Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold475
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: 1773841
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 6 of 12
Found at i:851616 original size:13 final size:13
Alignment explanation
Indices: 851598--851627 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
851588 ATACATGACT
851598 CATTGTATCGATA
1 CATTGTATCGATA
851611 CATTGTATCGATA
1 CATTGTATCGATA
851624 CATT
1 CATT
851628 TTGGGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:854442 original size:28 final size:28
Alignment explanation
Indices: 854410--854484 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
854400 TTTTTCACAT
*
854410 TCGGGGATATTCCAACCCCGTTATTTCA
1 TCGGGGATACTCCAACCCCGTTATTTCA
*
854438 TCGGGGATACTCCAACCCTGTTATTTC-
1 TCGGGGATACTCCAACCCCGTTATTTCA
* *
854465 TGAGGGGATACTCTAACCCC
1 T-CGGGGATACTCCAACCCC
854485 AATTTTATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.29
Consensus pattern (28 bp):
TCGGGGATACTCCAACCCCGTTATTTCA
Found at i:854525 original size:79 final size:77
Alignment explanation
Indices: 854442--854667 Score: 249
Period size: 78 Copynumber: 2.9 Consensus size: 77
854432 ATTTCATCGG
* *
854442 GGATACTCCAACCCTGTTA-TTTCTGAGGGGATACTCTAACCCCAATTTTATTTCCAAACCACCA
1 GGATACTCCAACCCTGTTATTTTC-GA-GGGATACTCCAACCCCAATTTTATTTCCAAA-CACCG
854506 ATTTTTCAAAATCAA
63 ATTTTTCAAAATCAA
** * *
854521 GGATACTCCAA-GGTCGTTATTTTCGAGGGATACTCCAACCCTAGTTTTATTTCCAAAACACCGA
1 GGATACTCCAACCCT-GTTATTTTCGAGGGATACTCCAACCCCAATTTTATTTCC-AAACACCGA
** *
854585 TTTTTCTCAATCGA
64 TTTTTCAAAATCAA
** * * *
854599 GGATACTCCAACCCCATTATTTTCAAAGGGATACTCCAGCCCCGATTTTATTTCCAGAACACCGA
1 GGATACTCCAACCCTGTTATTTTC-GAGGGATACTCCAACCCCAATTTTATTTCCA-AACACCGA
854664 TTTT
64 TTTT
854668 GCATAGGTAG
Statistics
Matches: 123, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
78 62 0.50
79 57 0.46
80 4 0.03
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (77 bp):
GGATACTCCAACCCTGTTATTTTCGAGGGATACTCCAACCCCAATTTTATTTCCAAACACCGATT
TTTCAAAATCAA
Found at i:854539 original size:107 final size:106
Alignment explanation
Indices: 854364--854562 Score: 247
Period size: 107 Copynumber: 1.9 Consensus size: 106
854354 TTTCATCGGA
* * ** * * ** *
854364 GATACTCCAACCTCGATTTTATTTTTAAAACACCAATTTTTCACATTCGGGGATATTCCAACCCC
1 GATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTTCAAAATCAAGGATACTCCAACCCC
854429 GTTATTTCATCG-GGGATACTCCAACCCTGTTATTTCTGAGGG
66 GTTATTT--TCGAGGGATACTCCAACCCTGTTATTTCTGAGGG
* * ***
854471 GATACTCTAACCCCAATTTTATTTCCAAACCACCAATTTTTCAAAATCAAGGATACTCCAAGGTC
1 GATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTTCAAAATCAAGGATACTCCAACCCC
854536 GTTATTTTCGAGGGATACTCCAACCCT
66 GTTATTTTCGAGGGATACTCCAACCCT
854563 AGTTTTATTT
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
105 3 0.04
106 16 0.21
107 58 0.75
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (106 bp):
GATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTTCAAAATCAAGGATACTCCAACCCC
GTTATTTTCGAGGGATACTCCAACCCTGTTATTTCTGAGGG
Found at i:867099 original size:16 final size:15
Alignment explanation
Indices: 867070--867121 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
867060 CACTTTTTTT
867070 AAAAAAAAA-CAAAA
1 AAAAAAAAATCAAAA
*
867084 ACAAAAAAAATTAAAA
1 A-AAAAAAAATCAAAA
867100 AAAAACAAAAT-AAAGA
1 AAAAA-AAAATCAAA-A
867116 AAAAAA
1 AAAAAA
867122 GAAAGAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
14 1 0.03
15 16 0.48
16 16 0.48
ACGTcount: A:0.87, C:0.06, G:0.02, T:0.06
Consensus pattern (15 bp):
AAAAAAAAATCAAAA
Found at i:867118 original size:17 final size:16
Alignment explanation
Indices: 867070--867135 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 16
867060 CACTTTTTTT
*
867070 AAAAAAAAACAAA-AA
1 AAAAAAAAATAAAGAA
*
867085 CAAAAAAAATTAAA-AA
1 -AAAAAAAAATAAAGAA
*
867101 AAAACAAAATAAAGAA
1 AAAAAAAAATAAAGAA
867117 AAAAAGAAAGA-AAAGAA
1 AAAAA-AAA-ATAAAGAA
867134 AA
1 AA
867136 GAACCTGCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
15 11 0.26
16 19 0.45
17 11 0.26
18 1 0.02
ACGTcount: A:0.85, C:0.05, G:0.06, T:0.05
Consensus pattern (16 bp):
AAAAAAAAATAAAGAA
Found at i:867119 original size:20 final size:20
Alignment explanation
Indices: 867069--867135 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
867059 CCACTTTTTT
867069 TAAAAAAAAACAAAAACAAAA
1 TAAAAAAAAA-AAAAACAAAA
*
867090 -AAAATTAAAAAAAAACAAAA
1 TAAAA-AAAAAAAAAACAAAA
* *
867110 TAAAGAAAAAAAGAAAGAAAA
1 TAAA-AAAAAAAAAAACAAAA
*
867131 GAAAA
1 TAAAA
867136 GAACCTGCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
20 15 0.39
21 22 0.58
22 1 0.03
ACGTcount: A:0.84, C:0.04, G:0.06, T:0.06
Consensus pattern (20 bp):
TAAAAAAAAAAAAAACAAAA
Found at i:868288 original size:60 final size:62
Alignment explanation
Indices: 868210--868970 Score: 994
Period size: 61 Copynumber: 12.5 Consensus size: 62
868200 AAATAGGACG
* * * * *
868210 CCTTTCAAAGCCCGCACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGTAGAACG-CTATT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * **
868270 CCTTTTAAAGTCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAGGACGCCTTCG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
868331 CCTTTCAAAGCCCACACAAGCTGGTGGCAC-CTT-CAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
* *
868391 CTTTTTAAAGCCCACACAAGTTAGTGGCACTTTT--AGTCCTCAAAGAGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
* *
868451 CCTTTTGAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACGCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * * *
868512 CCTTTTAAAGCTCACACAAGTTAGTGGCACTTGTCTAGTCCTCAAAAAGTAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
**
868574 -CTTTTAAAGCCCACACAAGTTGGTGGCACTTATT--AGTATTCAAAGAGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTT-TTCCAGTCCTCAAAGAGCAGGACGCCTTTT
* **
868634 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTTAAAGAGCAGGAAACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
868695 CCTTTTAAAGCCCACAAAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCATTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
868757 TCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGTAGGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
868819 CCTTTTAAAGCCCACAAAAGTTGGTGGCA-TCTTCTAGTCCTCAAAGAGCAGGACGTCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
* *
868880 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCCAGTCCTCAAAGAGCAGGATG-CTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTT-T
** *
868941 CCTTGCAAAGCCCATACAAGTTGGTGGCAC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC
868971 CTGCTAGTCC
Statistics
Matches: 616, Mismatches: 74, Indels: 21
0.87 0.10 0.03
Matches are distributed among these distances:
60 180 0.29
61 308 0.50
62 128 0.21
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (62 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:869699 original size:13 final size:13
Alignment explanation
Indices: 869678--869707 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
869668 ATACATGGCT
869678 CATTGTATCGATA
1 CATTGTATCGATA
*
869691 CATTTTATCGATA
1 CATTGTATCGATA
869704 CATT
1 CATT
869708 CTGGGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:872170 original size:28 final size:28
Alignment explanation
Indices: 872134--872215 Score: 71
Period size: 28 Copynumber: 2.9 Consensus size: 28
872124 AATTTTCACA
*
872134 ATCGAGGATATTACAACCCCATTTTTTC-
1 ATCGGGGATATT-CAACCCCATTTTTTCG
*
872162 ATCGGGGATACTTCAACCCTATTATTTTCG
1 ATCGGGGATA-TTCAACCCCATT-TTTTCG
*
872192 A--GGGGATACTCCAACCCCGATTTT
1 ATCGGGGATA-TTCAACCCC-ATTTT
872216 ATTTCCAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
28 35 0.76
29 10 0.22
30 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (28 bp):
ATCGGGGATATTCAACCCCATTTTTTCG
Found at i:872187 original size:106 final size:106
Alignment explanation
Indices: 872048--872288 Score: 285
Period size: 106 Copynumber: 2.3 Consensus size: 106
872038 AATTTCTAAA
* ** *
872048 TTTTTCATCTCGGGGGTACTCCAACCCCGTTA-TTTCATCGGGGATACTCCAACCCTGATTTTAT
1 TTTTTCA--TCGGGGATACTCCAACCCTATTATTTTCA--GGGGATACTCCAACCCCGATTTTAT
* *
872112 TT-CTAAACACCAAATTTTCACAATCGA-GGATATTACAACCCCAT
62 TTCCAAAACACCAAATTTTCACAAT-GAGGGATACTACAACCCCAT
*
872156 TTTTTCATCGGGGATACTTCAACCCTATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTC
1 TTTTTCATCGGGGATACTCCAACCCTATTATTTTC-AGGGGATACTCCAACCCCGATTTTATTTC
* * *
872221 CAAAACACCAATTTTTCACAATTAGGGATACTCCAACCCCAT
65 CAAAACACCAAATTTTCACAATGAGGGATACTACAACCCCAT
*
872263 TATTT--TCGAGGGATACTCCAACCCTA
1 TTTTTCATCG-GGGATACTCCAACCCTA
872289 GTTTTATTTC
Statistics
Matches: 116, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
105 3 0.03
106 62 0.53
107 43 0.37
108 8 0.07
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.32
Consensus pattern (106 bp):
TTTTTCATCGGGGATACTCCAACCCTATTATTTTCAGGGGATACTCCAACCCCGATTTTATTTCC
AAAACACCAAATTTTCACAATGAGGGATACTACAACCCCAT
Found at i:872302 original size:78 final size:78
Alignment explanation
Indices: 872166--872392 Score: 316
Period size: 78 Copynumber: 2.9 Consensus size: 78
872156 TTTTTCATCG
* *
872166 GGGATACTTCAACCCTATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCA
1 GGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCA
872231 ATTTTTCACAATTA
66 ATTTTTCACAA-TA
*
872245 GGGATACTCCAACCCCATTATTTTCGA-GGGATACTCCAA-CCCTAGTTTTATTTCCAAAACACC
1 GGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGA-TTTTATTTCCAAAACACC
* *
872308 GATTTTTCACAATC
65 AATTTTTCACAATA
* * * *
872322 GGAGATA-TCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGATTTTATTTTCCAGAACAT
1 GG-GATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTTTA-TTTCCAAAACAC
872386 CAATTTT
64 CAATTTT
872393 CCATAGTCAA
Statistics
Matches: 132, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
77 25 0.19
78 62 0.47
79 45 0.34
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (78 bp):
GGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCA
ATTTTTCACAATA
Found at i:879998 original size:42 final size:42
Alignment explanation
Indices: 879939--880813 Score: 427
Period size: 42 Copynumber: 20.8 Consensus size: 42
879929 CTTACCCTTC
* * * *
879939 AGTCTGCTTGTCAGCTTTGACCCTAGAGACTGCCTCATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTCATCTAA
* * * **
879981 AGTCTGCTTGTCGGCTTTGACCCTAGAGACTTTACT-A-CTTTC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTCCTCATC-TAA
** * *
880023 AGTCTG-CTAGTCAACTTTAACCCTGGAGACTACCTCATCTAA
1 AGTCTGCCT-GTCGGCTTTGACCCTGGAGACTTCCTCATCTAA
* * * **
880065 AGTCTACCTGTCGGCTTTGACCCTAGAGACTTTACT-A-CTTTT
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTCCTCATC-TAA
** * * *
880107 AGTCTGCCAATCGACTTTGACCCTAGAGACTACCTCATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTCATCTAA
* * * * * * * **
880149 AGTCTACTTGTCAGCTTTGACCTTGGAGACTTTCTTACCCTTT
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTCA-TCTAA
* * ** * *
880192 AGTCTGTCTGTTGGCTTTGACTATAGAGA-TTGCCTTATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTT-CCTCATCTAA
* * * **
880234 AGTCTGTCTGTTGGCTTTGACCTTGGAGACTT--TCATACTTTC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTCAT-C-TAA
* * * *
880276 AGTTTGCCTATCGGTTTTGATCCTGGAGACTTCCTCATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTCATCTAA
* * * * * **
880318 AGTCTACCTGTCGGCTTTGACCTTGGAGACTTTCTTACCCTTT
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTCA-TCTAA
** * * *
880361 AGTCTGCCTGTCAACTTTGATCTTGGAGACTACCTCATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTCATCTAA
* * **
880403 AGTCTGCCTGTCGGCTTTGACCTTGAAGACTTTCCT-A-CTTTC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTCCTCATC-TAA
* * * * *
880445 AGTCTGCCTATCAGTTTTGACCTTGGAGACTACCTCATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTCATCTAA
* *
880487 AGTCTACCTGTCGGCTTTGACCTTGGAGACTTTCCTACCATCT--
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTCCT--CATCTAA
* * * **
880530 -GTCTACCTGTTGGCTTTGACCCTAGAGACTTTCCT-A-CTTTC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTCCTCATC-TAA
* * * *
880571 AGTCTGCCTATCAGCTTTGACCTTGGAGACTACCTCATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTCATCTAA
* ** * * * * * * *
880613 AGTCTGCCTATTAGCTTTAACCCTAGATACTTTCTTACCCT-C
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTCA-TCTAA
** *
880655 AGTCTATCTGTCAGCTTTGACCCTGGAGA-TTGCCTCATCTAA
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTT-CCTCATCTAA
* * * * * * * **
880697 AGTCTGCTTATCGACTTTGACCCTAGAGACTTTCTTACCCTTT
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTCA-TCTAA
* * * * * * * **
880740 AGTTTGTCTATCGGCTTAGACCCTCGAGA-TTGTCTCACCTCC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTT-CCTCATCTAA
