.08
19 14 0.39
20 2 0.06
21 1 0.03
22 1 0.03
23 2 0.06
24 10 0.28
25 3 0.08
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.39
Consensus pattern (19 bp):
TCATTGAGTTGGTCTGAGT
Found at i:66135741 original size:43 final size:43
Alignment explanation
Indices: 66135688--66135773 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
66135678 AATTATGTGT
*
66135688 TCTGAACTCATTGAGTTGGTCTGAGTTCATGATATATGTGACA
1 TCTGAACTCATTGAGTTGGTCTGAGTTCATGATATACGTGACA
* *
66135731 TCTGAGCTCATTGAGTTGGTCTGAGTTCATGATGTACGTGACA
1 TCTGAACTCATTGAGTTGGTCTGAGTTCATGATATACGTGACA
66135774 CATGTAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (43 bp):
TCTGAACTCATTGAGTTGGTCTGAGTTCATGATATACGTGACA
Found at i:66138731 original size:11 final size:11
Alignment explanation
Indices: 66138715--66138753 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
66138705 TTCTCAATTC
66138715 ACCAAAATCAT
1 ACCAAAATCAT
*
66138726 ACC-AAATCTAA
1 ACCAAAATC-AT
66138737 ACCAAAATCAT
1 ACCAAAATCAT
66138748 ACCAAA
1 ACCAAA
66138754 GAATATGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 5 0.21
11 14 0.58
12 5 0.21
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.15
Consensus pattern (11 bp):
ACCAAAATCAT
Found at i:66139493 original size:43 final size:42
Alignment explanation
Indices: 66139427--66139588 Score: 139
Period size: 43 Copynumber: 3.8 Consensus size: 42
66139417 AGCTCGTACA
* * *
66139427 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGCCCCAGACGTGGTCTTACACGAAATCAAATAT-G
*
66139470 ATGCCACTGCCCCAGACAG-GGTCTTACACGAAATCAAATATG
1 ATGCCAATGCCCCAGAC-GTGGTCTTACACGAAATCAAATATG
* *** * * *
66139512 ATGTCAACATCCTAGATGTGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAATGCCCCAGACGTGGTCTTACACG-AAATCA-AA-TATG
* * *
66139556 ATACCAACGTCCCAGACGTGGTCTTACACGAAA
1 ATGCCAATGCCCCAGACGTGGTCTTACACGAAA
66139589 ACACATATCG
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
41 1 0.01
42 22 0.23
43 44 0.45
44 29 0.30
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAATGCCCCAGACGTGGTCTTACACGAAATCAAATATG
Found at i:66142448 original size:93 final size:93
Alignment explanation
Indices: 66142336--66142506 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
66142326 GCCCATAAGT
* *
66142336 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
66142401 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
66142429 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
66142494 CGAGTTCGGATGC
66 CGAGTTCGGATGC
66142507 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:66142522 original size:46 final size:46
Alignment explanation
Indices: 66142328--66142508 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
66142318 TGTAACCCGC
* * *
66142328 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
66142374 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
66142424 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
66142467 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
66142509 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, 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 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:66144927 original size:30 final size:30
Alignment explanation
Indices: 66144883--66144971 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
66144873 CAAAGATAAC
66144883 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
66144912 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
66144942 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
66144972 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:66144931 original size:15 final size:15
Alignment explanation
Indices: 66144883--66144962 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
66144873 CAAAGATAAC
*
66144883 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
66144897 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
66144912 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
66144927 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
66144942 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
66144957 AAGAAA
1 AAGAAA
66144963 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:66144971 original size:15 final size:15
Alignment explanation
Indices: 66144894--66144971 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
66144884 AGAAAACCGA
66144894 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
66144909 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
66144923 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
66144938 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
66144954 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
66144969 ATA
1 ATA
66144972 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:66154367 original size:15 final size:15
Alignment explanation
Indices: 66154347--66154376 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
66154337 CGGGTTATGG
66154347 CACAGCTGGATTGGT
1 CACAGCTGGATTGGT
66154362 CACAGCTGGATTGGT
1 CACAGCTGGATTGGT
66154377 TCTAATATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.27
Consensus pattern (15 bp):
CACAGCTGGATTGGT
Found at i:66156268 original size:42 final size:43
Alignment explanation
Indices: 66156160--66156334 Score: 135
Period size: 43 Copynumber: 4.0 Consensus size: 43
66156150 AGCTCGTATA
* * * *
66156160 ATGCCAAC-GTCCCAGACGTGGTCATACATGTAATCAAATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
66156203 ATGCCACTGTCCCAAACAGGGTCTTACACGAAATCAAATAT-G
1 ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
66156245 ATGCTGA-TGTCCCAGACATGGTCTTACACGTAATTTC-AA-ATCG
1 ATGC-CACTGTCCCAGACATGGTCTTACACG-AA-ATCAAATATCG
* * * * *
66156288 ATGCCAATGTCTCAAACGTGCTCTTACACGAAAATCACATATATCG
1 ATGCCACTGTCCCAGACATGGTCTTACACG-AAATCA-A-ATATCG
66156334 A
1 A
66156335 AAATCCTATG
Statistics
Matches: 105, Mismatches: 17, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
42 33 0.31
43 63 0.60
44 3 0.03
45 1 0.01
46 5 0.05
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:66156313 original size:85 final size:86
Alignment explanation
Indices: 66156168--66156329 Score: 206
Period size: 85 Copynumber: 1.9 Consensus size: 86
66156158 TAATGCCAAC
* * * *
66156168 GTCCCAGACGTGGTCATACATGTAATCAAATATCGATGCCACTGTCCCAAACAGGGTCTTACACG
1 GTCCCAGACATGGTCATACACGTAATCAAATATCGATGCCAATGTCCCAAACAGGCTCTTACACG
66156233 -AAATCAAATATGATGCTGAT
66 AAAATCAAATATGATGCTGAT
* *
66156253 GTCCCAGACATGGTCTTACACGTAATTTC-AA-ATCGATGCCAATGTCTCAAAC-GTGCTCTTAC
1 GTCCCAGACATGGTCATACACGTAA--TCAAATATCGATGCCAATGTCCCAAACAG-GCTCTTAC
*
66156315 ACGAAAATCACATAT
63 ACGAAAATCAAATAT
66156330 ATCGAAAATC
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
84 1 0.02
85 51 0.77
86 12 0.18
87 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (86 bp):
GTCCCAGACATGGTCATACACGTAATCAAATATCGATGCCAATGTCCCAAACAGGCTCTTACACG
AAAATCAAATATGATGCTGAT
Found at i:66168067 original size:15 final size:15
Alignment explanation
Indices: 66168047--66168076 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
66168037 CGGGTTATGG
66168047 CACAGCTGGATTGGT
1 CACAGCTGGATTGGT
66168062 CACAGCTGGATTGGT
1 CACAGCTGGATTGGT
66168077 TCTAATATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.27
Consensus pattern (15 bp):
CACAGCTGGATTGGT
Found at i:66169969 original size:42 final size:43
Alignment explanation
Indices: 66169861--66170035 Score: 135
Period size: 43 Copynumber: 4.0 Consensus size: 43
66169851 AGCTCGTATA
* * * *
66169861 ATGCCAAC-GTCCCAGACGTGGTCATACATGTAATCAAATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
66169904 ATGCCACTGTCCCAAACAGGGTCTTACACGAAATCAAATAT-G
1 ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
66169946 ATGCTGA-TGTCCCAGACATGGTCTTACACGTAATTTC-AA-ATCG
1 ATGC-CACTGTCCCAGACATGGTCTTACACG-AA-ATCAAATATCG
* * * * *
66169989 ATGCCAATGTCTCAAACGTGCTCTTACACGAAAATCACATATATCG
1 ATGCCACTGTCCCAGACATGGTCTTACACG-AAATCA-A-ATATCG
66170035 A
1 A
66170036 AAATCCTATG
Statistics
Matches: 105, Mismatches: 17, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
42 33 0.31
43 63 0.60
44 3 0.03
45 1 0.01
46 5 0.05
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:66170014 original size:85 final size:86
Alignment explanation
Indices: 66169869--66170030 Score: 206
Period size: 85 Copynumber: 1.9 Consensus size: 86
66169859 TAATGCCAAC
* * * *
66169869 GTCCCAGACGTGGTCATACATGTAATCAAATATCGATGCCACTGTCCCAAACAGGGTCTTACACG
1 GTCCCAGACATGGTCATACACGTAATCAAATATCGATGCCAATGTCCCAAACAGGCTCTTACACG
66169934 -AAATCAAATATGATGCTGAT
66 AAAATCAAATATGATGCTGAT
* *
66169954 GTCCCAGACATGGTCTTACACGTAATTTC-AA-ATCGATGCCAATGTCTCAAAC-GTGCTCTTAC
1 GTCCCAGACATGGTCATACACGTAA--TCAAATATCGATGCCAATGTCCCAAACAG-GCTCTTAC
*
66170016 ACGAAAATCACATAT
63 ACGAAAATCAAATAT
66170031 ATCGAAAATC
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
84 1 0.02
85 51 0.77
86 12 0.18
87 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (86 bp):
