Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 149 of 349
Found at i:47430199 original size:50 final size:50
Alignment explanation
Indices: 47430140--47430240 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
47430130 CATAACTCAA
47430140 GTAGTATTCTTTCCTAGGATTCCATAGACATCAAAATTACAAGAAAAAGG
1 GTAGTATTCTTTCCTAGGATTCCATAGACATCAAAATTACAAGAAAAAGG
47430190 GTAGTATTCTTTCCTAGGATTCCATAGACATCAAAATTACAAGAAAAAGG
1 GTAGTATTCTTTCCTAGGATTCCATAGACATCAAAATTACAAGAAAAAGG
47430240 G
1 G
47430241 ATCAAATTGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (50 bp):
GTAGTATTCTTTCCTAGGATTCCATAGACATCAAAATTACAAGAAAAAGG
Found at i:47432095 original size:31 final size:31
Alignment explanation
Indices: 47432057--47432119 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
47432047 TAGATTTTTG
47432057 AAGATTTCCAATCAACAATAACAGAAATCTT
1 AAGATTTCCAATCAACAATAACAGAAATCTT
47432088 AAGATTTCCAATCAACAATAACAGAAATCTT
1 AAGATTTCCAATCAACAATAACAGAAATCTT
47432119 A
1 A
47432120 CTCAAGTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.25
Consensus pattern (31 bp):
AAGATTTCCAATCAACAATAACAGAAATCTT
Found at i:47433709 original size:20 final size:20
Alignment explanation
Indices: 47433684--47433724 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
47433674 CTAAAACAAG
47433684 CTCCGCTCATTATTTTACAT
1 CTCCGCTCATTATTTTACAT
47433704 CTCCGCTCATTATTTTACAT
1 CTCCGCTCATTATTTTACAT
47433724 C
1 C
47433725 CACTGTAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.32, G:0.05, T:0.44
Consensus pattern (20 bp):
CTCCGCTCATTATTTTACAT
Found at i:47435674 original size:46 final size:46
Alignment explanation
Indices: 47435607--47435782 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 46
47435597 TGTAACCCGC
* * * *
47435607 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGGTTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGATTCGCAT
* ** * *
47435653 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-GATTCGCAT
* *** * * *
47435699 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGAGATTCGCAT
*
47435746 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
47435783 TGCCCAAATA
Statistics
Matches: 102, Mismatches: 25, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
46 68 0.67
47 34 0.33
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGATTCGCAT
Found at i:47435722 original size:93 final size:93
Alignment explanation
Indices: 47435614--47435786 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
47435604 CGCCCATAAG
****
47435614 CGAACTCAGACTCAACTCAACGAGCTCGGGGTTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47435679 ACAAGCTCGGATGCCTAGTTACATCTCT
66 ACAAGCTCGGATGCCTAGTTACATCTCT
* *
47435707 CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
47435772 ACGAGTTCGGATGCC
66 ACAAGCTCGGATGCC
47435787 CAAATATCCC
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGCTCGGATGCCTAGTTACATCTCT
Found at i:47439138 original size:24 final size:25
Alignment explanation
Indices: 47439095--47439164 Score: 83
Period size: 24 Copynumber: 2.9 Consensus size: 25
47439085 TTGAGTTGAT
**
47439095 GAACAG-AAGCTCTATGGAGCTGGA
1 GAACAGTAAGCTCTAACGAGCTGGA
*
47439119 -AACTGTAAGCTCTAACGAGCT-GA
1 GAACAGTAAGCTCTAACGAGCTGGA
*
47439142 GAACAGTAAGCTCTTACGAGCTG
1 GAACAGTAAGCTCTAACGAGCTG
47439165 ATATATCGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
23 6 0.16
24 32 0.84
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (25 bp):
GAACAGTAAGCTCTAACGAGCTGGA
Found at i:47443999 original size:20 final size:20
Alignment explanation
Indices: 47443971--47444009 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47443961 CACGCTCGTG
47443971 TGGCCTGGGACATGCCCGTA
1 TGGCCTGGGACATGCCCGTA
* *
47443991 TGGCTTGGGACATGGCCGT
1 TGGCCTGGGACATGCCCGT
47444010 GGGGCCAGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.26, G:0.38, T:0.23
Consensus pattern (20 bp):
TGGCCTGGGACATGCCCGTA
Found at i:47450710 original size:50 final size:50
Alignment explanation
Indices: 47450635--47450811 Score: 284
Period size: 50 Copynumber: 3.5 Consensus size: 50
47450625 CCATGGCAAC
*
47450635 AAGTGATAAGTGATATCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
47450685 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
*
47450735 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAA-TGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTGA
* * *
47450785 CAAGTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
47450812 CTGATCAGTG
Statistics
Matches: 120, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
50 94 0.78
51 26 0.22
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
Found at i:47450825 original size:31 final size:31
Alignment explanation
Indices: 47450787--47450873 Score: 156
Period size: 31 Copynumber: 2.8 Consensus size: 31
47450777 ACAAATGACA
*
47450787 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
47450818 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
47450849 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
47450874 AAGTGACAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:47450968 original size:47 final size:43
Alignment explanation
Indices: 47450899--47451063 Score: 174
Period size: 47 Copynumber: 3.7 Consensus size: 43
47450889 AGTGATTTCC
47450899 GTATAAGACCATATCTGGGATATGGCATCGATGTGATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATC-A-GTGATATATG-TA-T
*
47450946 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 GTATAAGACCATATCTGGGATATGGCATCAGTGATATATGT-A-T
* * *
47450991 CGTGTAAGACCATAGCTGGGCTATGGCATC---GATATATGAATAT
1 -GTATAAGACCATATCTGGGATATGGCATCAGTGATATATG--TAT
* *
47451034 GTGTAAGACCATATCTGGGCTATGGCATCA
1 GTATAAGACCATATCTGGGATATGGCATCA
47451064 TTATGTGAAG
Statistics
Matches: 106, Mismatches: 7, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
42 28 0.26
43 8 0.08
44 2 0.02
45 12 0.11
46 27 0.25
47 29 0.27
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (43 bp):
GTATAAGACCATATCTGGGATATGGCATCAGTGATATATGTAT
Found at i:47451052 original size:42 final size:43
Alignment explanation
Indices: 47450902--47451106 Score: 170
Period size: 42 Copynumber: 4.7 Consensus size: 43
47450892 GATTTCCGTA
* * *
47450902 TAAGACCATATCTGGGATATGGCATCGATGTGATAT-ATGCTACTGTA
1 TAAGACCATATCTGGGCTATGGCATCGAT-T-ATATGA--ATA-TGTG
* * *
47450949 TAAGACCATATCTGGGATATGGCATC-AGTGAGATATGTGAT-TCGTG
1 TAAGACCATATCTGGGCTATGGCATCGA-T--TATATG-AATAT-GTG
*
47450995 TAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATGTG
1 TAAGACCATATCTGGGCTATGGCATCGATTATATGAATATGTG
* *
47451037 TAAGACCATATCTGGGCTATGGCATC-ATTATGTGAAGATGTG
1 TAAGACCATATCTGGGCTATGGCATCGATTATATGAATATGTG
**
47451079 TAAGACCATAGT-TGAACTATGGCATCGA
1 TAAGACCATA-TCTGGGCTATGGCATCGA
47451107 GAAAACGAAG
Statistics
Matches: 134, Mismatches: 14, Indels: 24
0.78 0.08 0.14
Matches are distributed among these distances:
41 1 0.01
42 64 0.48
43 8 0.06
45 1 0.01
46 27 0.20
47 33 0.25
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (43 bp):
TAAGACCATATCTGGGCTATGGCATCGATTATATGAATATGTG
Found at i:47452428 original size:20 final size:20
Alignment explanation
Indices: 47452403--47452442 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
47452393 CTAAAACAAG
47452403 CTCCGCTCATTATTTTACAT
1 CTCCGCTCATTATTTTACAT
47452423 CTCCGCTCATTATTTTACAT
1 CTCCGCTCATTATTTTACAT
47452443 TCACTGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (20 bp):
CTCCGCTCATTATTTTACAT
Found at i:47455101 original size:24 final size:24
Alignment explanation
Indices: 47455031--47455101 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
47455021 TTGAGTTGAT
47455031 GAACAG-AAGCTCTATA-GAGCTG-
1 GAACAGTAAGCTCT-TACGAGCTGA
* *
47455053 GAAACTGTAAGCTCTAACGAGCTGA
1 G-AACAGTAAGCTCTTACGAGCTGA
47455078 GAACAGTAAGCTCTTACGAGCTGA
1 GAACAGTAAGCTCTTACGAGCTGA
47455102 TATATCGGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 1 0.02
23 5 0.12
24 34 0.83
25 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (24 bp):
GAACAGTAAGCTCTTACGAGCTGA
Found at i:47460970 original size:26 final size:26
Alignment explanation
Indices: 47460940--47461047 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
47460930 TGAAATTCCC
47460940 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
47460966 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
47460992 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
47461018 ATCATGGAACATTTACCTAACCCACT
1 ATCATGGAACATTTACCTAACCCATT
47461044 ATCA
1 ATCA
47461048 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:47463004 original size:20 final size:20
Alignment explanation
Indices: 47462979--47463019 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
47462969 AGAGGCACAC
47462979 GCCCGTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
*
47462999 GCCCGTGTGGCTTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
47463019 G
1 G
47463020 GTCATGGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.27, G:0.41, T:0.22
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGGACAT
Found at i:47470896 original size:49 final size:48
Alignment explanation
Indices: 47470733--47470908 Score: 183
Period size: 51 Copynumber: 3.5 Consensus size: 48
47470723 TGAGTACACG
* * *
47470733 TGTGCAGTACTAAGTGCAAGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-A-TGTTAGGTCGCA
* * * * * * *
47470783 TGTGTAGTACTTAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAATG--TTAGGTCGCA
*
47470834 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC--AATGTTAGGTCGCA
47470883 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
47470909 TGCATATCAG
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
49 32 0.31
50 32 0.31
51 37 0.36
52 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAATGTTAGGTCGCA
Found at i:47474854 original size:16 final size:16
Alignment explanation
Indices: 47474835--47474877 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
47474825 TTTCAAAATT
47474835 TAAAGTACGGACTAGC
1 TAAAGTACGGACTAGC
*
47474851 TAAAGTACAGACTAGC
1 TAAAGTACGGACTAGC
47474867 TAAAGTACGGA
1 TAAAGTACGGA
47474878 GCAACGATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (16 bp):
TAAAGTACGGACTAGC