* *
880782 AGTCTGCCTGTCGGCTTTAACCTTGGAGACTT
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTT
880814 TTTCACCTTT
Statistics
Matches: 622, Mismatches: 173, Indels: 75
0.71 0.20 0.09
Matches are distributed among these distances:
38 1 0.00
39 2 0.00
40 3 0.00
41 23 0.04
42 467 0.75
43 117 0.19
44 4 0.01
45 5 0.01
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.36
Consensus pattern (42 bp):
AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTCATCTAA
Found at i:880314 original size:169 final size:168
Alignment explanation
Indices: 879936--880525 Score: 722
Period size: 169 Copynumber: 3.5 Consensus size: 168
879926 TTTCTTACCC
* * * * * * *
879936 TTCAGTCTGCTTGTCAGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCTTGTCGGCTTTGA
1 TTCAGTCTGCCTATCGGTTTTGACCCTAGAGACTACCTCATCTAAAGTCTACCTGTCGGCTTTGA
* * * *
880001 CCCTAGAGACTTTAC-TA--CTTTCAGTCTG-CTAGTCAACTTTAACCCTGGAGACTACCTCATC
66 CCTTGGAGACTTT-CTTACCCTTT-AGTCTGCCT-GTCAACTTTGA-CTTGGAGACTACCTCATC
* * *
880062 TAAAGTCTACCTGTCGGCTTTGACCCTAGAGACTTT-ACTACT
127 TAAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCA-TACT
* * ** * *
880104 TTTAGTCTGCCAATCGACTTTGACCCTAGAGACTACCTCATCTAAAGTCTACTTGTCAGCTTTGA
1 TTCAGTCTGCCTATCGGTTTTGACCCTAGAGACTACCTCATCTAAAGTCTACCTGTCGGCTTTGA
* *** * * * *
880169 CCTTGGAGACTTTCTTACCCTTTAGTCTGTCTGTTGGCTTTGACTATAGAGATTGCCTTATCTAA
66 CCTTGGAGACTTTCTTACCCTTTAGTCTGCCTGTCAACTTTGACT-TGGAGACTACCTCATCTAA
* *
880234 AGTCTGTCTGTTGGCTTTGACCTTGGAGACTTTCATACT
130 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCATACT
* * * *
880273 TTCAGTTTGCCTATCGGTTTTGATCCTGGAGACTTCCTCATCTAAAGTCTACCTGTCGGCTTTGA
1 TTCAGTCTGCCTATCGGTTTTGACCCTAGAGACTACCTCATCTAAAGTCTACCTGTCGGCTTTGA
880338 CCTTGGAGACTTTCTTACCCTTTAGTCTGCCTGTCAACTTTGATCTTGGAGACTACCTCATCTAA
66 CCTTGGAGACTTTCTTACCCTTTAGTCTGCCTGTCAACTTTGA-CTTGGAGACTACCTCATCTAA
* *
880403 AGTCTGCCTGTCGGCTTTGACCTTGAAGACTTTCCTACT
130 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCATACT
* * *
880442 TTCAGTCTGCCTATCAGTTTTGACCTTGGAGACTACCTCATCTAAAGTCTACCTGTCGGCTTTGA
1 TTCAGTCTGCCTATCGGTTTTGACCCTAGAGACTACCTCATCTAAAGTCTACCTGTCGGCTTTGA
*
880507 CCTTGGAGACTTTCCTACC
66 CCTTGGAGACTTTCTTACC
880526 ATCTGTCTAC
Statistics
Matches: 362, Mismatches: 53, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
167 1 0.00
168 70 0.19
169 282 0.78
170 9 0.02
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (168 bp):
TTCAGTCTGCCTATCGGTTTTGACCCTAGAGACTACCTCATCTAAAGTCTACCTGTCGGCTTTGA
CCTTGGAGACTTTCTTACCCTTTAGTCTGCCTGTCAACTTTGACTTGGAGACTACCTCATCTAAA
GTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCATACT
Found at i:880521 original size:84 final size:84
Alignment explanation
Indices: 879936--880524 Score: 664
Period size: 84 Copynumber: 7.0 Consensus size: 84
879926 TTTCTTACCC
* * * * * *
879936 TTCAGTCTGCTTGTCAGCTTTGACCCTAGAGACTGCCTCATCTAAAGTCTGCTTGTCGGCTTTGA
1 TTCAGTCTGCCTATCAGCTTTGACCCTGGAGACTACCTCATCTAAAGTCTACCTGTCGGCTTTGA
* * *
880001 CCCTAGAGACTTTACTACT
66 CCTTGGAGACTTTCCTACT
* *
880020 TTCAGTCTG-CTAGTCAACTTTAACCCTGGAGACTACCTCATCTAAAGTCTACCTGTCGGCTTTG
1 TTCAGTCTGCCTA-TCAGCTTTGACCCTGGAGACTACCTCATCTAAAGTCTACCTGTCGGCTTTG
* * *
880084 ACCCTAGAGACTTTACTACT
65 ACCTTGGAGACTTTCCTACT
* * * * *
880104 TTTAGTCTGCCAATC-GACTTTGACCCTAGAGACTACCTCATCTAAAGTCTACTTGTCAGCTTTG
1 TTCAGTCTGCCTATCAG-CTTTGACCCTGGAGACTACCTCATCTAAAGTCTACCTGTCGGCTTTG
*
880168 ACCTTGGAGACTTTCTTACCCT
65 ACCTTGGAGACTTTCCTA--CT
* * ** ** * * * * ** *
880190 TT-AGTCTGTCTGTTGGCTTTGACTATAGAGATTGCCTTATCTAAAGTCTGTCTGTTGGCTTTGA
1 TTCAGTCTGCCTATCAGCTTTGACCCTGGAGACTACCTCATCTAAAGTCTACCTGTCGGCTTTGA
*
880254 CCTTGGAGACTTTCATACT
66 CCTTGGAGACTTTCCTACT
* * * * *
880273 TTCAGTTTGCCTATCGGTTTTGATCCTGGAGACTTCCTCATCTAAAGTCTACCTGTCGGCTTTGA
1 TTCAGTCTGCCTATCAGCTTTGACCCTGGAGACTACCTCATCTAAAGTCTACCTGTCGGCTTTGA
*
880338 CCTTGGAGACTTTCTTACCCT
66 CCTTGGAGACTTTCCTA--CT
* * * * *
880359 TT-AGTCTGCCTGTCAACTTTGATCTTGGAGACTACCTCATCTAAAGTCTGCCTGTCGGCTTTGA
1 TTCAGTCTGCCTATCAGCTTTGACCCTGGAGACTACCTCATCTAAAGTCTACCTGTCGGCTTTGA
*
880423 CCTTGAAGACTTTCCTACT
66 CCTTGGAGACTTTCCTACT
* *
880442 TTCAGTCTGCCTATCAGTTTTGACCTTGGAGACTACCTCATCTAAAGTCTACCTGTCGGCTTTGA
1 TTCAGTCTGCCTATCAGCTTTGACCCTGGAGACTACCTCATCTAAAGTCTACCTGTCGGCTTTGA
880507 CCTTGGAGACTTTCCTAC
66 CCTTGGAGACTTTCCTAC
880525 CATCTGTCTA
Statistics
Matches: 429, Mismatches: 66, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
83 9 0.02
84 278 0.65
85 133 0.31
86 9 0.02
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (84 bp):
TTCAGTCTGCCTATCAGCTTTGACCCTGGAGACTACCTCATCTAAAGTCTACCTGTCGGCTTTGA
CCTTGGAGACTTTCCTACT
Found at i:881354 original size:3 final size:3
Alignment explanation
Indices: 881348--881392 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
881338 AACAATAAAA
*
881348 AAT AAT AA- AAT AAT AA- AAT ATT AAT AAT -AT AAT AAT AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
881392 A
1 A
881393 GTATTAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
2 8 0.22
3 28 0.78
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:881359 original size:8 final size:8
Alignment explanation
Indices: 881341--881392 Score: 63
Period size: 8 Copynumber: 6.5 Consensus size: 8
881331 CATGAACAAC
881341 AATAA-AA
1 AATAATAA
881348 AATAATAA
1 AATAATAA
881356 AATAATAA
1 AATAATAA
*
881364 AATATTAA
1 AATAATAA
881372 TAAT-ATAA
1 -AATAATAA
881380 TAATAATAA
1 -AATAATAA
881389 AATA
1 AATA
881393 GTATTAATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
7 5 0.12
8 28 0.70
9 7 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
AATAATAA
Found at i:881372 original size:11 final size:11
Alignment explanation
Indices: 881341--881392 Score: 63
Period size: 11 Copynumber: 4.8 Consensus size: 11
881331 CATGAACAAC
881341 AATAAAA-AAT
1 AATAAAATAAT
881351 AATAAAATAAT
1 AATAAAATAAT
*
881362 AA-AATATTAAT
1 AATAA-AATAAT
*
881373 AATATAATAAT
1 AATAAAATAAT
881384 AATAAAATA
1 AATAAAATA
881393 GTATTAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
10 9 0.26
11 25 0.71
12 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:881375 original size:14 final size:14
Alignment explanation
Indices: 881341--881392 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
881331 CATGAACAAC
881341 AATAA-AAAATAAT
1 AATAATAAAATAAT
881354 AA-AATAATAA-AAT
1 AATAATAA-AATAAT
* *
881367 ATTAATAATATAAT
1 AATAATAAAATAAT
881381 AATAATAAAATA
1 AATAATAAAATA
881393 GTATTAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
12 2 0.06
13 9 0.29
14 20 0.65
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AATAATAAAATAAT
Found at i:881400 original size:14 final size:14
Alignment explanation
Indices: 881346--881423 Score: 52
Period size: 14 Copynumber: 5.5 Consensus size: 14
881336 ACAACAATAA
*
881346 AAAATAATA-AAAT
1 AAAATAATATTAAT
881359 AATAA-AATATTAAT
1 AA-AATAATATTAAT
* *
881373 AATATAATAATAAT
1 AAAATAATATTAAT
*
881387 AAAATAGTATTAAT
1 AAAATAATATTAAT
* * *
881401 TAATTAATTAATTAAC
1 AAAATAA-T-ATTAAT
881417 AAAATAA
1 AAAATAA
881424 AAAATTAATT
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
13 7 0.15
14 30 0.62
15 1 0.02
16 10 0.21
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (14 bp):
AAAATAATATTAAT
Found at i:881408 original size:25 final size:25
Alignment explanation
Indices: 881352--881404 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
881342 ATAAAAAATA
*
881352 ATAA-AATAATAAAATATTAATAAT
1 ATAATAATAATAAAATAGTAATAAT
*
881376 ATAATAATAATAAAATAGTATTAAT
1 ATAATAATAATAAAATAGTAATAAT
881401 -TAAT
1 ATAAT
881405 TAATTAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (25 bp):
ATAATAATAATAAAATAGTAATAAT
Found at i:881654 original size:14 final size:14
Alignment explanation
Indices: 881619--881782 Score: 114
Period size: 14 Copynumber: 12.1 Consensus size: 14
881609 TTGCATGCTT
881619 TTAC-TTTCATGCA
1 TTACATTTCATGCA
881632 -TAC-TTTCATGCA
1 TTACATTTCATGCA
881644 TTACATTTCATGCA
1 TTACATTTCATGCA
881658 TTACATTTCATGCA
1 TTACATTTCATGCA
* * *
881672 -TGCATTTCACGTA
1 TTACATTTCATGCA
*
881685 TTTTCATTTCATG--
1 -TTACATTTCATGCA
*
881698 ---CATTTCATACA
1 TTACATTTCATGCA
*
881709 TTACATTTCATACA
1 TTACATTTCATGCA
* *
881723 -TGCATTTCATACGTAA
1 TTACATTTCAT--G-CA
*
881739 TGTTCATTTCATGCA
1 T-TACATTTCATGCA
* *
881754 TTTCGTTTCATGCA
1 TTACATTTCATGCA
881768 TTACATTTCATGCA
1 TTACATTTCATGCA
881782 T
1 T
881783 GTTTTCTTTC
Statistics
Matches: 123, Mismatches: 14, Indels: 27
0.75 0.09 0.16
Matches are distributed among these distances:
9 8 0.07
12 12 0.10
13 22 0.18
14 59 0.48
15 11 0.09
16 2 0.02
18 9 0.07
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.45
Consensus pattern (14 bp):
TTACATTTCATGCA
Found at i:881751 original size:27 final size:26
Alignment explanation
Indices: 881662--881757 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 26
881652 CATGCATTAC
*
881662 ATTTCA-TGCATGCATTTC--ACGTA
1 ATTTCATTTCATGCATTTCATACGTA
* *
881685 TTTTCATTTCATGCATTTCATACATTA
1 ATTTCATTTCATGCATTTCATAC-GTA
*
881712 CATTTCA-TACATGCATTTCATACGTA
1 -ATTTCATTTCATGCATTTCATACGTA
881738 ATGTTCATTTCATGCATTTC
1 AT-TTCATTTCATGCATTTC
881758 GTTTCATGCA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
23 5 0.08
24 11 0.19
25 2 0.03
26 8 0.14
27 28 0.47
28 5 0.08
ACGTcount: A:0.26, C:0.21, G:0.08, T:0.45
Consensus pattern (26 bp):
ATTTCATTTCATGCATTTCATACGTA
Found at i:882237 original size:33 final size:33
Alignment explanation
Indices: 882180--882266 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 33
882170 ACTGTTACTA
* * * *
882180 CAAATGAATAACAATTGTAACAGCAGTTCAAAGG
1 CAAATGAAT-GCAATCGAAACAGCAATTCAAAGG
882214 -AGAATGAATGCAATCGAAACAGCAATTCAAAGG
1 CA-AATGAATGCAATCGAAACAGCAATTCAAAGG
*
882247 CAAATGAATGCAATTGAAAC
1 CAAATGAATGCAATCGAAAC
882267 TGCTGTAATC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 38 0.83
34 8 0.17
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (33 bp):
CAAATGAATGCAATCGAAACAGCAATTCAAAGG
Found at i:888884 original size:8 final size:8
Alignment explanation
Indices: 888871--888898 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
888861 CCAAACACAA
888871 AAAAAAAC
1 AAAAAAAC
888879 AAAAAAAC
1 AAAAAAAC
888887 AAAAAAAC
1 AAAAAAAC
888895 AAAA
1 AAAA
888899 CAAAAAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:888890 original size:13 final size:13
Alignment explanation
Indices: 888867--888905 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
888857 TTTTCCAAAC
888867 ACAAAA-AAAAACA
1 ACAAAACAAAAA-A
*
888880 AAAAAACAAAAAA
1 ACAAAACAAAAAA
888893 ACAAAACAAAAAA
1 ACAAAACAAAAAA
888906 TCTCGGTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (13 bp):
ACAAAACAAAAAA
Found at i:888892 original size:20 final size:21
Alignment explanation
Indices: 888863--888905 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
888853 TTTCTTTTCC
*
888863 AAACACAAAAA-AAAACAAAA
1 AAACAAAAAAACAAAACAAAA
888883 AAACAAAAAAACAAAACAAAA
1 AAACAAAAAAACAAAACAAAA
888904 AA
1 AA
888906 TCTCGGTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (21 bp):
AAACAAAAAAACAAAACAAAA
Found at i:889925 original size:31 final size:31
Alignment explanation
Indices: 889884--890502 Score: 211
Period size: 34 Copynumber: 19.9 Consensus size: 31
889874 CTTCAAATAC
* *
889884 CTTCTTAAAGTCCATGACTCCGTGGCACCTT
1 CTTCTCAAAGTCCACGACTCCGTGGCACCTT
**
889915 CTTCTCAAAGTCCACGACTGAGTGGCATCCTT
1 CTTCTCAAAGTCCACGACTCCGTGGCA-CCTT
* **
889947 -TTCTTCAAAGTCCACGACTCAGTGG-AAATCT
1 CTTC-TCAAAGTCCACGACTCCGTGGCACCT-T
*
889978 CTGCTCAAAGTCCACGACTCCGTGGCACCTT
1 CTTCTCAAAGTCCACGACTCCGTGGCACCTT
* * *
890009 CCTT-TCAAAGCCCACAACTCTGTGGCACTCTT
1 -CTTCTCAAAGTCCACGACTCCGTGGCAC-CTT
* * *
890041 TTTCCCTTTTAAAGTCCACGACTCCATGGCACCTT
1 CTT--C--TCAAAGTCCACGACTCCGTGGCACCTT
* * *
890076 CTTTTCAAAGCCCACAACTCCGTGGCACC--
1 CTTCTCAAAGTCCACGACTCCGTGGCACCTT
* * * *
890105 CTT-T-TAAGCCCACAACTCCGTGGCACTTT
1 CTTCTCAAAGTCCACGACTCCGTGGCACCTT
* * *
890134 TTTCATCTTTAAGTCCACAACTCCGTGGCACC--
1 CTTC-TC--AAAGTCCACGACTCCGTGGCACCTT
* * *
890166 CTTCT--AAGCCCACAACTCCGTGGCACTTT
1 CTTCTCAAAGTCCACGACTCCGTGGCACCTT
* * * *
890195 TTTCATCTTTAAGTCCACAACTCCGTGGCACATTTTT
1 CTTC-TC--AAAGTCCACGACTCCGTGGCAC---CTT
* * * *
890232 CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
1 CTTCTCAAAGTCCACGACTCCGTGGCACC---TT
* * *
890266 CTTTTTAAAGCCCAC-AGCTCCGTGGCACTCTT
1 CTTCTCAAAGTCCACGA-CTCCGTGGCAC-CTT
** * *
890298 -TTCCCGTTTAAGCCCACAACTCCGTGGCACC--
1 CTT--C-TCAAAGTCCACGACTCCGTGGCACCTT
* * **
890329 CTT-T-TAAGTCCACAACTTAGTGGCACCTT
1 CTTCTCAAAGTCCACGACTCCGTGGCACCTT
* *
890358 C-TCATCAAAGTCCACAACTTCGTGGCACC--
1 CTTC-TCAAAGTCCACGACTCCGTGGCACCTT
* * * *
