Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 300 of 325
Found at i:95371378 original size:46 final size:46
Alignment explanation
Indices: 95371284--95371424 Score: 131
Period size: 46 Copynumber: 3.3 Consensus size: 46
95371274 ATATAATATC
* * *
95371284 CAAACAATAACAACAAAATAATAGTAATATAATAACAAAATAGCAA
1 CAAACAATAACAACAAAATAAGAGTAATATAATAACAAAACAACAA
* * *
95371330 CAAACAATAACAATAAAATAAGAGT--TAT-AT-----AATATC--
1 CAAACAATAACAACAAAATAAGAGTAATATAATAACAAAACAACAA
* * *
95371366 CAAACAATAACAACAAAATAATAGTAATATAATAACAAAATAGCAA
1 CAAACAATAACAACAAAATAAGAGTAATATAATAACAAAACAACAA
95371412 CAAACAATAACAA
1 CAAACAATAACAA
95371425 AACAATAGTA
Statistics
Matches: 79, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
36 23 0.29
38 8 0.10
39 2 0.03
43 2 0.03
44 8 0.10
46 36 0.46
ACGTcount: A:0.64, C:0.13, G:0.04, T:0.18
Consensus pattern (46 bp):
CAAACAATAACAACAAAATAAGAGTAATATAATAACAAAACAACAA
Found at i:95379601 original size:15 final size:16
Alignment explanation
Indices: 95379567--95379601 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
95379557 ATGGTAAGAA
95379567 AATATTATTTTATATT
1 AATATTATTTTATATT
95379583 -ATATTATTTTA-ATT
1 AATATTATTTTATATT
95379597 AATAT
1 AATAT
95379602 AATTATTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AATATTATTTTATATT
Found at i:95385199 original size:16 final size:16
Alignment explanation
Indices: 95385178--95385227 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
95385168 CGAAAATGAT
95385178 ATAATAAGTATAATAA
1 ATAATAAGTATAATAA
*
95385194 ATAAT-AGTGTAA-AA
1 ATAATAAGTATAATAA
*
95385208 A-AATAA-TACAATAA
1 ATAATAAGTATAATAA
95385222 ATAATA
1 ATAATA
95385228 GGAAAATAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
13 6 0.21
14 7 0.25
15 10 0.36
16 5 0.18
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (16 bp):
ATAATAAGTATAATAA
Found at i:95386711 original size:133 final size:132
Alignment explanation
Indices: 95386457--95386947 Score: 640
Period size: 133 Copynumber: 3.7 Consensus size: 132
95386447 GATCTGCTGT
* * * * * *
95386457 AATTTGATCTGCTTTACTCATGCTCAGTAAAGATAAGATCTGTATGTTTAGCCTACTTCAGTCCT
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGTA--TATAGCCTGCTTCACTCCT
* * ** * * * * ** * * *
95386522 GCTCAATGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGATATATAGAGATAAGACTCG
64 GCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCA
95386587 CCAA
129 CCAA
* *
95386591 AATTTGATCTGCTTCACTCTTGCTCAGTGAAGATAAGATCTAGTATATAGCCTGCTCCACTCCTG
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCT-GTATATAGCCTGCTTCACTCCTG
* * *
95386656 CTCAGTGAAGATAAGGCTGGTGATTGGAATCTGCTCAATCGCCGGTACGTGGAGATAAGATTCAT
65 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCAC
95386721 CAA
130 CAA
* * *
95386724 AATTCGATCTGCTTCATTCCTGCTCAGTGAAGATAAGATCTGGTTTATAGCCTGCTTCACTCCTG
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCT-GTATATAGCCTGCTTCACTCCTG
95386789 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCAC
65 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCAC
95386854 CAA
130 CAA
* * * *
95386857 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTGCTATATTTAACCTGCTTCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTG-TATA--TAGCCTGCTTCACTCC
95386922 TGCTCAGTGAAGATAAGGCTGATGAT
63 TGCTCAGTGAAGATAAGGCTGATGAT
95386948 ATCTGTAATC
Statistics
Matches: 316, Mismatches: 37, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
132 1 0.00
133 233 0.74
134 38 0.12
135 44 0.14
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (132 bp):
AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGTATATAGCCTGCTTCACTCCTGC
TCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCACC
AA
Found at i:95398806 original size:16 final size:16
Alignment explanation
Indices: 95398785--95398834 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
95398775 CGAAAATGAT
95398785 ATAATAAGTATAATAA
1 ATAATAAGTATAATAA
*
95398801 ATAAT-AGTGTAA-AA
1 ATAATAAGTATAATAA
*
95398815 A-AATAA-TACAATAA
1 ATAATAAGTATAATAA
95398829 ATAATA
1 ATAATA
95398835 GGAAAATAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
13 6 0.21
14 7 0.25
15 10 0.36
16 5 0.18
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (16 bp):
ATAATAAGTATAATAA
Found at i:95400712 original size:14 final size:15
Alignment explanation
Indices: 95400695--95400727 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
95400685 TTATTCCAAA
95400695 AATAATATT-ATTTT
1 AATAATATTAATTTT
*
95400709 AATAATTTTAATTTT
1 AATAATATTAATTTT
95400724 AATA
1 AATA
95400728 TTAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATAATATTAATTTT
Found at i:95409196 original size:16 final size:16
Alignment explanation
Indices: 95409175--95409206 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
95409165 AATTAATTTA
*
95409175 AATTAATTAATTTTCT
1 AATTAAATAATTTTCT
95409191 AATTAAATAATTTTCT
1 AATTAAATAATTTTCT
95409207 TAACCCGATT
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:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTAAATAATTTTCT
Found at i:95411792 original size:46 final size:49
Alignment explanation
Indices: 95411723--95411907 Score: 164
Period size: 52 Copynumber: 3.7 Consensus size: 49
95411713 CACATCACAC
** *
95411723 ACCGAAGCCATAGCCTTGCCATGGTCTTACACGG-TTCACA-TAT-C-AT
1 ACCGAAGCCATAGCCCAG-CATGGTCTTACACGGAATCACATTATACTAT
* *
95411769 ACCGAAGCCATATCCCAGACATGGTCTTATACGGAATCACATTATCACATTAT
1 ACCGAAGCCATAGCCCAG-CATGGTCTTACACGGAATCACATTAT-AC--TAT
* *
95411822 ACCGATGCCATAGCCCAGCATGGTCTTACACGGAGTCACATTATCAC-ATT
1 ACCGAAGCCATAGCCCAGCATGGTCTTACACGGAATCACATTAT-ACTA-T
* *
95411872 GCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 --ACCGAAGCCATAGCCCAGC-ATGGTCTTACACGG
95411908 GCGCACTTAT
Statistics
Matches: 117, Mismatches: 11, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
46 29 0.25
47 5 0.04
48 3 0.03
49 1 0.01
50 2 0.02
52 46 0.39
53 31 0.26
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (49 bp):
ACCGAAGCCATAGCCCAGCATGGTCTTACACGGAATCACATTATACTAT
Found at i:95411861 original size:52 final size:52
Alignment explanation
Indices: 95411758--95411907 Score: 201
Period size: 52 Copynumber: 2.8 Consensus size: 52
95411748 CTTACACGGT
* * *
95411758 TCACATATCATACCGAAGCCATATCCCAGACATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CATGGTCTTAAACGGAATCACATTA
* *
95411813 TCACATTATACCGATGCCATAGCCCAGCATGGTCTTACACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCATGGTCTTAAACGGAATCACATTA
**
95411865 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGC-ATGGTCTTAAACGG
95411908 GCGCACTTAT
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 49 0.56
53 31 0.36
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (52 bp):
TCACATTATACCGATGCCATAGCCCAGCATGGTCTTAAACGGAATCACATTA
Found at i:95413938 original size:73 final size:74
Alignment explanation
Indices: 95413825--95414027 Score: 273
Period size: 74 Copynumber: 2.8 Consensus size: 74
95413815 AAAAAATTCT
* * *
95413825 TTGTATTGTATTGTAATTTTACATTAATAATATGCTTATTTACAATTTACCAAAAA-TGAATAAA
1 TTGTATTGTATTGTATTTTTACATTAATAATATACTTATTTACAATTTATCAAAAAGTGAATAAA
95413889 TTGTATGTA
66 TTGTATGTA
* * * *
95413898 TTGTATTGTATCGTATTTTTGCATTAATAATTTACTTATTTACAATTTATAAAAAAGTGAATAAA
1 TTGTATTGTATTGTATTTTTACATTAATAATATACTTATTTACAATTTATCAAAAAGTGAATAAA
*
95413963 TTGTTTGTA
66 TTGTATGTA
* * * * * *
95413972 TTGTACTGTATTGTATTTTTATATGAACAATATACTTATTTATATTTTATCAAAAA
1 TTGTATTGTATTGTATTTTTACATTAATAATATACTTATTTACAATTTATCAAAAA
95414028 AAGATTAATT
Statistics
Matches: 111, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
73 49 0.44
74 62 0.56
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.48
Consensus pattern (74 bp):
TTGTATTGTATTGTATTTTTACATTAATAATATACTTATTTACAATTTATCAAAAAGTGAATAAA
TTGTATGTA
Found at i:95415638 original size:27 final size:27
Alignment explanation
Indices: 95415570--95415640 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
95415560 CATCTTGTCA
*
95415570 ACCTTTGTGGCGTACTCTTAATGTATC
1 ACCTTTGTGGCGTACTCTTAATGGATC
* *
95415597 ACCTTTGTGCCGTACTCTTTATGGATC
1 ACCTTTGTGGCGTACTCTTAATGGATC
** *
95415624 GTCTTTGTGGTGTACTC
1 ACCTTTGTGGCGTACTC
95415641 AAATTAGATA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.42
Consensus pattern (27 bp):
ACCTTTGTGGCGTACTCTTAATGGATC
Found at i:95432423 original size:24 final size:24
Alignment explanation
Indices: 95432391--95432440 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
95432381 CACAACAATT
95432391 TACTCACTAGGACAAGGATATATG
1 TACTCACTAGGACAAGGATATATG
95432415 TACTCACTAGGACAAGGATATATG
1 TACTCACTAGGACAAGGATATATG
95432439 TA
1 TA
95432441 ACCCATAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (24 bp):
TACTCACTAGGACAAGGATATATG
Found at i:95437280 original size:30 final size:29
Alignment explanation
Indices: 95437230--95437297 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
95437220 AAACTCCGAA
*
95437230 CAAAACTCC-AAAATTACGGATTTACCGT
1 CAAAACTCCAAAAATTACGGATATACCGT
* *
95437258 -AATAACTCCAATAAATTGCGGATATACTGT
1 CAA-AACTCCAA-AAATTACGGATATACCGT
95437288 CAAAACTCCA
1 CAAAACTCCA
95437298 CATATCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 2 0.06
28 6 0.18
29 1 0.03
30 22 0.67
31 2 0.06
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (29 bp):
CAAAACTCCAAAAATTACGGATATACCGT
Found at i:95458372 original size:52 final size:52
Alignment explanation
Indices: 95458289--95458435 Score: 206
Period size: 52 Copynumber: 2.8 Consensus size: 52
95458279 TCTCTGACTT
* * * *
95458289 GGGTCACATGGCCAAGTCACACGCCCTTGTGCTAGGCCGTGTGTAGGTGT-A
1 GGGTCACACGGCCAAGCCACACGCCCGTGTGCTAGGCCATGTGTAGGTGTAA
*
95458340 GAGGTCACACGGCCAAGCCACACGCCCGTGTGCTAGGCTATGTGTAGGTGTAA
1 G-GGTCACACGGCCAAGCCACACGCCCGTGTGCTAGGCCATGTGTAGGTGTAA
* * *
95458393 GGGTCACACGGCCAAGCTACACGCCGGTGTGCCAGGCCATGTG
1 GGGTCACACGGCCAAGCCACACGCCCGTGTGCTAGGCCATGTG
95458436 AAAAATCCTG
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
51 1 0.01
52 82 0.96
53 2 0.02
ACGTcount: A:0.20, C:0.28, G:0.33, T:0.19
Consensus pattern (52 bp):
GGGTCACACGGCCAAGCCACACGCCCGTGTGCTAGGCCATGTGTAGGTGTAA
Found at i:95459455 original size:25 final size:24
Alignment explanation
Indices: 95459425--95459683 Score: 64
Period size: 25 Copynumber: 10.5 Consensus size: 24
95459415 CTATATAACA
*
95459425 GGAAGCTCATTTGAGCCATGTAATG
1 GGAAGCTCATATGAGCCAT-TAATG
* * *
95459450 GGAAGCTTATCT-AGGCTATATAATG
1 GGAAGCTCATATGA-GCCAT-TAATG
* *
95459475 GGAAGCTTATAAGAGCCA-TAATCG
1 GGAAGCTCATATGAGCCATTAAT-G
* * * *
95459499 GGAAGCTCATGTGATCCAATAACG
1 GGAAGCTCATATGAGCCATTAATG
* ** ** **
95459523 GGTAGCTCCGAAAAGCCATTAAACA
1 GGAAGCTCATATGAGCCATT-AATG
*
95459548 GGAAGCTC-TGGAT-AGCCATGTATTG
1 GGAAGCTCAT--ATGAGCCAT-TAATG
* *
95459573 GGAAGTTCA-AGTGAGCCA-TATTG
1 GGAAGCTCATA-TGAGCCATTAATG
* *
95459596 GGAAGCTCCA-AAGAGCCATTAATCA
1 GGAAGCT-CATATGAGCCATTAAT-G
* * * *
95459621 AGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCA-TATGAGCCATTAAT-G
* * *
95459647 GGAAGCTCACAAAGAGCCATATAACG
1 GGAAGCTCA-TATGAGCCAT-TAATG
*
95459673 GGATGCTCATA
1 GGAAGCTCATA
95459684 AAAGCTACGG
Statistics
Matches: 177, Mismatches: 40, Indels: 34
0.71 0.16 0.14
Matches are distributed among these distances:
23 22 0.12
24 38 0.21
25 71 0.40
26 43 0.24
27 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (24 bp):
GGAAGCTCATATGAGCCATTAATG
Found at i:95459611 original size:23 final size:24
Alignment explanation
Indices: 95459585--95459668 Score: 89
Period size: 26 Copynumber: 3.4 Consensus size: 24
95459575 AAGTTCAAGT
*
95459585 GAGCCATATTGGGAAGCTC-CAAA
1 GAGCCATATCGGGAAGCTCACAAA
**
95459608 GAGCCATTAATCAAGAAGCTCACAAA
1 GAGCCA-T-ATCGGGAAGCTCACAAA
*
95459634 GAGCCTTTAATCGGGAAGCTCACAAA
1 GAGCC-AT-ATCGGGAAGCTCACAAA
95459660 GAGCCATAT
1 GAGCCATAT
95459669 AACGGGATGC
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
23 6 0.12
24 3 0.06
25 10 0.20
26 31 0.62
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (24 bp):
GAGCCATATCGGGAAGCTCACAAA
Found at i:95459674 original size:26 final size:26
Alignment explanation
Indices: 95459595--95459681 Score: 115
Period size: 26 Copynumber: 3.4 Consensus size: 26
95459585 GAGCCATATT
95459595 GGGAAGCTC-CAAAGAGCCATTAATC
1 GGGAAGCTCACAAAGAGCCATTAATC
** *
95459620 AAGAAGCTCACAAAGAGCCTTTAATC
1 GGGAAGCTCACAAAGAGCCATTAATC
95459646 GGGAAGCTCACAAAGAGCCATATAA-C
1 GGGAAGCTCACAAAGAGCCAT-TAATC
*
95459672 GGGATGCTCA
1 GGGAAGCTCA
95459682 TAAAAGCTAC
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
25 7 0.13
26 43 0.81
27 3 0.06
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
GGGAAGCTCACAAAGAGCCATTAATC
Found at i:95461925 original size:23 final size:24
Alignment explanation
Indices: 95461900--95461990 Score: 98
Period size: 24 Copynumber: 3.8 Consensus size: 24
95461890 TCATTTAACT
*
95461900 TAATCGAACATGTTTACGAACAT-
1 TAATCGAACATGTTCACGAACATA
* *
95461923 TAAACGAACATGTTCTCGAACATA
1 TAATCGAACATGTTCACGAACATA
*
95461947 TAA-CTGAACATCTTCAC-AGACATA
1 TAATC-GAACATGTTCACGA-ACATA
*
95461971 TAATTGAACATGTTCACGAA
1 TAATCGAACATGTTCACGAA
95461991 TAATGTTAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
23 22 0.39
24 33 0.59
25 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (24 bp):
TAATCGAACATGTTCACGAACATA
Found at i:95467296 original size:12 final size:13
Alignment explanation
Indices: 95467260--95467297 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
95467250 AAATATTTGA
95467260 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
95467273 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
95467287 CTTG-TCTTAAT
1 CTTGTTCTTAAT
95467298 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:95470491 original size:17 final size:17
Alignment explanation
Indices: 95470469--95470504 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
95470459 CAGTGAATTC
95470469 CACAGGTAAATTTTTAA
1 CACAGGTAAATTTTTAA
95470486 CACAGGTAAATTTTTAA
1 CACAGGTAAATTTTTAA
95470503 CA
1 CA
95470505 GACACTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (17 bp):
CACAGGTAAATTTTTAA
Found at i:95475513 original size:26 final size:26
Alignment explanation
Indices: 95475484--95475536 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
95475474 GTGTATGTGA
*
95475484 TTGTATTGTTGCTATGAATATGAAAT
1 TTGTATTGTTGCTATGAATATAAAAT
95475510 TTGTATTGTTGCTATGAATATAAAAT
1 TTGTATTGTTGCTATGAATATAAAAT
95475536 T
1 T
95475537 AATATTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.04, G:0.17, T:0.47
Consensus pattern (26 bp):
TTGTATTGTTGCTATGAATATAAAAT
Found at i:95475542 original size:26 final size:26
Alignment explanation
Indices: 95475487--95475542 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
95475477 TATGTGATTG
* **
95475487 TATTGTTGCTATGAATATGAAATTTG
1 TATTGTTGCTATGAATATAAAATTAA
95475513 TATTGTTGCTATGAATATAAAATTAA
1 TATTGTTGCTATGAATATAAAATTAA
95475539 TATT
1 TATT
95475543 ATATCTGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (26 bp):
TATTGTTGCTATGAATATAAAATTAA
Found at i:95475855 original size:26 final size:26
Alignment explanation
Indices: 95475808--95475867 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
95475798 CCGATATATG
*
95475808 GCTCTTCGTGAGCTTTTCGATTAAAA
1 GCTCTTCGTGAGCTTCTCGATTAAAA
* **
95475834 GCTCTTTGTGAGCTTC-CTGATTAATG
1 GCTCTTCGTGAGCTTCTC-GATTAAAA
95475860 GCTCTTCG
1 GCTCTTCG
95475868 GAGTTACCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 1 0.04
26 27 0.96
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.40
Consensus pattern (26 bp):
GCTCTTCGTGAGCTTCTCGATTAAAA
Found at i:95475983 original size:25 final size:25
Alignment explanation
Indices: 95475904--95475986 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
95475894 GCTTCTCGAT
**
95475904 TATGGCTCTTATGAGCTTCCTGTTA
1 TATGGCTCAAATGAGCTTCCTGTTA
** * * * *
95475929 TACAGCCCAAATAAGCTTCCCGCTA
1 TATGGCTCAAATGAGCTTCCTGTTA
* * *
95475954 CATGGCTTACATGAGCTTCCTGTTA
1 TATGGCTCAAATGAGCTTCCTGTTA
95475979 TATGGCTC
1 TATGGCTC
95475987 GAGAGAGGGC
Statistics
Matches: 39, Mismatches: 19, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.34
Consensus pattern (25 bp):
TATGGCTCAAATGAGCTTCCTGTTA
Found at i:95481369 original size:26 final size:26
Alignment explanation
Indices: 95481340--95481392 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
95481330 ATTCTCATTG
*
95481340 TATAATTCTCCTTTTGTAAACTTTGT
1 TATAATTCTCCTTTTATAAACTTTGT
*
95481366 TATAATTTTCCTTTTATAAACTTTGT
1 TATAATTCTCCTTTTATAAACTTTGT
95481392 T
1 T
95481393 CTAAATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.13, G:0.06, T:0.57
Consensus pattern (26 bp):
TATAATTCTCCTTTTATAAACTTTGT
Found at i:95483394 original size:9 final size:9
Alignment explanation
Indices: 95483380--95483438 Score: 73
Period size: 9 Copynumber: 6.6 Consensus size: 9
95483370 ATAAGTATTA
*
95483380 AATTAATCG
1 AATTAACCG
95483389 AATTAACCG
1 AATTAACCG
95483398 AATTAACCG
1 AATTAACCG
*
95483407 AATTAGCCG
1 AATTAACCG
* * *
95483416 AATCAGCTG
1 AATTAACCG
95483425 AATTAACCG
1 AATTAACCG
95483434 AATTA
1 AATTA
95483439 TTTGTATAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:95483469 original size:6 final size:6
Alignment explanation
Indices: 95483458--95483510 Score: 61
Period size: 6 Copynumber: 8.5 Consensus size: 6
95483448 AATTATATGT
* * *
95483458 TTTTTA TTTTTA TTTTTA GTTTTA GTTTTA GTTTTAGA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA
95483508 TTT
1 TTT
95483511 ATTAAATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 33 0.80
7 7 0.17
8 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:95483551 original size:13 final size:13
Alignment explanation
Indices: 95483535--95483559 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95483525 AATTTTTATG
95483535 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
95483548 ATTGGGTTGGGT
1 ATTGGGTTGGGT
95483560 TGGGTACTTG
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:95483559 original size:18 final size:18
Alignment explanation
Indices: 95483536--95483573 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
95483526 ATTTTTATGA
95483536 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
95483554 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
95483572 TT
1 TT
95483574 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:95490400 original size:7 final size:7
Alignment explanation
Indices: 95490388--95490431 Score: 88
Period size: 7 Copynumber: 6.3 Consensus size: 7
95490378 GATTGTGCTA
95490388 TTTCTGT
1 TTTCTGT
95490395 TTTCTGT
1 TTTCTGT
95490402 TTTCTGT
1 TTTCTGT
95490409 TTTCTGT
1 TTTCTGT
95490416 TTTCTGT
1 TTTCTGT
95490423 TTTCTGT
1 TTTCTGT
95490430 TT
1 TT
95490432 GGACATGATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.00, C:0.14, G:0.14, T:0.73
Consensus pattern (7 bp):
TTTCTGT
Found at i:95491236 original size:19 final size:18
Alignment explanation
Indices: 95491197--95491234 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
95491187 AAAACGAACC
95491197 AAGGGGGAGAATGTTGGA
1 AAGGGGGAGAATGTTGGA
95491215 AAGGGGGAGAATGTTGGA
1 AAGGGGGAGAATGTTGGA
95491233 AA
1 AA
95491235 AGTTTTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.47, T:0.16
Consensus pattern (18 bp):
AAGGGGGAGAATGTTGGA
Found at i:95494887 original size:3 final size:3
Alignment explanation
Indices: 95494879--95494931 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
95494869 AGCAACCTCA
** * *
95494879 ACC ACC ACC ACC AAG A-C ACC ACC ACC ACC ACC TCC ACC TCC ACC ACC
1 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC
95494926 ACC ACC
1 ACC ACC
95494932 TCACACAACA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.32, C:0.62, G:0.02, T:0.04
Consensus pattern (3 bp):
ACC
Found at i:95494949 original size:3 final size:3
Alignment explanation
Indices: 95494936--95494970 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
95494926 ACCACCTCAC
95494936 ACA ACA CACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA -ACA ACA ACA ACA ACA ACA ACA ACA ACA A
95494971 AAACGACAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:95500015 original size:25 final size:25
Alignment explanation
Indices: 95499987--95500037 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
95499977 TGCCTCGATC
95499987 GAAATCCCCTTGATCCTCACAAATA
1 GAAATCCCCTTGATCCTCACAAATA
95500012 GAAATCCCCTTGATCCTCACAAATA
1 GAAATCCCCTTGATCCTCACAAATA
95500037 G
1 G
95500038 GCTTAGGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.31, G:0.10, T:0.24
Consensus pattern (25 bp):
GAAATCCCCTTGATCCTCACAAATA
Found at i:95501548 original size:13 final size:13
Alignment explanation
Indices: 95501530--95501555 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95501520 CGAAATCATA
95501530 ATTATAATAATTT
1 ATTATAATAATTT
95501543 ATTATAATAATTT
1 ATTATAATAATTT
95501556 CAGTAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATAATTT
Found at i:95510243 original size:20 final size:21
Alignment explanation
Indices: 95510196--95510240 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
95510186 AACTATAATA
* *
95510196 TTTTACATTTCTCTCAAACCT
1 TTTTACTTTTCTCTCAAAACT
95510217 TTTTACTTTTCTCTCAAAACT
1 TTTTACTTTTCTCTCAAAACT
95510238 TTT
1 TTT
95510241 ACTCGTTCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTTACTTTTCTCTCAAAACT
Found at i:95514590 original size:44 final size:45
Alignment explanation
Indices: 95514502--95514590 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 45
95514492 AGAACAGAAA
*
95514502 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAT
* *
95514548 TGAGCCGTGTAAGTCCATATT-ATATATGGCATTGGAGACAGGA
1 TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGA
95514591 ATAAGTCCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 20 0.50
46 20 0.50
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
Found at i:95530860 original size:131 final size:131
Alignment explanation
Indices: 95530588--95530914 Score: 322
Period size: 131 Copynumber: 2.5 Consensus size: 131
95530578 GTGAAATTCC
* * * * *
95530588 AAAGGGATCTTCGATTATTTTGAATAAATGAGAAAGCGCAACCCAGCACGATAGGGC-TCGATTC
1 AAAGGGATATTCGATTATTTTGAACAAAAGAGAAATCGCAACCCAGCACGATTGGGCAT-GATTC
* * *
95530652 TCAAATTGCCAAACATCGAACATCGCCTTCGTTTTGAAAGATTTTTAATAAACATGAATGAAAAC
65 CCAAATTGCCAAACACCGAACATCACCTTCGTTTTGAAAGATTTTTAATAAACATGAATGAAAAC
95530717 CT
130 CT
* * * * *
95530719 AAAGGAATATTTGATTGTTTTGAACAAAAGAGAGATCACAACCCAGCACGATTGGGCATGATTCC