GTCCCAGACATGGTCATACACGTAATCAAATATCGATGCCAATGTCCCAAACAGGCTCTTACACG
AAAATCAAATATGATGCTGAT
Found at i:66173680 original size:22 final size:22
Alignment explanation
Indices: 66173610--66173692 Score: 105
Period size: 24 Copynumber: 3.6 Consensus size: 22
66173600 ACCGAATGTT
*
66173610 GCACACATAGTGCTTATTATGT-TC
1 GCACACATAGTGC-CA-TA-GTATC
66173634 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCCATAGT--ATC
66173658 GCACACATAGTGCCATAGTATC
1 GCACACATAGTGCCATAGTATC
66173680 GCACACATAGTGC
1 GCACACATAGTGC
66173693 ATTTGAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
21 2 0.04
22 18 0.33
23 1 0.02
24 34 0.62
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (22 bp):
GCACACATAGTGCCATAGTATC
Found at i:66181500 original size:24 final size:24
Alignment explanation
Indices: 66181473--66181535 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
66181463 CTTATTATGT
66181473 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
66181497 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
66181521 TCGCACACATAGTGC
1 TCGCACACATAGTGC
66181536 ATTTGAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:66191047 original size:19 final size:19
Alignment explanation
Indices: 66191025--66191066 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
66191015 ATTAAATAAT
66191025 TTAATTAATATTATAACAA
1 TTAATTAATATTATAACAA
66191044 TTAATTAATATTATAACAA
1 TTAATTAATATTATAACAA
66191063 TTAA
1 TTAA
66191067 AAGAGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
TTAATTAATATTATAACAA
Found at i:66191464 original size:3 final size:3
Alignment explanation
Indices: 66191456--66191502 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
66191446 ATCTAACTGT
66191456 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
66191503 GGATTAAATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:66194779 original size:17 final size:18
Alignment explanation
Indices: 66194747--66194790 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
66194737 ATTAACAAAG
*
66194747 TAAATAAACATAAAAGAA
1 TAAAGAAACATAAAAGAA
66194765 TAAAGAAAC-TAAAAGAA
1 TAAAGAAACATAAAAGAA
66194782 TAAAAGAAA
1 T-AAAGAAA
66194791 GAAATGAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.73, C:0.05, G:0.09, T:0.14
Consensus pattern (18 bp):
TAAAGAAACATAAAAGAA
Found at i:66195241 original size:17 final size:18
Alignment explanation
Indices: 66195219--66195253 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
66195209 AAATGACTTG
66195219 ATTAGGAT-TAAATTGGA
1 ATTAGGATATAAATTGGA
*
66195236 ATTAGGGTATAAATTGGA
1 ATTAGGATATAAATTGGA
66195254 TAGAAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.40, C:0.00, G:0.26, T:0.34
Consensus pattern (18 bp):
ATTAGGATATAAATTGGA
Found at i:66195957 original size:37 final size:39
Alignment explanation
Indices: 66195886--66195958 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 39
66195876 CTGGGTGTCA
* **
66195886 TACTGTTACTTCGGATAGATTCGATGAGGTACTGGGCAC
1 TACTGTTACTTCGGATAGAGTCGATGAGACACTGGGCAC
*
66195925 TACT-TTACTTCGGCTAG-GTCGATGAGACACTGGG
1 TACTGTTACTTCGGATAGAGTCGATGAGACACTGGG
66195959 TGTCAACTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 14 0.47
38 12 0.40
39 4 0.13
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (39 bp):
TACTGTTACTTCGGATAGAGTCGATGAGACACTGGGCAC
Found at i:66195968 original size:38 final size:39
Alignment explanation
Indices: 66195862--66195974 Score: 104
Period size: 38 Copynumber: 2.9 Consensus size: 39
66195852 CATCGACCTC
* *
66195862 GAGTCTATAAGACACTGGGTGTCATACTGTTACTTCGGATA
1 GAGTCGATGAGACACTGGGTGTCA-ACT-TTACTTCGGATA
* ** ** * *
66195903 GATTCGATGAGGTACTGGG-CACTACTTTACTTCGGCTA
1 GAGTCGATGAGACACTGGGTGTCAACTTTACTTCGGATA
*
66195941 G-GTCGATGAGACACTGGGTGTCAACTTTGCTTCG
1 GAGTCGATGAGACACTGGGTGTCAACTTTACTTCG
66195975 AACTATCCGA
Statistics
Matches: 55, Mismatches: 16, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
37 14 0.25
38 23 0.42
39 3 0.05
40 1 0.02
41 14 0.25
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (39 bp):
GAGTCGATGAGACACTGGGTGTCAACTTTACTTCGGATA
Found at i:66200394 original size:34 final size:34
Alignment explanation
Indices: 66200356--66200552 Score: 250
Period size: 34 Copynumber: 5.7 Consensus size: 34
66200346 TGAAAAAATG
* *
66200356 TGAAACATAGGTATGGTATTTCCATACCCAGCTA
1 TGAAACGTAGGTATGGTATTTCCATACCGAGCTA
* *
66200390 TGAAATGTAGGTATGGTATTTCCATATCGAGCTA
1 TGAAACGTAGGTATGGTATTTCCATACCGAGCTA
* *
66200424 TGATACGTAGGTATGGTATTTCCATACCGAACTA
1 TGAAACGTAGGTATGGTATTTCCATACCGAGCTA
* *
66200458 TGATACGTAGGTATGGTATTTCCATATCGAGCTA
1 TGAAACGTAGGTATGGTATTTCCATACCGAGCTA
* * * *
66200492 TGATACGTAGGTCTGGTATTTTCCATACTGAGTTA
1 TGAAACGTAGGTATGGTA-TTTCCATACCGAGCTA
* *
66200527 TGAAACATAGGTATGGCATTTTCCAT
1 TGAAACGTAGGTATGGTA-TTTCCAT
66200553 GAGGAAAACC
Statistics
Matches: 144, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
34 109 0.76
35 35 0.24
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (34 bp):
TGAAACGTAGGTATGGTATTTCCATACCGAGCTA
Found at i:66200450 original size:68 final size:68
Alignment explanation
Indices: 66200363--66200552 Score: 281
Period size: 68 Copynumber: 2.8 Consensus size: 68
66200353 ATGTGAAACA
* *
66200363 TAGGTATGGTATTTCCATACCCAGCTATGAAATGTAGGTATGGTATTTCCATATCGAGCTATGAT
1 TAGGTATGGTATTTCCATACCGAGCTATGAAACGTAGGTATGGTATTTCCATATCGAGCTATGAT
66200428 ACG
66 ACG
* *
66200431 TAGGTATGGTATTTCCATACCGAACTATGATACGTAGGTATGGTATTTCCATATCGAGCTATGAT
1 TAGGTATGGTATTTCCATACCGAGCTATGAAACGTAGGTATGGTATTTCCATATCGAGCTATGAT
66200496 ACG
66 ACG
* * * * *
66200499 TAGGTCTGGTATTTTCCATACTGAGTTATGAAACATAGGTATGGCATTTTCCAT
1 TAGGTATGGTA-TTTCCATACCGAGCTATGAAACGTAGGTATGGTA-TTTCCAT
66200553 GAGGAAAACC
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
68 74 0.68
69 28 0.26
70 7 0.06
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (68 bp):
TAGGTATGGTATTTCCATACCGAGCTATGAAACGTAGGTATGGTATTTCCATATCGAGCTATGAT
ACG
Found at i:66201364 original size:54 final size:54
Alignment explanation
Indices: 66201300--66201406 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
66201290 ATGAGTATAT
*
66201300 TTTCAAAAGAAACAAACAGGAACATCATTTGAATCCCATATGAAAAGATAATTC
1 TTTCAAAAGAAACAAACAGGAACATCATTCGAATCCCATATGAAAAGATAATTC
66201354 TTTCAAAAGAAACAAACAGGAACATCATTCGAATCCCATATGAAAAGATAATT
1 TTTCAAAAGAAACAAACAGGAACATCATTCGAATCCCATATGAAAAGATAATT
66201407 AATTTTTAGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.49, C:0.17, G:0.11, T:0.23
Consensus pattern (54 bp):
TTTCAAAAGAAACAAACAGGAACATCATTCGAATCCCATATGAAAAGATAATTC
Found at i:66203182 original size:13 final size:13
Alignment explanation
Indices: 66203164--66203192 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
66203154 AATACATGAT
66203164 AATTTATATATAA
1 AATTTATATATAA
66203177 AATTTATATATAA
1 AATTTATATATAA
66203190 AAT
1 AAT
66203193 ACAATGGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AATTTATATATAA
Found at i:66203517 original size:25 final size:24
Alignment explanation
Indices: 66203489--66203542 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 24
66203479 GGGATGTCCT
66203489 ATACTAGGAAAACAATTGTATAGG
1 ATACTAGGAAAACAATTGTATAGG
66203513 AATACTAGGAAAACAATTGTATAGG
1 -ATACTAGGAAAACAATTGTATAGG
66203538 ATACT
1 ATACT
66203543 TTAATAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 5 0.17
25 24 0.83
ACGTcount: A:0.46, C:0.09, G:0.19, T:0.26
Consensus pattern (24 bp):
ATACTAGGAAAACAATTGTATAGG
Found at i:66204242 original size:27 final size:27
Alignment explanation
Indices: 66204167--66204277 Score: 197
Period size: 27 Copynumber: 4.1 Consensus size: 27
66204157 TAAAATATGG
*
66204167 GTGGAGGGTACTCCACAGGCGGCACCA
1 GTGGAGGGTACCCCACAGGCGGCACCA
66204194 GTGGAGGGTA-CCCACAGGCGGCACCA
1 GTGGAGGGTACCCCACAGGCGGCACCA
66204220 GTGGAGGGTACCCCACAGGCGGCACCA
1 GTGGAGGGTACCCCACAGGCGGCACCA
*
66204247 GTGGAGGGTACCCCACAGGCAGCACCA
1 GTGGAGGGTACCCCACAGGCGGCACCA
66204274 GTGG
1 GTGG
66204278 TGCCTTTTTC
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 25 0.31
27 56 0.69
ACGTcount: A:0.23, C:0.31, G:0.38, T:0.09
Consensus pattern (27 bp):
GTGGAGGGTACCCCACAGGCGGCACCA
Found at i:66204247 original size:53 final size:54
Alignment explanation
Indices: 66204167--66204277 Score: 197
Period size: 53 Copynumber: 2.1 Consensus size: 54
66204157 TAAAATATGG
* *
66204167 GTGGAGGGTACTCCACAGGCGGCACCAGTGGAGGGTA-CCCACAGGCGGCACCA
1 GTGGAGGGTACCCCACAGGCGGCACCAGTGGAGGGTACCCCACAGGCAGCACCA
66204220 GTGGAGGGTACCCCACAGGCGGCACCAGTGGAGGGTACCCCACAGGCAGCACCA
1 GTGGAGGGTACCCCACAGGCGGCACCAGTGGAGGGTACCCCACAGGCAGCACCA
66204274 GTGG
1 GTGG
66204278 TGCCTTTTTC
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
53 36 0.65
54 19 0.35
ACGTcount: A:0.23, C:0.31, G:0.38, T:0.09
Consensus pattern (54 bp):
GTGGAGGGTACCCCACAGGCGGCACCAGTGGAGGGTACCCCACAGGCAGCACCA
Found at i:66204396 original size:22 final size:22