890387 CTT-TTAAAGCCCACAACTTCGTGGCACTCATT
1 CTTCTCAAAGTCCACGACTCCGTGGCAC-C-TT
* *
890419 -TTCCTTCTAAGTCCACAACTCCGTGGCACC--
1 CTT-C-TCAAAGTCCACGACTCCGTGGCACCTT
* **
890449 CGTT-T--AAGCCCATAACTCCGTGGCACC--
1 C-TTCTCAAAGTCCACGACTCCGTGGCACCTT
*
890476 CTT-T-TAAGTCCACGACTCCGTGGCACC
1 CTTCTCAAAGTCCACGACTCCGTGGCACC
890503 CTTTTTTCCT
Statistics
Matches: 472, Mismatches: 61, Indels: 114
0.73 0.09 0.18
Matches are distributed among these distances:
26 3 0.01
27 101 0.21
28 25 0.05
29 12 0.03
30 4 0.01
31 120 0.25
32 42 0.09
33 3 0.01
34 130 0.28
35 7 0.01
36 20 0.04
37 5 0.01
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.29
Consensus pattern (31 bp):
CTTCTCAAAGTCCACGACTCCGTGGCACCTT
Found at i:890059 original size:67 final size:67
Alignment explanation
Indices: 889984--890109 Score: 216
Period size: 67 Copynumber: 1.9 Consensus size: 67
889974 ATCTCTGCTC
* * *
889984 AAAGTCCACGACTCCGTGGCACCTTCCTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTT
1 AAAGTCCACGACTCCATGGCACCTTCCTTTCAAAGCCCACAACTCCGTGGCACCCTTTTTCCCTT
890049 TT
66 TT
*
890051 AAAGTCCACGACTCCATGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTTTT
1 AAAGTCCACGACTCCATGGCACCTTCCTTTCAAAGCCCACAACTCCGTGGCACCCTTTT
890110 AAGCCCACAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 55 1.00
ACGTcount: A:0.21, C:0.37, G:0.13, T:0.29
Consensus pattern (67 bp):
AAAGTCCACGACTCCATGGCACCTTCCTTTCAAAGCCCACAACTCCGTGGCACCCTTTTTCCCTT
TT
Found at i:890071 original size:36 final size:31
Alignment explanation
Indices: 889890--890104 Score: 168
Period size: 31 Copynumber: 6.7 Consensus size: 31
889880 ATACCTTCTT
*
889890 AAAGTCCATGACTCCGTGGCACCTT-CTTCTC
1 AAAGTCCACGACTCCGTGGCACCTTCCTT-TC
** *
889921 AAAGTCCACGACTGAGTGGCATCCTT-TTCTTC
1 AAAGTCCACGACTCCGTGGCA-CCTTCCT-TTC
* ** *
889953 AAAGTCCACGACTCAGTGG-A-AATCTCTGCTC
1 AAAGTCCACGACTCCGTGGCACCTTC-CT-TTC
889984 AAAGTCCACGACTCCGTGGCACCTTCCTTTC
1 AAAGTCCACGACTCCGTGGCACCTTCCTTTC
* * * *
890015 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
1 AAAGTCCACGACTCCGTGGCAC-C---TT-CCTTTC
* *
890051 AAAGTCCACGACTCCATGGCACCTTCTTTTC
1 AAAGTCCACGACTCCGTGGCACCTTCCTTTC
* *
890082 AAAGCCCACAACTCCGTGGCACC
1 AAAGTCCACGACTCCGTGGCACC
890105 CTTTTAAGCC
Statistics
Matches: 146, Mismatches: 27, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
29 1 0.01
31 85 0.58
32 31 0.21
33 3 0.02
35 3 0.02
36 23 0.16
ACGTcount: A:0.23, C:0.34, G:0.16, T:0.27
Consensus pattern (31 bp):
AAAGTCCACGACTCCGTGGCACCTTCCTTTC
Found at i:890075 original size:27 final size:28
Alignment explanation
Indices: 890044--890507 Score: 256
Period size: 34 Copynumber: 15.2 Consensus size: 28
890034 CACTCTTTTT
* * *
890044 CCCTTTTAAAGTCCACGACTCCATGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCA
890072 CCTTCTTTTCAAAGCCCACAACTCCGTGGCA
1 CC--CTTTT-AAAGCCCACAACTCCGTGGCA
890103 CCCTTTT-AAGCCCACAACTCCGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCA
** *
890130 CTTTTTTCATCTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTT-A-----AAGCCCACAACTCCGTGGCA
*
890164 CCCTTCT-AAGCCCACAACTCCGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCA
** *
890191 CTTTTTTCATCTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTT-A-----AAGCCCACAACTCCGTGGCA
*
890225 CATTTTTCTTTTTAAAGCCCACAACTCCGTGGCA
1 C------CCTTTTAAAGCCCACAACTCCGTGGCA
*
890259 CCTTTTTCTTTTTAAAGCCCACAGCTCCGTGGCA
1 CC-----C-TTTTAAAGCCCACAACTCCGTGGCA
* *
890293 CTCTTTTCCCGTTTAAGCCCACAACTCCGTGGCA
1 C-C-CTT----TTAAAGCCCACAACTCCGTGGCA
* **
890327 CCCTTTT-AAGTCCACAACTTAGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCA
* *
890354 -CCTTCTCATCAAAGTCCACAACTTCGTGGCA
1 CCCTT-T--T-AAAGCCCACAACTCCGTGGCA
*
890385 CCCTTTTAAAGCCCACAACTTCGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCA
* * *
890413 CTCATTTTCCTTCTAAGTCCACAACTCCGTGGCA
1 C-C--CTT--TT-AAAGCCCACAACTCCGTGGCA
* *
890447 CCCGTTT-AAGCCCATAACTCCGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCA
* *
890474 CCCTTTT-AAGTCCACGACTCCGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCA
890501 CCCTTTT
1 CCCTTTT
890508 TTCCTTTAAA
Statistics
Matches: 351, Mismatches: 39, Indels: 93
0.73 0.08 0.19
Matches are distributed among these distances:
26 4 0.01
27 114 0.32
28 26 0.07
29 10 0.03
30 7 0.02
31 44 0.13
32 6 0.02
33 4 0.01
34 129 0.37
35 1 0.00
39 1 0.00
40 5 0.01
ACGTcount: A:0.22, C:0.35, G:0.14, T:0.30
Consensus pattern (28 bp):
CCCTTTTAAAGCCCACAACTCCGTGGCA
Found at i:890152 original size:34 final size:33
Alignment explanation
Indices: 890016--890327 Score: 269
Period size: 34 Copynumber: 9.6 Consensus size: 33
890006 CTTCCTTTCA
* *
890016 AAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
1 AAGCCCACAACTCCGTGGCACT-TTTTTCTC-TTT
* * * * *
890051 AAAGTCCACGACTCCATGGCACCTTCTTT-TC--A
1 -AAGCCCACAACTCCGTGGCA-CTTTTTTCTCTTT
*
890083 AAGCCCACAACTCCGTGGCAC-----CCT-TTT
1 AAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
890110 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTC-TCTTT
*
890144 AAGTCCACAACTCCGTGGCAC------C-CTTCT
1 AAGCCCACAACTCCGTGGCACTTTTTTCTCTT-T
890171 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTC-TCTTT
* * *
890205 AAGTCCACAACTCCGTGGCACATTTTTCTTTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
* *
890238 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 -AAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
* * *
890272 AAAGCCCACAGCTCCGTGGCACTCTTTTCCCGTTT
1 -AAGCCCACAACTCCGTGGCACTTTTTTCTC-TTT
890307 AAGCCCACAACTCCGTGGCAC
1 AAGCCCACAACTCCGTGGCAC
890328 CCTTTTAAGT
Statistics
Matches: 228, Mismatches: 26, Indels: 46
0.76 0.09 0.15
Matches are distributed among these distances:
26 4 0.02
27 42 0.18
28 1 0.00
30 1 0.00
31 17 0.07
32 1 0.00
33 6 0.03
34 127 0.56
35 7 0.03
36 20 0.09
37 2 0.01
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.30
Consensus pattern (33 bp):
AAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
Found at i:890333 original size:34 final size:34
Alignment explanation
Indices: 890164--890573 Score: 179
Period size: 34 Copynumber: 12.9 Consensus size: 34
890154 CTCCGTGGCA
* *
890164 CCCTTCTAAGCCCACAACTCCGTGGCA-CTTTTT
1 CCCTTTTAAGCCCACAACTCCGTGGCACCCTTTT
* * * *
890197 TCATCTTTAAGTCCACAACTCCGTGGCA-CATTTT
1 CCCT-TTTAAGCCCACAACTCCGTGGCACCCTTTT
* *
890231 TCTTTTTAAAGCCCACAACTCCGTGGCA-CCTTTT
1 CCCTTTT-AAGCCCACAACTCCGTGGCACCCTTTT
* * * *
890265 TCTTTTTAAAGCCCACAGCTCCGTGGCACTCTTTT
1 CCCTTTT-AAGCCCACAACTCCGTGGCACCCTTTT
*
890300 CCCGTTTAAGCCCACAACTCCGTGGCA-------
1 CCCTTTTAAGCCCACAACTCCGTGGCACCCTTTT
* **
890327 CCCTTTTAAGTCCACAACTTAGTGGCA-CC--TT
1 CCCTTTTAAGCCCACAACTCCGTGGCACCCTTTT
* * ** * *
890358 CTCATCAAAGTCCACAACTTCGTGGCACCC---T
1 CCCTTTTAAGCCCACAACTCCGTGGCACCCTTTT
* * *
890389 ---TTTAAAGCCCACAACTTCGTGGCACTCATTTT
1 CCCTTTTAAGCCCACAACTCCGTGGCAC-CCTTTT
* *
890421 -CCTTCTAAGTCCACAACTCCGTGGCA-------
1 CCCTTTTAAGCCCACAACTCCGTGGCACCCTTTT
* *
890447 CCCGTTTAAGCCCATAACTCCGTGGCA-------
1 CCCTTTTAAGCCCACAACTCCGTGGCACCCTTTT
* *
890474 CCCTTTTAAGTCCACGACTCCGTGGCACCCTTTTT
1 CCCTTTTAAGCCCACAACTCCGTGGCACCC-TTTT
* * * *
890509 TCCTTTAAAGCCCACAACTACGTGGCACTCTTTT
1 CCCTTTTAAGCCCACAACTCCGTGGCACCCTTTT
* * * *
890543 -CCTTTTAAGTCCACAAGTCGGTGGCAACCTT
1 CCCTTTTAAGCCCACAACTCCGTGGCACCCTT
890574 CTTCTAAAGC
Statistics
Matches: 302, Mismatches: 52, Indels: 46
0.75 0.13 0.12
Matches are distributed among these distances:
27 68 0.23
28 22 0.07
29 1 0.00
31 23 0.08
32 3 0.01
33 29 0.10
34 123 0.41
35 33 0.11
ACGTcount: A:0.21, C:0.34, G:0.14, T:0.30
Consensus pattern (34 bp):
CCCTTTTAAGCCCACAACTCCGTGGCACCCTTTT
Found at i:890444 original size:62 final size:61
Alignment explanation
Indices: 889985--890588 Score: 329
Period size: 61 Copynumber: 9.6 Consensus size: 61
889975 TCTCTGCTCA
* * * *
889985 AAGTCCACGACTCCGTGGCACCTTCCTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTT
1 AAGTCCACAACTCCGTGGCA-C--CCTTTTAAAGCCCACAACTCCGTGGCACTC-TTTT-CCTTC
890050 T
61 T
* * *
890051 AAAGTCCACGACTCCATGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCA--C----CCTTTT
1 -AAGTCCACAACTCCGTGGCACC--CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTCCTTCT
* ** *
890110 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCA--C----CCTT
1 AAGTCCACAACTCCGTGGCACCCTTTT-A-----AAGCCCACAACTCCGTGGCACTCTTTTCCTT
890169 CT
60 CT
* ** * *
890171 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACAT-TTTTCTT
1 AAGTCCACAACTCCGTGGCACCCTTTT-A-----AAGCCCACAACTCCGTGGCAC-TCTTTTCCT
*
890235 TTT
59 TCT
* *
890238 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAGCTCCGTGGCACTCTTTTCCC
1 -AAGTCCACAACTCCGTGGCACC-----C-TTTTAAAGCCCACAACTCCGTGGCACTCTTTT-CC
890303 GTT-T
58 -TTCT
* * ** * * *
890307 AAGCCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTTAGTGGCAC-CTTCT-CATCA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCTTCT
* *
890365 AAGTCCACAACTTCGTGGCACCCTTTTAAAGCCCACAACTTCGTGGCACTCATTTTCCTTCT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACTC-TTTTCCTTCT
* * *
890427 AAGTCCACAACTCCGTGGCACCCGTTT-AAGCCCATAACTCCGTGGCA--C----CCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCTTCT
* *
890481 AAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTTCCT
1 AAGTCCACAACTCCGTGGCACCC-----T--TTTAAAGCCCACAACTCCGTGGCACTCTTTTCCT
*
890546 TTT
59 TCT
* * *
890549 AAGTCCACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACA
1 AAGTCCACAACTCCGTGGC-ACC--CTTTTAAAGCCCACA
890589 CAAGTCGGTG
Statistics
Matches: 446, Mismatches: 44, Indels: 97
0.76 0.07 0.17
Matches are distributed among these distances:
54 27 0.06
56 6 0.01
57 1 0.00
58 44 0.10
59 26 0.06
60 5 0.01
61 120 0.27
62 50 0.11
63 1 0.00
64 14 0.03
65 1 0.00
66 6 0.01
67 44 0.10
68 88 0.20
69 5 0.01
70 2 0.00
71 1 0.00
73 1 0.00
74 4 0.01
ACGTcount: A:0.22, C:0.35, G:0.14, T:0.29
Consensus pattern (61 bp):
AAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCTTCT
Found at i:890472 original size:120 final size:115
Alignment explanation
Indices: 889985--890568 Score: 353
Period size: 120 Copynumber: 4.7 Consensus size: 115
889975 TCTCTGCTCA
*
889985 AAGTCCACGACTCCGTGGCA-CCTTCCTTTCAAAGCCCACAACT-CTGTGGCACTCTTTTTCCCT
1 AAGTCCACAACTCCGTGGCACCCTT--TTT-AAAGCCCACAACTAC-GTGGCACTC-TTTT-CC-
* * * *
890048 TTTAAAGTCCACGACTCCATGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTTTT
59 TTT-AAGTCCACAACTCCGTGGCACC--CGTTT--AAGCCCACAACTCAGTGGCACCCTTTT
* * * * *
890110 AAGCCCACAACTCCGTGGCA-CTTTTTTCATCTTTAAGTCCACAACTCCGTGGCAC-C-CTT-C-
1 AAGTCCACAACTCCGTGGCACCCTTTTT-A-----AAGCCCACAACTACGTGGCACTCTTTTCCT
* * *
890170 -TAAGCCCACAACTCCGTGGCACTTTTTTCATC-TTTAAGTCCACAACTCCGTGGCACATTTTTC
60 TTAAGTCCACAACTCCGTGGCAC------C--CGTTTAAGCCCACAACTCAGTGGCAC------C
*
890233 TTTTT
111 CTTTT
* * *
890238 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAGCTCCGTGGCACTCTTTTCCC
1 -AAGTCCACAACTCCGTGGCACC-----CTTTTTAAAGCCCACAACTACGTGGCACTCTTTT-CC
* * * *
890303 GTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTAGTGGCA-CCTTCTCAT
59 -TTTAAGTCCACAACTCCGTGGCACCCGTTTAAGCCCACAACTCAGTGGCACCCTT-T--T
* *
890363 CAAAGTCCACAACTTCGTGGCACCC-TTTTAAAGCCCACAACTTCGTGGCACTCATTTTCCTTCT
1 --AAGTCCACAACTCCGTGGCACCCTTTTTAAAGCCCACAACTACGTGGCACTC-TTTTCCTT-T
* *
890427 AAGTCCACAACTCCGTGGCACCCGTTTAAGCCCATAACTCCGTGGCACCCTTTT
62 AAGTCCACAACTCCGTGGCACCCGTTTAAGCCCACAACTCAGTGGCACCCTTTT
*
890481 AAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTTCCT
1 AAGTCCACAACTCCGTGGCACCC----TT--TTTAAAGCCCACAACTACGTGGCACTCTTTTCC-
* *
890546 TTTAAGTCCACAAGTCGGTGGCA
59 TTTAAGTCCACAACTCCGTGGCA
890569 ACCTTCTTCT
Statistics
Matches: 378, Mismatches: 33, Indels: 99
0.74 0.06 0.19
Matches are distributed among these distances:
116 21 0.06
118 1 0.00
119 20 0.05
120 72 0.19
121 10 0.03
122 48 0.13
123 35 0.09
124 3 0.01
125 27 0.07
126 21 0.06
127 1 0.00
128 24 0.06
129 61 0.16
130 3 0.01
131 2 0.01
133 1 0.00
134 1 0.00
135 5 0.01
136 22 0.06
ACGTcount: A:0.22, C:0.35, G:0.14, T:0.30
Consensus pattern (115 bp):
AAGTCCACAACTCCGTGGCACCCTTTTTAAAGCCCACAACTACGTGGCACTCTTTTCCTTTAAGT
CCACAACTCCGTGGCACCCGTTTAAGCCCACAACTCAGTGGCACCCTTTT
Found at i:890510 original size:89 final size:89
Alignment explanation
Indices: 890373--890536 Score: 224
Period size: 89 Copynumber: 1.8 Consensus size: 89
890363 CAAAGTCCAC
* * * *
890373 AACTTCGTGGCACCCTTTTAAAGCCCACAACTTCGTGGCACTCATTTTCCTTCT-AAGTCCACAA
1 AACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACCCATTTTCCTT-TAAAGCCCACAA
*
890437 CTCCGTGGCACCCGTTTAAGCCCAT
65 CTACGTGGCACCCGTTTAAGCCCAT
* * *
890462 AACTCCGTGGCACCCTTTT-AAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTAAAGCCCACAA
1 AACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACCC-ATTTTCCTTTAAAGCCCACAA
