Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 141 of 332
Found at i:46194170 original size:100 final size:100
Alignment explanation
Indices: 46193997--46194180 Score: 332
Period size: 100 Copynumber: 1.8 Consensus size: 100
46193987 GTGAGGTCAT
*
46193997 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
*
46194062 GTAGGCTACTATGCATACCCAAAAATTGTGATCAC
66 GCAGGCTACTATGCATACCCAAAAATTGTGATCAC
*
46194097 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
*
46194162 GCAGGCTACTATGCGTACC
66 GCAGGCTACTATGCATACC
46194181 AGATAACTTC
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (100 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
GCAGGCTACTATGCATACCCAAAAATTGTGATCAC
Found at i:46197208 original size:15 final size:15
Alignment explanation
Indices: 46197188--46197252 Score: 66
Period size: 15 Copynumber: 4.4 Consensus size: 15
46197178 GTATCTTGGG
46197188 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
46197203 TTTCTTTATTCTAGG-
1 TTTCTTTATTCT-GGA
46197218 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
46197233 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
46197247 TTTCTT
1 TTTCTT
46197253 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
14 14 0.33
15 23 0.53
16 6 0.14
ACGTcount: A:0.11, C:0.14, G:0.12, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:46199464 original size:49 final size:49
Alignment explanation
Indices: 46199385--46199579 Score: 259
Period size: 49 Copynumber: 4.0 Consensus size: 49
46199375 ACTATTGTGA
* *
46199385 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
46199434 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
46199483 GTGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATT
1 G-G-TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
46199534 GGTCACATGTGTAGTACTAAGTGCGGGCTACTA--TGCTACCAGATAA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTG-TACCAGATAA
46199580 CTTCGGCTAC
Statistics
Matches: 127, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
47 2 0.02
48 9 0.07
49 73 0.57
50 2 0.02
51 41 0.32
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:46199563 original size:100 final size:100
Alignment explanation
Indices: 46199378--46199573 Score: 331
Period size: 100 Copynumber: 1.9 Consensus size: 100
46199368 CAAATGAACT
* *
46199378 ATTGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATG
1 ATTGTGA-GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATG
46199443 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAA
65 TGTAGTACTAAGTGCAGGCTACTATGC-TACCCGAAA
*
46199480 ATTGTGA-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCACATGT
1 ATTGTGAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGT
*
46199544 GTAGTACTAAGTGCGGGCTACTATGCTACC
66 GTAGTACTAAGTGCAGGCTACTATGCTACC
46199574 AGATAACTTC
Statistics
Matches: 90, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
99 4 0.04
100 79 0.88
102 7 0.08
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
ATTGTGAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGT
GTAGTACTAAGTGCAGGCTACTATGCTACCCGAAA
Found at i:46204806 original size:58 final size:57
Alignment explanation
Indices: 46204744--46204867 Score: 151
Period size: 57 Copynumber: 2.2 Consensus size: 57
46204734 GCTCGTACGG
* * * *
46204744 GTAATCCTGATATAATCCC-TCTCGAGCATATGTTACAAATAGGATTTAGCCTGGACTA
1 GTAATCCTGAT-TAAGCCCTTCT-GAGCATACGTTACAAAAAGGATTTAGCCTGGAATA
* * * *
46204802 GTAATCCTAATTGAGCTCTTCTGAGCATACGTTACAAAAAGGATTTAGCCTGGAATG
1 GTAATCCTGATTAAGCCCTTCTGAGCATACGTTACAAAAAGGATTTAGCCTGGAATA
46204859 GTAATCCTG
1 GTAATCCTG
46204868 TAATACAATA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
57 43 0.77
58 13 0.23
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (57 bp):
GTAATCCTGATTAAGCCCTTCTGAGCATACGTTACAAAAAGGATTTAGCCTGGAATA
Found at i:46207416 original size:46 final size:46
Alignment explanation
Indices: 46207359--46207571 Score: 202
Period size: 46 Copynumber: 4.6 Consensus size: 46
46207349 TTATTTGTGT
* * *
46207359 GCCAGTGTAAGACATGTCTGGGATATACATTGGCCAC-ATTATG-AGA
1 GCCAGTGTAAGACATGTCTGGGACATACATCGGCCACGA-GATGTA-A
* * *
46207405 GCCGGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAA
1 GCCAGTGTAAGACATGTCTGGGACATACATCGGCCACGAGATGTAA
* *
46207451 GCCAGTGTAAGACATGTCTGGGGCATGCATCGGCCACGAGATGT--
1 GCCAGTGTAAGACATGTCTGGGACATACATCGGCCACGAGATGTAA
* * * *
46207495 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGGATATGTAAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-ACATCGGCCAC-GAGATGT-A-A
*
46207545 GCTAGTGTAAGACCATGTCTGGGACAT
1 GCCAGTGTAAGA-CATGTCTGGGACAT
46207572 GGCATCGACT
Statistics
Matches: 143, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
44 11 0.08
45 16 0.11
46 89 0.62
47 2 0.01
50 25 0.17
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATACATCGGCCACGAGATGTAA
Found at i:46207552 original size:50 final size:48
Alignment explanation
Indices: 46207409--46207628 Score: 214
Period size: 46 Copynumber: 4.7 Consensus size: 48
46207399 ATGAGAGCCG
*
46207409 GTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGATGTA-AGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCACT-GAGATGTAGAG-CA
* * *
46207455 GTGTAAGA-CATGTCTGGGGCAT-GCATCGGCCAC-GAGATGT-G-TCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAG-CACTGAGATGTAGAGCA
* *
46207499 GTGTAAGACCATGTCTGGGACATGGCATCAGCACGGATATGTAAGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCACTGAGATGT-AGAGC-A
46207549 GTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGATGGATG-AGA-CA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCAC-TGA--GATGTAGAGCA
*
46207596 GTGTAAGACCATGTTTGGGACATGGCATCAGCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCA
46207629 TTATACCCTA
Statistics
Matches: 150, Mismatches: 9, Indels: 27
0.81 0.05 0.15
Matches are distributed among these distances:
44 10 0.07
45 16 0.11
46 47 0.31
47 30 0.20
48 6 0.04
49 8 0.05
50 30 0.20
51 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCAGCACTGAGATGTAGAGCA
Found at i:46207608 original size:97 final size:93
Alignment explanation
Indices: 46207359--46207628 Score: 264
Period size: 92 Copynumber: 2.9 Consensus size: 93
46207349 TTATTTGTGT
* * * * * *
46207359 GCCAGTGTAAGACATGTCTGGGATATACATTGGCCAC-ATTATGAGAGCCGGTGTAAGA-CATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCACGA-GATGAGA--CAGTGTAAGACCATGT
*
46207422 CTGGGACAT-GCATCGGC-CTCGAGATGTAA
63 CTGGGACATGGCATCAGCACTCGAGATGTAA
* * * *
46207451 GCCAGTGTAAGACATGTCTGGGGCATGCATCGGCCACGAGATGTGTCAGTGTAAGACCATGTCTG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCACGAGATGAGACAGTGTAAGACCATGTCTG
* *
46207516 GGACATGGCATCAGCAC-GGATATGTAAGA
66 GGACATGGCATCAGCACTCGAGATGT-A-A
* **
46207545 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTTGATGGATGAGACAGTGTAAGACCATG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCACGA--GATGAGACAGTGTAAGACCATG
*
46207609 TTTGGGACATGGCATCAGCA
62 TCTGGGACATGGCATCAGCA
46207629 TTATACCCTA
Statistics
Matches: 149, Mismatches: 19, Indels: 15
0.81 0.10 0.08
Matches are distributed among these distances:
90 9 0.06
91 14 0.09
92 50 0.34
93 3 0.02
94 12 0.08
95 16 0.11
96 6 0.04
97 39 0.26
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (93 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGACCACGAGATGAGACAGTGTAAGACCATGTCTG
GGACATGGCATCAGCACTCGAGATGTAA
Found at i:46213643 original size:17 final size:17
Alignment explanation
Indices: 46213623--46213664 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
46213613 ATAAATAACA
46213623 AATTTATTC-TTTCCTTT
1 AATTT-TTCATTTCCTTT
*
46213640 AATTTTTCGATTTCTTTT
1 AATTTTTC-ATTTCCTTT
46213658 AATTTTT
1 AATTTTT
46213665 AAATTTACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 5 0.23
18 14 0.64
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (17 bp):
AATTTTTCATTTCCTTT
Found at i:46213670 original size:18 final size:18
Alignment explanation
Indices: 46213632--46213670 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
46213622 AAATTTATTC
**
46213632 TTTCCTTTAATTTTTCGA
1 TTTCCTTTAATTTTTAAA
*
46213650 TTTCTTTTAATTTTTAAA
1 TTTCCTTTAATTTTTAAA
46213668 TTT
1 TTT
46213671 ACATTGTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.10, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTCCTTTAATTTTTAAA
Found at i:46213798 original size:10 final size:10
Alignment explanation
Indices: 46213785--46213827 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
46213775 TTGATTTTTT
46213785 AAAATTTAAA
1 AAAATTTAAA
46213795 AAAA-TTATAA
1 AAAATTTA-AA
46213805 AAAATTTAAA
1 AAAATTTAAA
*
46213815 AATTATTTAAA
1 AA-AATTTAAA
46213826 AA
1 AA
46213828 TTAAAATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 3 0.10
10 14 0.48
11 12 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:46213813 original size:27 final size:26
Alignment explanation
Indices: 46213782--46213862 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 26
46213772 TAATTGATTT
46213782 TTTAAAATTTAAAAAAATTATAAAAAA
1 TTTAAAATTTAAAAAAA-TATAAAAAA
** *
46213809 TTTAAAAATTATTTAAAAAT-TAAAATA
1 TTT-AAAATT-TAAAAAAATATAAAAAA
46213836 TATTAAAATTATTAAAAAAATATAAAA
1 T-TTAAAA-T-TTAAAAAAATATAAAA
46213863 TATATATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
27 14 0.33
28 17 0.40
29 12 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
TTTAAAATTTAAAAAAATATAAAAAA
Found at i:46213865 original size:27 final size:27
Alignment explanation
Indices: 46213783--46213865 Score: 82
Period size: 27 Copynumber: 3.0 Consensus size: 27
46213773 AATTGATTTT
*
46213783 TTAAAA-T-TTAAAAAAATTATAAAAAA
1 TTAAAATTATTAAAAAAA-TATAAAATA
* *
46213809 TTTAAAAATTATTTAAAAATTA-AAATATA
1 -TT-AAAATTATTAAAAAAATATAAA-ATA
46213838 TTAAAATTATTAAAAAAATATAAAATA
1 TTAAAATTATTAAAAAAATATAAAATA
46213865 T
1 T
46213866 ATATTTTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
27 22 0.48
28 12 0.26
29 5 0.11
30 7 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (27 bp):
TTAAAATTATTAAAAAAATATAAAATA
Found at i:46213869 original size:11 final size:10
Alignment explanation
Indices: 46213827--46213867 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
46213817 TTATTTAAAA
46213827 ATTAAAATAT
1 ATTAAAATAT
46213837 ATTAAAAT-T
1 ATTAAAATAT
*
46213846 ATTAAAA-AA
1 ATTAAAATAT
46213855 ATATAAAATAT
1 AT-TAAAATAT
46213866 AT
1 AT
46213868 ATTTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 10 0.38
10 13 0.50
11 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:46223023 original size:38 final size:38
Alignment explanation