Alignment explanation
Indices: 66204371--66204412 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
66204361 TTACAGAAGA
66204371 AGAAGATAGAAAG-AAAGAAAGG
1 AGAAGA-AGAAAGAAAAGAAAGG
66204393 AGAAGAAGAAAGAAAAGAAA
1 AGAAGAAGAAAGAAAAGAAA
66204413 AGGTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (22 bp):
AGAAGAAGAAAGAAAAGAAAGG
Found at i:66211562 original size:284 final size:285
Alignment explanation
Indices: 66210804--66211925 Score: 1507
Period size: 284 Copynumber: 3.9 Consensus size: 285
66210794 TATTTTGGTA
* * * *
66210804 TTTATTTTATTTTCGGATTTTATTTATTAAAATATATTATTTTTGTATTTTA-TTTTTATATTAT
1 TTTATTTTGTTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* * *
66210868 TTTAGTACATAATGTTTCAAATGTATTATTTTTGTATTTTTTTATATTAATTTA-ATAAAAAATT
66 TTTAGTACATAAAGTTTCAAATGTATTATTTTAG--TTTTTTTATATTAATTTAGA-AAAAAACT
* * * * *
66210932 TTGATTTTGACCGTTTGTTTTTTATTTTATTCTT-GGATTTTACTTTTTAAAATAAACTATTTTC
128 CTGATTTTGGCCG-TT-TTTTAT-TTTTATT-TTCGGATTTTATTTTTTAAAATATACTATTTTC
* * *
66210996 ATATTTTATTTTTTATATTATTTTAGTACATAATGTTCCAAATGTATTGTTTTAGTTTTTTTATA
189 GTATTTTATTTTTTATATTATTTTAGTACATAATGTTTC--ATGTATTATTTTAGTTTTTTTATA
* *
66211061 TTAATTTAATAAAAA-CTCTGATTTTGGCCG---
252 TTAATTTAGTAAAAATCTGTGATTTTGGCCGTTT
* *
66211091 TTTA--TT-TTTT---ATTTTATTTTTTTAAATATACTATTTTCGTGTTTTATGTTTTTTATATT
1 TTTATTTTGTTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA--TTTTTTATATT
* * *
66211150 ATTTTAGTACATAATA-TTTAAAATGTATTATTTTAGTTTTTTTATATGAATATAGAAAAAAAAC
64 ATTTTAGTACATAA-AGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAG-AAAAAAAC
66211214 TCTGATTTTGGCC-TTTTTTATTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGT
127 TCTGATTTTGGCCGTTTTTTA-TTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGT
* * *
66211278 ATTTTATTTTTTATATTATTATAGTACATAATGTTTCATTTATTATTTTAGTTTTTTTATATTCA
191 ATTTTATTTTTTATATTATTTTAGTACATAATGTTTCATGTATTATTTTAGTTTTTTTATATTAA
66211343 TTTAGTAAAAATCTGTGATTTTGGCCGTTTT
256 TTTAGTAAAAATCTGTGATTTTGGCCG-TTT
66211374 ATTTATTTTGTTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
1 -TTTATTTTGTTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* *
66211439 TTTTAGTATATAAAGTTTCAAATGTGTTA-TTTA-TTTTTTTATATTAATTTAGAAAAAAACTCT
65 TTTTAGTACATAAAGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACTCT
* *
66211502 GATTTTGGCC-TTTTTTATTTTTATTTTCAGG-TTTTATTTTTTAAGATATATTATTTTCGTATT
130 GATTTTGGCCGTTTTTTATTTTTATTTTC-GGATTTTATTTTTTAAAATATACTATTTTCGTATT
*
66211565 TTGTTTTTTATATTATTTTAGTACATAATGTTTCATGTATTATTTTAGTTTTTTTTATATTAATT
194 TTATTTTTTATATTATTTTAGTACATAATGTTTCATGTATTATTTTAG-TTTTTTTATATTAATT
*
66211630 TAGTAAAAATCTGTGGTTTTGGCC-TTT
258 TAGTAAAAATCTGTGATTTTGGCCGTTT
66211657 TTTATTTTGTTTTCGGATTTT-TTATTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
1 TTTATTTTGTTTTCGGATTTTATT-TTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* * * *
66211721 TTTTAGTACATAATGTTTTAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAATTCT
65 TTTTAGTACATAAAGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACTCT
* * *
66211786 GATTTTGGCCGTTTGTTTTTTATTTTATTTTCGGATTTTATTTTTCAAAATATACTATTTT-TTA
130 GATTTTGGCCG-TT-TTTTAT-TTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTA
* *
66211850 TTTTATTTTTT-TATTATTTTAGTACATAATGTTTCATATGTATTATTTTAGTATATTTATATTA
192 TTTTATTTTTTATATTATTTTAGTACATAATGTTTC--ATGTATTATTTTAGTTTTTTTATATTA
66211914 ATTTAGTAAAAA
255 ATTTAGTAAAAA
66211926 AAACTCTGAT
Statistics
Matches: 750, Mismatches: 52, Indels: 66
0.86 0.06 0.08
Matches are distributed among these distances:
278 35 0.05
279 16 0.02
280 75 0.10
281 36 0.05
282 102 0.14
283 24 0.03
284 175 0.23
285 70 0.09
286 45 0.06
287 55 0.07
288 83 0.11
290 34 0.05
ACGTcount: A:0.27, C:0.05, G:0.08, T:0.59
Consensus pattern (285 bp):
TTTATTTTGTTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
TTTAGTACATAAAGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACTCTG
ATTTTGGCCGTTTTTTATTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTT
ATTTTTTATATTATTTTAGTACATAATGTTTCATGTATTATTTTAGTTTTTTTATATTAATTTAG
TAAAAATCTGTGATTTTGGCCGTTT
Found at i:66211583 original size:141 final size:143
Alignment explanation
Indices: 66210804--66211948 Score: 1451
Period size: 143 Copynumber: 8.0 Consensus size: 143
66210794 TATTTTGGTA
* * *
66210804 TTTA-TTTTATTTTCGGATTTTATTTATTAAAATATATTATTTTTGTATTTTA-TTTTTATATTA
1 TTTATTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* *
66210867 TTTTAGTACATAATGTTTCAAATGTATTATTTTTGTATTTTTTTATATTAATTTA-ATAAAAAAT
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAG--TTTTTTTATATTAATTTAGA-AAAAAAC
* *
66210931 TTTGATTTTGACCGTTTGT
128 TCTGATTTTGGCC--TT-T
* * * *
66210950 TTTTTATTTTATTCTT-GGATTTTACTTTTTAAAATAAACTATTTTCATATTTTATTTTTTATAT
1 TTTAT-TTTTATT-TTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATAT
* * *
66211014 TATTTTAGTACATAATGTTCCAAATGTATTGTTTTAGTTTTTTTATATTAATTTA-ATAAAAACT
64 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACT
*
66211078 CTGATTTTGGCC--G
129 CTGATTTTGGCCTTT
* *
66211091 TTTA---TT-TTTT---ATTTTATTTTTTTAAATATACTATTTTCGTGTTTTATGTTTTTTATAT
1 TTTATTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA--TTTTTTATAT
* * * *
66211149 TATTTTAGTACATAATATTTAAAATGTATTATTTTAGTTTTTTTATATGAATATAGAAAAAAAAC
64 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAG-AAAAAAAC
66211214 TCTGATTTTGGCCTTT
128 TCTGATTTTGGCCTTT
66211230 TTTATTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
1 TTTA-TTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
* * * * * *
66211295 ATTATAGTACATAATGTTTC--ATTTATTATTTTAGTTTTTTTATATTCATTTAGTAAAAATCTG
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACTC
66211358 TGATTTTGGCCGTTT
130 TGATTTTGGCC-TTT
*
66211373 TATT-TATTTTGTTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATAT
1 T-TTAT-TTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATAT
* * *
66211437 TATTTTAGTATATAAAGTTTCAAATGTGTTA-TTTA-TTTTTTTATATTAATTTAGAAAAAAACT
64 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACT
66211500 CTGATTTTGGCCTTT
129 CTGATTTTGGCCTTT
* * *
66211515 TTTATTTTTATTTTCAGG-TTTTATTTTTTAAGATATATTATTTTCGTATTTTGTTTTTTATATT
1 TTTATTTTTATTTTC-GGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
* *
66211579 ATTTTAGTACATAATGTTTC--ATGTATTATTTTAGTTTTTTTTATATTAATTTAGTAAAAATCT
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAG-TTTTTTTATATTAATTTAGAAAAAAACT
* *
66211642 GTGGTTTTGGCCTTT
129 CTGATTTTGGCCTTT
*
66211657 TTTA-TTTTGTTTTCGGATTTT-TTATTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
1 TTTATTTTTATTTTCGGATTTTATT-TTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
* * *
66211720 ATTTTAGTACATAATGTTTTAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAATTC
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACTC
66211785 TGATTTTGGCCGTTTGT
130 TGATTTTGGCC--TT-T
* * *
66211802 TTTTTATTTTATTTTCGGATTTTATTTTTCAAAATATACTATTTT-TTATTTTATTTTTT-TATT
1 TTTAT-TTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
* * *
66211865 ATTTTAGTACATAATGTTTCATATGTATTATTTTAGTATATTTATATTAATTTAGTAAAAAAAAC
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAG--AAAAAAAC
*
66211930 TCTGATTTTGACCTTT
128 TCTGATTTTGGCCTTT
66211946 TTT
1 TTT
66211949 TTATTTTCAA
Statistics
Matches: 877, Mismatches: 82, Indels: 82
0.84 0.08 0.08
Matches are distributed among these distances:
133 31 0.04
135 61 0.07
136 2 0.00
137 22 0.03
139 11 0.01
140 8 0.01
141 143 0.16
142 105 0.12
143 160 0.18
144 16 0.02
145 95 0.11
146 32 0.04
147 105 0.12
148 41 0.05
149 45 0.05
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (143 bp):
TTTATTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACTCT
GATTTTGGCCTTT
Found at i:66211983 original size:14 final size:15
Alignment explanation
Indices: 66211964--66211992 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
66211954 TTCAAATTTC
66211964 TTAAAATATA-TATT
1 TTAAAATATACTATT
66211978 TTAAAATATACTATT
1 TTAAAATATACTATT
66211993 AAGCTATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAAAATATACTATT
Found at i:66212707 original size:27 final size:27
Alignment explanation
Indices: 66212669--66212721 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
66212659 AGGAGTCAGC
66212669 GGTGCCGCCTGTGGGGTACCCTCCACT
1 GGTGCCGCCTGTGGGGTACCCTCCACT
66212696 GGTGCCGCCTGTGGGGTACCCTCCAC
1 GGTGCCGCCTGTGGGGTACCCTCCAC
66212722 CCATATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.08, C:0.38, G:0.34, T:0.21
Consensus pattern (27 bp):
GGTGCCGCCTGTGGGGTACCCTCCACT
Found at i:66213136 original size:20 final size:19
Alignment explanation
Indices: 66213092--66213143 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
66213082 AATATATGTT
66213092 TATTT-AATATATTATAAA
1 TATTTAAATATATTATAAA
* *
66213110 T-TATAAATATATTTTAAA
1 TATTTAAATATATTATAAA
*
66213128 TAATTTAAAAATATTA
1 T-ATTTAAATATATTA
66213144 AATTAAATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 2 0.08
