Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 31 of 145
Found at i:11349199 original size:50 final size:50
Alignment explanation
Indices: 11349065--11349202 Score: 233
Period size: 50 Copynumber: 2.8 Consensus size: 50
11349055 TATCGCTAAC
* *
11349065 CAGATAATTGTAGCTAAGCTACCACTTATCACTTATCACTTGTCACTGAT
1 CAGATAAGTGTAGCTAAGCTACCACTTATCACTTGTCACTTGTCACTGAT
*
11349115 CAAATAAGTGTAGCTAAGCTACCACTTATCACTTGTCACTTGTCACTGAT
1 CAGATAAGTGTAGCTAAGCTACCACTTATCACTTGTCACTTGTCACTGAT
11349165 CAGATAAGTGTAG-TGAAGCTACCACTTATCACTTGTCA
1 CAGATAAGTGTAGCT-AAGCTACCACTTATCACTTGTCA
11349203 TTGATCAGAA
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
49 1 0.01
50 82 0.99
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (50 bp):
CAGATAAGTGTAGCTAAGCTACCACTTATCACTTGTCACTTGTCACTGAT
Found at i:11350341 original size:19 final size:20
Alignment explanation
Indices: 11350307--11350345 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
11350297 TGAGTTTGAA
11350307 GTTTCAATACCTCATTTTCG
1 GTTTCAATACCTCATTTTCG
*
11350327 GTTTCGATA-CTCATTTTCG
1 GTTTCAATACCTCATTTTCG
11350346 ATTCTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.18, C:0.23, G:0.13, T:0.46
Consensus pattern (20 bp):
GTTTCAATACCTCATTTTCG
Found at i:11353332 original size:3 final size:3
Alignment explanation
Indices: 11353326--11353382 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
11353316 ACAGTAACCT
11353326 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11353374 TAA TAA TAA
1 TAA TAA TAA
11353383 ACGAAATTGG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11354812 original size:50 final size:50
Alignment explanation
Indices: 11354738--11354888 Score: 185
Period size: 50 Copynumber: 3.0 Consensus size: 50
11354728 TGACTGTGAT
* * *
11354738 GTCGGGGAAGCAAGACTCGTCGTTGTGGCTTCAATCTGTTCCACTGCACC
1 GTCGGAGAAGCAAGACTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACC
* * * * ** **
11354788 GTCTGAGAAGTAAGACTCGCCGTTGTGGCTTTAGTCTTTTTAACTGCAAT
1 GTCGGAGAAGCAAGACTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACC
* *
11354838 GTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACC
1 GTCGGAGAAGCAAGACTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACC
11354888 G
1 G
11354889 CTTGGAAAGT
Statistics
Matches: 80, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 80 1.00
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (50 bp):
GTCGGAGAAGCAAGACTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACC
Found at i:11355161 original size:131 final size:131
Alignment explanation
Indices: 11354980--11355287 Score: 494
Period size: 131 Copynumber: 2.3 Consensus size: 131
11354970 CAGGAACACA
*
11354980 AGATCTGTAATTTTTCCAACCTACTCCACTGCTG-CTCAGGGAAATAGGACTTGTGGCTTAAATC
1 AGATCTGTAA--TTTCCAACCTACTCCACTGCTGAC-CAGGGAGATAGGACTTGTGGCTTAAATC
* * *
11355044 TGCTTCCCTACTCCTAGGGAAGATAAGATTCACTGTCTTTGATCTGCTCTACTACTGCTTAGGGA
63 TGCTTCCCTACTCCTAGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGA
11355109 GATG
128 GATG
*
11355113 AGATCTGTAATTTCCAATCTACTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGC
1 AGATCTGTAATTTCCAACCTACTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGC
* **
11355178 TTCCCTACTCCTGGGGAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
66 TTCCCTACTCCTAGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
11355243 G
131 G
*
11355244 AGATCTGTAATTTCCAACCTATTCCACTGCTGACCA-GGAGATAG
1 AGATCTGTAATTTCCAACCTACTCCACTGCTGACCAGGGAGATAG