1 AAAGGGATATTCGATTATTTTGAACAAAAGAGAAATCGCAACCCAGCACGATTGGGCATGATTCC
* * ** * * * *
95530784 CGAATTGTCAAACACCGAGTATTACCTTCGTTTT-AAATGATTTTTAGA-AGACATGAATGGAAT
66 CAAATTGCCAAACACCGAACATCACCTTCGTTTTGAAA-GATTTTTA-ATAAACATGAATGAAAA
**
95530847 TTT
129 CCT
* * * * *
95530850 GAAGGGATATTCGATCATTTT-AAGCAAACGAGAAATTGCAACCCAGCACG-TTAGGGCACGATT
1 AAAGGGATATTCGATTATTTTGAA-CAAAAGAGAAATCGCAACCCAGCACGATT-GGGCATGATT
95530913 CC
64 CC
95530915 TGCGAATTTC
Statistics
Matches: 158, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
130 7 0.04
131 149 0.94
132 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (131 bp):
AAAGGGATATTCGATTATTTTGAACAAAAGAGAAATCGCAACCCAGCACGATTGGGCATGATTCC
CAAATTGCCAAACACCGAACATCACCTTCGTTTTGAAAGATTTTTAATAAACATGAATGAAAACC
T
Found at i:95530984 original size:133 final size:132
Alignment explanation
Indices: 95530808--95531061 Score: 357
Period size: 133 Copynumber: 1.9 Consensus size: 132
95530798 CCGAGTATTA
* * *
95530808 CCTTCGTTTTAAATGATTTTTAGAAGACATGAATGGAATTTTGAAGGGATATTCGATCATTTTAA
1 CCTTCGTTTTAAATGATTCTTAAAAGACATGAATGAAATTTTGAAGGGATATTCGATCATTTTAA
* * * *
95530873 GCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCTGCGAATTTCCAAATGTCAAACC
66 GCAAACGAGAAATTACAACCCAACACGTTAAGGCACGATTCC-GCGAATTGCCAAATGTCAAACC
95530938 TTG
130 TTG
* * * * *
95530941 CCTTCGTTTTAAAT-AGTTCTTAAAAGGCGTGAGTGAAATTTTGAAGGGATATTCGATTATTTTG
1 CCTTCGTTTTAAATGA-TTCTTAAAAGACATGAATGAAATTTTGAAGGGATATTCGATCATTTTA
* *
95531005 AGCAAACGTGAAATTACAACCCAACACGTTAAGGCGCGATTCCGCGAATTGCCAAAT
65 AGCAAACGAGAAATTACAACCCAACACGTTAAGGCACGATTCCGCGAATTGCCAAAT
95531062 ATCGGATCTC
Statistics
Matches: 106, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
132 14 0.13
133 92 0.87
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (132 bp):
CCTTCGTTTTAAATGATTCTTAAAAGACATGAATGAAATTTTGAAGGGATATTCGATCATTTTAA
GCAAACGAGAAATTACAACCCAACACGTTAAGGCACGATTCCGCGAATTGCCAAATGTCAAACCT
TG
Found at i:95536283 original size:15 final size:15
Alignment explanation
Indices: 95536263--95536318 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
95536253 TACTATTGTA
*
95536263 AGGTTTATGGATTAT
1 AGGTTTATGGTTTAT
*
95536278 AGGTTTAGGGTTTAT
1 AGGTTTATGGTTTAT
95536293 -GGTTTATGGTTTAT
1 AGGTTTATGGTTTAT
* *
95536307 GGGTTAATGGTT
1 AGGTTTATGGTT
95536319 AGGGTTTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
14 13 0.36
15 23 0.64
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (15 bp):
AGGTTTATGGTTTAT
Found at i:95536289 original size:7 final size:7
Alignment explanation
Indices: 95536279--95536428 Score: 59
Period size: 7 Copynumber: 21.0 Consensus size: 7
95536269 ATGGATTATA
95536279 GGTTTAG
1 GGTTTAG
*
95536286 GGTTTAT
1 GGTTTAG
*
95536293 GGTTTAT
1 GGTTTAG
95536300 GGTTTATG
1 GGTTTA-G
* *
95536308 GGTTAAT
1 GGTTTAG
95536315 GG-TTAG
1 GGTTTAG
*
95536321 GGTTTAA
1 GGTTTAG
*
95536328 GTTTTAGG
1 GGTTTA-G
* *
95536336 GGGTTGG
1 GGTTTAG
*
95536343 GGTTTAA
1 GGTTTAG
*
95536350 TGTTTAG
1 GGTTTAG
*
95536357 GGATTAAG
1 GG-TTTAG
* *
95536365 GGTTAAT
1 GGTTTAG
* *
95536372 AGTTTAT
1 GGTTTAG
* *
95536379 GTTTTAT
1 GGTTTAG
* *
95536386 AGTTTAA
1 GGTTTAG
95536393 GGTTTAG
1 GGTTTAG
*
95536400 GGGTTAG
1 GGTTTAG
*
95536407 AGGTTAAG
1 -GGTTTAG
*
95536415 GATTTAG
1 GGTTTAG
95536422 GGTTTAG
1 GGTTTAG
95536429 ATTAATTAGT
Statistics
Matches: 103, Mismatches: 35, Indels: 10
0.70 0.24 0.07
Matches are distributed among these distances:
6 4 0.04
7 80 0.78
8 19 0.18
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:95536289 original size:22 final size:22
Alignment explanation
Indices: 95536264--95536326 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
95536254 ACTATTGTAA
95536264 GGTTTATGGATTATAGGTTTA-G
1 GGTTTATGGATTAT-GGTTTATG
*
95536286 GGTTTATGGTTTATGGTTTATG
1 GGTTTATGGATTATGGTTTATG
* *
95536308 GGTTAATGG-TTAGGGTTTA
1 GGTTTATGGATTATGGTTTA
95536327 AGTTTTAGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 15 0.41
22 22 0.59
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (22 bp):
GGTTTATGGATTATGGTTTATG
Found at i:95536298 original size:14 final size:14
Alignment explanation
Indices: 95536264--95536336 Score: 60
Period size: 14 Copynumber: 5.1 Consensus size: 14
95536254 ACTATTGTAA
95536264 GGTTTATGGATTATA-
1 GGTTTATGG-TT-TAG
* *
95536279 GGTTTAGGGTTTAT
1 GGTTTATGGTTTAG
95536293 GGTTTATGGTTTATG
1 GGTTTATGGTTTA-G
*
95536308 GGTTAATGG-TTAG
1 GGTTTATGGTTTAG
* *
95536321 GGTTTAAGTTTTAG
1 GGTTTATGGTTTAG
95536335 GG
1 GG
95536337 GGTTGGGGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
13 9 0.19
14 23 0.48
15 16 0.33
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (14 bp):
GGTTTATGGTTTAG
Found at i:95536345 original size:22 final size:22
Alignment explanation
Indices: 95536315--95536358 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
95536305 ATGGGTTAAT
95536315 GGTTAGGGTTTAA-GTTTTAGGG
1 GGTTAGGGTTTAATG-TTTAGGG
*
95536337 GGTTGGGGTTTAATGTTTAGGG
1 GGTTAGGGTTTAATGTTTAGGG
95536359 ATTAAGGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.16, C:0.00, G:0.43, T:0.41
Consensus pattern (22 bp):
GGTTAGGGTTTAATGTTTAGGG
Found at i:95536422 original size:22 final size:21
Alignment explanation
Indices: 95536389--95536429 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
95536379 GTTTTATAGT
95536389 TTAAGGTTTAGGGGTTAGAGG
1 TTAAGGTTTAGGGGTTAGAGG
*
95536410 TTAAGGATTTAGGGTTTAGA
1 TTAAGG-TTTAGGGGTTAGA
95536430 TTAATTAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.37
Consensus pattern (21 bp):
TTAAGGTTTAGGGGTTAGAGG
Found at i:95543275 original size:41 final size:41
Alignment explanation
Indices: 95543203--95543293 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 41
95543193 ATTTCAAAAG
* *
95543203 GTCATGATTTTTAGTGGCATTTTTGGAAAAAGCGCCGCTAA
1 GTCATGATTTTTAATGGCATTTGTGGAAAAAGCGCCGCTAA
* * *
95543244 GTCATGTTTTTTAATGGCGTTTGTGGGAAAAGCGCCGCTAAA
1 GTCATGATTTTTAATGGCATTTGTGGAAAAAGCGCCGCT-AA
95543286 GGTCATGA
1 -GTCATGA
95543294 CCTTTAGCGG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 34 0.81
42 2 0.05
43 6 0.14
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.33
Consensus pattern (41 bp):
GTCATGATTTTTAATGGCATTTGTGGAAAAAGCGCCGCTAA
Found at i:95543306 original size:43 final size:43
Alignment explanation
Indices: 95543199--95543353 Score: 170
Period size: 43 Copynumber: 3.7 Consensus size: 43
95543189 ATAAATTTCA
* * *
95543199 AAAGGTCATGATTTTTAGTGGCATTTTTGGAAAAAGCGCCGCT
1 AAAGGTCATGACTTTTAGCGGCGTTTTTGGAAAAAGCGCCGCT
** ** * *
95543242 -AA-GTCATGTTTTTTAATGGCGTTTGTGGGAAAAGCGCCGCT
1 AAAGGTCATGACTTTTAGCGGCGTTTTTGGAAAAAGCGCCGCT
* * *
95543283 AAAGGTCATGACCTTTAGCGGCGTTTTTGGTAAAAGCGCTGCT
1 AAAGGTCATGACTTTTAGCGGCGTTTTTGGAAAAAGCGCCGCT
* *
95543326 AAAGATCATGACTTTTAGCAGCGTTTTT
1 AAAGGTCATGACTTTTAGCGGCGTTTTT
95543354 TTCATAAACG
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 34 0.36
42 4 0.04
43 56 0.60
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (43 bp):
AAAGGTCATGACTTTTAGCGGCGTTTTTGGAAAAAGCGCCGCT
Found at i:95543409 original size:12 final size:14
Alignment explanation
Indices: 95543374--95543412 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
95543364 CCACAAAATG
95543374 TTAGCGGCGTTGTCT
1 TTAGCGGCGTT-TCT
95543389 TTAGCGGCGTTT-T
1 TTAGCGGCGTTTCT
95543402 TT-GCGGCGTTT
1 TTAGCGGCGTTT
95543413 GTAAAAGCGC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 9 0.38
13 3 0.12
14 1 0.04
15 11 0.46
ACGTcount: A:0.05, C:0.18, G:0.33, T:0.44
Consensus pattern (14 bp):
TTAGCGGCGTTTCT
Found at i:95546395 original size:14 final size:14
Alignment explanation
Indices: 95546376--95546403 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
95546366 CATGAGTAAA
95546376 GCTTACAATAGGGT
1 GCTTACAATAGGGT
95546390 GCTTACAATAGGGT
1 GCTTACAATAGGGT
95546404 CAAATAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (14 bp):
GCTTACAATAGGGT
Found at i:95549025 original size:9 final size:9
Alignment explanation
Indices: 95549011--95549078 Score: 59
Period size: 9 Copynumber: 7.6 Consensus size: 9
95549001 ATAAGTATAA
95549011 AATTAACCG
1 AATTAACCG
95549020 AATTAACCG
1 AATTAACCG
*
95549029 AATTAATCG
1 AATTAACCG
*
95549038 AATT-ACCTA
1 AATTAACC-G
**
95549047 AATT-ACTTA
1 AATTAAC-CG
*
95549056 AATTAATCG
1 AATTAACCG
95549065 AATTAACCG
1 AATTAACCG
95549074 AATTA
1 AATTA
95549079 TTTGTATAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
8 2 0.04
9 45 0.94
10 1 0.02
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.31
Consensus pattern (9 bp):
AATTAACCG
Found at i:95549077 original size:27 final size:26
Alignment explanation
Indices: 95549011--95549078 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 26
95549001 ATAAGTATAA
*
95549011 AATTAACCGAATTAACCGAATTAATCG
1 AATTAACCGAATT-ACCAAATTAATCG
* *
95549038 AATT-ACCTAAATTACTTAAATTAATCG
1 AATTAACC-GAATTAC-CAAATTAATCG
95549065 AATTAACCGAATTA
1 AATTAACCGAATTA
95549079 TTTGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 5 0.15
27 26 0.76
28 3 0.09
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.31
Consensus pattern (26 bp):
AATTAACCGAATTACCAAATTAATCG
Found at i:95549109 original size:6 final size:6
Alignment explanation
Indices: 95549098--95549150 Score: 70
Period size: 6 Copynumber: 8.5 Consensus size: 6
95549088 AATTATATGT
* *
95549098 TTTTTA TTTTTA TTTTTA GTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA
95549148 TTT
1 TTT
95549151 ATTAAATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 32 0.78
7 8 0.20
8 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:95549122 original size:18 final size:19
Alignment explanation
Indices: 95549099--95549150 Score: 79
Period size: 18 Copynumber: 2.7 Consensus size: 19
95549089 ATTATATGTT
95549099 TTTTATTTTTATTTTTAG-
1 TTTTATTTTTATTTTTAGA
*
95549117 TTTTATTTTTAGTTTTAGA
1 TTTTATTTTTATTTTTAGA
95549136 TTTTTATTTTTATTT
1 -TTTTATTTTTATTT
95549151 ATTAAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 17 0.57
20 13 0.43
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (19 bp):
TTTTATTTTTATTTTTAGA
Found at i:95550887 original size:25 final size:25
Alignment explanation
Indices: 95550859--95550908 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
95550849 AGTGGAAGGA
95550859 GCCAATTGGGGACAAGACTATTGGT
1 GCCAATTGGGGACAAGACTATTGGT
95550884 GCCAATTGGGGACAAGACTATTGGT
1 GCCAATTGGGGACAAGACTATTGGT
95550909 ATAGAGCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (25 bp):
GCCAATTGGGGACAAGACTATTGGT
Found at i:95551244 original size:27 final size:26
Alignment explanation
Indices: 95551214--95551264 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
95551204 TAATTTTAAA
*
95551214 AAATTAAAAAAATCTTAAAATAAAAAT
1 AAATTAAAAAAATATT-AAATAAAAAT
**
95551241 AAATTATTAAAATATTAAATAAAA
1 AAATTAAAAAAATATTAAATAAAA
95551265 CACATTTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (26 bp):
AAATTAAAAAAATATTAAATAAAAAT
Found at i:95561918 original size:9 final size:9
Alignment explanation
Indices: 95561894--95561931 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
95561884 CTGAAGTTAT
95561894 ATTAAATAA
1 ATTAAATAA
95561903 TATTAAATAA
1 -ATTAAATAA
95561913 ATTAAATAA
