Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 117 of 284
Found at i:38626165 original size:26 final size:24
Alignment explanation
Indices: 38626101--38626148 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
38626091 AAAGCTTATG
38626101 ATTATTAATTCGTGAAATGACGAT
1 ATTATTAATTCGTGAAATGACGAT
38626125 ATTATTAATTCGTGAAATGACGAT
1 ATTATTAATTCGTGAAATGACGAT
38626149 TTCAAGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (24 bp):
ATTATTAATTCGTGAAATGACGAT
Found at i:38632505 original size:20 final size:21
Alignment explanation
Indices: 38632467--38632506 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
38632457 GTTATAATGA
*
38632467 CCACATGGGCGTGTTGCCCTT
1 CCACATGGGCATGTTGCCCTT
38632488 CCACATGGGCAT-TTGCCCT
1 CCACATGGGCATGTTGCCCT
38632507 GTTTCATGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.12, C:0.35, G:0.25, T:0.28
Consensus pattern (21 bp):
CCACATGGGCATGTTGCCCTT
Found at i:38634281 original size:26 final size:26
Alignment explanation
Indices: 38634245--38634297 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
38634235 ATATGTGCAT
38634245 TGGTTGCTAAATGGAGAAGAATCGGC
1 TGGTTGCTAAATGGAGAAGAATCGGC
38634271 TGGTTGCTAAATGGAGAAGAATCGGC
1 TGGTTGCTAAATGGAGAAGAATCGGC
38634297 T
1 T
38634298 AGCAAGTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.34, T:0.25
Consensus pattern (26 bp):
TGGTTGCTAAATGGAGAAGAATCGGC
Found at i:38635120 original size:40 final size:40
Alignment explanation
Indices: 38635065--38635298 Score: 369
Period size: 40 Copynumber: 5.8 Consensus size: 40
38635055 GCATTTGTAT
* *
38635065 ATATATCCGAGCTAAGACCCGAAGGCATTTGTGCGAGTCG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
*
38635105 ATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
38635145 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* * *
38635185 ATATATCCGGGCTAAGACCCGCAGGCAATTGTGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
*
38635225 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* ** *
38635265 CTATGCCCGGGCTAAGACCCGAAGGCAATTGTGC
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
38635299 TTGTGGTAAT
Statistics
Matches: 178, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 178 1.00
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
Found at i:38638825 original size:46 final size:44
Alignment explanation
Indices: 38638725--38638938 Score: 182
Period size: 46 Copynumber: 4.6 Consensus size: 44
38638715 GGTAGGTGCA
* *
38638725 GATGCCATGTCCCAGACATAGTCTTACATTGACACATCTCGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTC-AAGGCC
* *
38638771 GATGCATGTCTCAGACATGTCTTACACTGACTTACATTTCAAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCAAGGCC
* * * *
38638817 GATGCATGTCGCATACATGTCTTACACTAACACTTATCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGACAC--ATCTCAAGGCC
* * *
38638863 GATGTCATGTCCCAAACATGGTCTTACACTGGCTC-TCAT-AATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACACATC-TCAA---GGCC
*
38638911 GATGCATGTCCCTGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
38638939 ATCTCACACA
Statistics
Matches: 140, Mismatches: 17, Indels: 22
0.78 0.09 0.12
Matches are distributed among these distances:
44 14 0.10
45 18 0.13
46 65 0.46
47 24 0.17
48 19 0.14
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.29
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGACACATCTCAAGGCC
Found at i:38647698 original size:40 final size:40
Alignment explanation
Indices: 38647650--38647841 Score: 260
Period size: 40 Copynumber: 4.8 Consensus size: 40
38647640 ATAACAACTC
*
38647650 GCACAAATGCCTTCGGGTCTTAGCTCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* * * * *
38647690 GCATAAATGCCTTCAGGACTTAACCCGGATATAGTCGCTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* *
38647730 GCACAAATGCCTTCGAGTCTTAGCCCGGATATAG-CAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC-ACTA
* *
38647770 GCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* *
38647810 GCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
38647842 CATTCGAATA
Statistics
Matches: 129, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 127 0.98
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
Found at i:38656333 original size:10 final size:10
Alignment explanation
Indices: 38656320--38656344 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
38656310 ACGTTTTATC
38656320 ATTATTATGT
1 ATTATTATGT
38656330 ATTATTATGT
1 ATTATTATGT
38656340 ATTAT
1 ATTAT
38656345 AATCTTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (10 bp):
ATTATTATGT
Found at i:38657983 original size:21 final size:21
Alignment explanation
Indices: 38657928--38657988 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
38657918 GTTATAATGA
*
38657928 CCACACGTGCGTGTAGCCCTT
1 CCACACGGGCGTGTAGCCCTT
* * *
38657949 CCACACAGGCGTGTTGCCTTT
1 CCACACGGGCGTGTAGCCCTT
*
38657970 CCACACGGGTGTGT-GCCCT
1 CCACACGGGCGTGTAGCCCT
38657989 GTTTCATGTG
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.13, C:0.36, G:0.26, T:0.25
Consensus pattern (21 bp):
CCACACGGGCGTGTAGCCCTT
Found at i:38662031 original size:30 final size:30
Alignment explanation
Indices: 38661997--38662056 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
38661987 GAGGCCTAGA
* *
38661997 ACATGCTTTGTAAGCGGTTCAGGACTAAAC
1 ACATGCATTGGAAGCGGTTCAGGACTAAAC
* *
38662027 ACATGCATTGGAGGTGGTTCAGGACTAAAC
1 ACATGCATTGGAAGCGGTTCAGGACTAAAC
38662057 CGAGAAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (30 bp):
ACATGCATTGGAAGCGGTTCAGGACTAAAC
Found at i:38663589 original size:14 final size:15
Alignment explanation
Indices: 38663570--38663599 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
38663560 ATATTTAACT
38663570 TGTTCTTAATT-TTG
1 TGTTCTTAATTCTTG
38663584 TGTTCTTAATTCTTG
1 TGTTCTTAATTCTTG
38663599 T
1 T
38663600 TTTGATATCC
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:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TGTTCTTAATTCTTG
Found at i:38667374 original size:56 final size:55
Alignment explanation
Indices: 38667281--38667403 Score: 133
Period size: 56 Copynumber: 2.2 Consensus size: 55
38667271 CTGCTAAAAC
* ** **
38667281 AACACGGGCATGCGACACGCCTTTGCCTTGAACCCAT-GGTCAAACCTGTCAAATTT
1 AACACGGGCGTGCGACACGCCCATGCCAAGAACCCATGGGT-AAACCTGTCAAA-TT
* *
38667337 AACACGGGCGTGCGACACGCCCATGCCAAGCAA-CCATGGGTGAACCTGTTAAATT
1 AACACGGGCGTGCGACACGCCCATGCCAAG-AACCCATGGGTAAACCTGTCAAATT
*
38667392 AACATGGGCGTG
1 AACACGGGCGTG
38667404 GGCATACATA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
55 13 0.23
56 39 0.68
57 5 0.09
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (55 bp):
AACACGGGCGTGCGACACGCCCATGCCAAGAACCCATGGGTAAACCTGTCAAATT
Found at i:38671705 original size:27 final size:27
Alignment explanation
Indices: 38671675--38671849 Score: 199
Period size: 27 Copynumber: 6.4 Consensus size: 27
38671665 ATTGTACAGT
*
38671675 ACTAAGTGTGCGATTTGACTATGTTGC
1 ACTAAGTGTGCGATTTGACTATGTAGC
** *
38671702 ACTAAGTGTGCGAAATGAATATG-ATGC
1 ACTAAGTGTGCGATTTGACTATGTA-GC
* * **
38671729 ACTAAGTGTGCGAATTGACCATGCGGC
1 ACTAAGTGTGCGATTTGACTATGTAGC
38671756 ACTAAGTGTGCGAGTTTGACTATGTAGC
1 ACTAAGTGTGCGA-TTTGACTATGTAGC
* *
38671784 ACTAAGTGTGCGATTTGATTACGTAGC
1 ACTAAGTGTGCGATTTGACTATGTAGC
* * *
38671811 ACTAAGTGTGCGAGTTGATTATATAGC
1 ACTAAGTGTGCGATTTGACTATGTAGC
*
38671838 ACTGAGTGTGCG
1 ACTAAGTGTGCG
38671850 GACTCAATAT
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
ACTAAGTGTGCGATTTGACTATGTAGC
Found at i:38671786 original size:82 final size:81
Alignment explanation
Indices: 38671675--38671828 Score: 229
Period size: 82 Copynumber: 1.9 Consensus size: 81
38671665 ATTGTACAGT
* *
38671675 ACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTG
1 ACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGTG
38671739 CGAATTGACCATGCGGC
65 CGAATTGACCATGCGGC
** *
38671756 ACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTG
1 ACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTG
*
38671821 CGAGTTGA
65 CGAATTGA
38671829 TTATATAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 13 0.20
82 51 0.78
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
ACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGC
GAATTGACCATGCGGC
Found at i:38671840 original size:82 final size:81
Alignment explanation
Indices: 38671669--38671849 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
38671659 GATTAAATTG
* * *
38671669 TACAGTACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
38671734 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
38671750 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
38671814 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
38671832 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38671850 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:38679594 original size:43 final size:42
Alignment explanation
Indices: 38679491--38679607 Score: 130
Period size: 41 Copynumber: 2.8 Consensus size: 42
38679481 CATACTATCT
* *
38679491 CATATCAATGCC-ATTGTCCCAGACAGGGTCTTACACGAATCA
1 CATATCAATGCCGA-TGTCCCAGACATGGTCTTACACGAACCA
* * * *
38679533 AATA-CGATGCCGATGTCCCCGACATGGTCTTACTCGTAACCA
1 CATATCAATGCCGATGTCCCAGACATGGTCTTACACG-AACCA
* *
38679575 CATATCAATGCCGACGTCCCAGACGTGGTCTTA
1 CATATCAATGCCGATGTCCCAGACATGGTCTTA
38679608 ATCGAGAACA
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
41 26 0.43
42 11 0.18
43 24 0.39
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (42 bp):
CATATCAATGCCGATGTCCCAGACATGGTCTTACACGAACCA
Found at i:38679620 original size:43 final size:43
Alignment explanation
Indices: 38679449--38679622 Score: 112
Period size: 43 Copynumber: 4.1 Consensus size: 43
38679439 TCACATATAC
* * * * *
38679449 CATA-CAATGCCAACGTCCTAGACGTGGTCTTACATAC-T-ATCT
1 CATATCAATGCCGACGTCCCAGACATGGTCTTA-AT-CGTAAACA
* * *
38679491 CATATCAATGCC-ATTGTCCCAGACAGGGTCTTACA-CG-AATCA
1 CATATCAATGCCGA-CGTCCCAGACATGGTCTTA-ATCGTAAACA
* * * * * *
38679533 AATA-CGATGCCGATGTCCCCGACATGGTCTTACTCGTAACCA
1 CATATCAATGCCGACGTCCCAGACATGGTCTTAATCGTAAACA
*
38679575 CATATCAATGCCGACGTCCCAGACGTGGTCTTAATCG-AGAACA
1 CATATCAATGCCGACGTCCCAGACATGGTCTTAATCGTA-AACA
38679618 CATAT
1 CATAT
38679623 TGGAAATCCT
Statistics
Matches: 105, Mismatches: 18, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
41 26 0.25
42 20 0.19
43 59 0.56
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (43 bp):
CATATCAATGCCGACGTCCCAGACATGGTCTTAATCGTAAACA
Found at i:38688966 original size:29 final size:29
Alignment explanation
Indices: 38688933--38688993 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
38688923 CTCTTTTAGA
38688933 GTTACCTACCTGGTGCATTATTTTATTAT
1 GTTACCTACCTGGTGCATTATTTTATTAT
38688962 GTTACCTACCTGGTGCATTATTTTATTAT
1 GTTACCTACCTGGTGCATTATTTTATTAT
38688991 GTT
1 GTT
38688994 TTTTATTAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.49
Consensus pattern (29 bp):
GTTACCTACCTGGTGCATTATTTTATTAT
Found at i:38694595 original size:40 final size:40
Alignment explanation
Indices: 38694521--38694702 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