11355288 AATTATTGGC
Statistics
Matches: 164, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
130 8 0.05
131 145 0.88
132 1 0.01
133 10 0.06
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (131 bp):
AGATCTGTAATTTCCAACCTACTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGC
TTCCCTACTCCTAGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
G
Found at i:11355350 original size:131 final size:132
Alignment explanation
Indices: 11355079--11355614 Score: 631
Period size: 132 Copynumber: 4.1 Consensus size: 132
11355069 AGATTCACTG
* * * * *
11355079 TCTTTGATCTGCTCTACTACTGCTTAGGGAGATGAGATCTGTAAT-TTCCAATCTACTCCACTGC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTT-CAATCTATTCCACTGC
* * * * * * * * *
11355143 TGACCAGGGAGATAGGACTT-GTGGCTTAAATCTGCTTC-CC-T-ACTC-CTGGGGAAGATAAGA
65 TGACCAGGGAGATA-GAATTATTGGCTTCAATGTACTCCACCGTAAC-CAC-AGGG-AGGTAAAA
** *
11355203 TTTGCCG
126 TCCGCCA
* * *
11355210 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATGAGATCTGTAAT-TTCCAACCTATTCCACTGC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTT-CAATCTATTCCACTGC
* *
11355274 TGACCA-GGAGATAGAATTATTGGCTTCAATGTACTCCACCGTAACCTCAGGGAGGTAAAATCTG
65 TGACCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACCGTAACCACAGGGAGGTAAAATCCG
11355338 CCA
130 CCA
* * * * * *
11355341 TCTTTGATCTGCTTCACTATTGCTTAGGGAGATAAGATTTATAATCTTCAATATATTCCACTTCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCT
* *
11355406 G-CCTAGGGAGATAGAATTATTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCCG
66 GACC-AGGGAGATAGAATTATTGGCTTCAATGTACTCCACCGTAACCACAGGGAGGTAAAATCCG
11355470 CCA
130 CCA
*
11355473 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCT
* * * *
11355538 AACCAGGGAGATAGAATTACTGGCTTTAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGC
66 GACCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACCGTAACCACAGGGAGGTAAAATCCGC
11355603 CA
131 CA
11355605 TCTTCGATCT
1 TCTTCGATCT
11355615 NNNNNNNNNN
Statistics
Matches: 357, Mismatches: 39, Indels: 17
0.86 0.09 0.04
Matches are distributed among these distances:
129 4 0.01
130 22 0.06
131 134 0.38
132 192 0.54
133 5 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (132 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCT
GACCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACCGTAACCACAGGGAGGTAAAATCCGC
CA
Found at i:11355533 original size:44 final size:44
Alignment explanation
Indices: 11355355--11355534 Score: 107
Period size: 44 Copynumber: 4.1 Consensus size: 44
11355345 TGATCTGCTT
* * *
11355355 CACTATTGCTTAGGGAGATAAGATTTATAATCTTCAATATATTC
1 CACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATATACTC
* * ***
11355399 CACTTCTGCCTAGGGAGAT-AGAAT-TATTGGCTTCAATATACTC
1 CACTACTGCTTAGGGAGATAAG-ATCTATAATCTTCAATATACTC
** * * **** * * *
11355442 CACTGTAAC--CACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTC
1 CAC--T-ACTGCTTAGGGAGATAAGATCTATAATCTTCAATATACTC
* *
11355487 CACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTC
1 CACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATATACTC
11355531 CACT
1 CACT
11355535 GCCAACCAGG
Statistics
Matches: 96, Mismatches: 32, Indels: 16
0.67 0.22 0.11
Matches are distributed among these distances:
42 2 0.02
43 21 0.22
44 57 0.59
45 15 0.16
46 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (44 bp):
CACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATATACTC
Found at i:11355967 original size:45 final size:45
Alignment explanation