18 14 0.54
20 10 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TATTTAAATATATTATAAA
Found at i:66221909 original size:40 final size:40
Alignment explanation
Indices: 66221850--66222057 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
66221840 CAATTGAATG
* * * *
66221850 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
66221890 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
66221930 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
66221970 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
66222010 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
66222050 ATATCCGG
1 ATATCCGG
66222058 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:66221988 original size:80 final size:80
Alignment explanation
Indices: 66221852--66222057 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
66221842 ATTGAATGAT
* * ** * * *
66221852 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
66221916 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
66221932 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
66221997 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
66222012 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
66222058 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:66227171 original size:23 final size:23
Alignment explanation
Indices: 66227144--66227218 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
66227134 CGAATGGCCA
66227144 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
66227167 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
66227191 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
66227214 ATGTG
1 ATGTG
66227219 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:66227187 original size:47 final size:47
Alignment explanation
Indices: 66227119--66227287 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
66227109 CCTGTATATA
*
66227119 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
66227166 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
**
66227213 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
* * *
66227260 TATATGTGGTAAGGCCGAATGGCTAATG
1 TATGTGTGATAAGGCCGAATGGCCAATG
66227288 CGAAATGTGT
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 116 1.00
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
Found at i:66227327 original size:46 final size:47
Alignment explanation
Indices: 66227261--66227357 Score: 133
Period size: 46 Copynumber: 2.1 Consensus size: 47
66227251 GAACATGTAT
* * *
66227261 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAG-ATAG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGTATAG
* * *
66227307 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGTATAT
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGTATAG
66227354 ATAT
1 ATAT
66227358 ATATATATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
46 37 0.84
47 7 0.16
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (47 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGTATAG
Found at i:66227356 original size:2 final size:2
Alignment explanation
Indices: 66227349--66227389 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
66227339 TATGTATGAG
66227349 TA TA 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 TA TA T
66227390 TGTGGCCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:66229989 original size:40 final size:40
Alignment explanation
Indices: 66229644--66229971 Score: 541
Period size: 40 Copynumber: 8.2 Consensus size: 40
66229634 TTGAGAGTTG
* * * *
66229644 TATAGCCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
66229684 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
66229724 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
* *
66229764 TGTATCCGGACTAAATCCCGAAGAGCATTTGTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
*
66229804 TATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
*
66229844 TGTATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
*
66229884 TGTATCCGGACTAAATCCCGAAGAGCATT-GTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
* *
66229923 TATATCCGGGCTAAATCCCGGAGAGCATTCGTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
*
66229963 TGTATCCGG
1 TATATCCGG
66229972 GTTGGGTCCC
Statistics
Matches: 272, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 36 0.13
40 236 0.87
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
Found at i:66233493 original size:23 final size:23
Alignment explanation
Indices: 66233466--66233540 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
66233456 CGAATGGCCA
66233466 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
66233489 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
66233513 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
66233536 ATGTG
1 ATGTG
66233541 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:66233509 original size:47 final size:47
Alignment explanation
Indices: 66233441--66233609 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
66233431 CCTGTATATA
*
66233441 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
66233488 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
**
66233535 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
* * *
66233582 TATATGTGGTAAGGCCGAATGGCTAATG
1 TATGTGTGATAAGGCCGAATGGCCAATG
66233610 CGAAATGTGT
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 116 1.00
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
Found at i:66233649 original size:46 final size:46
Alignment explanation
Indices: 66233583--66233672 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
66233573 GAACATGTAT
* * *
66233583 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATAG
* *
66233629 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGAT
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGAT
66233673 GTATATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATAG
Found at i:66233681 original size:2 final size:2
Alignment explanation
Indices: 66233674--66233708 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
66233664 GTATGAGATG
66233674 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 T
66233709 TGTGGCCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:66240745 original size:40 final size:40
Alignment explanation
Indices: 66240686--66240892 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
66240676 CAATTGAATG
* * * *
66240686 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * *
66240726 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGA-C
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
66240765 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
66240805 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
66240845 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
66240885 ATATCCGG
1 ATATCCGG
66240893 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
38 2 0.01
39 29 0.21
40 107 0.76
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:66240823 original size:79 final size:80
Alignment explanation
Indices: 66240688--66240892 Score: 236
Period size: 79 Copynumber: 2.6 Consensus size: 80
66240678 ATTGAATGAT
* * ** * * *
66240688 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
66240752 TTGTGCTAGT-G-ACAC
65 TTGTGCAAGTCGTAC-C
* * *
66240767 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
* *
66240832 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGTACC
* *
66240847 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
66240893 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
78 2 0.02
79 60 0.56
80 44 0.41
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGTACC
Found at i:66246440 original size:40 final size:39
Alignment explanation
Indices: 66246383--66246567 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
66246373 ATTAAATGAT
* * *
66246383 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
66246423 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
66246463 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
66246503 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
66246543 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
66246568 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:66246519 original size:80 final size:80
Alignment explanation
Indices: 66246382--66246588 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
66246372 AATTAAATGA
* * ** * *
66246382 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
66246447 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
66246460 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
66246525 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
66246542 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
66246589 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:66246573 original size:40 final size:39
Alignment explanation