1 ATTAAATAA
*
95561922 AATAAATAA
1 ATTAAATAA
95561931 A
1 A
95561932 CAGGAGATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
9 18 0.67
10 9 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
ATTAAATAA
Found at i:95580389 original size:21 final size:21
Alignment explanation
Indices: 95580363--95580408 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
95580353 TCGATCCTGT
*
95580363 TCCTCATAAATAAAGTTTAAA
1 TCCTCATAAACAAAGTTTAAA
95580384 TCCTCATAAACAAAGTTTAAA
1 TCCTCATAAACAAAGTTTAAA
95580405 TCCT
1 TCCT
95580409 TATAGATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (21 bp):
TCCTCATAAACAAAGTTTAAA
Found at i:95581260 original size:90 final size:91
Alignment explanation
Indices: 95581104--95581289 Score: 248
Period size: 90 Copynumber: 2.1 Consensus size: 91
95581094 TAGATTAAAG
* * * * * * **
95581104 TGAAAATATCTACAAAAGAAACAACTATTAAAAATCAAAATAGATAAGAAGCAAATAATGAGGGG
1 TGAAAATATCAACAAAAAAAAAAACTATCAAAAATCAAAATAAATAAGAAGAAAATAAACAGGGG
95581169 GAAGAAAGCAAG-AGCCATTATCATA
66 GAAGAAAGCAAGAAGCCATTATCATA
** ** *
95581194 TGAAAATATCAACAAAAAAAAAAACTATCAACCATCAGTATAAATAAGAAGAAAATAAACATGGG
1 TGAAAATATCAACAAAAAAAAAAACTATCAAAAATCAAAATAAATAAGAAGAAAATAAACAGGGG
95581259 GAAGAAAGCAAGAAGCCATTATCATA
66 GAAGAAAGCAAGAAGCCATTATCATA
95581285 TGAAA
1 TGAAA
95581290 CTCAATTTCA
Statistics
Matches: 82, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
90 64 0.78
91 18 0.22
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.17
Consensus pattern (91 bp):
TGAAAATATCAACAAAAAAAAAAACTATCAAAAATCAAAATAAATAAGAAGAAAATAAACAGGGG
GAAGAAAGCAAGAAGCCATTATCATA
Found at i:95584168 original size:20 final size:20
Alignment explanation
Indices: 95584145--95584206 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 20
95584135 TTTTTTTTAC
*
95584145 AAAATTGCTGAATTTCTTAT
1 AAAATTGATGAATTTCTTAT
* *
95584165 AAAATTGTTGAA-TCCTTAT
1 AAAATTGATGAATTTCTTAT
* *
95584184 ATAATTAATGAATTTCTTA-
1 AAAATTGATGAATTTCTTAT
95584203 AAAA
1 AAAA
95584207 ACAATGTGCT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAATTGATGAATTTCTTAT
Found at i:95589337 original size:37 final size:37
Alignment explanation
Indices: 95589236--95589346 Score: 116
Period size: 37 Copynumber: 2.9 Consensus size: 37
95589226 TAGCGAGCTT
* **
95589236 TAAAAATGACAGTCGCGATATTAAATCAAGTTAACTCT
1 TAAAAATGA-AGTCGCGATATTAAATCAAGTGAACTAG
* * *
95589274 TAGAAAATCGAAGGTTGCGATCTTAAATAAAGTGAAC-AG
1 TA-AAAAT-GAA-GTCGCGATATTAAATCAAGTGAACTAG
95589313 TAAAAATGATAGTCGCGATATTAAATCAAGTGAA
1 TAAAAATGA-AGTCGCGATATTAAATCAAGTGAA
95589347 TTGTTAAAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
37 22 0.37
38 8 0.13
39 8 0.13
40 22 0.37
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (37 bp):
TAAAAATGAAGTCGCGATATTAAATCAAGTGAACTAG
Found at i:95592846 original size:22 final size:22
Alignment explanation
Indices: 95592800--95592846 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
95592790 TTGGAGTTCG
* **
95592800 CAGAGAATGTTAGTACTAGGGA
1 CAGAGAATGTCAGTACTAGAAA
*
95592822 CAGAGAATGTCAGTATTAGAAA
1 CAGAGAATGTCAGTACTAGAAA
95592844 CAG
1 CAG
95592847 CAAACCTAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.11, G:0.28, T:0.21
Consensus pattern (22 bp):
CAGAGAATGTCAGTACTAGAAA
Found at i:95593004 original size:7 final size:7
Alignment explanation
Indices: 95592992--95593023 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
95592982 TGTTAAGTGC
95592992 TTTTTAA
1 TTTTTAA
95592999 TTTTTAA
1 TTTTTAA
95593006 TTTTTAA
1 TTTTTAA
*
95593013 TTTATAA
1 TTTTTAA
95593020 TTTT
1 TTTT
95593024 ATATTACATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTTAA
Found at i:95594124 original size:19 final size:20
Alignment explanation
Indices: 95594091--95594137 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
95594081 CCGGAAAATA
95594091 ATTTCTAGAAAATGATTTAC
1 ATTTCTAGAAAATGATTTAC
95594111 ATTTCTAG-AAATGATTTAC
1 ATTTCTAGAAAATGATTTAC
*
95594130 TTTTCTAG
1 ATTTCTAG
95594138 TGTTTAGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (20 bp):
ATTTCTAGAAAATGATTTAC
Found at i:95598191 original size:68 final size:68
Alignment explanation
Indices: 95598107--95598250 Score: 171
Period size: 68 Copynumber: 2.1 Consensus size: 68
95598097 TCAACGCAGG
* * *
95598107 TCAACAAGTTGTTAGGAATTACGATCTTAAATCAACTAACTTAAATAATCAGAAGTTGTAATCTT
1 TCAACGAGTTGTTAGGAATTACGATCTTAAATCAACAAACTCAAATAATCAGAAGTTGTAATCTT
95598172 AAA
66 AAA
* * * * ** ** * *
95598175 TCAGCGAGTTGTTAGGAGTTGCGTTCTTAAATCGGCAAACTCAAATAATTGGAGGTTGTGATCTT
1 TCAACGAGTTGTTAGGAATTACGATCTTAAATCAACAAACTCAAATAATCAGAAGTTGTAATCTT
95598240 AAA
66 AAA
95598243 TCAACGAG
1 TCAACGAG
95598251 CTTTAGTAAT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (68 bp):
TCAACGAGTTGTTAGGAATTACGATCTTAAATCAACAAACTCAAATAATCAGAAGTTGTAATCTT
AAA
Found at i:95598680 original size:105 final size:105
Alignment explanation
Indices: 95598380--95599046 Score: 359
Period size: 105 Copynumber: 6.5 Consensus size: 105
95598370 TTGGGAATAT
** * *
95598380 AAGTCTGCGAGCTATTTCGGAA-TTGCGAGCTTAACTCAACTAACTTAAATAGTTTGGAGGTTGT
1 AAGTCTGCGAGCTATTTC-GAAGTTGCGAGCTTAACTCAACTAACTCGAATAATTTGGAGGCTGT
* * *
95598444 GAGTTTTAACTCAACTAACCTTTAAACATTAGCTGGGAACGC
65 GAG-CTTAACTCAACTAACCTTTAAACATGAGCTGAGAACGC
** * * * * *
95598486 AAGTCCACGAGCTCTTTCAAAGTTTACGAGCTTAACTCAACTAACTCGAATAATCTAGAGGCTGT
1 AAGTCTGCGAGCTATTTCGAAG-TTGCGAGCTTAACTCAACTAACTCGAATAATTTGGAGGCTGT
95598551 GAGCTTAACTCAACTAACCTTTAAACATGAGCTGAGAACGC
65 GAGCTTAACTCAACTAACCTTTAAACATGAGCTGAGAACGC
* * * * * * *
95598592 AAGTCTGCAAACTGTTTCGAAGTTGCGAGCTTAACTTAGCTAACTCGAATAATTTGGAGACTGCG
1 AAGTCTGCGAGCTATTTCGAAGTTGCGAGCTTAACTCAACTAACTCGAATAATTTGGAGGCTGTG
* * * * * * **
95598657 AGCTTAACTTAGCTAACCCTTAAACATCAACTGGGAACAT
66 AGCTTAACTCAACTAACCTTTAAACATGAGCTGAGAACGC
* * * * ** * * * *
95598697 AGGT-TAGCAAGTTGTTAAGAA-ATGCGATCTTAGA-TCAACGAACTCAAATAA-TT--A-----
1 AAGTCT-GCGAGCTATTTCGAAGTTGCGAGCTTA-ACTCAACTAACTCGAATAATTTGGAGGCTG
* * * * * * * **
95598751 -GAG-ATAAATCAACTAGCCTTAGTAGA-ATCAACTGGGAACAT
64 TGAGCTTAACTCAACTAACCTT--TAAACATGAGCTGAGAACGC
* * * * * * * **
95598792 AAGTTTGCGAGTTGTTTCAAAGTTGCCAGCTTAACTCAGCTAACTCGAATAATTTGAAGGCTACG
1 AAGTCTGCGAGCTATTTCGAAGTTGCGAGCTTAACTCAACTAACTCGAATAATTTGGAGGCTGTG
* * * *
95598857 AGCTTAACTCAACTAACCTTAAAATATCAGCTG-GAAACGT
66 AGCTTAACTCAACTAACCTTTAAACATGAGCTGAG-AACGC
* * * * * * * * * *
95598897 AAGTTTGCAAGTTGTTTTGGAGTTACAAGTTTAACTCAATTAACTCGAATAATTTGGAGG-T-T-
1 AAGTCTGCGAGCTATTTCGAAGTTGCGAGCTTAACTCAACTAACTCGAATAATTTGGAGGCTGTG
* * * * **
95598959 -G-TGAACTTAACTAACCTTTAAACATCAGCTAAGAACAT
66 AGCTTAACTCAACTAACCTTTAAACATGAGCTGAGAACGC
* * ** ** *
95598997 AAGTCTGCGAGCTGTTTCGAAATTATGAGCTTAACTTTACTAACTAGAAT
1 AAGTCTGCGAGCTATTTCGAAGTTGCGAGCTTAACTCAACTAACTCGAAT
95599047 TATCTAGAGA
Statistics
Matches: 438, Mismatches: 101, Indels: 50
0.74 0.17 0.08
Matches are distributed among these distances:
94 11 0.03
95 33 0.08
96 26 0.06
97 2 0.00
99 1 0.00
100 66 0.15
101 3 0.01
103 2 0.00
104 27 0.06
105 149 0.34
106 80 0.18
107 38 0.09
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (105 bp):
AAGTCTGCGAGCTATTTCGAAGTTGCGAGCTTAACTCAACTAACTCGAATAATTTGGAGGCTGTG
AGCTTAACTCAACTAACCTTTAAACATGAGCTGAGAACGC
Found at i:95608427 original size:28 final size:28
Alignment explanation
Indices: 95608366--95608427 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
95608356 TCAGTGTACG
*
95608366 AAATATTGAGAATGACACTTAGTATGCG
1 AAATATTGAGAATGACACTTAGTATGCA
* *
95608394 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAGTATGCA
95608422 AAATAT
1 AAATAT
95608428 CGAATGATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAGTATGCA
Found at i:95612726 original size:33 final size:33
Alignment explanation
Indices: 95612689--95612756 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
95612679 GGTAGCATGG
95612689 TTCAAATATTAATATTTGTAAATTATTTATTTA
1 TTCAAATATTAATATTTGTAAATTATTTATTTA
95612722 TTCAAATATTAATATTTGTAAATTATTTATTTA
1 TTCAAATATTAATATTTGTAAATTATTTATTTA
95612755 TT
1 TT
95612757 TTTTAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (33 bp):
TTCAAATATTAATATTTGTAAATTATTTATTTA
Found at i:95612744 original size:16 final size:16
Alignment explanation
Indices: 95612692--95612744 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
95612682 AGCATGGTTC
95612692 AAATATTAATATTTGT
1 AAATATTAATATTTGT
*
95612708 AAATTATT--TATTTATT
1 AAA-TATTAATATTT-GT
95612724 CAAATATTAATATTTGT
1 -AAATATTAATATTTGT
95612741 AAAT
1 AAAT
95612745 TATTTATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
15 5 0.17
16 12 0.40
17 8 0.27
18 5 0.17
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (16 bp):
AAATATTAATATTTGT
Found at i:95617507 original size:24 final size:24
Alignment explanation
Indices: 95617475--95617521 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
95617465 GGTTTCAGGA
95617475 TTTGGCTAAATTCAATATTGCTCT
1 TTTGGCTAAATTCAATATTGCTCT
95617499 TTTGGCTAAATTCAATATTGCTC
1 TTTGGCTAAATTCAATATTGCTC
95617522 GTCTAATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.45
Consensus pattern (24 bp):
TTTGGCTAAATTCAATATTGCTCT
Found at i:95620037 original size:24 final size:24
Alignment explanation
Indices: 95620010--95620057 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
95620000 TTAAATAAGG
95620010 ATTCGGGTCACTTAATTCTAACAA
1 ATTCGGGTCACTTAATTCTAACAA
95620034 ATTCGGGTCACTTAATTCTAACAA
1 ATTCGGGTCACTTAATTCTAACAA
95620058 TCTCCACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (24 bp):
ATTCGGGTCACTTAATTCTAACAA
Found at i:95624721 original size:28 final size:28
Alignment explanation
Indices: 95624668--95624751 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
95624658 CACTTTGTGC
95624668 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
95624697 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
95624725 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
95624752 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:95624763 original size:23 final size:24
Alignment explanation
Indices: 95624672--95624765 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 24
95624662 TTGTGCTATT
95624672 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-TATA-TA
*
95624699 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGG---ATAT-ATA
95624729 CTGGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
95624752 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
95624766 TTGGACATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
23 17 0.29
24 1 0.02
25 2 0.03
28 18 0.31
29 14 0.24
30 5 0.08
31 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (24 bp):
CTGGTGTGTTTTGGAGGATATATA
Found at i:95624994 original size:23 final size:23
Alignment explanation
Indices: 95624968--95625041 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
95624958 AGGTACTTTA
95624968 TGTGTCGTATTTCAGGCACCTTG
1 TGTGTCGTATTTCAGGCACCTTG
*
95624991 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTTG
* *
95625012 TGTGTCG--TTTCAGGCA-TTTA
1 TGTGTCGTATTTCAGGCACCTTG
95625032 TGTGTCGTAT
1 TGTGTCGTAT
95625042 ACTGATCAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
20 8 0.19
21 25 0.58
22 1 0.02
23 9 0.21