Indices: 11355918--11356045 Score: 106
Period size: 42 Copynumber: 2.9 Consensus size: 45
11355908 TATCTTCGAT
*
11355918 CTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTGCTATCTTT-AAC
1 CTGCTTCGCTGTCAATG-AGGAAGGCAAGAACTGCTATCTTTCAAC
* * * * * *
11355963 CTGCTCCACTGT-AACCGATGG-AGGCAA-AGCT-TTAT-TTTCAAT
1 CTGCTTCGCTGTCAA-TGA-GGAAGGCAAGAACTGCTATCTTTCAAC
*
11356005 CTGCTTCGCTGTCGATGCAGGAAGGCAAGAACTGCTATCTT
1 CTGCTTCGCTGTCAATG-AGGAAGGCAAGAACTGCTATCTT
11356046 CACTGATCTG
Statistics
Matches: 62, Mismatches: 12, Indels: 17
0.68 0.13 0.19
Matches are distributed among these distances:
41 3 0.05
42 18 0.29
43 11 0.18
44 12 0.19
45 16 0.26
46 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (45 bp):
CTGCTTCGCTGTCAATGAGGAAGGCAAGAACTGCTATCTTTCAAC
Found at i:11356040 original size:87 final size:87
Alignment explanation
Indices: 11355872--11356045 Score: 251
Period size: 87 Copynumber: 2.0 Consensus size: 87
11355862 NNNNGCCATC
* * *
11355872 AACCTGCTCCACTGCAACCGAGGGAGGCAAGGTTGGTATCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCTGCTCCACTGCAACCGAGGGAGGCAAGCTT-GTATCTTCAATCTGCTTCGCTGTCAATGCA
*
11355937 GGAAGGCAAGATCTGCTATCTTT
65 GGAAGGCAAGAACTGCTATCTTT
* * * *
11355960 AACCTGCTCCACTGTAACCGATGGAGGCAAAGCTT-TATTTTCAATCTGCTTCGCTGTCGATGCA
1 AACCTGCTCCACTGCAACCGAGGGAGGC-AAGCTTGTATCTTCAATCTGCTTCGCTGTCAATGCA
11356024 GGAAGGCAAGAACTGCTATCTT
65 GGAAGGCAAGAACTGCTATCTT
11356046 CACTGATCTG
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
87 46 0.60
88 26 0.34
89 5 0.06
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (87 bp):
AACCTGCTCCACTGCAACCGAGGGAGGCAAGCTTGTATCTTCAATCTGCTTCGCTGTCAATGCAG
GAAGGCAAGAACTGCTATCTTT
Found at i:11358155 original size:6 final size:6
Alignment explanation
Indices: 11358141--11358248 Score: 67
Period size: 6 Copynumber: 17.8 Consensus size: 6
11358131 GGCCTCTCCT
* * * * * *
11358141 TTTTTA TTTTCA TTTTTA TTTTGA TTTTTCC TTTTTGC TTTTTA CTTTGA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT-A TTTTT-A TTTTTA TTTTTA
* * * * *
11358191 TTTTTC TTTTTC TTTTTC TTCTTT- TTTGT- TTTTGA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
11358238 TTTTGA TTTTT
1 TTTTTA TTTTT
11358249 TTTATTGAAT
Statistics
Matches: 81, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
5 5 0.06
6 62 0.77
7 14 0.17
ACGTcount: A:0.09, C:0.08, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:11359033 original size:22 final size:22
Alignment explanation
Indices: 11359008--11359054 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
11358998 GAAAAAAATG
*
11359008 ATGTGGAAGAAAGTCTAAAAGA
1 ATGTGGAAGAAAGTCCAAAAGA
11359030 ATGTGGAAGAAAGTCCAAAAGA
1 ATGTGGAAGAAAGTCCAAAAGA
11359052 ATG
1 ATG
11359055 AAAGAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.49, C:0.06, G:0.28, T:0.17
Consensus pattern (22 bp):
ATGTGGAAGAAAGTCCAAAAGA
Found at i:11360323 original size:14 final size:13
Alignment explanation
Indices: 11360303--11360334 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
11360293 TTGTCCTCTC
11360303 TTTTTTGCTTCTG
1 TTTTTTGCTTCTG
11360316 TCTTTTTGCTTCTG
1 T-TTTTTGCTTCTG
11360330 TTTTT
1 TTTTT
11360335 GCAGGAGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.00, C:0.16, G:0.12, T:0.72
Consensus pattern (13 bp):
TTTTTTGCTTCTG
Found at i:11360888 original size:44 final size:43
Alignment explanation
Indices: 11360728--11361077 Score: 173
Period size: 44 Copynumber: 8.1 Consensus size: 43
11360718 GGGGGACGAA
* * *