890526 CTACGTGGCAC
65 CTACGTGGCAC
890537 TCTTTTCCTT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
88 20 0.31
89 45 0.69
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.27
Consensus pattern (89 bp):
AACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACCCATTTTCCTTTAAAGCCCACAAC
TACGTGGCACCCGTTTAAGCCCAT
Found at i:890533 original size:35 final size:33
Alignment explanation
Indices: 890475--890558 Score: 105
Period size: 35 Copynumber: 2.5 Consensus size: 33
890465 TCCGTGGCAC
* * *
890475 CCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTT
1 CCTTTTAAGTCCACAACTACGTGGCA--CTCTTTT
* *
890510 CCTTTAAAGCCCACAACTACGTGGCACTCTTTT
1 CCTTTTAAGTCCACAACTACGTGGCACTCTTTT
890543 CCTTTTAAGTCCACAA
1 CCTTTTAAGTCCACAA
890559 GTCGGTGGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 20 0.48
35 22 0.52
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.33
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTACGTGGCACTCTTTT
Found at i:890567 original size:33 final size:33
Alignment explanation
Indices: 890475--890568 Score: 100
Period size: 33 Copynumber: 2.8 Consensus size: 33
890465 TCCGTGGCAC
* *
890475 CCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTT
1 CCTTTTAAGTCCACAACT-CGTGGCA-CCTCTTTT
* *
890510 CCTTTAAAGCCCACAACTACGTGGCA-CTCTTTT
1 CCTTTTAAGTCCACAACT-CGTGGCACCTCTTTT
*
890543 CCTTTTAAGTCCACAAGTCGGTGGCA
1 CCTTTTAAGTCCACAACTC-GTGGCA
890569 ACCTTCTTCT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
32 1 0.02
33 27 0.54
35 22 0.44
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTCGTGGCACCTCTTTT
Found at i:890620 original size:32 final size:33
Alignment explanation
Indices: 890554--890674 Score: 210
Period size: 33 Copynumber: 3.7 Consensus size: 33
890544 CTTTTAAGTC
890554 CACAAGTCGGTGGCAA-CCTTCTTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTC-TCTAAAGCCCA
890587 CACAAGTCGGTGGCAACCCTTCTC-AAAGCCCA
1 CACAAGTCGGTGGCAACCCTTCTCTAAAGCCCA
*
890619 CACAAGTCGGTGGCAACCATTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTCTCTAAAGCCCA
890652 CACAAGTCGGTGGCAACCCTTCT
1 CACAAGTCGGTGGCAACCCTTCT
890675 AACCCCAATA
Statistics
Matches: 84, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
32 31 0.37
33 48 0.57
34 5 0.06
ACGTcount: A:0.27, C:0.35, G:0.19, T:0.19
Consensus pattern (33 bp):
CACAAGTCGGTGGCAACCCTTCTCTAAAGCCCA
Found at i:890732 original size:49 final size:49
Alignment explanation
Indices: 890679--891281 Score: 796
Period size: 49 Copynumber: 12.6 Consensus size: 49
890669 CCTTCTAACC
* * * *
890679 CCAATATAGCTGGCATTGAACCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
890728 CCAATGTAGCTGGCCTTGAATCAACACATTGGCA----C--CTTTAAGC
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
890771 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
890820 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * *
890863 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * *
890912 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * *
890961 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * *
891010 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
891059 CCAATGTAGCTGTCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
891108 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCA-CTTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC-TTTAAGT
*
891156 CCAATGTAGCTGGCCTTGAATCAGTACATTGGCA----C--CTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
891199 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGT
1 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGT
*
891251 TCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CCAATGTAGCTGGCCTTGAATCAGCACATTG
891282 ACATCCTTTT
Statistics
Matches: 489, Mismatches: 43, Indels: 41
0.85 0.08 0.07
Matches are distributed among these distances:
43 115 0.24
44 1 0.00
45 3 0.01
47 3 0.01
48 43 0.09
49 287 0.59
50 1 0.00
52 36 0.07
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
Found at i:891269 original size:52 final size:53
Alignment explanation
Indices: 891191--891344 Score: 193
Period size: 52 Copynumber: 2.9 Consensus size: 53
891181 ACATTGGCAC
891191 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
891243 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * * *
891298 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
891345 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 6 0.07
55 36 0.42
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:891402 original size:67 final size:68
Alignment explanation
Indices: 891294--891420 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
891284 ATCCTTTTTC
* * * *
891294 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCGTAAATCAACATATTGGCACCTTCATCATCTTTTCTCA
891358 TCT
66 TCT
* * * *
891361 TCATCTTTAAGTCCAATATTGCTGGCCTTAAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCGTAAATCAACATATTGGCACCTTCATCATCTTT
891421 AAAACCCAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCGTAAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:892255 original size:20 final size:20
Alignment explanation
Indices: 892211--892268 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
892201 ATTTCAATGA
***
892211 TTTGTATCGATACATAAAAT
1 TTTGTATCGATACATATTTT
*
892231 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATATTTT
892251 TTTGTATCGATACA-ATTT
1 TTTGTATCGATACATATTT
892269 AAGCTACTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTGTATCGATACATATTTT
Found at i:892326 original size:13 final size:13
Alignment explanation
Indices: 892308--892332 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
892298 ATTACTCAAA
892308 TGTATCGATACAT
1 TGTATCGATACAT
892321 TGTATCGATACA
1 TGTATCGATACA
892333 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:892397 original size:52 final size:52
Alignment explanation
Indices: 892341--892461 Score: 208
Period size: 52 Copynumber: 2.3 Consensus size: 52
892331 CACCGATCTT
*
892341 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACA-TTTTATAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTA-AA
*
892393 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
892445 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
892462 ATAAATTTTC
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
52 61 0.94
53 4 0.06
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:896296 original size:26 final size:25
Alignment explanation
Indices: 896267--896323 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
896257 ATATATTTAC
*
896267 TTTTATTTTTCTATATATTTAA-AATA
1 TTTTATTTTT-TATAT-TTTAATAAAA
896293 TTTTGATTTTTTATATTTTAATAAAA
1 TTTT-ATTTTTTATATTTTAATAAAA
896319 TTTTA
1 TTTTA
896324 ATTAAATATG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.21
26 16 0.57
27 6 0.21
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTTATTTTTTATATTTTAATAAAA
Found at i:897701 original size:11 final size:11
Alignment explanation
Indices: 897685--897714 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
897675 CCGTCTCCAA
897685 ATATATATATT
1 ATATATATATT
*
897696 ATATATAAATT
1 ATATATATATT
897707 ATATATAT
1 ATATATAT
897715 TAAAAATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
ATATATATATT
Found at i:897886 original size:14 final size:15
Alignment explanation
Indices: 897862--897891 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
897852 ATTTAAAAAT
897862 AAATAAATATATATC
1 AAATAAATATATATC
897877 AAATAATATATATAT
1 AAATAA-ATATATAT
897892 ATATATATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATAAATATATATC
Found at i:897889 original size:18 final size:19
Alignment explanation
Indices: 897858--897895 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
897848 CTACATTTAA
897858 AAATAAATAAATATATATC
1 AAATAAATAAATATATATC
*
897877 AAATAATATATATATATAT
1 AAATAA-ATAAATATATAT
897896 ATATTGGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATAAATAAATATATATC
Found at i:898010 original size:12 final size:14
Alignment explanation
Indices: 897987--898018 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
897977 TATTTTATAT
897987 AAAATATATA-TTA
1 AAAATATATATTTA
898000 AAAATAT-TATTTA
1 AAAATATATATTTA
898013 AAAATA
1 AAAATA
898019 ATAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 2 0.11
13 16 0.89
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAAATATATATTTA
Found at i:898066 original size:52 final size:51
Alignment explanation
Indices: 898004--898239 Score: 263
Period size: 53 Copynumber: 4.6 Consensus size: 51
897994 ATATTAAAAA
898004 TATTATTTAAAAATAATAAAATATTTAAAATATTTTATATTAAATCTTAAAT
1 TATTATTTAAAAATAATAAAA-ATTTAAAATATTTTATATTAAATCTTAAAT
*
898056 TATTATTTAAAAATAAT---AA---AAAATATTTTATATTAAATCTTGAAT
1 TATTATTTAAAAATAATAAAAATTTAAAATATTTTATATTAAATCTTAAAT
* * *
898101 TACTAGTTT-AAAATAATAAAAAATTAAAAAGTATTTTATATTAAA-CCTAGAAT
1 TATTA-TTTAAAAATAAT-AAAAATTTAAAA-TATTTTATATTAAATCTTA-AAT
* * * *
898154 AACTACTTAAAAATAATAAAAATTTTAAAAATATTTTATATTAAATCTCAAAT
1 TATTATTTAAAAATAATAAAAA-TTT-AAAATATTTTATATTAAATCTTAAAT
*
898207 TATTATTTGAAAATAATTAAAAATTTAAAATAT
1 TATTATTTAAAAATAA-TAAAAATTTAAAATAT
898240 ATTTTAAATA
Statistics
Matches: 156, Mismatches: 13, Indels: 30
0.78 0.07 0.15
Matches are distributed among these distances:
45 37 0.24
46 3 0.02
48 1 0.01
49 3 0.02
52 37 0.24
53 63 0.40
54 12 0.08
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (51 bp):
TATTATTTAAAAATAATAAAAATTTAAAATATTTTATATTAAATCTTAAAT
Found at i:898085 original size:45 final size:45
Alignment explanation
Indices: 898030--898124 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 45
898020 TAAAATATTT
*
898030 AAAATATTTTATATTAAATCTTAAATTATTA-TTTAAAAATAATAA
1 AAAATATTTTATATTAAATCTTAAATTACTAGTTT-AAAATAATAA
*
898075 AAAATATTTTATATTAAATCTTGAATTACTAGTTTAAAATAATAA
1 AAAATATTTTATATTAAATCTTAAATTACTAGTTTAAAATAATAA
898120 AAAAT
1 AAAAT
898125 TAAAAAGTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 44 0.94
46 3 0.06
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (45 bp):
AAAATATTTTATATTAAATCTTAAATTACTAGTTTAAAATAATAA
Found at i:898816 original size:22 final size:22
Alignment explanation
Indices: 898782--898828 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
898772 TTGTGAATAA
* *
898782 AATTAAATGTATATATGACTAT
1 AATTAAATATATATATAACTAT
* *
898804 AATTGAATATATATATAATTAT
1 AATTAAATATATATATAACTAT
898826 AAT
1 AAT
898829 AGTGACTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (22 bp):
AATTAAATATATATATAACTAT
Found at i:899024 original size:21 final size:20
Alignment explanation
Indices: 899000--899050 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
898990 ATATATATAT
*
899000 ATATATACACGACTATAACTA
1 ATATATACACGACAATAA-TA
*
899021 ATATATACATGACAATAATA
1 ATATATACACGACAATAATA
899041 ATATATACAC
1 ATATATACAC
899051 ATAATTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.29
Consensus pattern (20 bp):
ATATATACACGACAATAATA
Found at i:899253 original size:52 final size:50
Alignment explanation
Indices: 899191--899390 Score: 217
Period size: 52 Copynumber: 3.9 Consensus size: 50
899181 GTAAAAAAAA
* * * *
899191 TATTAATTTTTAAATTGTAATTTTGAGATTTAATATAAAATATTTTAGTTTT
1 TATTATTTTTTAAATAGTAA-TTTAAAATTTAATATAAAATATTTTA-TTTT
* * *
899243 TATTATTTTTTAAATAATAA-TTGAGATTTAATATAAAATATTTTAAAATTTT
1 TATTATTTTTTAAATAGTAATTTAAAATTTAATATAAAATATTTT---ATTTT
*
899295 TATTATTTTTTAAATAGTTATTTAAAATTTAATATAAAATATTTT-TTAATT
1 TATTATTTTTTAAATAGTAATTTAAAATTTAATATAAAATATTTTATT--TT
* *
899346 TTTTATTATTTAAAATAGTAATTTAAAATTTAATA-AAAATATTTT
1 TATTATT-TTTTAAATAGTAATTTAAAATTTAATATAAAATATTTT
899391 TTATATTATT
Statistics
Matches: 131, Mismatches: 10, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
49 2 0.02
50 24 0.18
51 18 0.14
52 64 0.49
53 23 0.18
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (50 bp):
TATTATTTTTTAAATAGTAATTTAAAATTTAATATAAAATATTTTATTTT
Found at i:899328 original size:103 final size:104
Alignment explanation
Indices: 899191--899390 Score: 246
Period size: 104 Copynumber: 1.9 Consensus size: 104
899181 GTAAAAAAAA
* * * *
899191 TATTAATTTTTAAATTGTAATTTTGAGATTTAATATAAAATATTTTAGTT-TTTATTATT-TTTT
1 TATTAATTTTTAAATAGTAATTTTAAAATTTAATATAAAATATTTT--TTATTTATTATTATTTA
* *
899254 AAATAATAA-TTGAGATTTAATATAAAATATTTTAAAATTTT
64 AAATAATAATTTAAAATTTAATA-AAAATATTTTAAAATTTT
* * *
899295 TATTATTTTTTAAATAGTTA-TTTAAAATTTAATATAAAATATTTTTTAATTTTTTATTATTTAA
1 TATTAATTTTTAAATAGTAATTTTAAAATTTAATATAAAATATTTTTT-ATTTATTATTATTTAA
*
899359 AATAGTAATTTAAAATTTAATAAAAATATTTT
65 AATAATAATTTAAAATTTAATAAAAATATTTT
899391 TTATATTATT
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
101 2 0.02
103 31 0.38
104 38 0.46
105 11 0.13