Indices: 46222978--46223188 Score: 192
Period size: 38 Copynumber: 5.5 Consensus size: 38
46222968 GGCTTAAAGA
* *
46222978 CCCGCAGGCTAT-ATGCTAGAATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TCGTGCTGGAATTATATCCGGGTTAAAT
*
46223016 CCCGCAGGCTTCGCGCTGGTAA-TATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGG-AATTATATCCGGGTTAAAT
** * *
46223054 TTCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGAATTATATCCGGGTTAAAT
* * * * *
46223092 CCCGCAAGCCTAGTGCTGGTATTATATCTGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGAATTATATCCGGGTTAAAT
* * * * * *
46223130 CCCGCAAGCCTAGTGCTGGTATTATATCTGAGCTTAAAGT
1 CCCGCAGGCTTCGTGCTGGAATTATATCCG-GGTTAAA-T
* *
46223170 CCCGCAGGTTTTGTGCTGG
1 CCCGCAGGCTTCGTGCTGG
46223189 TGACTGGATT
Statistics
Matches: 150, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
37 2 0.01
38 124 0.83
39 8 0.05
40 16 0.11
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGAATTATATCCGGGTTAAAT
Found at i:46223081 original size:76 final size:76
Alignment explanation
Indices: 46222998--46223177 Score: 225
Period size: 76 Copynumber: 2.3 Consensus size: 76
46222988 ATATGCTAGA
* * * ** *
46222998 ATTATATCCGGGTTAAATCCCGCAGGCTTCGCGCTGGTAATATATCCGGGTTAAATTTCGCAGGC
1 ATTATATCTGGGTTAAATCCCGCAGGCCTAGCGCTGGTAATATATCCGGGTTAAATCCCGCAAGC
* *
46223063 TTCGTGCTGGT
66 CTAGTGCTGGT
* * * *
46223074 ATTATATCTGGGTTAAATCCCGCAAGCCTAGTGCTGGTATTATATCTGGGTTAAATCCCGCAAGC
1 ATTATATCTGGGTTAAATCCCGCAGGCCTAGCGCTGGTAATATATCCGGGTTAAATCCCGCAAGC
46223139 CTAGTGCTGGT
66 CTAGTGCTGGT
*
46223150 ATTATATCTGAGCTTAAAGTCCCGCAGG
1 ATTATATCTG-GGTTAAA-TCCCGCAGG
46223178 TTTTGTGCTG
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
76 74 0.84
77 6 0.07
78 8 0.09
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (76 bp):
ATTATATCTGGGTTAAATCCCGCAGGCCTAGCGCTGGTAATATATCCGGGTTAAATCCCGCAAGC
CTAGTGCTGGT
Found at i:46225063 original size:5 final size:5
Alignment explanation
Indices: 46225053--46225116 Score: 53
Period size: 5 Copynumber: 13.0 Consensus size: 5
46225043 GCCCTCCTAC
* * * *
46225053 TATAT TATAT TATAT TATAT TATAC TGTAT CATAT T-TAT T-TAA TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
46225101 TAATAT T-TAT ATATAT
1 T-ATAT TATAT -TATAT
46225117 GCATTAATGA
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
4 10 0.21
5 29 0.62
6 8 0.17
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:46242108 original size:32 final size:32
Alignment explanation
Indices: 46242072--46242139 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
46242062 GTAAATGTTA
46242072 GGTTTGATATGGAAAATAATGTGCATTGAAAT
1 GGTTTGATATGGAAAATAATGTGCATTGAAAT
* *
46242104 GGTTTGATATGGCAAATAATTTGCATTGAAAT
1 GGTTTGATATGGAAAATAATGTGCATTGAAAT
46242136 GGTT
1 GGTT
46242140 ATTATGATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (32 bp):
GGTTTGATATGGAAAATAATGTGCATTGAAAT
Found at i:46243844 original size:46 final size:44
Alignment explanation
Indices: 46243791--46243909 Score: 150
Period size: 46 Copynumber: 2.6 Consensus size: 44
46243781 TATGTGTGCT
*
46243791 AGTGTAAGACATGTCTGGGACATGCATCGACCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-A--ACATTGACGAGAGCC
* * *
46243837 AGTGTAAGACATGTCTGGTACATGCATCAGCATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAACATT--GACGAGAGCC
46243883 AGTGTAAGACATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
46243910 TAGCCTCGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
43 4 0.06
45 1 0.02
46 60 0.92
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAACATTGACGAGAGCC
Found at i:46244032 original size:49 final size:49
Alignment explanation
Indices: 46243974--46244145 Score: 152
Period size: 49 Copynumber: 3.5 Consensus size: 49
46243964 TGTTGAGTGT
** *
46243974 CAGTGTAAGACCTGTTTGGGACATGGCATCGACAC-CGGTAGATGAGAGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGAC-CTCAATAGATGAAAGC
* ** * * *
46244023 CAGTGTAAGACCTGTTTAGGACATAACATCGGCCTCAATATATGAAAGT
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGACCTCAATAGATGAAAGC
* * * ** **
46244072 CAGTGTAAGAACTGTCTGGGACATGGCATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGACCTCAATAGATGAAAGC
*
46244119 CAGTGTAAGACCATGTCTGGGACATGG
1 CAGTGTAAGACC-TGTTTGGGACATGG
46244146 TGCCAGCATC
Statistics
Matches: 98, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
47 15 0.15
48 15 0.15
49 68 0.69
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTTTGGGACATGGCATCGACCTCAATAGATGAAAGC
Found at i:46246562 original size:18 final size:18
Alignment explanation
Indices: 46246534--46246572 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
46246524 TTACACAGGA
46246534 GACACGCTCGTGTTTTCTC
1 GACACGCTCGTGTTTTC-C
46246553 GACA-GCTCGTGTTTTCC
1 GACACGCTCGTGTTTTCC
46246570 GAC
1 GAC
46246573 TGTGTAGCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 12 0.60
19 4 0.20
ACGTcount: A:0.13, C:0.31, G:0.23, T:0.33
Consensus pattern (18 bp):
GACACGCTCGTGTTTTCC
Found at i:46248141 original size:44 final size:44
Alignment explanation
Indices: 46248070--46248238 Score: 135
Period size: 45 Copynumber: 3.8 Consensus size: 44
46248060 CATGTATCAT
* *
46248070 ATCCATAATGAACTCGAACCAAGTCAATGAGCTCGGATGCTCGC
1 ATCCATAATGAACTCGAACCAACTCAATGAGCTCAGATGCTCGC
* *
46248114 ATCCATAATGAACTC-AGGCCAACTCAATGAGCTCAGATGC-CTC
1 ATCCATAATGAACTCGA-ACCAACTCAATGAGCTCAGATGCTCGC
* * * * * * * *
46248157 ATACATATCACGAACCCAAACCAACTCAACGAGTTCAGATTTCTCAC
1 ATCCATA--ATGAACTCGAACCAACTCAATGAGCTCAGA-TGCTCGC
** * * *
46248204 ATATATTACGAACTCGGACCAACTCAATGAGCTCA
1 ATCCATAATGAACTCGAACCAACTCAATGAGCTCA
46248239 AATTTATTAA
Statistics
Matches: 100, Mismatches: 19, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
43 9 0.09
44 35 0.35
45 46 0.46
46 3 0.03
47 7 0.07
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (44 bp):
ATCCATAATGAACTCGAACCAACTCAATGAGCTCAGATGCTCGC
Found at i:46255138 original size:15 final size:13
Alignment explanation
Indices: 46255109--46255135 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46255099 GCTCGGCAGG
46255109 GACACGCCCGTGT
1 GACACGCCCGTGT
46255122 GACACGCCCGTGT
1 GACACGCCCGTGT
46255135 G
1 G
46255136 TGATTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:46257081 original size:16 final size:16
Alignment explanation
Indices: 46257056--46257106 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
46257046 TAAAATTTCT
46257056 AAAATCTAATAAAAATA
1 AAAAT-TAATAAAAATA
***
46257073 AAAATTAATTTCAATA
1 AAAATTAATAAAAATA
*
46257089 AAAATTAA-AAACATA
1 AAAATTAATAAAAATA
46257104 AAA
1 AAA
46257107 TAAAAAATAA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 6 0.22
16 16 0.59
17 5 0.19
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATTAATAAAAATA
Found at i:46257468 original size:18 final size:18
Alignment explanation
Indices: 46257442--46257482 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
46257432 GATCATCCTC
*
46257442 ATGCAAAGCATGCTCGAG
1 ATGCCAAGCATGCTCGAG
46257460 ATGCCAAGCATGCTCGAG
1 ATGCCAAGCATGCTCGAG
46257478 ATGCC
1 ATGCC
46257483 TTGTGGAGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (18 bp):
ATGCCAAGCATGCTCGAG
Found at i:46259755 original size:19 final size:20
Alignment explanation
Indices: 46259731--46259768 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
46259721 GGTACCACCA
46259731 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
46259750 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
46259769 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:46260062 original size:46 final size:46
Alignment explanation
Indices: 46259995--46260116 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
46259985 CGCCCCTAAG
* * *
46259995 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* *
46260041 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
*
46260087 TGAACTCAGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
46260117 TGCTCAACCA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
Found at i:46260135 original size:46 final size:45
Alignment explanation
Indices: 46259993--46260135 Score: 128
Period size: 46 Copynumber: 3.1 Consensus size: 45
46259983 CCCGCCCCTA
* ** *
46259993 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
* ** **
46260038 AAATGAACTCGGACTCAACTCAACGAGTTCGGACATT-TGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
* *
46260084 AAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTC-ACCATCCT
46260131 AGTGA
1 AGTGA
46260136 CATGTCACTT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
46 77 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCCT
Found at i:46267534 original size:46 final size:46
Alignment explanation
Indices: 46267417--46267541 Score: 184
Period size: 46 Copynumber: 2.7 Consensus size: 46
46267407 AACCCGCCCC
* *
46267417 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTTCGGAATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACTTTC-GAATCCA
*
46267464 TAA--GAACTCGGACTCAACTCAACGAGTTCGGACATTT-GCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-TTTCGAATCCA
46267508 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
46267542 TGCTCAACCA
Statistics
Matches: 72, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
44 9 0.12
45 28 0.39
46 32 0.44
47 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACTTTCGAATCCA
Found at i:46272630 original size:40 final size:40
Alignment explanation
Indices: 46272586--46272813 Score: 334
Period size: 40 Copynumber: 5.7 Consensus size: 40
46272576 GCTACTTGCT
*
46272586 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
46272626 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
46272666 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
46272706 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
46272746 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
46272785 CAAATGCCTTCCGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
46272814 CATCCGAATA
Statistics
Matches: 172, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 32 0.19
40 138 0.80
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:46285446 original size:28 final size:28
Alignment explanation
Indices: 46285414--46285478 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
46285404 ATTTACTAGA
*
46285414 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
46285442 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
46285470 ATACCCCTA
1 ATACCCCTA
46285479 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:46285685 original size:29 final size:28