Indices: 66246381--66246588 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
66246371 CAATTAAATG
* * ** *
66246381 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
66246421 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
66246461 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
66246501 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
66246541 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
66246581 ATATCCGG
1 ATATCCGG
66246589 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:66251791 original size:40 final size:39
Alignment explanation
Indices: 66251746--66251953 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
66251736 CGGAATACAA
*
66251746 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
66251786 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
66251826 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
66251866 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
66251906 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
66251946 CCGGATAT
1 CCGGATAT
66251954 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:66251886 original size:80 final size:80
Alignment explanation
Indices: 66251746--66251952 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
66251736 CGGAATACAA
* * *
66251746 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
66251810 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
66251826 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
66251890 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
66251906 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
66251953 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:66259802 original size:40 final size:39
Alignment explanation
Indices: 66259707--66259913 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
66259697 CGGAATACAA
* *
66259707 CCGGATATAACCACATGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
* *
66259746 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* *
66259786 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* ** * *
66259826 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATAT-AACACTTGCACAAAT-GCCTTCGGGTCTTAGC
* * * * *
66259866 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
66259906 CCGGATAT
1 CCGGATAT
66259914 CATTCAATTG
Statistics
Matches: 140, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
38 1 0.01
39 28 0.20
40 107 0.76
41 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:66259854 original size:80 final size:80
Alignment explanation
Indices: 66259707--66259912 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
66259697 CGGAATACAA
* * *
66259707 CCGGATATAACCACATGCACGAATGCCTTC-GGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
*
66259771 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * **
66259786 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCAC-AAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAAAT
*
66259849 GGCCTTCGGGTCTTAAC
65 -GCCTTCGGGTATTAAC
** * ** * *
66259866 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
66259913 TCATTCAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
79 30 0.28
80 74 0.70
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:66261734 original size:20 final size:21
Alignment explanation
Indices: 66261695--66261748 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
66261685 GAGTTCAAAA
* *
66261695 AGTTGAAAGTGTTGAAAGCGT
1 AGTTGCAAGAGTTGAAAGCGT
66261716 AGTTGCAAGAGTT-AAAGCGT
1 AGTTGCAAGAGTTGAAAGCGT
66261736 AGTTGCAAGAGTT
1 AGTTGCAAGAGTT
66261749 CCTTGAGGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.28
Consensus pattern (21 bp):
AGTTGCAAGAGTTGAAAGCGT
Found at i:66264582 original size:6 final size:6
Alignment explanation
Indices: 66264571--66264595 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
66264561 TCATCGATGT
66264571 AAAGGA AAAGGA AAAGGA AAAGGA A
1 AAAGGA AAAGGA AAAGGA AAAGGA A
66264596 TGGTTTCGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:66266266 original size:18 final size:18
Alignment explanation
Indices: 66266229--66266267 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
66266219 TTGGAAATCA
*
66266229 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
66266247 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
66266265 AAA
1 AAA
66266268 AATCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:66266354 original size:44 final size:44
Alignment explanation
Indices: 66266290--66266421 Score: 246
Period size: 44 Copynumber: 3.0 Consensus size: 44
66266280 CATCTTTTCC
66266290 CCCAAAATAATACCTGAAAACCCTAGGAGAGAGAGAAGAAACTT
1 CCCAAAATAATACCTGAAAACCCTAGGAGAGAGAGAAGAAACTT
* *
66266334 CCCAAAATAATACCTAAAAACCCTAGGACAGAGAGAAGAAACTT
1 CCCAAAATAATACCTGAAAACCCTAGGAGAGAGAGAAGAAACTT
66266378 CCCAAAATAATACCTGAAAACCCTAGGAGAGAGAGAAGAAACTT
1 CCCAAAATAATACCTGAAAACCCTAGGAGAGAGAGAAGAAACTT
66266422 TCATTGCCAA
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 84 1.00
ACGTcount: A:0.48, C:0.21, G:0.17, T:0.14
Consensus pattern (44 bp):
CCCAAAATAATACCTGAAAACCCTAGGAGAGAGAGAAGAAACTT
Found at i:66270786 original size:40 final size:40
Alignment explanation
Indices: 66270723--66270798 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
66270713 TGATACCTTG
* *
66270723 TGGTATGTAGGGTTGGATGGGTTGATTATATCCCCATACT
1 TGGTATGTAGGGTTGGATAGGTTGATTATACCCCCATACT
* * *
66270763 TGGTGTGTAGGGTTGGGTAGGTTGATTCTACCCCCA
1 TGGTATGTAGGGTTGGATAGGTTGATTATACCCCCA
66270799 CATAGTGTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.17, C:0.14, G:0.33, T:0.36
Consensus pattern (40 bp):
TGGTATGTAGGGTTGGATAGGTTGATTATACCCCCATACT
Found at i:66271608 original size:20 final size:21
Alignment explanation
Indices: 66271579--66271618 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
66271569 AAATTTTGTC
66271579 TGTATATGTC-TGAAATACTA
1 TGTATATGTCATGAAATACTA
*
66271599 TGTATGTGTCATGAAATACT
1 TGTATATGTCATGAAATACT
66271619 TTAGGTAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (21 bp):
TGTATATGTCATGAAATACTA
Found at i:66277272 original size:18 final size:18
Alignment explanation
Indices: 66277247--66277286 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
66277237 ATGGGCCGTC
*
66277247 TGGG-CCACACAGGCCTA
1 TGGGACCACACAGGCATA
66277264 TGGGACCACACAGGCATA
1 TGGGACCACACAGGCATA
66277282 TGGGA
1 TGGGA
66277287 ATCTGAGCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.28, C:0.28, G:0.33, T:0.12
Consensus pattern (18 bp):
TGGGACCACACAGGCATA
Found at i:66277763 original size:40 final size:40
Alignment explanation
Indices: 66277702--66277777 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
66277692 CAGTACCTTG
*
66277702 TGGTGTGTAGGGTTAGATGGGTTGATTATATCCCCATACT
1 TGGTGTGTAGGGTTAGATGGGTCGATTATATCCCCATACT
* * *
66277742 TGGTGTGTAGGGTTGGGTGGGTCGATTCTATCCCCA
1 TGGTGTGTAGGGTTAGATGGGTCGATTATATCCCCA
66277778 CATGGTGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.16, C:0.14, G:0.34, T:0.36
Consensus pattern (40 bp):
TGGTGTGTAGGGTTAGATGGGTCGATTATATCCCCATACT
Found at i:66280884 original size:111 final size:111
Alignment explanation
Indices: 66280745--66280987 Score: 344
Period size: 111 Copynumber: 2.2 Consensus size: 111
66280735 TCGTTTGTAT
* *
66280745 TTGCCACAAAGGCTTTCCTTTACAGAGTTGACACCAAGGCATCCTATCCTTAAGTTGCGCCACGA
1 TTGCCACAAAGACTTTCCTTTACAGAGTTGACACCAAGGCATCCTATCCTTAAGTTACGCCACGA
* * *
66280810 AGGCGTTCCTTTTCAAATATAGCCATGAAAGCTTCCTTTATAGAGA
66 AGGCGTTCCTTTTCAAATATAGCCACGAAAGCTTCATTTACAGAGA
* * * * *
66280856 TTGCCACAAAGACTTT-CTTATCCAGAGTTGACACTAAGGCATCCTATTCTTAGGTTACGCCATG
1 TTGCCACAAAGACTTTCCTT-TACAGAGTTGACACCAAGGCATCCTATCCTTAAGTTACGCCACG
* *
66280920 AAGGCGTTCCTTTTCAAATATAGCCACGAAGGCTTCATTTACGGAGA
65 AAGGCGTTCCTTTTCAAATATAGCCACGAAAGCTTCATTTACAGAGA
**
66280967 TTGCCACAAAGGTTTTCCTTT
1 TTGCCACAAAGACTTTCCTTT
66280988 GACAAAGATC
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
110 3 0.03
111 110 0.95
112 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (111 bp):
TTGCCACAAAGACTTTCCTTTACAGAGTTGACACCAAGGCATCCTATCCTTAAGTTACGCCACGA
AGGCGTTCCTTTTCAAATATAGCCACGAAAGCTTCATTTACAGAGA
Found at i:66281042 original size:28 final size:28
Alignment explanation
Indices: 66281011--66281064 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
66281001 ATAAAGGTTG
*
66281011 TCCTTTCACAGATTTTCCACAAAGGCTA
1 TCCTTTCACAGATTTGCCACAAAGGCTA
* *
66281039 TCCTTTCATAGATTTGCCATAAAGGC
1 TCCTTTCACAGATTTGCCACAAAGGC
66281065 GTTCTTTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (28 bp):
TCCTTTCACAGATTTGCCACAAAGGCTA
Found at i:66281423 original size:48 final size:49
Alignment explanation
Indices: 66281362--66281485 Score: 160
Period size: 48 Copynumber: 2.5 Consensus size: 49
66281352 CCAGTTACAG
* *
66281362 TCTTACATTATATGGTCTTCTTTTCATATGATGTCAT-ACCAATTACGA
1 TCTTACATGATATGGTCTTCTTTCCATATGATGTCATCACCAATTACGA
* *