11360728 ATTTGTGATTTTAGTCTGCTCCACTGTAACATCAGGGAGATAAG
1 ATTTGTGATTTTAATCTGCTCCACTGCAACTTCA-GGAGATAAG
* * * * **
11360772 ACTTGATG-TTTCAACCTGCTCCACAGTGACTTCAGGGAGATAAG
1 ATTTG-TGATTTTAATCTGCTCCACTGCAACTTCA-GGAGATAAG
* *** *
11360816 A-CTG-GA-TGCGATCTGCTCTACTGCAACTTCAGAGAGATAAG
1 ATTTGTGATTTTAATCTGCTCCACTGCAACTTCAG-GAGATAAG
* * *
11360857 ATTTGTGGTTTTAATCTACTCCACTGCAACTTCAGGGAGATAGG
1 ATTTGTGATTTTAATCTGCTCCACTGCAACTTCA-GGAGATAAG
* * * * *
11360901 ATTGGCT-ATCTTCAGTCTGTTCCACTGCAACTTCAGGGGAATAAG
1 ATTTG-TGAT-TTTAATCTGCTCCACTGCAACTTCAGGAG-ATAAG
* * * * * *
11360946 ACTCGTAATTTCAA-CATACCCCACTGCAACTTCAGGCAGATGAAG
1 ATTTGTGATTTTAATC-TGCTCCACTGCAACTTCAGG-AGAT-AAG
* * * * *
11360991 --TT-T-AATATGATCTGCTCTACTGCAACTTCAGAGAGATGAG
1 ATTTGTGATTTTAATCTGCTCCACTGCAACTTCAG-GAGATAAG
* * *
11361031 ATCTGTGGTTTTAATCCT-CTCCACTGCAACTTCAGGGAGATAGG
1 ATTTGTGATTTTAAT-CTGCTCCACTGCAACTTCA-GGAGATAAG
11361075 ATT
1 ATT
11361078 GGTTTTTTCT
Statistics
Matches: 228, Mismatches: 56, Indels: 44
0.70 0.17 0.13
Matches are distributed among these distances:
40 3 0.01
41 51 0.22
42 6 0.03
43 6 0.03
44 121 0.53
45 41 0.18
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (43 bp):
ATTTGTGATTTTAATCTGCTCCACTGCAACTTCAGGAGATAAG
Found at i:11360893 original size:85 final size:84
Alignment explanation
Indices: 11360742--11361079 Score: 265
Period size: 85 Copynumber: 3.9 Consensus size: 84
11360732 GTGATTTTAG
* * * * * * **
11360742 TCTGCTCCACTGTAACATCAGGGAGATAAGACTTGAT-GTTTCAACCTGCTCCACAGTGACTTCA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTG-TGGTTTCAATCTACTCCACTGCAACTTCA
*
11360806 GGGAGATAAGACTGGATGCGA
65 GGGAGATAAGATTGGAT-CGA
* * *
11360827 TCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAATCTACTCCACTGCAACTTCAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTGGTTTCAATCTACTCCACTGCAACTTCAG
* *
11360892 GGAGATAGGATTGGCTATCTTCA
66 GGAGATAAGATTGG--ATC--GA
* * * ** *
11360915 GTCTGTTCCACTGCAACTTCAG-GGGAATAAGACTCGTAATTTCAA-CATACCCCACTGCAACTT
1 -TCTGCTCCACTGCAACTTCAGAGAG-ATAAGACTTGTGGTTTCAATC-TACTCCACTGCAACTT
* ** *
11360978 CAGGCAGATGAAG-TTTAATATGA
63 CAGGGAGAT-AAGATTGGAT-CGA
* * *
11361001 TCTGCTCTACTGCAACTTCAGAGAGATGAGA-TCTGTGGTTTTAATCCT-CTCCACTGCAACTTC
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACT-TGTGGTTTCAAT-CTACTCCACTGCAACTTC
*
11361064 AGGGAGATAGGATTGG
64 AGGGAGATAAGATTGG
11361080 TTTTTTCTGT
Statistics
Matches: 196, Mismatches: 42, Indels: 30
0.73 0.16 0.11
Matches are distributed among these distances:
84 4 0.02
85 118 0.60
86 5 0.03
87 5 0.03
88 4 0.02
89 58 0.30
90 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (84 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTGGTTTCAATCTACTCCACTGCAACTTCAG
GGAGATAAGATTGGATCGA
Found at i:11361210 original size:50 final size:50
Alignment explanation
Indices: 11361156--11361665 Score: 379
Period size: 50 Copynumber: 10.2 Consensus size: 50
11361146 GCCATTGTGA
* * ** * *
11361156 CTTCAATCTTTTGAGTTGCAATGTCGGGGAAGCGAGATTCACCGTCGTAG
1 CTTCAATCTTTTCAGTTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAG
* * * * * *
11361206 CTTCAATCTGTTCCGCTGC-ATCGCCTGGGAAGTAAGATTCGCCATTGT-G
1 CTTCAATCTTTTCAGTTGCAAT-GTCAGGGAAGTAAGATTCGCCGTTGTAG
* ** ** *
11361255 ACTTCAATCTTTTGAGTTGCAATGTC-GAGGAAGCGAGATTTACCGTCGTAG
1 -CTTCAATCTTTTCAGTTGCAATGTCAG-GGAAGTAAGATTCGCCGTTGTAG
* * * * * * * *
11361306 CTTCAATCTGTTCCGCTGC-ATCGCCTGGGAAGTAAGATTTGCCATTGTGG
1 CTTCAATCTTTTCAGTTGCAAT-GTCAGGGAAGTAAGATTCGCCGTTGTAG
* * * * *