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (104 bp):
TATTAATTTTTAAATAGTAATTTTAAAATTTAATATAAAATATTTTTTATTTATTATTATTTAAA
ATAATAATTTAAAATTTAATAAAAATATTTTAAAATTTT
Found at i:899833 original size:25 final size:26
Alignment explanation
Indices: 899799--899856 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
899789 ATTTTAATAA
*
899799 TTATTTTTTTA-TATATAAATAAAAT
1 TTATTTTTTTAGTATATAAAAAAAAT
*
899824 TTATTTTTTTAGTATTTAAAAAAAAT
1 TTATTTTTTTAGTATATAAAAAAAAT
899850 TTCATTT
1 TT-ATTT
899857 CCTTAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 11 0.38
26 14 0.48
27 4 0.14
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (26 bp):
TTATTTTTTTAGTATATAAAAAAAAT
Found at i:906241 original size:1 final size:1
Alignment explanation
Indices: 906235--906259 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
906225 ATTAAGAAAT
906235 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
906260 GGGCCAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:909191 original size:15 final size:16
Alignment explanation
Indices: 909173--909205 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
909163 TATTAATAGA
909173 TTAAAATTT-TAAATT
1 TTAAAATTTATAAATT
*
909188 TTAATATTTATAAATT
1 TTAAAATTTATAAATT
909204 TT
1 TT
909206 CAAACTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTAAAATTTATAAATT
Found at i:910516 original size:16 final size:17
Alignment explanation
Indices: 910483--910516 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
910473 AAATTAATAT
910483 TTTATTTGAAATAAAAA
1 TTTATTTGAAATAAAAA
*
910500 TTTATTT-AAATATAAA
1 TTTATTTGAAATAAAAA
910516 T
1 T
910517 CAAAAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TTTATTTGAAATAAAAA
Found at i:912424 original size:30 final size:28
Alignment explanation
Indices: 912383--912476 Score: 87
Period size: 30 Copynumber: 3.5 Consensus size: 28
912373 TATTATTCAT
*
912383 TGTATCAATACATTCTGGGTTTTACCTAGA
1 TGTATCGATACATTCT-GGTTTTACC-AGA
912413 TGTATCGATACATTC-----TT--CAG-
1 TGTATCGATACATTCTGGTTTTACCAGA
912433 TGTATCGATACATTCTGGATTTTACCCAGA
1 TGTATCGATACATTCTGG-TTTTA-CCAGA
912463 TGTATCGATACATT
1 TGTATCGATACATT
912477 ATTCAATGTA
Statistics
Matches: 53, Mismatches: 1, Indels: 20
0.72 0.01 0.27
Matches are distributed among these distances:
20 15 0.28
21 2 0.04
22 1 0.02
24 2 0.04
26 2 0.04
29 3 0.06
30 28 0.53
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (28 bp):
TGTATCGATACATTCTGGTTTTACCAGA
Found at i:912444 original size:50 final size:50
Alignment explanation
Indices: 912374--912495 Score: 181
Period size: 50 Copynumber: 2.4 Consensus size: 50
912364 GAATCAATAT
* * * *
912374 ATTATTCATTGTATCAATACATTCTGGGTTTTACCTAGATGTATCGATAC
1 ATTATTCAATGTATCGATACATTCTGGATTTTACCCAGATGTATCGATAC
* *
912424 ATTCTTCAGTGTATCGATACATTCTGGATTTTACCCAGATGTATCGATAC
1 ATTATTCAATGTATCGATACATTCTGGATTTTACCCAGATGTATCGATAC
*
912474 ATTATTCAATGTAACGATACAT
1 ATTATTCAATGTATCGATACAT
912496 GCAGGCAAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (50 bp):
ATTATTCAATGTATCGATACATTCTGGATTTTACCCAGATGTATCGATAC
Found at i:921749 original size:13 final size:13
Alignment explanation
Indices: 921731--921756 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
921721 GTTGGACAGA
921731 TTACTCACAACGT
1 TTACTCACAACGT
921744 TTACTCACAACGT
1 TTACTCACAACGT
921757 ACAAGCAAGT
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:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (13 bp):
TTACTCACAACGT
Found at i:923334 original size:16 final size:16
Alignment explanation
Indices: 923313--923344 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
923303 GATAAAGTGT
923313 TTGAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAA
923329 TTGAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAA
923345 AATTAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.12
Consensus pattern (16 bp):
TTGAAAAAAAAAAAAA
Found at i:923374 original size:21 final size:21
Alignment explanation
Indices: 923350--923406 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
923340 AAAAAAATTA
923350 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
923371 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
923392 AATGTATCGATACAT
1 AATGTATCGATACAT
923407 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:923486 original size:19 final size:19
Alignment explanation
Indices: 923462--923529 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
923452 AATTCAACGA
923462 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
923481 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
923496 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
923513 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
923530 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:923500 original size:32 final size:32
Alignment explanation
Indices: 923464--923526 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
923454 TTCAACGATT
*
923464 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
923496 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
923527 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:923501 original size:13 final size:13
Alignment explanation
Indices: 923483--923507 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
923473 ACATAAGTTT
923483 TGTATCGATACAA
1 TGTATCGATACAA
923496 TGTATCGATACA
1 TGTATCGATACA
923508 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:923587 original size:13 final size:13
Alignment explanation
Indices: 923569--923594 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
923559 CATTTTTCTG
923569 TGTATCGATACAT
1 TGTATCGATACAT
923582 TGTATCGATACAT
1 TGTATCGATACAT
923595 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:923591 original size:33 final size:33
Alignment explanation
Indices: 923549--923615 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
923539 GCCAAGGAAA
***
923549 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
923582 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
923615 T
1 T
923616 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:926281 original size:28 final size:28
Alignment explanation
Indices: 926245--926326 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
926235 ATTTTTCACA
*
926245 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
926273 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
926301 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
926327 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:938740 original size:10 final size:10
Alignment explanation
Indices: 938725--938784 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
938715 TCTCTTCAAA
938725 AAAAAAAAAG
1 AAAAAAAAAG
938735 AAAAAAAAA-
1 AAAAAAAAAG
938744 ACAAAAAAAA-
1 A-AAAAAAAAG
*
938754 ACAAAACAAAG
1 A-AAAAAAAAG
* *
938765 AAAAAGAGAG
1 AAAAAAAAAG
938775 AAAAGAAAAA
1 AAAA-AAAAA
938785 ACCTACTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
9 1 0.02
10 37 0.88
11 4 0.10
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:938742 original size:15 final size:15
Alignment explanation
Indices: 938722--938785 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 15
938712 CCTTCTCTTC
938722 AAAAAAAAAAAAGAA
1 AAAAAAAAAAAAGAA
938737 AAAAAAAACAAAA-AA
1 AAAAAAAA-AAAAGAA
* *
938752 AAACAAAACAAAGAA
1 AAAAAAAAAAAAGAA
* * *
938767 AAAGAGAGAAAAGAA
1 AAAAAAAAAAAAGAA
938782 AAAA
1 AAAA
938786 CCTACTTAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
14 3 0.08
15 33 0.82
16 4 0.10
ACGTcount: A:0.86, C:0.05, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAGAA
Found at i:938785 original size:1 final size:1
Alignment explanation
Indices: 938722--938769 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
938712 CCTTCTCTTC
* * * * *
938722 AAAAAAAAAAAAGAAAAAAAAAACAAAAAAAAACAAAACAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
938770 GAGAGAAAAG
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.90, C:0.06, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:939836 original size:55 final size:54
Alignment explanation
Indices: 939751--940773 Score: 1458
Period size: 55 Copynumber: 18.5 Consensus size: 54
939741 TCCGCTTTTT
*
939751 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
939806 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
*
939861 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACC-TTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
939916 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
*
939971 AGTCCTCAACGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
940026 AGTCCCCAAAGAGCAGGACACCTCTAAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
940081 AGTCCTCAAAAAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACC-TTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
940136 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
940191 AGTCCTCAACGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
940246 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACCTTTC
940301 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACC-TTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
940356 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
940411 AGTCCTCAAAGAGCAGAACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
*
940466 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACCTTTC
* **
940521 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAGGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
940576 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAGGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGA--C----ACCTTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* *
940637 AGTCCCCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * ** * ** *
940692 AATCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGTGTTTGTGGCATTTTTT
1 AGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
940747 ACTCCTCAATGAGCAGGATACACTTTA
1 AGTCCTCAAAGAGCAGGACAC-CTTTA
940774 TTTTCCTCTT
Statistics
Matches: 896, Mismatches: 50, Indels: 44
0.91 0.05 0.04
Matches are distributed among these distances:
54 16 0.02
55 811 0.91
56 18 0.02
57 1 0.00
59 1 0.00
61 49 0.05
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (54 bp):
AGTCCTCAAAGAGCAGGACACCTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:941513 original size:18 final size:18
Alignment explanation
Indices: 941490--941527 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
941480 GATAAAGTGT
941490 TTGAAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAAA
941508 TTGAAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAAA
941526 TT
1 TT
941528 AAATGTATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (18 bp):
TTGAAAAAAAAAAAAAAA
Found at i:941553 original size:21 final size:21
Alignment explanation
Indices: 941529--941585 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
941519 AAAAAAATTA
941529 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
941550 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
941571 AATGTATCGATACAT
1 AATGTATCGATACAT
941586 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:941665 original size:19 final size:19
Alignment explanation
Indices: 941641--941708 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
941631 AATTCAACGA
941641 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
941660 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
941675 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
941692 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
941709 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:941679 original size:32 final size:32
Alignment explanation
Indices: 941643--941705 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
941633 TTCAACGATT
*
941643 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
941675 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
941706 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:941680 original size:13 final size:13
Alignment explanation
Indices: 941662--941686 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
941652 ACATAAGTTT
941662 TGTATCGATACAA
1 TGTATCGATACAA
941675 TGTATCGATACA
1 TGTATCGATACA
941687 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:941766 original size:13 final size:13
Alignment explanation
Indices: 941748--941773 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
941738 CATTTTTCTG
941748 TGTATCGATACAT
1 TGTATCGATACAT
941761 TGTATCGATACAT
1 TGTATCGATACAT
941774 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:941770 original size:33 final size:33
Alignment explanation
Indices: 941728--941794 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