66281410 TCTTACATGATATGGTCTACTTTCCATATGATGTCATAACCCACCAATTACGG
1 TCTTACATGATATGGTCTTCTTTCCATATGATGTCAT----CACCAATTACGA
*
66281463 TCTTACACGATATGGTCTTCTTT
1 TCTTACATGATATGGTCTTCTTT
66281486 AATGTCATGT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
48 34 0.52
53 31 0.48
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (49 bp):
TCTTACATGATATGGTCTTCTTTCCATATGATGTCATCACCAATTACGA
Found at i:66281475 original size:53 final size:53
Alignment explanation
Indices: 66281329--66281485 Score: 198
Period size: 53 Copynumber: 3.1 Consensus size: 53
66281319 TTTAAAATAT
* * * * *
66281329 TTTCCATATAATGCCATAACCCACCAGTTACAGTCTTACATTATATGGTCTTC
1 TTTCCATATGATGTCATAACCCACCAATTACGGTCTTACATGATATGGTCTTC
* * *
66281382 TTTTCATATGATGTCAT-----ACCAATTACGATCTTACATGATATGGTCTAC
1 TTTCCATATGATGTCATAACCCACCAATTACGGTCTTACATGATATGGTCTTC
*
66281430 TTTCCATATGATGTCATAACCCACCAATTACGGTCTTACACGATATGGTCTTC
1 TTTCCATATGATGTCATAACCCACCAATTACGGTCTTACATGATATGGTCTTC
66281483 TTT
1 TTT
66281486 AATGTCATGT
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
48 42 0.48
53 45 0.52
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (53 bp):
TTTCCATATGATGTCATAACCCACCAATTACGGTCTTACATGATATGGTCTTC
Found at i:66287268 original size:43 final size:43
Alignment explanation
Indices: 66287207--66287370 Score: 145
Period size: 43 Copynumber: 3.9 Consensus size: 43
66287197 ACATGTATCG
*
66287207 CATCCATTATGAACTCGGACCACTCAACGAGCTCGGATGCTCA
1 CATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGCTCA
* * *
66287250 CATCCATAATGAACTCGGACTACTCAACGAGATCAGATGC-CA
1 CATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGCTCA
* * ** * * * *
66287292 CAT-AATCACAAACTTGGACCACTCAACAAGTTCGGATTCTCA
1 CATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGCTCA
** * * *
66287334 CATATATCACT-AACTTGGACCGCTCAACGAGCTCGGA
1 CATCCAT-AATGAACTCGGACCACTCAACGAGCTCGGA
66287371 GTTCTTAATT
Statistics
Matches: 97, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
41 26 0.27
42 10 0.10
43 61 0.63
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.21
Consensus pattern (43 bp):
CATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGCTCA
Found at i:66290920 original size:7 final size:7
Alignment explanation
Indices: 66290904--66290940 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
66290894 GATTTAACTG
66290904 AATT-AA
1 AATTAAA
66290910 AATTAAA
1 AATTAAA
66290917 AATTAAA
1 AATTAAA
66290924 AATTAAA
1 AATTAAA
66290931 AATTAAA
1 AATTAAA
66290938 AAT
1 AAT
66290941 AACTTAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.13
7 26 0.87
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AATTAAA
Found at i:66297032 original size:29 final size:29
Alignment explanation
Indices: 66296987--66297067 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 29
66296977 GCTTGGGAAT
* *
66296987 TGATTCAGGCC-AGATGGACCATATAAATG
1 TGATTTAGGCCTA-ATGGGCCATATAAATG
* *
66297016 TGATTTAGGCCTAATGGGTCATATGAATG
1 TGATTTAGGCCTAATGGGCCATATAAATG
* * *
66297045 AGA-TTGGGTCTAATGGGCCATAT
1 TGATTTAGGCCTAATGGGCCATAT
66297068 GCATGTATGT
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
28 17 0.40
29 25 0.58
30 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (29 bp):
TGATTTAGGCCTAATGGGCCATATAAATG
Found at i:66298398 original size:16 final size:17
Alignment explanation
Indices: 66298368--66298400 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
66298358 TTTAAAAAAG
66298368 GGTTTTCAATGAAAACAA
1 GGTTTTCAA-GAAAACAA
66298386 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
66298401 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.27
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAA
Found at i:66300618 original size:8 final size:8
Alignment explanation
Indices: 66300607--66300641 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
66300597 GTAAATCCCA
66300607 AAATGCCG
1 AAATGCCG
*
66300615 AAATGTCG
1 AAATGCCG
66300623 AAATGCCG
1 AAATGCCG
*
66300631 AAAAGCCG
1 AAATGCCG
66300639 AAA
1 AAA
66300642 GTCTGACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (8 bp):
AAATGCCG
Found at i:66300936 original size:28 final size:29
Alignment explanation
Indices: 66300880--66300944 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 29
66300870 GGCCAGATGA
*
66300880 GCCATATGAATGTGATTTGGGCCTAATGG
1 GCCATATGAATGAGATTTGGGCCTAATGG
*
66300909 GCCATTTGAATGAGA-TTGGGCCTAATGG
1 GCCATATGAATGAGATTTGGGCCTAATGG
66300937 GCCATATG
1 GCCATATG
66300945 TATGTATGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 20 0.61
29 13 0.39
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.29
Consensus pattern (29 bp):
GCCATATGAATGAGATTTGGGCCTAATGG
Found at i:66303955 original size:21 final size:22
Alignment explanation
Indices: 66303906--66303965 Score: 95
Period size: 24 Copynumber: 2.7 Consensus size: 22
66303896 CTTATTATGT
66303906 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAG--AA
66303930 TCGCACACATAGTGCCATAG-A
1 TCGCACACATAGTGCCATAGAA
66303951 TCGCACACATAGTGC
1 TCGCACACATAGTGC
66303966 ATTTGAGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 16 0.44
24 20 0.56
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.20
Consensus pattern (22 bp):
TCGCACACATAGTGCCATAGAA
Found at i:66311738 original size:24 final size:24
Alignment explanation
Indices: 66311711--66311773 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
66311701 CTTATTATGT
66311711 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
66311735 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
66311759 TCGCACACATAGTGC
1 TCGCACACATAGTGC
66311774 ATTTGAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:66319481 original size:30 final size:29
Alignment explanation
Indices: 66319422--66319481 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
66319412 ATTCCCGAGC
*
66319422 TTAGGGGCAAAAGTGTAATTATGCAAAGT
1 TTAGGGGCAAAAGTGTAATTATCCAAAGT
*
66319451 TTAGGGGCAAAAGTGTAATTTTTCCAAAGT
1 TTAGGGGCAAAAGTGTAA-TTATCCAAAGT
66319481 T
1 T
66319482 CGTATTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.32
Consensus pattern (29 bp):
TTAGGGGCAAAAGTGTAATTATCCAAAGT
Found at i:66321272 original size:29 final size:29
Alignment explanation
Indices: 66321233--66321307 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
66321223 GGTTGAGAGA
* *
66321233 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
66321262 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
66321291 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
66321308 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:66329171 original size:28 final size:26
Alignment explanation
Indices: 66329139--66329219 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 26
66329129 AGTGTTCACG
*
66329139 GTTGAGAGAATGGCACTAAGTGTGCGG
1 GTTGA-AGAATGGCACTAAGTGTGCGA
*
66329166 GCTTGAATGCATGGCACTAAGTGTGCGA
1 G-TTGAA-GAATGGCACTAAGTGTGCGA
*
66329194 GTTTAAAGTACATGGCACTAAGTGTG
1 G-TTGAAG-A-ATGGCACTAAGTGTG
66329220 TGTGGTTGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 3 0.07
28 27 0.60
29 15 0.33
ACGTcount: A:0.27, C:0.14, G:0.33, T:0.26
Consensus pattern (26 bp):
GTTGAAGAATGGCACTAAGTGTGCGA
Found at i:66329217 original size:29 final size:28
Alignment explanation
Indices: 66329148--66329219 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
66329138 GGTTGAGAGA
* * *
66329148 ATGGCACTAAGTGTGCGGGCTTGAATGC
1 ATGGCACTAAGTGTGCGAGCTTAAATAC
*
66329176 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGCTTAAA-TAC
66329205 ATGGCACTAAGTGTG
1 ATGGCACTAAGTGTG
66329220 TGTGGTTGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 22 0.56
29 17 0.44
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.26
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTTAAATAC
Found at i:66331082 original size:93 final size:93
Alignment explanation
Indices: 66330923--66331093 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
66330913 GGATGGTTGA
* * *
66330923 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
66330988 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
66331016 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
*
66331081 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
66331094 ACTTAGGGGT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:66331096 original size:46 final size:46
Alignment explanation
Indices: 66330927--66331098 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
66330917 GGTTGAGCAT
* * * * *
66330927 CCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCGAACGC
* *
66330973 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GA-T-GTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCG-AAC---GC
66331018 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCGAACGC
* *
66331066 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
66331099 GGGGTGGGTT
Statistics
Matches: 104, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 2 0.02