11361356 CTTTAATCTTTTGAGTTGCAATGTCGGGGAAGTGAGATTTGCCGTTGTAG
1 CTTCAATCTTTTCAGTTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAG
* * * * *
11361406 CTTCAATATGTTCCA-TTGC-ATCGCCTA-GGAAGTAAGATCCGCTGTTGTAG
1 CTTCAATCT-TTTCAGTTGCAAT-GTC-AGGGAAGTAAGATTCGCCGTTGTAG
* * * **
11361456 CTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGTTGTTGTAG
1 CTTCAATCTTTTCAGTTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAG
* * * * *
11361506 CTTCAATCTTTTTAATTACAATGTCAGGGAAGTAAGATCCGCTGTTGTAG
1 CTTCAATCTTTTCAGTTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAG
* * ** ***
11361556 CTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGACCCATTGTTGTAG
1 CTTCAATCTTTTCAGTTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAG
* * **
11361606 CTTCAATCTCTTT-AATTGCAATGTCAGGGAAGTAAGATCCGTTGTTGTAG
1 CTTCAATCT-TTTCAGTTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAG
11361656 CTTCAATCTT
1 CTTCAATCTT
11361666 NNNNNNNNNN
Statistics
Matches: 379, Mismatches: 66, Indels: 31
0.80 0.14 0.07
Matches are distributed among these distances:
49 13 0.03
50 352 0.93
51 14 0.04
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (50 bp):
CTTCAATCTTTTCAGTTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAG
Found at i:11361271 original size:100 final size:100
Alignment explanation
Indices: 11361093--11361487 Score: 560
Period size: 100 Copynumber: 4.0 Consensus size: 100
11361083 TTTCTGTCTG
* * * *
11361093 TTTAACGTCGTAGTTTCAATCTGTTCCGCTGCATTGCCTGGGAAGTAGGACTT-GCCATTGTGAC
1 TTTACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGA-TTCGCCATTGTGAC
11361157 TTCAATCTTTTGAGTTGCAATGTCGGGGAAGCGAGA
65 TTCAATCTTTTGAGTTGCAATGTCGGGGAAGCGAGA
*
11361193 TTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCATTGTGACT
1 TTTACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCATTGTGACT
*
11361258 TCAATCTTTTGAGTTGCAATGTCGAGGAAGCGAGA
66 TCAATCTTTTGAGTTGCAATGTCGGGGAAGCGAGA
* *
11361293 TTTACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTTGCCATTGTGGCT
1 TTTACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCATTGTGACT
* *
11361358 TTAATCTTTTGAGTTGCAATGTCGGGGAAGTGAGA
66 TCAATCTTTTGAGTTGCAATGTCGGGGAAGCGAGA
* * * ** * * **
11361393 TTTGCCGTTGTAGCTTCAATATGTTCCATTGCATCGCCTAGGAAGTAAGATCCGCTGTTGT-AGC
1 TTTACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCATTGTGA-C
* * *
11361457 TTCAATCTTTTTAATTGCAATGTCAGGGAAG
65 TTCAATCTTTTGAGTTGCAATGTCGGGGAAG
11361488 TAAGATCCGT
Statistics
Matches: 266, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
99 2 0.01
100 264 0.99
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (100 bp):
TTTACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCATTGTGACT
TCAATCTTTTGAGTTGCAATGTCGGGGAAGCGAGA
Found at i:11361488 original size:100 final size:100
Alignment explanation
Indices: 11361156--11361665 Score: 483
Period size: 100 Copynumber: 5.1 Consensus size: 100
11361146 GCCATTGTGA
* * * *
11361156 CTTCAATCTTTTGAGTTGCAATGTCGGGGAAGCGAGATTCACCGTCGTAGCTTCAATCTGTTCCG
1 CTTCAATCTTTTGAGTTGCAATGTCAGGGAAGTGAGATTCACCGTTGTAGCTTCAATCTGTTCCA
* * * **
11361221 CTGCATCGCCTGGGAAGTAAGATTCGCCATTGT-G
66 TTGCATCGCCTAGGAAGTAAGATCCGCTGTTGTAG
* * *
11361255 ACTTCAATCTTTTGAGTTGCAATGTC-GAGGAAGCGAGATTTACCGTCGTAGCTTCAATCTGTTC
1 -CTTCAATCTTTTGAGTTGCAATGTCAG-GGAAGTGAGATTCACCGTTGTAGCTTCAATCTGTTC
** * ** ** *
11361319 CGCTGCATCGCCTGGGAAGTAAGATTTGCCATTGTGG
64 CATTGCATCGCCTAGGAAGTAAGATCCGCTGTTGTAG
* * ** *