38694511 AACCCAAGTA
* *
38694521 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* * *
38694560 CCTTTGGGCCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
38694600 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
38694640 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
38694680 CCTTCGAGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
38694703 CATTCGAATA
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 11 0.08
40 116 0.89
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:38701783 original size:20 final size:20
Alignment explanation
Indices: 38701758--38701809 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
38701748 CAGGTTGGGG
38701758 ACACGGGCGTGTCCCAATGC
1 ACACGGGCGTGTCCCAATGC
38701778 ACACGGGCGTGTCCCAATGC
1 ACACGGGCGTGTCCCAATGC
*
38701798 ACACGAGCGTGT
1 ACACGGGCGTGT
38701810 GTATGGTCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.33, G:0.31, T:0.15
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAATGC
Found at i:38703173 original size:16 final size:15
Alignment explanation
Indices: 38703149--38703178 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
38703139 GCAGGGGAAG
38703149 GAAAGAAAGAAAGAA
1 GAAAGAAAGAAAGAA
38703164 GAAAGAAAAGAAAGA
1 GAAAG-AAAGAAAGA
38703179 GGGAGAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
GAAAGAAAGAAAGAA
Found at i:38704660 original size:21 final size:21
Alignment explanation
Indices: 38704612--38704720 Score: 119
Period size: 21 Copynumber: 5.1 Consensus size: 21
38704602 GGCTTTATCG
* *
38704612 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
*
38704633 ATTTCAGGCACCTCGTGTGTCGT
1 A--TCAGGCACCTCATGTGTCGT
* *
38704656 ATCAGGCACCTCGTGTGTTGT
1 ATCAGGCACCTCATGTGTCGT
38704677 ATCAGGCACCTCATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
* * * *
38704698 TTTAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
38704719 AT
1 AT
38704721 ACTGATCAGG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
21 57 0.76
23 18 0.24
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.37
Consensus pattern (21 bp):
ATCAGGCACCTCATGTGTCGT
Found at i:38704715 original size:42 final size:42
Alignment explanation
Indices: 38704612--38704720 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
38704602 GGCTTTATCG
*
38704612 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTA--TCAGGCACCTCATGTGTCGT
* ** *
38704656 ATCAGGCACCTCGTGTGTTGTATCAGGCACCTCATGTGTCGT
1 ATCAGGCACTTTATGTGTCGTATCAGGCACCTCATGTGTCGT
* *
38704698 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
38704721 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 36 0.67
44 18 0.33
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.37
Consensus pattern (42 bp):
ATCAGGCACTTTATGTGTCGTATCAGGCACCTCATGTGTCGT
Found at i:38712193 original size:23 final size:23
Alignment explanation
Indices: 38712163--38712249 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
38712153 GCTTTATCGA
* *
38712163 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
38712186 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
38712207 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
38712229 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
38712250 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:38728107 original size:21 final size:20
Alignment explanation
Indices: 38728073--38728112 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
38728063 GTTATAATGA
*
38728073 CCACACGTGCGTGTAGCCCTT
1 CCACACGGGCGTGT-GCCCTT
*
38728094 CCACACGGGTGTGTGCCCT
1 CCACACGGGCGTGTGCCCT
38728113 GTTTCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (20 bp):
CCACACGGGCGTGTGCCCTT
Found at i:38739420 original size:23 final size:23
Alignment explanation
Indices: 38739392--38739446 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
38739382 GTTTAAAAAC
38739392 TTTTATTTTATTTTAAGACTACT
1 TTTTATTTTATTTTAAGACTACT
38739415 TTTTATTTTATTTTAAGACTACT
1 TTTTATTTTATTTTAAGACTACT
38739438 TTTTATTTT
1 TTTTATTTT
38739447 TCTTTCATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTTATTTTATTTTAAGACTACT
Found at i:38744742 original size:22 final size:22
Alignment explanation
Indices: 38744694--38744744 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
38744684 ATCACATAAT
** *
38744694 AAAGCATAACCATTTTCACAAC
1 AAAGCATAACCATCATCAAAAC
*
38744716 CAAGCATAACCATCATCAAAAC
1 AAAGCATAACCATCATCAAAAC
38744738 AAAGCAT
1 AAAGCAT
38744745 TAAATCCGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.49, C:0.27, G:0.06, T:0.18
Consensus pattern (22 bp):
AAAGCATAACCATCATCAAAAC
Found at i:38746065 original size:100 final size:100
Alignment explanation
Indices: 38745892--38746091 Score: 400
Period size: 100 Copynumber: 2.0 Consensus size: 100
38745882 AAACGAAACG
38745892 GGACGACTGGTCGACAACTTTGGTTTTCCTCCGATCCAAATCCAATTTCTTTGGTTCTTGATCTA
1 GGACGACTGGTCGACAACTTTGGTTTTCCTCCGATCCAAATCCAATTTCTTTGGTTCTTGATCTA
38745957 AACATATTCAAATTAAACTCATTCAAACATATTTT
66 AACATATTCAAATTAAACTCATTCAAACATATTTT
38745992 GGACGACTGGTCGACAACTTTGGTTTTCCTCCGATCCAAATCCAATTTCTTTGGTTCTTGATCTA
1 GGACGACTGGTCGACAACTTTGGTTTTCCTCCGATCCAAATCCAATTTCTTTGGTTCTTGATCTA
38746057 AACATATTCAAATTAAACTCATTCAAACATATTTT
66 AACATATTCAAATTAAACTCATTCAAACATATTTT
38746092 TACTCAATTT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (100 bp):
GGACGACTGGTCGACAACTTTGGTTTTCCTCCGATCCAAATCCAATTTCTTTGGTTCTTGATCTA
AACATATTCAAATTAAACTCATTCAAACATATTTT
Found at i:38755142 original size:29 final size:29
Alignment explanation
Indices: 38755109--38755169 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
38755099 CTCTTTTAGA
38755109 GTTACCTACCTAGTGCATTATTTTATTAT
1 GTTACCTACCTAGTGCATTATTTTATTAT
*
38755138 GTTACCTACCTGGTGCATTATTTTATTAT
1 GTTACCTACCTAGTGCATTATTTTATTAT
38755167 GTT
1 GTT
38755170 TTTTATTAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.49
Consensus pattern (29 bp):
GTTACCTACCTAGTGCATTATTTTATTAT
Found at i:38756909 original size:14 final size:13
Alignment explanation
Indices: 38756881--38756917 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
38756871 ATCCTAGAAT
38756881 ATTAA-AACAATA
1 ATTAAGAACAATA
38756893 ATTAAGAACACATA
1 ATTAAGAACA-ATA
38756907 ATTAAGAACAA
1 ATTAAGAACAA
38756918 GTCAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.22
Consensus pattern (13 bp):
ATTAAGAACAATA
Found at i:38773210 original size:57 final size:58
Alignment explanation
Indices: 38773115--38773255 Score: 144
Period size: 57 Copynumber: 2.4 Consensus size: 58
38773105 ATATATACTA
* * ** ** *
38773115 CAGGATTACCAATCTAGGCTAAATCCTTTTTATGACATATGCTCTAA-A-GAGCTTA-AT
1 CAGGATTACCCATCTGGGCTAAATCCAATCCATAACATATGCT-TAAGAGGA-CTTACAT
* *
38773172 CTGGATTACCCATCTGGGCTAAATCCAATCCATAACATATGCTTCAGAGGACTTACAT
1 CAGGATTACCCATCTGGGCTAAATCCAATCCATAACATATGCTTAAGAGGACTTACAT
* *
38773230 CAAGATTACCCATCCGGGCTAAATCC
1 CAGGATTACCCATCTGGGCTAAATCC
38773256 TATCAGAATT
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
56 2 0.03
57 40 0.58
58 27 0.39
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (58 bp):
CAGGATTACCCATCTGGGCTAAATCCAATCCATAACATATGCTTAAGAGGACTTACAT
Found at i:38774039 original size:84 final size:84
Alignment explanation
Indices: 38773898--38774826 Score: 1849
Period size: 84 Copynumber: 11.1 Consensus size: 84
38773888 TAACCAAAGC
38773898 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
1 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
38773963 TTTTCATTTTAGTTCCTAA
66 TTTTCATTTTAGTTCCTAA
38773982 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
1 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
38774047 TTTTCATTTTAGTTCCTAA
66 TTTTCATTTTAGTTCCTAA
38774066 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
1 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
38774131 TTTTCATTTTAGTTCCTAA
66 TTTTCATTTTAGTTCCTAA
38774150 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
1 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
38774215 TTTTCATTTTAGTTCCTAA
66 TTTTCATTTTAGTTCCTAA
38774234 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
1 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
38774299 TTTTCATTTTAGTTCCTAA
66 TTTTCATTTTAGTTCCTAA
38774318 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
1 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
38774383 TTTTCATTTTAGTTCCTAA
66 TTTTCATTTTAGTTCCTAA
38774402 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
1 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
38774467 TTTTCATTTTAGTTCCTAA
66 TTTTCATTTTAGTTCCTAA
38774486 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
1 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
38774551 TTTTCATTTTAGTTCCTAA
66 TTTTCATTTTAGTTCCTAA
38774570 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
1 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
38774635 TTTTCATTTTAGTTCCTAA
66 TTTTCATTTTAGTTCCTAA
38774654 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
1 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
38774719 TTTTCATTTTAGTTCCTAA
66 TTTTCATTTTAGTTCCTAA
38774738 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
1 CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
38774803 TTTTCATTTTAGTTCCTAA
66 TTTTCATTTTAGTTCCTAA
*
38774822 ATCAT
1 CTCAT
38774827 GTTTTCATAA
Statistics
Matches: 844, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 844 1.00
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.43
Consensus pattern (84 bp):
CTCATTACAAATTTTACAGCACATGTATTCATAAAATTTCAGAATTTTTCATCCAATTTTACAAC
TTTTCATTTTAGTTCCTAA
Found at i:38782643 original size:40 final size:40
Alignment explanation
Indices: 38782593--38783503 Score: 417
Period size: 40 Copynumber: 22.8 Consensus size: 40
38782583 TAACCACAAG
* * *
38782593 CACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCA
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCA
* *
38782633 CACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCA
* *
38782673 CACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACT-A
1 CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCA
* * * *
38782712 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT-A
1 -CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCA
* * * *
38782752 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT-A
1 -CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCA
* * * *
38782792 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT-A
1 -CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCA
* * * *
38782832 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT-A
1 -CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCA
* * * *
38782872 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT-A
1 -CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCA
* * * *
38782912 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT-A
1 -CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCA
* * * *
38782952 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT-A