Alignment explanation
Indices: 46285584--46285674 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
46285574 AGGAAGCGTC
46285584 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
46285612 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
* *
46285640 CTGGTGGCACTGCCACAAAATATCTATAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
46285669 CTGGTG
1 CTGGTG
46285675 ACTCTGTCAC
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
28 50 0.88
29 7 0.12
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:46286161 original size:19 final size:19
Alignment explanation
Indices: 46286137--46286175 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
46286127 TTTTAATTAT
* *
46286137 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTCTTTTAC
46286156 TTTTATGATTTTCTTTTAC
1 TTTTATGATTTTCTTTTAC
46286175 T
1 T
46286176 ATGATGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.13, C:0.08, G:0.10, T:0.69
Consensus pattern (19 bp):
TTTTATGATTTTCTTTTAC
Found at i:46287287 original size:40 final size:41
Alignment explanation
Indices: 46287243--46287324 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
46287233 GTTATAAATA
**
46287243 GCACTAAGTGTACGAAATGGA-ATAGCTTTGGTTATATGAG
1 GCACTAAGTGTACGAAACCGAGATAGCTTTGGTTATATGAG
* * *
46287283 GCACTAAGTGTGCGATACCGAGATAGCTTTGGTTATTTGAG
1 GCACTAAGTGTACGAAACCGAGATAGCTTTGGTTATATGAG
46287324 G
1 G
46287325 TGGCACTAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 17 0.47
41 19 0.53
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.30
Consensus pattern (41 bp):
GCACTAAGTGTACGAAACCGAGATAGCTTTGGTTATATGAG
Found at i:46289904 original size:39 final size:39
Alignment explanation
Indices: 46289860--46289980 Score: 206
Period size: 39 Copynumber: 3.1 Consensus size: 39
46289850 AATTATATTA
* *
46289860 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
46289899 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
46289938 CCAGCACGAAGCCTGTGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
46289977 CCAG
1 CCAG
46289981 TGTCTTGCTT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:46301585 original size:42 final size:41
Alignment explanation
Indices: 46301485--46301638 Score: 121
Period size: 43 Copynumber: 3.6 Consensus size: 41
46301475 CAATGCCAAC
* * *
46301485 GTCCCAGACGTGGTCTTACATGAAAACAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATCAAATA-CGATGCCA-T
* * * *
46301528 ATCCTAAACAGGGTCTTACACGAAATCAAATACGATGCCGAT
1 GTCCCAGACATGGTCTTACACGAAATCAAATACGATGCC-AT
* *
46301570 GTCCCAGACATGGTCTTACTCGTAAATCATAAGT-CGATGTCAAT
1 GTCCCAGACATGGTCTTACACG-AAATCA-AA-TACGATG-CCAT
* * * *
46301614 GTCCTAGAAAAGGTCTTACATGAAA
1 GTCCCAGACATGGTCTTACACGAAA
46301639 ACACATATCG
Statistics
Matches: 88, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
42 25 0.28
43 35 0.40
44 26 0.30
45 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (41 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATACGATGCCAT
Found at i:46305027 original size:24 final size:25
Alignment explanation
Indices: 46304990--46305057 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 25
46304980 AGACTCACCG
* * *
46304990 CAGCTCGTATGAGATTGCTGTT-TT
1 CAGCTTGTAAGAGATTACTGTTCTT
46305014 CAGCTTGTAAGAGATTACTGTTCTT
1 CAGCTTGTAAGAGATTACTGTTCTT
* *
46305039 -AGCTTGTATGAGCTTACTG
1 CAGCTTGTAAGAGATTACTG
46305058 CTCAGCTCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
24 36 0.95
25 2 0.05
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.40
Consensus pattern (25 bp):
CAGCTTGTAAGAGATTACTGTTCTT
Found at i:46306784 original size:28 final size:27
Alignment explanation
Indices: 46306718--46306796 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
46306708 ATATATACTG
* *
46306718 CACATAGGGGAAAAACAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATCTTAC
* *
46306745 CACATAAGGGCAAAACAGTCATTTTTC
1 CACATAAGGGCAAAACAGTCATCTTAC
*
46306772 CACATAATGGGCAAAACAGTTATCT
1 CACATAA-GGGCAAAACAGTCATCT
46306797 CGGGCGACCC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
27 30 0.67
28 15 0.33
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATCTTAC
Found at i:46309007 original size:29 final size:29
Alignment explanation
Indices: 46308964--46309061 Score: 134
Period size: 27 Copynumber: 3.5 Consensus size: 29
46308954 ATATATACTG
* *
46308964 CACATAAGGGCAAAAAATAGTAATTTTAC
1 CACATAAGGGTAAAAAATAGTCATTTTAC
46308993 CACATAAGGGT--AAAATAGTCATTTTAC
1 CACATAAGGGTAAAAAATAGTCATTTTAC
46309020 CACATAAGGG-AAAAACA-A-TCATTTTAC
1 CACATAAGGGTAAAAA-ATAGTCATTTTAC
46309047 CACATAAGGGTAAAA
1 CACATAAGGGTAAAA
46309062 CAGTTATTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
27 44 0.70
28 8 0.13
29 11 0.17
ACGTcount: A:0.47, C:0.15, G:0.14, T:0.23
Consensus pattern (29 bp):
CACATAAGGGTAAAAAATAGTCATTTTAC
Found at i:46309044 original size:54 final size:56
Alignment explanation
Indices: 46308964--46309075 Score: 167
Period size: 54 Copynumber: 2.0 Consensus size: 56
46308954 ATATATACTG
*
46308964 CACATAAGGGCAAAAAATAGTAATTTTACCACATAAGGGTAAAATAGTCATTTTAC
1 CACATAAGGGCAAAAAATAGTAATTTTACCACATAAGGGTAAAACAGTCATTTTAC
* *
46309020 CACATAAGGG-AAAAACA-A-TCATTTTACCACATAAGGGTAAAACAGTTATTTTAC
1 CACATAAGGGCAAAAA-ATAGTAATTTTACCACATAAGGGTAAAACAGTCATTTTAC
46309074 CA
1 CA
46309076 TTTAGGGGTC
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
54 35 0.67
55 6 0.12
56 11 0.21
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (56 bp):
CACATAAGGGCAAAAAATAGTAATTTTACCACATAAGGGTAAAACAGTCATTTTAC
Found at i:46309084 original size:27 final size:27
Alignment explanation
Indices: 46308977--46309075 Score: 144
Period size: 27 Copynumber: 3.7 Consensus size: 27
46308967 ATAAGGGCAA
* *
46308977 AAAATAGTAATTTTACCACATAAGGGT
1 AAAACAGTCATTTTACCACATAAGGGT
* *
46309004 AAAATAGTCATTTTACCACATAAGGGA
1 AAAACAGTCATTTTACCACATAAGGGT
*
46309031 AAAACAATCATTTTACCACATAAGGGT
1 AAAACAGTCATTTTACCACATAAGGGT
*
46309058 AAAACAGTTATTTTACCA
1 AAAACAGTCATTTTACCA
46309076 TTTAGGGGTC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.28
Consensus pattern (27 bp):
AAAACAGTCATTTTACCACATAAGGGT
Found at i:46317808 original size:47 final size:45
Alignment explanation
Indices: 46317597--46317864 Score: 181
Period size: 47 Copynumber: 5.8 Consensus size: 45
46317587 GGGTGATTTG
* * *
46317597 TGTGCCAGTGTAAGACATGTCTGGGACATGCTTCGGCTGCACTATGAGA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCAT---CAGC-CTAAGAGA
* * * * *
46317646 ---GCCAGTATAAGACCATGTCCGGGACATGGCATC-GTCATCCAGACA
1 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CCT-AAGAGA
* * * * * **
46317691 AGGGCTAGTGTAAGACATGTCTGGGACATGCTTTAGCCATATTATGA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCC-TAAGA-GA
* *
46317738 -GTGCCAGGGTAAGACATGTCTGGGACATACATCAGCCTCAACAGAGA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCT--A-AGAGA
* * *
46317785 TG-GCCAGTGTAAGACGTGTCTGGGACACGCATCAG-CTAAGAGT
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTAAGAGA
*
46317828 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGC
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGC
46317865 ACGCATATAT
Statistics
Matches: 170, Mismatches: 33, Indels: 36
0.71 0.14 0.15
Matches are distributed among these distances:
43 6 0.04
44 33 0.19
45 6 0.04
46 49 0.29
47 61 0.36
48 15 0.09
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (45 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTAAGAGA
Found at i:46321746 original size:284 final size:284
Alignment explanation
Indices: 46321236--46321806 Score: 1106
Period size: 284 Copynumber: 2.0 Consensus size: 284
46321226 CAAAATATGG
46321236 ACAACTAATTTGATTTAGTCCAAGATCTTGCTCTTTCCCCGGTTTAGGCCCGAACTCCGTTTTTC
1 ACAACTAATTTGATTTAGTCCAAGATCTTGCTCTTTCCCCGGTTTAGGCCCGAACTCCGTTTTTC
46321301 TTGATCTATAATAGCAAATTTCACTTATTTAATTATCACATTATTCAAAACAGCTCATAAACCAT
66 TTGATCTATAATAGCAAATTTCACTTATTTAATTATCACATTATTCAAAACAGCTCATAAACCAT
46321366 ATTTTGGCAAAATTACAAATTTTCTCCCAAAGTTTCACATAATTACAATTTAGTCCCTAGGCTTG
131 ATTTTGGCAAAATTACAAATTTTCTCCCAAAGTTTCACATAATTACAATTTAGTCCCTAGGCTTG
46321431 TAAAATGATTTTCATCAAATTTCCTCACTACTCAACCCTAGCCGAGCCTTTATTAAAATTATACC
196 TAAAATGATTTTCATCAAATTTCCTCACTACTCAACCCTAGCCGAGCCTTTATTAAAATTATACC
46321496 AACTCACAATTTCAGTTATTCTAC
261 AACTCACAATTTCAGTTATTCTAC
*
46321520 ACAACTAATTTGATTTAGTCCAAGATCTTGCTCTTTCCCCGGTTTAGGCTCGAACTCCGTTTTTC
1 ACAACTAATTTGATTTAGTCCAAGATCTTGCTCTTTCCCCGGTTTAGGCCCGAACTCCGTTTTTC
46321585 TTGATCTATAATAGCAAATTTCACTTATTTAATTATCACATTATTCAAAACAGCTCATAAACCAT
66 TTGATCTATAATAGCAAATTTCACTTATTTAATTATCACATTATTCAAAACAGCTCATAAACCAT
* *
46321650 ATTTTGGCAAAATTACAAATTTTTTCCCAAATTTTCACATAATTACAATTTAGTCCCTAGGCTTG
131 ATTTTGGCAAAATTACAAATTTTCTCCCAAAGTTTCACATAATTACAATTTAGTCCCTAGGCTTG
*
46321715 TAAAATGATTTTCATCAAATTTCCTCACTACTCAACCCTAGCCGAGCTTTTATTAAAATTATACC
196 TAAAATGATTTTCATCAAATTTCCTCACTACTCAACCCTAGCCGAGCCTTTATTAAAATTATACC
46321780 AACTCACAATTTCAGTTATTCTAC
261 AACTCACAATTTCAGTTATTCTAC
46321804 ACA
1 ACA
46321807 TTCACCACCT
Statistics
Matches: 283, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
284 283 1.00
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.37
Consensus pattern (284 bp):
ACAACTAATTTGATTTAGTCCAAGATCTTGCTCTTTCCCCGGTTTAGGCCCGAACTCCGTTTTTC
TTGATCTATAATAGCAAATTTCACTTATTTAATTATCACATTATTCAAAACAGCTCATAAACCAT
ATTTTGGCAAAATTACAAATTTTCTCCCAAAGTTTCACATAATTACAATTTAGTCCCTAGGCTTG
TAAAATGATTTTCATCAAATTTCCTCACTACTCAACCCTAGCCGAGCCTTTATTAAAATTATACC
AACTCACAATTTCAGTTATTCTAC
Found at i:46323172 original size:23 final size:23
Alignment explanation
Indices: 46323142--46323190 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
46323132 TGTAACACCC
46323142 TTTACAGATGTTGGAGGTGGGAT
1 TTTACAGATGTTGGAGGTGGGAT
46323165 TTTACAGATGTTGGAGGTGGGAT
1 TTTACAGATGTTGGAGGTGGGAT
46323188 TTT
1 TTT
46323191 CTCAATAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.04, G:0.37, T:0.39
Consensus pattern (23 bp):
TTTACAGATGTTGGAGGTGGGAT
Found at i:46333897 original size:43 final size:42
Alignment explanation
Indices: 46333847--46334018 Score: 179
Period size: 43 Copynumber: 4.0 Consensus size: 42
46333837 ATAGGATTTC
* * *
46333847 CGATATATGTTCTCGTGTAAGACCACATCTGGGACATTGGCAT
1 CGATATATGAT-TCATGTAAGACCACGTCTGGGACATTGGCAT
* *
46333890 CGATATATGTGATTACGTGTAAGACCATGTCTGGGACATCT-GCAT
1 CGATATA--TGATT-CATGTAAGACCACGTCTGGGACAT-TGGCAT
* *
46333935 CG-TATTTGATTCATGTAAGACC-CTGTCTGGGACAGTGGCAT
1 CGATATATGATTCATGTAAGACCAC-GTCTGGGACATTGGCAT
* *
46333976 CGATATGTGATAGCATGTAAGACCACGTCTGGGACATTGGCAT
1 CGATATATGAT-TCATGTAAGACCACGTCTGGGACATTGGCAT