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTTG
Found at i:95626173 original size:46 final size:46
Alignment explanation
Indices: 95626123--95626268 Score: 141
Period size: 53 Copynumber: 3.0 Consensus size: 46
95626113 TGGTTGGACC
95626123 ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
* * * * * *
95626169 ATGGCATCAGAGATATGTGATTACGTGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATC----A-ATGTGA-TATGTG-ATCTGTGTAAGACCATAGCTGGGCT
* *
95626222 ATGGCATCAGTGTGATATGTGAT-TCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAATGTGATATGTGATCT-GTGTAAGACCATAGCTGGGCT
95626268 A
1 A
95626269 AGGCTACGGT
Statistics
Matches: 78, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
46 27 0.35
47 5 0.06
48 5 0.06
49 1 0.01
50 1 0.01
51 6 0.08
52 5 0.06
53 28 0.36
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (46 bp):
ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
Found at i:95646326 original size:20 final size:21
Alignment explanation
Indices: 95646298--95646345 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
95646288 ATCATCAAGG
*
95646298 TTTTATTATTATTA-TTATTA
1 TTTTTTTATTATTATTTATTA
* *
95646318 TTTTTTTATTTTTATTTTTTA
1 TTTTTTTATTATTATTTATTA
95646339 TTTTTTT
1 TTTTTTT
95646346 GCATTGTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTTTTATTATTATTTATTA
Found at i:95652319 original size:44 final size:44
Alignment explanation
Indices: 95652260--95652351 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
95652250 CAGAAGTAAC
* *
95652260 AGTAATAGTATGACACATAAT-GTGCCTCATCGACTCGAA-GTCGA
1 AGTAACAGTACGACAC-TAATAGTGCCTCATCGACTC-AAGGTCGA
*
95652304 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACTAATAGTGCCTCATCGACTCAAGGTCGA
95652348 AGTA
1 AGTA
95652352 TCCCTGAACA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 5 0.12
44 38 0.88
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.24
Consensus pattern (44 bp):
AGTAACAGTACGACACTAATAGTGCCTCATCGACTCAAGGTCGA
Found at i:95653561 original size:17 final size:17
Alignment explanation
Indices: 95653537--95653574 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
95653527 ATTTATTTCT
95653537 TAATATAAT--ATTT-A
1 TAATATAATAAATTTAA
95653551 TAATATAATAAATTTAA
1 TAATATAATAAATTTAA
95653568 TAATATA
1 TAATATA
95653575 CTTTATAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
16 4 0.19
17 8 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAATATAATAAATTTAA
Found at i:95660537 original size:44 final size:44
Alignment explanation
Indices: 95660464--95660555 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
95660454 CTGAAGTAAT
*
95660464 AGTAACAGTACGACACACAAGGTGTCTCATCGACTCGAA-GTCGA
1 AGTAACAGTACGACACACAAGGTGACTCATCGACTC-AAGGTCGA
95660508 AGTAACAGTACGACACTTAC-A-GTGACTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACAC--ACAAGGTGACTCATCGACTCAAGGTCGA
95660552 AGTA
1 AGTA
95660556 TCCCTGAACA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
43 2 0.05
44 39 0.89
45 1 0.02
46 2 0.05
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.20
Consensus pattern (44 bp):
AGTAACAGTACGACACACAAGGTGACTCATCGACTCAAGGTCGA
Found at i:95661431 original size:21 final size:20
Alignment explanation
Indices: 95661407--95661445 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
95661397 TTTCGAATGC
* *
95661407 TTTCTGTTTTTTTATGTTTTA
1 TTTCTCTTTTATT-TGTTTTA
95661428 TTTCTCTTTTATTTGTTT
1 TTTCTCTTTTATTTGTTT
95661446 ATTAATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.77
Consensus pattern (20 bp):
TTTCTCTTTTATTTGTTTTA
Found at i:95661623 original size:13 final size:12
Alignment explanation
Indices: 95661590--95661631 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
95661580 TAATATTAAG
95661590 AATAATAA-TTA
1 AATAATAATTTA
*
95661601 TAACAATAATTTA
1 -AATAATAATTTA
95661614 ATATAATAATTTA
1 A-ATAATAATTTA
95661627 AATAA
1 AATAA
95661632 ATATCTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 12 0.46
13 14 0.54
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
AATAATAATTTA
Found at i:95661732 original size:156 final size:158
Alignment explanation
Indices: 95661448--95661733 Score: 362
Period size: 157 Copynumber: 1.8 Consensus size: 158
95661438 ATTTGTTTAT
* *
95661448 TAATTTAATATAATAATAGTTAAAATAAATATCTATTTAATATCAAATACATGTATTACAATTGT
1 TAATTTAATATAATAATA-TTAAAATAAATATCTATTTAATATCAAATACAAGTATTACAAATGT
* *** *
95661513 ATACATACATATTATTACACATGTATTTTATCATCACCCTACATTTGTCATAATTTAATTTATTT
65 ATACATACATATTAATACACATGTATCAAATCATCACCATACATTTGTCATAATTTAATTTATTT
95661578 GATAATATTAAGAATAATAATTATAACAA
130 GATAATATTAAGAATAATAATTATAACAA
* * *
95661607 TAATTTAATATAATAAT-TT-AAATAAATATCTATTTAATAATTAATTATAAGTATTACAAATGT
1 TAATTTAATATAATAATATTAAAATAAATATCTATTTAAT-ATCAAATACAAGTATTACAAATGT
** *** * * * *
95661670 ATGTATTTTTATTAATACACTTGTATCAAATCATCACCATGCA-TTGTCTTTATTTAATTTATTT
65 ATACATACATATTAATACACATGTATCAAATCATCACCATACATTTGTCATAATTTAATTTATTT
95661734 CTTAATATAA
Statistics
Matches: 107, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
156 38 0.36
157 52 0.49
159 17 0.16
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (158 bp):
TAATTTAATATAATAATATTAAAATAAATATCTATTTAATATCAAATACAAGTATTACAAATGTA
TACATACATATTAATACACATGTATCAAATCATCACCATACATTTGTCATAATTTAATTTATTTG
ATAATATTAAGAATAATAATTATAACAA
Found at i:95662905 original size:43 final size:43
Alignment explanation
Indices: 95662813--95662919 Score: 108
Period size: 43 Copynumber: 2.5 Consensus size: 43
95662803 TGAGATTATG
* * * ** *
95662813 TGTAAGACCATGTCTGGGACATTGGCATCGTTAATTAATTTCG
1 TGTAAGACCATGTCTGGGATAGTGGCATCGATAATTAATAACA
* *
95662856 TATAAGACCCTGTCTGGGATAGTGGCATCGAT-ATATAATAACA
1 TGTAAGACCATGTCTGGGATAGTGGCATCGATAAT-TAATAACA
* *
95662899 TGTAAGATCATATCTGGGATA
1 TGTAAGACCATGTCTGGGATA
95662920 TGACATTGTA
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
42 2 0.04
43 49 0.96
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGATAGTGGCATCGATAATTAATAACA
Found at i:95665871 original size:11 final size:11
Alignment explanation
Indices: 95665857--95665901 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
95665847 AGATAAATAT
95665857 TATTTTATTAA
1 TATTTTATTAA
*
95665868 TATTTTAATAATA
1 TATTTT-ATTA-A
*
95665881 TATTTTATTAT
1 TATTTTATTAA
95665892 TATTTTATTA
1 TATTTTATTA
95665902 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:95665884 original size:24 final size:24
Alignment explanation
Indices: 95665852--95665907 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
95665842 TAATTAGATA
95665852 AATATTATTTTATTAATATTTTAAT
1 AATA-TATTTTATTAATATTTTAAT
* *
95665877 AATATATTTTATTATTATTTTATT
1 AATATATTTTATTAATATTTTAAT
*
95665901 AGTATAT
1 AATATAT
95665908 AAAGAAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AATATATTTTATTAATATTTTAAT
Found at i:95668082 original size:46 final size:46
Alignment explanation
Indices: 95668030--95668303 Score: 370
Period size: 46 Copynumber: 6.0 Consensus size: 46
95668020 AGTGTGCTCT
*
95668030 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
95668076 CTGATATGAAATGTGTAAGACCATGGTCGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
95668122 CTGATATGAAATGTGTAAGACCATGGTCGAAATATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
95668168 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
95668214 GTGACATGAAAAGAATAAGATCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
95668260 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
95668304 TCATGTCAAA
Statistics
Matches: 210, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 209 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:95669311 original size:46 final size:46
Alignment explanation
Indices: 95669243--95669539 Score: 427
Period size: 46 Copynumber: 6.5 Consensus size: 46
95669233 TATTCATTTC
* *
95669243 TATCTTTCAACCATGGTATTATTCA-TTTCTTGTCATGTTGCTATGG
1 TATCTTTCAACCATGGTCTTATTCATTTTC-TGTCATGTTGCCATGG
* * *
95669289 TATCTTTCAACCGTGGTCTTATTCATTTTCTGTCATGTTTCTATGG
1 TATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGTTGCCATGG
* * *
95669335 TATCTTTCAACCGTGGTCTTATTCATTTTCTGTCATGTTGTCATAG
1 TATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGTTGCCATGG
95669381 TATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGTTGCCATGG
* *
95669427 TATCTTTCAACCATGGTCTTATTAATTTTCTATCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGTTGCCATGG
* *
95669473 TATCTTTCAACCATGGTCTTATTCA-TTTCTCGTCATATTGCCATAG
1 TATCTTTCAACCATGGTCTTATTCATTTTCT-GTCATGTTGCCATGG
* * *
95669519 CATCTTTCAACTATGATCTTA
1 TATCTTTCAACCATGGTCTTA
95669540 CATATCTAAA
Statistics
Matches: 230, Mismatches: 19, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
45 5 0.02
46 221 0.96
47 4 0.02
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.46
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGTTGCCATGG
Found at i:95669417 original size:22 final size:22
Alignment explanation
Indices: 95669348--95669417 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
95669338 CTTTCAACCG
95669348 TGGTCTTATTCATTTTCTGTCA
1 TGGTCTTATTCATTTTCTGTCA
* * ***
95669370 TGTTGTCATAGT-ATCTTTCAACCA
1 TG--GTCTTATTCAT-TTTCTGTCA
95669394 TGGTCTTATTCATTTTCTGTCA
1 TGGTCTTATTCATTTTCTGTCA
95669416 TG
1 TG
95669418 TTGCCATGGT
Statistics
Matches: 34, Mismatches: 10, Indels: 8
0.65 0.19 0.15
Matches are distributed among these distances:
22 16 0.47
23 4 0.12
24 14 0.41
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.50
Consensus pattern (22 bp):
TGGTCTTATTCATTTTCTGTCA
Found at i:95669578 original size:45 final size:45
Alignment explanation
Indices: 95669511--95669631 Score: 138
Period size: 45 Copynumber: 2.7 Consensus size: 45
95669501 CTCGTCATAT
* * * * **
95669511 TGCCATAGCATCTTTCAACTATGATCTTACAT-ATCTAAATCGTGA
1 TGCCATAACGTCTTTCAGCTATGGTCTTAC-TCATCTAAATCGCAA
* *
95669556 TGCCATAACGTCTTTCAGCTATGGTCTTACTCGTCTGAATCGCAA
1 TGCCATAACGTCTTTCAGCTATGGTCTTACTCATCTAAATCGCAA
*
95669601 TGCCAT-TCGTCTTTCAGCTATGGTCTTACTC
1 TGCCATAACGTCTTTCAGCTATGGTCTTACTC
95669632 GTTTCTGGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
44 25 0.38
45 41 0.62
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (45 bp):
TGCCATAACGTCTTTCAGCTATGGTCTTACTCATCTAAATCGCAA
Found at i:95669648 original size:44 final size:42
Alignment explanation
Indices: 95669553--95669651 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 42
95669543 ATCTAAATCG
95669553 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGTCTGAA
1 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGTCTGAA
* *
95669595 TCGCAATGCCAT-TCGTCTTTCAGCTATGGTCTTACTCGTTTCTGGTA
1 T-G--ATGCCATAACGTCTTTCAGCTATGGTCTTACTCG--TCT-GAA
95669642 TGATGCCATA
1 TGATGCCATA
95669652 GTCCAACTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
42 1 0.02
43 1 0.02
44 32 0.67
45 7 0.15
46 4 0.08
47 3 0.06
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.37
Consensus pattern (42 bp):
TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGTCTGAA
Found at i:95669703 original size:22 final size:22
Alignment explanation
Indices: 95669660--95669705 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
95669650 TAGTCCAACT
*
95669660 ATGGTCTTACACATGTATTGCC