45 2 0.02
46 58 0.56
47 28 0.27
48 4 0.04
50 2 0.02
51 4 0.04
52 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCGAACGC
Found at i:66339647 original size:40 final size:40
Alignment explanation
Indices: 66339602--66339769 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
66339592 CGGAATACAA
66339602 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
66339642 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
66339682 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
66339722 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
66339762 CCGGATAT
1 CCGGATAT
66339770 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:66351027 original size:27 final size:28
Alignment explanation
Indices: 66350988--66351150 Score: 139
Period size: 27 Copynumber: 6.0 Consensus size: 28
66350978 GATCGTTAAG
66350988 ACCCTC-GATTTGTAAAATTACTC-AAAT
1 ACCCTCAG-TTTGTAAAATTACTCGAAAT
* *
66351015 ACCCTCAGGTTGTAAAATTA-TCAAAAT
1 ACCCTCAGTTTGTAAAATTACTCGAAAT
* * *
66351042 ACCCCTAAATTT-TGAAATTAC-CGAAAT
1 A-CCCTCAGTTTGTAAAATTACTCGAAAT
*
66351069 ACCCTC-GATTTGTGAAATTAC-CGAAAT
1 ACCCTCAG-TTTGTAAAATTACTCGAAAT
* * *
66351096 ACCCT-TGACTTGTAAAATTACT-AAAAT
1 ACCCTCAG-TTTGTAAAATTACTCGAAAT
66351123 ACCCTCAGTTTGTAAAATTACT-GAAAT
1 ACCCTCAGTTTGTAAAATTACTCGAAAT
66351150 A
1 A
66351151 ACCTTGTAGT
Statistics
Matches: 113, Mismatches: 14, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
26 9 0.08
27 95 0.84
28 9 0.08
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (28 bp):
ACCCTCAGTTTGTAAAATTACTCGAAAT
Found at i:66351141 original size:81 final size:81
Alignment explanation
Indices: 66350988--66351150 Score: 199
Period size: 81 Copynumber: 2.0 Consensus size: 81
66350978 GATCGTTAAG
*
66350988 ACCCTCGATTTGTAAAATTACTCAAATACCCTCAGGTTGTAAAATTATCAAAATACCCCTAAATT
1 ACCCTCGATTTGTAAAATTACTCAAATACCCTCAGCTTGTAAAATTATCAAAATACCCCTAAATT
*
66351053 TTGAAATTACCGAAAT
66 TTAAAATTACCGAAAT
* * *
66351069 ACCCTCGATTTGTGAAATTAC-CGAAATACCCT-TGACTTGTAAAATTA-CTAAAATA-CCCTCA
1 ACCCTCGATTTGTAAAATTACTC-AAATACCCTCAG-CTTGTAAAATTATC-AAAATACCCCTAA
* *
66351130 GTTTGTAAAATTACTGAAAT
63 ATTT-TAAAATTACCGAAAT
66351150 A
1 A
66351151 ACCTTGTAGT
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
80 11 0.15
81 60 0.85
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (81 bp):
ACCCTCGATTTGTAAAATTACTCAAATACCCTCAGCTTGTAAAATTATCAAAATACCCCTAAATT
TTAAAATTACCGAAAT
Found at i:66351149 original size:54 final size:54
Alignment explanation
Indices: 66350988--66351180 Score: 174
Period size: 54 Copynumber: 3.6 Consensus size: 54
66350978 GATCGTTAAG
* * * * *
66350988 ACCCTCGATTTGTAAAATTACTCAAATACCCTCAGGTTGTAAAATTA-TCAAAAT
1 ACCCTTGAATTGTAAAATTACTAAAATACCCTCAGTTTGTAAAATTACT-GAAAT
* * * * ** * *
66351042 ACCCCTAAATTTTGAAATTACCGAAATACCCTC-GATTTGTGAAATTACCGAAAT
1 ACCCTTGAATTGTAAAATTACTAAAATACCCTCAG-TTTGTAAAATTACTGAAAT
*
66351096 ACCCTTGACTTGTAAAATTACTAAAATACCCTCAGTTTGTAAAATTACTGAAAT
1 ACCCTTGAATTGTAAAATTACTAAAATACCCTCAGTTTGTAAAATTACTGAAAT
* * * * * *
66351150 AACCTTGTAGTGTAAAAGTATTGAAATACCC
1 ACCCTTGAATTGTAAAATTACTAAAATACCC
66351181 CTGTAGGGTA
Statistics
Matches: 108, Mismatches: 28, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
53 1 0.01
54 106 0.98
55 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (54 bp):
ACCCTTGAATTGTAAAATTACTAAAATACCCTCAGTTTGTAAAATTACTGAAAT
Found at i:66351163 original size:27 final size:27
Alignment explanation
Indices: 66351056--66351194 Score: 104
Period size: 27 Copynumber: 5.1 Consensus size: 27
66351046 CTAAATTTTG
* * * *
66351056 AAATTACCGAAATACCCTCG-ATTTGTG
1 AAATTACTGAAATACCCTTGTA-GTGTA
* *
66351083 AAATTACCGAAATACCCTTG-ACTTGTA
1 AAATTACTGAAATACCCTTGTA-GTGTA
* * *
66351110 AAATTACTAAAATACCCTCAGT-TTGTA
1 AAATTACTGAAATACCCT-TGTAGTGTA
*
66351137 AAATTACTGAAATAACCTTGTAGTGTA
1 AAATTACTGAAATACCCTTGTAGTGTA
* * * *
66351164 AAAGTATTGAAATACCCCTGTAGGGTA
1 AAATTACTGAAATACCCTTGTAGTGTA
66351191 AAAT
1 AAAT
66351195 GACTATTTTG
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
26 2 0.02
27 90 0.97
28 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTTGTAGTGTA
Found at i:66352924 original size:54 final size:53
Alignment explanation
Indices: 66352858--66353029 Score: 209
Period size: 54 Copynumber: 3.2 Consensus size: 53
66352848 GGGGCAAAAT
* * * *
66352858 GGTAATTTTACCCCACAAGGGTATATCGGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC-ATAATTTTACCCTACAGGGGTATTTC
* * * *
66352912 AGTATTTCTACCCTACAAGGGTATTTTCATAATTTTATCGTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTA-TTTCATAATTTTACCCTACAGGGGTATTTC
* * * *
66352966 GGTAATTCTACCTTACAGGGGTATTTCAATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC-ATAATTTTACCCTACAGGGGTATTTC
66353020 GGTAATTCTA
1 GGTAATTCTA
66353030 AAACTTATCC
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
53 4 0.04
54 94 0.93
55 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (53 bp):
GGTAATTCTACCCTACAAGGGTATTTCATAATTTTACCCTACAGGGGTATTTC
Found at i:66353026 original size:81 final size:82
Alignment explanation
Indices: 66352858--66353026 Score: 216
Period size: 81 Copynumber: 2.1 Consensus size: 82
66352848 GGGGCAAAAT
* * *
66352858 GGTAATTTTACCCCACAAGGGTATATCGGTAATTTTACCCTACAGGGGTATTTCAGTATTTCTAC
1 GGTAATTTTACCCCACAAGGGTATATCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTAC
66352923 CCTACAAGGGTATTTTC
66 CCTACAAGGGTATTTTC
* * ** * * *
66352940 -ATAATTTTATCGTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAATAATTCTAC
1 GGTAATTTTACCCCACAAGGGTATATCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTAC
* *
66353004 CTTACAGGGGTA-TTTC
66 CCTACAAGGGTATTTTC
66353020 GGTAATT
1 GGTAATT
66353027 CTAAAACTTA
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
80 4 0.05
81 69 0.95
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (82 bp):
GGTAATTTTACCCCACAAGGGTATATCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTAC
CCTACAAGGGTATTTTC
Found at i:66353027 original size:27 final size:27
Alignment explanation
Indices: 66352858--66353029 Score: 184
Period size: 27 Copynumber: 6.4 Consensus size: 27
66352848 GGGGCAAAAT
* * * *
66352858 GGTAATTTTACCCCACAAGGGTATATC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
66352885 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
66352912 AGTATTTCTACCCTACAAGGGTATTTTC
1 GGTAATTCTACCCTACAGGGGTA-TTTC
* * * *
66352940 -ATAATTTTATCGTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
66352966 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
66352993 AATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
66353020 GGTAATTCTA
1 GGTAATTCTA
66353030 AAACTTATCC
Statistics
Matches: 122, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.03
27 114 0.93
28 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:66354587 original size:326 final size:326
Alignment explanation
Indices: 66353994--66354642 Score: 1181
Period size: 326 Copynumber: 2.0 Consensus size: 326
66353984 ATTATGGATC
* *
66353994 CAGTATTGGTCTGTTAAGGTCGCAAGGGTCGCATGAGATAACTGTGGACCGATGGACGGCTTAGT
1 CAGTATTGGTCTGTTAAGGTCGCAAGGGTCGCACGAGACAACTGTGGACCGATGGACGGCTTAGT
* *
66354059 GCCGCTTAATCTGATTATGGCTCTGTGCCAACCTAAATATGGCTCTGTGCCATCTTGACTACGGC
66 GCCGCTTAATCTGATTATGGCTCTATGCCAACCTAAAAATGGCTCTGTGCCATCTTGACTACGGC
*
66354124 CTTGTGCCAAACATATTTACCCGTGGCTATGTGCCTAACATACTTATTGATGACTCTACGTTGAT
131 CTTGTGCCAAACATATTTACCCGTGGCCATGTGCCTAACATACTTATTGATGACTCTACGTTGAT
*
66354189 CATATTTACCCAAGGCCATTTTCGATTATATTACCGTCGCTGATGGTTATGTGCCAAACATAATA
196 CATATTTACCCAAGGCCATTTTCGATTATATTACCGTCGCTGATGGTTATGCGCCAAACATAATA
*
66354254 TAGTTACTGATGGCTTTGTGTCAATTATAATACTGCTACTGAAGGCTTAGAGCTGCATATATAAA
261 TAGTTACTGATGGCTTTGTGTCAATTATAATACCGCTACTGAAGGCTTAGAGCTGCATATATAAA
66354319 A
326 A
* *
66354320 CAGTATTGGTCTGTTAAGGTCGCACGGGTCGCACGAGACAACTGTGGACTGATGGACGGCTTAGT
1 CAGTATTGGTCTGTTAAGGTCGCAAGGGTCGCACGAGACAACTGTGGACCGATGGACGGCTTAGT
*
66354385 GCCGCTTAATCTGATTATGGCTCTATGCCAACCTAAAAATGGCTCTGTGCCATCTTGACTATGGC
66 GCCGCTTAATCTGATTATGGCTCTATGCCAACCTAAAAATGGCTCTGTGCCATCTTGACTACGGC
* *
66354450 CTTGTGCCAAACGTATTTACCCGTGGCCATGTGCCTAACATACTTATTGATGACTCTATGTTGAT
131 CTTGTGCCAAACATATTTACCCGTGGCCATGTGCCTAACATACTTATTGATGACTCTACGTTGAT
*
66354515 CATATTTACCCAAGGCTATTTTCGATTATATTACCGTCGCTGATGGTTATGCGCCAAACATAATA
196 CATATTTACCCAAGGCCATTTTCGATTATATTACCGTCGCTGATGGTTATGCGCCAAACATAATA
66354580 TAGTTACTGATGGCTTTGTGTCAATTATAATACCGCTACTGAAGGCTTAGAGCTGCATATATA
261 TAGTTACTGATGGCTTTGTGTCAATTATAATACCGCTACTGAAGGCTTAGAGCTGCATATATA
66354643 CTAGTAGCTT
Statistics
Matches: 310, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
326 310 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (326 bp):
CAGTATTGGTCTGTTAAGGTCGCAAGGGTCGCACGAGACAACTGTGGACCGATGGACGGCTTAGT
GCCGCTTAATCTGATTATGGCTCTATGCCAACCTAAAAATGGCTCTGTGCCATCTTGACTACGGC
CTTGTGCCAAACATATTTACCCGTGGCCATGTGCCTAACATACTTATTGATGACTCTACGTTGAT