46334019 TGTACGATAT
Statistics
Matches: 110, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
40 1 0.01
41 26 0.24
42 12 0.11
43 34 0.31
44 5 0.05
45 31 0.28
46 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (42 bp):
CGATATATGATTCATGTAAGACCACGTCTGGGACATTGGCAT
Found at i:46333964 original size:41 final size:41
Alignment explanation
Indices: 46333874--46334014 Score: 151
Period size: 41 Copynumber: 3.3 Consensus size: 41
46333864 TAAGACCACA
* *
46333874 TCTGGGACATTGGCATCGATATATGTGATTACGTGTAAGACCATG
1 TCTGGGACATT-GCATCGATAT-T-TGATT-CATGTAAGACCCTG
46333919 TCTGGGACATCTGCATCG-TATTTGATTCATGTAAGACCCTG
1 TCTGGGACAT-TGCATCGATATTTGATTCATGTAAGACCCTG
* * *
46333960 TCTGGGACAGTGGCATCGATATGTGATAGCATGTAAGACCAC-G
1 TCTGGGACA-TTGCATCGATATTTGAT-TCATGTAAGACC-CTG
46334003 TCTGGGACATTG
1 TCTGGGACATTG
46334015 GCATTGTACG
Statistics
Matches: 85, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
41 27 0.32
42 15 0.18
43 22 0.26
44 4 0.05
45 16 0.19
46 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (41 bp):
TCTGGGACATTGCATCGATATTTGATTCATGTAAGACCCTG
Found at i:46336984 original size:45 final size:46
Alignment explanation
Indices: 46336880--46337008 Score: 206
Period size: 45 Copynumber: 2.8 Consensus size: 46
46336870 TGTAACCCGC
* * **
46336880 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGAATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATCATCGCAT
*
46336926 CCATAAGTGAACTCGGGCTCAACTCAACGAGCTCGGA-CATCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATCATCGCAT
46336971 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT
46337009 GCCCAAATAT
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
45 42 0.55
46 34 0.45
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATCATCGCAT
Found at i:46344306 original size:26 final size:26
Alignment explanation
Indices: 46344271--46344321 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
46344261 TTTATAGGTG
* *
46344271 GAAATTTTACAGATTTACCCCTAGGA
1 GAAATATTACAGATATACCCCTAGGA
*
46344297 GAAATATTACTGATATACCCCTAGG
1 GAAATATTACAGATATACCCCTAGG
46344322 GTTAAGGTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (26 bp):
GAAATATTACAGATATACCCCTAGGA
Found at i:46344375 original size:30 final size:30
Alignment explanation
Indices: 46344341--46344441 Score: 73
Period size: 30 Copynumber: 3.2 Consensus size: 30
46344331 GACCTGAATG
46344341 CATGTTTGACTGTTACTATTTACTGCATGC
1 CATGTTTGACTGTTACTATTTACTGCATGC
* * *
46344371 CATG-TT-ATTATTATCTGATAAGGTTGACCTGAATG-
1 CATGTTTGACTGTTA-CT-AT----TT-A-CTGCATGC
*
46344406 CATATTTGACTGTTACTATTTACTGCATGC
1 CATGTTTGACTGTTACTATTTACTGCATGC
46344436 CATGTT
1 CATGTT
46344442 ATTATTATCT
Statistics
Matches: 52, Mismatches: 8, Indels: 22
0.63 0.10 0.27
Matches are distributed among these distances:
28 5 0.10
29 10 0.19
30 12 0.23
31 2 0.04
34 2 0.04
35 6 0.12
36 10 0.19
37 5 0.10
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.43
Consensus pattern (30 bp):
CATGTTTGACTGTTACTATTTACTGCATGC
Found at i:46344428 original size:65 final size:65
Alignment explanation
Indices: 46344324--46344451 Score: 247
Period size: 65 Copynumber: 2.0 Consensus size: 65
46344314 CCCCTAGGGT
*
46344324 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATATTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
46344389 TAAGGTTGACCTGAATGCATATTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCT
1 TAAGGTTGACCTGAATGCATATTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCT
46344452 AATGCATGGG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATATTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
Found at i:46345861 original size:34 final size:35
Alignment explanation
Indices: 46345810--46345881 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 35
46345800 ATTCTGTAGT
* *
46345810 TAGGGTAATACTGAAACTGTAGGA-ACTGAGACAG
1 TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
* *
46345844 TAGGG-AAAACTGAAAACTTTAGAAGACTGAGACTG
1 TAGGGTAAAACTG-AAACTGTAGAAGACTGAGACAG
46345879 TAG
1 TAG
46345882 CTAGGATACG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 6 0.19
34 14 0.44
35 12 0.38
ACGTcount: A:0.40, C:0.11, G:0.28, T:0.21
Consensus pattern (35 bp):
TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
Found at i:46348589 original size:65 final size:65
Alignment explanation
Indices: 46348485--46348612 Score: 238
Period size: 65 Copynumber: 2.0 Consensus size: 65
46348475 CCCCTAGGGT
*
46348485 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCACGCCATGTTATTATTATCTGA
1 TAAGGTTGACCAGAATGCATGTTTGACTGTTACTATTTACTGCACGCCATGTTATTATTATCTGA
*
46348550 TAAGGTTGACCAGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCT
1 TAAGGTTGACCAGAATGCATGTTTGACTGTTACTATTTACTGCACGCCATGTTATTATTATCT
46348613 AATGCATGGG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (65 bp):
TAAGGTTGACCAGAATGCATGTTTGACTGTTACTATTTACTGCACGCCATGTTATTATTATCTGA
Found at i:46348924 original size:32 final size:33
Alignment explanation
Indices: 46348864--46348927 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
46348854 TTATGGCCCA
*
46348864 TACTGTTATTTTAAAAGGGGTTAAGGCCCAGTT
1 TACTGTTATTTTAAAAGGGCTTAAGGCCCAGTT
*
46348897 TACTG-TATTTTGAAAAGGGCTT-CGGCCCAGT
1 TACTGTTATTTT-AAAAGGGCTTAAGGCCCAGT
46348928 ACCCACTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (33 bp):
TACTGTTATTTTAAAAGGGCTTAAGGCCCAGTT
Found at i:46351018 original size:92 final size:92
Alignment explanation
Indices: 46350912--46351083 Score: 238
Period size: 92 Copynumber: 1.9 Consensus size: 92
46350902 TGCCCATAAG
* * * * *
46350912 CGAACTCGAACTCAACTCAATGAGCTCA-AGCATTCGTATCCATAAGTGAACTCAGACTCAACTT
1 CGAACTCGAACTCAACTCAACGAGCTCAGA-CAATCGCATCCATAAGTGAACTCAGACTCAAATC
46350976 AAAGAGCTCGGATGCCTACTACATCTCA
65 AAAGAGCTCGGATGCCTACTACATCTCA
* * *
46351004 CGAACTCGGACTCAACTCAACGAGCTCGGACAATCGCATCCATAAGTGAACTCGGACTCAAATCA
1 CGAACTCGAACTCAACTCAACGAGCTCAGACAATCGCATCCATAAGTGAACTCAGACTCAAATCA
* *
46351069 ACGATCTCGGATGCC
66 AAGAGCTCGGATGCC
46351084 CAAATATCCT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
92 68 0.99
93 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (92 bp):
CGAACTCGAACTCAACTCAACGAGCTCAGACAATCGCATCCATAAGTGAACTCAGACTCAAATCA
AAGAGCTCGGATGCCTACTACATCTCA
Found at i:46351055 original size:46 final size:47
Alignment explanation
Indices: 46350905--46351079 Score: 146
Period size: 46 Copynumber: 3.8 Consensus size: 47
46350895 TGTAACCTGC
* * * * *
46350905 CCATAAGCGAACTCGAACTCAACTCAATGAGCTC-AAGCATTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGAGCAATCGCAT
* * * * * *
46350951 CCATAAGTGAACTCAGACTCAACTTAAAGAGCTCGGATGC-CTACTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA-GCAAT-C-GCAT
*
46351000 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGA-CAATCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGAGCAATCGCAT
* * *
46351043 CCATAAGTGAACTCGGACTCAAATCAACGATCTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
46351080 TGCCCAAATA
Statistics
Matches: 101, Mismatches: 20, Indels: 16
0.74 0.15 0.12
Matches are distributed among these distances:
43 3 0.03
44 3 0.03
45 3 0.03
46 82 0.81
47 4 0.04
48 4 0.04
49 2 0.02
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGAGCAATCGCAT
Found at i:46353771 original size:19 final size:20
Alignment explanation
Indices: 46353747--46353784 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
46353737 TGGTACACCA
46353747 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
46353766 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
46353785 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:46354072 original size:44 final size:45
Alignment explanation
Indices: 46354004--46354128 Score: 182
Period size: 46 Copynumber: 2.8 Consensus size: 45
46353994 GTAACCCGCC
* * *
46354004 CCTAAGTGAACTC-GACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
46354048 -CTAAATGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
46354092 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
46354129 TGCTCAACCA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
43 11 0.15
44 27 0.38
45 1 0.01
46 33 0.46
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:46361292 original size:19 final size:20
Alignment explanation
Indices: 46361268--46361305 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
46361258 GGTACCACCA
46361268 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
46361287 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
46361306 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:46361600 original size:46 final size:46
Alignment explanation
Indices: 46361533--46361654 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
46361523 CGCCCCTAAG
* * *
46361533 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* *
46361579 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
*
46361625 TGAACTCAGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
46361655 TGCTCAACCA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
Found at i:46361673 original size:46 final size:45
Alignment explanation
Indices: 46361531--46361673 Score: 128
Period size: 46 Copynumber: 3.1 Consensus size: 45
46361521 CCCGCCCCTA
* ** *
46361531 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
* ** **
46361576 AAATGAACTCGGACTCAACTCAACGAGTTCGGACATT-TGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
* *
46361622 AAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTC-ACCATCCT
46361669 AGTGA
1 AGTGA
46361674 CATGTCACTT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
46 77 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCCT
Found at i:46369685 original size:44 final size:45
Alignment explanation
Indices: 46369590--46369688 Score: 130
Period size: 46 Copynumber: 2.2 Consensus size: 45
46369580 GACAAGACAG
* * *
46369590 GACAGAAATGAGCCATGTAAGTCCATATCAGTTATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAGTTATAT-GCATTGGA
*
46369636 GACAGGAATGAGCCATGTAAGCCCATATTA-TATATAT-CATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAGT-TATATGCATTGGA
46369680 GACAGGAAT
1 GACAGGAAT
46369689 AATTCATGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
44 15 0.31
45 1 0.02
46 32 0.67
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.26
Consensus pattern (45 bp):
GACAGGAATGAGCCATGTAAGCCCATATCAGTTATATGCATTGGA
Found at i:46374179 original size:46 final size:47
Alignment explanation
Indices: 46374114--46374233 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 47
