Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 164 of 290
Found at i:56123769 original size:15 final size:15
Alignment explanation
Indices: 56123713--56123792 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
56123703 CAAAGATAAC
*
56123713 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
56123727 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
56123742 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
56123757 AATAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
56123772 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
56123787 AAGAAA
1 AAGAAA
56123793 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:56123801 original size:15 final size:15
Alignment explanation
Indices: 56123724--56123801 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
56123714 AGAAAACCGA
56123724 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
56123739 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
*
56123753 AATAAATAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
56123768 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
56123784 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
56123799 ATA
1 ATA
56123802 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 4 0.08
15 43 0.86
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:56135507 original size:46 final size:46
Alignment explanation
Indices: 56135457--56135632 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
56135447 TGGTTGAGCA
56135457 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56135503 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
56135548 CATCCGAACTCTTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56135596 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56135633 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56135577 original size:93 final size:93
Alignment explanation
Indices: 56135454--56135625 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
56135444 GGATGGTTGA
* *
56135454 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56135519 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
56135547 GCATCCGAACTCTTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56135612 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
56135626 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56139627 original size:40 final size:40
Alignment explanation
Indices: 56139572--56139924 Score: 391
Period size: 40 Copynumber: 8.8 Consensus size: 40
56139562 TGATTATTGA
* * *
56139572 TGATTGCACATACGTGCCCTTATTTGTACTTTGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
** *
56139612 TGATTGCACATACGTGCATCTGTTTGTACTTCGATACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
*
56139652 TGATTGAACATACGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
56139692 TGATTTCATATACTTGCCCCTATTTGTACTTCGGTACCAC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *** * * **
56139732 TGATTTCACATGTATGCCCCTGTTTTTACTTTGGTACTGC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
56139772 TGATTGCACATACGTGCCCTTCTTTGTACTTCGGTACCAC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
56139812 TAATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * **
56139852 TGATTGCACATATGTGCCCCTATTTTGTATTTTAGTACCCCC
1 TGATTGCACATACGTGCCCCT-GTTTGTACTTCGGTA-CCCC
* * *
56139894 TGGTTGCACATAAGTGCCCTTGTTTGTACTT
1 TGATTGCACATACGTGCCCCTGTTTGTACTT
56139925 TGATACCTTT
Statistics
Matches: 259, Mismatches: 52, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
40 218 0.84
41 19 0.07
42 22 0.08
ACGTcount: A:0.18, C:0.27, G:0.17, T:0.38
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:56139673 original size:20 final size:20
Alignment explanation
Indices: 56139608--56139673 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
56139598 TACTTTGGTA
*
56139608 CCCCTGATTGCACATACGTG
1 CCCCTGATTGAACATACGTG
** * * * *
56139628 CATCTGTTTGTAC-TTCGATA
1 CCCCTGATTGAACATACG-TG
56139648 CCCCTGATTGAACATACGTG
1 CCCCTGATTGAACATACGTG
56139668 CCCCTG
1 CCCCTG
56139674 TTTGTACTTC
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.20, C:0.32, G:0.18, T:0.30
Consensus pattern (20 bp):
CCCCTGATTGAACATACGTG
Found at i:56139691 original size:20 final size:20
Alignment explanation
Indices: 56139631--56139693 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
56139621 ATACGTGCAT
*
56139631 CTGTTTGTACTTCGATACCC
1 CTGTTTGTACTTCGGTACCC
* * * *
56139651 CTGATTGAACATAC-GTGCCC
1 CTGTTTGTAC-TTCGGTACCC
56139671 CTGTTTGTACTTCGGTACCC
1 CTGTTTGTACTTCGGTACCC
56139691 CTG
1 CTG
56139694 ATTTCATATA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.16, C:0.30, G:0.19, T:0.35
Consensus pattern (20 bp):
CTGTTTGTACTTCGGTACCC
Found at i:56146818 original size:29 final size:29
Alignment explanation
Indices: 56146690--56146815 Score: 119
Period size: 29 Copynumber: 4.4 Consensus size: 29
56146680 GGCCCACTTC
* * *
56146690 GCCC-AATCTCATTTATATGGCCCGTCAA
1 GCCCAAATCACATTTATATGGCCCATCAG
* * *
56146718 GCCCAATTCACATTCATATGGCCTATCAG
1 GCCCAAATCACATTTATATGGCCCATCAG
* * *
56146747 GCCCAAATTACATTCATATGGCCTATCAG
1 GCCCAAATCACATTTATATGGCCCATCAG
* * * * *
56146776 GCCTAAATAACCTTTATATGGCCCCTTAG
1 GCCCAAATCACATTTATATGGCCCATCAG
56146805 GCCCAAATCAC
1 GCCCAAATCAC
56146816 CTTATATACA
Statistics
Matches: 80, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
28 4 0.05
29 76 0.95
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (29 bp):
GCCCAAATCACATTTATATGGCCCATCAG
Found at i:56147059 original size:16 final size:16
Alignment explanation
Indices: 56147038--56147075 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
56147028 CAAACTTTCA
56147038 GCTTTTCGGCATTTTG
1 GCTTTTCGGCATTTTG
*
56147054 GCTTTTTGGCATTTTG
1 GCTTTTCGGCATTTTG
56147070 GCTTTT
1 GCTTTT
56147076 GCCGATCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.05, C:0.16, G:0.24, T:0.55
Consensus pattern (16 bp):
GCTTTTCGGCATTTTG
Found at i:56166192 original size:46 final size:46
Alignment explanation
Indices: 56166125--56167082 Score: 1753
Period size: 46 Copynumber: 20.8 Consensus size: 46
56166115 TGTAACCCGC
* * * *
56166125 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * *
56166171 CCATAAGTGAAATCAGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
56166221 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56166264 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56166310 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56166356 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56166402 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56166448 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56166494 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56166540 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56166586 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56166632 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56166678 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56166724 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56166770 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56166816 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56166862 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56166908 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56166954 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56167000 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56167046 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56167083 TGCTCAACCA
Statistics
Matches: 887, Mismatches: 16, Indels: 18
0.96 0.02 0.02
Matches are distributed among these distances:
42 2 0.00
43 4 0.00
44 2 0.00
45 2 0.00
46 842 0.95
47 26 0.03
48 2 0.00
49 2 0.00
50 3 0.00
51 2 0.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:56171472 original size:93 final size:93
Alignment explanation
Indices: 56171313--56171670 Score: 662
Period size: 93 Copynumber: 3.8 Consensus size: 93
56171303 GCCCATAAGT
* * * * * *
56171313 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
56171378 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
56171406 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
56171471 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
56171499 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
56171564 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
56171592 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
56171657 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
56171671 CAAATATCCC
Statistics
Matches: 259, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 259 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:56171666 original size:46 final size:46
Alignment explanation
Indices: 56171305--56171666 Score: 391
Period size: 46 Copynumber: 7.8 Consensus size: 46
56171295 TGTAACCCGC
* * * * *
56171305 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
56171351 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
56171401 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
56171444 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
56171494 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
56171537 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
56171587 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
56171630 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56171667 TGCCCAAATA
Statistics
Matches: 265, Mismatches: 30, Indels: 42
0.79 0.09 0.12
Matches are distributed among these distances:
43 18 0.07
44 6 0.02
45 6 0.02
46 121 0.46
47 87 0.33
48 6 0.02
49 6 0.02
50 15 0.06
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:56178106 original size:30 final size:30
Alignment explanation
Indices: 56178072--56178132 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
56178062 TCCTTAACTC
56178072 AAACTTTTGCAAAATTACAATCTTGCCCCT
1 AAACTTTTGCAAAATTACAATCTTGCCCCT
* * * *
56178102 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATCTTGCCCCT
56178132 A
1 A
56178133 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATCTTGCCCCT
Found at i:56180211 original size:5 final size:5
Alignment explanation
Indices: 56180201--56180225 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
56180191 AATCAAACAC
56180201 GCAAT GCAAT GCAAT GCAAT GCAAT
1 GCAAT GCAAT GCAAT GCAAT GCAAT
56180226 CCCATCCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
GCAAT
Found at i:56183181 original size:40 final size:40
Alignment explanation
Indices: 56183104--56183246 Score: 116
Period size: 40 Copynumber: 3.6 Consensus size: 40
56183094 AAAACCACAC
* *
56183104 CAGTTTGGCACGCAGTGCCTCATCGGATAATTCGAAGTAA
1 CAGTTTGACACCCAGTGCCTCATCGGATAATTCGAAGTAA
*
56183144 CAGTTTGACACCCAGTGTCTCATCGGCCAT-ATT-GAAGT-A
1 CAGTTTGACACCCAGTGCCTCATCGG--ATAATTCGAAGTAA
** * * * *
56183183 -A-TTTGGTACCTAGTACCTCATCGAATTTATTCGAAGTAA
1 CAGTTTGACACCCAGTGCCTCATCGGA-TAATTCGAAGTAA
* * *
56183222 CAATTCGACACCCAGTGTCTCATCG
1 CAGTTTGACACCCAGTGCCTCATCG
56183247 ACTCGAGGTC
Statistics
Matches: 80, Mismatches: 15, Indels: 15
0.73 0.14 0.14
Matches are distributed among these distances:
35 1 0.01
36 1 0.01
37 20 0.25
38 6 0.08