941718 GCCAAGGAAA
***
941728 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
941761 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
941794 T
1 T
941795 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:944311 original size:28 final size:27
Alignment explanation
Indices: 944244--944316 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
944234 CTTCACAATC
* *
944244 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
944271 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
944299 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
944317 ACTTTATCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:944361 original size:51 final size:50
Alignment explanation
Indices: 944299--944469 Score: 180
Period size: 51 Copynumber: 3.3 Consensus size: 50
944289 TTATTTCTGA
* * *
944299 GGGGATACTCCAACCCCGACTTTATCTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTAT-TTCAAAATACCAATTTTTCATAATC
* * * * *
944350 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTA-TTTCAAAATACCAATTT-TTC-ATAATC
** *
944403 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTT-C-AAAATACCAATTTTTCATAATC
*
944455 GAGGATACTCCAACC
1 GGGGATACTCCAACC
944470 TCGTTATTTC
Statistics
Matches: 96, Mismatches: 19, Indels: 9
0.77 0.15 0.07
Matches are distributed among these distances:
51 34 0.35
52 22 0.23
53 29 0.30
54 11 0.11
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGATTTTATTTCAAAATACCAATTTTTCATAATC
Found at i:944488 original size:28 final size:28
Alignment explanation
Indices: 944452--944533 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
944442 ATTTTTCACA
*
944452 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
944480 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
944508 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
944534 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:951425 original size:2 final size:2
Alignment explanation
Indices: 951418--951461 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
951408 TGCTTTTATT
951418 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
951459 TA T
1 TA T
951462 GGCTGATTGC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:957587 original size:13 final size:13
Alignment explanation
Indices: 957569--957594 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
957559 TACACCAAGT
957569 ATGTATCGATACA
1 ATGTATCGATACA
957582 ATGTATCGATACA
1 ATGTATCGATACA
957595 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:957592 original size:32 final size:33
Alignment explanation
Indices: 957551--957614 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
957541 TAGCCAAACT
* **
957551 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
957583 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
957615 TTGACTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:959247 original size:11 final size:11
Alignment explanation
Indices: 959231--959289 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 11
959221 AATGTTATAT
959231 TTTATATAATA
1 TTTATATAATA
* *
959242 TTTATAT-TTT
1 TTTATATAATA
959252 TTTATATAAATA
1 TTTATAT-AATA
*
959264 TTATAATAAAATA
1 TT-T-ATATAATA
959277 TTTATATAATA
1 TTTATATAATA
959288 TT
1 TT
959290 ATGTATTCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
10 8 0.21
11 16 0.42
12 4 0.11
13 7 0.18
14 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTATATAATA
Found at i:961234 original size:13 final size:13
Alignment explanation
Indices: 961216--961240 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
961206 CATAAAGTGT
961216 TGTATCGATACAA
1 TGTATCGATACAA
961229 TGTATCGATACA
1 TGTATCGATACA
961241 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:961323 original size:13 final size:13
Alignment explanation
Indices: 961305--961332 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
961295 ATTACTCAAA
961305 TGTATCGATACAT
1 TGTATCGATACAT
961318 TGTATCGATACAT
1 TGTATCGATACAT
961331 TG
1 TG
961333 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:961382 original size:52 final size:52
Alignment explanation
Indices: 961338--961462 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
961328 CATTGATCTT
961338 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* * *
961390 TGTATCGATATATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
961442 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
961463 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:968241 original size:51 final size:51
Alignment explanation
Indices: 968175--968292 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
968165 TTATTTTTAA
* * ** *
968175 GGGGATACTCCAACCCCGGTTTTATTTTTAAAGCATCGATTTTCCACAATC
1 GGGGATACTCCAACCCCAGTTTTACTTCCAAAACATCGATTTTCCACAATC
* *
968226 GGGGATACTCTAACCCCAGTTTTACTTCCAAAACATCGATTTTCCATAATC
1 GGGGATACTCCAACCCCAGTTTTACTTCCAAAACATCGATTTTCCACAATC
*
968277 AGGGATACTCCAACCC
1 GGGGATACTCCAACCC
968293 GTTATTTCCC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAGTTTTACTTCCAAAACATCGATTTTCCACAATC
Found at i:968319 original size:78 final size:77
Alignment explanation
Indices: 968227--968449 Score: 261
Period size: 79 Copynumber: 2.9 Consensus size: 77
968217 TCCACAATCG
* * *
968227 GGGATAC-TCTAACCCCAGTTTTACTTCCAAAACATCGATTTTCCATAATCAGGGATACTCCAAC
1 GGGATACTTC-AACCCCAGTTTTATTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAAC
968291 CCGTTATTTCCCAA
65 CCGTT-TTTCCCAA
* * *
968305 GGGATACTTCAACCCTAGTTTTATTTCCAAAACA-CCAATTTCTCACAATCGGGGATACTCCAAC
1 GGGATACTTCAACCCCAGTTTTATTTCCAAAACATCGATTTTC-CACAATCGGGGATACTCCAA-
****
968369 CCCGTTTTTTTTGA
64 CCCGTTTTTCCCAA
* * * *
968383 GAGAATACTCCAACCTCGGTTTTATTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAAC
1 G-GGATACTTCAACCCCAGTTTTATTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAAC
968448 CC
65 CC
968450 TGATTTTATT
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
77 6 0.05
78 55 0.45
79 56 0.46
80 6 0.05
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.30
Consensus pattern (77 bp):
GGGATACTTCAACCCCAGTTTTATTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAACC
CGTTTTTCCCAA
Found at i:968447 original size:51 final size:51
Alignment explanation
Indices: 968387--968494 Score: 164
Period size: 51 Copynumber: 2.1 Consensus size: 51
968377 TTTTGAGAGA
* *
968387 ATACTCCAA-CCTCGGTTTTATTTCCAAAACATCGATTTTCCACAATCGGGG
1 ATACTCCAACCCT-GATTTTATTTCCAAAACATCGATCTTCCACAATCGGGG
* *
968438 ATACTCCAACCCTGATTTTATTTCCAAAATATCGATCTTCCATAATCGGGG
1 ATACTCCAACCCTGATTTTATTTCCAAAACATCGATCTTCCACAATCGGGG
968489 ATACTC
1 ATACTC
968495 TGACCCCGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 49 0.94
52 3 0.06
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (51 bp):
ATACTCCAACCCTGATTTTATTTCCAAAACATCGATCTTCCACAATCGGGG
Found at i:968460 original size:130 final size:130
Alignment explanation
Indices: 968304--968579 Score: 358
Period size: 130 Copynumber: 2.1 Consensus size: 130
968294 TTATTTCCCA
*
968304 AGGGATACTTCAACCCTAGTTTTATTTCCAAAACACCAAT-TTCTCACAATCGGGGATACTCCAA
1 AGGGATACTCCAACCCTAGTTTTATTTCCAAAACACCAATCTTC-CACAATCGGGGATACTCCAA
* *
968368 CCCCGTTTTTTTTGAGAGAATACTCCAACCTCGGTTTTATTTCCAAAACATCGATTTTCCACAAT
65 CCCCGTTATTTTCGAGAGAATACTCCAACCTCGGTTTTATTTCCAAAACATCGATTTTCCACAAT
968433 C
130 C
* * * * * **
968434 GGGGATACTCCAACCCT-GATTTTATTTCCAAAATATCGATCTTCCATAATCGGGGATACTCTGA
1 AGGGATACTCCAACCCTAG-TTTTATTTCCAAAACACCAATCTTCCACAATCGGGGATACTCCAA
* * * * ** *
968498 CCCCGTTATTTTCGAGGGAATATTCTAACCTCGGTTTTATTTCTAAAACATCGATTTTTTACTAT
65 CCCCGTTATTTTCGAGAGAATACTCCAACCTCGGTTTTATTTCCAAAACATCGATTTTCCACAAT
*
968563 T
130 C
968564 AGGGATACTCCAACCC
1 AGGGATACTCCAACCC
968580 CGTTATTTCT
Statistics
Matches: 125, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
129 1 0.01
130 121 0.97
131 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (130 bp):
AGGGATACTCCAACCCTAGTTTTATTTCCAAAACACCAATCTTCCACAATCGGGGATACTCCAAC
CCCGTTATTTTCGAGAGAATACTCCAACCTCGGTTTTATTTCCAAAACATCGATTTTCCACAATC
Found at i:969563 original size:7 final size:7
Alignment explanation
Indices: 969547--969583 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
969537 TTGTCCAAAG
969547 TTTTTCA
1 TTTTTCA
*
969554 TTTTTTA
1 TTTTTCA
969561 TTTTTCA
1 TTTTTCA
969568 TTTTTCA
1 TTTTTCA
969575 TTTTTCA
1 TTTTTCA
969582 TT
1 TT
969584 GTATAAAGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCA
Found at i:970563 original size:79 final size:79
Alignment explanation
Indices: 970474--970655 Score: 233
Period size: 79 Copynumber: 2.3 Consensus size: 79
970464 AATCTCTTTG
* * **
970474 AAAATAACGGGGTTGGAGTATCCCCGGTTGTGAAAAA-TCGATG-ATTAGGAAATAAAATTGAGA
1 AAAATAACGGGGTTGGAGTATCCCCGATTAT-AAAAATTCGATGTATTA-GAAATAAAACCGAGA
*
970537 TTGGAGTATCCCCTCG
64 TTGGAGTATCCCCTCA
* * * * * *
970553 GAAATAACGGGGTTGGAGTATCCCCGATTATAAAAATTTGATGTTTTAGAAATAAAGCCGGGGTT
1 AAAATAACGGGGTTGGAGTATCCCCGATTATAAAAATTCGATGTATTAGAAATAAAACCGAGATT
970618 GGAGTATCCCCTCA
66 GGAGTATCCCCTCA
970632 AAAATAACGGGGTTGGAGTATCCC
1 AAAATAACGGGGTTGGAGTATCCC
970656 GAGATGAAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
78 5 0.06
79 81 0.91
80 3 0.03
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (79 bp):
AAAATAACGGGGTTGGAGTATCCCCGATTATAAAAATTCGATGTATTAGAAATAAAACCGAGATT
GGAGTATCCCCTCA
Found at i:973045 original size:13 final size:13
Alignment explanation
Indices: 973027--973052 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
973017 ACAAAGATCG
973027 ATGTATCGATACA
1 ATGTATCGATACA
973040 ATGTATCGATACA
1 ATGTATCGATACA
973053 TTCTACAAAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:973133 original size:19 final size:21
Alignment explanation
Indices: 973109--973156 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
973099 ATACACTGTT
*
973109 TCGATACA-TTACT-TATGTA
1 TCGATACATTTACTGAATGTA
973128 TCGATACATTTACTGAATGTA
1 TCGATACATTTACTGAATGTA
973149 TCGATACA
1 TCGATACA
973157 AATTATTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 8 0.31
20 5 0.19
21 13 0.50
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (21 bp):
TCGATACATTTACTGAATGTA
Found at i:974043 original size:61 final size:55
Alignment explanation
Indices: 973958--975110 Score: 859
Period size: 55 Copynumber: 21.0 Consensus size: 55
973948 ATAAAGTGCA
* * *
973958 TCCTGCTTTTTGAGGACT-AAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTCGTGTGGGCTTT------GAAAGGCG
* * *
974019 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTG--AA-AG---GCG
* *
974080 TCTTGTTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
*
974135 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
* *
974190 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
* * *
974245 TCCTACTCTTTGAGGACTGG-AAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
** * * * * * **
974299 TCCTGCTCTTTGAGGACT-G-AAGGGCCA--AA--GGAGAGAGCGTT---CTGC-
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
* ***** * ** * *** * *** **
974344 TCTTTGAGGACTG-GGA-AGTG-CCA--CCAACTTGT-GTGGGCTTTAAAAGGAGAAGGCG
1 TC-CTGCTCTTTGAGGACTG-GAAAATGCCACCAACTCGTGTGGGCT---TTGA-AAGGCG
*
974399 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTT----G-AAAGGCG
** * *
974459 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
* *
974514 TCCTGCTCTTTGAGAACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
*
974569 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
* *
974624 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
* * *
974679 TCCTACTCTTTGAGGACTGG-AAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
** * * * * * **
974733 TCCTGCTCTTTGAGGACT-G-AAGGGCCA--AA--GGAGAGAGCGTT---CTGC-
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
* ***** * ** * *** * *** **
974778 TCTTTGAGGACTG-GGAAAT-G-CCA--CCAACTTGT-GTGGGCTTTAAAAGGAGAAGGCG
1 TC-CTGCTCTTTGAGG-ACTGGAAAATGCCACCAACTCGTGTGGGCT---TTGA-AAGGCG
*
974833 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTT----G-AAAGGCG
* ** * *
974893 TCATGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
* *
974948 TCCTGCTCTTTGAGAACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
* *
975003 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
* *
975058 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTCGTGTGGGCTTTGAAAGG
975111 AAAAAGGTGT
Statistics
Matches: 883, Mismatches: 150, Indels: 124
0.76 0.13 0.11
Matches are distributed among these distances:
44 6 0.01
45 9 0.01
46 16 0.02
47 6 0.01
49 14 0.02
51 4 0.00
53 16 0.02
54 114 0.13
55 475 0.54
56 3 0.00
57 2 0.00
58 14 0.02
59 12 0.01
60 103 0.12
61 86 0.10
62 3 0.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
Found at i:974569 original size:434 final size:434