46374104 TATGCATGCT
*
46374114 AGTGTAAGACATGTTTGGGACATGCATCAGCCAC-AATA-TGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACTAATATTGA-AGCC
* * * *
46374160 AGTGTAAGACGTGTCTGGGACATGCATCAGCCTCTTGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-TAATATTGAAGCC
*
46374208 A--GTAAGACTTGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
46374234 GGCGTTGAGA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
46 55 0.85
48 8 0.12
49 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACTAATATTGAAGCC
Found at i:46375398 original size:28 final size:28
Alignment explanation
Indices: 46375358--46375424 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
46375348 GACACGGGCT
46375358 AGGACACGGGCGTGTCATGG-TCGTGTGA
1 AGGACACGGGCGTGTCATGGCT-GTGTGA
46375386 AGGACACGGGCGTGTCATGGCTGTGTGA
1 AGGACACGGGCGTGTCATGGCTGTGTGA
46375414 AGGACACGGGC
1 AGGACACGGGC
46375425 CTGTGTCTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.19, C:0.19, G:0.43, T:0.18
Consensus pattern (28 bp):
AGGACACGGGCGTGTCATGGCTGTGTGA
Found at i:46380230 original size:13 final size:13
Alignment explanation
Indices: 46380209--46380241 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
46380199 TTTGCTTAAA
*
46380209 TTAGTTAATTAGT
1 TTAGATAATTAGT
46380222 TTAGATAATTAGT
1 TTAGATAATTAGT
46380235 TTA-ATAA
1 TTAGATAA
46380242 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:46387541 original size:13 final size:13
Alignment explanation
Indices: 46387508--46387586 Score: 60
Period size: 12 Copynumber: 6.3 Consensus size: 13
46387498 TGAGGTTTTG
*
46387508 TTATTAATCAATTA
1 TTATTAAT-TATTA
*
46387522 TTA-TAATTATTC
1 TTATTAATTATTA
46387534 TTATTAATTATTA
1 TTATTAATTATTA
*
46387547 TTA-TGATT-TT-
1 TTATTAATTATTA
* *
46387557 CTATTTAAATATTA
1 TTA-TTAATTATTA
46387571 TTATTAA-TATTA
1 TTATTAATTATTA
46387583 TTAT
1 TTAT
46387587 ATTATGAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
10 2 0.04
11 2 0.04
12 22 0.42
13 21 0.40
14 5 0.10
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (13 bp):
TTATTAATTATTA
Found at i:46387548 original size:3 final size:3
Alignment explanation
Indices: 46387518--46387591 Score: 53
Period size: 3 Copynumber: 24.7 Consensus size: 3
46387508 TTATTAATCA
* * * * *
46387518 ATT ATT ATA ATT ATT CTT ATT AATT ATT ATT ATG ATT TTCT ATT -TA
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT AT-T ATT ATT
* *
46387564 AAT ATT ATT ATT AAT ATT ATT A-T ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
46387592 GAAATAAAAT
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
2 3 0.06
3 45 0.85
4 5 0.09
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:46387887 original size:15 final size:15
Alignment explanation
Indices: 46387867--46387900 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
46387857 AAATTATTAA
46387867 ATTATGATTATGATT
1 ATTATGATTATGATT
*
46387882 ATTATGATTATTATT
1 ATTATGATTATGATT
46387897 ATTA
1 ATTA
46387901 AAATAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (15 bp):
ATTATGATTATGATT
Found at i:46388068 original size:27 final size:26
Alignment explanation
Indices: 46388019--46388072 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 26
46388009 ATGAATTAAA
46388019 TATTATTATATTATAATAATAATATAT
1 TATTATTATATTAT-ATAATAATATAT
46388046 TATTATTAATATTAT-TAACTAATATAT
1 TATTATT-ATATTATATAA-TAATATAT
46388073 GTATGAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 3 0.12
27 15 0.60
28 7 0.28
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTATTATATTATATAATAATATAT
Found at i:46389033 original size:23 final size:22
Alignment explanation
Indices: 46389006--46389070 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 22
46388996 TTTGCCGATT
46389006 AGGCACTTTATGTGTCGTATATC
1 AGGCAC-TTATGTGTCGTATATC
**
46389029 AGGCACCTCGTGTGTCGT-T-TC
1 AGGCA-CTTATGTGTCGTATATC
* *
46389050 AGGAACTTATGTGTCATATAT
1 AGGCACTTATGTGTCGTATAT
46389071 TGGTCAAGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 9 0.27
21 7 0.21
22 2 0.06
23 14 0.42
24 1 0.03
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (22 bp):
AGGCACTTATGTGTCGTATATC
Found at i:46390161 original size:43 final size:43
Alignment explanation
Indices: 46390095--46390177 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
46390085 TATACATTAC
* *
46390095 AAAACATATCCTAATACTTCTAGCGTATACATGCCATACTTTT
1 AAAAAATATCCTAATACTTCTAGCCTATACATGCCATACTTTT
46390138 AAAAAATATCCTAATACTTCTAGCCTATACATGCCATACT
1 AAAAAATATCCTAATACTTCTAGCCTATACATGCCATACT
46390178 ATTACATTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (43 bp):
AAAAAATATCCTAATACTTCTAGCCTATACATGCCATACTTTT
Found at i:46391483 original size:30 final size:30
Alignment explanation
Indices: 46391435--46391491 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
46391425 TTTACGAGCC
***
46391435 TAGGGGCAAAAGTGTAATTTTGACAAAGTT
1 TAGGGGCAAAAACATAATTTTGACAAAGTT
*
46391465 TAGGGGCAAAAACATAATTTTGCCAAA
1 TAGGGGCAAAAACATAATTTTGACAAA
46391492 ATATGGGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAACATAATTTTGACAAAGTT
Found at i:46392367 original size:50 final size:50
Alignment explanation
Indices: 46392263--46392546 Score: 259
Period size: 50 Copynumber: 5.6 Consensus size: 50
46392253 TGAGAACACA
* * ** * *
46392263 GTGTAGTACTATGTGC-GGCTACTATGTGTTTAAGACGATT-TTAGGTCACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTG--TACCA-GATTGTTAGGTCGCAT
* *
46392314 GTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAGGTCGTAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCAT
* * * * * * *
46392364 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAGCTTTGATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTG-TTAGGTCGCAT
* * * * ** *
46392415 GTGTAGTACTAAGTGCAGGCTACTATGTGTATCAAATGGTTAGGTTACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCAT
*
46392465 GTGTAGTACTAAGTGCATGCTACTACGTGTACCAGATTGTTAGGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCAT
* * * *
46392515 GTGTAGTTCTAAGTGTAGGCTATTATGTGTAC
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTAC
46392547 TAGAGAGCTT
Statistics
Matches: 192, Mismatches: 36, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
49 4 0.02
50 121 0.63
51 57 0.30
52 10 0.05
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.34
Consensus pattern (50 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCAT
Found at i:46392443 original size:26 final size:26
Alignment explanation
Indices: 46392414--46392495 Score: 64
Period size: 25 Copynumber: 3.2 Consensus size: 26
46392404 TTTGATCACG
46392414 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
* * * *
46392440 TGTGTA-T-C-AAATGGTTAGGTTAC-G
1 TGTGTAGTACTAAGT-G-CAGGCTACTA
*
46392464 TGTGTAGTACTAAGTGCATGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
*
46392490 CGTGTA
1 TGTGTA
46392496 CCAGATTGTT
Statistics
Matches: 40, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
23 3 0.08
24 8 0.20
25 13 0.32
26 13 0.32
27 3 0.08
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:46392497 original size:101 final size:99
Alignment explanation
Indices: 46392303--46392546 Score: 276
Period size: 101 Copynumber: 2.4 Consensus size: 99
46392293 TAAGACGATT
* ** * *
46392303 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAGGTCGTATGTGT
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATGGTTAGGTCG-ATGTGT
*
46392368 AGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAG
65 AGTACTAAGTGCAGGCTACTACGCGTA-CCAGATAG
* *
46392403 CTTTGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAAATGGTTAGGTTACG-TGT
1 -TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATGGTTAGG-T-CGATGT
* * *
46392467 GTAGTACTAAGTGCATGCTACTACGTGTACCAGATTG
63 GTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAG
* * * * * *
46392504 TTAGGTCGCATGTGTAGTTCTAAGTGTAGGCTATTATGTGTAC
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
46392547 TAGAGAGCTT
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
100 38 0.31
101 80 0.66
102 1 0.01
103 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (99 bp):
TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATGGTTAGGTCGATGTGTA
GTACTAAGTGCAGGCTACTACGCGTACCAGATAG
Found at i:46392585 original size:151 final size:151
Alignment explanation
Indices: 46392303--46392585 Score: 370
Period size: 151 Copynumber: 1.9 Consensus size: 151
46392293 TAAGACGATT
*
46392303 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAGGTCGTATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAGGTCGCATGTGT
* * ** * * *
46392368 AGTACTAAGTGCAGGCTACTATGCGTACCCAATAGCTTTGATCACGTGTGTAGTACTAAGTGCAG
66 AGTACTAAGTGCAGGCTACTATGCGTACCCAAGAGCTTCGATCACAAGGGTAGTAATAAGTACAG
46392433 GCTACTATGTGTATCAAATGG
131 GCTACTATGTGTATCAAATGG
* * *
46392454 TTAGGTTACGTGTGTAGTACTAAGTGCATGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAGGTCGCATGTGT
* * * * * * * * *
46392519 AGTTCTAAGTGTAGGCTATTATGTGTA-CTAGAGAGCTTCGGTTACAAGGGTGGTAATATGTACA
66 AGTACTAAGTGCAGGCTACTATGCGTACCCA-AGAGCTTCGATCACAAGGGTAGTAATAAGTACA
46392583 GGC
130 GGC
46392586 CACCGGGTAT
Statistics
Matches: 111, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
150 2 0.02
151 109 0.98
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (151 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAGGTCGCATGTGT
AGTACTAAGTGCAGGCTACTATGCGTACCCAAGAGCTTCGATCACAAGGGTAGTAATAAGTACAG
GCTACTATGTGTATCAAATGG
Found at i:46393716 original size:43 final size:44
Alignment explanation
Indices: 46393617--46393717 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 44
46393607 CCAAACTTGG
* ** * *
46393617 TCTTACATGT-AATCAAATATTGATGTTACTGTCCCAGACAGGG
1 TCTTACACGTAAATCAAATATTGATGCCAATGTCCCAGACAGGA
* *
46393660 TCTTACACG-AAATCAAATA-TGATGCCAATGTCCCAGGCATGA
1 TCTTACACGTAAATCAAATATTGATGCCAATGTCCCAGACAGGA
46393702 TCTTACACGTAAATCA
1 TCTTACACGTAAATCA
46393718 TAAGTCGATG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
42 26 0.53
43 23 0.47
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.29
Consensus pattern (44 bp):
TCTTACACGTAAATCAAATATTGATGCCAATGTCCCAGACAGGA
Found at i:46393750 original size:44 final size:42
Alignment explanation
Indices: 46393591--46393752 Score: 130
Period size: 43 Copynumber: 3.8 Consensus size: 42
46393581 CGGAAAGCTC
* * * * *
46393591 ATACAATGCCAACGTCCCAAACTTGGTCTTACATGTAATCAA
1 ATACGATGCCAACGTCCCAGACATGGTCTTACACGAAATCAA
* ** *
46393633 ATATTGATG-TTACTGTCCCAGACAGGGTCTTACACGAAATCAA
1 ATA-CGATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAA
* * * *