11361356 CTTTAATCTTTTGAGTTGCAATGTCGGGGAAGTGAGATTTGCCGTTGTAGCTTCAATATGTTCCA
1 CTTCAATCTTTTGAGTTGCAATGTCAGGGAAGTGAGATTCACCGTTGTAGCTTCAATCTGTTCCA
11361421 TTGCATCGCCTAGGAAGTAAGATCCGCTGTTGTAG
66 TTGCATCGCCTAGGAAGTAAGATCCGCTGTTGTAG
* * * * *** * **
11361456 CTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGTTGTTGTAGCTTCAATCTTTTTAA
1 CTTCAATCTTTTGAGTTGCAATGTCAGGGAAGTGAGATTCACCGTTGTAGCTTCAATCTGTTCCA
* *
11361521 TTACAAT-GTC-AGGGAAGTAAGATCCGCTGTTGTAG
66 TTGC-ATCGCCTA-GGAAGTAAGATCCGCTGTTGTAG
* * * ** ** * **
11361556 CTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGACCCATTGTTGTAGCTTCAATCTCTTTAA
1 CTTCAATCTTTTGAGTTGCAATGTCAGGGAAGTGAGATTCACCGTTGTAGCTTCAATCTGTTCCA
* *
11361621 TTGCAAT-GTC-AGGGAAGTAAGATCCGTTGTTGTAG
66 TTGC-ATCGCCTA-GGAAGTAAGATCCGCTGTTGTAG
11361656 CTTCAATCTT
1 CTTCAATCTT
11361666 NNNNNNNNNN
Statistics
Matches: 370, Mismatches: 35, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
99 2 0.01
100 364 0.98
101 4 0.01
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (100 bp):
CTTCAATCTTTTGAGTTGCAATGTCAGGGAAGTGAGATTCACCGTTGTAGCTTCAATCTGTTCCA
TTGCATCGCCTAGGAAGTAAGATCCGCTGTTGTAG
Found at i:11361538 original size:200 final size:200
Alignment explanation
Indices: 11361098--11361665 Score: 543
Period size: 200 Copynumber: 2.8 Consensus size: 200
11361088 GTCTGTTTAA
* ** * * * * * *
11361098 CGTCGTAGTTTCAATCTGTTCCGCTGCATTGCCTGGGAAGTAGGACTTGCCATTGTGACTTCAAT
1 CGTCGTAGCTTCAATCTGTTCAACTACATCGCCAGGGAAGTAAGATTTGCCATTGTGGCTTCAAT
* * **
11361163 CTTTTGAGTTGCAATGTCGGGGAAGCGAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATC
66 CTTTTGAGTTGCAATGTCGGGGAAGTGAGATTCACCGTTGTAGCTTCAATCTGTTCCATTGCATC
* * ** * *
11361228 GCCTGGGAAGTAAGATTCGCCATTGT-GACTTCAATCTTTTGAGTTGCAATGTCGAGGAAGCGAG
131 GCCTAGGAAGTAAGATCCGCTGTTGTAG-CTTCAATCTTTTGAATTGCAATGTCGAGGAAGCAAG
**
11361292 ATTTAC
195 ATCCAC
** * * *
11361298 CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTTGCCATTGTGGCTTTAAT
1 CGTCGTAGCTTCAATCTGTTCAACTACATCGCCAGGGAAGTAAGATTTGCCATTGTGGCTTCAAT
** *
11361363 CTTTTGAGTTGCAATGTCGGGGAAGTGAGATTTGCCGTTGTAGCTTCAATATGTTCCATTGCATC
66 CTTTTGAGTTGCAATGTCGGGGAAGTGAGATTCACCGTTGTAGCTTCAATCTGTTCCATTGCATC
* *
11361428 GCCTAGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTC-AGGGAAGTAAG
131 GCCTAGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTGAATTGCAATGTCGA-GGAAGCAAG
**
11361492 ATCCGT
195 ATCCAC
* * * * * * ** ** *
11361498 TGTTGTAGCTTCAATCTTTTTAATTACAAT-GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAA
1 CGTCGTAGCTTCAATCTGTTCAACTAC-ATCGCCAGGGAAGTAAGATTTGCCATTGTGGCTTCAA
* * * * ** ** * **
11361562 TCTTTTTAATTGCAATGTCAGGGAAGTAAGACCCATTGTTGTAGCTTCAATCTCTTTAATTGCAA
65 TCTTTTGAGTTGCAATGTCGGGGAAGTGAGATTCACCGTTGTAGCTTCAATCTGTTCCATTGC-A
* *
11361627 T-GTC-AGGGAAGTAAGATCCGTTGTTGTAGCTTCAATCTT
129 TCGCCTA-GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTT
11361666 NNNNNNNNNN
Statistics
Matches: 306, Mismatches: 57, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
199 2 0.01
200 299 0.98
201 5 0.02
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (200 bp):
CGTCGTAGCTTCAATCTGTTCAACTACATCGCCAGGGAAGTAAGATTTGCCATTGTGGCTTCAAT
CTTTTGAGTTGCAATGTCGGGGAAGTGAGATTCACCGTTGTAGCTTCAATCTGTTCCATTGCATC
GCCTAGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTGAATTGCAATGTCGAGGAAGCAAGA
TCCAC
Found at i:11362282 original size:50 final size:50
Alignment explanation
Indices: 11362198--11363694 Score: 1792
Period size: 50 Copynumber: 30.0 Consensus size: 50
11362188 NNNNNNNNCG