39 2 0.03
40 29 0.36
41 19 0.24
42 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (40 bp):
CAGTTTGACACCCAGTGCCTCATCGGATAATTCGAAGTAA
Found at i:56187687 original size:22 final size:24
Alignment explanation
Indices: 56187657--56187705 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
56187647 CGACCCATGC
** *
56187657 AAACACAAAGCAAACCA-AGAAAT
1 AAACACAAAAAAAACCATAAAAAT
56187680 AAAC-CAAAAAAAACCATAAAAAT
1 AAACACAAAAAAAACCATAAAAAT
56187703 AAA
1 AAA
56187706 ATAAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.71, C:0.18, G:0.04, T:0.06
Consensus pattern (24 bp):
AAACACAAAAAAAACCATAAAAAT
Found at i:56190411 original size:38 final size:38
Alignment explanation
Indices: 56190369--56190444 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
56190359 TTCATCCTTT
*
56190369 TTCATTTCTTTTGGCCGAAAATTCTAAAGAAGGAGGAA
1 TTCATTTCTTTTAGCCGAAAATTCTAAAGAAGGAGGAA
*
56190407 TTCATTTCTTTTAGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTAGCCGAAAATTCTAAAGAAGGAGGAA
56190445 GGAGTTCTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTAGCCGAAAATTCTAAAGAAGGAGGAA
Found at i:56190874 original size:40 final size:40
Alignment explanation
Indices: 56190806--56190940 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 40
56190796 GATATCCGAG
* *
56190806 CTAAGTCCCGAA-GCTTTTGTGCTAAGCGACTACATTCGGA
1 CTAAGTCCCGAAGGCATTTGTGCT-AGCGACTACATCCGGA
* *
56190846 CTAAGAT-CCGAAGGCATTTGTGCTAGCGACTATATCCGGG
1 CTAAG-TCCCGAAGGCATTTGTGCTAGCGACTACATCCGGA
* * * * *
56190886 CTAAGTCCCGAAGGCATTTATGCTAGTGACCATATCCGGG
1 CTAAGTCCCGAAGGCATTTGTGCTAGCGACTACATCCGGA
* *
56190926 TTAAGACCCGAAGGC
1 CTAAGTCCCGAAGGC
56190941 CTTGTGCGAG
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 71 0.86
41 11 0.13
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.24
Consensus pattern (40 bp):
CTAAGTCCCGAAGGCATTTGTGCTAGCGACTACATCCGGA
Found at i:56197642 original size:38 final size:38
Alignment explanation
Indices: 56197599--56197674 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
56197589 TTCATCCTTT
*
56197599 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTAGCCGAAAATTCTAAGGAAGGAGGAA
56197637 TTCATTTCTTTTAGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTAGCCGAAAATTCTAAGGAAGGAGGAA
56197675 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTAGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:56198121 original size:40 final size:40
Alignment explanation
Indices: 56198027--56198171 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
56198017 TACTCGAATG
*
56198027 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
56198068 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
56198108 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
56198148 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
56198172 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:56203871 original size:31 final size:31
Alignment explanation
Indices: 56203829--56203890 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
56203819 AACAGATAAG
* *
56203829 GGAAAGGGCCCCATAGACAAAGTTGAGGAAA
1 GGAAAGAGCCCCATAGACAAAGTCGAGGAAA
*
56203860 GGAAAGAGCCCCATGGACAAAGTCGAGGAAA
1 GGAAAGAGCCCCATAGACAAAGTCGAGGAAA
56203891 CTAATGAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.18, G:0.32, T:0.08
Consensus pattern (31 bp):
GGAAAGAGCCCCATAGACAAAGTCGAGGAAA
Found at i:56211808 original size:44 final size:44
Alignment explanation
Indices: 56211734--56212301 Score: 724
Period size: 44 Copynumber: 12.9 Consensus size: 44
56211724 GGCAAATCTT
* * *
56211734 GCAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
** * *
56211778 GCAGATTTGGCGGT-TCTGTATTGGTGGAGAGTAGATCAAAGATA
1 GCAGATTTGGC-GTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* ** * *
56211822 GCAGATTTGGCATCTCTGTATTGAAAGGGAGCAGATCGAAGATG
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * *
56211866 GTAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATTGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * *
56211910 GCAGATTTAGCGTCTTTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * *
56211954 GCAGATTTGGCATCTCTGTATTGGCGGAGAGTAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * *
56211998 GTAGATTTGGCGTCTCTGTATTGGTAGAGAGCAGATCAAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * *
56212042 GCAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * ** *
56212086 ACAGATTTGGTGTCTCTGTATTGGTGGAGAGCAGATCAAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * * *
56212130 GAAGATTTGGCATTTCTGTGTTGACAGAGAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * *
56212174 GCAGATTTGGCGTCTCTATATTGGCATAGAGCAGATCAAATATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
*
56212218 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCAAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* *
56212262 GCAGATTTGGCATCTCTGTATTGGCAGAAAGCAGATCGAA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAA
56212302 AATAACATAT
Statistics
Matches: 446, Mismatches: 76, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
43 1 0.00
44 444 1.00
45 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (44 bp):
GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
Found at i:56215934 original size:25 final size:25
Alignment explanation
Indices: 56215906--56215970 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
56215896 CTTGGATTTT
*
56215906 AAGGAATGTTTCACTTTTAGGTTTC
1 AAGGAATGTTTCACTTATAGGTTTC
56215931 AAGGAATGTTTCACTTATAGGTTTC
1 AAGGAATGTTTCACTTATAGGTTTC
56215956 AAGGAATGTTTCACT
1 AAGGAATGTTTCACT
56215971 AACATTTAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (25 bp):
AAGGAATGTTTCACTTATAGGTTTC
Found at i:56228517 original size:40 final size:40
Alignment explanation
Indices: 56228462--56228600 Score: 235
Period size: 40 Copynumber: 3.5 Consensus size: 40
56228452 ACTTGAGGTA
*
56228462 TTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATG
1 TTATCCGGGCTTAAAGACCCACAGGCTTCGTGCTGGAATG
*
56228502 TTATCCGGGCTTAAAGACCCACAGGGTTCGTGCTGGAATG
1 TTATCCGGGCTTAAAGACCCACAGGCTTCGTGCTGGAATG
*
56228542 TTATCCGGGCTTAAAAACCCACAGGCTTCGTGCTGGAATG
1 TTATCCGGGCTTAAAGACCCACAGGCTTCGTGCTGGAATG
*
56228582 TTATCCGGGC-TAGAGACCC
1 TTATCCGGGCTTAAAGACCC
56228601 GCAAGCTACG
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 7 0.08
40 86 0.92
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATCCGGGCTTAAAGACCCACAGGCTTCGTGCTGGAATG
Found at i:56237837 original size:19 final size:20
Alignment explanation
Indices: 56237795--56237838 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
56237785 CAATATTAAC
** *
56237795 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
56237815 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
56237834 ACAGT
1 ACAGT
56237839 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:56241040 original size:34 final size:34
Alignment explanation
Indices: 56240997--56241066 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
56240987 CTATACGCCA
*
56240997 AATTCAGTAACTGGGAGCTCTGGTTACGTGAGGT
1 AATTCAGTAACTGAGAGCTCTGGTTACGTGAGGT
*
56241031 AATTTAGTAACTGAGAGCTCTGGTTACGTGAGGT
1 AATTCAGTAACTGAGAGCTCTGGTTACGTGAGGT
56241065 AA
1 AA
56241067 CATTTTTAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (34 bp):
AATTCAGTAACTGAGAGCTCTGGTTACGTGAGGT
Found at i:56244939 original size:17 final size:18
Alignment explanation
Indices: 56244917--56244956 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
56244907 AGGCCAGATT
*
56244917 TGGGCGTGT-GGGCCACA
1 TGGGCGTGTAGGCCCACA
56244934 TGGGCGTGTAGGCCCACA
1 TGGGCGTGTAGGCCCACA
56244952 TGGGC
1 TGGGC
56244957 CTGCATTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.12, C:0.25, G:0.45, T:0.17
Consensus pattern (18 bp):
TGGGCGTGTAGGCCCACA
Found at i:56260870 original size:30 final size:30
Alignment explanation
Indices: 56260836--56260896 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
56260826 TCCTTAACTC
56260836 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
56260866 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
56260896 A
1 A
56260897 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:56261982 original size:31 final size:30
Alignment explanation
Indices: 56261905--56261988 Score: 102
Period size: 29 Copynumber: 2.8 Consensus size: 30
56261895 AATCAGTCTC
56261905 AACATATACTGGGCCGAAGCC-TTTCATTA
1 AACATATACTGGGCCGAAGCCTTTTCATTA
*
56261934 AACGAT-TACAGGGCCGAAGCCTTTTCA-TA
1 AAC-ATATACTGGGCCGAAGCCTTTTCATTA
*
56261963 ATTCATATCACTGGGCCGAAGCCTTT
1 A-ACATAT-ACTGGGCCGAAGCCTTT
56261989 ATTGTAAACG
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
29 22 0.47
30 9 0.19
31 16 0.34
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (30 bp):
AACATATACTGGGCCGAAGCCTTTTCATTA
Found at i:56262184 original size:24 final size:24
Alignment explanation
Indices: 56262143--56262188 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
56262133 GCTTTATTAT
**
56262143 ATAACTGGAGGCCTAGCCTCTTTAA
1 ATAACTGGAGGCAAAGCC-CTTTAA
56262168 ATAACT-GAGGCAAAGCCCTTT
1 ATAACTGGAGGCAAAGCCCTTT
56262189 TCGGTAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 9 0.47
25 6 0.32
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (24 bp):
ATAACTGGAGGCAAAGCCCTTTAA
Found at i:56262396 original size:25 final size:25
Alignment explanation
Indices: 56262350--56262398 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
56262340 ATAATTAAAC
* * *
56262350 CCTAGGGGTATAACGGTCATTTTTG
1 CCTAGGGGCAAAACAGTCATTTTTG
*
56262375 CCTAGGGGCAAAACAGTTATTTTT
1 CCTAGGGGCAAAACAGTCATTTTT
56262399 CATATTATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTG
Found at i:56265285 original size:46 final size:46
Alignment explanation
Indices: 56265206--56265381 Score: 139
Period size: 46 Copynumber: 3.8 Consensus size: 46
56265196 ATGTAACCCG
* * *
56265206 TCCATAAGCGAACTCAGACTCAACTCAAGGAGCTCGGGCGTTCGCA
1 TCCACAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCA
**
56265252 TCCACAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ATA
1 TCCACAAGTGAACTCAGACTCAACTCAACGAGCTCGG--G-C--GTTCGCA
* * * * *
56265302 T-CTC---TCGAACT-AGAACTCAACTCAACGAGTTCAGACATTCGCA
1 TCCACAAGT-GAACTCAG-ACTCAACTCAACGAGCTCGGGCGTTCGCA
* *
56265345 TCCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG
1 TCCACAAGTGAACTCAGACTCAACTCAACGAGCTCGG
56265382 ATACCCAAAT
Statistics
Matches: 102, Mismatches: 15, Indels: 26
0.71 0.10 0.18
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 2 0.02
46 61 0.60
47 26 0.25
48 1 0.01
49 3 0.03
50 2 0.02
51 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
TCCACAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCA
Found at i:56265344 original size:93 final size:93
Alignment explanation
Indices: 56265214--56265383 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
56265204 CGTCCATAAG
* * * *
56265214 CGAACTCAGACTCAACTCAAGGAGCTCGGGCGTTCGCATCCACAAGTGAACTCAGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCACAAGTGAACTCAGACTCAACTCA
56265279 ACGAGCTCGGATGCCTAGTTATATCTCT
66 ACGAGCTCGGATGCCTAGTTATATCTCT
* *
56265307 CGAACT-AGAACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTC
1 CGAACTCAG-ACTCAACTCAACGAGCTCAGACATTCGCATCCACAAGTGAACTCAGACTCAACTC
*
56265371 AACGAGTTCGGAT
65 AACGAGCTCGGAT
56265384 ACCCAAATAT
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCACAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTATATCTCT
Found at i:56285183 original size:28 final size:27
Alignment explanation
Indices: 56285152--56285213 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
56285142 ATTACTAGAA
* *
56285152 TACCCCTAAGTATGGAAAATTACCATTG
1 TACCCCTAAG-ATGCAAAATGACCATTG
* *
56285180 TACCCCT-AGGTGCAAAATGACCATTT
1 TACCCCTAAGATGCAAAATGACCATTG
56285206 TACCCCTA
1 TACCCCTA
56285214 GGGTTAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 20 0.69
27 2 0.07
28 7 0.24
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.27
Consensus pattern (27 bp):
TACCCCTAAGATGCAAAATGACCATTG
Found at i:56290868 original size:48 final size:48
Alignment explanation
Indices: 56290812--56290916 Score: 187
Period size: 48 Copynumber: 2.2 Consensus size: 48
56290802 AGAAAAATAA
*
56290812 ATGAGATATGTATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGT
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
56290860 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
56290908 A-G-GATATGT
1 ATGAGATATGT
56290917 GTGTATATTG
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
46 7 0.12
47 1 0.02
48 48 0.86
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.32
Consensus pattern (48 bp):
ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
Found at i:56291105 original size:37 final size:37
Alignment explanation
Indices: 56291055--56291157 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
56291045 GGAAATATAT
56291055 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
56291092 TCCGGGTAAGACCCGACGACTACGTGTAGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
56291129 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
56291158 GGACTATTCG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:56292562 original size:80 final size:80
Alignment explanation
Indices: 56292429--56293420 Score: 1797
Period size: 80 Copynumber: 12.4 Consensus size: 80
56292419 GAGAATTGAG
*
56292429 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
56292494 GAGAGTATTCGTGCT
66 GAGAGTATTCGTGCT
56292509 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
56292574 GAGAGTATTCGTGCT
66 GAGAGTATTCGTGCT
56292589 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
56292654 GAGAGTATTCGTGCT
66 GAGAGTATTCGTGCT
56292669 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
56292734 GAGAGTATTCGTGCT
66 GAGAGTATTCGTGCT
56292749 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
56292814 GAGAGTATTCGTGCT
66 GAGAGTATTCGTGCT
56292829 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
56292894 GAGAGTATTCGTGCT
66 GAGAGTATTCGTGCT
56292909 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
56292974 GAGAGTATTCGTGCT
66 GAGAGTATTCGTGCT
56292989 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
56293054 GAGAGTATTCGTGCT
66 GAGAGTATTCGTGCT
56293069 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
56293134 GAGAGTATTCGTGCT
66 GAGAGTATTCGTGCT
56293149 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
56293214 GAGAGTATTCGTGCT
66 GAGAGTATTCGTGCT
* * * *
56293229 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCTC-
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
*
56293293 GAGGAGCATTCGTGCT
66 GA-GAGTATTCGTGCT
* * * * * **
56293309 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
* *
56293374 AAGAGCATTCGTGCT
66 GAGAGTATTCGTGCT
* * * *
56293389 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
56293421 ATCATGCTGG
Statistics
Matches: 893, Mismatches: 17, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
79 2 0.00
80 890 1.00
81 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (80 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAATTCCCG
GAGAGTATTCGTGCT
Found at i:56293432 original size:40 final size:40
Alignment explanation
Indices: 56292429--56293420 Score: 1498
Period size: 40 Copynumber: 24.8 Consensus size: 40
56292419 GAGAATTGAG
*
56292429 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
56292469 AGTGATGTATCTGGGCTAATTCCCGGAGAGTATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
56292509 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
56292549 AGTGATGTATCTGGGCTAATTCCCGGAGAGTATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
56292589 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
56292629 AGTGATGTATCTGGGCTAATTCCCGGAGAGTATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
56292669 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
56292709 AGTGATGTATCTGGGCTAATTCCCGGAGAGTATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
56292749 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
56292789 AGTGATGTATCTGGGCTAATTCCCGGAGAGTATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
56292829 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
56292869 AGTGATGTATCTGGGCTAATTCCCGGAGAGTATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
56292909 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
56292949 AGTGATGTATCTGGGCTAATTCCCGGAGAGTATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
56292989 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
56293029 AGTGATGTATCTGGGCTAATTCCCGGAGAGTATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
56293069 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
56293109 AGTGATGTATCTGGGCTAATTCCCGGAGAGTATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
56293149 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
56293189 AGTGATGTATCTGGGCTAATTCCCGGAGAGTATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
56293229 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
56293269 AGTGATATATCCGGGCTAAGTCTCGAGGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
56293309 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
56293349 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
56293389 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
56293421 ATCATGCTGG
Statistics
Matches: 857, Mismatches: 95, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 857 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:56293701 original size:58 final size:57
Alignment explanation
Indices: 56293632--56293740 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
56293622 CGAATGATTA
* *
56293632 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
* * *
56293690 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCG
56293741 ATCAGTGGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 26 0.57
58 20 0.43
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
Found at i:56295021 original size:40 final size:40
Alignment explanation
Indices: 56294990--56295160 Score: 247
Period size: 40 Copynumber: 4.3 Consensus size: 40
56294980 GGACTAAGAT
* *
56294990 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
* * ** *
56295030 CCGAAGGCCTTTGTGCGAGATACT-AATTCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAG-TTTTAAAATCCGGGTTAAGTC
56295070 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
56295110 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
56295150 CCGAAGGCATT
1 CCGAAGGCATT
56295161 GTATGAGTTA
Statistics
Matches: 121, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 2 0.02
40 118 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
Found at i:56295074 original size:80 final size:80
Alignment explanation
Indices: 56294937--56295160 Score: 253
Period size: 80 Copynumber: 2.8 Consensus size: 80
56294927 TTGAATGCTG
* * **
56294937 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTA-AGTGACT-ATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGA-T-ACTAAT-TCCGGGTTAAG-TCCCGAAGGC
* *
56294998 ATTTGTGCGAGTTATT-AAT
62 ATTCGTGCGAGTT-TTAAAA
56295017 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCATTC
56295082 GTGCGAGTTTTAAAA
66 GTGCGAGTTTTAAAA
* * ** *
56295097 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TTTTAAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACT-AATTCCGGGTTAAGTCCCGAAGGCATT
56295161 GTATGAGTTA
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
79 5 0.04
80 109 0.86
81 12 0.09
82 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTTTAAAA
Found at i:56308825 original size:22 final size:21
Alignment explanation
Indices: 56308784--56308826 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
56308774 TTAACATCAA
*
56308784 TTTAATCCATTTCATACCTAG
1 TTTAATCAATTTCATACCTAG
56308805 TTTAATTCAATTTACAT-CCTAG
1 TTTAA-TCAATTT-CATACCTAG
56308827 GAAAAATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 11 0.58
23 3 0.16
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (21 bp):
TTTAATCAATTTCATACCTAG
Found at i:56314178 original size:26 final size:24
Alignment explanation
Indices: 56314112--56314162 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
56314102 TATACCTAAC
56314112 TAATTATTTAGTATAGATTTTAAT
1 TAATTATTTAGTATAGATTTTAAT
56314136 TAATTATTTAGTATAGATTTTAAT
1 TAATTATTTAGTATAGATTTTAAT
56314160 TAA
1 TAA
56314163 CTTTATGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (24 bp):
TAATTATTTAGTATAGATTTTAAT
Found at i:56322090 original size:29 final size:28
Alignment explanation
Indices: 56321992--56322106 Score: 115
Period size: 29 Copynumber: 4.0 Consensus size: 28
56321982 TACCTGTATC
* *
56321992 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* * * *
56322020 TGGCCCATTAGGATCAAACCACCTGT-ATA
1 TGGCCCATTAGG-CCCAATCACAT-TCATA
*
56322049 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
56322078 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
56322106 T
1 T
56322107 TCATGCTCAC
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
28 25 0.36
29 44 0.63
30 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:56325486 original size:18 final size:17
Alignment explanation
Indices: 56325465--56325499 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
56325455 TGAAAACCCT
56325465 TCTTAAAATAAAAAAACA
1 TCTTAAAA-AAAAAAACA
*
56325483 TCTTAAAAAAATAAACA
1 TCTTAAAAAAAAAAACA
56325500 CCTTTCAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (17 bp):
TCTTAAAAAAAAAAACA
Found at i:56326542 original size:29 final size:29
Alignment explanation
Indices: 56326504--56326580 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
56326494 AATTATATTC
**
56326504 ATATGGCCCATTAGGGTCAAACCACATGT
1 ATATGGCCCATTAGGCCCAAACCACATGT
* *
56326533 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAACCACATGT
*
56326562 ATATGGCCCGTTAGGCCCA
1 ATATGGCCCATTAGGCCCA
56326581 GTCACATTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAACCACATGT
Found at i:56326833 original size:8 final size:8
Alignment explanation
Indices: 56326817--56326848 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
56326807 CAGATTTTAA
56326817 GCATTTCG
1 GCATTTCG
*
56326825 GCTTTTCG
1 GCATTTCG
56326833 GCATTTCG
1 GCATTTCG
56326841 GCATTTCG
1 GCATTTCG
56326849 ACTTTTGCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.09, C:0.25, G:0.25, T:0.41