1 -CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCA
* * * *
38782992 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT-A
1 -CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCA
* * * *
38783032 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT-A
1 -CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCA
* * * *
38783072 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT-A
1 -CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCA
* * * *
38783112 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT-A
1 -CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCA
* * * *
38783152 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT-A
1 -CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCA
* * * *
38783192 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT-A
1 -CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCA
* * * *
38783232 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT-A
1 -CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCA
* * * *
38783272 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT-A
1 -CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCA
* * * *
38783312 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT-A
1 -CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCA
* * * *
38783352 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT-A
1 -CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCA
* * * *
38783392 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT-A
1 -CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCA
* * * *
38783432 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT-A
1 -CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTCA
* *
38783472 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 -CACAAATGCCTTCGGGTCTTAGCCCGGATAT
38783504 CATTCAAATG
Statistics
Matches: 859, Mismatches: 10, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
39 1 0.00
40 854 0.99
41 4 0.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.23
Consensus pattern (40 bp):
CACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCA
Found at i:38782676 original size:80 final size:80
Alignment explanation
Indices: 38782636--38783502 Score: 1673
Period size: 80 Copynumber: 10.8 Consensus size: 80
38782626 CAACTCACAC
* * * * *
38782636 AAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGACTTAGCCCGG
38782700 ATAAAATCACTAGCAT
65 ATAAAATCACTAGCAT
38782716 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
38782781 TAAAATCACTAGCAT
66 TAAAATCACTAGCAT
38782796 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
38782861 TAAAATCACTAGCAT
66 TAAAATCACTAGCAT
38782876 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
38782941 TAAAATCACTAGCAT
66 TAAAATCACTAGCAT
38782956 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
38783021 TAAAATCACTAGCAT
66 TAAAATCACTAGCAT
38783036 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
38783101 TAAAATCACTAGCAT
66 TAAAATCACTAGCAT
38783116 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
38783181 TAAAATCACTAGCAT
66 TAAAATCACTAGCAT
38783196 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
38783261 TAAAATCACTAGCAT
66 TAAAATCACTAGCAT
38783276 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
38783341 TAAAATCACTAGCAT
66 TAAAATCACTAGCAT
38783356 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
38783421 TAAAATCACTAGCAT
66 TAAAATCACTAGCAT
38783436 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
38783501 TA
66 TA
38783503 TCATTCAAAT
Statistics
Matches: 781, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
80 777 0.99
81 4 0.01
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (80 bp):
AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
TAAAATCACTAGCAT
Found at i:38782800 original size:120 final size:120
Alignment explanation
Indices: 38782636--38783502 Score: 1673
Period size: 120 Copynumber: 7.2 Consensus size: 120
38782626 CAACTCACAC
* * * * *
38782636 AAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGACTTAGCCCGG
38782700 ATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
65 ATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
38782756 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
38782821 TAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
66 TAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
38782876 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
38782941 TAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
66 TAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
38782996 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
38783061 TAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
66 TAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
38783116 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
38783181 TAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
66 TAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
38783236 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
38783301 TAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
66 TAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
38783356 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
38783421 TAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
66 TAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
38783476 AAATGCCTTCGGGACTTAGCCCGGATA
1 AAATGCCTTCGGGACTTAGCCCGGATA
38783503 TCATTCAAAT
Statistics
Matches: 741, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
120 737 0.99
121 4 0.01
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (120 bp):
AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
TAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
Found at i:38799501 original size:39 final size:39
Alignment explanation
Indices: 38799447--38799681 Score: 371
Period size: 39 Copynumber: 6.0 Consensus size: 39
38799437 CAAGACACTA
38799447 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
38799486 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* * * * *
38799525 GAAATGTATCTGGGCTAAAGTTCTGTAGGCTTCGTGGTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* * *
38799564 GAAATATATCCAGGCTAAAGTCTCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
38799603 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGTTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
38799642 GAAATGTATCCGAGCTAAAGTCCCGCAGGCTTTGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
38799681 G
1 G
38799682 TAATATAATT
Statistics
Matches: 176, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 176 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:38802769 original size:20 final size:20
Alignment explanation
Indices: 38802744--38802782 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
38802734 ATTGCATGTG
38802744 TTACGACTACTGCAACTCTC
1 TTACGACTACTGCAACTCTC
*
38802764 TTACGACTACTGCAGCTCT
1 TTACGACTACTGCAACTCT
38802783 TTGTGAGCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.33, G:0.13, T:0.31
Consensus pattern (20 bp):
TTACGACTACTGCAACTCTC
Found at i:38802926 original size:65 final size:63
Alignment explanation
Indices: 38802777--38802931 Score: 186
Period size: 65 Copynumber: 2.4 Consensus size: 63
38802767 CGACTACTGC
* * *
38802777 AGCTCTTTGTGAGCGTCCTGTTAATTGATCGGTTGTGACATTGCATATGTTACAGACAGAAACGT
1 AGCTCTTTGTGAGCGTCCTGTT-A-TGATCGGTTGTGACACTGCATATGTTACAGACACAAACAT
* * *
38802842 AGATCTTTGTGGGCATCCTGTTATGCAATCGGTTGTGATC-CTGCATATGTTACAGACACAAACA
1 AGCTCTTTGTGAGCGTCCTGTTATG--ATCGGTTGTGA-CACTGCATATGTTACAGACACAAACA
38802906 T
63 T
* *
38802907 AGCTCTTTATGAGCGTCCTGATATG
1 AGCTCTTTGTGAGCGTCCTGTTATG
38802932 GCTCACTTGA
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
63 2 0.03
64 1 0.01
65 72 0.95
66 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.34
Consensus pattern (63 bp):
AGCTCTTTGTGAGCGTCCTGTTATGATCGGTTGTGACACTGCATATGTTACAGACACAAACAT
Found at i:38803542 original size:170 final size:170
Alignment explanation
Indices: 38803260--38803589 Score: 615
Period size: 170 Copynumber: 1.9 Consensus size: 170
38803250 TTGAATGAGA
38803260 AAAATTCTAACATAAGAAAATATGAACAAGAAATGAATTATTACAAGTGTCTACCTGAAATACAT
1 AAAATTCTAACATAAGAAAATATGAACAAGAAATGAATTATTACAAGTGTCTACCTGAAATACAT
* *
38803325 GAAATTATGATACATGACTTATGGAAATATAAGTTGATGATATATGAACATGGAATCTGTTTAAT
66 GAAATTATGATACATGACTTATCGAAATACAAGTTGATGATATATGAACATGGAATCTGTTTAAT
38803390 AAATATGTTCATCCATGAATATAGATTAGTTTGAACGGGT
131 AAATATGTTCATCCATGAATATAGATTAGTTTGAACGGGT
*
38803430 AAAATTCTGACATAAGAAAATATGAACAAGAAATGAATTATTACAAGTGTCTACCTGAAATACAT
1 AAAATTCTAACATAAGAAAATATGAACAAGAAATGAATTATTACAAGTGTCTACCTGAAATACAT
* *
38803495 GAAATTATGATACGTGATTTATCGAAATACAAGTTGATGATATATGAACATGGAATCTGTTTAAT
66 GAAATTATGATACATGACTTATCGAAATACAAGTTGATGATATATGAACATGGAATCTGTTTAAT
38803560 AAATATGTTCATCCATGAATATAGATTAGT
131 AAATATGTTCATCCATGAATATAGATTAGT
38803590 ACACCTTGAC
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
170 155 1.00
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (170 bp):
AAAATTCTAACATAAGAAAATATGAACAAGAAATGAATTATTACAAGTGTCTACCTGAAATACAT
GAAATTATGATACATGACTTATCGAAATACAAGTTGATGATATATGAACATGGAATCTGTTTAAT
AAATATGTTCATCCATGAATATAGATTAGTTTGAACGGGT
Found at i:38807180 original size:24 final size:23
Alignment explanation
Indices: 38807127--38807180 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
38807117 GAGCTGATGG
*
38807127 ACAGTAAGCTCTATTGAGCTGAA
1 ACAGTAAGCTCTATCGAGCTGAA
* *
38807150 ACGGTAAGCTCTGA-CGAGTTGAAA
1 ACAGTAAGCTCT-ATCGAGCTG-AA
38807174 ACAGTAA
1 ACAGTAA
38807181 AAATCATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (23 bp):
ACAGTAAGCTCTATCGAGCTGAA
Found at i:38824317 original size:40 final size:39
Alignment explanation
Indices: 38824233--38824417 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 39
38824223 TTGAATGATG
* * *
38824233 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
38824273 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGATACTAAA
* *
38824313 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAA
* *
38824352 TCCGGGTTAAGTCCTGAAGGCATTTGTGC-AAATTACTATAA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGCGAGA-TACTA-AA
*
38824393 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
38824418 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 38 0.31
40 70 0.57
41 14 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:38824371 original size:79 final size:81
Alignment explanation
Indices: 38824233--38824417 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
38824223 TTGAATGATG
*
38824233 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
38824297 TGTGCGAGA-TACTA-A
66 TGTGC-AAATTACTATA
* * * **
38824312 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCTGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCC-GAAGGCA
38824374 TTTGTGCAAATTACTATA
64 TTTGTGCAAATTACTATA
* *
38824392 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38824418 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 5 0.05
79 53 0.58
80 33 0.36