* ** * * *
11362198 GTCAGGGAA-TAAGATCCGCTGTTGTAGCTTCAATCTATTCCACTGTAAC
1 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
* * *
11362247 G-CTAGGAAAGTAAGATCCGCTATTGTAGCTTCAATCTTTTTAATTGCAAT
1 GTC-AGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
* * ** * *
11362297 GTCAGGAAAGTAAGATCTGCTGTTGTAGCTTCAATCTGTTCCACTGCAAC
1 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
*
11362347 G-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT-TCTTAATTGCAAT
1 GTC-AGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGT-TTAATTGCAAT
* *
11362397 GTCAGGGAAGTAAGATCCGTTGTTGTAGCTTCAATCTCTTTAATTGCAAT
1 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
* *
11362447 GTCAGGGAAGTAAGATCCGTTGTTGTAGCTTCAATCTCTTTAATTGCAAT
1 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
* *
11362497 GTCAGGGAAGTAAGATCCGTTGTTGTAGCTTCAATCTCTTTAATTGCAAT
1 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
* *
11362547 GTCAGGGAAGTAAGATCCGTTGTTGTAGCTTCAATCTCTTTAATTGCAAT
1 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
* *
11362597 GTCAGGGAAGTAAGATCCGTTGTTGTAGCTTCAATCTCTTTAATTGCAAT
1 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
* *
11362647 GTCAGGGAAGTAAGATCCGTTGTTGTAGCTTCAATCTCTTTAATTGCAAT
1 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
* * ** * * *
11362697 GTCAGGGAAGTAAGATCCGTTGTTGTAGCTTCAATCTATTCCACTGTAAC
1 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
* * *
11362747 G-CTAGGAAAGTAAGATCCGCTATTGTAGCTTCAATCTTTTTAATTGCAAT
1 GTC-AGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
* * ** * *
11362797 GTCAGGAAAGTAAGATCTGCTGTTGTAGCTTCAATCTGTTCCACTGCAAC
1 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
*
11362847 G-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT-TCTTAATTGCAAT
1 GTC-AGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGT-TTAATTGCAAT
*
11362897 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCT-ACTGCAAT
1 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTT-TAATTGCAAT
* *
11362947 G-CTAGGAAAGTAAGATCCGTTGTTGTAGCTTCATAT-T-TTTAATTGCAAT
1 GTC-AGGGAAGTAAGATCCGCTGTTGTAGCTTCA-ATCTGTTTAATTGCAAT
*
11362996 GTCAGGGAAGTAAAATCCGCTGTTGTAGCTTCAATCT-TCTTAATTGCAAT
1 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGT-TTAATTGCAAT
** ** * *
11363046 GTCAGGGAAGTAAGATCCGCTGTTGTATATTCAATCTGTTCCACTGCAAC
1 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
* *
11363096 G-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT-TCTTAATTACAAT
1 GTC-AGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGT-TTAATTGCAAT
* * ** *
11363146 GTCAGGGAAGTAAGATCCACTGTTGTAGCTTCAATCAGTTCCATTGCAAC
1 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
* *
11363196 GTTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT-TCTTAATTGCAAT
1 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGT-TTAATTGCAAT
* ** * *
11363246 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTTAATCTGTTCCACTGCAAC
1 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
*
11363296 G-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT-TCTTAATTGCAAT
1 GTC-AGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGT-TTAATTGCAAT
* ** * *
11363346 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCTATCTGTTCCACTGCAAC
1 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
* * *
11363396 G-CTAGGGACGTAAGATCCACTGTTGTAGCTTCAATCTTTTTAATTGCAAT
1 GTC-AGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
* * ** * * *