Consensus pattern (8 bp):
GCATTTCG
Found at i:56329554 original size:33 final size:33
Alignment explanation
Indices: 56329517--56329587 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
56329507 ATACTTGAGT
* *
56329517 TTGAAGGTAAATTGGAAAGGTATTTTCCTTTGG
1 TTGAAGGTAAATTCGAAAGGTATTTGCCTTTGG
** **
56329550 TTGAATTTACTTTCGAAAGGTATTTGCCTTTGG
1 TTGAAGGTAAATTCGAAAGGTATTTGCCTTTGG
56329583 TTGAA
1 TTGAA
56329588 TTTACTTATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.08, G:0.24, T:0.42
Consensus pattern (33 bp):
TTGAAGGTAAATTCGAAAGGTATTTGCCTTTGG
Found at i:56329588 original size:33 final size:33
Alignment explanation
Indices: 56329531--56329594 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
56329521 AGGTAAATTG
*
56329531 GAAAGGTATTTTCCTTTGGTTGAATTTACTTTC
1 GAAAGGTATTTGCCTTTGGTTGAATTTACTTTC
56329564 GAAAGGTATTTGCCTTTGGTTGAATTTACTT
1 GAAAGGTATTTGCCTTTGGTTGAATTTACTT
56329595 ATAATAACAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.22, C:0.11, G:0.20, T:0.47
Consensus pattern (33 bp):
GAAAGGTATTTGCCTTTGGTTGAATTTACTTTC
Found at i:56345705 original size:49 final size:49
Alignment explanation
Indices: 56345633--56345862 Score: 291
Period size: 49 Copynumber: 4.6 Consensus size: 49
56345623 TGGTAGCATG
* * *
56345633 GTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTA
1 GTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATA
** * * *
56345682 GTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 GTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACATA
* ** *
56345732 GTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAAGTACGCATA
1 GTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATA
* *
56345783 GTAGCCTGCACTTAGTACTACACATGGGACCAATTATCTC-GTACACATA
1 GTAGCCTGCACTTAGTACTACACACGTGACCAATTATC-CGGTACACATA
56345832 GTAGCCTGCACTTAGTACTACACACGTGACC
1 GTAGCCTGCACTTAGTACTACACACGTGACC
56345863 TCACAATAGC
Statistics
Matches: 156, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
49 71 0.46
50 48 0.31
51 37 0.24
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
GTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATA
Found at i:56345794 original size:101 final size:98
Alignment explanation
Indices: 56345633--56345862 Score: 309
Period size: 100 Copynumber: 2.3 Consensus size: 98
56345623 TGGTAGCATG
* * ** *
56345633 GTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTAGT
1 GTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAAGTACACATAGTAGCCTGCACTTAGT
* *
56345698 ACTACACACGTGACCTAACCATCT-GATACACGTA
66 ACTACACACGGGACC-AACCATCTCG-TACACATA
* *
56345732 GTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAAGTACGCATAGTAGCCTGCACTTA
1 GTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAAGTACACATAGTAGCCTGCACTTA
* **
56345797 GTACTACACATGGGACCAATTATCTCGTACACATA
64 GTACTACACACGGGACCAACCATCTCGTACACATA
56345832 GTAGCCTGCACTTAGTACTACACACGTGACC
1 GTAGCCTGCACTTAGTACTACACACGTGACC
56345863 TCACAATAGC
Statistics
Matches: 115, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
99 28 0.24
100 45 0.39
101 42 0.37
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (98 bp):
GTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAAGTACACATAGTAGCCTGCACTTAGT
ACTACACACGGGACCAACCATCTCGTACACATA
Found at i:56346542 original size:30 final size:30
Alignment explanation
Indices: 56346508--56346567 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
56346498 CTCTAATACG
56346508 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
56346538 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
56346568 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:56363782 original size:29 final size:29
Alignment explanation
Indices: 56363749--56363822 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
56363739 GTTGTGAGAT
* *
56363749 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* * *
56363778 TGGCACTAAGTGTGTGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
56363807 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56363823 CGGTTGATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 6 0.16
29 32 0.84
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:56369013 original size:40 final size:40
Alignment explanation
Indices: 56368955--56369122 Score: 223
Period size: 40 Copynumber: 4.2 Consensus size: 40
56368945 TCTTCGCGAT
* *
56368955 TTAG-CCGGATCTAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
56368994 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* * * *
56369034 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AGCAACTCGCACAAATGCCTTCGGGTC
* * *
56369074 ATAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
*
56369114 TTAGTCCGG
1 TTAGCCCGG
56369123 TTATCATCCG
Statistics
Matches: 111, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 6 0.05
40 103 0.93
41 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
Found at i:56385477 original size:127 final size:127
Alignment explanation
Indices: 56385238--56385489 Score: 373
Period size: 127 Copynumber: 2.0 Consensus size: 127
56385228 TTTAATATGT
* * *
56385238 CAACAAGTGAAAGCGGAACATCAAGTGCCTTCAGGATTACTTCAGCCGATCATGATACCCGAGTG
1 CAACAAGTGAAAGCGGAACATCAAGTGCCTACAGGATTACTTCAGCCAATCATGATACCCGAATG
* *
56385303 GAAATGGGATCGAGTCACAATGGACTTTGTGTCCGGACTGCCATTGTCAGC-AAGTAAGAAGG
66 GAAATGGGATCGAGTCACAATGGACTTTGTATCAGGACTGCCATTGTCAGCGAA-TAAGAAGG
* *
56385365 CAACAAGTGAAAGCGGAACATCAAGTGCCTACAGGTTTACTTCAGCCAATCATGATACCTGAATG
1 CAACAAGTGAAAGCGGAACATCAAGTGCCTACAGGATTACTTCAGCCAATCATGATACCCGAATG
* * * *
56385430 GAAATGGGATCGAGTCACGATGGATTTTGTATCTAGG-TTGCCGTTGTCAGCGAATAAGAA
66 GAAATGGGATCGAGTCACAATGGACTTTGTATC-AGGACTGCCATTGTCAGCGAATAAGAA
56385490 ATATGCGATT
Statistics
Matches: 112, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
127 108 0.96
128 4 0.04
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (127 bp):
CAACAAGTGAAAGCGGAACATCAAGTGCCTACAGGATTACTTCAGCCAATCATGATACCCGAATG
GAAATGGGATCGAGTCACAATGGACTTTGTATCAGGACTGCCATTGTCAGCGAATAAGAAGG
Found at i:56397413 original size:41 final size:43
Alignment explanation
Indices: 56397340--56397451 Score: 122
Period size: 41 Copynumber: 2.7 Consensus size: 43
56397330 AGGACGTTGG
*
56397340 CATCGATATGTGATTACGTGTAAGACCATGTCTGGGACATCAA
1 CATCGATATGTGATTACGTATAAGACCATGTCTGGGACATCAA
* * **
56397383 CATC-ATATTTGATT-CGTATAAGACCCTGTCTGGGACAGT-GG
1 CATCGATATGTGATTACGTATAAGACCATGTCTGGGACA-TCAA
* * *
56397424 CATCGATATATGATTACATGTAAGACCA
1 CATCGATATGTGATTACGTATAAGACCA
56397452 CGTATATGCG
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
41 25 0.44
42 19 0.33
43 13 0.23
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (43 bp):
CATCGATATGTGATTACGTATAAGACCATGTCTGGGACATCAA
Found at i:56401717 original size:48 final size:49
Alignment explanation
Indices: 56401642--56401952 Score: 178
Period size: 46 Copynumber: 6.6 Consensus size: 49
56401632 TATAATACCA
*
56401642 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-C-AT-CAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACAATCCAAGCCG
* * ** *
56401689 ATGCTATGTCCCCAGAAATGGTCTTACACCAGCTCTCACATATCCATGCCG
1 ATGCCATGT-CCCAGACATGGTCTTACACTGGCTCTCACA-ATCCAAGCCG
* * *
56401740 ATGCCATGTCCCAGACATGGTCTTACACT-G---ACAC-ATCTCGTAGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATC-C-AAGCCG
* * *
56401786 ATG-CATGTCCCAAACAT-GTCTTACACTGGCT-T-AC-ATCTCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATC-C-AAGCCG
* * * * *
56401832 AT-ACATGTCCCAAAAAT-ATCTTACACTAGCTCT--C-ATCTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATC-CAA-GCCG
* * * ***
56401878 ATGCGATGTCCCAGACATGGTCTTACACTTGCTCTCATAAT-GTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATCCAAGCCG
*
56401926 ATG-CATGTCCCAAACAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
56401953 AGCACACAAA
Statistics
Matches: 210, Mismatches: 36, Indels: 37
0.74 0.13 0.13
Matches are distributed among these distances:
44 13 0.06
45 16 0.08
46 67 0.32
47 34 0.16
48 44 0.21
49 1 0.00
50 20 0.10
51 15 0.07
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATCCAAGCCG
Found at i:56401762 original size:50 final size:47
Alignment explanation
Indices: 56401642--56401767 Score: 146
Period size: 48 Copynumber: 2.6 Consensus size: 47
56401632 TATAATACCA
** *
56401642 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACCAGCTCATCCATCAAGCCG
* * *
56401689 ATGCTATGTCCCCAGAAATGGTCTTACACCAGCTC-TCACATATCCATGCCG
1 ATGCCATGT-CCCAGACATGGTCTTACACCAGCTCATC-C--AT-CAAGCCG
56401740 ATGCCATGTCCCAGACATGGTCTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
56401768 TGACACATCT
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
47 10 0.15
48 23 0.35
50 20 0.30
51 13 0.20
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACCAGCTCATCCATCAAGCCG
Found at i:56401839 original size:46 final size:46
Alignment explanation
Indices: 56401736--56401952 Score: 201
Period size: 46 Copynumber: 4.7 Consensus size: 46
56401726 ACATATCCAT
* * *
56401736 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTA-
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCATCTCG-AG
*
56401782 GCCAATGCATGTCCCAAACATGTCTTACACTGGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATCTCGAG
* * * * * * *
56401828 GCTGATACATGTCCCAAAAATATCTTACACTAGCTCTCATCTCAAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATCTCGAG
* * * *
56401874 GCCGATGCGATGTCCCAGACATGGTCTTACACTTGCTCTCATAAT-GTG
1 GCCGATGC-ATGTCCCAAACAT-GTCTTACACTGGCTCTCAT-CTCGAG
56401922 GCCGATGCATGTCCCAAACATGTCTTACACT
1 GCCGATGCATGTCCCAAACATGTCTTACACT
56401953 AGCACACAAA
Statistics
Matches: 140, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 65 0.46
47 24 0.17
48 25 0.18
49 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATCTCGAG
Found at i:56401901 original size:94 final size:92
Alignment explanation
Indices: 56401786--56401955 Score: 218
Period size: 94 Copynumber: 1.8 Consensus size: 92
56401776 CTCGTAGCCA
* *
56401786 ATGCATGTCCCAAACATGTCTTACACTGGCT-TACAT-CTCGAGGCTGATACATGTCCCAAAAAT
1 ATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATAAT-GAGGCCGATACATGTCCCAAAAAT
56401849 ATCTTACACTAGCTCTCATCTCAATGCCG
64 ATCTTACACTAGCTCTCATCTCAATGCCG
* * * * *
56401878 ATGCGATGTCCCAGACATGGTCTTACACTTGCTCTCATAATGTGGCCGATGCATGTCCCAAACAT
1 ATGC-ATGTCCCAAACAT-GTCTTACACTGGCTCTCATAATGAGGCCGATACATGTCCCAAAAAT
*
56401943 GTCTTACACTAGC
64 ATCTTACACTAGC
56401956 ACACAAATAA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
92 4 0.06
93 12 0.18
94 48 0.73
95 2 0.03
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (92 bp):
ATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATGAGGCCGATACATGTCCCAAAAATAT
CTTACACTAGCTCTCATCTCAATGCCG
Found at i:56411717 original size:66 final size:66
Alignment explanation
Indices: 56411611--56411741 Score: 253
Period size: 66 Copynumber: 2.0 Consensus size: 66
56411601 GCCATACTTA
*
56411611 AGTTTTACAAGCCATTTACCCAGATGAAAGTCCTTTGGATAGTGTGATTGAACCTTCGACCCGTC
1 AGTTTTACAAGCCATTTACCCAGATGAAAGTCCTTTGGATAGTGTGATCGAACCTTCGACCCGTC
56411676 T
66 T
56411677 AGTTTTACAAGCCATTTACCCAGATGAAAGTCCTTTGGATAGTGTGATCGAACCTTCGACCCGTC