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCAAATTACTATA
Found at i:38824439 original size:79 final size:78
Alignment explanation
Indices: 38824234--38824450 Score: 194
Period size: 79 Copynumber: 2.7 Consensus size: 78
38824224 TGAATGATGT
** * * *
38824234 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTATATCCGG-TTAAGATCCGAAGGCATTT
* *
38824298 GTGCGAGATACTAATT
63 GTGCGAAATACTAATA
** * *
38824314 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCTGAAGGCATTTG
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATATCC-GGTTAAGATCC-GAAGGCATTTG
38824378 TGC-AAATTACT-ATAA
64 TGCGAAA-TACTAAT-A
*
38824393 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAA-ATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTATATCCGGTTAAGA-TCCGAAGG
38824451 TACGTGATTT
Statistics
Matches: 116, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
78 7 0.06
79 62 0.53
80 47 0.41
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATATCCGGTTAAGATCCGAAGGCATTTGTG
CGAAATACTAATA
Found at i:38825740 original size:89 final size:89
Alignment explanation
Indices: 38825589--38825767 Score: 340
Period size: 89 Copynumber: 2.0 Consensus size: 89
38825579 TAGATGGGTA
*
38825589 TATGAGTCTAGTTTCAGGGAAAATTTACGGAACTGGATTCCGAGTTTTTGAACTCAAGATATGAT
1 TATGAGTCTAGTTTCAGGGAAAATTTACGGAACTGGATTCCGAGTTTCTGAACTCAAGATATGAT
*
38825654 TTTTAAAGCGACTATTATGCAGAT
66 TTTTAAAGCGACTATTACGCAGAT
38825678 TATGAGTCTAGTTTCAGGGAAAATTTACGGAACTGGATTCCGAGTTTCTGAACTCAAGATATGAT
1 TATGAGTCTAGTTTCAGGGAAAATTTACGGAACTGGATTCCGAGTTTCTGAACTCAAGATATGAT
38825743 TTTTAAAGCGACTATTACGCAGAT
66 TTTTAAAGCGACTATTACGCAGAT
38825767 T
1 T
38825768 GGCAGTGTCT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.34
Consensus pattern (89 bp):
TATGAGTCTAGTTTCAGGGAAAATTTACGGAACTGGATTCCGAGTTTCTGAACTCAAGATATGAT
TTTTAAAGCGACTATTACGCAGAT
Found at i:38827314 original size:137 final size:138
Alignment explanation
Indices: 38827067--38827341 Score: 516
Period size: 137 Copynumber: 2.0 Consensus size: 138
38827057 TTCAACCTAG
38827067 GGTTTATATTTGGAAAAATACCCATAGGTGAAATTTGTGTATTTTGATGTTTTATGATAGAATAT
1 GGTTTATATTTGGAAAAATACCCATAGGTGAAATTTGTGTATTTTGATGTTTTATGATAGAATAT
*
38827132 GGGGTTTTAAATTATGTTAGAAAACTTGTGCTACTCGGTTTTTAGTGAAAACGAGTAAAAGGGCT
66 GAGGTTTTAAATTATGTTAGAAAACTTGTGCTACTCGGTTTTTAGTGAAAACGAGTAAAAGGGCT
38827197 TAATCGGC
131 TAATCGGC
38827205 GGTTTATATTTGGAAAAATACCCATAGGTGAAATTTGTGTATTTTGATG-TTTATGATAGAATAT
1 GGTTTATATTTGGAAAAATACCCATAGGTGAAATTTGTGTATTTTGATGTTTTATGATAGAATAT
* *
38827269 TAGGTTTTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTTAGTGAAAACGAGTAAAAGGGCT
66 GAGGTTTTAAATTATGTTAGAAAACTTGTGCTACTCGGTTTTTAGTGAAAACGAGTAAAAGGGCT
38827334 TAATCGGC
131 TAATCGGC
38827342 AAAATACCTA
Statistics
Matches: 134, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
137 85 0.63
138 49 0.37
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (138 bp):
GGTTTATATTTGGAAAAATACCCATAGGTGAAATTTGTGTATTTTGATGTTTTATGATAGAATAT
GAGGTTTTAAATTATGTTAGAAAACTTGTGCTACTCGGTTTTTAGTGAAAACGAGTAAAAGGGCT
TAATCGGC
Found at i:38828284 original size:228 final size:230
Alignment explanation
Indices: 38827853--38828309 Score: 810
Period size: 228 Copynumber: 2.0 Consensus size: 230
38827843 TAAATTGCAA
*
38827853 AATCTTTATATTTTGGTACCAAGGTAAGTTCATGTGTAAATAATGTAGCATAATTGTTATTTTGA
1 AATCTTTATATTTTGGTACCAAGGTAAGTTCATGTGTAAATAATGTAGCATAAATGTTATTTTGA
* *
38827918 AGTTATTGATGTTAATTATATGATATGATGATTTTTTTAGCGTGAAATATTATGCTTTGTGGTTA
66 AGTTATTAATGTTAATTATATGATATGATGATTTTTTAAGCGTGAAATATTATGCTTTGTGGTTA
38827983 ATGTTGAGTAATATGCAAATTATGTTTACTACTTCATAAATATGAATTGCTACCGAGTATCGGTT
131 ATGTTGAGTAATATGCAAATTATGTTTACTACTTCATAAATATGAATTGCTACCGAGTATCGGTT
38828048 CCGATATTCCATCGAAGACGGC-AATGTGAGATCG
196 CCGATATTCCATCGAAGACGGCAAATGTGAGATCG
*
38828082 AATCTTTATATTTTGGTACCAAGGTAAGTTCATGTGTAAATAATGTAGCATAAATGTTATTTTTA
1 AATCTTTATATTTTGGTACCAAGGTAAGTTCATGTGTAAATAATGTAGCATAAATGTTATTTTGA
* *
38828147 AGTTATTAATGTTAATTATATGATATGCTGA-TTTTTAATCGTGAAATATTATGCTTTGTGGTTA
66 AGTTATTAATGTTAATTATATGATATGATGATTTTTTAAGCGTGAAATATTATGCTTTGTGGTTA
*
38828211 ATGTTGAGTAATATGCAAATTATGTTTACTACTTGATAAATATGAATTGCTACCGAGTATCGGTT
131 ATGTTGAGTAATATGCAAATTATGTTTACTACTTCATAAATATGAATTGCTACCGAGTATCGGTT
* * *
38828276 TCGATATTCCATGGAAGATGGCAAATGTGAGATC
196 CCGATATTCCATCGAAGACGGCAAATGTGAGATC
38828310 AAGGGAAAAA
Statistics
Matches: 217, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
228 114 0.53
229 103 0.47
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (230 bp):
AATCTTTATATTTTGGTACCAAGGTAAGTTCATGTGTAAATAATGTAGCATAAATGTTATTTTGA
AGTTATTAATGTTAATTATATGATATGATGATTTTTTAAGCGTGAAATATTATGCTTTGTGGTTA
ATGTTGAGTAATATGCAAATTATGTTTACTACTTCATAAATATGAATTGCTACCGAGTATCGGTT
CCGATATTCCATCGAAGACGGCAAATGTGAGATCG
Found at i:38828436 original size:46 final size:46
Alignment explanation
Indices: 38828386--38828554 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
38828376 TGAGCATCCA
38828386 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
38828432 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* * *
38828479 AACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* *
38828525 AGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
38828555 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 55 0.53
47 29 0.28
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:38828538 original size:93 final size:93
Alignment explanation
Indices: 38828379--38828549 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
38828369 GGATGGTTGA
* * *
38828379 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
38828444 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
38828472 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
38828537 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
38828550 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38836330 original size:30 final size:30
Alignment explanation
Indices: 38836294--38836354 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
38836284 GTCAAGCCCG
38836294 TTAGGAAAGCATGTGATAGTTGATAAAGTA
1 TTAGGAAAGCATGTGATAGTTGATAAAGTA
38836324 TTAGGAAAGCATGTGATAGTTGATAAAGTA
1 TTAGGAAAGCATGTGATAGTTGATAAAGTA
38836354 T
1 T
38836355 GTAAGAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.31
Consensus pattern (30 bp):
TTAGGAAAGCATGTGATAGTTGATAAAGTA
Found at i:38862562 original size:309 final size:309
Alignment explanation
Indices: 38862003--38862623 Score: 1091
Period size: 309 Copynumber: 2.0 Consensus size: 309
38861993 TGTATGGTAG
* *
38862003 TAAACATATGGGCAAAGACACGACTGTGTGTCTCAACCGTGTGGAGGACACGGCCTAGTACACGG
1 TAAACATACGGGCAAAGACACGACTGTGTGTCTCAACCGTGTGGAGGACACGGCCTAGCACACGG
38862068 GCGTGTGCCTTGGCTGTGTGCCTAAAAATGAATGATGATGTCATAAACAGAATGTCCGAGTTTTT
66 GCGTGTGCCTTGGCTGTGTGCCTAAAAATGAATGATGATGTCATAAACAGAATGTCCGAGTTTTT
*
38862133 GGACATGGGCGATGACATGGGCGTGTCTAGTCCTTGTGAGAGACACGGGCTAGAGACACGAGTGT
131 GGACATGGGCGATGACATGGGCGTGTCTAGGCCTTGTGAGAGACACGGGCTAGAGACACGAGTGT
* * * *
38862198 GTGTTTGGCCATGTGAAAACCCTTGTAGGCTCAGAATGAAAAATAAATTCCAATAATTCAACATG
196 GTGTTCGGACATGTGAAAACCCCTGTAGGCTCAGAATGAAAAATAAATTCCAATAATTCAACACG
* *
38862263 GGTAAGAGATACGAGTGTGTGCATTGCCTCTACACGGGCGTGTGAGGCT
261 GGTAAGAGATACGAGTGTGTGCATTGCCTCTACACAGGCGTCTGAGGCT
*
38862312 TAAACATACGGGCAGAGACACGACTGTGTGTCTCAACCGTGTGGAGGACACGGCCTAGCACACGG
1 TAAACATACGGGCAAAGACACGACTGTGTGTCTCAACCGTGTGGAGGACACGGCCTAGCACACGG
* ** *
38862377 GCGTGTGCCTTGGCTGTGTGCCTCAAAATGAATGATGATGTCATAAATGGAATGTCTGAGTTTTT
66 GCGTGTGCCTTGGCTGTGTGCCTAAAAATGAATGATGATGTCATAAACAGAATGTCCGAGTTTTT
*
38862442 GGACATGGGCGATGACATGGGCGTGTCTAGGCCTTGTGAGGGACACGGGCTAGAGACACGAGTGT
131 GGACATGGGCGATGACATGGGCGTGTCTAGGCCTTGTGAGAGACACGGGCTAGAGACACGAGTGT
38862507 GTGTTCGGACATGTGAAAACCCCTGTAGGCTC-GAAATGAAAAATAAATTCCAATAATTCAACAC
196 GTGTTCGGACATGTGAAAACCCCTGTAGGCTCAG-AATGAAAAATAAATTCCAATAATTCAACAC
38862571 GGGTAAGAGATACGAGTGTGTGCATTGCCTCTACACAGGCGTCTGAGGCT
260 GGGTAAGAGATACGAGTGTGTGCATTGCCTCTACACAGGCGTCTGAGGCT
38862621 TAA
1 TAA
38862624 CCCTAGGAAT
Statistics
Matches: 296, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
308 1 0.00
309 295 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (309 bp):
TAAACATACGGGCAAAGACACGACTGTGTGTCTCAACCGTGTGGAGGACACGGCCTAGCACACGG
GCGTGTGCCTTGGCTGTGTGCCTAAAAATGAATGATGATGTCATAAACAGAATGTCCGAGTTTTT
GGACATGGGCGATGACATGGGCGTGTCTAGGCCTTGTGAGAGACACGGGCTAGAGACACGAGTGT
GTGTTCGGACATGTGAAAACCCCTGTAGGCTCAGAATGAAAAATAAATTCCAATAATTCAACACG
GGTAAGAGATACGAGTGTGTGCATTGCCTCTACACAGGCGTCTGAGGCT
Found at i:38864531 original size:27 final size:27
Alignment explanation
Indices: 38864501--38864678 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
38864491 ATATTGAGTC
* * * *
38864501 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
38864528 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38864555 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
* * *
38864583 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
38864610 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
38864637 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38864664 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38864679 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 106 0.80
28 25 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:38864640 original size:82 final size:81
Alignment explanation
Indices: 38864522--38864677 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38864512 TGCTATATAA
* *
38864522 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
38864587 CACTTAGTGCCACATGG
65 CACTTAGTGCCACATGG
* * **
38864604 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
38864668 CACTTAGTGC
65 CACTTAGTGC
38864678 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCACATGG
Found at i:38876933 original size:103 final size:103
Alignment explanation
Indices: 38876754--38876960 Score: 405
Period size: 103 Copynumber: 2.0 Consensus size: 103
38876744 CATGTATGAG
38876754 ACTTTAATGTCTAATGTATAAATATGGGCTAAGTGCCTTGTGTTCATCTTTTTGATGCCTAAATG
1 ACTTTAATGTCTAATGTATAAATATGGGCTAAGTGCCTTGTGTTCATCTTTTTGATGCCTAAATG
38876819 ATGAAATCAATTTATTTGTTTGATTAAGCTCAAGAGCA
66 ATGAAATCAATTTATTTGTTTGATTAAGCTCAAGAGCA
*
38876857 ACTTTAATGTCTAATGTATAAATATGGGCTAAGTGCCTTGTGTTCATCTTTTTTATGCCTAAATG
1 ACTTTAATGTCTAATGTATAAATATGGGCTAAGTGCCTTGTGTTCATCTTTTTGATGCCTAAATG
38876922 ATGAAATCAATTTATTTGTTTGATTAAGCTCAAGAGCA
66 ATGAAATCAATTTATTTGTTTGATTAAGCTCAAGAGCA
38876960 A
1 A
38876961 AGGGGAAATA
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (103 bp):
ACTTTAATGTCTAATGTATAAATATGGGCTAAGTGCCTTGTGTTCATCTTTTTGATGCCTAAATG
ATGAAATCAATTTATTTGTTTGATTAAGCTCAAGAGCA
Found at i:38877293 original size:40 final size:39
Alignment explanation
Indices: 38877256--38877433 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 39
38877246 ATATCCGGAC
38877256 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
38877296 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
38877336 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
38877376 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