Found at i:47477398 original size:13 final size:13
Alignment explanation
Indices: 47477380--47477404 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47477370 TAATGGTATA
47477380 TTGAATCCATGAC
1 TTGAATCCATGAC
47477393 TTGAATCCATGA
1 TTGAATCCATGA
47477405 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:47478011 original size:27 final size:27
Alignment explanation
Indices: 47477951--47478128 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
47477941 TTAAATTGTA
47477951 TAGCACTAAGTGTGCG-ATTGACTATG
1 TAGCACTAAGTGTGCGAATTGACTATG
* * *
47477977 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGAATTGACTATG
*
47478004 -ATGCACTAAGTGTGCGAATTGACCATG
1 TA-GCACTAAGTGTGCGAATTGACTATG
** *
47478031 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-ATTGACTATG
* * *
47478059 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGAATTGACTATG
* *
47478086 TAGCACTAAGTGTGCGAGA-TGATTATA
1 TAGCACTAAGTGTGCGA-ATTGACTATG
*
47478113 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
47478129 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
26 15 0.12
27 91 0.71
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGAATTGACTATG
Found at i:47478065 original size:82 final size:80
Alignment explanation
Indices: 47477953--47478102 Score: 221
Period size: 82 Copynumber: 1.9 Consensus size: 80
47477943 AAATTGTATA
* *
47477953 GCACTAAGTGTGCGATTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGT
1 GCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGT
47478017 GCGAATTGACCATGCG
65 GCGAATTGACCATGCG
** *
47478033 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA--TTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
47478098 TGCGA
64 TGCGA
47478103 GATGATTATA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
80 15 0.24
82 46 0.74
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (80 bp):
GCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTG
CGAATTGACCATGCG
Found at i:47478119 original size:82 final size:80
Alignment explanation
Indices: 47477949--47478128 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 80
47477939 GATTAAATTG
* *
47477949 TATAGCACTAAGTGTGCGATTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAG
1 TATAGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAG
47478014 TGTGCGAATTGACCA
66 TGTGCGAATTGACCA
*** ** *
47478029 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA--TTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
47478093 AAGTGTGCGAGA-TGATTA
63 AAGTGTGCGA-ATTGACCA
*
47478111 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
47478129 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
80 16 0.20
81 1 0.01
82 64 0.78
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (80 bp):
TATAGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAG
TGTGCGAATTGACCA
Found at i:47485279 original size:13 final size:13
Alignment explanation
Indices: 47485261--47485285 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47485251 TAATGGTATA
47485261 TTGAATCCATGAC
1 TTGAATCCATGAC
47485274 TTGAATCCATGA
1 TTGAATCCATGA
47485286 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:47485855 original size:27 final size:27
Alignment explanation
Indices: 47485823--47486001 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
47485813 TTAAATTGTA
47485823 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
47485850 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
47485877 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
47485904 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
47485932 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
47485959 TAGCACTAAGTGTGCGAGATGATTATA
1 TAGCACTAAGTGTGCGATATGACTATG
*
47485986 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
47486002 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:47485944 original size:82 final size:81
Alignment explanation
Indices: 47485825--47485975 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
47485815 AAATTGTATA
* *
47485825 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
47485889 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
47485906 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
47485971 TGCGA
65 TGCGA
47485976 GATGATTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 15 0.24
82 46 0.74
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:47485992 original size:82 final size:81
Alignment explanation
Indices: 47485821--47486001 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 81
47485811 GATTAAATTG
* *
47485821 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
47485886 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
47485902 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
47485966 AAGTGTGCGAGA-TGATTA
64 AAGTGTGCGA-ATTGACCA
*
47485984 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
47486002 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 17 0.21
82 64 0.78
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:47493137 original size:13 final size:13
Alignment explanation
Indices: 47493119--47493143 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47493109 TAATGGTATA
47493119 TTGAATCCATGAC
1 TTGAATCCATGAC
47493132 TTGAATCCATGA
1 TTGAATCCATGA
47493144 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:47493726 original size:27 final size:27
Alignment explanation
Indices: 47493691--47493869 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
47493681 TTAAATTGTA
47493691 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
47493718 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
47493745 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
47493772 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
47493800 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
47493827 TAGCACTAAGTGTGCGAGATGATTATA
1 TAGCACTAAGTGTGCGATATGACTATG
*
47493854 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
47493870 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:47493807 original size:82 final size:81
Alignment explanation
Indices: 47493693--47493843 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
47493683 AAATTGTATA
* *
47493693 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
47493757 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
47493774 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
47493839 TGCGA
65 TGCGA
47493844 GATGATTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 15 0.24
82 46 0.74
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:47493860 original size:82 final size:81
Alignment explanation
Indices: 47493689--47493869 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 81
47493679 GATTAAATTG
* *
47493689 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
47493754 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
47493770 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
47493834 AAGTGTGCGAGA-TGATTA
64 AAGTGTGCGA-ATTGACCA
*
47493852 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
47493870 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 17 0.21
82 64 0.78
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:47500547 original size:29 final size:29
Alignment explanation
Indices: 47500454--47500551 Score: 106
Period size: 29 Copynumber: 3.4 Consensus size: 29
47500444 ACAATATATC
*
47500454 GACGCCCATCGAATATGAAAAGGGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
* * * *
47500483 GACAACCATCAAACATGGAAAGGGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
*** *
47500512 TTTGACCATCGAATATGAAAAGAGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
*
47500541 GGCGACCATCG
1 GACGACCATCG
47500552 CTTAGCACAC
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (29 bp):
GACGACCATCGAATATGAAAAGGGATGGT
Found at i:47503380 original size:28 final size:28
Alignment explanation
Indices: 47503307--47503384 Score: 72
Period size: 29 Copynumber: 2.8 Consensus size: 28
47503297 CTGTAAAAGT
* **
47503307 GATTGGGCCTAGTGGGCCATATAGATGT
1 GATTGGGCCTTGTGGGCCATATAGATAA
47503335 GATATGGG-CTTAAG-GGGCCATAT-GAATAA
1 GAT-TGGGCCTT--GTGGGCCATATAG-ATAA
47503364 GATTGGGCCTTGTGGGCCATA
1 GATTGGGCCTTGTGGGCCATA
47503385 AGCATGTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
27 1 0.02
28 18 0.44
29 21 0.51
30 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.35, T:0.27
Consensus pattern (28 bp):
GATTGGGCCTTGTGGGCCATATAGATAA
Found at i:47517566 original size:17 final size:17
Alignment explanation
Indices: 47517541--47517575 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47517531 TTAGGATAAA
*
47517541 TTTTGATTGATTTATCT
1 TTTTGATTGATATATCT
*
47517558 TTTTTATTGATATATCT
1 TTTTGATTGATATATCT
47517575 T
1 T
47517576 GAATTAAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.06, G:0.09, T:0.66
Consensus pattern (17 bp):
TTTTGATTGATATATCT
Found at i:47520135 original size:43 final size:42
Alignment explanation
Indices: 47520060--47520168 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 42
47520050 ATCTCGATCA
* * * **
47520060 CATATCCCAGATATGGTCTTAAACGGGATCTCATATTTATGC
1 CATAGCCCAGATATGGTCTTACACGAGATCTCATATCGATGC
* *
47520102 CAATAGCCTAGCTATGGTCTTACACGA-AGTCTCATATCGATGC
1 C-ATAGCCCAGATATGGTCTTACACGAGA-TCTCATATCGATGC
*
47520145 CATATCCCAGATATGGTCTTACAC
1 CATAGCCCAGATATGGTCTTACAC
47520169 ATAATTTCAA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 22 0.40
43 33 0.60
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (42 bp):
CATAGCCCAGATATGGTCTTACACGAGATCTCATATCGATGC
Found at i:47523066 original size:27 final size:27
Alignment explanation
Indices: 47523036--47523349 Score: 317
Period size: 27 Copynumber: 11.6 Consensus size: 27
47523026 TTAGTTTACC
* * * *
47523036 AAATTACTAAAATACTCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
47523063 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
47523090 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
47523117 AAATTACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
47523144 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
47523171 AAATTACCAAAATACCACTTGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
47523198 AAATTACCAAAACACTCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
47523225 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
47523252 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** * *
47523279 AAATTACTGAAATA-CCCTAAGTTTGCA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*** **
47523306 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
47523333 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
47523350 TTGATTTACA
Statistics
Matches: 236, Mismatches: 49, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
26 4 0.02
27 230 0.97
28 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:47523102 original size:54 final size:54
Alignment explanation
Indices: 47523036--47523349 Score: 353
Period size: 54 Copynumber: 5.8 Consensus size: 54
47523026 TTAGTTTACC
* * * *
47523036 AAATTACTAAAATACTCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
*
47523090 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
* * * *
47523144 AAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCACTTGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
* * *
47523198 AAATTACCAAAACACTCC-TGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATAC-CCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
* * * * ** *
47523252 AAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATA-CCCTAAGTTTGCA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCT-AGTTTGTA
*** * ** * *
47523306 AAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCC
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCC
47523350 TTGATTTACA
Statistics
Matches: 222, Mismatches: 34, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
53 6 0.03
54 212 0.95
55 4 0.02
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
Found at i:47523376 original size:81 final size:81
Alignment explanation
Indices: 47523085--47523403 Score: 199
Period size: 81 Copynumber: 3.9 Consensus size: 81
47523075 TACCCCTGGT
* * * * **
47523085 TTGTAAAATTACCAAAATACCCTTGGTTT-ATAAAATTACCAAAATACCCCTA-ATTTGTAAAAT
1 TTGTAAAATTACCAAAATACCCCTGATTTCA-GAAATTACCGAAATA-CCCTAGATTTACAAAAT
* * *
47523148 TACTAAAATACCCTTTG-T
64 TACTGAAATACCC-TCGAC
* * * * * * **
47523166 TTATAAAATTACCAAAATACCACTTG-TTTGTA-AAATTACCAAAACACTCCT-GGTTTGTAAAA
1 TTGTAAAATTACCAAAATACC-CCTGATTT-CAGAAATTACCGAAATAC-CCTAGATTTACAAAA
* * *
47523228 TTA-TCAAAATACCC-CTAGT
63 TTACT-GAAATACCCTCGA-C
** * *
47523247 TTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCTA-AGTTTGCAAAATT
1 TTGTAAAATTACCAAAATACCCCTGATTTCAGAAATTACCGAAATACCCTAGA-TTTACAAAATT
*
47523311 ATTGAAATACCCTCGAC
65 ACTGAAATACCCTCGAC
* * *** *
47523328 TTGTAAAATTACCAAAGTACCCTTGATTTACAG-AATTACCGTTTTACCCTCGATTTACAAAATT
1 TTGTAAAATTACCAAAATACCCCTGATTT-CAGAAATTACCGAAATACCCTAGATTTACAAAATT
47523392 ACTGAAATACCC
65 ACTGAAATACCC
47523404 CTGTAGGGTA
Statistics
Matches: 194, Mismatches: 28, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
80 8 0.04
81 176 0.91
82 9 0.05
83 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCCCTGATTTCAGAAATTACCGAAATACCCTAGATTTACAAAATTA
CTGAAATACCCTCGAC
Found at i:47523402 original size:27 final size:27
Alignment explanation
Indices: 47523279--47523403 Score: 101
Period size: 27 Copynumber: 4.6 Consensus size: 27
47523269 CTGATTTGTG
* *
47523279 AAATTACTGAAATACCCT-AAGTTTGCA
1 AAATTACTGAAATACCCTCGA-TTTACA
* * **
47523306 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTACA
* *
47523333 AAATTAC-CAAAGTACCCTTGATTTACA
1 AAATTACTGAAA-TACCCTCGATTTACA
* * ***
47523360 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACTGAAATACCCTCGATTTACA
47523387 AAATTACTGAAATACCC
1 AAATTACTGAAATACCC
47523404 CTGTAGGGTA
Statistics
Matches: 74, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
26 3 0.04
27 70 0.95
28 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTACA
Found at i:47523508 original size:54 final size:54
Alignment explanation
Indices: 47523395--47523580 Score: 250
Period size: 54 Copynumber: 3.5 Consensus size: 54
47523385 CAAAATTACT
* * *
47523395 GAAATACCCCTGTAGGGTAGAATTATCGCAA-ACCCCTGTAAGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAAGGTAGAAATACC
* *
47523448 GAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTTTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAAGGTAGAAATACC
* *
47523502 GAAATACCCCTGTAGGGTAGAATTATTGAAATACCCCTGTATGGTA-AAATTACC
1 GAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAAGGTAGAAA-TACC
* * * *
47523556 GAGATACCCTTGTGGGGTAAAATTA
1 GAAATACCCCTGTAGGGTAGAATTA
47523581 CCATTTTCCT
Statistics
Matches: 119, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
53 33 0.28
54 86 0.72
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (54 bp):
GAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAAGGTAGAAATACC
Found at i:47523536 original size:81 final size:80
Alignment explanation
Indices: 47523386--47523578 Score: 253
Period size: 81 Copynumber: 2.4 Consensus size: 80
47523376 CTCGATTTAC
* * * *
47523386 AAAATTACTGAAATACCCCTGTAGGGTAGAATTATCGCAAACCCCTGTAAGGTAGAATTATCGAA
1 AAAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAAACCCCTGTAAGGTAGAATTATCGAA
47523451 ATACCCCTGTAGGGT
66 ATACCCCTGTAGGGT
* * * * *
47523466 AGAATTATCGAAATACCCCTTTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTATTGA
1 AAAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAA-ACCCCTGTAAGGTAGAATTATCGA
*
47523531 AATACCCCTGTATGGT
65 AATACCCCTGTAGGGT
* * *
47523547 AAAATTACCGAGATACCCTTGTGGGGTA-AAAT
1 AAAATTACCGAAATACCCCTGTAGGGTAGAAAT
47523579 TACCATTTTC
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 37 0.39
81 59 0.61
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (80 bp):
AAAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAAACCCCTGTAAGGTAGAATTATCGAA
ATACCCCTGTAGGGT
Found at i:47523582 original size:27 final size:27
Alignment explanation
Indices: 47523386--47523582 Score: 218
Period size: 27 Copynumber: 7.3 Consensus size: 27
47523376 CTCGATTTAC
*
47523386 AAAATTACTGAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* * * *
47523413 AGAATTATCGCAA-ACCCCTGTAAGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* *
47523439 AGAATTATCGAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* * *
47523466 AGAATTATCGAAATACCCCTTTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
47523493 AGAAA-TACCGAAATACCCCTGTAGGGT
1 A-AAATTACCGAAATACCCCTGTAGGGT
* ** *
47523520 AGAATTATTGAAATACCCCTGTATGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* * *
47523547 AAAATTACCGAGATACCCTTGTGGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
47523574 AAAATTACC
1 AAAATTACC
47523583 ATTTTCCTTT
Statistics
Matches: 145, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
26 26 0.18
27 117 0.81
28 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTGTAGGGT
Found at i:47523951 original size:73 final size:73
Alignment explanation
Indices: 47523808--47523955 Score: 233
Period size: 73 Copynumber: 2.0 Consensus size: 73
47523798 GAGGAAGCGT
* *
47523808 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATATCTGGTCTGGTGACTTCG
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATATCTGGTCTGGTGACCTAG
*
47523873 TCACAATA
66 CCACAATA
* * * *
47523881 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATATATCTGTTTTGGTGGCCTAG
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATATCTGGTCTGGTGACCTAG
47523946 CCACAATA
66 CCACAATA
47523954 TC
1 TC
47523956 AGTATCTGGT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (73 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATATCTGGTCTGGTGACCTAG
CCACAATA
Found at i:47524134 original size:25 final size:23
Alignment explanation
Indices: 47524106--47524227 Score: 93
Period size: 25 Copynumber: 5.0 Consensus size: 23
47524096 CATTCACATT
47524106 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTTTGATTCTGTT--CTGATA
*
47524131 CTGATTTTGATTCTAATTCTG-TCA
1 CTGATTTTGATTCT-GTTCTGAT-A
* * *
47524155 CCTAATTTTGATTTTGATTCTGATT
1 -CTGATTTTGATTCTG-TTCTGATA
* * *
47524180 CTGATTCTGATTCTGTCACCTGATT
1 CTGATTTTGATTCTGT--TCTGATA
47524205 CTGATTTTGATTCTGATTCTGAT
1 CTGATTTTGATTCTG-TTCTGAT
47524228 TCTAGTTCTG
Statistics
Matches: 78, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
23 2 0.03
24 21 0.27
25 51 0.65
26 4 0.05
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (23 bp):
CTGATTTTGATTCTGTTCTGATA
Found at i:47524150 original size:31 final size:31
Alignment explanation
Indices: 47524115--47524182 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
47524105 TCTGATTTTG
* *
47524115 ATTCTGTTACCTGATACTGATTTTGATTCTA
1 ATTCTGTCACCTAATACTGATTTTGATTCTA
** *
47524146 ATTCTGTCACCTAATTTTGATTTTGATTCTG
1 ATTCTGTCACCTAATACTGATTTTGATTCTA
47524177 ATTCTG
1 ATTCTG
47524183 ATTCTGATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (31 bp):
ATTCTGTCACCTAATACTGATTTTGATTCTA
Found at i:47524168 original size:6 final size:6
Alignment explanation
Indices: 47524103--47524239 Score: 93
Period size: 6 Copynumber: 22.3 Consensus size: 6
47524093 TTGCATTCAC
* * * *
47524103 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTTTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
47524152 -TCACCTA ATTTTG ATTTTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
*
47524202 ATTCTG ATTTTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
47524240 AATGTTTCTT
Statistics
Matches: 102, Mismatches: 18, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
5 5 0.05
6 85 0.83
7 9 0.09
8 3 0.03
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:47524178 original size:43 final size:43
Alignment explanation
Indices: 47524126--47524237 Score: 170
Period size: 43 Copynumber: 2.6 Consensus size: 43
47524116 TTCTGTTACC
* * *
47524126 TGATACTGATTTTGATTCTAATTCTGTCACCTAATTTTGATTT
1 TGATTCTGATTCTGATTCTAATTCTGTCACCTAATTCTGATTT
* *
47524169 TGATTCTGATTCTGATTCTGATTCTGTCACCTGATTCTGATTT
1 TGATTCTGATTCTGATTCTAATTCTGTCACCTAATTCTGATTT
*
47524212 TGATTCTGATTCTGATTCTAGTTCTG
1 TGATTCTGATTCTGATTCTAATTCTG
47524238 ATAATGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (43 bp):
TGATTCTGATTCTGATTCTAATTCTGTCACCTAATTCTGATTT