1 AGTTTTACAAGCCATTTACCCAGATGAAAGTCCTTTGGATAGTGTGATCGAACCTTCGACCCGTC
56411742 CCGATTCCCG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (66 bp):
AGTTTTACAAGCCATTTACCCAGATGAAAGTCCTTTGGATAGTGTGATCGAACCTTCGACCCGTC
T
Found at i:56416291 original size:28 final size:28
Alignment explanation
Indices: 56416168--56416291 Score: 128
Period size: 28 Copynumber: 4.4 Consensus size: 28
56416158 ACATACATGC
** *
56416168 ATATGGCCCACAAGGCCCAATCTCATTC
1 ATATGGCCCATTAGGCCCAATCTCATTT
* *
56416196 ATATGGCCCATCT-GGCCC-GT-TTATATT
1 ATATGGCCCAT-TAGGCCCAATCTCAT-TT
* *
56416223 CTTATGGCCCATTAGGCCCAATTCACATTT
1 -ATATGGCCCATTAGGCCCAA-TCTCATTT
56416253 ATATGGCCCATTAGGCCCAATCTCATTT
1 ATATGGCCCATTAGGCCCAATCTCATTT
56416281 ATATGGCCCAT
1 ATATGGCCCAT
56416292 CCAGCCCAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 14
0.76 0.11 0.14
Matches are distributed among these distances:
26 3 0.04
27 3 0.04
28 48 0.62
29 19 0.24
30 3 0.04
31 2 0.03
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCTCATTT
Found at i:56416312 original size:28 final size:29
Alignment explanation
Indices: 56416225--56416307 Score: 116
Period size: 29 Copynumber: 2.9 Consensus size: 29
56416215 TTTATATTCT
*
56416225 TATGGCCCATTAGGCCCAATTCACATTTA
1 TATGGCCCATTAGGCCCAAATCACATTTA
*
56416254 TATGGCCCATTAGGCCC-AATCTCATTTA
1 TATGGCCCATTAGGCCCAAATCACATTTA
*
56416282 TATGGCCCATCCA-GCCCAAATCACAT
1 TATGGCCCAT-TAGGCCCAAATCACAT
56416308 CATATTCATG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.48
29 25 0.52
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
TATGGCCCATTAGGCCCAAATCACATTTA
Found at i:56416553 original size:16 final size:16
Alignment explanation
Indices: 56416532--56416562 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56416522 ACTTTTGGCT
56416532 TTTCGGCATTTCAGCA
1 TTTCGGCATTTCAGCA
*
56416548 TTTCGGCTTTTCAGC
1 TTTCGGCATTTCAGC
56416563 TTTTGTTGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.26, G:0.19, T:0.42
Consensus pattern (16 bp):
TTTCGGCATTTCAGCA
Found at i:56417926 original size:16 final size:16
Alignment explanation
Indices: 56417905--56417936 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
56417895 AAGTTCGGGA
56417905 TTTTGGGATTTTTGGG
1 TTTTGGGATTTTTGGG
56417921 TTTTGGGATTTTTGGG
1 TTTTGGGATTTTTGGG
56417937 GCGTTACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.00, G:0.38, T:0.56
Consensus pattern (16 bp):
TTTTGGGATTTTTGGG
Found at i:56418844 original size:89 final size:88
Alignment explanation
Indices: 56418745--56418924 Score: 288
Period size: 89 Copynumber: 2.0 Consensus size: 88
56418735 TAAATCACGA
* * *
56418745 GTCTTGAAGATTTCTAAGCAACAATCTAAAAAATGTAAAAATTTTCAAAAACCGAACAAAAACGA
1 GTCTTGAAGATTCCTAAGCAACAATCTAAAAAACGTAAAAATTATCAAAAACCGAACAAAAACGA
56418810 ACCTTGATTGAGCTTGAATAATGT
66 ACCTTGATTGAGCTTGAAT-ATGT
** * *
56418834 GTCTTGAAGATTCCTAAGCAATGATCTCAAAAACGTAAAAATTATCAAAAACTGAACAAAAACGA
1 GTCTTGAAGATTCCTAAGCAACAATCTAAAAAACGTAAAAATTATCAAAAACCGAACAAAAACGA
56418899 ACCTTGATTGAGCTTGAATATGT
66 ACCTTGATTGAGCTTGAATATGT
56418922 GTC
1 GTC
56418925 GAACCCTAGC
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 7 0.08
89 77 0.92
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (88 bp):
GTCTTGAAGATTCCTAAGCAACAATCTAAAAAACGTAAAAATTATCAAAAACCGAACAAAAACGA
ACCTTGATTGAGCTTGAATATGT
Found at i:56429242 original size:99 final size:97
Alignment explanation
Indices: 56429068--56429285 Score: 269
Period size: 99 Copynumber: 2.2 Consensus size: 97
56429058 AAATGAAAGT
* * * * *
56429068 ATTTAGTTAAAATAAAAGTATTAGTAATAATATCAAAGGAAAAAAAAATCTTGTTTTCAAGCTTA
1 ATTTAGTTAAAATAAAAATATTAGTAATAATAACAAAGCAAAAAAAAATCTTGTTTTCAAGATGA
56429133 AGTATAAACTTAGGAATATCTACTTCTTCACA
66 AGTATAAACTTAGGAATATCTACTTCTTCACA
* * *
56429165 ATTTGGTTAAAATAAAAATAGTATAGTAATACTAAACAAA-CAACAAAAAATCTTGTTTTCAAGA
1 ATTTAGTTAAAATAAAAATA-T-TAGTAATAAT-AACAAAGCAAAAAAAAATCTTGTTTTCAAGA
* * * * *
56429229 TGATGTATAAACTTGGGAATCTCTACTTCTTGAGA
63 TGAAGTATAAACTTAGGAATATCTACTTCTTCACA
*
56429264 ATTTAGTT-AGATAAAAATATTA
1 ATTTAGTTAAAATAAAAATATTA
56429286 TGATAATGAT
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
96 2 0.02
97 19 0.18
98 11 0.11
99 66 0.64
100 5 0.05
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (97 bp):
ATTTAGTTAAAATAAAAATATTAGTAATAATAACAAAGCAAAAAAAAATCTTGTTTTCAAGATGA
AGTATAAACTTAGGAATATCTACTTCTTCACA
Found at i:56431904 original size:13 final size:14
Alignment explanation
Indices: 56431886--56431923 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
56431876 AGAAATTATT
56431886 TAATATATATAA-A
1 TAATATATATAACA
56431899 TAATATAATATAACA
1 TAATAT-ATATAACA
56431914 TAATACTATA
1 TAATA-TATA
56431924 AAAACTTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.27
14 6 0.27
15 9 0.41
16 1 0.05
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (14 bp):
TAATATATATAACA
Found at i:56433340 original size:29 final size:28
Alignment explanation
Indices: 56433283--56433368 Score: 136
Period size: 28 Copynumber: 3.0 Consensus size: 28
56433273 TACCTGTATC
*
56433283 TGGCCCATTAGGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
56433311 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
*
56433340 TGGCCCATTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
56433368 T
1 T
56433369 TCATGCTGAC
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 27 0.51
29 26 0.49
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:56443438 original size:68 final size:66
Alignment explanation
Indices: 56443221--56443690 Score: 443
Period size: 68 Copynumber: 7.2 Consensus size: 66
56443211 ATATAGTTCG
* * * * * *
56443221 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGT-T-TATCTC
1 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACA-TATATGTCTT
56443281 GTA
64 GTA
* * * * * ** * *
56443284 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGAATGCGGCCTAGCTACATATA--TCC
1 GCTCTCTTGTCTACATGGTG---TACACATAGTATCACCCATGCGACCTAGCTACATATATGTCT
56443347 TGTA
63 TGTA
56443351 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTT
1 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT-AT-ATGTCTT
56443416 GTA
64 GTA
* * * * * *
56443419 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGT-T-TATCTC
1 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACA-TATATGTCTT
56443479 GTA
64 GTA
56443482 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTT
1 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT-AT-ATGTCTT
56443547 GTA
64 GTA
* * * * * *
56443550 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGT-T-TATCTC
1 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACA-TATATGTCTT
56443610 GTA
64 GTA
56443613 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTT
1 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT-AT-ATGTCTT
56443678 GTA
64 GTA
56443681 GCTCTCTTGT
1 GCTCTCTTGT
56443691 ACACATGATG
Statistics
Matches: 334, Mismatches: 43, Indels: 55
0.77 0.10 0.13
Matches are distributed among these distances:
62 3 0.01
63 118 0.35
64 28 0.08
65 8 0.02
66 28 0.08
67 28 0.08
68 119 0.36
69 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (66 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATATATGTCTTGT
A
Found at i:56443512 original size:63 final size:63
Alignment explanation
Indices: 56443221--56443666 Score: 438
Period size: 63 Copynumber: 6.8 Consensus size: 63
56443211 ATATAGTTCG
* *
56443221 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC-CAGTTTATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCACA-TTTATCTCGTA
* * * ** * *
56443284 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGAATGCGGCCTAGCTACATATATC-CT
1 GCTCTCTTGTCTACATGGTG---TACACTTAGTACCACCCATGCGACCTAGC-ACATTTATCTC-
56443348 GTA
61 GTA
* * * *
56443351 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTT
1 GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGC-ACAT--T--TATCTC
56443416 GTA
61 GTA
* *
56443419 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC-CAGTTTATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCACA-TTTATCTCGTA
* * * *
56443482 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTT
1 GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGC-ACAT--T--TATCTC
56443547 GTA
61 GTA
* *
56443550 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC-CAGTTTATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCACA-TTTATCTCGTA
* *
56443613 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGC-ACAT
56443667 CATAATGTCT
Statistics
Matches: 315, Mismatches: 42, Indels: 51
0.77 0.10 0.12
Matches are distributed among these distances:
62 3 0.01
63 118 0.37
64 28 0.09
65 6 0.02
66 27 0.09
67 30 0.10
68 101 0.32
69 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (63 bp):
GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCACATTTATCTCGTA
Found at i:56443726 original size:68 final size:67
Alignment explanation
Indices: 56443324--56443734 Score: 380
Period size: 68 Copynumber: 6.3 Consensus size: 67
56443314 GGAACCACGA
* *
56443324 ATGCGGCCTAGCTACAT-AT-A--TCCTGTAGCTCTCTTGT-CTACATGGTGTACACATAGTA-T
1 ATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTAC-ACATGGTGTACAC-TAGTACT
56443383 CACCC
64 -ACCC
* *
56443388 ATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGGTGAACACTTAGTACCA
1 ATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGGTGTACAC-TAGTACTA
56443453 CCC
65 CCC
* * *
56443456 ATGTGACCTAGC--CAGT--T--TATCTCGTAGCTCTCTTGT-CTACATGGTGTACACATAGTA-
1 ATGCGACCTAGCTACA-TCATAATGTCTTGTAGCTCTCTTGTAC-ACATGGTGTACAC-TAGTAC
56443513 TCACCC
63 T-ACCC
* *
56443519 ATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGGTGAACACTTAGTACCA
1 ATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGGTGTACAC-TAGTACTA
56443584 CCC
65 CCC
* * *
56443587 ATGTGACCTAGC--CAGT--T--TATCTCGTAGCTCTCTTGT-CTACATGGTGTACACATAGTA-
1 ATGCGACCTAGCTACA-TCATAATGTCTTGTAGCTCTCTTGTAC-ACATGGTGTACAC-TAGTAC
56443644 TCACCC
63 T-ACCC
* * *
56443650 ATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCACTCAGCACTA
1 ATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGGTGTACACT-AGTACTA
**
56443715 TAC
65 CCC
*
56443718 ATGTGACCTAGCTACAT
1 ATGCGACCTAGCTACAT
56443735 ACCATCTGTA
Statistics
Matches: 286, Mismatches: 32, Indels: 54
0.77 0.09 0.15
Matches are distributed among these distances:
62 2 0.01
63 98 0.34
64 18 0.06
65 8 0.03
66 7 0.02
67 3 0.01
68 146 0.51
69 4 0.01
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (67 bp):
ATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGGTGTACACTAGTACTAC
CC
Found at i:56443729 original size:131 final size:131
Alignment explanation
Indices: 56443348--56443697 Score: 700
Period size: 131 Copynumber: 2.7 Consensus size: 131
56443338 CATATATCCT
56443348 GTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGT
1 GTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGT
56443413 CTTGTAGCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCT
66 CTTGTAGCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCT
56443478 C
131 C
56443479 GTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGT
1 GTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGT
56443544 CTTGTAGCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCT
66 CTTGTAGCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCT
56443609 C
131 C
56443610 GTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGT
1 GTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGT
56443675 CTTGTAGCTCTCTTGTACACATG
66 CTTGTAGCTCTCTTGTACACATG
56443698 ATGTGCACTC
Statistics
Matches: 219, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 219 1.00
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (131 bp):
GTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGT
CTTGTAGCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCT
C
Found at i:56452610 original size:41 final size:41
Alignment explanation
Indices: 56452565--56452646 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
56452555 CGTGTGAAGG
** *
56452565 ATCAGATTGGTATTGTCGTAGCATAGACACATGAAAAACAT
1 ATCAGATTGGTACCGTAGTAGCATAGACACATGAAAAACAT
* *
56452606 ATCAGATTGGTACCGTAGTAGCATAGGCACATGAAAGACAT
1 ATCAGATTGGTACCGTAGTAGCATAGACACATGAAAAACAT
56452647 TATGAATCCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (41 bp):
ATCAGATTGGTACCGTAGTAGCATAGACACATGAAAAACAT
Found at i:56454176 original size:34 final size:34
Alignment explanation
Indices: 56454136--56454206 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
56454126 CATCACTGTA
*
56454136 AACTATAAATTCCTTACTTGATTCTGGCTAAACT
1 AACTATAAATTCCTTACTCGATTCTGGCTAAACT
56454170 AACTATAAATTCCTTACTCGATTCTGGCTAAACT
1 AACTATAAATTCCTTACTCGATTCTGGCTAAACT
56454204 AAC
1 AAC
56454207 ACTGGAGCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (34 bp):
AACTATAAATTCCTTACTCGATTCTGGCTAAACT
Found at i:56460785 original size:27 final size:27
Alignment explanation
Indices: 56460755--56460806 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
56460745 TAATTCCATT
56460755 TTTGAACTTTAATTAATTAAATAATAA
1 TTTGAACTTTAATTAATTAAATAATAA
56460782 TTTGAACTTTAATTAATTAAATAAT
1 TTTGAACTTTAATTAATTAAATAAT
56460807 TTTTACATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (27 bp):
TTTGAACTTTAATTAATTAAATAATAA
Found at i:56472908 original size:27 final size:27
Alignment explanation
Indices: 56472842--56472932 Score: 98
Period size: 27 Copynumber: 3.5 Consensus size: 27
56472832 TACATCACGT
* * *
56472842 AGGGCAAAACAGTCATCCTACCACCTA
1 AGGGCAAAATAGTCATTCTACCACATA
*
56472869 AGGGCAAATTAGTCATTCTACCACATA
1 AGGGCAAAATAGTCATTCTACCACATA
* * *
56472896 AGGGAAAAATAGT-ATTTTACCAC--G
1 AGGGCAAAATAGTCATTCTACCACATA
56472920 AGGGCAAAATAGT
1 AGGGCAAAATAGT
56472933 TAGTTTATCA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
24 12 0.22
26 9 0.16
27 34 0.62
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (27 bp):
AGGGCAAAATAGTCATTCTACCACATA
Found at i:56473037 original size:27 final size:27
Alignment explanation
Indices: 56473014--56473073 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 27
56473004 GTGTTTCTGC
*
56473014 CATTTTACCTTATGAGGG-TATTTCGGT
1 CATTTTACCCTATG-GGGTTATTTCGGT
56473041 CATTTTACCCTATGGGGTTATTTCGGT
1 CATTTTACCCTATGGGGTTATTTCGGT
56473068 CATTTT
1 CATTTT
56473074 TAAGTAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 3 0.10
27 28 0.90
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.47
Consensus pattern (27 bp):
CATTTTACCCTATGGGGTTATTTCGGT
Found at i:56474874 original size:8 final size:8
Alignment explanation
Indices: 56474861--56474888 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
56474851 TATGTAACCC
56474861 CACATTTT
1 CACATTTT
56474869 CACATTTT
1 CACATTTT
56474877 CACATTTT
1 CACATTTT
56474885 CACA
1 CACA
56474889 AATTAACCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (8 bp):
CACATTTT
Found at i:56475734 original size:12 final size:12
Alignment explanation
Indices: 56475695--56475737 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
56475685 GCATCCCCCC
*
56475695 AGTTTTT-AATC
1 AGTTTTTCAATT
56475706 AGTTTTCTCATATT
1 AGTTTT-TCA-ATT
56475720 AGTTTTTCAATT
1 AGTTTTTCAATT
56475732 AGTTTT
1 AGTTTT
56475738 CTCATTTCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 6 0.21
12 10 0.36
13 4 0.14
14 8 0.29
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.58
Consensus pattern (12 bp):
AGTTTTTCAATT
Found at i:56476749 original size:17 final size:17
Alignment explanation
Indices: 56476729--56476761 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
56476719 CCGAGGACCG
56476729 TACCCAAAGGAGGATCA
1 TACCCAAAGGAGGATCA
56476746 TACCCAAAGGAGGATC
1 TACCCAAAGGAGGATC
56476762 GTACTCAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.12
Consensus pattern (17 bp):
TACCCAAAGGAGGATCA
Found at i:56477724 original size:21 final size:21
Alignment explanation
Indices: 56477676--56477715 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
56477666 GAGTATTTTG
*
56477676 ATGTTTAATGATAGGTTATGA
1 ATGTTTGATGATAGGTTATGA
56477697 ATGTTTGATGATA-GTTATG
1 ATGTTTGATGATAGGTTATG
56477716 CAAGTTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (21 bp):
ATGTTTGATGATAGGTTATGA
Found at i:56480182 original size:40 final size:40
Alignment explanation
Indices: 56480137--56480360 Score: 256
Period size: 40 Copynumber: 5.6 Consensus size: 40
56480127 CTTGCACAAG
* * *
56480137 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
56480177 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
56480217 GCCTTCGAGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
56480257 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACT-AGCACAAAT
* * * *
56480297 GCC-TCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
56480337 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
56480361 CTTTCGAATA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 22 0.14
40 116 0.75
41 17 0.11
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:56488165 original size:22 final size:21
Alignment explanation
Indices: 56488112--56488165 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
56488102 CGACCTTTGG
**
56488112 CACGGGCGTGTCCTTGGGTCA
1 CACGGGCGTGTCCTTGGACCA
* *
56488133 CACGAGTGTGTCCCTTGGACCA
1 CACGGGCGTGT-CCTTGGACCA
56488155 CACGGGCGTGT
1 CACGGGCGTGT
56488166 GAGCCCTGCA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.13, C:0.30, G:0.35, T:0.22
Consensus pattern (21 bp):
CACGGGCGTGTCCTTGGACCA
Found at i:56490164 original size:27 final size:27
Alignment explanation
Indices: 56490136--56490312 Score: 176
Period size: 27 Copynumber: 6.6 Consensus size: 27
56490126 AAACATACAT
* * *
56490136 CACATTAGGGAAAAATCGTCATTTTAT
1 CACATAAGGGCAAAATCGTCATTTTAA
* * *
56490163 CACACAAGGGCAAAATCTTCATTTTAT
1 CACATAAGGGCAAAATCGTCATTTTAA
* * * *
56490190 CGCACAAGGGAAAAATCATCATTTTAA
1 CACATAAGGGCAAAATCGTCATTTTAA
*
56490217 CACATAAGGGCAAAA-CTGTCAATTTAA
1 CACATAAGGGCAAAATC-GTCATTTTAA
* * *
56490244 CACATAAGGGCAAAACCGTAAATTTAA
1 CACATAAGGGCAAAATCGTCATTTTAA
* * **
56490271 CACATAAGGGTAAAATAGTCATTTTGC
1 CACATAAGGGCAAAATCGTCATTTTAA
56490298 CACATAAGGGCAAAA
1 CACATAAGGGCAAAA
56490313 CAGTTATTTT
Statistics
Matches: 126, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 124 0.98
28 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAATCGTCATTTTAA
Found at i:56490348 original size:27 final size:27
Alignment explanation
Indices: 56490318--56490562 Score: 265
Period size: 27 Copynumber: 9.0 Consensus size: 27
56490308 CAAAACAGTT
**
56490318 ATTTTACCCTACAGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * * *
56490345 ATTTTATCTTATGGAGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* ** * **
56490372 ATCTTACCCTACAGCGGTATTTCAATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
56490399 ATCTTACCCTATTGGGGGTATTTTGGTC
1 ATTTTACCCTA-TGGGGGTATTTCGGTC
* * *
56490427 ATTTTATCTTATGGGGGTATTTGGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
**
56490454 ATTTTACCCTATGGAAGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
56490481 ATTTTACCCTTTGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
56490508 ATTTTACCCTATGGGGATATTTCAGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
56490535 ATCTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
56490562 A
1 A
56490563 CCATTTCTGC
Statistics
Matches: 178, Mismatches: 39, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
27 160 0.90
28 18 0.10
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGGTC
Found at i:56490474 original size:82 final size:81
Alignment explanation
Indices: 56490331--56490557 Score: 292
Period size: 82 Copynumber: 2.8 Consensus size: 81
56490321 TTACCCTACA
* * * ** *
56490331 GGGGTATTTCGGTCATTTTATCTTATGGAGGTATTTCGATCATCTTACCCTACAGCGGTATTTCA
1 GGGGTATTTTGGTCATTTTATCTTATGGGGGTATTTCGGTCATCTTACCCTATGGAGGTATTTCA
56490396 ATCATCTTACCCTATTG
66 ATCATCTTACCCT-TTG
* * * *
56490413 GGGGTATTTTGGTCATTTTATCTTATGGGGGTATTTGGGTCATTTTACCCTATGGAAGTATTTCG
1 GGGGTATTTTGGTCATTTTATCTTATGGGGGTATTTCGGTCATCTTACCCTATGGAGGTATTTCA
* *
56490478 GTCATTTTACCCTTTG
66 ATCATCTTACCCTTTG
* * * * *
56490494 GGGGTATTTTGGTCATTTTACCCTATGGGGATATTTCAGTCATCTTACCCTATGGGGGTATTTC
1 GGGGTATTTTGGTCATTTTATCTTATGGGGGTATTTCGGTCATCTTACCCTATGGAGGTATTTC
56490558 GGTCACCATT
Statistics
Matches: 125, Mismatches: 20, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
81 59 0.47
82 66 0.53
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.42
Consensus pattern (81 bp):
GGGGTATTTTGGTCATTTTATCTTATGGGGGTATTTCGGTCATCTTACCCTATGGAGGTATTTCA
ATCATCTTACCCTTTG
Found at i:56492889 original size:48 final size:46
Alignment explanation
Indices: 56492815--56492942 Score: 141
Period size: 48 Copynumber: 2.7 Consensus size: 46
56492805 CTCGTACACT
* **
56492815 AAGTGCCAATATCATAGCCC-ATAGCCAAATCAGTGAAGCTTGCACCCG
1 AAGTGCCGATATCATAGCCCGA-AGCCAAATCAGT-AA-CTCACACCCG
*
56492863 AAGTGTCGATATCATAGCCCGAAGCCAAATCAAAGTAACTCACACCCG
1 AAGTGCCGATATCATAGCCCGAAGCCAAATC--AGTAACTCACACCCG
* * *
56492911 TAGTGCCGATTTCATGGCCCGAAGCCAAATCA
1 AAGTGCCGATATCATAGCCCGAAGCCAAATCA
56492943 ATATATCCCC
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
46 1 0.01
48 62 0.90
49 3 0.04
50 3 0.04
ACGTcount: A:0.34, C:0.29, G:0.19, T:0.19
Consensus pattern (46 bp):
AAGTGCCGATATCATAGCCCGAAGCCAAATCAGTAACTCACACCCG
Found at i:56496583 original size:14 final size:15
Alignment explanation
Indices: 56496561--56496590 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
56496551 GAATATCAAG
56496561 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
56496576 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
56496590 A
1 A
56496591 AGTCAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:56502999 original size:30 final size:30
Alignment explanation
Indices: 56502958--56503018 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
56502948 GAGTTTTTAG
* * *
56502958 GATCCACACGGGTAGGCCACACGCCCATGT
1 GATCCACACGGGCAGCCCACACACCCATGT
* *
56502988 GATCCATACGGGCAGCCCATACACCCATGT
1 GATCCACACGGGCAGCCCACACACCCATGT
56503018 G
1 G
56503019 CCAGCCTATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.36, G:0.25, T:0.15
Consensus pattern (30 bp):
GATCCACACGGGCAGCCCACACACCCATGT
Found at i:56506422 original size:43 final size:44
Alignment explanation
Indices: 56506358--56506445 Score: 133