Alignment explanation
Indices: 973958--975110 Score: 2040
Period size: 434 Copynumber: 2.6 Consensus size: 434
973948 ATAAAGTGCA
* * ** *
973958 TCCTGCTTTTTGAGGACT-AAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGGCGTCC
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTG-AAAGAAAAGGCGTCC
** * * * *
974022 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCTTGTT
64 TGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT--AAA-AG---GCGTCCTGCT
* *
974087 CTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
123 CTTTGAGAACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
974152 TGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGC
188 TGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGC
974217 CACCAACTCGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGGACTGGAAGTGCCACCAACTTGT
253 CACCAACTCGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGGACTGGAAGTGCCACCAACTTGT
974282 GTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAGGGCCAAAGGAGAGAGCGTTCTGCTCT
318 GTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAGGGCCAAAGGAGAGAGCGTTCTGCTCT
*
974347 TTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
383 TTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
974399 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCGTCCTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCGTCCTG
974464 CTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGA
66 CTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGA
974529 ACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAAT
131 ACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAAT
974594 GCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACT
196 GCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACT
974659 CGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTT
261 CGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTT
974724 TGAAAGGCGTCCTGCTCTTTGAGGACTGAAGGGCCAAAGGAGAGAGCGTTCTGCTCTTTGAGGAC
326 TGAAAGGCGTCCTGCTCTTTGAGGACTGAAGGGCCAAAGGAGAGAGCGTTCTGCTCTTTGAGGAC
974789 TGGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
391 TGGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
*
974833 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCGTCATG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCGTCCTG
974898 CTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGA
66 CTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGA
*
974963 ACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT-GAAAGG
131 ACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAA-A
**
975027 TGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAAC
195 TGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAAC
*
975092 TTGTGTGGGCTTTGAAAGG
260 TCGTGTGGGCTTTGAAAGG
975111 AAAAAGGTGT
Statistics
Matches: 691, Mismatches: 19, Indels: 11
0.96 0.03 0.02
Matches are distributed among these distances:
433 4 0.01
434 584 0.85
437 2 0.00
438 3 0.00
440 55 0.08
441 39 0.06
442 4 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (434 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCGTCCTG
CTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGA
ACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAAT
GCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACT
CGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTT
TGAAAGGCGTCCTGCTCTTTGAGGACTGAAGGGCCAAAGGAGAGAGCGTTCTGCTCTTTGAGGAC
TGGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
Found at i:974891 original size:379 final size:373
Alignment explanation
Indices: 974006--975112 Score: 1482
Period size: 379 Copynumber: 2.9 Consensus size: 373
973996 GTGGGCTTTG
* *
974006 AAAAGGAAAG-GCGTCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTGCA
1 AAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAA-TGCCACCAACTTGTGTGGGCTTT-AA
* * * * *
974069 AAGAGAAAGCATCTTGTTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTG-AAAGG
64 AAGAGAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGG
* *
974133 CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTC
129 CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTC
* *
974198 TTTGAGGACTGAAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGGACT
194 TTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT
* * * *
974263 G-GAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT-GAAGGGCCA
259 GAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAGTGCC-
** * * ** * * * **
974326 AAGGAGAGAGCGT-TCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT
323 -A--CCA-A-CTTGTGTGGGCTTTGA--A--AGGAAGTGCCACCAACTTGTGAGGACTGA
* *
974385 AAAAGGAGA-AGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA
1 AAAAGGAGAGA-GCGTCCTGCTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAA
* **
974449 AGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGGC
65 AGAGAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGC
*
974513 GTCCTGCTCTTTGAGAACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
130 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
974578 TTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
195 TTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
* *
974643 AAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGGACTGGAAGTGCCAC
260 AAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAGTGCCAC
* ** *
974708 CAACTTGTGTGGGCTTTGAAAGG-CGT-CCTGC-TCTT-TGAGGACTGA
325 CAACTTGTGTGGGCTTTGAAAGGAAGTGCCACCAACTTGTGAGGACTGA
*
974753 AGGGCCAAAGGAGAGAGCGTTCTGCTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTT
1 A-----AAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTT
974818 TAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA
61 TAAAA-GAGAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT---
* ** *
974883 AGAAAAGGCGTCATGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
122 -GAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
974948 TCCTGCTCTTTGAGAACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
186 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* *
975013 TGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGA
251 TGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
975078 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAA
316 AA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGAA
975113 AAAGGTGTCC
Statistics
Matches: 651, Mismatches: 56, Indels: 40
0.87 0.07 0.05
Matches are distributed among these distances:
368 7 0.01
369 3 0.00
370 3 0.00
371 2 0.00
372 2 0.00
373 59 0.09
374 55 0.08
375 2 0.00
376 10 0.02
377 1 0.00
379 374 0.57
380 122 0.19
381 11 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (373 bp):
AAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAA
GAGAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
TGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGA
AAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAGTGCCACC
AACTTGTGTGGGCTTTGAAAGGAAGTGCCACCAACTTGTGAGGACTGA
Found at i:975083 original size:26 final size:26
Alignment explanation
Indices: 974994--975083 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 26
974984 GTGTGGGCTT
*
974994 TGAAAGGCGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
* ** *
975020 TGAAAGGTGCCACCAACTCGTGTG-GG-C
1 TGAAAGGTG--TCCTGCTC-TTTGAGGAC
975047 TTTGAAAGGTGTCCTGCTCTTTGAGGAC
1 --TGAAAGGTGTCCTGCTCTTTGAGGAC
975075 TGAAAGGTG
1 TGAAAGGTG
975084 CCACCAACTT
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
26 20 0.42
27 8 0.17
28 8 0.17
29 12 0.25
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:976133 original size:15 final size:14
Alignment explanation
Indices: 976115--976164 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
976105 TTTCCTCTCT
976115 TTTTTCTTTGTTTTG
1 TTTTT-TTTGTTTTG
*
976130 TTTTTTTT-TGTT-
1 TTTTTTTTGTTTTG
976142 TTTTTTTTGTTTTTG
1 TTTTTTTTG-TTTTG
976157 TTTTTTTT
1 TTTTTTTT
976165 TAGGAAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 8 0.27
13 3 0.10
14 6 0.20
15 13 0.43
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (14 bp):
TTTTTTTTGTTTTG
Found at i:976134 original size:1 final size:1
Alignment explanation
Indices: 976114--976165 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
976104 CTTTCCTCTC
* * * * * *
976114 TTTTTTCTTTGTTTTGTTTTTTTTTGTTTTTTTTTTGTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
976166 AGGAAAGAAG
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (1 bp):
T
Found at i:976138 original size:10 final size:10
Alignment explanation
Indices: 976125--976165 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
976115 TTTTTCTTTG
976125 TTTTGTTTTT
1 TTTTGTTTTT
976135 TTTTGTTTTTT
1 TTTTG-TTTTT
976146 TTTTGTTTTT
1 TTTTGTTTTT
976156 GTTTT-TTTTT
1 -TTTTGTTTTT
976166 AGGAAAGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 15 0.52
11 14 0.48
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (10 bp):
TTTTGTTTTT
Found at i:976150 original size:26 final size:27
Alignment explanation
Indices: 976114--976165 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
976104 CTTTCCTCTC
976114 TTTTTTCTTTG-TTTTGTTTTTTTTTG
1 TTTTTTCTTTGTTTTTGTTTTTTTTTG
*
976140 TTTTTTTTTTGTTTTTGTTTTTTTTT
1 TTTTTTCTTTGTTTTTGTTTTTTTTT
976166 AGGAAAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (27 bp):
TTTTTTCTTTGTTTTTGTTTTTTTTTG
Found at i:986486 original size:4 final size:4
Alignment explanation
Indices: 986479--986505 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
986469 CAAAACAAAC
986479 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
986506 CACCTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:988780 original size:79 final size:80
Alignment explanation
Indices: 988566--988781 Score: 273
Period size: 79 Copynumber: 2.7 Consensus size: 80
988556 GAGATAATAA
* * *
988566 CGGGGTTAGAGTATCCCCTTGAAAATAATGGGGTTGGAGTATCCCCGATTG-TGAAAAA-TCGAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGA-TGATGAAAAATTCGAT
*
988629 GATTAGGAAATAAAAT
65 GATTAGGAAATAAAAC
* * * *
988645 CGGGATTGGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCCCGACT-AT-AAAAATTTGAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGA-TGATGAAAAATTCGAT
* *
988708 GTTTTA-GAAATAAAGC
65 G-ATTAGGAAATAAAAC
988724 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGA-GATGAAAAAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGATGAAAAAT
988782 CTAGAAATTT
Statistics
Matches: 118, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 7 0.06
79 108 0.92
80 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.25
Consensus pattern (80 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGATGAAAAATTCGATG
ATTAGGAAATAAAAC
Found at i:991251 original size:21 final size:21
Alignment explanation
Indices: 991207--991279 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
991197 AGCGATACAC
*
991207 TGTATCGATACA-TTACT-TA
1 TGTATCGATACATTTACTGAA
991226 TGTATCGATACATTTACTGAA
1 TGTATCGATACATTTACTGAA
991247 TGTATCGATACATTTACTGAA
1 TGTATCGATACATTTACTGAA
991268 TGTATCGATACA
1 TGTATCGATACA
991280 AATTATTGAA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
19 12 0.24
20 5 0.10
21 34 0.67
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTACTGAA
Found at i:992868 original size:60 final size:63
Alignment explanation
Indices: 992804--992929 Score: 152
Period size: 62 Copynumber: 2.0 Consensus size: 63
992794 CTAAGCGACA
992804 TTTCTT-TCAAAGTCCA-AACTCTATAGCACCCTTTT-AAGTCCACAACTCAGTGGCA-CCTTT
1 TTTCTTGT-AAAGTCCACAACTCTATAGCACCCTTTTAAAGTCCACAACTCAGTGGCACCCTTT
* * * * * * *
992864 TTTCTTGTAAAGTCCACAGCTCTGTGGTATCTTTTTAAAGTCCACAACTCTGTGGCACCCTTT
1 TTTCTTGTAAAGTCCACAACTCTATAGCACCCTTTTAAAGTCCACAACTCAGTGGCACCCTTT
992927 TTT
1 TTT
992930 TAAGGTCCAC
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
60 14 0.25
61 14 0.25
62 19 0.35
63 8 0.15
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (63 bp):
TTTCTTGTAAAGTCCACAACTCTATAGCACCCTTTTAAAGTCCACAACTCAGTGGCACCCTTT
Found at i:992927 original size:28 final size:28
Alignment explanation
Indices: 992807--992927 Score: 93
Period size: 28 Copynumber: 4.2 Consensus size: 28
992797 AGCGACATTT
* * *
992807 CTTTCAAAGTCCA-AACTCTATAGCACC
1 CTTTTAAAGTCCACAACTCTGTGGCACC
*
992834 CTTTT-AAGTCCACAACTCAGTGGCACC
1 CTTTTAAAGTCCACAACTCTGTGGCACC
* * * *
992861 TTTTTTCTTGTAAAGTCCACAGCTCTGTGGTATC
1 ------CTTTTAAAGTCCACAACTCTGTGGCACC
*
992895 TTTTTAAAGTCCACAACTCTGTGGCACC
1 CTTTTAAAGTCCACAACTCTGTGGCACC
992923 CTTTT
1 CTTTT
992928 TTTAAGGTCC
Statistics
Matches: 71, Mismatches: 15, Indels: 15
0.70 0.15 0.15
Matches are distributed among these distances:
26 7 0.10
27 15 0.21
28 27 0.38
33 4 0.06