Found at i:47528387 original size:47 final size:47
Alignment explanation
Indices: 47528321--47528561 Score: 340
Period size: 47 Copynumber: 5.1 Consensus size: 47
47528311 GAAATGATAG
*
47528321 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
47528368 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47528415 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAGATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47528462 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * *
47528511 -CAGGGCTGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47528558 TAAG
1 TAAG
47528562 TCCCGAAGGG
Statistics
Matches: 175, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
47 135 0.77
48 7 0.04
49 33 0.19
ACGTcount: A:0.31, C:0.10, G:0.32, T:0.27
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:47528735 original size:37 final size:37
Alignment explanation
Indices: 47528679--47528757 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
47528669 CCGAGCTCTA
* * * *
47528679 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTAGAGATTATGTCCGGGT
*
47528716 AAGACCCGATAACTTCGTGTAGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTAGAGATTATGTCCGGGT
47528753 AAGAC
1 AAGAC
47528758 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTAGAGATTATGTCCGGGT
Found at i:47530668 original size:43 final size:43
Alignment explanation
Indices: 47530620--47530722 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
47530610 TTGGTTTTCA
*
47530620 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTAAGATTG
47530663 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTAAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTAAGATTG
47530706 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
47530723 TTGAAATGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTAAGATTG
Found at i:47530739 original size:29 final size:29
Alignment explanation
Indices: 47530704--47530777 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
47530694 GTTGTAAGAT
* *
47530704 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
47530733 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
47530762 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47530778 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:47531136 original size:40 final size:40
Alignment explanation
Indices: 47531088--47531230 Score: 171
Period size: 40 Copynumber: 3.6 Consensus size: 40
47531078 TCGAATGATG
* *
47531088 TCCGGACTAAGTTCTGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
47531128 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
*** * * *
47531168 TCCGTG-CTAAACCCCGAAGAGCATTTGTGCTGGTGTTATA
1 TCCG-GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
* * *
47531208 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGACTAAGTTCCGAAGAGCA
47531231 ATCATGCTGG
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 88 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:47531435 original size:25 final size:25
Alignment explanation
Indices: 47531407--47531457 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
47531397 CTATAATAAC
47531407 GAATGAATAAGA-GCACTATGTGTGT
1 GAATG-ATAAGAGGCACTATGTGTGT
* *
47531432 GAATGATTAGAGGCACTGTGTGTGT
1 GAATGATAAGAGGCACTATGTGTGT
47531457 G
1 G
47531458 CGAATTCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.29
Consensus pattern (25 bp):
GAATGATAAGAGGCACTATGTGTGT
Found at i:47535079 original size:47 final size:47
Alignment explanation
Indices: 47534939--47535553 Score: 1001
Period size: 47 Copynumber: 13.1 Consensus size: 47
47534929 GAAATGATAG
* *
47534939 TAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47534986 T-AGGCCTAATGG-CGATGTGATGAATG-GAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47535030 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47535077 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47535124 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATATATGTGA
*
47535172 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47535219 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47535266 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
47535315 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47535362 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-GTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47535408 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47535455 TAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * *
47535503 -CAGGGCTGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47535550 TAAG
1 TAAG
47535554 TCCCGAAGGG
Statistics
Matches: 538, Mismatches: 16, Indels: 27
0.93 0.03 0.05
Matches are distributed among these distances:
44 18 0.03
45 24 0.04
46 107 0.20
47 262 0.49
48 46 0.09
49 81 0.15
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:47535256 original size:189 final size:188
Alignment explanation
Indices: 47534941--47535553 Score: 1031
Period size: 189 Copynumber: 3.3 Consensus size: 188
47534931 AATGATAGTA
* *
47534941 AGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATACGTGAT-AGGCCTAATGG-CGATGT
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
47535004 GATGAATG-GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
66 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
47535068 TATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGAT
131 TATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGAT
47535125 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 AGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGAT
*
47535190 GTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
64 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
47535255 TATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
129 TATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGAT
47535316 AGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
1 A-GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
47535381 TGATGAATGTGAAAGTGTATATA-GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
65 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* *
47535445 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATATGTGAC
130 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGAT
* * * * * *
47535504 AGGGCTGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 AGGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
47535554 TCCCGAAGGG
Statistics
Matches: 408, Mismatches: 12, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
184 30 0.07
186 14 0.03
187 15 0.04
188 71 0.17
189 179 0.44
190 56 0.14
191 13 0.03
192 30 0.07
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (188 bp):
AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
TATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGAT
Found at i:47535552 original size:142 final size:141
Alignment explanation
Indices: 47534939--47535553 Score: 1003
Period size: 142 Copynumber: 4.4 Consensus size: 141
47534929 GAAATGATAG
* *
47534939 TAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATACGTGAT-AGGCCTAATGG-CGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
47535002 GTGATGAATG-GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
47535066 TATATATGAGA
131 TATATATGAGA
47535077 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
47535141 GTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
47535206 TGTATATATGAGA
129 TGTATATATGAGA
*
47535219 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
47535284 GTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
47535349 TGTATATATGTGA
129 TGTATATATGAGA
47535362 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-GTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
47535426 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
47535490 TATATAT-ATG-
131 TATATATGA-GA
* * * * * *
47535500 TGACAGGGCTGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 T-A-AGGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
47535554 TCCCGAAGGG
Statistics
Matches: 451, Mismatches: 14, Indels: 20
0.93 0.03 0.04
Matches are distributed among these distances:
138 58 0.13
139 28 0.06
140 49 0.11
141 32 0.07
142 155 0.34
143 129 0.29
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (141 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGAGA
Found at i:47535728 original size:37 final size:37
Alignment explanation
Indices: 47535672--47535750 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
47535662 CCGAGCTCTA
* * *
47535672 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
47535709 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
47535746 AAGAC
1 AAGAC
47535751 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:47542754 original size:45 final size:42
Alignment explanation
Indices: 47542657--47542781 Score: 121
Period size: 45 Copynumber: 2.9 Consensus size: 42
47542647 TTCTCAAATC
*
47542657 ACCGGCATT-TCA-CCTGTTAGGCTCG-AGGCCCGATATCAGTTT
1 ACCGGCATTAT-AGCCTGCTAGGCTCGAAGGCCCGA-AT-AGTTT
47542699 ACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATCT
1 ACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-T-T
* ** * *
47542743 CACCGGTATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 -ACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
47542782 ATCAAGTCAA
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
42 13 0.18
43 16 0.23
44 9 0.13
45 33 0.46
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (42 bp):
ACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTTT
Found at i:47543219 original size:38 final size:38
Alignment explanation
Indices: 47543177--47543373 Score: 243
Period size: 38 Copynumber: 5.1 Consensus size: 38
47543167 GAAGGCCCGA
* * * *
47543177 ATATAATACTAGCACTAGGCCTGCGGGATTTATCCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
*
47543215 ATATAATACCAGCACGAAGCCTGCTGGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
** * * *
47543253 ATATTTTACCAGCACGAAGCTTGCGGGTCTTTAAGCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCAG
47543293 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCC-G
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