CATATTTACCCAAGGCCATTTTCGATTATATTACCGTCGCTGATGGTTATGCGCCAAACATAATA
TAGTTACTGATGGCTTTGTGTCAATTATAATACCGCTACTGAAGGCTTAGAGCTGCATATATAAA
A
Found at i:66358841 original size:22 final size:22
Alignment explanation
Indices: 66358813--66358856 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
66358803 ACACACCCAT
66358813 GTGAACAAGCCATGTACTTCAC
1 GTGAACAAGCCATGTACTTCAC
66358835 GTGAACAAGCCATGTACTTCAC
1 GTGAACAAGCCATGTACTTCAC
66358857 ACGGCTTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (22 bp):
GTGAACAAGCCATGTACTTCAC
Found at i:66371593 original size:46 final size:46
Alignment explanation
Indices: 66371543--66371639 Score: 144
Period size: 46 Copynumber: 2.1 Consensus size: 46
66371533 TGTTAGATAT
66371543 AAAAAAAATGA-GTAAATCAGATATAGGGACTCAAGTGAATAAAATG
1 AAAAAAAAT-ACGTAAATCAGATATAGGGACTCAAGTGAATAAAATG
* *
66371589 -AAAAATATACTTTAAATCAGATATAGGGACTCAAGTGAATAAAATG
1 AAAAAAAATAC-GTAAATCAGATATAGGGACTCAAGTGAATAAAATG
66371635 AAAAA
1 AAAAA
66371640 TATACTTGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
44 1 0.02
45 7 0.15
46 34 0.74
47 4 0.09
ACGTcount: A:0.55, C:0.07, G:0.16, T:0.22
Consensus pattern (46 bp):
AAAAAAAATACGTAAATCAGATATAGGGACTCAAGTGAATAAAATG
Found at i:66371640 original size:46 final size:46
Alignment explanation
Indices: 66371555--66371646 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
66371545 AAAAAATGAG
66371555 TAAATCAGATATAGGGACTCAAGTGAATAAAATGAAAAATATACTT
1 TAAATCAGATATAGGGACTCAAGTGAATAAAATGAAAAATATACTT
66371601 TAAATCAGATATAGGGACTCAAGTGAATAAAATGAAAAATATACTT
1 TAAATCAGATATAGGGACTCAAGTGAATAAAATGAAAAATATACTT
66371647 GATTATGCGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (46 bp):
TAAATCAGATATAGGGACTCAAGTGAATAAAATGAAAAATATACTT
Found at i:66379106 original size:39 final size:39
Alignment explanation
Indices: 66379009--66379121 Score: 113
Period size: 39 Copynumber: 2.9 Consensus size: 39
66378999 ATTATCTTAA
* * * *
66379009 GTTATGTGATTAAACTG-GTATTGTGATATATGTTTGAAT
1 GTTATGTGATTATA-TGAGTATTGAGATATATGCTTAAAT
* * *
66379048 GTTACGTGATTATACGAGTATTGAGATTTATGCTTAAAT
1 GTTATGTGATTATATGAGTATTGAGATATATGCTTAAAT
* *
66379087 GTTATGTGATTATTTGAGTACT-ATGATATATGCTT
1 GTTATGTGATTATATGAGTATTGA-GATATATGCTT
66379122 GTATGTTAGG
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
38 2 0.03
39 58 0.97
ACGTcount: A:0.28, C:0.05, G:0.21, T:0.45
Consensus pattern (39 bp):
GTTATGTGATTATATGAGTATTGAGATATATGCTTAAAT
Found at i:66383372 original size:29 final size:29
Alignment explanation
Indices: 66383333--66383412 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
66383323 CTTAATAATC
*
66383333 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
66383363 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
66383392 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
66383413 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:66391270 original size:29 final size:29
Alignment explanation
Indices: 66391231--66391310 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
66391221 CTTAATAATC
*
66391231 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
66391261 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
66391290 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
66391311 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:66394780 original size:16 final size:16
Alignment explanation
Indices: 66394759--66394800 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
66394749 GTAGATCGCT
66394759 AAAAGCCGAAATGCCA
1 AAAAGCCGAAATGCCA
* *
66394775 AAAAGCCAAAATGTCA
1 AAAAGCCGAAATGCCA
66394791 AAAAG-CGAAA
1 AAAAGCCGAAA
66394801 GTTTGGCTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.57, C:0.19, G:0.17, T:0.07
Consensus pattern (16 bp):
AAAAGCCGAAATGCCA
Found at i:66395080 original size:28 final size:28
Alignment explanation
Indices: 66395023--66395099 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
66395013 TAAATGTGAT
* * * *
66395023 TTGGGCCTAATGGGCCACATAATTGTGA
1 TTGGGCCTAGTGGGCCATATAATAGAGA
66395051 TTGGGCCTAGTGGGCCATATGAA-AGAGA
1 TTGGGCCTAGTGGGCCATAT-AATAGAGA
*
66395079 TTAGGCCTAGTGGGCCATATA
1 TTGGGCCTAGTGGGCCATATA
66395100 CAGGTATGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.02
28 40 0.93
29 2 0.05
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (28 bp):
TTGGGCCTAGTGGGCCATATAATAGAGA
Found at i:66399037 original size:48 final size:48
Alignment explanation
Indices: 66398945--66399037 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
66398935 TCATTAGGGA
* * * **
66398945 ATACATTGATTTGGCTTCGGGCCATGATATTGGCACTTTGGGTGCAAG
1 ATACACTGAGTTGGCTTCGAGCCATGATATTGGCACTTAAGGTGCAAG
*
66398993 ATACACTGAGTTGGCTTCGAGCCATGATCTTGGCACTTAAGGTGC
1 ATACACTGAGTTGGCTTCGAGCCATGATATTGGCACTTAAGGTGC
66399038 GAGACTCTCG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (48 bp):
ATACACTGAGTTGGCTTCGAGCCATGATATTGGCACTTAAGGTGCAAG
Found at i:66407607 original size:21 final size:21
Alignment explanation
Indices: 66407583--66407624 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
66407573 TGTAAACTTC
66407583 AGTAATGCTCCGTAACCCTAT
1 AGTAATGCTCCGTAACCCTAT
66407604 AGTAATGCTCCGTAACCCTAT
1 AGTAATGCTCCGTAACCCTAT
66407625 TCCAGCGACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (21 bp):
AGTAATGCTCCGTAACCCTAT
Found at i:66410261 original size:39 final size:39
Alignment explanation
Indices: 66410212--66410321 Score: 118
Period size: 39 Copynumber: 2.8 Consensus size: 39
66410202 TAAACCCGGT
* *
66410212 ATAATACCAGCTA-GAAGCCTGCAGGA-CTTTAGCCCGGAC
1 ATAATTCCAGC-ACGAAGCCTGC-GGACCTTAAGCCCGGAC
* * * *
66410251 ATATTTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGAT
1 ATAATTCCAGCACGAAGCCTGCGGACCTTAAGCCCGGAC
66410290 ATAATTCCAGCAC-ATAGCCTGCGGACCTTAAG
1 ATAATTCCAGCACGA-AGCCTGCGGACCTTAAG
66410322 TCCTGATATA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
38 4 0.07
39 56 0.93
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (39 bp):
ATAATTCCAGCACGAAGCCTGCGGACCTTAAGCCCGGAC
Found at i:66410322 original size:39 final size:39
Alignment explanation
Indices: 66410227--66410331 Score: 140
Period size: 39 Copynumber: 2.7 Consensus size: 39
66410217 ACCAGCTAGA
* * * * *
66410227 AGCCTGCAGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGC-GGACCTTAAGTCCGGATATAATTCCAGCACAT
66410266 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
66410305 AGCCTGCGGACCTTAAGTCCTGATATA
1 AGCCTGCGGACCTTAAGTCCGGATATA
66410332 CATCACTGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 3 0.05
39 56 0.95
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
Found at i:66416471 original size:46 final size:46
Alignment explanation
Indices: 66416421--66416596 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
66416411 TGGTTGAGCA
*
66416421 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
66416467 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
66416514 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
66416560 -CCTGAGCTCGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66416597 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
45 2 0.02
46 68 0.65
47 35 0.33
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:66416577 original size:93 final size:93
Alignment explanation
Indices: 66416418--66416589 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
66416408 GGATGGTTGA
*
66416418 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
*
66416483 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCAAGTTCGAGAGATGTAACTAG
* * *
66416511 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTGAG
66416575 TTGAGTCCAAGTTCG
65 TTGAGTCCAAGTTCG
66416590 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCAAGTTCGAGAGATGTAACTAG
Found at i:66432570 original size:24 final size:24
Alignment explanation
Indices: 66432519--66432779 Score: 397
Period size: 24 Copynumber: 11.0 Consensus size: 24
66432509 GCTGTATCAT
*
66432519 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
66432544 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
66432568 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
66432591 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
66432615 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
66432638 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
66432662 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
66432686 ATAACTGGGGCATAAG-CCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
66432709 ATAACTGGGGCATAAGCCCTTTTTG
1 ATAACTGGGGCATAAGCCC-TTTTA
*
66432734 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
66432757 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
66432780 GCACTTCCTC
Statistics
Matches: 219, Mismatches: 11, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
23 88 0.40
24 97 0.44
25 34 0.16
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Done.