Period size: 43 Copynumber: 2.0 Consensus size: 44
56506348 GAACTATGTG
56506358 ATCTGAACTCATGAGTAGTGGTCTAAGTT-ATGATATATATGAC
1 ATCTGAACTCATGAGTAGTGGTCTAAGTTCATGATATATATGAC
* ** *
56506401 ATCTGAACTCATGAGTTGTGGTCTGGGTTCATGATATATGTGAC
1 ATCTGAACTCATGAGTAGTGGTCTAAGTTCATGATATATATGAC
56506445 A
1 A
56506446 CATGTTTTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 26 0.65
44 14 0.35
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.35
Consensus pattern (44 bp):
ATCTGAACTCATGAGTAGTGGTCTAAGTTCATGATATATATGAC
Found at i:56509288 original size:138 final size:137
Alignment explanation
Indices: 56508914--56509328 Score: 620
Period size: 137 Copynumber: 3.0 Consensus size: 137
56508904 ACATAGATAA
*** *
56508914 AATTAATATATGAATTTTATTCATACAAAATATTAATTGTATAT-TTTATAAAATTTATCAATAT
1 AATTAATATATGAATTTTATTCATACAAAATATTAATTGTATATATTTACCGAATTTATTAATAT
* *
56508978 AAATTGTTATAGTAATTAATTTCGGTCAAAATATATAAA-ACATGGAAATTAATATTCTTTTGGA
66 AAATAGTTATACTAATTAATTTCGGTCAAAATATA-AAAGACATGGAAATTAATATTCTTTTGGA
*
56509042 AATAATAT
130 AAGAATAT
* * *
56509050 AATTAATATATGAATCTGATTCATATAAAATATTAATT-TATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTTATTCATACAAAATATTAATTGTATATA-TTTACCGAATTTATTAATA
* * ** * *
56509114 TAAATATTTATATTAATTAATTTCATTCAAAATATAAAAGACAAGGAAATTAATATTCTTTTGAA
65 TAAATAGTTATACTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
56509179 AAGAATAT
130 AAGAATAT
56509187 AATTAATATATGAATTTTATTCATACAAAATATTAATTGTATATAATTTACCGAATTTATTAATA
1 AATTAATATATGAATTTTATTCATACAAAATATTAATTGTATAT-ATTTACCGAATTTATTAATA
*
56509252 TAAATAGTTATACTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
65 TAAATAGTTATACTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
*
56509317 AAGAATTT
130 AAGAATAT
56509325 AATT
1 AATT
56509329 TCTTTTTCTA
Statistics
Matches: 248, Mismatches: 26, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
135 5 0.02
136 38 0.15
137 111 0.45
138 93 0.38
139 1 0.00
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.42
Consensus pattern (137 bp):
AATTAATATATGAATTTTATTCATACAAAATATTAATTGTATATATTTACCGAATTTATTAATAT
AAATAGTTATACTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAA
AGAATAT
Found at i:56509448 original size:74 final size:75
Alignment explanation
Indices: 56509312--56509450 Score: 210
Period size: 74 Copynumber: 1.9 Consensus size: 75
56509302 TAATATTCTT
* * * *
56509312 TTGGAAAGAATTTAATTTCTTTTTCTAAGTTTCCATTTGCCTTCTCTATTAATAAAGGAATAATC
1 TTGGAAAAAATATAATTCCTTTTTCTAAGCTTCCATTTGCCTTCTCTATTAATAAAGGAATAATC
56509377 CTATATTGTA
66 CTATATTGTA
*
56509387 TTGGAAAAAATATAATTCCTTTTTCTAA-CTTCCATTTGTCTTCTCTATTAAT-AAGGTAATAAT
1 TTGGAAAAAATATAATTCCTTTTTCTAAGCTTCCATTTGCCTTCTCTATTAATAAAGG-AATAAT
56509450 C
65 C
56509451 ATGGTTTTCC
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
73 4 0.07
74 29 0.50
75 25 0.43
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (75 bp):
TTGGAAAAAATATAATTCCTTTTTCTAAGCTTCCATTTGCCTTCTCTATTAATAAAGGAATAATC
CTATATTGTA
Found at i:56511557 original size:24 final size:24
Alignment explanation
Indices: 56511524--56511573 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
56511514 AAGTCTGTCT
56511524 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
56511548 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAAGATTTAGGAGCTGATAAG
56511572 GG
1 GG
56511574 TGAACTGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.42, T:0.22
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:56513003 original size:27 final size:26
Alignment explanation
Indices: 56512965--56513073 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 26
56512955 AAGCGTCCTT
*
56512965 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
*
56512992 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTG
* *
56513019 GTGGTTCTGCCACGATTATCTGTATTTG
1 GTGGCTCTGCCAC-ATTATCTG-ATCTG
* * *
56513047 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGATCTG
56513073 G
1 G
56513074 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.09
27 48 0.70
28 15 0.22
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.39
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:56518717 original size:24 final size:24
Alignment explanation
Indices: 56518684--56518757 Score: 112
Period size: 24 Copynumber: 3.1 Consensus size: 24
56518674 AAGTCTATCT
*
56518684 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
56518708 GGAGAGGATTTAAGAGCTGATCAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
56518732 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
56518756 GG
1 GG
56518758 TGAACTGTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.32, C:0.05, G:0.41, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:56520228 original size:27 final size:26
Alignment explanation
Indices: 56520188--56520292 Score: 120
Period size: 27 Copynumber: 3.9 Consensus size: 26
56520178 AGGAAGCGTC
*
56520188 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
56520215 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
56520242 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
56520270 CTGGTGACTTTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
56520293 ATTCTGGCAG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.03
27 50 0.75
28 15 0.22
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:56520292 original size:54 final size:54
Alignment explanation
Indices: 56520188--56520299 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
56520178 AGGAAGCGTC
* *
56520188 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* * * * *
56520242 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTTTGTCACAT-TATCTATT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
56520296 CTGG
1 CTGG
56520300 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:56521543 original size:34 final size:34
Alignment explanation
Indices: 56521505--56521577 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
56521495 CATATTATAT
56521505 TGAAATGAGCGAAGGCCCAGACTGCCACTATTAC
1 TGAAATGAGCGAAGGCCCAGACTGCCACTATTAC
* ** * * * *
56521539 TGAAATGGGCTTAGGCCCAGATTGCTATTGTTAC
1 TGAAATGAGCGAAGGCCCAGACTGCCACTATTAC
56521573 TGAAA
1 TGAAA
56521578 GAGGGGCTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (34 bp):
TGAAATGAGCGAAGGCCCAGACTGCCACTATTAC
Found at i:56529464 original size:5 final size:6
Alignment explanation
Indices: 56529438--56529468 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
56529428 ATAAGGCCTC
56529438 TTTAAT TTTAAT TTTAAT TTT-AT TTTAAT TT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TT
56529469 GGGGATTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTAAT
Found at i:56529464 original size:11 final size:12
Alignment explanation
Indices: 56529438--56529468 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
56529428 ATAAGGCCTC
56529438 TTTAATTTTAAT
1 TTTAATTTTAAT
56529450 TTTAATTTT-AT
1 TTTAATTTTAAT
56529461 TTTAATTT
1 TTTAATTT
56529469 GGGGATTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTAATTTTAAT
Found at i:56532166 original size:22 final size:20
Alignment explanation
Indices: 56532129--56532168 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
56532119 ATTAAGATGC
*
56532129 GATTAATTTTAGTTAATCAT
1 GATTAATTTTAATTAATCAT
56532149 GATTACATATTTAATTAATC
1 GATTA-AT-TTTAATTAATC
56532169 TTATTTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 2 0.12
22 10 0.59
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.47
Consensus pattern (20 bp):
GATTAATTTTAATTAATCAT
Found at i:56554068 original size:40 final size:40
Alignment explanation
Indices: 56553977--56554197 Score: 243
Period size: 40 Copynumber: 5.5 Consensus size: 40
56553967 ACCCAAGTAT
* * *
56553977 CTTCGGGATTTAG-CCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
56554016 CTTTGGGTCTTAGCCCGGATATAGTCACTAGCATAAATAC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
56554056 CTTCGGGACTTAGCCTGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
56554096 CTTCGGGTCTTAGCCCAGATATAG-CAACTCGGACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
56554136 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
*
56554176 CTTTGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
56554198 CATTCGAATA
Statistics
Matches: 149, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
39 13 0.09
40 131 0.88
41 5 0.03
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:56562322 original size:40 final size:40
Alignment explanation
Indices: 56562245--56562465 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
56562235 ACCCAAGTAT
* *
56562245 CTTCGGGAT-TTAG-CCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
**
56562284 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCGTAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
56562324 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
56562364 CTTCGGGTCTTAGCCCAGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
56562404 CTTCAGATCTTAGTCCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
56562444 CTTTGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
56562466 CATTCGAATA
Statistics
Matches: 156, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.08
40 141 0.90
41 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:56566511 original size:43 final size:43
Alignment explanation
Indices: 56566431--56566576 Score: 138
Period size: 43 Copynumber: 3.4 Consensus size: 43
56566421 AGCTCATACA
* * *
56566431 ATGCCAATATCCTAGA-TGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATATCCTAGACAG-GGTCTTACACGAAATCAAATATCG
* * *
56566474 ATGCTACTGTTCC-AGACAGGGTCTTACACGAAATCAAATAT-G
1 ATGCCAAT-ATCCTAGACAGGGTCTTACACGAAATCAAATATCG
* *
56566516 ATGCCAATATCCTAGACATGGTCTTACACATAAATCACAA-ATCG
1 ATGCCAATATCCTAGACAGGGTCTTACAC-GAAATCA-AATATCG
* *
56566560 ATGCCAACATCCCAGAC
1 ATGCCAATATCCTAGAC
56566577 GTGGTGTTAC
Statistics
Matches: 84, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
41 3 0.04
42 22 0.26
43 37 0.44
44 22 0.26
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGCCAATATCCTAGACAGGGTCTTACACGAAATCAAATATCG
Found at i:56580021 original size:40 final size:40
Alignment explanation
Indices: 56579927--56580111 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
56579917 TATTCGAATG
*
56579927 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
56579968 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
56580008 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
56580048 ATATCCGGGGTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
56580088 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
56580112 CTTGCGCAAG
Statistics
Matches: 118, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
39 1 0.01
40 87 0.74
41 29 0.25
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:56580102 original size:80 final size:81
Alignment explanation
Indices: 56579929--56580111 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 81
56579919 TTCGAATGAT
* * *
56579929 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGCAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGCAT
* * *
56579994 TCGTGCGAGTTGCTAT
66 TCATGCGAGTTGCCAC