* * *
47543330 AATATAATACCAGCACGAAGCCTACAGGATTTAACCCGG
1 -ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
47543369 ATATA
1 ATATA
47543374 CATCGAATTT
Statistics
Matches: 138, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
37 1 0.01
38 98 0.71
39 11 0.08
40 28 0.20
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
Found at i:47548951 original size:37 final size:37
Alignment explanation
Indices: 47548902--47548974 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
47548892 CATCATCATC
47548902 ATATATACTTAAACCAATATTAGCCAATACCATATGT
1 ATATATACTTAAACCAATATTAGCCAATACCATATGT
47548939 ATATATACTTAAACCAATATTAGCCAATACCATATG
1 ATATATACTTAAACCAATATTAGCCAATACCATATG
47548975 GCCATTTACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (37 bp):
ATATATACTTAAACCAATATTAGCCAATACCATATGT
Found at i:47549654 original size:42 final size:42
Alignment explanation
Indices: 47549544--47549655 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 42
47549534 CACCATACCA
* * *
47549544 ATGCCATATCCCAAATATGGTCTTATATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAGATCTCATATCG
* * *
47549586 ATGCCAATAGCCCAGCTATGGTCTTACATGA-AGTCTTATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAGA-TCTCATATCG
*
47549629 ATGTCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
47549656 CGTAATCTCA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 26 0.44
43 33 0.56
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAGATCTCATATCG
Found at i:47550968 original size:29 final size:29
Alignment explanation
Indices: 47550934--47550999 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
47550924 GTTGAATCAC
* * *
47550934 GATGGTCATGACGATCCCTTTTCATAGTT
1 GATGGTCATCACCATCCCTTTTCATAATT
*
47550963 GATGGTCGTCACCATCCCTTTTCATAATT
1 GATGGTCATCACCATCCCTTTTCATAATT
*
47550992 GATAGTCA
1 GATGGTCA
47551000 AAGCTACCCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (29 bp):
GATGGTCATCACCATCCCTTTTCATAATT
Found at i:47551043 original size:29 final size:29
Alignment explanation
Indices: 47550976--47551133 Score: 115
Period size: 29 Copynumber: 5.4 Consensus size: 29
47550966 GGTCGTCACC
* *
47550976 ATCCCTTTTCATAATTGATAGTCAAAGCT
1 ATCCCTTTTCATAATAGATAGCCAAAGCT
47551005 A-CCCTTTTTCATAATAGATAGCCAAAGCT
1 ATCCC-TTTTCATAATAGATAGCCAAAGCT
* * * *** *
47551034 ATCCCCTTTCATATTCA-ATGGTCGTCA-CC
1 ATCCCTTTTCATAAT-AGATAG-CCAAAGCT
* * *
47551063 ATCCCTTTTCATAGTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATAGATAGCCAAAGCT
** * *
47551092 ATCTTTTTTCATAATCGATAGCCAAAACT
1 ATCCCTTTTCATAATAGATAGCCAAAGCT
*
47551121 ATCCATTTTCATA
1 ATCCCTTTTCATA
47551134 GTTGATGATC
Statistics
Matches: 99, Mismatches: 24, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
28 5 0.05
29 88 0.89
30 6 0.06
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.35
Consensus pattern (29 bp):
ATCCCTTTTCATAATAGATAGCCAAAGCT
Found at i:47551100 original size:87 final size:87
Alignment explanation
Indices: 47550947--47551147 Score: 269
Period size: 87 Copynumber: 2.3 Consensus size: 87
47550937 GGTCATGACG
* * *
47550947 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATTGATAGTCAAAGCTACCCTTT
1 ATCCCTTTTCATAGTTAATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTACCCTTT
*
47551012 TTCATAATAGATAGCCAAAGCT
66 TTCATAATAGATAGCCAAAACT
* * * * *
47551034 ATCCCCTTTCATA-TTCAATGGTCGTCACCATCCCTTTTCATAGTCGATAGCCGAAGCTATCTTT
1 ATCCCTTTTCATAGTT-AATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTACCCTT
*
47551098 TTTCATAATCGATAGCCAAAACT
65 TTTCATAATAGATAGCCAAAACT
* * *
47551121 ATCCATTTTCATAGTTGATGATCGTCA
1 ATCCCTTTTCATAGTTAATGGTCGTCA
47551148 TTACGCCATT
Statistics
Matches: 98, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
86 2 0.02
87 94 0.96
88 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (87 bp):
ATCCCTTTTCATAGTTAATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTACCCTTT
TTCATAATAGATAGCCAAAACT
Found at i:47553947 original size:21 final size:21
Alignment explanation
Indices: 47553917--47553959 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
47553907 CTCGAAATTG
*
47553917 TACGTCGGATAATTCTTTTCA
1 TACGTAGGATAATTCTTTTCA
47553938 TACGTAGGATAATTCTTTTCA
1 TACGTAGGATAATTCTTTTCA
47553959 T
1 T
47553960 GCGACTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (21 bp):
TACGTAGGATAATTCTTTTCA
Found at i:47555384 original size:33 final size:32
Alignment explanation
Indices: 47555322--47555385 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
47555312 ACGAAGTCAC
* *
47555322 CAGATATAAATATTGTGGCTAGGCCACCAGAA
1 CAGATATAAATATTGTGGCGAAGCCACCAGAA
* *
47555354 CAGATATATATATATGTTGCGAAGCCACCAGA
1 CAGATATAAATAT-TGTGGCGAAGCCACCAGA
47555386 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (32 bp):
CAGATATAAATATTGTGGCGAAGCCACCAGAA
Found at i:47555516 original size:98 final size:99
Alignment explanation
Indices: 47555285--47555550 Score: 473
Period size: 98 Copynumber: 2.7 Consensus size: 99
47555275 AACCACAGAA
* *
47555285 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATATAAATAT-TGTGGCTAGGCCAC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAATCACCAGA-ACAAATATATGTGGCTAGGCCAC
47555349 CAGAACAGATATATATATATGTTGCGAAGCCACCAG
65 CAGAACAGA-ATATATATATGTTGCGAAGCCACCAG
47555385 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAATCACCAGAACAAATATATGTGGCTAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAATCACCAGAACAAATATATGTGGCTAGGCCACC
47555450 AGAACAG-ATATATATATGTTGCGAAGCCACCAG
66 AGAACAGAATATATATATGTTGCGAAGCCACCAG
*
47555483 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAATCACCAGAACAAATATATGTGGCGAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAATCACCAGAACAAATATATGTGGCTAGGCCACC
47555548 AGA
66 AGA
47555551 TTGCAGCGAG
Statistics
Matches: 162, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
98 93 0.57
99 7 0.04
100 62 0.38
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (99 bp):
ATTGCAGCGAGGCTGCCAGATATTGTGACGAAATCACCAGAACAAATATATGTGGCTAGGCCACC
AGAACAGAATATATATATGTTGCGAAGCCACCAG
Found at i:47562847 original size:27 final size:27
Alignment explanation
Indices: 47562799--47562908 Score: 87
Period size: 27 Copynumber: 4.0 Consensus size: 27
47562789 GCGAGGCTGC
* * * *
47562799 CAGATATTATGACGAAGTCACCAGATA
1 CAGATATTGTGGCGAGGCCACCAGATA
*
47562826 CAGATATTGTGGCTAGGCCACCAGAACATA
1 CAGATATTGTGGCGAGGCCACCAG---ATA
* * * * *
47562856 TATATATTGTGACGAAGTCACCAGA-A
1 CAGATATTGTGGCGAGGCCACCAGATA
47562882 CAGATATATGTGGCGAGGCCACCAGAT
1 CAGATAT-TGTGGCGAGGCCACCAGAT
47562909 TGCAGCGAGG
Statistics
Matches: 62, Mismatches: 16, Indels: 9
0.71 0.18 0.10
Matches are distributed among these distances:
26 6 0.10
27 35 0.56
30 21 0.34
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (27 bp):
CAGATATTGTGGCGAGGCCACCAGATA
Found at i:47562865 original size:30 final size:28
Alignment explanation
Indices: 47562817--47562907 Score: 89
Period size: 27 Copynumber: 3.2 Consensus size: 28
47562807 ATGACGAAGT
*
47562817 CACCAGATACAG--ATATTGTGGCTAGGC
1 CACCAGA-ACAGATATATTGTGGCGAGGC
* * * *
47562844 CACCAGAACATATATATATTGTGACGAAGT
1 CACCAGAAC--AGATATATTGTGGCGAGGC
47562874 CACCAGAACAGATATA-TGTGGCGAGGC
1 CACCAGAACAGATATATTGTGGCGAGGC
47562901 CACCAGA
1 CACCAGA
47562908 TTGCAGCGAG
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
26 2 0.04
27 22 0.43
28 7 0.14
30 20 0.39
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATATATTGTGGCGAGGC
Found at i:47577055 original size:29 final size:29
Alignment explanation
Indices: 47577009--47577077 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
47576999 AGCCGAAGCT
*
47577009 ATCCCTTTTCATATTTGATGGTCATCACC
1 ATCCCTTTTCATAGTTGATGGTCATCACC
*
47577038 ATCCCTTTTCATAGTTGATGGTCGTCACC
1 ATCCCTTTTCATAGTTGATGGTCATCACC
47577067 ATCCCTTTTCA
1 ATCCCTTTTCA
47577078 AAATCGATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.19, C:0.29, G:0.12, T:0.41
Consensus pattern (29 bp):
ATCCCTTTTCATAGTTGATGGTCATCACC
Found at i:47577126 original size:29 final size:29
Alignment explanation
Indices: 47576997--47577137 Score: 113
Period size: 29 Copynumber: 4.9 Consensus size: 29
47576987 GATGTTACAA
* * * *
47576997 ATAGCCGAAGCTATCCCTTTTCATATTTG
1 ATAGTCGAAACTATCCCTTTTCATAATCG
* * * * *
47577026 ATGGTC-ATCACCATCCCTTTTCATAGTTG
1 ATAGTCGA-AACTATCCCTTTTCATAATCG
* ** * *
47577055 ATGGTCGTCACCATCCCTTTTCAAAATCG
1 ATAGTCGAAACTATCCCTTTTCATAATCG
*
47577084 ATAGTCGAAGCTATCCCTTTTCATAATCG
1 ATAGTCGAAACTATCCCTTTTCATAATCG
* *
47577113 ATAGTTGAAACTATCCTTTTTCATA
1 ATAGTCGAAACTATCCCTTTTCATA
47577138 GTTGATGATC
Statistics
Matches: 91, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
28 1 0.01
29 90 0.99
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.37
Consensus pattern (29 bp):
ATAGTCGAAACTATCCCTTTTCATAATCG
Found at i:47578064 original size:14 final size:14
Alignment explanation
Indices: 47578045--47578071 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47578035 CTTACATATT
47578045 AATTCTATAGCTAG
1 AATTCTATAGCTAG
47578059 AATTCTATAGCTA
1 AATTCTATAGCTA
47578072 TTTAGTACCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (14 bp):
AATTCTATAGCTAG
Found at i:47582907 original size:26 final size:26
Alignment explanation
Indices: 47582872--47582922 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
47582862 AGTCATACAT
* *
47582872 CTCATAAGGGCGTAATAGTCAATTTAC
1 CTCATAAGGGCATAACAGTC-ATTTAC
47582899 CTCAT-AGGGCATAACAGTCATTTA
1 CTCATAAGGGCATAACAGTCATTTA
47582923 TCACTTTGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 12 0.55
27 5 0.23
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (26 bp):
CTCATAAGGGCATAACAGTCATTTAC
Found at i:47590429 original size:34 final size:34
Alignment explanation
Indices: 47590370--47590434 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
47590360 GTTCAGTTAC
*
47590370 GGCCTCAGCCTATTACAGTATCAGTATCAGTGTG
1 GGCCTCAGCCTATTACAGTATCAGTAACAGTGTG
* *
47590404 GGCCTTAGCCTATTTCAGTGA-CAGTAACAGT
1 GGCCTCAGCCTATTACAGT-ATCAGTAACAGT
47590435 ACAAATATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 26 0.96
35 1 0.04
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (34 bp):