38877415 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
38877434 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 33 0.27
40 85 0.70
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:38877346 original size:80 final size:79
Alignment explanation
Indices: 38877262--38877433 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 79
38877252 GGACTAAGAT
*
38877262 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
38877326 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
38877342 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
38877407 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
38877421 CCGAAGGCATTTG
1 CCGAAGGCATTTG
38877434 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 38 0.47
80 39 0.49
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:38877451 original size:79 final size:80
Alignment explanation
Indices: 38877289--38877466 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
38877279 AGATACAAAT
* * * *
38877289 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
38877354 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
38877369 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
38877433 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
38877448 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
38877467 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:38884669 original size:40 final size:39
Alignment explanation
Indices: 38884638--38884847 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
38884628 GGACTAAGAT
* *
38884638 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
38884678 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
38884718 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
38884758 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
38884798 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
38884837 CCGAAGGCATT
1 CCGAAGGCATT
38884848 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:38884801 original size:120 final size:120
Alignment explanation
Indices: 38884585--38884847 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
38884575 TTGAATGCTG
* *
38884585 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
38884649 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
38884705 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
38884768 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
38884824 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
38884848 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:38884867 original size:79 final size:80
Alignment explanation
Indices: 38884586--38884882 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
38884576 TGAATGCTGT
* ** * * * **
38884586 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
38884649 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
38884666 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
38884730 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
38884746 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
38884810 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
38884825 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
38884883 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:38888313 original size:14 final size:15
Alignment explanation
Indices: 38888249--38888313 Score: 57
Period size: 15 Copynumber: 4.4 Consensus size: 15
38888239 GTATCTTGGG
38888249 TTTCTTTATTCTGGAT
1 TTTCTTTATTCTGG-T
38888265 TTT-TTTATTCTGAGT
1 TTTCTTTATTCTG-GT
* *
38888280 TTT-TCTA-TCTTGGA
1 TTTCTTTATTC-TGGT
38888294 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGT
38888308 TTTCTT
1 TTTCTT
38888314 GCTATCTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 14 0.34
15 21 0.51
16 6 0.15
ACGTcount: A:0.11, C:0.12, G:0.12, T:0.65
Consensus pattern (15 bp):
TTTCTTTATTCTGGT
Found at i:38890571 original size:50 final size:49
Alignment explanation
Indices: 38890448--38890630 Score: 199
Period size: 50 Copynumber: 3.7 Consensus size: 49
38890438 AGGTCGAATA
* * *
38890448 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AAACTGTAGGTCACATG
** * *
38890499 TGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAAACT-GT-AGGTCACATG
* * *
38890549 TGTAGTACTAAGTGTAGGCTACTACGTGTACCAAACTGTTGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAAACTGTAGGTCACATG
* *
38890598 TGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCA
38890631 GATAGCTTCG
Statistics
Matches: 111, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 37 0.33
50 40 0.36
51 29 0.26
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAAACTGTAGGTCACATG
Found at i:38897587 original size:25 final size:24
Alignment explanation
Indices: 38897559--38897611 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
38897549 CACAAACGCA
38897559 GCTCTT-TATAAGCGTCCTGATATAG
1 GCTCTTCT-TAAGCGTCCTGATAT-G
* *
38897584 GCTCTTCTTGAGCTTCCTGATATG
1 GCTCTTCTTAAGCGTCCTGATATG
38897608 GCTC
1 GCTC
38897612 ACTTGAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 19 0.76
26 1 0.04
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.38
Consensus pattern (24 bp):
GCTCTTCTTAAGCGTCCTGATATG
Found at i:38897622 original size:23 final size:25
Alignment explanation
Indices: 38897573--38897622 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
38897563 TTTATAAGCG
* *
38897573 TCCTGATATAGGCTCTTCTTGAGCT
1 TCCTGATATAGGCTCTACTTGAACT
38897598 TCCTGATAT-GGCTC-ACTTGAACT
1 TCCTGATATAGGCTCTACTTGAACT
38897621 TC
1 TC
38897623 TTGCTAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 9 0.39
24 5 0.22
25 9 0.39
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (25 bp):
TCCTGATATAGGCTCTACTTGAACT
Found at i:38903544 original size:27 final size:26
Alignment explanation
Indices: 38903507--38903621 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
38903497 AGCATGGCTG
* *
38903507 CCAGAACAAATATTGTGACAGAGTCA
1 CCAGAACAAATATTGTGGCAGAGCCA
38903533 CCAGATACAAATATTGTGGCAGAGCCA
1 CCAGA-ACAAATATTGTGGCAGAGCCA
* *
38903560 CCAGAACAGATATCTGTGGCATAGCCA
1 CCAGAACAAATAT-TGTGGCAGAGCCA
* *
38903587 CCAGAAACAGATAATTGTGGCATAGCCA
1 CCAG-AACAAAT-ATTGTGGCAGAGCCA
38903615 CCAGAAC
1 CCAGAAC
38903622 GCTTCATCCA
Statistics
Matches: 81, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
26 12 0.15
27 43 0.53
28 24 0.30
29 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAAATATTGTGGCAGAGCCA
Found at i:38903607 original size:55 final size:53
Alignment explanation
Indices: 38903507--38903621 Score: 149
Period size: 55 Copynumber: 2.1 Consensus size: 53
38903497 AGCATGGCTG
* *
38903507 CCAGAACAAATATTGTGACAGAGTCACCAGATACAAATATTGTGGCAGAGCCA
1 CCAGAACAAATATTGTGACAGAGCCACCAGAAACAAATATTGTGGCAGAGCCA
* * * * *
38903560 CCAGAACAGATATCTGTGGCATAGCCACCAGAAACAGATAATTGTGGCATAGCCA
1 CCAGAACAAATAT-TGTGACAGAGCCACCAGAAACAAAT-ATTGTGGCAGAGCCA
38903615 CCAGAAC
1 CCAGAAC
38903622 GCTTCATCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
53 12 0.23
54 20 0.38
55 21 0.40
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (53 bp):
CCAGAACAAATATTGTGACAGAGCCACCAGAAACAAATATTGTGGCAGAGCCA
Found at i:38903785 original size:27 final size:28
Alignment explanation
Indices: 38903725--38903788 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
38903715 AAATTAACCC
* *
38903725 TAGGGGTATAATGGTCATTTTGCATACT
1 TAGGGGTATAATGGTAATTGTGCATACT
*
38903753 TAGGGGTCTAATGGTAATTGT-CATACT
1 TAGGGGTATAATGGTAATTGTGCATACT
38903780 TAGGGGTAT
1 TAGGGGTAT
38903789 TTTAGTGACT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 14 0.44
28 18 0.56
ACGTcount: A:0.25, C:0.09, G:0.28, T:0.38
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTGTGCATACT
Found at i:38911480 original size:28 final size:26
Alignment explanation
Indices: 38911389--38911503 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
38911379 AGCATGGCTG
* * *
38911389 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCATAGCCA
* * *
38911415 CCAGATACAGATATTTTGGTAAAGCCA
1 CCAGA-ACAGATATTGTGGCATAGCCA
*
38911442 CCTGAACAGATATCTGTGGCATAGCCA
1 CCAGAACAGATAT-TGTGGCATAGCCA
38911469 CCAGTAACAGATAATTGTGGCATAGCCA
1 CCAG-AACAGAT-ATTGTGGCATAGCCA
38911497 CCAGAAC
1 CCAGAAC
38911504 GCTTCCTCCA
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
26 13 0.17
27 36 0.48
28 24 0.32
29 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCATAGCCA
Found at i:38911647 original size:28 final size:27
Alignment explanation
Indices: 38911607--38911670 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 27
38911597 AAATTAACCC
*
38911607 TAGGGGTATAATGGTCATTTTGCATACT
1 TAGGGGTATAATGGTCATTGT-CATACT
* *
38911635 TAGGGGTATAATGGTTATTGTCATGCT
1 TAGGGGTATAATGGTCATTGTCATACT
38911662 TAGGGGTAT
1 TAGGGGTAT
38911671 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 14 0.42
28 19 0.58
ACGTcount: A:0.23, C:0.08, G:0.30, T:0.39
Consensus pattern (27 bp):
TAGGGGTATAATGGTCATTGTCATACT
Found at i:38915653 original size:16 final size:16
Alignment explanation
Indices: 38915632--38915662 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
38915622 TATGTAACGC
38915632 CCCAAAAATCCCAAAA
1 CCCAAAAATCCCAAAA
38915648 CCCAAAAATCCCAAA
1 CCCAAAAATCCCAAA
38915663 CTTTCTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.39, G:0.00, T:0.06
Consensus pattern (16 bp):
CCCAAAAATCCCAAAA
Found at i:38916912 original size:8 final size:8
Alignment explanation
Indices: 38916899--38916949 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
38916889 GTAGATCGGC
38916899 AAAAGCCG
1 AAAAGCCG
38916907 AAAAGCC-
1 AAAAGCCG
38916914 AAAATGCCG
1 AAAA-GCCG
*
38916923 AAAAGTCG
1 AAAAGCCG
* *
38916931 AAATGCTG
1 AAAAGCCG
*
38916939 AAAAGTCG
1 AAAAGCCG
38916947 AAA
1 AAA
38916950 GTTTGGCTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
7 4 0.12
8 26 0.76
9 4 0.12
ACGTcount: A:0.51, C:0.18, G:0.22, T:0.10
Consensus pattern (8 bp):
AAAAGCCG
Found at i:38916924 original size:16 final size:16
Alignment explanation
Indices: 38916898--38916943 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
38916888 AGTAGATCGG
38916898 CAAAA-GCCGAAAAGC
1 CAAAATGCCGAAAAGC
*
38916913 CAAAATGCCGAAAAGT
1 CAAAATGCCGAAAAGC
* *
38916929 CGAAATGCTGAAAAG
1 CAAAATGCCGAAAAG
38916944 TCGAAAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 5 0.19
16 22 0.81
ACGTcount: A:0.50, C:0.20, G:0.22, T:0.09
Consensus pattern (16 bp):
CAAAATGCCGAAAAGC
Found at i:38916944 original size:16 final size:16
Alignment explanation
Indices: 38916903--38916949 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
38916893 ATCGGCAAAA
* *
38916903 GCCGAAAAGCCAAAAT
1 GCCGAAAAGTCGAAAT
38916919 GCCGAAAAGTCGAAAT
1 GCCGAAAAGTCGAAAT
*
38916935 GCTGAAAAGTCGAAA
1 GCCGAAAAGTCGAAA
38916950 GTTTGGCTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (16 bp):
GCCGAAAAGTCGAAAT
Found at i:38917284 original size:29 final size:29
Alignment explanation
Indices: 38917160--38917284 Score: 101
Period size: 29 Copynumber: 4.3 Consensus size: 29
38917150 TGTGAGCATG
* * * *