46393676 ATATGATGCCAATGTCCCAGGCATGATCTTACACGTAAATCATA
1 ATACGATGCCAACGTCCCAGACATGGTCTTACACG-AAATCA-A
* *
46393720 AGT-CGATGCCAACGTTCTAGACATGGTCTTACA
1 A-TACGATGCCAACGTCCCAGACATGGTCTTACA
46393753 TGAGAACACA
Statistics
Matches: 93, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
42 29 0.31
43 37 0.40
44 26 0.28
45 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (42 bp):
ATACGATGCCAACGTCCCAGACATGGTCTTACACGAAATCAA
Found at i:46396700 original size:46 final size:49
Alignment explanation
Indices: 46396553--46396918 Score: 313
Period size: 46 Copynumber: 7.7 Consensus size: 49
46396543 TCATTGGTGT
* * * *
46396553 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATTATG-AGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGTGATGTAGA
* * *
46396599 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATG-AGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGTGATGTAGA
*
46396647 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGTGACGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGTGATGTAGA
* **
46396693 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACAAGATGT---
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGTGATGTAGA
* * * *
46396737 GTTAGTGTAAGACCCTGTCTGGGACATGGCATCGGCATAGAT-ATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG-TGATGT-AGA
** * * *
46396787 GCTAGTGTAAGACCATGTCTGGGACATGGTGTTGGCCTC--GATTTCGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGTGATGT--AGA
* * *
46396836 G-TCAGTGTAAGACCATGTCTAGGACATGGCATC-GACT--TGATGAATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGTGATGTA-GA
*
46396883 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
46396919 ATTATACCCT
Statistics
Matches: 259, Mismatches: 42, Indels: 36
0.77 0.12 0.11
Matches are distributed among these distances:
44 10 0.04
45 15 0.06
46 75 0.29
47 61 0.24
48 36 0.14
49 30 0.12
50 32 0.12
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (49 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGTGATGTAGA
Found at i:46408358 original size:29 final size:29
Alignment explanation
Indices: 46408295--46408362 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
46408285 TAATCAACCA
46408295 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
46408324 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
46408353 CGCACACTTA
1 CGCACACTTA
46408363 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:46408504 original size:29 final size:30
Alignment explanation
Indices: 46408464--46408542 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
46408454 CTTAATAATC
46408464 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
**
46408494 AACTTGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
46408523 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
46408543 ATCTCATGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 31 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:46415739 original size:23 final size:23
Alignment explanation
Indices: 46415712--46415799 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 23
46415702 AGCTTTGCCG
* *
46415712 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
*
46415735 ATCAGGCACCTCGTGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
* *
46415758 -T-GGGCACCTCGTGTGTCGT-T
1 ATCAGGCACCTCATGTGTCGTAT
* *
46415778 -TTAGGCA-CTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
46415799 A
1 A
46415800 CTGATCAGGT
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
20 12 0.22
21 22 0.40
22 1 0.02
23 20 0.36
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.36
Consensus pattern (23 bp):
ATCAGGCACCTCATGTGTCGTAT
Found at i:46415763 original size:21 final size:21
Alignment explanation
Indices: 46415725--46415798 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
46415715 AGGCACTTTA
46415725 TGTGTCGTATATCAGGCACCTCG
1 TGTGTCGTAT-T-AGGCACCTCG
*
46415748 TGTGTCGTATTGGGCACCTCG
1 TGTGTCGTATTAGGCACCTCG
* **
46415769 TGTGTCGTTTTAGGCA-CTTA
1 TGTGTCGTATTAGGCACCTCG
46415789 TGTGTCGTAT
1 TGTGTCGTAT
46415799 ACTGATCAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
20 11 0.24
21 23 0.51
22 1 0.02
23 10 0.22
ACGTcount: A:0.14, C:0.20, G:0.28, T:0.38
Consensus pattern (21 bp):
TGTGTCGTATTAGGCACCTCG
Found at i:46416220 original size:28 final size:28
Alignment explanation
Indices: 46416189--46416243 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
46416179 GATATGTATG
46416189 TCATTTATTTCAAATTAATTGTAAATTC
1 TCATTTATTTCAAATTAATTGTAAATTC
46416217 TCATTTATTTCAAATTAATTGTAAATT
1 TCATTTATTTCAAATTAATTGTAAATT
46416244 GTCCGATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (28 bp):
TCATTTATTTCAAATTAATTGTAAATTC
Found at i:46418948 original size:29 final size:29
Alignment explanation
Indices: 46418905--46419006 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 29
46418895 TGAATATGGC
** *
46418905 TGGGCCTAACAGGCCATGTAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
46418934 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* * *
46418963 TGGGCCTAATGGGCTATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
46418991 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
46419007 GATACAAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
28 15 0.25
29 46 0.75
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:46422706 original size:43 final size:43
Alignment explanation
Indices: 46422640--46422875 Score: 373
Period size: 43 Copynumber: 5.5 Consensus size: 43
46422630 TACGGTACTA
46422640 ATCGGGACTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAAT
1 ATCGGG-CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAAT
* *
46422684 ATCAGACTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAAT
1 ATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAAT
* * *
46422727 ATCGGGCTTTGACCCTAGCAGGCTATAATGCCAGTGAGTTAAT
1 ATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAAT
* * * *
46422770 ATCGGGCTTCAAGGCTAGCAGGCTATAATGCCGATAAGTTAAT
1 ATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAAT
46422813 ATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAAT
1 ATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAAT
*
46422856 ATCAGGCTTCGAGCCTAGCA
1 ATCGGGCTTCGAGCCTAGCA
46422876 TGCGTAATGC
Statistics
Matches: 173, Mismatches: 19, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
43 169 0.98
44 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (43 bp):
ATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAAT
Found at i:46423971 original size:29 final size:28
Alignment explanation
Indices: 46423922--46424036 Score: 140
Period size: 29 Copynumber: 4.0 Consensus size: 28
46423912 GTGAGCATGA
* *
46423922 ATATGAATGTGATTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
*
46423950 ATGTAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
46423979 ATATATAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
46424008 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
46424036 A
1 A
46424037 AATACAGGTA
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
28 26 0.35
29 49 0.65
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:46424032 original size:57 final size:57
Alignment explanation
Indices: 46423930--46424045 Score: 153
Period size: 57 Copynumber: 2.0 Consensus size: 57
46423920 GAATATGAAT
* * * *
46423930 GTGATTGGGCCTAACGGGCCATGTAAATGTGATTTGGGCCTAATGGGCCATATATAG
1 GTGATTGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAAATACAG
* * *
46423987 GTGATTTGGGCCTAATGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAAATACAG
1 GTGA-TTGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAAATACAG
46424044 GT
1 GT
46424046 ATGAGAATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 27 0.53
58 24 0.47
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (57 bp):
GTGATTGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAAATACAG
Found at i:46426069 original size:50 final size:49
Alignment explanation
Indices: 46425944--46426132 Score: 236
Period size: 50 Copynumber: 3.8 Consensus size: 49
46425934 AGTCGAAGCT
* * *
46425944 ATCTGATACGCATAGTAGCCTACACTTAGTACTACACATGCGA-TCAAC
1 ATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGCGACTCAAC
* * * *
46425992 AATCTGGTACACGTAGTAGCCTACACTTTGTACTACACACGTGACCTCATC
1 -ATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGCGA-CTCAAC
* * * *
46426043 ATCTTATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTTAAC
1 ATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGCGACTCAAC
*
46426092 AGTATGATACACGTAGTAGCCTACACTTAGTACTACACACG
1 A-TCTGATACACGTAGTAGCCTACACTTAGTACTACACACG
46426133 TGTATTCACA
Statistics
Matches: 118, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
49 42 0.36
50 72 0.61
51 4 0.03
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (49 bp):
ATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGCGACTCAAC
Found at i:46433494 original size:50 final size:49
Alignment explanation
Indices: 46433370--46433558 Score: 245
Period size: 50 Copynumber: 3.8 Consensus size: 49
46433360 AGCCGAAGCT
* * * *
46433370 ATCTGATACGCATAGTAGCCTGCACTTAGTACCACACATGCGA-TCAAC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACTCAAC
* * *
46433418 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCATC
1 -ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CTCAAC
* *
46433469 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTTAAC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACTCAAC
* *
46433518 AGTATGATACACGTAGTAGCCTACACTTAGTACTACACACG
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACG
46433559 TGTATTCACA
Statistics
Matches: 122, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
49 42 0.34
50 76 0.62
51 4 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACTCAAC
Found at i:46435734 original size:40 final size:40
Alignment explanation
Indices: 46435690--46435767 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
46435680 CAACTCAGAG
46435690 TGAATAAGGCATTGGCTTTGCCAACTGAGTTCGCGAATAA
1 TGAATAAGGCATTGGCTTTGCCAACTGAGTTCGCGAATAA
46435730 TGAATAAGGCATTGGCTTTGCCAACTGAGTTCGCGAAT
1 TGAATAAGGCATTGGCTTTGCCAACTGAGTTCGCGAAT
46435768 TCTCTTATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (40 bp):
TGAATAAGGCATTGGCTTTGCCAACTGAGTTCGCGAATAA
Found at i:46438047 original size:61 final size:60
Alignment explanation
Indices: 46437899--46438048 Score: 140
Period size: 61 Copynumber: 2.5 Consensus size: 60
46437889 GTTTACACAT
*
46437899 TCTATCAATTTGATCTTAAATATAAAAAAATTAATAAATTTACTCCTCAATATTTAAAAAA