GGCCTCAGCCTATTACAGTATCAGTAACAGTGTG
Found at i:47593155 original size:28 final size:28
Alignment explanation
Indices: 47593123--47593202 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 28
47593113 CATACATGCT
*
47593123 TATGGCCCACTAGGCCCAATCTCAT-TCA
1 TATGGCCCACTAGGCCCAATCACATCT-A
*
47593151 TATGGCCCATTAGGCCCAAATCACATCTA
1 TATGGCCCACTAGGCCC-AATCACATCTA
* *
47593180 AATGGTCCACTAGGCCCAATCAC
1 TATGGCCCACTAGGCCCAATCAC
47593203 TTTTACAGTC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
28 22 0.49
29 22 0.49
30 1 0.02
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.23
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATCTA
Found at i:47593290 original size:17 final size:18
Alignment explanation
Indices: 47593268--47593302 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
47593258 TTGCCTATTA
47593268 TGGGCCCA-ATAGCCCAT
1 TGGGCCCATATAGCCCAT
*
47593285 TGGGCCCATTTAGCCCAT
1 TGGGCCCATATAGCCCAT
47593303 GCTGGCCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.34, G:0.23, T:0.23
Consensus pattern (18 bp):
TGGGCCCATATAGCCCAT
Found at i:47593446 original size:16 final size:16
Alignment explanation
Indices: 47593422--47593472 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
47593412 GTAGCCAAAC
47593422 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
* *
47593438 TTTCAGCTTTTTGGCA
1 TTTCGGCTTTTCGGCA
* *
47593454 TTTCGGCTTCTCGGGA
1 TTTCGGCTTTTCGGCA
47593470 TTT
1 TTT
47593473 GCCAATCTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.08, C:0.22, G:0.24, T:0.47
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:47595690 original size:39 final size:40
Alignment explanation
Indices: 47595533--47595704 Score: 267
Period size: 40 Copynumber: 4.3 Consensus size: 40
47595523 GCTACTCGTT
*
47595533 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
47595573 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
47595613 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
47595653 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
47595692 CAAATGCCTTCGG
1 CAAATGCCTTCGG
47595705 ATCTTAGTCT
Statistics
Matches: 126, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 35 0.28
40 89 0.71
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:47595741 original size:79 final size:80
Alignment explanation
Indices: 47595533--47595757 Score: 276
Period size: 80 Copynumber: 2.8 Consensus size: 80
47595523 GCTACTCGTT
* * * * * *
47595533 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACATAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
*
47595598 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* *
47595613 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
*
47595677 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
** * * *
47595692 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCC
47595755 GGA
64 GGA
47595758 CATCATTCGA
Statistics
Matches: 127, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
78 3 0.02
79 55 0.43
80 69 0.54
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:47595741 original size:119 final size:120
Alignment explanation
Indices: 47595533--47595757 Score: 287
Period size: 119 Copynumber: 1.9 Consensus size: 120
47595523 GCTACTCGTT
*
47595533 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACATAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAACCCGG
* *
47595598 ATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * ** *
47595653 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCT
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CATAACCC
* * *
47595715 GGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
47595758 CATCATTCGA
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
118 4 0.04
119 64 0.71
120 22 0.24
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:47596288 original size:56 final size:56
Alignment explanation
Indices: 47596221--47596393 Score: 337
Period size: 56 Copynumber: 3.1 Consensus size: 56
47596211 TATTAGTTTA
47596221 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
47596277 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
47596333 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATCTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
47596389 TTGCC
1 TTGCC
47596394 TATCATCCCT
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 116 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:47602921 original size:39 final size:40
Alignment explanation
Indices: 47602731--47602988 Score: 274
Period size: 40 Copynumber: 6.5 Consensus size: 40
47602721 AAATCACGTA
* * * * **
47602731 CCTTCGGAATTTAA-CCGGATATAGCAACTCGTTCAAATG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
* * *
47602770 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATG
47602810 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
47602850 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
* * *
47602890 CCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
** * * * * *
47602929 CCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAAATG
*
47602969 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
47602989 CATCATTCGA
Statistics
Matches: 189, Mismatches: 23, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 44 0.23
40 130 0.69
41 13 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
Found at i:47602972 original size:119 final size:120
Alignment explanation
Indices: 47602731--47602988 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 120
47602721 AAATCACGTA
* * ** *
47602731 CCTTCGGAATTTAA-CCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAG
1 CCTTCGGGACTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAG
* * * *
47602795 TAACTCGTACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
66 TAACTCGCACAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCACAAATG
* * *
47602850 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATTA
1 CCTTCGGGACTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGACATAGCCCGGATA-TA
* ** * *
47602913 GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCACAAA-G
65 GTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAGATATAGTAAC-TAGCACAAATG
*
47602969 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
47602989 CATCATTCGA
Statistics
Matches: 117, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
118 4 0.03
119 76 0.65
120 37 0.32
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (120 bp):
CCTTCGGGACTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAG
TAACTCGCACAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCACAAATG
Found at i:47603521 original size:56 final size:56
Alignment explanation
Indices: 47603454--47603573 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
47603444 TATTAGTTTA
*
47603454 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACAGAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
47603510 TTGCCCATGCTTCTTATTTTATTCTTCTATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
47603566 TTGCCCAT
1 TTGCCCAT
47603574 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:47619106 original size:20 final size:21
Alignment explanation
Indices: 47619067--47619107 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
47619057 ACTTGTGTAA
*
47619067 CTATCAACAACCATTCAAAAT
1 CTATCAACAAACATTCAAAAT
*
47619088 CTATCATCAAACA-TCAAAAT
1 CTATCAACAAACATTCAAAAT
47619108 ACTCATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (21 bp):
CTATCAACAAACATTCAAAAT
Found at i:47622272 original size:32 final size:32
Alignment explanation
Indices: 47622236--47622300 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
47622226 AATGAATGTG
47622236 AATGGTAAGTTTAATTCTTGTTATACGAACTT
1 AATGGTAAGTTTAATTCTTGTTATACGAACTT
*
47622268 AATGGTATGTTTAATTCTTGTTATACGAACTT
1 AATGGTAAGTTTAATTCTTGTTATACGAACTT
47622300 A
1 A
47622301 CTAAGCATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (32 bp):
AATGGTAAGTTTAATTCTTGTTATACGAACTT
Found at i:47626492 original size:157 final size:157
Alignment explanation
Indices: 47626206--47626494 Score: 436
Period size: 157 Copynumber: 1.8 Consensus size: 157
47626196 AAGCATTACA
* * *
47626206 TGCTTAGTAAGCTCGTATAATGGAAACTAAACTTACCAATCCCATTTATTAAATCTAATCATACA
1 TGCTTAGTAAGCTCGTACAACGGAAACTAAACTTACCAATCCCATTTAGTAAATCTAATCATACA
* * * * *
47626271 ATATCATGTTTTTCCATCCATTTGGCAAAATTGCTTAAACACATGCACTCAATCAAATAAGTTAG
66 ATATCATGTTTTTCCATCCATTAGGCAAAATTGCCTAAAAACATGAACTCAATCAAACAAGTTAG
47626336 TCACAAAATTTGCATATACATCAAGTG
131 TCACAAAATTTGCATATACATCAAGTG
* * * *
47626363 TGCTTAGTAAGTTCGTACAACGGAAATTGAACTTACCAATCCCGTTTAGTAAATCTAAGT-ATAC
1 TGCTTAGTAAGCTCGTACAACGGAAACTAAACTTACCAATCCCATTTAGTAAATCTAA-TCATAC
* *
47626427 AATGTCATGTTTTTCCATCCATTAGGCAAAATTGCCTAAAAACATGAATTCAATCAAACAAGTTA
65 AATATCATGTTTTTCCATCCATTAGGCAAAATTGCCTAAAAACATGAACTCAATCAAACAAGTTA
47626492 GTC
130 GTC
47626495 TTAGTCACAA
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
157 116 0.99
158 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (157 bp):
TGCTTAGTAAGCTCGTACAACGGAAACTAAACTTACCAATCCCATTTAGTAAATCTAATCATACA
ATATCATGTTTTTCCATCCATTAGGCAAAATTGCCTAAAAACATGAACTCAATCAAACAAGTTAG
TCACAAAATTTGCATATACATCAAGTG
Found at i:47632275 original size:16 final size:16
Alignment explanation
Indices: 47632254--47632285 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47632244 GTAACGCCCA
*
47632254 AAAAATCTCGAAATCT
1 AAAAATCCCGAAATCT
47632270 AAAAATCCCGAAATCT
1 AAAAATCCCGAAATCT
47632286 CAAATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (16 bp):
AAAAATCCCGAAATCT
Found at i:47633681 original size:29 final size:29
Alignment explanation
Indices: 47633643--47633750 Score: 148
Period size: 29 Copynumber: 3.8 Consensus size: 29
47633633 TGAATGTGAC
47633643 TGGGCCTAATGGGCCATATACATGTGATT
1 TGGGCCTAATGGGCCATATACATGTGATT
* *
47633672 TGGGCCTAATAGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATACATGTGATT
*
47633701 TGGGCCTAATGGGCCATATGA-ATATGA-T
1 TGGGCCTAATGGGCCATAT-ACATGTGATT
* *
47633729 TGGGCTTAATGGGCCAAATACA
1 TGGGCCTAATGGGCCATATACA
47633751 GGTATGTGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.01
28 19 0.27
29 49 0.70