1 ATGGTCTTACACATGTAGTGCC
95669682 ATGGTCTTACAC-TCGTAGTGCC
1 ATGGTCTTACACAT-GTAGTGCC
95669704 AT
1 AT
95669706 ATCCCAGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (22 bp):
ATGGTCTTACACATGTAGTGCC
Found at i:95672053 original size:31 final size:31
Alignment explanation
Indices: 95672015--95672080 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
95672005 GTATTAATGG
95672015 AGAAGAGCTCATCCACCTTGTGGAAAAGGTT
1 AGAAGAGCTCATCCACCTTGTGGAAAAGGTT
95672046 AGAAGAGCTCATCCACCTTGTGGAAAAGGTT
1 AGAAGAGCTCATCCACCTTGTGGAAAAGGTT
95672077 AGAA
1 AGAA
95672081 ACTCTTTATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (31 bp):
AGAAGAGCTCATCCACCTTGTGGAAAAGGTT
Found at i:95678915 original size:27 final size:27
Alignment explanation
Indices: 95678842--95678934 Score: 100
Period size: 27 Copynumber: 3.4 Consensus size: 27
95678832 ATCCAGCCCT
* * *
95678842 TTCTCCTTCTCTATTTTTCTTTCCCAT
1 TTCTCCTTCTTTATTTTTCTTTCCTAC
* * *
95678869 TTCT-TTTCCATTT-CTCTTCTTTCCTAC
1 TTCTCCTT-C-TTTATTTTTCTTTCCTAC
95678896 TTCTCCTTCTTTATTTTTCTTTCCTAC
1 TTCTCCTTCTTTATTTTTCTTTCCTAC
95678923 TTCTCCTTCTTT
1 TTCTCCTTCTTT
95678935 GTTCCTCCTT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
26 5 0.09
27 44 0.83
28 4 0.08
ACGTcount: A:0.06, C:0.32, G:0.00, T:0.61
Consensus pattern (27 bp):
TTCTCCTTCTTTATTTTTCTTTCCTAC
Found at i:95678946 original size:27 final size:27
Alignment explanation
Indices: 95678889--95678946 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
95678879 TTTCTCTTCT
** *
95678889 TTCCTACTTCTCCTTCTTTATTTTTCT
1 TTCCTACTTCTCCTTCTTTATTCCTCC
*
95678916 TTCCTACTTCTCCTTCTTTGTTCCTCC
1 TTCCTACTTCTCCTTCTTTATTCCTCC
95678943 TTCC
1 TTCC
95678947 CTTTTTCCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.05, C:0.36, G:0.02, T:0.57
Consensus pattern (27 bp):
TTCCTACTTCTCCTTCTTTATTCCTCC
Found at i:95680683 original size:23 final size:23
Alignment explanation
Indices: 95680641--95680693 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
95680631 TTATTTTTAC
* *
95680641 TTTATTTTTCTTTTCCTTTTCTT
1 TTTATTTTTCTTTTACTTTTATT
*
95680664 TTTATTTTTCTTTTATTTTTATT
1 TTTATTTTTCTTTTACTTTTATT
*
95680687 TCTATTT
1 TTTATTT
95680694 CTAGTTTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTATTTTTCTTTTACTTTTATT
Found at i:95680684 original size:17 final size:17
Alignment explanation
Indices: 95680630--95680687 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
95680620 TTTGAGTCCA
95680630 TTTATTTTTAC-TTTATT
1 TTTATTTTT-CTTTTATT
* * *
95680647 TTTCTTTTCCTTTTCTT
1 TTTATTTTTCTTTTATT
95680664 TTTATTTTTCTTTTATT
1 TTTATTTTTCTTTTATT
95680681 TTTATTT
1 TTTATTT
95680688 CTATTTCTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 1 0.03
17 33 0.97
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTATTTTTCTTTTATT
Found at i:95680692 original size:12 final size:11
Alignment explanation
Indices: 95680630--95680693 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
95680620 TTTGAGTCCA
*
95680630 TTTATTTTTAC
1 TTTATTTTTAT
*
95680641 TTTATTTTTCT
1 TTTATTTTTAT
*
95680652 TTTCCTTTTCT-T
1 TTT-ATTTT-TAT
*
95680664 TTTATTTTTCT
1 TTTATTTTTAT
95680675 TTTATTTTTAT
1 TTTATTTTTAT
95680686 TTCTATTT
1 TT-TATTT
95680694 CTAGTTTTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
10 1 0.02
11 29 0.66
12 13 0.30
13 1 0.02
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:95685276 original size:39 final size:39
Alignment explanation
Indices: 95685222--95685299 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
95685212 TGGAATTAAA
*
95685222 GATAATTATTTAGATAAAGGGAAATACCTATGATTTTAT
1 GATAATTATTTAGATAAAGGGAAATACCTATGATATTAT
95685261 GATAATTATTTAGATAAAGGGAAATACCTATGATATTAT
1 GATAATTATTTAGATAAAGGGAAATACCTATGATATTAT
95685300 TTTAGTTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.37
Consensus pattern (39 bp):
GATAATTATTTAGATAAAGGGAAATACCTATGATATTAT
Found at i:95688266 original size:19 final size:18
Alignment explanation
Indices: 95688242--95688288 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
95688232 TTTAACCGAG
95688242 TAATAAATTATAAAAAAA
1 TAATAAATTATAAAAAAA
**
95688260 TTAATAATATT-TAAACTAA
1 -TAATAA-ATTATAAAAAAA
95688279 TAATAAATTA
1 TAATAAATTA
95688289 AAATTTTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 3 0.12
18 6 0.25
19 12 0.50
20 3 0.12
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
TAATAAATTATAAAAAAA
Found at i:95693345 original size:20 final size:19
Alignment explanation
Indices: 95693320--95693388 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 19
95693310 TTTTTTATCT
95693320 TATTTTCATTTTGTTTTGCA
1 TATTTTCATTTTGTTTT-CA
* *
95693340 TATTTT-ATTTT-TTATCT
1 TATTTTCATTTTGTTTTCA
95693357 TATTTTCATTTTGTTTTACA
1 TATTTTCATTTTGTTTT-CA
95693377 TATTTTGCATTT
1 TATTTT-CATTT
95693389 AATTGTGTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
17 7 0.17
18 8 0.20
19 8 0.20
20 13 0.32
21 5 0.12
ACGTcount: A:0.17, C:0.09, G:0.06, T:0.68
Consensus pattern (19 bp):
TATTTTCATTTTGTTTTCA
Found at i:95693350 original size:37 final size:37
Alignment explanation
Indices: 95693309--95693382 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
95693299 TGTCTCATAC
*
95693309 ATTTTTTATCTTATTTTCATTTTGTTTTGCATATTTT
1 ATTTTTTATCTTATTTTCATTTTGTTTTACATATTTT
95693346 ATTTTTTATCTTATTTTCATTTTGTTTTACATATTTT
1 ATTTTTTATCTTATTTTCATTTTGTTTTACATATTTT
95693383 GCATTTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.18, C:0.08, G:0.04, T:0.70
Consensus pattern (37 bp):
ATTTTTTATCTTATTTTCATTTTGTTTTACATATTTT
Found at i:95693964 original size:127 final size:125
Alignment explanation
Indices: 95693730--95694047 Score: 404
Period size: 127 Copynumber: 2.5 Consensus size: 125
95693720 GAAAATCCCT
* * * *
95693730 TAAAACGAAGGCAATGTTCGATGTTTGGAAATTCGGGAAATCGTGCTCTACTGTTCTAGGTTTCG
1 TAAAAC-AAGGCAATGTTCGATGTTTGG-AATTCGGGGAATCGTGCCCTAC-GTGCTGGGTTTCG
* * * * *
95693795 ATTTCCCGTTTGTTCAAAATAATCGAACCCTCCTTTAGAATTTCATTCGTGTTTTTCTAAATTC
63 ATTTCCCGTTTATTCAAAATAATCGAAACATCCTTTAGAATTTCATTCGTATTCTT-TAAATTC
* * *
95693859 TAAAACAAGGCAATGTTTGATGCTTGGAATTCGGGGAACCGTGCCCTATCGTGCTGGGTTTCGAT
1 TAAAACAAGGCAATGTTCGATGTTTGGAATTCGGGGAATCGTGCCCTA-CGTGCTGGGTTTCGAT
* *
95693924 TTCTCGTTTATTCAAAATAATC-AAATATACCTTTAGAATTTCATTCGTATTCTTTAAATTC
65 TTCCCGTTTATTCAAAATAATCGAAACAT-CCTTTAGAATTTCATTCGTATTCTTTAAATTC
* * *
95693985 TAAAACAAGGTAATGTTCAATGTTTGGAAGTTCGAGGAATCGTGCCCTACCGTGCTGGGTTTC
1 TAAAACAAGGCAATGTTCGATGTTTGGAA-TTCGGGGAATCGTGCCCTA-CGTGCTGGGTTTC
95694048 AGTTTTCCGT
Statistics
Matches: 165, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
126 35 0.21
127 104 0.63
128 20 0.12
129 6 0.04
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (125 bp):
TAAAACAAGGCAATGTTCGATGTTTGGAATTCGGGGAATCGTGCCCTACGTGCTGGGTTTCGATT
TCCCGTTTATTCAAAATAATCGAAACATCCTTTAGAATTTCATTCGTATTCTTTAAATTC
Found at i:95694801 original size:25 final size:26
Alignment explanation
Indices: 95694678--95694802 Score: 87
Period size: 27 Copynumber: 4.7 Consensus size: 26
95694668 ACTAAATAGC
*
95694678 ATATA-AAAACTTTAAAATAGATAAT
1 ATATATAAAACTTTAAAATAAATAAT
* * * *
95694703 ACATATAAAATAGTTTAAAACAAAAGATAT
1 ATATAT-AAA-ACTTTAAAA-TAAATA-AT
* *
95694733 ATATATAAAGAC--CAAAATAAGTAAT
1 ATATATAAA-ACTTTAAAATAAATAAT
* *
95694758 GTATATAATAACTTAAAAATAAATAAT
1 ATATATAA-AACTTTAAAATAAATAAT
95694785 ATATATAAAA-TTTAAAAT
1 ATATATAAAACTTTAAAAT
95694803 GGGCAATAGT
Statistics
Matches: 75, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
25 22 0.29
26 6 0.08
27 25 0.33
28 8 0.11
29 7 0.09
30 7 0.09
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (26 bp):
ATATATAAAACTTTAAAATAAATAAT
Found at i:95697562 original size:16 final size:15
Alignment explanation
Indices: 95697536--95697570 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
95697526 TGATGTGAAT
95697536 AATATAAAATATTAA
1 AATATAAAATATTAA
*
95697551 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
95697567 AATA
1 AATA
95697571 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:95697739 original size:20 final size:20
Alignment explanation
Indices: 95697682--95697788 Score: 63
Period size: 22 Copynumber: 5.0 Consensus size: 20
95697672 AATACTACAT
95697682 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
95697701 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
95697724 AAATATGTACATAATATAGTGTAA
1 AAATATGTACATAATATA----AA
**
95697748 AAATACATACATAATATAATTA
1 AAATATGTACATAATATAA--A
* *
95697770 AAATATATACATAAGATAA
1 AAATATGTACATAATATAA
95697789 CATGTAAAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
19 8 0.12
20 8 0.12
22 20 0.29
23 14 0.21
24 18 0.26
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.31
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:95697831 original size:24 final size:24
Alignment explanation
Indices: 95697718--95697827 Score: 107
Period size: 24 Copynumber: 4.6 Consensus size: 24
95697708 TACGTGATAA
*
95697718 TATTAAAAATATGTACATAATATAG
1 TATT-AAAATATATACATAATATAG
* * *
95697743 TGTAAAAATACATACATAATATA-
1 TATTAAAATATATACATAATATAG
* *
95697766 -ATTAAAATATATACATAAGATAA
1 TATTAAAATATATACATAATATAG
* *
95697789 CATGTAAAATATATATATAATATAG
1 TAT-TAAAATATATACATAATATAG
*
95697814 TATTAAGATATATA
1 TATTAAAATATATA
95697828 TATACGTAAT
Statistics
Matches: 69, Mismatches: 13, Indels: 7
0.78 0.15 0.08
Matches are distributed among these distances:
22 18 0.26
24 29 0.42
25 22 0.32
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.35
Consensus pattern (24 bp):
TATTAAAATATATACATAATATAG
Found at i:95697837 original size:28 final size:25
Alignment explanation
Indices: 95697719--95697886 Score: 81
Period size: 22 Copynumber: 6.9 Consensus size: 25
95697709 ACGTGATAAT
* * *
95697719 ATTAAAAATATGTACATAATATAG-
1 ATTAAGAATATATATATAATATAGA
* * *
95697743 -TGTAAAAATACATACATAATAT--A
1 AT-TAAGAATATATATATAATATAGA
* *
95697766 ATTAA-AATATATACATAAGATA-A
1 ATTAAGAATATATATATAATATAGA
*
95697789 CATGTAA-AATATATATATAATATAGT
1 -AT-TAAGAATATATATATAATATAGA
95697815 ATTAAGATATATATATACGTAATATAGA
1 ATTAAGA-ATATATATA--TAATATAGA
* *
95697843 ATTTAGAATATACCTA-AT-ATAT-TA
1 ATTAAGAATATA--TATATAATATAGA
95697867 A--AAGAATATATATATAATAT
1 ATTAAGAATATATATATAATAT
95697887 TAAGAAATAT
Statistics
Matches: 118, Mismatches: 11, Indels: 32
0.73 0.07 0.20
Matches are distributed among these distances:
20 2 0.02
21 2 0.02
22 26 0.22
23 5 0.04
24 26 0.22
25 25 0.21
26 10 0.08
27 5 0.04
28 15 0.13
29 2 0.02
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.35
Consensus pattern (25 bp):
ATTAAGAATATATATATAATATAGA
Found at i:95697904 original size:21 final size:21
Alignment explanation
Indices: 95697847--95697903 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
95697837 TATAGAATTT
95697847 AGAATATACCTAAT-ATATTAAA
1 AGAATATA--TAATAATATTAAA
95697869 AGAATATATATATAATATT--A
1 AGAATATATA-ATAATATTAAA
95697889 AGAA-ATATAATAATA
1 AGAATATATAATAATA
95697904 ACAAAAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 6 0.18
19 5 0.15
20 7 0.21
21 2 0.06
22 13 0.39
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (21 bp):
AGAATATATAATAATATTAAA
Found at i:95698422 original size:30 final size:30
Alignment explanation