* * **
56580010 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGATTATATCCGGGGTAAG-TCCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGGCA
* *
56580073 TTTATGCTAG-TGACCAC
65 TTCATGCGAGTTG-CCAC
56580090 ATCCGGGCTAAGACCCGAAGGC
1 ATCCGGGCTAAGACCCGAAGGC
56580112 CTTGCGCAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.03
80 55 0.62
81 30 0.34
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (81 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGCAT
TCATGCGAGTTGCCAC
Found at i:56583107 original size:27 final size:27
Alignment explanation
Indices: 56583077--56583282 Score: 277
Period size: 27 Copynumber: 7.6 Consensus size: 27
56583067 TTAGTTTACC
* *
56583077 AAATCACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
56583104 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
56583131 AAATTACAAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
56583158 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
56583185 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
56583212 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
56583239 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
56583266 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
56583283 TCGACCTGTA
Statistics
Matches: 158, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 158 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:56583143 original size:54 final size:54
Alignment explanation
Indices: 56583070--56583389 Score: 291
Period size: 54 Copynumber: 5.9 Consensus size: 54
56583060 GAATACTTTA
* * * *
56583070 GTTTACCAAATCACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTG
1 GTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTG
* * * *
56583124 GTTTACAAAATTACAAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTT
1 GTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTG
* * * *
56583178 GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTA
1 GTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTG
** * ** *
56583232 GTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCTCG
1 GTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTG
*** ** *** * *
56583286 ACCTGTAAAATTATGGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCTTG
1 GTTTACAAAATTACCAAAATACCCCT-GATTTGTAAAATTACCAAAATACCCTTG
* * *** * ** *
56583340 CTTTACAGAATTACCATTTTACCCTTGATTTACAAAATTACCGAAATACC
1 GTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACC
56583390 TCTGTGGGGT
Statistics
Matches: 215, Mismatches: 49, Indels: 4
0.80 0.18 0.01
Matches are distributed among these distances:
53 4 0.02
54 208 0.97
55 3 0.01
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (54 bp):
GTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTG
Found at i:56583335 original size:27 final size:27
Alignment explanation
Indices: 56583077--56583337 Score: 226
Period size: 27 Copynumber: 9.7 Consensus size: 27
56583067 TTAGTTTACC
* * *
56583077 AAATCACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
56583104 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
56583131 AAATTACAAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
56583158 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
*
56583185 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
56583212 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
56583239 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** **
56583266 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
56583293 AAATTATGGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
56583320 AAATTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
56583338 TGCTTTACAG
Statistics
Matches: 197, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
26 1 0.01
27 193 0.98
28 3 0.02
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:56583351 original size:27 final size:26
Alignment explanation
Indices: 56583319--56583389 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 26
56583309 CTCGACTTGT
*
56583319 AAAATTACCAAAGTACCCTTGCTTTAC
1 AAAATTACCAAA-TACCCTTGATTTAC
* **
56583346 AGAATTACCATTTTACCCTTGATTTAC
1 AAAATTACCA-AATACCCTTGATTTAC
56583373 AAAATTACCGAAATACC
1 AAAATTACC-AAATACC
56583390 TCTGTGGGGT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (26 bp):
AAAATTACCAAATACCCTTGATTTAC
Found at i:56583405 original size:27 final size:27
Alignment explanation
Indices: 56583375--56583623 Score: 320
Period size: 27 Copynumber: 9.3 Consensus size: 27
56583365 TGATTTACAA
* *
56583375 AATTACCGAAATACCTCTGTGGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
56583402 AATTACTAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
56583429 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
56583456 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
56583483 AATTACCGAAATACCCCTGTAGGGTAC
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
56583510 AATTATCGCAATACCGCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
56583537 AATTACCGAAATACCCATGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
56583564 AATTACTAAAACACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
56583591 AATTACCGAGATA-CCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
56583617 AATTACC
1 AATTACC
56583624 ATTTTGCCCC
Statistics
Matches: 189, Mismatches: 33, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
26 17 0.09
27 172 0.91
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:56584103 original size:22 final size:23
Alignment explanation
Indices: 56584052--56584114 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
56584042 AAAGCCTTCT
* *
56584052 GATTATGGCTTTGTGTCAACCTA
1 GATTATGGCTCTGTGCCAACCTA
* *
56584075 CA-CATGGCTCTGTGCCAACC-A
1 GATTATGGCTCTGTGCCAACCTA
*
56584096 GATTATGGCTGTGTGCCAA
1 GATTATGGCTCTGTGCCAA
56584115 ACATATTTTC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 2 0.06
22 29 0.91
23 1 0.03
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (23 bp):
GATTATGGCTCTGTGCCAACCTA
Found at i:56584309 original size:26 final size:27
Alignment explanation
Indices: 56584272--56584346 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
56584262 TATTCTGTTA
* *
56584272 AGTGGCTTTGCCACATTATCTGT-TCT
1 AGTGGCTCTGCCACAATATCTGTATCT
56584298 AGTGGCTCTGCCACAATATCTGTATCT
1 AGTGGCTCTGCCACAATATCTGTATCT
* * *
56584325 GGTGACTCTGTCACAATATCTG
1 AGTGGCTCTGCCACAATATCTG
56584347 ATAACTGAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 21 0.49
27 22 0.51
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
AGTGGCTCTGCCACAATATCTGTATCT
Found at i:56584522 original size:6 final size:6
Alignment explanation
Indices: 56584511--56584632 Score: 99
Period size: 6 Copynumber: 19.8 Consensus size: 6
56584501 TTACCTAATA
* * * *
56584511 CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT TTGATT TTGATT
1 CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT
* *
56584560 CTG-TT ACCTGATA CTGATT CTGATT CTGATT CTG-TCAC CTGATT CTGATT
1 CTGATT --CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT
56584610 CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGA-TT CTGAT
56584633 AATGTTTCTT
Statistics
Matches: 95, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
5 6 0.06
6 76 0.80
7 10 0.11
8 3 0.03
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:56584533 original size:31 final size:31
Alignment explanation
Indices: 56584482--56584623 Score: 212
Period size: 31 Copynumber: 4.5 Consensus size: 31
56584472 TTGCATTCAC
* *
56584482 ATTCTGATTTTTTATTCTGTTACCTAATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
56584514 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
56584545 ATTTTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * *
56584576 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
56584607 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
56584624 AGTTCTGATA
Statistics
Matches: 103, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 96 0.93
32 7 0.07
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:56585771 original size:15 final size:15
Alignment explanation
Indices: 56585751--56585786 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
56585741 ACACCCTGAA
*
56585751 TTTGGGGCTAGAAGT
1 TTTGGGCCTAGAAGT
56585766 TTTGGGCCTAGAAGT
1 TTTGGGCCTAGAAGT
56585781 TTTGGG
1 TTTGGG
56585787 TTTTGAGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.17, C:0.08, G:0.39, T:0.36
Consensus pattern (15 bp):
TTTGGGCCTAGAAGT
Found at i:56586599 original size:34 final size:34
Alignment explanation
Indices: 56586560--56586628 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
56586550 GGCCATTCGT
56586560 ATTGTTATCCCTATTTAGAATACTTTAGTTTACC
1 ATTGTTATCCCTATTTAGAATACTTTAGTTTACC
* *
56586594 ATTGTTATCCTTGTTTAGAATACTTTAGTTTACC
1 ATTGTTATCCCTATTTAGAATACTTTAGTTTACC
56586628 A
1 A
56586629 ACTTACCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.26, C:0.16, G:0.10, T:0.48
Consensus pattern (34 bp):
ATTGTTATCCCTATTTAGAATACTTTAGTTTACC
Found at i:56586975 original size:27 final size:27
Alignment explanation
Indices: 56586631--56586971 Score: 378
Period size: 27 Copynumber: 12.6 Consensus size: 27
56586621 GTTTACCAAC
*
56586631 TTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
* * *
56586658 TTACTAAAATACCCTTGGTTTATACAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
* *
56586685 TCACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
**
56586712 TTACCAAAATACCCTTGGTTTACAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
56586739 TTACCAAAATACCCTTGGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
* * * *
56586766 TTACTAAAATACCATTTGTTTATAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
*
56586793 TTACCAAAATACCAC-TAGTTTGTAAAA
1 TTACCAAAATACC-CTTGGTTTGTAAAA
*
56586820 TTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
** *
56586847 TTATGAAAATACCCTTAGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
* * * *
56586874 TTACAAAAATACCCCTGATTTGTGAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
* * ***
56586901 TTACTAAAATACCCTCGACCTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
*** * *
56586928 TTATGGAAATACCCTCGATTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
*
56586955 TTACCAAAGTACCCTTG
1 TTACCAAAATACCCTTG
56586972 ATTTACAGAA
Statistics
Matches: 262, Mismatches: 50, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
26 1 0.00
27 261 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
TTACCAAAATACCCTTGGTTTGTAAAA
Found at i:56587021 original size:27 final size:27
Alignment explanation
Indices: 56586924--56587022 Score: 83
Period size: 27 Copynumber: 3.7 Consensus size: 27
56586914 CTCGACCTGT
* **
56586924 AAAATTATGGAAATACCCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTAC
* *
56586951 AAAATTA-CCAAAGTACCCTTGATTTAC
1 AAAATTATCGAAA-TACCCTCGATTTAC
* * *** *
56586978 AGAATTACCGTTTTACCCTCAATTTAC
1 AAAATTATCGAAATACCCTCGATTTAC
56587005 AAAATTATCGAAATACCC
1 AAAATTATCGAAATACCC
56587023 CTGTAGGGTA
Statistics
Matches: 53, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
26 3 0.06
27 49 0.92
28 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCGATTTAC
Done.