1 TCTATCAATTTG-TCCTAAATATAAAAAAATTAATAAATTTACTCCTCAATATTTAAAAAA
* * * * * * * * * *
46437960 TTTGTCATTTTTGTTCTAATTGTAAAAAATTTAATAGATTTAACT-CTCAATATTTATAAAG
1 TCTATCA-ATTTGTCCTAAATATAAAAAAATTAATAAATTT-ACTCCTCAATATTTAAAAAA
* *
46438021 TCTATCAATTTAGTCCTAACTCTAAAAA
1 TCTATCAATTT-GTCCTAAATATAAAAA
46438049 TTAAAAATAT
Statistics
Matches: 69, Mismatches: 17, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
60 3 0.04
61 59 0.86
62 7 0.10
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.41
Consensus pattern (60 bp):
TCTATCAATTTGTCCTAAATATAAAAAAATTAATAAATTTACTCCTCAATATTTAAAAAA
Found at i:46441986 original size:5 final size:5
Alignment explanation
Indices: 46441976--46442014 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
46441966 TAATATATTA
*
46441976 CATAT CATAT CACAT CATAT CATAT CATAT CATAT -ATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
46442015 TTAATATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (5 bp):
CATAT
Found at i:46446207 original size:23 final size:23
Alignment explanation
Indices: 46446177--46446224 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
46446167 GGTACCGTTT
46446177 GGTACCCTTATATAAGTCAAAAC
1 GGTACCCTTATATAAGTCAAAAC
46446200 GGTACCCTTATATAAGTCAAAAC
1 GGTACCCTTATATAAGTCAAAAC
46446223 GG
1 GG
46446225 GCGATTTCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.25
Consensus pattern (23 bp):
GGTACCCTTATATAAGTCAAAAC
Found at i:46448269 original size:39 final size:39
Alignment explanation
Indices: 46448225--46448299 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
46448215 AAAGAGGACA
46448225 TAACCAATTTGTTAGGAGTTCAGGTGGTTTCAAACCCTG
1 TAACCAATTTGTTAGGAGTTCAGGTGGTTTCAAACCCTG
46448264 TAACCAATTTGTTAGGAGTTCAGGTGGTTTCAAACC
1 TAACCAATTTGTTAGGAGTTCAGGTGGTTTCAAACC
46448300 TTGAGAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (39 bp):
TAACCAATTTGTTAGGAGTTCAGGTGGTTTCAAACCCTG
Found at i:46451215 original size:13 final size:13
Alignment explanation
Indices: 46451199--46451257 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
46451189 AAATTTCAAA
*
46451199 TTTTAGATAAATT
1 TTTTAAATAAATT
46451212 TTTTAAAATAAA-T
1 TTTT-AAATAAATT
*
46451225 ATTTAAATAATATT
1 TTTTAAATAA-ATT
*
46451239 TTTT-GATAAAATT
1 TTTTAAAT-AAATT
46451252 TTTTAA
1 TTTTAA
46451258 TTAGATAGCC
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
12 6 0.17
13 18 0.50
14 12 0.33
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (13 bp):
TTTTAAATAAATT
Found at i:46452110 original size:13 final size:13
Alignment explanation
Indices: 46452092--46452117 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46452082 CATTACTTGT
46452092 GTTCTATTTATCA
1 GTTCTATTTATCA
46452105 GTTCTATTTATCA
1 GTTCTATTTATCA
46452118 CAAGTTGATT
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:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (13 bp):
GTTCTATTTATCA
Found at i:46457772 original size:35 final size:35
Alignment explanation
Indices: 46457732--46457802 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
46457722 ATGGTAAGGC
*
46457732 TAACCGATAGGCAACTGGCCCTTCTCTCTTGGTAG
1 TAACCGATAGGCAACTGGCCCTACTCTCTTGGTAG
46457767 TAACCGATAGGCAACTGGCCCTACTCTCTTGGTAG
1 TAACCGATAGGCAACTGGCCCTACTCTCTTGGTAG
46457802 T
1 T
46457803 CTCAAACGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (35 bp):
TAACCGATAGGCAACTGGCCCTACTCTCTTGGTAG
Found at i:46466728 original size:24 final size:24
Alignment explanation
Indices: 46466700--46466770 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
46466690 AGCTCCCATT
46466700 ATATGGCTCCTTGTGAGCTTCCCG
1 ATATGGCTCCTTGTGAGCTTCCCG
** * *
46466724 ATATGATTCTTTGTGAACTTCCCG
1 ATATGGCTCCTTGTGAGCTTCCCG
*
46466748 ATTATGGCT-CTTATGAGCTTCCC
1 A-TATGGCTCCTTGTGAGCTTCCC
46466771 ATTATATAAC
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
24 32 0.86
25 5 0.14
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (24 bp):
ATATGGCTCCTTGTGAGCTTCCCG
Found at i:46469298 original size:48 final size:48
Alignment explanation
Indices: 46469233--46469721 Score: 811
Period size: 48 Copynumber: 10.1 Consensus size: 48
46469223 GCTGAAATTG
*
46469233 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
46469281 ATTTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
46469329 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
46469377 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
46469425 ATGTATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-AT
* *
46469475 ATGTATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
46469523 ATGTATGGGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
46469571 ATGTATGAGATATGCATATGTGGTAAAGACGAATGG-TCAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-AT
* *
46469621 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
46469669 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
46469717 ATGTA
1 ATGTA
46469722 GGCGATGTGC
Statistics
Matches: 415, Mismatches: 18, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
47 2 0.00
48 322 0.78
49 8 0.02
50 81 0.20
51 2 0.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:46469562 original size:146 final size:146
Alignment explanation
Indices: 46469233--46469721 Score: 867
Period size: 146 Copynumber: 3.4 Consensus size: 146
46469223 GCTGAAATTG
* * *
46469233 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATTTATGAGATATGTAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCAT
46469298 ATGTGGTAAAGCCGAATGG-CTAATGTG-AA-ATATGTATGAGATATGTATATGTGGTAAAGCCG
66 ATGTGGTAAAGCCGAATGGTC-AATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGCCG
*
46469360 AATGGCTAATGTGAAAT
130 AATGGCTAGTGTGAAAT
46469377 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCAT
*
46469442 ATGTGGTAAAGCCGAATGGTCAATGTGAAATATATGTATGAGATATGTATACGTGGTAAAGCCGA
66 ATGTGGTAAAGCCGAATGGTCAATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGCCGA
46469507 ATGGCTAGTGTGAAAT
131 ATGGCTAGTGTGAAAT
*
46469523 ATGTATGGGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCAT
* *
46469588 ATGTGGTAAAGACGAATGGTCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGA
66 ATGTGGTAAAGCCGAATGGTCAATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGCCGA
46469653 ATGGCTAGTGTGAAAT
131 ATGGCTAGTGTGAAAT
*
46469669 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
46469722 GGCGATGTGC
Statistics
Matches: 331, Mismatches: 11, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
144 87 0.26
145 3 0.01
146 241 0.73
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (146 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCAT
ATGTGGTAAAGCCGAATGGTCAATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAGTGTGAAAT
Found at i:46469567 original size:194 final size:196
Alignment explanation
Indices: 46469225--46469721 Score: 823
Period size: 194 Copynumber: 2.6 Consensus size: 196
46469215 AAGCTATTGC
*
46469225 TGAAAT-TGATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT-T-TAT
1 TGAAATAT-ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTAT
*
46469287 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
65 GAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGG
* *
46469352 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG-CTA
130 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGACGAATGGTC-A
46469416 ATG
194 ATG
*
46469419 TG-AA-ATATGTATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATGTAT
1 TGAAATATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATGTAT
* *
46469481 GAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGGGATATGTATATGTGG
65 GAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGG
46469546 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGACGAATGGTCAA
130 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGACGAATGGTCAA
46469611 TG
195 TG
* *
46469613 TGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATG
1 TGAAATATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTATG
46469676 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
66 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
46469722 GGCGATGTGC
Statistics
Matches: 284, Mismatches: 11, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
191 1 0.00
192 46 0.16
193 4 0.01
194 186 0.65
195 5 0.02
196 41 0.14
197 1 0.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (196 bp):
TGAAATATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTATG
AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGACGAATGGTCAAT
G
Found at i:46469912 original size:37 final size:37
Alignment explanation
Indices: 46469857--46469971 Score: 169
Period size: 37 Copynumber: 3.1 Consensus size: 37
46469847 ACATGAAACT
*
46469857 TGGAAATATAT-TCTGGGTAAGACCCGATGACTACGTG
1 TGGAAAT-TATGTCCGGGTAAGACCCGATGACTACGTG
46469894 TGGAAATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAATTATGTCCGGGTAAGACCCGATGACTACGTG
* * * *
46469931 TGGAGATTTTGTCCGGGTAAGACCCGATAACTTCGTG
1 TGGAAATTATGTCCGGGTAAGACCCGATGACTACGTG
46469968 TGGA
1 TGGA
46469972 GATTTCGTCT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 3 0.04
37 69 0.96
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (37 bp):
TGGAAATTATGTCCGGGTAAGACCCGATGACTACGTG
Found at i:46469972 original size:37 final size:37
Alignment explanation
Indices: 46469871--46469976 Score: 176
Period size: 37 Copynumber: 2.9 Consensus size: 37
46469861 AATATATTCT
* *
46469871 GGGTAAGACCCGATGACTACGTGTGGAAATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
46469908 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
* *
46469945 GGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTT
46469977 CGTCTGAGCT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
Found at i:46473587 original size:42 final size:43
Alignment explanation
Indices: 46473480--46473597 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 43
46473470 TACCAATGCT
**
46473480 ATATCCCAGATATGGTCTTACA-AGGGATCTCAAATCGATGCCA
1 ATATCCCAGATATGGTCTTACACA-AAATCTCAAATCGATGCCA
* * * * *
46473523 ATAGCTCAGCTATGGTCTTACACAAAATCTCATATCGATGTC-
1 ATATCCCAGATATGGTCTTACACAAAATCTCAAATCGATGCCA
**
46473565 ATATCCCAGATATGGTCTTACACGTAATCTCAA
1 ATATCCCAGATATGGTCTTACACAAAATCTCAA
46473598 CCAACCCTAA
Statistics
Matches: 61, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
42 27 0.44
43 33 0.54
44 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (43 bp):
ATATCCCAGATATGGTCTTACACAAAATCTCAAATCGATGCCA
Found at i:46474661 original size:13 final size:13
Alignment explanation