Indices: 95698381--95698479 Score: 180
Period size: 30 Copynumber: 3.3 Consensus size: 30
95698371 TAGGTATAAG
95698381 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
95698411 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
95698441 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
95698471 TGGTGGTGG
1 TGGTGGTGG
95698480 CAAAGGCTAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.17, C:0.06, G:0.51, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:95698717 original size:18 final size:18
Alignment explanation
Indices: 95698694--95698728 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
95698684 GCTGCCCCTC
95698694 TTTGCTTATTATCGTGTG
1 TTTGCTTATTATCGTGTG
95698712 TTTGCTTATTATCGTGT
1 TTTGCTTATTATCGTGT
95698729 AACGGGAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.11, G:0.20, T:0.57
Consensus pattern (18 bp):
TTTGCTTATTATCGTGTG
Found at i:95699438 original size:88 final size:88
Alignment explanation
Indices: 95699151--95699445 Score: 300
Period size: 88 Copynumber: 3.4 Consensus size: 88
95699141 GTGATCCTGA
* * **
95699151 GCTCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAAC-TAGACATT--AAAAACAGAAATT
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTAAAACATA-A-ATTGAAAAAACATTAATT
* * *
95699213 GAAAATAGCTCAGCACGTGAGCCAAG
64 GAAAATACCTCAG-ACGTGACCCGAG
* * * * *
95699239 GCTCAACTCACTTCTAGAAATATGAGTTGATT-TTTAAAACA-AAATTTGTAAAACAGATT--TT
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTAAAACATAAA-TTG-AAAAAACATTAATT
* *
95699300 GAAAATACCTCGGTATGTGACCCGAG
64 GAAAATACCTCAG-ACGTGACCCGAG
* *
95699326 GCTCAACTCATTTCTCGTAATATGAGTTGATTCTTGAAAAGCATAAATTGAAAAAACATTAATTG
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTAAAA-CATAAATTGAAAAAACATTAATTG
*
95699391 AAAATACCTCAG-CGTGCCCCGAG
65 AAAATACCTCAGACGTGACCCGAG
* *
95699414 GATCAAATCATTTCTCGCAATATGAGTTGATT
1 GCTCAACTCATTTCTCGCAATATGAGTTGATT
95699446 TTTTGATGAA
Statistics
Matches: 170, Mismatches: 27, Indels: 20
0.78 0.12 0.09
Matches are distributed among these distances:
85 1 0.01
86 3 0.02
87 60 0.35
88 79 0.46
89 10 0.06
90 17 0.10
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (88 bp):
GCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTAAAACATAAATTGAAAAAACATTAATTGA
AAATACCTCAGACGTGACCCGAG
Found at i:95699442 original size:175 final size:174
Alignment explanation
Indices: 95699133--95699448 Score: 397
Period size: 175 Copynumber: 1.8 Consensus size: 174
95699123 TGATTCTTTA
* *
95699133 CTCGGCATGTGATCCTGAGCTCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAACTAGACA
1 CTCGGCATGTGATCCCGAGCTCAACTCATTTCTCGCAATATGAATTGACTCTTGAAAACTAGACA
* * * *
95699198 TTAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTAGAAATATG
66 TTAAAAACAGAAATTGAAAATACCTCAG-ACGTGACCCAAGGATCAAATCACTTCTAGAAATATG
95699263 AGTTGATTTTTAAAACAAAATTTGTAAAACAGATTTTGAAAATAC
130 AGTTGATTTTTAAAACAAAATTTGTAAAACAGATTTTGAAAATAC
* * * *
95699308 CTCGGTATGTGA-CCCGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTCTTGAAAAGCATA-
1 CTCGGCATGTGATCCCGA-GCTCAACTCATTTCTCGCAATATGAATTGACTCTTGAAAA-C-TAG
** * * * * *
95699371 A-ATTGAAAAAACATTAATTGAAAATACCTCAG-CGTGCCCCGAGGATCAAATCATTTCTCGCAA
63 ACATT--AAAAACAGAAATTGAAAATACCTCAGACGTGACCCAAGGATCAAATCACTTCTAGAAA
95699434 TATGAGTTGATTTTT
126 TATGAGTTGATTTTT
95699449 TGATGAACAG
Statistics
Matches: 119, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
174 4 0.03
175 88 0.74
176 2 0.02
177 25 0.21
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (174 bp):
CTCGGCATGTGATCCCGAGCTCAACTCATTTCTCGCAATATGAATTGACTCTTGAAAACTAGACA
TTAAAAACAGAAATTGAAAATACCTCAGACGTGACCCAAGGATCAAATCACTTCTAGAAATATGA
GTTGATTTTTAAAACAAAATTTGTAAAACAGATTTTGAAAATAC
Found at i:95699593 original size:77 final size:76
Alignment explanation
Indices: 95699377--95699926 Score: 443
Period size: 71 Copynumber: 7.2 Consensus size: 76
95699367 CATAAATTGA
** * * * * **
95699377 AAAAACATTAATTGAAAATACCTCAGC--GTGCCCCGAGGATCAAATCATTTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAACACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
95699440 TTGATTTTTTG
66 TTGATTTTTTG
** * * * *
95699451 ATGAACAGAAATT-AAAACTACCTCA--ATGTGTCCTGAGGCTCAACTTACCTCTCGCAACATGA
1 AAAAACAGAAATTGAAAAC-ACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
95699513 GTTGATTTTTTTG
65 GTTGA-TTTTTTG
* * * *
95699526 AAAAACAGAAGTTGAAAACACCTCAGCGTGTGACCCGAGGCTTAACTCACCACTCGCAATATGAG
1 AAAAACAGAAATTGAAAACACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
95699591 TTGATTTTTTTG
66 TTGA-TTTTTTG
* * * * * * *
95699603 ACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATAAGA
1 AAAAACAGAAATTG-AAAACACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
95699668 GTTGATTTTTTG
65 GTTGATTTTTTG
*
95699680 AAAAACAAAAATTGAAAACACCTCAGCATGT-----GAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAACACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
95699740 TTGA-TTTTTG
66 TTGATTTTTTG
* * * * **
95699750 AAAAACATAAATTGAGCAGAAATTGAAAATACCTCA--ACGGGTCTTGAGGCTCAACTCACCTCT
1 ------A-AAA---A-CAGAAATTGAAAACACCTCAGCATGTGACCCGAGGCTCAACTCACCTCT
95699813 CGCAATATGAGTTGATTTTTTG
55 CGCAATATGAGTTGATTTTTTG
** * * ** * *
95699835 ---ATGATAAATTGAAAATACCTCA--ATGTGACTTGAAGTTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAACACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
95699895 TTGATTTTTTAA
66 TTGATTTTTT-G
95699907 ATTAAAACAGAAATTGAAAA
1 A--AAAACAGAAATTGAAAA
95699927 TAGAAATGGA
Statistics
Matches: 391, Mismatches: 54, Indels: 59
0.78 0.11 0.12
Matches are distributed among these distances:
70 6 0.02
71 92 0.24
73 4 0.01
74 47 0.12
75 24 0.06
76 21 0.05
77 89 0.23
78 48 0.12
79 2 0.01
80 1 0.00
81 18 0.05
84 33 0.08
85 6 0.02
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (76 bp):
AAAAACAGAAATTGAAAACACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTG
Found at i:95699800 original size:155 final size:153
Alignment explanation
Indices: 95699455--95700012 Score: 475
Period size: 155 Copynumber: 3.6 Consensus size: 153
95699445 TTTTTGATGA
* * * *
95699455 ACAGAAATT-AAAACTACCTCAATGTGTCCTGAGGCTCAACTTACCTCTCGCAACATGAGTTGAT
1 ACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * * * *
95699519 TTTTTTGAAAAACAGAAGTTGAAAACACCTCAGCGTGTGACCCGAGGCTTAACTCACCACTCGCA
65 TTTTTTGAAAAACATAAATTGAAAACACCTCAGCATGT-----GAGGCTCAACTCACCTCTCGCA
***
95699584 ATATGAGTTGATTTTT-TTGAC--AA---
125 ATATGAGTTGATTTTTAAAAACAAAATTG
* ** *
95699607 ACAGAAATTGAAAAATACCTCAGCGTGTAAGC-CAAGGCTCAACTCACCTCTCGCAATAAGAGTT
1 ACAGAAATTG-AAAATACCTCAACGTGT---CTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
95699671 GA-TTTTTTGAAAAACAAAAATTGAAAACACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAAT
62 GATTTTTTTGAAAAACATAAATTGAAAACACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAAT
95699735 ATGAGTTGATTTTTGAAAAACATAAATTG
127 ATGAGTTGATTTTT-AAAAACA-AAATTG
*
95699764 AGCAGAAATTGAAAATACCTCAACGGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
1 A-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
** * *
95699828 TTTTTTG---ATGATAAATTGAAAATACCTCA--ATGTGACTTGAAGTTCAACTCACCTCTCGCA
65 TTTTTTGAAAAACATAAATTGAAAACACCTCAGCATGTGA---G--GCTCAACTCACCTCTCGCA
95699888 ATATGAGTTGATTTTTTAAATTAAAACAGAAATTG
125 ATATGAGTTGA-TTTTT--A--AAAACA-AAATTG
* * * * * * *
95699923 AAAATAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTTTCGCAATATGAGCTG
1 ---ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
95699986 ATTTTTTTGAAACACATAAATTAAAAA
63 ATTTTTTTGAAAAACATAAATTGAAAA
95700013 AAAAGAAATT
Statistics
Matches: 337, Mismatches: 38, Indels: 51
0.79 0.09 0.12
Matches are distributed among these distances:
149 36 0.11
150 6 0.02
151 2 0.01
152 27 0.08
153 12 0.04
154 42 0.12
155 96 0.28
156 6 0.02
157 17 0.05
158 9 0.03
159 48 0.14
160 8 0.02
161 16 0.05
162 1 0.00
163 11 0.03
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (153 bp):
ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTTGAAAAACATAAATTGAAAACACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTAAAAACAAAATTG
Found at i:95700028 original size:88 final size:86
Alignment explanation
Indices: 95699863--95700029 Score: 201
Period size: 88 Copynumber: 1.9 Consensus size: 86
95699853 CTCAATGTGA
* * * *
95699863 CTTGAAGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAATTAAAACAGAAATTGAAAAT
1 CTTGAAGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTT--ATGAAAACAGAAATTAAAAAA
*
95699928 AGAAATGGAAAACACCTCAGCGT
64 AGAAATGAAAAACACCTCAGCGT
* * *
95699951 CTTGAGGTTCAACTCACCTTTCGCAATATGAGCTGATTTTTT-TGAAACACATAAATTAAAAAAA
1 CTTGAAGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTATGAAA-ACAGAAATT--AAAAA
*
95700015 AAGAAATTAAAAACA
63 AAGAAATGAAAAACA
95700030 GAATTTGAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
85 4 0.06
86 8 0.12
88 55 0.82
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (86 bp):
CTTGAAGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTATGAAAACAGAAATTAAAAAAAG
AAATGAAAAACACCTCAGCGT
Found at i:95700330 original size:145 final size:146
Alignment explanation
Indices: 95700057--95700402 Score: 502
Period size: 145 Copynumber: 2.4 Consensus size: 146
95700047 GACGTGTGGC
* * *
95700057 CCGAGACTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAA-TTGAAAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA--ATAAATTTGAAAATAC
* *
95700121 CTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGCAGAAATT
64 CTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAAATT
*
95700186 GAAA-AACCTCAGCGTGT
129 GAAATAACCTCAGCGTCT
*
95700203 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAAATTTGAAAATATCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAAATTTGAAAATACCT
* *
95700268 CAGCGTGTCCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAAAAATTG
66 CAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACAAAAATTG
* *
95700332 AAATTACTTCAGCGTCT
130 AAATAACCTCAGCGTCT
* * *
95700349 -TGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAATAAATT
95700403 AAAAAAAACG
Statistics
Matches: 182, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
144 11 0.06
145 98 0.54
146 73 0.40
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (146 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAAATTTGAAAATACCT
CAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAAATTGA
AATAACCTCAGCGTCT
Found at i:95700332 original size:568 final size:552
Alignment explanation
Indices: 95699489--95700759 Score: 1376
Period size: 568 Copynumber: 2.2 Consensus size: 552
95699479 TGTCCTGAGG
* * * * *
95699489 CTCAACTTACCTCTCGCAACATGAGTTGATTTTTTTGAAAAACAGAAGTTGAAAACACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAGCAGAAATTGAAAATACCTCAGCG
* * *
95699554 TGTGACCCGAGGCTTAACTCACCACTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAA
65 TGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGA-AAGCAGAAATTG-A
95699619 AAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATAAGAGTTGATTTTTTGAAAA
125 AAA-ACCTCAGCGTGT-A-CCAAGGCTCAACTCACCTCTCGCAATAAGAGTTGATTTTTTGAAAA
95699684 ACAAAAATTGAAAACACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
187 ACAAAAATTGAAAACACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