38917160 AATAT-AAAGTGATTTGGGGCTAACGGGC
1 AATATGAATGTGAATTGGGCCTAATGGGC
* * * * *
38917188 CATATAAAGGTGATTTGGGCCTAATAGGC
1 AATATGAATGTGAATTGGGCCTAATGGGC
* * *
38917217 CATATGAATATGAATTGGGCCTGATGGGGC
1 AATATGAATGTGAATTGGGCCTAAT-GGGC
* *
38917247 -ATATGAATGTGAATTGGGGCTGATGGGC
1 AATATGAATGTGAATTGGGCCTAATGGGC
38917275 AATATGAATG
1 AATATGAATG
38917285 AGATGGGCCA
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
28 8 0.10
29 70 0.86
30 3 0.04
ACGTcount: A:0.30, C:0.10, G:0.32, T:0.27
Consensus pattern (29 bp):
AATATGAATGTGAATTGGGCCTAATGGGC
Found at i:38921589 original size:24 final size:22
Alignment explanation
Indices: 38921562--38921636 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 22
38921552 TGCTCTTTCA
38921562 AGCTATGAACAGTAAGCTTTGACG
1 AGCTA-GAACAGTAAGCTTT-ACG
* * *
38921586 AGCTAAAACAGTAAGCTCATACA
1 AGCTAGAACAGTAAGCT-TTACG
*
38921609 AGTTGAGAACAGTAAGCTTTTACG
1 AGCT-AGAACAGTAAGC-TTTACG
38921633 AGCT
1 AGCT
38921637 GATATATCGG
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
23 16 0.40
24 23 0.57
25 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.24
Consensus pattern (22 bp):
AGCTAGAACAGTAAGCTTTACG
Found at i:38921828 original size:25 final size:25
Alignment explanation
Indices: 38921800--38921850 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
38921790 TTCATAATTC
38921800 AAGTGGATCAATTACTCAATTATAT
1 AAGTGGATCAATTACTCAATTATAT
38921825 AAGTGGATCAATTACTCAATTATAT
1 AAGTGGATCAATTACTCAATTATAT
38921850 A
1 A
38921851 CATCATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (25 bp):
AAGTGGATCAATTACTCAATTATAT
Found at i:38929366 original size:40 final size:39
Alignment explanation
Indices: 38929329--38929506 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 39
38929319 ATATCCGGAC
38929329 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
38929369 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
38929409 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * * * *
38929449 TATGGCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TA-AGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
38929488 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
38929507 AACGAGGAGC
Statistics
Matches: 116, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 30 0.26
40 81 0.70
41 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:38929419 original size:80 final size:79
Alignment explanation
Indices: 38929335--38929506 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
38929325 GGACTAAGAT
*
38929335 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
38929399 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
38929415 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGGCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
38929480 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
38929494 CCGAAGGCATTTG
1 CCGAAGGCATTTG
38929507 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:38929524 original size:79 final size:80
Alignment explanation
Indices: 38929362--38929529 Score: 180
Period size: 79 Copynumber: 2.1 Consensus size: 80
38929352 AGATACAAAT
* * *
38929362 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
38929427 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * * *
38929442 TCCGGGTTATGGCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
38929506 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
38929521 TCC-GGTTAA
1 TCCGGGTTAA
38929530 ATTCCGAAGG
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
78 6 0.08
79 48 0.67
80 18 0.25
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:38933534 original size:12 final size:12
Alignment explanation
Indices: 38933517--38933541 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38933507 AACCATAAAC
38933517 ACACAAACTTTA
1 ACACAAACTTTA
38933529 ACACAAACTTTA
1 ACACAAACTTTA
38933541 A
1 A
38933542 ATTGAGAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (12 bp):
ACACAAACTTTA
Found at i:38947094 original size:40 final size:40
Alignment explanation
Indices: 38947039--38947206 Score: 266
Period size: 40 Copynumber: 4.2 Consensus size: 40
38947029 TATTCGAATG
*
38947039 ATATCCGGGCTAAGTCACGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
38947079 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
38947119 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
38947159 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
38947199 ATATCCGG
1 ATATCCGG
38947207 CTGAATCCCG
Statistics
Matches: 118, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 115 0.97
41 3 0.03
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:38956626 original size:20 final size:20
Alignment explanation
Indices: 38956601--38956643 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
38956591 AGAGAAAATT
38956601 GAAGCTCCACAAAACTAATC
1 GAAGCTCCACAAAACTAATC
*
38956621 GAAGCTCCACAAAACTGATC
1 GAAGCTCCACAAAACTAATC
38956641 GAA
1 GAA
38956644 TAGATCATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.44, C:0.28, G:0.14, T:0.14
Consensus pattern (20 bp):
GAAGCTCCACAAAACTAATC
Found at i:38958762 original size:43 final size:43
Alignment explanation
Indices: 38958714--38958866 Score: 229
Period size: 43 Copynumber: 3.6 Consensus size: 43
38958704 AAAAACGCTG
*
38958714 CTAAAAGTGCTGCCTTTTAGCGGCGTTTGCTAAAAAAGTGCCA
1 CTAAAAGTGCTGCCTTTTAGCGGCGTTTGCTAAAAAAGCGCCA
*
38958757 CTAAAAGTGCTGCCTTTTAGCGGCGTTTGCTAAAGAAGCGCCA
1 CTAAAAGTGCTGCCTTTTAGCGGCGTTTGCTAAAAAAGCGCCA
* * *
38958800 CTAAAAGTGCTGCCTTTTAGCAGCGTTTGCT-AAAAAGCGACG
1 CTAAAAGTGCTGCCTTTTAGCGGCGTTTGCTAAAAAAGCGCCA
*
38958842 CTAAAAGT-CATGGCTTTTAGCGGCG
1 CTAAAAGTGC-TGCCTTTTAGCGGCG
38958867 CTTTTCCTAC
Statistics
Matches: 101, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
41 1 0.01
42 29 0.29
43 71 0.70
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (43 bp):
CTAAAAGTGCTGCCTTTTAGCGGCGTTTGCTAAAAAAGCGCCA
Found at i:38958993 original size:31 final size:32
Alignment explanation
Indices: 38958939--38959020 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 32
38958929 TTCCTGTATT
* * * * *
38958939 AAAATCCAACCAAATACAATAAATATAG-TAT
1 AAAATACAACCAAAAATAGTAAATATAGATAA
* *
38958970 AAAATACAGCCAAAAATAGTAAATTTAGCATAA
1 AAAATACAACCAAAAATAGTAAATATAG-ATAA
38959003 AAAATACAACCAAAAATA
1 AAAATACAACCAAAAATA
38959021 TTAATTCTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 22 0.54
33 19 0.46
ACGTcount: A:0.61, C:0.15, G:0.05, T:0.20
Consensus pattern (32 bp):
AAAATACAACCAAAAATAGTAAATATAGATAA
Found at i:38959283 original size:21 final size:21
Alignment explanation
Indices: 38959259--38959306 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
38959249 CCATCGCTCG
* *
38959259 TGCCTTTGCCTCTCTCGCTGC
1 TGCCTCTGCCTCCCTCGCTGC
* *
38959280 TGCCGCTGCCTCCCTCTCTGC
1 TGCCTCTGCCTCCCTCGCTGC
38959301 TGCCTC
1 TGCCTC
38959307 CGCTCTAAGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.00, C:0.48, G:0.19, T:0.33
Consensus pattern (21 bp):
TGCCTCTGCCTCCCTCGCTGC
Found at i:38964901 original size:9 final size:9
Alignment explanation
Indices: 38964889--38964947 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
38964879 TTCGTAAGTT
*
38964889 GTTATGTAC
1 GTTATGTAA
*
38964898 GTTATGTGA
1 GTTATGTAA
38964907 GTTATGTAA
1 GTTATGTAA
*
38964916 ATTATGTAA
1 GTTATGTAA
*
38964925 GTTATGTGA
1 GTTATGTAA
38964934 GTTATGTAA
1 GTTATGTAA
38964943 GTTAT
1 GTTAT
38964948 TTTTTAAGAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.46
Consensus pattern (9 bp):
GTTATGTAA
Found at i:38964921 original size:27 final size:27
Alignment explanation
Indices: 38964890--38964947 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
38964880 TCGTAAGTTG
*
38964890 TTATGTACGTTATGTGAGTTATGTAAA
1 TTATGTAAGTTATGTGAGTTATGTAAA
*
38964917 TTATGTAAGTTATGTGAGTTATGTAAG
1 TTATGTAAGTTATGTGAGTTATGTAAA
38964944 TTAT
1 TTAT
38964948 TTTTTAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATGTGAGTTATGTAAA
Found at i:38965369 original size:241 final size:241
Alignment explanation
Indices: 38964946--38965379 Score: 780
Period size: 241 Copynumber: 1.8 Consensus size: 241
38964936 TATGTAAGTT
38964946 ATTTTTTAAGATTCATCACACGTGGCGTTGTTACACCTAGGGACGATCCATTATATCTTACAGCT
1 ATTTTTTAAGATTCATCACACGTGGCGTTGTTACACCTAGGGACGATCCATTATATCTTACAGCT
* *
38965011 CGATATAAGGTAACCCGTCAGGTTTTCAGGCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
66 CGATATAAGGCAACCCGTCAGGTTTCCAGGCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
38965076 GGTTGGAGAGAAGGTCAACTATTGTTGCAATTTTAATGGACAAGAAAGCTACATGGTAATAAATA
131 GGTTGGAGAGAAGGTCAACTATTGTTGCAATTTTAATGGACAAGAAAGCTACATGGTAATAAATA
38965141 TTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
196 TTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
* * * *
38965187 ATTTTTTAAGATTCATCATACGTGGTGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGGT
1 ATTTTTTAAGATTCATCACACGTGGCGTTGTTACACCTAGGGACGATCCATTATATCTTACAGCT
38965252 CGATATAAGGCAACCCGTCAGGTTTCCA-GCATATATACTTTGAATCTTTAAAATATTTAAAAAA
66 CGATATAAGGCAACCCGTCAGGTTTCCAGGC-TATATACTTTGAATCTTTAAAATATTTAAAAAA
* *
38965316 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGAAAGCTACATGGTAATAAA
130 AGGTTGGAGAGAAGGTCAACTATTGTTGCAATTTTAATGGACAAGAAAGCTACATGGTAATAAA
38965380 ATTAATTCAT
Statistics
Matches: 184, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
240 2 0.01
241 182 0.99
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (241 bp):
ATTTTTTAAGATTCATCACACGTGGCGTTGTTACACCTAGGGACGATCCATTATATCTTACAGCT
CGATATAAGGCAACCCGTCAGGTTTCCAGGCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
GGTTGGAGAGAAGGTCAACTATTGTTGCAATTTTAATGGACAAGAAAGCTACATGGTAATAAATA
TTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
Found at i:38965431 original size:33 final size:33
Alignment explanation
Indices: 38965394--38965460 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
38965384 ATTCATACTT
*
38965394 AAGAACATACGCATTGGAACCAGTAGCAATGAG
1 AAGAACATACGCATTGGAACCAGTAGCAAAGAG
*
38965427 AAGAACATACGCATTGGAACTAGTAGCAAAGAG
1 AAGAACATACGCATTGGAACCAGTAGCAAAGAG
38965460 A
1 A
38965461 TCCAAAGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.45, C:0.16, G:0.24, T:0.15
Consensus pattern (33 bp):
AAGAACATACGCATTGGAACCAGTAGCAAAGAG
Found at i:38968862 original size:28 final size:27
Alignment explanation
Indices: 38968799--38968895 Score: 149
Period size: 27 Copynumber: 3.6 Consensus size: 27
38968789 ATATTAAGTC
* *
38968799 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
38968826 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
38968854 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
38968881 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38968896 GCACAATTTA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
27 39 0.60
28 26 0.40
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:38968884 original size:55 final size:56
Alignment explanation
Indices: 38968798--38968920 Score: 167
Period size: 55 Copynumber: 2.2 Consensus size: 56
38968788 TATATTAAGT
* * *