30 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATACATGTGATT
Found at i:47634852 original size:17 final size:18
Alignment explanation
Indices: 47634820--47634853 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47634810 TTTAAGAAGG
47634820 GTTTTCAATGAAAACACA
1 GTTTTCAATGAAAACACA
*
47634838 GTTTTCACT-AAAACAC
1 GTTTTCAATGAAAACAC
47634854 TTCAATGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (18 bp):
GTTTTCAATGAAAACACA
Found at i:47636658 original size:8 final size:8
Alignment explanation
Indices: 47636641--47636697 Score: 69
Period size: 8 Copynumber: 7.1 Consensus size: 8
47636631 TTGTAACGCC
47636641 CCAAAAAT
1 CCAAAAAT
**
47636649 CCCGAAAT
1 CCAAAAAT
47636657 CCAAAAAT
1 CCAAAAAT
*
47636665 CCCAAAAT
1 CCAAAAAT
47636673 CCAAAAAT
1 CCAAAAAT
* *
47636681 CTAGAAAT
1 CCAAAAAT
47636689 CCAAAAAT
1 CCAAAAAT
47636697 C
1 C
47636698 TCGAAATCCT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 39 1.00
ACGTcount: A:0.54, C:0.28, G:0.04, T:0.14
Consensus pattern (8 bp):
CCAAAAAT
Found at i:47636662 original size:16 final size:16
Alignment explanation
Indices: 47636641--47636706 Score: 96
Period size: 16 Copynumber: 4.1 Consensus size: 16
47636631 TTGTAACGCC
47636641 CCAAAAATCCCGAAAT
1 CCAAAAATCCCGAAAT
*
47636657 CCAAAAATCCCAAAAT
1 CCAAAAATCCCGAAAT
**
47636673 CCAAAAATCTAGAAAT
1 CCAAAAATCCCGAAAT
*
47636689 CCAAAAATCTCGAAAT
1 CCAAAAATCCCGAAAT
47636705 CC
1 CC
47636707 TGAATTATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.52, C:0.29, G:0.05, T:0.15
Consensus pattern (16 bp):
CCAAAAATCCCGAAAT
Found at i:47638102 original size:29 final size:29
Alignment explanation
Indices: 47638064--47638171 Score: 139
Period size: 29 Copynumber: 3.8 Consensus size: 29
47638054 TGAATGTGAC
47638064 TGGGCCTAATGGGCCATATACATGTGATT
1 TGGGCCTAATGGGCCATATACATGTGATT
* *
47638093 TGGGCCTAATAGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATACATGTGATT
*
47638122 TGGGCCTAATGGGCCATATGA-ATATGA-T
1 TGGGCCTAATGGGCCATAT-ACATGTGATT
* * *
47638150 TGGGCTTAATGGTCCAAATACA
1 TGGGCCTAATGGGCCATATACA
47638172 GGTATGTGAA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.01
28 18 0.26
29 49 0.71
30 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATACATGTGATT
Found at i:47638132 original size:58 final size:57
Alignment explanation
Indices: 47638064--47638174 Score: 154
Period size: 58 Copynumber: 1.9 Consensus size: 57
47638054 TGAATGTGAC
* *
47638064 TGGGCCTAATGGGCCATAT-ACATGTGATTTGGGCCTAATAGG-CCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATGA-ATATGA-TTGGGCCTAAT-GGTCCAAATACAGGTGATT
*
47638122 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGTCCAAATACAGGT
1 TGGGCCTAATGGGCCATATGAATATGATTGGGCCTAATGGTCCAAATACAGGT
47638175 ATGTGAAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
56 2 0.04
57 21 0.44
58 24 0.50
59 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (57 bp):
TGGGCCTAATGGGCCATATGAATATGATTGGGCCTAATGGTCCAAATACAGGTGATT
Found at i:47640183 original size:27 final size:26
Alignment explanation
Indices: 47640135--47640194 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
47640125 ACGAGGCTGC
*
47640135 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
47640162 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
47640188 CAGATAT
1 CAGATAT
47640195 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:47652698 original size:27 final size:27
Alignment explanation
Indices: 47652650--47652722 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
47652640 AAATAGAGCA
* * * *
47652650 TACCACTAAGGCAATCCATTCAGAGTT
1 TACCACAAAGGCTATTCTTTCAGAGTT
* * *
47652677 TATCATAAAGGTTATTCTTTCAGAGTT
1 TACCACAAAGGCTATTCTTTCAGAGTT
*
47652704 TGCCACAAAGGCTATTCTT
1 TACCACAAAGGCTATTCTT
47652723 AGCTGTCGTG
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (27 bp):
TACCACAAAGGCTATTCTTTCAGAGTT
Found at i:47653025 original size:14 final size:14
Alignment explanation
Indices: 47653003--47653049 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
47652993 TACACCTGAA
47653003 CAGAACATACATCT
1 CAGAACATACATCT
* *
47653017 CATAACATACATTT
1 CAGAACATACATCT
47653031 CAGAACTATACATACT
1 CAGAAC-ATACAT-CT
47653047 CAG
1 CAG
47653050 CCATACTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 17 0.63
15 6 0.22
16 4 0.15
ACGTcount: A:0.43, C:0.26, G:0.06, T:0.26
Consensus pattern (14 bp):
CAGAACATACATCT
Found at i:47656318 original size:34 final size:34
Alignment explanation
Indices: 47656272--47656370 Score: 103
Period size: 34 Copynumber: 2.9 Consensus size: 34
47656262 TTGAACAATC
* ** *
47656272 TAGGCCTAAGCCCATATCAGTTGCAATATTAGTG
1 TAGGCCTTAGCCCATATCAGTAACAATATCAGTG
* *
47656306 TGGGCCTTAGCCCAATAT-AGTAACAGTATCAGTG
1 TAGGCCTTAGCCC-ATATCAGTAACAATATCAGTG
* *
47656340 TAGGCCTTAGCCCATTTCAGT-ACAGTATCAG
1 TAGGCCTTAGCCCATATCAGTAACAATATCAG
47656371 AAATGCATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
33 13 0.24
34 38 0.69
35 4 0.07
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (34 bp):
TAGGCCTTAGCCCATATCAGTAACAATATCAGTG
Found at i:47660246 original size:46 final size:46
Alignment explanation
Indices: 47660184--47660549 Score: 554
Period size: 46 Copynumber: 8.0 Consensus size: 46
47660174 TTTGACATGA
* * * * * * *
47660184 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
* * *
47660230 TGTCATGGTATCTTTCAACCATGGTCTTACAAATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *
47660276 TGCCATGGTATCTTTCAACGATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
47660322 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *
47660368 TGCCATGGTATCTTTCAACCATTGCCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
47660414 TGCCATGGTATCTTCCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
47660460 TGCCATGGTATATTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
**
47660506 TGCCATGGTATCTTTCAACCATGGTCTTACATGTTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
47660550 AGAGCACACT
Statistics
Matches: 296, Mismatches: 23, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.01
46 292 0.99
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:47662982 original size:30 final size:30
Alignment explanation
Indices: 47662915--47662982 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
47662905 TACCCTTAAA
* * *
47662915 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
47662945 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
47662974 AGTATTTAC
1 A-TATTTAC
47662983 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:47664467 original size:30 final size:30
Alignment explanation
Indices: 47664400--47664467 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
47664390 CACCCTTAAA
* *
47664400 ATATTTGCACTATTAGTCCTTCAAATTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
47664430 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
47664459 AGTATTTAC
1 A-TATTTAC
47664468 TCTTGGGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:47668881 original size:26 final size:26
Alignment explanation
Indices: 47668860--47668913 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
47668850 TACCAATAGT
* *
47668860 AGTAACATAGCAGGGCTGCCAATAAC
1 AGTAACACAGCAAGGCTGCCAATAAC
* *
47668886 AGTATCACAGCAAGGCTGCCAGTAAC
1 AGTAACACAGCAAGGCTGCCAATAAC
47668912 AG
1 AG
47668914 AATGACTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (26 bp):
AGTAACACAGCAAGGCTGCCAATAAC
Found at i:47669004 original size:32 final size:32
Alignment explanation
Indices: 47668968--47669037 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
47668958 GATGGCCTAA
* * * * *
47668968 AGCCATCAGTAGCTATAGTATGTTTGGCACAG
1 AGCCATCAGTAACGATAATATGATCGGCACAG
* *
47669000 AGCCATTAGTAACGGTAATATGATCGGCACAG
1 AGCCATCAGTAACGATAATATGATCGGCACAG
47669032 AGCCAT
1 AGCCAT
47669038 AATCAGATCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (32 bp):
AGCCATCAGTAACGATAATATGATCGGCACAG
Found at i:47669180 original size:43 final size:43
Alignment explanation
Indices: 47669087--47669195 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 43
47669077 GTCGTCTTGC
* *
47669087 GCGACCCATGCAACCTGAACAGAACAGTCCACAGTCGTCTCAT
1 GCGACCCGTGCAACCTTAACAGAACAGTCCACAGTCGTCTCAT
* * * *
47669130 GCAACCCGTGCAACCTTAATAGAATAGTCCACAGTCGTCTCGT
1 GCGACCCGTGCAACCTTAACAGAACAGTCCACAGTCGTCTCAT
* **
47669173 GTGACCCGTGTGACCTTAACAGA
1 GCGACCCGTGCAACCTTAACAGA
47669196 TCAATACTGG
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.20
Consensus pattern (43 bp):
GCGACCCGTGCAACCTTAACAGAACAGTCCACAGTCGTCTCAT
Found at i:47669596 original size:27 final size:27
Alignment explanation
Indices: 47669492--47669597 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 27
47669482 TTACCCTACA
** * *
47669492 GGGGTATTTCAATAATTTTACAAATTA
1 GGGGTATTTCGGTAATTTTACAAACTC
* *
47669519 GGGGTATTTTGGTAATTTTA-AAAATC
1 GGGGTATTTCGGTAATTTTACAAACTC
*
47669545 GGGGGTATTTCGATAA-TTTACAAACTC
1 -GGGGTATTTCGGTAATTTTACAAACTC
* *
47669572 GGGCTATTTCGGTAATCTTACAAACT
1 GGGGTATTTCGGTAATTTTACAAACT
47669598 GAGGGCCTTA
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
26 21 0.32
27 44 0.68
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
GGGGTATTTCGGTAATTTTACAAACTC
Found at i:47675859 original size:21 final size:20
Alignment explanation
Indices: 47675808--47675860 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 20
47675798 AGTTCAAACT
*
47675808 ATAAAGACAAAAAAAACAAT
1 ATAAAGACAAAAAAAACAAC
* **
47675828 AAAAAGAACAATAAAAATTAAC
1 ATAAAG-ACAA-AAAAAACAAC
47675850 ATAAAGACAAA
1 ATAAAGACAAA
47675861 TGGACTCAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
20 6 0.23
21 8 0.31
22 12 0.46
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.11
Consensus pattern (20 bp):
ATAAAGACAAAAAAAACAAC
Found at i:47676695 original size:19 final size:21
Alignment explanation
Indices: 47676671--47676718 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
47676661 TCAAGAAAGC
*
47676671 AATAATAAGCAACAAT-AAT-
1 AATAATAAGAAACAATGAATA
*
47676690 AATAATAATAAACAATGAATA
1 AATAATAAGAAACAATGAATA
47676711 AATAATAA
1 AATAATAA
47676719 AAATAAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 14 0.56
20 3 0.12
21 8 0.32