Indices: 46474643--46474668 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46474633 GCCCAAACGT
46474643 CAAAATTTTCAAA
1 CAAAATTTTCAAA
46474656 CAAAATTTTCAAA
1 CAAAATTTTCAAA
46474669 AAATTATTTA
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:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
CAAAATTTTCAAA
Found at i:46478854 original size:46 final size:45
Alignment explanation
Indices: 46478759--46478963 Score: 136
Period size: 44 Copynumber: 4.5 Consensus size: 45
46478749 GTCGATACCG
* * * *
46478759 TGTCCCGGACATGGTCTGACACTG-ACACATCTCATAG-CCGATGCA
1 TGTCCCAGACAT-GTCTTACACTGCACTCGTCTCA-AGACCGATGCA
* **
46478804 TGTCCCAGACATGTCTTACACTG-ACTTACGTCTCGAGGTCGATGCA
1 TGTCCCAGACATGTCTTACACTGCAC-T-CGTCTCAAGACCGATGCA
* *
46478850 TGTCCCA-A-GTGTCTTACACTAGCACTCGTCTCAATACCGATGCCA
1 TGTCCCAGACATGTCTTACACT-GCACTCGTCTCAAGACCGATG-CA
* * * * *
46478895 TGTCCCAGACATGGTCTCACACTG-GCTC-TCACAATGTGGCCAATGCA
1 TGTCCCAGACAT-GTCTTACACTGCACTCGTCTCAA---GACCGATGCA
*
46478942 TGTCCTAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
46478964 AGCTCACAAT
Statistics
Matches: 128, Mismatches: 20, Indels: 23
0.75 0.12 0.13
Matches are distributed among these distances:
44 35 0.27
45 30 0.23
46 34 0.27
47 15 0.12
48 14 0.11
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGCACTCGTCTCAAGACCGATGCA
Found at i:46498322 original size:39 final size:39
Alignment explanation
Indices: 46498218--46498327 Score: 195
Period size: 38 Copynumber: 2.8 Consensus size: 39
46498208 TGCATGGTAT
*
46498218 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
46498257 TGGAAATATAT-CGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
*
46498295 TGGAAATATATCCGGACTTAAAGTCCGCAGGCT
1 TGGAAATATATCCGGACTTGAAGTCCGCAGGCT
46498328 AAGTGCTAGA
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
38 38 0.56
39 30 0.44
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (39 bp):
TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
Found at i:46498345 original size:39 final size:39
Alignment explanation
Indices: 46498218--46498348 Score: 194
Period size: 39 Copynumber: 3.4 Consensus size: 39
46498208 TGCATGGTAT
46498218 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
*
46498257 TGGAAATATAT-CGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
* * *
46498295 TGGAAATATATCCGGACTTAAAGTCCGCAGGC-TAAGTGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTA-TGC
*
46498334 TAGAAAAATATCCGG
1 TGGAAAAATATCCGG
46498349 GCTAAGTCCC
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
38 40 0.47
39 45 0.53
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (39 bp):
TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
Found at i:46498373 original size:39 final size:39
Alignment explanation
Indices: 46498341--46498556 Score: 324
Period size: 39 Copynumber: 5.5 Consensus size: 39
46498331 TGCTAGAAAA
*
46498341 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGCATT
* *
46498380 ATATCTGGGCTAAGTCCTGAAGGCATTCGTGCTGGCATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGCATT
*
46498419 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGCATT
* *
46498458 ATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGCGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGCATT
* * *
46498497 ATATCCAGGCTAAGTCTCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGCATT
*
46498536 ATATCCCGGCTTAAAGTCCCG
1 ATATCCGGGC-T-AAGTCCCG
46498557 CATGCTTTGT
Statistics
Matches: 159, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 151 0.95
40 1 0.01
41 7 0.04
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGCATT
Found at i:46502912 original size:24 final size:22
Alignment explanation
Indices: 46502862--46502913 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 22
46502852 TCAACTTGAA
*
46502862 AGAGCTTCCCATTCAGCTCAAT
1 AGAGCTTCCCATTCAGATCAAT
*
46502884 AGAGCTTCTCGATTCCAGATCAAT
1 AGAGCTTC-CCATT-CAGATCAAT
*
46502908 CGAGCT
1 AGAGCT
46502914 CACTATTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 8 0.32
23 4 0.16
24 13 0.52
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (22 bp):
AGAGCTTCCCATTCAGATCAAT
Found at i:46510400 original size:24 final size:22
Alignment explanation
Indices: 46510329--46510401 Score: 94
Period size: 22 Copynumber: 3.2 Consensus size: 22
46510319 TAGCTCGTAT
*
46510329 GAGCTTCCCGTTCAACTCGAA-A
1 GAGCTTCCCGTTCAGCTC-AATA
46510351 GAGCTTCCCGTTCAGCTCAATA
1 GAGCTTCCCGTTCAGCTCAATA
*
46510373 GAGCTTCCCGATTCTAGCTCAATC
1 GAGCTTCCCG-TTC-AGCTCAATA
46510397 GAGCT
1 GAGCT
46510402 CACTGTTATC
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.04
22 28 0.61
23 3 0.07
24 13 0.28
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (22 bp):
GAGCTTCCCGTTCAGCTCAATA
Found at i:46512330 original size:43 final size:42
Alignment explanation
Indices: 46512258--46512340 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 42
46512248 GGTTATCGAG
* *
46512258 ATGTGATTACATGTATGAACATTTCTGGGACAGTGGCATTGAT
1 ATGTGATAACATGTAAGAACATTTCTGGGACA-TGGCATTGAT
* *
46512301 ATGTGATAACATGTAAGACCATATT-TGGGATATGGCATTG
1 ATGTGATAACATGTAAGAACAT-TTCTGGGACATGGCATTG
46512341 TACGAAGGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 8 0.23
43 25 0.71
44 2 0.06
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (42 bp):
ATGTGATAACATGTAAGAACATTTCTGGGACATGGCATTGAT
Found at i:46513462 original size:27 final size:27
Alignment explanation
Indices: 46513424--46513485 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
46513414 TCTACTAGTC
46513424 GTGTGTGGCACACGAGCAGGCACATAG
1 GTGTGTGGCACACGAGCAGGCACATAG
* *
46513451 GTGTGTGGCACACGAGCAGGCTCATGG
1 GTGTGTGGCACACGAGCAGGCACATAG
*
46513478 GCGTGTGG
1 GTGTGTGG
46513486 TCGGCCGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.19, C:0.21, G:0.42, T:0.18
Consensus pattern (27 bp):
GTGTGTGGCACACGAGCAGGCACATAG
Found at i:46514775 original size:24 final size:24
Alignment explanation
Indices: 46514748--46514801 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
46514738 TATATAACGG
46514748 GAAGTTCACAAAGAACC-ATATCGA
1 GAAGTTC-CAAAGAACCAATATCGA
* * * *
46514772 GAAGCTCCAGATAGCCAATATCGA
1 GAAGTTCCAAAGAACCAATATCGA
46514796 GAAGTT
1 GAAGTT
46514802 TAAATGAGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (24 bp):
GAAGTTCCAAAGAACCAATATCGA
Found at i:46516302 original size:28 final size:28
Alignment explanation
Indices: 46516254--46516481 Score: 218
Period size: 27 Copynumber: 8.3 Consensus size: 28
46516244 TAAGGCAATC
* *
46516254 CTTTCATAATTT-TCCACAAAGGTTTTT
1 CTTTCATGATTTCTCCACAAAGGCTTTT
* *
46516281 CATTCATGATTTTTCCACAAAGGCTTTT
1 CTTTCATGATTTCTCCACAAAGGCTTTT
* * *
46516309 CTTTCATGA-TTCACCACAAAAGATTTT
1 CTTTCATGATTTCTCCACAAAGGCTTTT
46516336 CTTTCATGA-TTCGT-CACAAAGGCTTTT
1 CTTTCATGATTTC-TCCACAAAGGCTTTT
*
46516363 CTTTCATGATTTCGCCACAAAGGCTTTT
1 CTTTCATGATTTCTCCACAAAGGCTTTT
* *
46516391 CTTTTCATGATTTCGCCACAAAGGTTTTT
1 C-TTTCATGATTTCTCCACAAAGGCTTTT
* * **
46516420 CTTTCATGA-CTCGCCACAAATTCTTTAT
1 CTTTCATGATTTCTCCACAAAGGCTTT-T
* * * *
46516448 -TTTCTTGA-TTCACCACAATGTCTTTT
1 CTTTCATGATTTCTCCACAAAGGCTTTT
46516474 CTTTCATG
1 CTTTCATG
46516482 GCGTGTTTAT
Statistics
Matches: 171, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.01
27 95 0.56
28 48 0.28
29 27 0.16
ACGTcount: A:0.24, C:0.23, G:0.11, T:0.43
Consensus pattern (28 bp):
CTTTCATGATTTCTCCACAAAGGCTTTT
Found at i:46516475 original size:111 final size:109
Alignment explanation
Indices: 46516254--46516481 Score: 269
Period size: 111 Copynumber: 2.1 Consensus size: 109
46516244 TAAGGCAATC
* * * ** *
46516254 CTTTCATAATTTTCCACAAAGGTTTTTCATTCATGATTTTTCCACAAAGGCTTTTCTTTCATGAT
1 CTTTCATGATTTGCCACAAAGGCTTTTCATTCATGATTTCGCCACAAAGGCTTTTCTTTCATGAC
**
46516319 TCACCACAAAAGATTTTCTTTCATGATTCGTCACAAAGGCTTTT
66 TCACCACAAAAGATTTTCTTTCATGATTCACCACAAAGGCTTTT
* *
46516363 CTTTCATGATTTCGCCACAAAGGCTTTTCTTTTCATGATTTCGCCACAAAGGTTTTTCTTTCATG
1 CTTTCATGATTT-GCCACAAAGGCTTTTC-ATTCATGATTTCGCCACAAAGGCTTTTCTTTCATG
* *** * * *
46516428 ACTCGCCACAAATTCTTTAT-TTTCTTGATTCACCACAATGTCTTTT
64 ACTCACCACAAAAGATTT-TCTTTCATGATTCACCACAAAGGCTTTT
46516474 CTTTCATG
1 CTTTCATG
46516482 GCGTGTTTAT
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
109 11 0.11
110 14 0.14
111 73 0.74
112 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.11, T:0.43
Consensus pattern (109 bp):
CTTTCATGATTTGCCACAAAGGCTTTTCATTCATGATTTCGCCACAAAGGCTTTTCTTTCATGAC
TCACCACAAAAGATTTTCTTTCATGATTCACCACAAAGGCTTTT
Found at i:46520876 original size:28 final size:28
Alignment explanation
Indices: 46520832--46520927 Score: 165
Period size: 28 Copynumber: 3.4 Consensus size: 28
46520822 TGGCCCCTTT
* *
46520832 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACTTTCATATGGCCCATC
46520860 AGGCCCAATCACTTTCATATGGCCCATC
1 AGGCCCAATCACTTTCATATGGCCCATC
*
46520888 AGGCCCAATCACTTTCATATGGCCCGTC
1 AGGCCCAATCACTTTCATATGGCCCATC
46520916 AGGCCCAATCAC
1 AGGCCCAATCAC
46520928 ATTTATAGTC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.25, C:0.36, G:0.16, T:0.23
Consensus pattern (28 bp):
AGGCCCAATCACTTTCATATGGCCCATC
Found at i:46530275 original size:20 final size:20
Alignment explanation
Indices: 46530247--46530287 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
46530237 TTCATTTATC
*
46530247 AAATGTCATCTCAT-TTCAAT
1 AAATATCAT-TCATATTCAAT
46530267 AAATATCATTCATATTCAAT
1 AAATATCATTCATATTCAAT
46530287 A
1 A
46530288 TGTACTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.39
Consensus pattern (20 bp):
AAATATCATTCATATTCAAT
Found at i:46530279 original size:19 final size:19
Alignment explanation
Indices: 46530235--46530287 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
46530225 CAATTCAGAA
*
46530235 CATTCATTT--ATCAAATGT
1 CATTCATTTCAAT-AAATAT
46530253 CATCTCATTTCAATAAATAT
1 CAT-TCATTTCAATAAATAT
46530273 CATTCATATTCAATA
1 CATTCAT-TTCAATA
46530288 TGTACTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.10
19 10 0.33
20 15 0.50
21 2 0.07
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.42
Consensus pattern (19 bp):
CATTCATTTCAATAAATAT
Found at i:46539314 original size:32 final size:32
Alignment explanation
Indices: 46539277--46539340 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
46539267 CCGACATCAG
* *
46539277 AACAGGGTATGAGGCATTTTCAAACTTAAACA
1 AACAGGGTACGAGGCATTGTCAAACTTAAACA
**
46539309 AACAGGGTACGAGGCATTGTCGGACTTAAACA
1 AACAGGGTACGAGGCATTGTCAAACTTAAACA
46539341 TACACATTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (32 bp):
AACAGGGTACGAGGCATTGTCAAACTTAAACA
Done.