38968798 CCGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAA-TCAAAC
1 CCGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACACAATTCAAAC
* * * * *
38968853 TCGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAAC
1 CCGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACACAATTCAAAC
38968909 CCGCACACTTAG
1 CCGCACACTTAG
38968921 CGCCAATCTC
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
55 42 0.72
56 16 0.28
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (56 bp):
CCGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACACAATTCAAAC
Found at i:38969388 original size:12 final size:12
Alignment explanation
Indices: 38969371--38969396 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38969361 ATGGCATACT
38969371 TATGTATATATA
1 TATGTATATATA
38969383 TATGTATATATA
1 TATGTATATATA
38969395 TA
1 TA
38969397 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:38970376 original size:86 final size:87
Alignment explanation
Indices: 38970240--38970411 Score: 328
Period size: 86 Copynumber: 2.0 Consensus size: 87
38970230 TTTCTTTTTC
*
38970240 CTCACGGCAATGGGGGGGGAAACAACCGCTCATTTTTTTGTTTTCATTTCTTTATTACCCATACT
1 CTCACGGCAATGGGGGGGGAAACAACCACTCATTTTTTTGTTTTCATTTCTTTATTACCCATACT
38970305 CCTTATTTTATTTTTTTCTAAG
66 CCTTATTTTATTTTTTTCTAAG
38970327 CTCACGGCAATGGGGGGGG-AACAACCACTCATTTTTTTGTTTTCATTTCTTTATTACCCATACT
1 CTCACGGCAATGGGGGGGGAAACAACCACTCATTTTTTTGTTTTCATTTCTTTATTACCCATACT
38970391 CCTTATTTTATTTTTTTCTAA
66 CCTTATTTTATTTTTTTCTAA
38970412 CATACCTCAC
Statistics
Matches: 84, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
86 65 0.77
87 19 0.23
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (87 bp):
CTCACGGCAATGGGGGGGGAAACAACCACTCATTTTTTTGTTTTCATTTCTTTATTACCCATACT
CCTTATTTTATTTTTTTCTAAG
Found at i:38971342 original size:27 final size:27
Alignment explanation
Indices: 38971240--38971344 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
38971230 AATACTTTAG
*
38971240 TTTACCAAATTA-CTGAAATACCCTCGA
1 TTTACAAAATTATC-GAAATACCCTCGA
* ** * *
38971267 CTTGTAAAATTA-CAAAAGTACCCCCGA
1 TTTACAAAATTATCGAAA-TACCCTCGA
* ***
38971294 TTTACAGAATTATCGTTTTACCCTCGA
1 TTTACAAAATTATCGAAATACCCTCGA
*
38971321 TTTACAAAATTATTGAAATACCCT
1 TTTACAAAATTATCGAAATACCCT
38971345 GTAGGGTAGA
Statistics
Matches: 56, Mismatches: 20, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
26 3 0.05
27 52 0.93
28 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTATCGAAATACCCTCGA
Found at i:38971382 original size:27 final size:27
Alignment explanation
Indices: 38971328--38971465 Score: 172
Period size: 27 Copynumber: 5.1 Consensus size: 27
38971318 CGATTTACAA
*
38971328 AATTATTGAAATACCC-TGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
38971354 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
**
38971381 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
38971408 AAATA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG
* * * * *
38971435 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAG
38971462 AATT
1 AATT
38971466 CCATTTTGCC
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
26 15 0.15
27 82 0.85
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:38972071 original size:6 final size:6
Alignment explanation
Indices: 38972062--38972147 Score: 68
Period size: 6 Copynumber: 14.0 Consensus size: 6
38972052 TTGCATTCAC
* * * *
38972062 ATTCTG ATTCTA ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
38972112 ATTCTA ATTCTG ATTCTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
38972148 TCACCTGATT
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
5 3 0.05
6 54 0.84
7 5 0.08
8 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:38972093 original size:25 final size:25
Alignment explanation
Indices: 38972065--38972156 Score: 83
Period size: 25 Copynumber: 4.0 Consensus size: 25
38972055 CATTCACATT
*
38972065 CTGATTCTAATTCTGTTACCTGATA
1 CTGATTCTAATTCTGTCACCTGATA
*
38972090 CTGATTCTGATTCTGTCACC---TA
1 CTGATTCTAATTCTGTCACCTGATA
* *
38972112 ---ATTCTAATTCTG--ATTCTGATT
1 CTGATTCTAATTCTGTCA-CCTGATA
38972133 CTGATTCTAATTCTGTCACCTGAT
1 CTGATTCTAATTCTGTCACCTGAT
38972157 TCTAATTTTG
Statistics
Matches: 52, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
17 1 0.02
18 1 0.02
19 11 0.21
21 1 0.02
22 2 0.04
24 12 0.23
25 23 0.44
26 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.45
Consensus pattern (25 bp):
CTGATTCTAATTCTGTCACCTGATA
Found at i:38972139 original size:43 final size:43
Alignment explanation
Indices: 38972068--38972180 Score: 149
Period size: 43 Copynumber: 2.6 Consensus size: 43
38972058 TCACATTCTG
* *
38972068 ATTCTAATTCTG-TTACCTGATACTGATTCTGATTCTGTCACCTA
1 ATTCTAATTCTGATT--CTGATTCTGATTCTAATTCTGTCACCTA
*
38972112 ATTCTAATTCTGATTCTGATTCTGATTCTAATTCTGTCACCTG
1 ATTCTAATTCTGATTCTGATTCTGATTCTAATTCTGTCACCTA
*
38972155 ATTCTAATTTTGATTCT-AGTTCTGAT
1 ATTCTAATTCTGATTCTGA-TTCTGAT
38972181 AATGTTTCTT
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
42 1 0.02
43 48 0.76
44 12 0.19
45 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (43 bp):
ATTCTAATTCTGATTCTGATTCTGATTCTAATTCTGTCACCTA
Found at i:38972858 original size:78 final size:78
Alignment explanation
Indices: 38972729--38972885 Score: 262
Period size: 78 Copynumber: 2.0 Consensus size: 78
38972719 TAATTATTAA
38972729 GAAGGGTTTTTAATGGAAACATGGTTTTCGAAAAACACTTCAATGTGACACGCCAGATTCGAACC
1 GAAGGGTTTTTAATGGAAACATGGTTTTCGAAAAACACTTCAATGTGACACGCCAGATTCGAACC
* *
38972794 AAATTTCTAGGCC
66 AAACTTCCAGGCC
* *
38972807 GAAGGGTTTTTAATGGAAACATGGATTTT-GAAAAACACTTCAATGTGACACGTCAGATTCGAGC
1 GAAGGGTTTTTAATGGAAACATGG-TTTTCGAAAAACACTTCAATGTGACACGCCAGATTCGAAC
38972871 CAAACTTCCAGGCC
65 CAAACTTCCAGGCC
38972885 G
1 G
38972886 GGTTTGAGGT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
78 70 0.95
79 4 0.05
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (78 bp):
GAAGGGTTTTTAATGGAAACATGGTTTTCGAAAAACACTTCAATGTGACACGCCAGATTCGAACC
AAACTTCCAGGCC
Found at i:38974286 original size:27 final size:27
Alignment explanation
Indices: 38974184--38974288 Score: 93
Period size: 27 Copynumber: 3.9 Consensus size: 27
38974174 AATACTTTAG
* * *
38974184 TTTACCAAATTACTAAAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCAA
* ** *
38974211 CTTGTAAAATTACCAAAGTACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCAA
* ***
38974238 TTTACAGAATTACCATTTTACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCAA
**
38974265 TTTACAAAATTATTAAAATACCCT
1 TTTACAAAATTACCAAAATACCCT
38974289 TGTAGGGTAG
Statistics
Matches: 58, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCAA
Found at i:38974336 original size:27 final size:27
Alignment explanation
Indices: 38974279--38974413 Score: 164
Period size: 27 Copynumber: 5.0 Consensus size: 27
38974269 CAAAATTATT
*
38974279 AAAATACCCTTGTAGGGTAGAA-TACT
1 AAAATACCCTTGTAGGGTAGAATTACC
* *
38974305 GAAATACCCCTGTAGGGTAGAATTACC
1 AAAATACCCTTGTAGGGTAGAATTACC
* *
38974332 AAAATACCCTTGTAGGGTAGAAATATC
1 AAAATACCCTTGTAGGGTAGAATTACC
38974359 AAAATACCCTTGTAGGGTAGAATTACC
1 AAAATACCCTTGTAGGGTAGAATTACC
* * * * * *
38974386 GAGATACCTTTATGGGGTAAAATTACC
1 AAAATACCCTTGTAGGGTAGAATTACC
38974413 A
1 A
38974414 TTTTGCCCTA
Statistics
Matches: 92, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 20 0.22
27 72 0.78
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (27 bp):
AAAATACCCTTGTAGGGTAGAATTACC
Found at i:38975045 original size:6 final size:6
Alignment explanation
Indices: 38975028--38975139 Score: 72
Period size: 6 Copynumber: 18.3 Consensus size: 6
38975018 TTACATTCAC
* * * *
38975028 ATTCTA ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG -TTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
38975077 ATTCTG ATTCTG ATTCTG ATTATG ATTCTG -TCACCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
38975126 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
38975140 AATGTTTCTT
Statistics
Matches: 84, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
5 10 0.12
6 62 0.74
7 9 0.11
8 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (6 bp):
ATTCTG
Found at i:38975070 original size:24 final size:25
Alignment explanation
Indices: 38975034--38975094 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 25
38975024 TCACATTCTA
* *
38975034 ATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGTCACCTAATACTG
*
38975059 ATTCTG-TTCTGTCACCTAATTCTG
1 ATTCTGATTCTGTCACCTAATACTG
38975083 ATTCTGATTCTG
1 ATTCTGATTCTG
38975095 ATTATGATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 21 0.66
25 11 0.34
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGTCACCTAATACTG
Found at i:38975106 original size:37 final size:36
Alignment explanation
Indices: 38975050--38975130 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 36
38975040 ATTCTGTTAC
* *
38975050 CTGATACTGATTCTGTTCTGTCACCTAATTCTGATT
1 CTGATTCTGATTATGTTCTGTCACCTAATTCTGATT
*
38975086 CTGATTCTGATTATGATTCTGTCACCTGATTCTGATT
1 CTGATTCTGATTATG-TTCTGTCACCTAATTCTGATT
38975123 CTGATTCT
1 CTGATTCT
38975131 AGTTCTGATA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
36 13 0.32
37 28 0.68
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.46
Consensus pattern (36 bp):
CTGATTCTGATTATGTTCTGTCACCTAATTCTGATT
Found at i:38977129 original size:27 final size:27
Alignment explanation
Indices: 38977097--38977157 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
38977087 CTCGACTTGG
38977097 AAAATTACCAAAGTACCCCCGATTTAC
1 AAAATTACCAAAGTACCCCCGATTTAC
* *** *
38977124 AGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCAAAGTACCCCCGATTTAC
38977151 AAAATTA
1 AAAATTA
38977158 TTAAAATACC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.25, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAGTACCCCCGATTTAC
Found at i:38977183 original size:27 final size:27
Alignment explanation
Indices: 38977161--38977292 Score: 176
Period size: 27 Copynumber: 4.9 Consensus size: 27
38977151 AAAATTATTA
* *
38977161 AAATACCCTTGTAAGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
38977188 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
38977215 AAATACCCCTGTAGGGTAGAA-TACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
38977241 AAATACCTCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * * *
38977268 ACATACCCTTGTGGGGTAAAATTAC
1 AAATACCCCTGTAGGGTAGAATTAC
38977293 CATTTTGCCC
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 24 0.26
27 69 0.74
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACTG
Found at i:38977260 original size:53 final size:54
Alignment explanation
Indices: 38977161--38977292 Score: 185
Period size: 53 Copynumber: 2.5 Consensus size: 54
38977151 AAAATTATTA
* * *
38977161 AAATACCCTTGTAAGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCG
* *
38977215 AAATACCCCTGTAGGGTAGAA-TACTGAAATACCTCTATAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCG
* * *
38977268 ACATACCCTTGTGGGGTAAAATTAC
1 AAATACCCTTGTAGGGTAGAATTAC
38977293 CATTTTGCCC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 46 0.68