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.23
Consensus pattern (21 bp):
AATAATAAGAAACAATGAATA
Found at i:47676781 original size:19 final size:19
Alignment explanation
Indices: 47676757--47676800 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
47676747 ATTAGGAAAT
47676757 AAATAATTAAT-AATAATAA
1 AAATAATTAATGAATAA-AA
*
47676776 AAATAA-TAATGAATAAAG
1 AAATAATTAATGAATAAAA
47676794 AAATAAT
1 AAATAAT
47676801 AAAGAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (19 bp):
AAATAATTAATGAATAAAA
Found at i:47693383 original size:38 final size:38
Alignment explanation
Indices: 47693332--47693598 Score: 156
Period size: 38 Copynumber: 6.3 Consensus size: 38
47693322 ATGGAAAAAT
* * *
47693332 GTGGTTCTGAGTGGATATACCACGGTTATACGTGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTATACATGTAAC
*
47693370 GTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAAC
1 GTGGTGCTAAGTGGATATACCACG---------GTT-ATACATGTAAC
* *
47693418 GTGGTGCTAAGTGGATATGCCACGGTTGCATATATCAATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGG-T---TATA-C-A-T--GTAAC
* * *
47693465 ATGGTGCTAAGTGGATATACCACGGTTAAACATGTAAT
1 GTGGTGCTAAGTGGATATACCACGGTTATACATGTAAC
* *
47693503 GTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGG-T---TATA-C-A-T--GTAAC
* *
47693550 ATGGTGCTAAGTGGATATACCACGGTTAAACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTATACATGTAAC
*
47693588 GTGCTGCTAAG
1 GTGGTGCTAAG
47693599 AAAGAAACGA
Statistics
Matches: 178, Mismatches: 23, Indels: 56
0.69 0.09 0.22
Matches are distributed among these distances:
38 61 0.34
39 1 0.01
40 3 0.02
41 2 0.01
42 8 0.04
43 9 0.05
44 2 0.01
45 2 0.01
46 2 0.01
47 55 0.31
48 33 0.19
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCACGGTTATACATGTAAC
Found at i:47693488 original size:47 final size:47
Alignment explanation
Indices: 47693366--47693577 Score: 244
Period size: 47 Copynumber: 4.7 Consensus size: 47
47693356 GTTATACGTG
* * * *
47693366 TAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
* * *
47693413 GTAACGTGGTGCTAAGTGGATATGCCACGGTTGCATATATCAATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
* *
47693461 TAACATGGTGCTAAGTGGATATACCACGGTT--A-A-A-C-A-T--G
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
* *
47693499 TAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
*
47693546 TAACATGGTGCTAAGTGGATATACCACGGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
47693578 AACATGTAAC
Statistics
Matches: 138, Mismatches: 17, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
38 28 0.20
40 2 0.01
41 2 0.01
42 2 0.01
43 2 0.01
44 2 0.01
45 2 0.01
47 58 0.42
48 40 0.29
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
Found at i:47693511 original size:85 final size:85
Alignment explanation
Indices: 47693409--47693598 Score: 344
Period size: 85 Copynumber: 2.2 Consensus size: 85
47693399 ACATATTGAT
*
47693409 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTGCATATATCAATTCATTAACATGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCAATTCATTAACATGGTGCTA
47693474 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
* *
47693494 ACATGTAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACATGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCAATTCATTAACATGGTGCTA
47693559 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
*
47693579 ACATGTAACGTGCTGCTAAG
1 ACATGTAACGTGGTGCTAAG
47693599 AAAGAAACGA
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 100 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCAATTCATTAACATGGTGCTA
AGTGGATATACCACGGTTAA
Found at i:47696029 original size:15 final size:15
Alignment explanation
Indices: 47696009--47696050 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
47695999 GCTGTAAATA
47696009 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
47696024 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
47696039 GGATTTCCTTAT
1 GGATTTCCTTAT
47696051 TCTGGGCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:47698593 original size:38 final size:38
Alignment explanation
Indices: 47698542--47698869 Score: 224
Period size: 38 Copynumber: 7.9 Consensus size: 38
47698532 TGGAAAAATA
* * *
47698542 TGGTGTTAAGTGGATATACCATGGTTATACGTGTAACG
1 TGGTGCTAAGTGGATATACCACGGTTATACATGTAACG
*
47698580 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACG
1 TGGTGCTAAGTGGATATACCACG---------GTT-ATACATGTAACG
* * * *
47698628 TGGTGCTAAGTGAATATACCACGGTTAAACATATAAAG
1 TGGTGCTAAGTGGATATACCACGGTTATACATGTAACG
* * * *
47698666 TGGTGCTAGGTGGATATGCCACAGTTACATATATCGATTCATTAACG
1 TGGTGCTAAGTGGATATACCAC-GGT---TATA-C-A-T--GTAACG
* * *
47698713 TTGTGCTAAGTGGATATACCACGGTTAAACATGCAACG
1 TGGTGCTAAGTGGATATACCACGGTTATACATGTAACG
* * *
47698751 TGGTGCTAAGCGGATATGCCACGGTTACATATATCAATTCATTAACG
1 TGGTGCTAAGTGGATATACCACGG-T---TATA-C-A-T--GTAACG
*
47698798 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACG
1 TGGTGCTAAGTGGATATACCACGGTTATACATGTAACG
*
47698836 TGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 TGGTGCTAAGTGGATATACCACGGTTATACATGT
47698870 TAATTTGAAA
Statistics
Matches: 227, Mismatches: 35, Indels: 56
0.71 0.11 0.18
Matches are distributed among these distances:
38 111 0.49
39 5 0.02
40 2 0.01
41 2 0.01
42 8 0.04
43 8 0.04
44 2 0.01
45 2 0.01
46 3 0.01
47 51 0.22
48 33 0.15
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (38 bp):
TGGTGCTAAGTGGATATACCACGGTTATACATGTAACG
Found at i:47698645 original size:48 final size:48
Alignment explanation
Indices: 47698568--47698661 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
47698558 TACCATGGTT
* * *
47698568 ATACGTGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGAATATACCACGATTAAACATATTG
*
47698616 ATACATGTAACGTGGTGCTAAGTGAATATACCACGGTTAAACATAT
1 ATACATGTAACGTGGTGCTAAGTGAATATACCACGATTAAACATAT
47698662 AAAGTGGTGC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGAATATACCACGATTAAACATATTG
Found at i:47698736 original size:85 final size:85
Alignment explanation
Indices: 47698542--47698862 Score: 471
Period size: 85 Copynumber: 3.8 Consensus size: 85
47698532 TGGAAAAATA
* * * * * *
47698542 TGGTGTTAAGTGGATATACCATGGTTATACGTGTAACGTGGTGCTAAGTGGATATACCACGATTA
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
* * *
47698607 CACATATTGATACATGTAACG
66 CATATATCGATTCAT-TAACG
* * * * *
47698628 TGGTGCTAAGTGAATATACCACGGTTAAACATATAAAGTGGTGCTAGGTGGATATGCCACAGTTA
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
47698693 CATATATCGATTCATTAACG
66 CATATATCGATTCATTAACG
* * *
47698713 TTGTGCTAAGTGGATATACCACGGTTAAACATGCAACGTGGTGCTAAGCGGATATGCCACGGTTA
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
*
47698778 CATATATCAATTCATTAACG
66 CATATATCGATTCATTAACG
47698798 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
47698863 TACATGTTAA
Statistics
Matches: 209, Mismatches: 26, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
85 143 0.68
86 66 0.32
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (85 bp):
TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
CATATATCGATTCATTAACG
Found at i:47710642 original size:20 final size:21
Alignment explanation
Indices: 47710619--47710659 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
47710609 AATAAACACA
*
47710619 TTAT-AAAAAAGTATTAAATG
1 TTATAAAAAAAATATTAAATG
47710639 TTATAAAAAAAATATTAAATG
1 TTATAAAAAAAATATTAAATG
47710660 ATAATGTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (21 bp):
TTATAAAAAAAATATTAAATG
Found at i:47711143 original size:19 final size:20
Alignment explanation
Indices: 47711121--47711158 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47711111 ATAAAATTTA
47711121 ATTTGA-ATATGTAAATCAT
1 ATTTGAGATATGTAAATCAT
*
47711140 ATTTGAGATATTTAAATCA
1 ATTTGAGATATGTAAATCA
47711159 CACATAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (20 bp):
ATTTGAGATATGTAAATCAT
Found at i:47719519 original size:13 final size:13
Alignment explanation
Indices: 47719501--47719525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47719491 ATCTATTTAC
47719501 TAATTTTTTTATA
1 TAATTTTTTTATA
47719514 TAATTTTTTTAT
1 TAATTTTTTTAT
47719526 TGGGCCAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TAATTTTTTTATA
Found at i:47720367 original size:19 final size:20
Alignment explanation
Indices: 47720343--47720380 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
47720333 GGTACCACCA
47720343 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
47720362 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
47720381 ACCACATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:47720769 original size:46 final size:45
Alignment explanation
Indices: 47720603--47720777 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
47720593 GTAACCCGAC
* * * * *
47720603 CCTAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
47720648 CCGTAAATGAACTCGGACTCAACTCAACTAGTTCGGATGCCTAGTTACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
47720698 -CTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
47720741 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47720778 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 58 0.55
47 28 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:47720774 original size:93 final size:93
Alignment explanation
Indices: 47720610--47720780 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
47720600 GACCCTAAGT
* * *
47720610 GAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCGTAAATGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
47720675 CTAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
47720703 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
47720768 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47720781 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47722745 original size:17 final size:17
Alignment explanation
Indices: 47722722--47722771 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
47722712 GACAATGTGT
47722722 GAGCTATGTTTACATGC
1 GAGCTATGTTTACATGC
* * * *
47722739 TAGCTATCTTTATATCC
1 GAGCTATGTTTACATGC
*
47722756 GAGCTGTGTTTACATG
1 GAGCTATGTTTACATG
47722772 TGAACTGTGT
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (17 bp):
GAGCTATGTTTACATGC
Done.