95699749 GAAAAACATAAATTGAGCAGAAATTGAAAATACCTCAACGGGTCTTGAGGCTCAACTCACCTCTC
252 GAAAAAC--------A--A-AAATTGAAATTACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTC
** * * * * *
95699814 GCAATATGAGTTGA-TTTTTTG-ATGATAAATT-GAAAATAC-CT-CAAT-GTGA-C-T-TGAAG
304 GCAATATGAGTTGATTTTTTTGAAACATAAATTAAAAAAAACACTGAAATACTCAGCGTCTGAAG
* *** * *
95699870 TTCAACTCACCTCTCGCAATATGAGTTGATTT-TTTA-AA-TTAAAACAGAAATTG-AAAATAGA
369 CTCAACTCACCTCTCGCAATA--AGTTGATTTAAGCAGAATTTAAAACA-AAATTGAAAAACAAA
* *
95699931 AATGGAAAACACCTCAGCGT-CTTGAGGTTCAACTCACCT-TTCGCAATATGAGCTGATTTTTTT
431 AATGGAAAACACCTCAGCGTCCCTGAGGCTCAACTCACCTCTT-GCAATATGAGCTGA---TTTT
* * * *
95699994 GAAACACATAAATTAAAAAAAAAGAAATT-AAAAACAGAATTTGAAAGGACCTCGACGTGTGGCC
492 GAAA-A-AGAAATT---AAAAAAGAAATTGAAAAACAGAAATT-AAAAGACCTCG--GCGT-GCC
95700058 CGAGA
548 CGAGA
95700063 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGAAAAGCAGAAATTGAAAATACCTCAGCG
95700128 TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGCAGAAATTGAAAAAC
65 TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGCAGAAATTGAAAAAC
* * * *
95700193 CTCAGCGTGT-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAA-TAAAT
130 CTCAGCGTGTACCAAGGCTCAACTCACCTCTCGCAATAAGAGTTGA-TTTTTTGAAAAACAAAAA
* * * * *
95700256 TTGAAAATATCTCAGCGTGTCCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
194 TTGAAAACACCTCAGCATG---TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
* *
95700321 AACAAAAATTGAAATTACTTCAGCGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTT
256 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
* *
95700386 TTTTTGAAACATAAATTAAAAAAAACGAAAATTGAAATACCTCAGCGGTTCTGAGGCTCAACTCA
320 TTTTTGAAACATAAATTAAAAAAAAC----ACTGAAATA-CTCAGC-G-TCTGAAGCTCAACTCA
** *
95700451 CCTCTCGCAATAAGTTGATTTGAAAAGCAGAATTTGTTAAGGCAAAATTGAAAAACAAAAATTGA
378 CCTCTCGCAATAAGTTGATTT---AAGCAGAA--T-TTAAAACAAAATTGAAAAACAAAAATGGA
* *
95700516 AAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTGAAAAAGAA
437 AAACACCTCAGCGT-CCCTGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTTGAAAAAGAA
** * *
95700581 ATTAAAGCAGAAATTGAAAAACAGAAATTAAAATACCTCGGCGTGCCCGAGG
501 ATTAAAAAAGAAATTGAAAAACAGAAATTAAAAGACCTCGGCGTGCCCGAGA
* * *
95700633 CTCAGCTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGCATAAATTGAAATTACCTCAGCGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATACCTCAGCGT
*
95700697 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCA-AAATTGAAAAA
66 GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAGCAGAAATTGAAAAA
95700760 ACGAAATTAA
Statistics
Matches: 605, Mismatches: 55, Indels: 80
0.82 0.07 0.11
Matches are distributed among these distances:
555 38 0.06
556 1 0.00
557 21 0.03
558 9 0.01
559 6 0.01
560 1 0.00
564 1 0.00
565 55 0.09
566 12 0.02
567 2 0.00
568 144 0.24
569 11 0.02
570 55 0.09
571 12 0.02
572 58 0.10
573 21 0.03
574 73 0.12
575 2 0.00
576 6 0.01
577 1 0.00
578 14 0.02
579 30 0.05
581 30 0.05
582 2 0.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (552 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATACCTCAGCGT
GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGCAGAAATTGAAAAACC
TCAGCGTGTACCAAGGCTCAACTCACCTCTCGCAATAAGAGTTGATTTTTTGAAAAACAAAAATT
GAAAACACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAA
AAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
AAACATAAATTAAAAAAAACACTGAAATACTCAGCGTCTGAAGCTCAACTCACCTCTCGCAATAA
GTTGATTTAAGCAGAATTTAAAACAAAATTGAAAAACAAAAATGGAAAACACCTCAGCGTCCCTG
AGGCTCAACTCACCTCTTGCAATATGAGCTGATTTTGAAAAAGAAATTAAAAAAGAAATTGAAAA
ACAGAAATTAAAAGACCTCGGCGTGCCCGAGA
Found at i:95700344 original size:73 final size:73
Alignment explanation
Indices: 95700063--95700388 Score: 466
Period size: 71 Copynumber: 4.5 Consensus size: 73
95700053 TGGCCCGAGA
*
95700063 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGAAAA-CAAAAATTGAAAATACCTCAGCG
*
95700128 TGTCCCGAGG
64 TGTCCTGAGG
* *
95700138 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGCAGAAATTGAAAA-ACCTCAGCGTG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAAATTGAAAATACCTCAGCGTG
95700202 TCC-GAGG
66 TCCTGAGG
* *
95700209 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA-ATAAATTTGAAAATATCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACA-AAAATTGAAAATACCTCAGCG
95700273 TGTCCTGAGG
64 TGTCCTGAGG
* * *
95700283 CTGAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAAAAATTGAAATTACTTCAGC--
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACAAAAATTGAAAATACCTCAGCGT
*
95700345 GTCTTGAGG
65 GTCCTGAGG
*
95700354 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
95700389 TTGAAACATA
Statistics
Matches: 231, Mismatches: 13, Indels: 17
0.89 0.05 0.07
Matches are distributed among these distances:
71 69 0.30
72 45 0.19
73 45 0.19
74 41 0.18
75 31 0.13
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (73 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAAATTGAAAATACCTCAGCGTG
TCCTGAGG
Found at i:95700449 original size:484 final size:478
Alignment explanation
Indices: 95699523--95700753 Score: 1257
Period size: 484 Copynumber: 2.5 Consensus size: 478
95699513 GTTGATTTTT
* * * *
95699523 TTGAAAAACAGAAGTTGAAAACACCTCAGCGTGTGACCCGAGGCTTAACTCACCACTCGCAATAT
1 TTGAAAAACAGAAATTGAAAACACCTCA-CGTGTGGCCCGAGGCTCAACTCACCTCTCGCAATAT
* *
95699588 GAGTTGATTTTTTTGACAAA-CAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTC
65 GAGTTGA-TTTTTTGACAAAGCAGAAATTG-AAAATACCTCAGCGTGT--CCCGAGGCTCAACTC
* * *
95699652 ACCTCTCGCAATAAGAGTTGATTTTTTGAAAAACAAAAATTGAAAACACCTCAGCATGT--GAGG
126 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAAAAATTGAAAA-ACCTCAGCGTGTCCGAGG
95699715 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACATAAATTGAGCAGAAATTGAAAA
190 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACATAAATT--------ATTGAAAA
* ** *
95699779 TACCTCAACGGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGATAAAT
246 TACCTCAACGGGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACAAAAAT
* *
95699844 TGAAAATACCTCAATGTGACTTGAAGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAT
311 TGAAAATACCTCAATGCGACTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT--AT
* * * *
95699909 TAAAACAGAAATTGAAAATAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTTTCG
374 TAAAACAGAAATTAAAAAAAGAAATGGAAAACACCTCAGCGTCTTGAGGCTCAACTCACCTCTCG
*
95699974 CAATATGAGCTGATTTTTTTGAAACA-CATAAATTAAAAAAAAAGAAA
439 CAATA--AGCTGA----TTTGAAA-AGCAGAAATTAAAAAAAAA-AAA
* ** *
95700021 TT-AAAAACAGAATTTGAAAGGACCTCGACGTGTGGCCCGAGACTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAACACCTC-ACGTGTGGCCCGAGGCTCAACTCACCTCTCGCAATAT
95700085 GAGTTGATTCTTTTGA-AAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACC
65 GAGTTGATT-TTTTGACAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACC
*
95700149 TCTCGCAATATGAGTTGATTTTTTG-AAAGCAGAAATTGAAAAACCTCAGCGTGTCCGAGGCTCA
129 TCTCGCAATATGAGTTGATTTTTTGAAAAGCAAAAATTGAAAAACCTCAGCGTGTCCGAGGCTCA
* * *
95700213 ACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA-ATAAA-T-TTGAAAATATCTCAGCGTG
194 ACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACATAAATTATTGAAAATACCTCAACGGG
* *
95700275 TCCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAAAAATTGAAATTAC
258 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG---AACAAAAATTGAAAATAC
* * * * * *
95700339 TTC-A-GCGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTT-TTGAAACATAAA
320 CTCAATGCGACTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTATTAAAACAGAAA
* *
95700401 TTAAAAAAAACGAAAATTG-AAATACCTCAGCGGT-TCTGAGGCTCAACTCACCTCTCGCAATAA
385 TT-AAAAAAA-G-AAATGGAAAACACCTCAGC-GTCT-TGAGGCTCAACTCACCTCTCGCAATAA
* * *** ***
95700464 GTTGATTTGAAAAGCAGAATTTGTTAAGGCAAAA
445 GCTGATTTGAAAAGCAGAAATTAAAAAAAAAAAA
* * * *
95700498 TTGAAAAACAAAAATTGAAAATACCTCA-GCGT-GCCCTGAGGCTCAACTCACCTCTTGCAATAT
1 TTGAAAAACAGAAATTGAAAACACCTCACGTGTGGCCC-GAGGCTCAACTCACCTCTCGCAATAT
* *
95700561 GAGTTGATTTTGAAAAAGAAATTAAAGCAGAAATTGAAAAACAGAAATT-AAAATACCTCGGCGT
65 GAGTTGATTTT----------TT---G-ACAAA--G-----CAGAAATTGAAAATACCTCAGCGT
* * *
95700625 G-CCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGCATAAATTGAAATTA
109 GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAAAAATTGAAA-AA
95700688 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCA-AAA
173 CCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA-CATAAA
95700752 TT
236 TT
95700754 GAAAAAACGA
Statistics
Matches: 631, Mismatches: 56, Indels: 92
0.81 0.07 0.12
Matches are distributed among these distances:
475 6 0.01
476 36 0.06
477 7 0.01
478 36 0.06
481 12 0.02
482 10 0.02
483 19 0.03
484 123 0.19
485 3 0.00
486 16 0.03
488 1 0.00
489 1 0.00
490 3 0.00
492 12 0.02
493 16 0.03
494 84 0.13
495 54 0.09
496 68 0.11
497 119 0.19
498 5 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (478 bp):
TTGAAAAACAGAAATTGAAAACACCTCACGTGTGGCCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTGACAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTC
TCGCAATATGAGTTGATTTTTTGAAAAGCAAAAATTGAAAAACCTCAGCGTGTCCGAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTTGAAAACATAAATTATTGAAAATACCTCAACGGGTCC
TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACAAAAATTGAAAATACCTCAAT
GCGACTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTATTAAAACAGAAATTAAAA
AAAGAAATGGAAAACACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATAAGCTGATTTGAA
AAGCAGAAATTAAAAAAAAAAAA
Found at i:95700607 original size:14 final size:13
Alignment explanation
Indices: 95700573--95700613 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
95700563 GTTGATTTTG
95700573 AAAA-AGAAATT-
1 AAAACAGAAATTA
*
95700584 AAAGCAGAAATTGA
1 AAAACAGAAATT-A
95700598 AAAACAGAAATTA
1 AAAACAGAAATTA
95700611 AAA
1 AAA
95700614 TACCTCGGCG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 3 0.12
12 7 0.28
13 4 0.16
14 11 0.44
ACGTcount: A:0.68, C:0.05, G:0.12, T:0.15
Consensus pattern (13 bp):
AAAACAGAAATTA
Found at i:95700672 original size:94 final size:97
Alignment explanation
Indices: 95700406--95700674 Score: 349
Period size: 95 Copynumber: 2.8 Consensus size: 97
95700396 ATAAATTAAA
* **
95700406 AAAAACGAAAATTG-AAATACCTCAGCG-GTTCTGAGGCTCAACTCACCTCTCGCAATA--AGTT
1 AAAAACAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
95700467 GA-TTTGAAAAGCAGAATTTGTTAAGGCAAAATTG
66 GATTTTGAAAAGCAGAA--T-TTAAAGCAAAATTG
*
95700501 AAAAACAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATATGAGTT
1 AAAAACAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
95700566 GATTTTGAAAA--AGAAATTAAAGCAGAAATTG
66 GATTTTGAAAAGCAGAATTTAAAGCA-AAATTG
* * *
95700597 AAAAACAGAAATT-AAAATACCTCGGCGTGCCC-GAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
95700660 GATTTTTGAAAAGCA
66 GA-TTTTGAAAAGCA
95700675 TAAATTGAAA
Statistics
Matches: 155, Mismatches: 10, Indels: 16
0.86 0.06 0.09
Matches are distributed among these distances:
94 31 0.20
95 47 0.30
96 31 0.20
97 28 0.18
98 4 0.03
99 6 0.04
100 8 0.05
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.24
Consensus pattern (97 bp):
AAAAACAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTGAAAAGCAGAATTTAAAGCAAAATTG
Done.