54 22 0.32
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (54 bp):
AAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCG
Found at i:38979558 original size:40 final size:40
Alignment explanation
Indices: 38979367--38979551 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
38979357 TTGAATGATG
* * * *
38979367 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
38979407 TCCGGACTAAGAT-CCTAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38979447 TCCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38979486 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38979527 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38979552 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38979573 original size:79 final size:79
Alignment explanation
Indices: 38979423--38979584 Score: 186
Period size: 79 Copynumber: 2.1 Consensus size: 79
38979413 CTAAGATCCT
* * **
38979423 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCAAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAAATC
*
38979488 CGGGTTAAGTCCCG
66 CGGGTTAAATCCCG
* * * *
38979502 AAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTTGAACGAGTTA-CTAA
*
38979565 ATCC-GGTTAAATTCCG
63 ATCCGGGTTAAATCCCG
38979581 AAGG
1 AAGG
38979585 TACGTGATTT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 44 0.63
80 24 0.34
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (79 bp):
AAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAAATC
CGGGTTAAATCCCG
Found at i:38991450 original size:20 final size:20
Alignment explanation
Indices: 38991427--38991483 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
38991417 TGTTATCGAA
*
38991427 GGCTTTGTGCCATTATTGTG
1 GGCTTCGTGCCATTATTGTG
* *
38991447 GGCTTCGTATCGA-TATTGTG
1 GGCTTCGT-GCCATTATTGTG
38991467 GGCTTCGTGCCGATTAT
1 GGCTTCGTGCC-ATTAT
38991484 AGACCCGTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 1 0.03
20 23 0.79
21 5 0.17
ACGTcount: A:0.12, C:0.18, G:0.30, T:0.40
Consensus pattern (20 bp):
GGCTTCGTGCCATTATTGTG
Found at i:38991749 original size:31 final size:31
Alignment explanation
Indices: 38991721--38991796 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
38991711 TACCTGATAT
38991721 TGATTCTGATTTTGTCACCTAATTCTGATTC
1 TGATTCTGATTTTGTCACCTAATTCTGATTC
* * *
38991752 TGATTCTGATTCTATCACCTGATTCTGATTC
1 TGATTCTGATTTTGTCACCTAATTCTGATTC
*
38991783 TGATTCTCATTTTG
1 TGATTCTGATTTTG
38991797 ATTCTAGTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.18, C:0.20, G:0.13, T:0.49
Consensus pattern (31 bp):
TGATTCTGATTTTGTCACCTAATTCTGATTC
Found at i:38991753 original size:6 final size:6
Alignment explanation
Indices: 38991742--38991810 Score: 70
Period size: 6 Copynumber: 11.3 Consensus size: 6
38991732 TTGTCACCTA
* *
38991742 ATTCTG ATTCTG ATTCTG ATTCT- ATCACCTG ATTCTG ATTCTG ATTCTC
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
38991791 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
38991811 AATGTTTCTT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
5 3 0.06
6 44 0.85
7 3 0.06
8 2 0.04
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:38991773 original size:25 final size:25
Alignment explanation
Indices: 38991692--38991789 Score: 90
Period size: 25 Copynumber: 3.7 Consensus size: 25
38991682 TTGCATTCAC
* *
38991692 ATTCTGGTTCTGATTCTATTACCTG
1 ATTCTGATTCTGATTCTATCACCTG
* *
38991717 ATAT-TGATTCTGATTTTGTCACCTAATTCTG
1 AT-TCTGATTCTGATTCTATCA-C-----CTG
38991748 ATTCTGATTCTGATTCTATCACCTG
1 ATTCTGATTCTGATTCTATCACCTG
38991773 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
38991790 CATTTTGATT
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
25 35 0.59
26 2 0.03
30 2 0.03
31 20 0.34
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.48
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTATCACCTG
Found at i:38994159 original size:107 final size:107
Alignment explanation
Indices: 38993950--38994151 Score: 327
Period size: 107 Copynumber: 1.9 Consensus size: 107
38993940 AAACATACAT
38993950 CACATAGGCCAAAATAGTCATCTTACCATATAAGGGCAAAATAGTCATTTTACCACATAAGGGCA
1 CACATAGGCCAAAATAGTCATCTTACCATATAAGGGCAAAATAGTCATTTTACCACATAAGGGCA
*
38994015 AAATAATCATTTTACCACATAAGGGCAAAACAATCATTCTAC
66 AAATAATCACTTTACCACATAAGGGCAAAACAATCATTCTAC
* * *
38994057 CACATAAGGGCAAAATAGTCAT-TCTACCATATAAGGGC-AAGTAGTCATTTTACTACATAAGGG
1 CACAT-AGGCCAAAATAGTCATCT-TACCATATAAGGGCAAAATAGTCATTTTACCACATAAGGG
*
38994120 CAAAATAGTCACTTTACCACATAAGGGCAAAA
64 CAAAATAATCACTTTACCACATAAGGGCAAAA
38994152 TAGTCATTTA
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
107 59 0.67
108 29 0.33
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (107 bp):
CACATAGGCCAAAATAGTCATCTTACCATATAAGGGCAAAATAGTCATTTTACCACATAAGGGCA
AAATAATCACTTTACCACATAAGGGCAAAACAATCATTCTAC
Found at i:38994200 original size:27 final size:27
Alignment explanation
Indices: 38993950--38994199 Score: 310
Period size: 27 Copynumber: 9.4 Consensus size: 27
38993940 AAACATACAT
* *
38993950 CACAT-AGGCCAAAATAGTCATCTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
38993976 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
38994003 CACATAAGGGCAAAATAATCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* * *
38994030 CACATAAGGGCAAAACAATCATTCTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
38994057 CACATAAGGGCAAAATAGTCATTCTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
38994084 CATATAAGGGC-AAGTAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
38994110 TACATAAGGGCAAAATAGTCACTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
38994137 CACATAAGGGCAAAATAGTCATTTAAT
1 CACATAAGGGCAAAATAGTCATTTTAC
* * *
38994164 CACA-CAGGGGAAATACAGTCATTTTAC
1 CACATAAGGGCAAA-ATAGTCATTTTAC
38994191 CACA-AAGGG
1 CACATAAGGG
38994200 GGTCTAGGTA
Statistics
Matches: 195, Mismatches: 26, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
26 33 0.17
27 162 0.83
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAC
Found at i:39001706 original size:15 final size:16
Alignment explanation
Indices: 39001688--39001717 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39001678 AATTGATTTA
39001688 TTACA-AATTTCACTC
1 TTACATAATTTCACTC
39001703 TTACATAATTTCACT
1 TTACATAATTTCACT
39001718 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (16 bp):
TTACATAATTTCACTC
Found at i:39004558 original size:29 final size:29
Alignment explanation
Indices: 39004523--39004680 Score: 90
Period size: 29 Copynumber: 5.4 Consensus size: 29
39004513 GGTCGTCACC
*
39004523 ATCCCTTTTCATAATCAATAGTCGAAGCT
1 ATCCCTTTTCATAATCAATAGCCGAAGCT
* * * *
39004552 ATGCCTTTTCGTATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCAATAGCCGAAGCT
* * * * * *
39004581 ATCCCTCTTCATATTCGAT-GATCGTCA-CC
1 ATCCCTTTTCATAATCAATAG-CCG-AAGCT
* ** * * *
39004610 ATCCCTTTTCATAGTTGAT-GTTCGTCA-CC
1 ATCCCTTTTCATAATCAATAG-CCG-AAGCT
*
39004639 ATCCCTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCAATAGCCGAAGCT
39004668 ATCCCTTTTCATA
1 ATCCCTTTTCATA
39004681 TTTAATGATC
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
28 2 0.02
29 101 0.96
30 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (29 bp):
ATCCCTTTTCATAATCAATAGCCGAAGCT
Found at i:39004672 original size:58 final size:56
Alignment explanation
Indices: 39004493--39004682 Score: 170
Period size: 58 Copynumber: 3.3 Consensus size: 56
39004483 GGTTAAAACC
*
39004493 ATCCCTTTTCATTAATTGATGGTCGTCACCATCCCTTTTCATAATCAATAGTCGAAGCT
1 ATCCCTTTTCA-T-ATTGAT-GTCGTCACCATCCCTTTTCATAATCGATAGTCGAAGCT
* * * * * * * * *
39004552 ATGCCTTTTCGTATTCGATAGCCG-AAGCTATCCCTCTTCATATTCGAT-GATCGTCA-CC
1 ATCCCTTTTCATATT-GAT-GTCGTCA-CCATCCCTTTTCATAATCGATAG-TCG-AAGCT
*
39004610 ATCCCTTTTCATAGTTGATGTTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATA-TTGATG-TCGTCACCATCCCTTTTCATAATCGATAGTCGAAGCT
39004668 ATCCCTTTTCATATT
1 ATCCCTTTTCATATT
39004683 TAATGATCAC
Statistics
Matches: 101, Mismatches: 21, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
57 9 0.09
58 78 0.77
59 14 0.14
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (56 bp):
ATCCCTTTTCATATTGATGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAGCT
Found at i:39004689 original size:87 final size:87
Alignment explanation
Indices: 39004493--39004690 Score: 238
Period size: 87 Copynumber: 2.3 Consensus size: 87
39004483 GGTTAAAACC
* * * *
39004493 ATCCCTTTTCATTAATTGATGGTCGTCACCATCCCTTTTCATAATCAATAGTCGAAGCTATGCCT
1 ATCCCTTTTCA-TATTTGATGATCGTCACCATCCCTTTTCATAATCAATAGTCGAAGCCATCCCT
* *
39004558 TTTCGTATTCGATAGCCGAAGCT
65 TTTCATAATCGATAGCCGAAGCT
* * * ** *
39004581 ATCCCTCTTCATATTCGATGATCGTCACCATCCCTTTTCATAGTTGAT-GTTCGTCA-CCATCCC
1 ATCCCTTTTCATATTTGATGATCGTCACCATCCCTTTTCATAATCAATAG-TCG-AAGCCATCCC
39004644 TTTTCATAATCGATAGCCGAAGCT
64 TTTTCATAATCGATAGCCGAAGCT
*
39004668 ATCCCTTTTCATATTTAATGATC
1 ATCCCTTTTCATATTTGATGATC
39004691 ACTTATATAC
Statistics
Matches: 93, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
86 1 0.01
87 81 0.87
88 11 0.12
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (87 bp):
ATCCCTTTTCATATTTGATGATCGTCACCATCCCTTTTCATAATCAATAGTCGAAGCCATCCCTT
TTCATAATCGATAGCCGAAGCT
Found at i:39020905 original size:44 final size:43
Alignment explanation
Indices: 39020828--39020928 Score: 109
Period size: 44 Copynumber: 2.4 Consensus size: 43
39020818 CCGATATGTA
* * *
39020828 ATTTA-GTGTAAGACCACATCTGGGACGTTGACATCGACT-TATG
1 ATTTACGTGTAAGACCACATCTAGGACATCGACATC-A-TATATG
** *
39020871 ATTTACGTGTAAGACCATGTCTAGGACATCGACATCATATTTG
1 ATTTACGTGTAAGACCACATCTAGGACATCGACATCATATATG
39020914 ATTT-CGTGTAAGACC
1 ATTTACGTGTAAGACC
39020929 CTGTTTGGGA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
42 12 0.24
43 13 0.26
44 25 0.50
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (43 bp):
ATTTACGTGTAAGACCACATCTAGGACATCGACATCATATATG
Found at i:39020917 original size:43 final size:44
Alignment explanation
Indices: 39020819--39020981 Score: 133
Period size: 43 Copynumber: 3.8 Consensus size: 44
39020809 ACATAGGATC
* * ** *
39020819 CGATATGTAATTTA-GTGTAAGACCACATCTGGGAC-GTTGACAT
1 CGATATTTGATTTACGTGTAAGACCATGTCTAGGACAG-TGACAT
*
39020862 CGACT-TATGATTTACGTGTAAGACCATGTCTAGGACA-TCGACAT
1 CGA-TATTTGATTTACGTGTAAGACCATGTCTAGGACAGT-GACAT
* * * * *
39020906 C-ATATTTGATTT-CGTGTAAGACCCTGTTTGGGATAGTGGCAT
1 CGATATTTGATTTACGTGTAAGACCATGTCTAGGACAGTGACAT
* *
39020948 CGATATTTGA-TTACATGTAAGACCACGTCTAGGA
1 CGATATTTGATTTACGTGTAAGACCATGTCTAGGA
39020982 TGTTGGTATT
Statistics
Matches: 96, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
42 27 0.28
43 44 0.46
44 25 0.26
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (44 bp):
CGATATTTGATTTACGTGTAAGACCATGTCTAGGACAGTGACAT
Found at i:39031016 original size:14 final size:14
Alignment explanation
Indices: 39030997--39031025 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
39030987 TGAATTAGCA
39030997 TAATTTGGTATGGT
1 TAATTTGGTATGGT
39031011 TAATTTGGTATGGT
1 TAATTTGGTATGGT
39031025 T
1 T
39031026 TGTTGATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (14 bp):
TAATTTGGTATGGT
Done.