34 18 0.25
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (28 bp):
CTTTTAAAGTCCACAACTCTGTGGCACC
Found at i:992938 original size:31 final size:31
Alignment explanation
Indices: 992812--992957 Score: 110
Period size: 31 Copynumber: 4.9 Consensus size: 31
992802 CATTTCTTTC
* *
992812 AAAGTCCA-AACTCTATAGCACCC---TTTT
1 AAAGTCCACAACTCTGTGGCACCCTTTTTTT
* *
992839 -AAGTCCACAACTCAGTGGCACCTTTTTTCTTGT
1 AAAGTCCACAACTCTGTGGCACC-CTTTT-TT-T
* * *
992872 AAAGTCCACAGCTCTGTGGTA---TCTTTTT
1 AAAGTCCACAACTCTGTGGCACCCTTTTTTT
992900 AAAGTCCACAACTCTGTGGCACCCTTTTTTT
1 AAAGTCCACAACTCTGTGGCACCCTTTTTTT
* * **
992931 AAGGTCCACAGCTCCATGGCACCCTTT
1 AAAGTCCACAACTCTGTGGCACCCTTT
992958 CTCTAAAGCC
Statistics
Matches: 93, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
26 7 0.08
27 11 0.12
28 20 0.22
29 2 0.02
30 3 0.03
31 30 0.32
32 2 0.02
33 1 0.01
34 17 0.18
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (31 bp):
AAAGTCCACAACTCTGTGGCACCCTTTTTTT
Found at i:992965 original size:62 final size:62
Alignment explanation
Indices: 992804--992953 Score: 150
Period size: 62 Copynumber: 2.5 Consensus size: 62
992794 CTAAGCGACA
* * * * *
992804 TTTCTT-TCAAAGTCCA-AACTCTATAGCACCCTTTT-AAGTCCACAACTCAGTGGCACCTTT
1 TTTCTTGT-AAAGTCCACAGCTCCATGGCACCTTTTTAAAGTCCACAACTCAGTGGCACCTCT
** * * *
992864 TTTCTTGTAAAGTCCACAGCTCTGTGGTATCTTTTTAAAGTCCACAACTCTGTGGCACC-CT
1 TTTCTTGTAAAGTCCACAGCTCCATGGCACCTTTTTAAAGTCCACAACTCAGTGGCACCTCT
*
992925 TTT-TT-TAAGGTCCACAGCTCCATGGCACC
1 TTTCTTGTAAAGTCCACAGCTCCATGGCACC
992954 CTTTCTCTAA
Statistics
Matches: 74, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
59 19 0.26
60 16 0.22
61 18 0.24
62 21 0.28
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (62 bp):
TTTCTTGTAAAGTCCACAGCTCCATGGCACCTTTTTAAAGTCCACAACTCAGTGGCACCTCT
Found at i:992990 original size:33 final size:33
Alignment explanation
Indices: 992947--993563 Score: 494
Period size: 33 Copynumber: 19.1 Consensus size: 33
992937 CACAGCTCCA
* * **
992947 TGGCACCCTTTCTCTAAAGCCTACATAAGTTAG
1 TGGCAACCTTTCTCTAAAGCCTACACAAGTCGG
*
992980 TGGCAACCTTTCTCTAAAGCCCACACAAGTCGG
1 TGGCAACCTTTCTCTAAAGCCTACACAAGTCGG
*
993013 TGGCAACCTTTCTCTAAAGCCCACACAAGTCGG
1 TGGCAACCTTTCTCTAAAGCCTACACAAGTCGG
* * * * **
993046 TGGTAACCCTTCTCTAAAGCCCACAAAAGTCAA
1 TGGCAACCTTTCTCTAAAGCCTACACAAGTCGG
* * * * *
993079 CGTCAACC-CTAT-TAAAGCCTACACAAGTTGG
1 TGGCAACCTTTCTCTAAAGCCTACACAAGTCGG
* * *
993110 TGGCAACCCTTTC-C-AAAGCCCACAAAAATCGG
1 TGGCAA-CCTTTCTCTAAAGCCTACACAAGTCGG
* * * * *
993142 TGACAACCTTTTTC-AAAGCCTGCACACGTCGA
1 TGGCAACCTTTCTCTAAAGCCTACACAAGTCGG
* * * *
993174 TGGCGACTTTTCTCTAAAGCCTACATAAGTCGA
1 TGGCAACCTTTCTCTAAAGCCTACACAAGTCGG
**
993207 TGGCAACCTTTCTCTAAAGCCTACACAAGTCAA
1 TGGCAACCTTTCTCTAAAGCCTACACAAGTCGG
* *
993240 TGGCAACCTTT-T-TTAGGCCTACACAAGTCGG
1 TGGCAACCTTTCTCTAAAGCCTACACAAGTCGG
* * ** ***
993271 TGGTAACCTTTTTCTAAAGCCCGCACAAGTTAA
1 TGGCAACCTTTCTCTAAAGCCTACACAAGTCGG
993304 TGGCAACCCTTT-T-T-AAGCCTACACAAGTCGG
1 TGGCAA-CCTTTCTCTAAAGCCTACACAAGTCGG
* * * * * * *
993335 CGCCAATCATTCTCTAAAGCCCACACAAGTTGA
1 TGGCAACCTTTCTCTAAAGCCTACACAAGTCGG
* * *
993368 TGGCAACATTTTTTTAAAGCCTACACAAGTCGG
1 TGGCAACCTTTCTCTAAAGCCTACACAAGTCGG
* * * * *
993401 TGACAACCCTTCT-AAAAGCCCACATAAGTCGG
1 TGGCAACCTTTCTCTAAAGCCTACACAAGTCGG
* *
993433 TGGCAACCCTTCT-AAAAGCCTACACAAGTCGG
1 TGGCAACCTTTCTCTAAAGCCTACACAAGTCGG
** * *
993465 TGGCAATTTTTTTCTAAAGCCTACACAAGTTGG
1 TGGCAACCTTTCTCTAAAGCCTACACAAGTCGG
* *
993498 TGGCAACCCTT-T-TAAAGACC-ACACAAGTCGA
1 TGGCAACCTTTCTCTAAAG-CCTACACAAGTCGG
* *
993529 TGGCAACCCTTTC-C-AAAGCCCACACAAGTCAG
1 TGGCAA-CCTTTCTCTAAAGCCTACACAAGTCGG
993561 TGG
1 TGG
993564 AATCTTCTTC
Statistics
Matches: 461, Mismatches: 106, Indels: 35
0.77 0.18 0.06
Matches are distributed among these distances:
30 3 0.01
31 87 0.19
32 127 0.28
33 239 0.52
34 5 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (33 bp):
TGGCAACCTTTCTCTAAAGCCTACACAAGTCGG
Found at i:993112 original size:64 final size:66
Alignment explanation
Indices: 992959--993557 Score: 247
Period size: 64 Copynumber: 9.3 Consensus size: 66
992949 GCACCCTTTC
* * * * *** *
992959 TCTAAAGCCTACATAAGTTAGTGGCAACCTTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTT
1 TCTAAAGCCTACACAAGTTGGTGGCAACCCTTCTCTAAAGCCCACAAAAGTCAACGGCAACCTCT
*
993024 C
66 A
* * * *
993025 TCTAAAGCCCACACAAGTCGGTGGTAACCCTTCTCTAAAGCCCACAAAAGTCAACGTCAACC-CT
1 TCTAAAGCCTACACAAGTTGGTGGCAACCCTTCTCTAAAGCCCACAAAAGTCAACGGCAACCTCT
993089 A
66 A
* * *** * *
993090 T-TAAAGCCTACACAAGTTGGTGGCAACCCTT-TCCAAAGCCCACAAAAATCGGTGACAACCTTT
1 TCTAAAGCCTACACAAGTTGGTGGCAACCCTTCTCTAAAGCCCACAAAAGTCAACGGCAACCTCT
*
993153 T
66 A
* * * * * ** * * * * *
993154 TC-AAAGCCTGCACACGTCGATGGCGACTTTTCTCTAAAGCCTACATAAGTCGATGGCAACCTTT
1 TCTAAAGCCTACACAAGTTGGTGGCAACCCTTCTCTAAAGCCCACAAAAGTCAACGGCAACCTCT
*
993218 C
66 A
*** * * * * * *** * *
993219 TCTAAAGCCTACACAAGTCAATGGCAA-CCTT-TTTTAGGCCTACACAAGTCGGTGGTAACCTTT
1 TCTAAAGCCTACACAAGTTGGTGGCAACCCTTCTCTAAAGCCCACAAAAGTCAACGGCAACCTCT
*
993282 T
66 A
** ** * * * ** * *
993283 TCTAAAGCCCGCACAAGTTAATGGCAACCCTT-T-TTAAGCCTACACAAGTCGGCGCCAATCAT-
1 TCTAAAGCCTACACAAGTTGGTGGCAACCCTTCTCTAAAGCCCACAAAAGTCAACGGCAA-CCTC
*
993345 TC
65 TA
* * ** * * * * *** *
993347 TCTAAAGCCCACACAAGTTGATGGCAACATTTTTTTAAAGCCTACACAAGTCGGTGACAACC-CT
1 TCTAAAGCCTACACAAGTTGGTGGCAACCCTTCTCTAAAGCCCACAAAAGTCAACGGCAACCTCT
993411 -
66 A
* * * * * * *** ** *
993411 TCTAAAAGCCCACATAAGTCGGTGGCAACCCTTCT-AAAAGCCTACACAAGTCGGTGGCAATTTT
1 TCT-AAAGCCTACACAAGTTGGTGGCAACCCTTCTCTAAAGCCCACAAAAGTCAACGGCAACCTC
*
993475 TT
65 TA
* * * *
993477 TCTAAAGCCTACACAAGTTGGTGGCAACCCTT-T-TAAAGACCACACAAGTCGATGGCAACC-CT
1 TCTAAAGCCTACACAAGTTGGTGGCAACCCTTCTCTAAAGCCCACAAAAGTCAACGGCAACCTCT
*
993539 T
66 A
* *
993540 TCCAAAGCCCACACAAGT
1 TCTAAAGCCTACACAAGT
993558 CAGTGGAATC
Statistics
Matches: 430, Mismatches: 91, Indels: 27
0.78 0.17 0.05
Matches are distributed among these distances:
63 41 0.10
64 199 0.46
65 94 0.22
66 96 0.22
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (66 bp):
TCTAAAGCCTACACAAGTTGGTGGCAACCCTTCTCTAAAGCCCACAAAAGTCAACGGCAACCTCT
A
Found at i:993192 original size:97 final size:97
Alignment explanation
Indices: 992947--993558 Score: 510
Period size: 97 Copynumber: 6.3 Consensus size: 97
992937 CACAGCTCCA
* * * * * *
992947 TGGCACCCTTTCTCTAAAGCCTACATAAGT-TAGTGGCAACCTTTCTCTAAAGCCCACACAAGTC
1 TGGCAACCTTTCTC-AAAGCCTACACAAGTCGA-TGGCAA-CTTTTTCTAAAGCCTACACAAGTT
993011 GGTGGCAA-CCTTTCTCTAAAGCCCACACAAGTCGG
63 GGTGGCAACCCTTTCTC-AAAGCCCACACAAGTCGG
* * * * * * * ** *
993046 TGGTAACCCTTCTCTAAAGCCCACAAAAGTCAACGTCAACCCTAT-TAAAGCCTACACAAGTTGG
1 TGGCAACCTTTCTC-AAAGCCTACACAAGTCGATGGCAACTTTTTCTAAAGCCTACACAAGTTGG
* *
993110 TGGCAACCCTTTC-CAAAGCCCACAAAAATCGG
65 TGGCAACCCTTTCTCAAAGCCCACACAAGTCGG
* * * * * * * *
993142 TGACAACCTTTTTCAAAGCCTGCACACGTCGATGGCGACTTTTCTCTAAAGCCTACATAAGTCGA
1 TGGCAACCTTTCTCAAAGCCTACACAAGTCGATGGCAACTTTT-TCTAAAGCCTACACAAGTTGG
* **
993207 TGGCAA-CCTTTCTCTAAAGCCTACACAAGTCAA
65 TGGCAACCCTTTCTC-AAAGCCCACACAAGTCGG
** * * * ** **
993240 TGGCAACCTTT-TTTAGGCCTACACAAGTCGGTGGTAACCTTTTTCTAAAGCCCGCACAAGTTAA
1 TGGCAACCTTTCTCAAAGCCTACACAAGTCGATGGCAA-CTTTTTCTAAAGCCTACACAAGTTGG
* *
993304 TGGCAACCCTTT-T-TAAGCCTACACAAGTCGG
65 TGGCAACCCTTTCTCAAAGCCCACACAAGTCGG
* * * * * * * *
993335 CGCCAATCATTCTCTAAAGCCCACACAAGTTGATGGCAACATTTTTTTAAAGCCTACACAAGTCG
1 TGGCAACCTTTCTC-AAAGCCTACACAAGTCGATGGCAAC-TTTTTCTAAAGCCTACACAAGTTG
* * *
993400 GTGACAACCC-TTCTAAAAGCCCACATAAGTCGG
64 GTGGCAACCCTTTCTCAAAGCCCACACAAGTCGG
* * * *
993433 TGGCAACCCTTCTAAAAGCCTACACAAGTCGGTGGCAATTTTTTTCTAAAGCCTACACAAGTTGG
1 TGGCAACCTTTCTCAAAGCCTACACAAGTCGATGGCAA-CTTTTTCTAAAGCCTACACAAGTTGG
* *
993498 TGGCAACCCTTT-T-AAAGACCACACAAGTCGA
65 TGGCAACCCTTTCTCAAAGCCCACACAAGTCGG
*
993529 TGGCAACCCTTTC-CAAAGCCCACACAAGTC
1 TGGCAA-CCTTTCTCAAAGCCTACACAAGTC
993559 AGTGGAATCT
Statistics
Matches: 403, Mismatches: 94, Indels: 35
0.76 0.18 0.07
Matches are distributed among these distances:
95 40 0.10
96 73 0.18
97 192 0.48
98 68 0.17
99 29 0.07
100 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (97 bp):
TGGCAACCTTTCTCAAAGCCTACACAAGTCGATGGCAACTTTTTCTAAAGCCTACACAAGTTGGT
GGCAACCCTTTCTCAAAGCCCACACAAGTCGG
Found at i:993291 original size:194 final size:196
Alignment explanation
Indices: 992956--993558 Score: 562
Period size: 194 Copynumber: 3.1 Consensus size: 196
992946 ATGGCACCCT
* * * * *
992956 TTCTCTAAAGCCTACATAAGT-TAGTGGCAAC-CTTTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 TTCTCTAAAGCCCACACAAGTCGA-TGGCAACATTTTCTCTAAAGCCTACACAAGTCGGTGGCAA
* * * * ***
993019 CCTTTCTCTAAAGCCCACACAAGTCGGTGGTAACCCTTCTCTAAAGCCCACAAAAGTC-AACGTC
65 CCTTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTT-TTTAAAGCCTACACAAGTCGGTGGT-
* * *
993083 AACC-CTAT-TAAAGCCTACACAAGTTGGTGGCAACCCTTTCCAAAGCCCACAAAAATCGGTGAC
128 AACCTTTTTCTAAAGCCTACACAAGTTGGTGGCAACCCTTT-CAAAGCCCACAAAAATCGGCGAC
*
993146 AACCT
192 AACCA
* ** * * * *
993151 TTTTC-AAAGCCTGCACACGTCGATGGCGAC-TTTTCTCTAAAGCCTACATAAGTCGATGGCAAC
1 TTCTCTAAAGCCCACACAAGTCGATGGCAACATTTTCTCTAAAGCCTACACAAGTCGGTGGCAAC
* ** * *
993214 CTTTCTCTAAAGCCTACACAAGTCAATGGCAA-CCTTTTTTAGGCCTACACAAGTCGGTGGTAAC
66 CTTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTTTTAAAGCCTACACAAGTCGGTGGTAAC
** ** ** * * * * *
993278 CTTTTTCTAAAGCCCGCACAAGTTAATGGCAACCCTTTTTAAGCCTACACAAGTCGGCGCCAATC
131 CTTTTTCTAAAGCCTACACAAGTTGGTGGCAACCCTTTCAAAGCCCACAAAAATCGGCGACAACC
993343 A
196 A
* * *
993344 TTCTCTAAAGCCCACACAAGTTGATGGCAACATTTT-TTTAAAGCCTACACAAGTCGGTGACAAC
1 TTCTCTAAAGCCCACACAAGTCGATGGCAACATTTTCTCTAAAGCCTACACAAGTCGGTGGCAAC
* * * * * * *
993408 CCTTCT-AAAAGCCCACATAAGTCGGTGGCAACCCTTCTAAAAGCCTACACAAGTCGGTGGCAAT
66 CTTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTTTTAAAGCCTACACAAGTCGGTGGTAAC
* * * * * ** *
993472 TTTTTTCTAAAGCCTACACAAGTTGGTGGCAACCCTTTTAAAGACCACACAAGTCGATGGCAACC
131 CTTTTTCTAAAGCCTACACAAGTTGGTGGCAACCCTTTCAAAGCCCACAAAAATCGGCGACAACC
*
993537 C
196 A
*
993538 TT-TCCAAAGCCCACACAAGTC
1 TTCTCTAAAGCCCACACAAGTC
993559 AGTGGAATCT
Statistics
Matches: 327, Mismatches: 74, Indels: 16
0.78 0.18 0.04
Matches are distributed among these distances:
192 18 0.06
193 68 0.21
194 232 0.71
195 9 0.03
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (196 bp):
TTCTCTAAAGCCCACACAAGTCGATGGCAACATTTTCTCTAAAGCCTACACAAGTCGGTGGCAAC
CTTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTTTTAAAGCCTACACAAGTCGGTGGTAAC
CTTTTTCTAAAGCCTACACAAGTTGGTGGCAACCCTTTCAAAGCCCACAAAAATCGGCGACAACC
A
Found at i:993577 original size:161 final size:157
Alignment explanation
Indices: 992959--993562 Score: 518
Period size: 161 Copynumber: 3.8 Consensus size: 157
992949 GCACCCTTTC
* * * * *
992959 TCTAAAGCCTACATAAGTTAGTGGCAACCTTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTT
1 TCTAAAGCCCACACAAGTCAGTGGCAACCTTTTTCTAAAGCCTACACAAGTCGGTGGCAACCTTT
* * * * *
993024 CTCTAAAGCCCACACAAGTCGGTGGTAACCCTTCTCTAAAGCCCACAAAAGTCAACGTCAACCCT
66 CTCTAAAGCCCACACAAGTCGATGGCAACCCTT-TCCAAAGCCCACACAAGTC-A-GTGAACCCT
*
993089 ATTAAAGCCTACACAAGTTGGTGGCAACCCTT
128 -TTAAAGCCTACACAAGTCGGTGGCAACCC-T
* * * * * * * * * *
993121 TCCAAAGCCCACAAAAATCGGTGACAACCTTTTTC-AAAGCCTGCACACGTCGATGGCGACTTTT
1 TCTAAAGCCCACACAAGTCAGTGGCAACCTTTTTCTAAAGCCTACACAAGTCGGTGGCAACCTTT
* * * *
993185 CTCTAAAGCCTACATAAGTCGATGGCAA-CCTTTCTCTAAAGCCTACACAAGTCAATGGCAACCT
66 CTCTAAAGCCCACACAAGTCGATGGCAACCCTTTC-C-AAAGCCCACACAAGTCAGT-G-AACC-
* * * * *
993249 TTTTTAGGCCTACACAAGTCGGTGGTAACCTTTT
126 CTTTAAAGCCTACACAAGTCGGTGGCAACC--CT
* * * * * * * *
993283 TCTAAAGCCCGCACAAGTTAATGGCAACCCTTTT-T-AAGCCTACACAAGTCGGCGCCAATCATT
1 TCTAAAGCCCACACAAGTCAGTGGCAACCTTTTTCTAAAGCCTACACAAGTCGGTGGCAACCTTT
* ** ** * *
993346 CTCTAAAGCCCACACAAGTTGATGGCAACATTTTTTTAAAGCCTACACAAGTCGGTGACAACCCT
66 CTCTAAAGCCCACACAAGTCGATGGCAAC-CCTTTCCAAAGCCCACACAAGTCAGTG--AACCCT
* *
993411 TCTAAAAGCCCACATAAGTCGGTGGCAACCCT
128 T-T-AAAGCCTACACAAGTCGGTGGCAACCCT
* * ** * *
993443 TCTAAAAGCCTACACAAGTCGGTGGCAATTTTTTTCTAAAGCCTACACAAGTTGGTGGCAACCCT
1 TCT-AAAGCCCACACAAGTCAGTGGCAACCTTTTTCTAAAGCCTACACAAGTCGGTGGCAACCTT
*
993508 T-T-TAAAGACCACACAAGTCGATGGCAACCCTTTCCAAAGCCCACACAAGTCAGTG
65 TCTCTAAAGCCCACACAAGTCGATGGCAACCCTTTCCAAAGCCCACACAAGTCAGTG
993563 GAATCTTCTT
Statistics
Matches: 342, Mismatches: 84, Indels: 34
0.74 0.18 0.07
Matches are distributed among these distances:
159 3 0.01
160 33 0.10
161 203 0.59
162 77 0.23
163 26 0.08
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (157 bp):
TCTAAAGCCCACACAAGTCAGTGGCAACCTTTTTCTAAAGCCTACACAAGTCGGTGGCAACCTTT
CTCTAAAGCCCACACAAGTCGATGGCAACCCTTTCCAAAGCCCACACAAGTCAGTGAACCCTTTA
AAGCCTACACAAGTCGGTGGCAACCCT
Done.