11363446 GTCAGGGAAGTAAGATCCGCTGTTGTAACTTCTATCTGTTCCACTGTAAC
1 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
* * *
11363496 G-CTAGGAAAGTAAGATCCGTTGTTGTAGCTTCAATCTTTTTAATTGCAAT
1 GTC-AGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
* * ** * * *
11363546 GTCAGGGAAGTAAGATCCGCTGTTGTAACTTCTATCTGTTCCACTGTAAC
1 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
* * *
11363596 G-CTAGGAAAGTAAGATCCGTTGTTGTAGCTTCAATCTTTTTAATTGCAAT
1 GTC-AGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
* *
11363646 GTCAGGGAAGTAAGATCCGCTATTGTAGCTTCAATCTTTTTAATTGCAA
1 GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAA
11363695 ACTATGGTTT
Statistics
Matches: 1255, Mismatches: 156, Indels: 73
0.85 0.11 0.05
Matches are distributed among these distances:
48 4 0.00
49 59 0.05
50 1174 0.94
51 18 0.01
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (50 bp):
GTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTTAATTGCAAT
Found at i:11363768 original size:45 final size:45
Alignment explanation
Indices: 11363711--11363845 Score: 148
Period size: 45 Copynumber: 3.0 Consensus size: 45
11363701 GTTTCTTCGA
*
11363711 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTACTATCTTCAT
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAT
* ** * * *
11363756 TCTGCTCCGCTGTCAGTACAGGAAAACAAG-GCTGGTGTCTTCGA-
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTC-AT
* * * *
11363800 TCTACTTCACTGCCAGTACAGGAAGGCATGATCTGCTATCTTCAT
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAT
11363845 T
1 T
11363846 GATCTGTTCT
Statistics
Matches: 70, Mismatches: 17, Indels: 6
0.75 0.18 0.06
Matches are distributed among these distances:
44 32 0.46
45 38 0.54
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (45 bp):
TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAT
Found at i:11364749 original size:22 final size:22
Alignment explanation
Indices: 11364724--11364770 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
11364714 CACGTATCTT
11364724 GAAAAAGAAAGAAGTATTCCAA
1 GAAAAAGAAAGAAGTATTCCAA
11364746 GAAAAAGAAAGAAGTATTCCAA
1 GAAAAAGAAAGAAGTATTCCAA
11364768 GAA
1 GAA
11364771 CAACAAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.60, C:0.09, G:0.19, T:0.13
Consensus pattern (22 bp):
GAAAAAGAAAGAAGTATTCCAA
Found at i:11364952 original size:21 final size:22
Alignment explanation
Indices: 11364926--11364973 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
11364916 GGTATAGCAA
11364926 GATCACCACATGCCCC-AATCT
1 GATCACCACATGCCCCTAATCT
** *
11364947 GATCACTTCATGCCCCTATTCT
1 GATCACCACATGCCCCTAATCT
11364969 GATCA
1 GATCA
11364974 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.25, C:0.38, G:0.10, T:0.27
Consensus pattern (22 bp):
GATCACCACATGCCCCTAATCT
Found at i:11365079 original size:9 final size:9
Alignment explanation
Indices: 11365065--11365103 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
11365055 CCATTTTTAA
11365065 TTTTTCATT
1 TTTTTCATT
11365074 TTTTTCA--
1 TTTTTCATT
11365081 TTTTTCATT
1 TTTTTCATT
11365090 TTTTTCATT
1 TTTTTCATT
11365099 TTTTT
1 TTTTT
11365104 GTTTGACTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.25
9 21 0.75
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTCATT
Found at i:11365083 original size:16 final size:16
Alignment explanation
Indices: 11365058--11365101 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
11365048 AGCCTCTCCA
*
11365058 TTTTTAATTTTTCATT
1 TTTTTCATTTTTCATT
11365074 TTTTTCATTTTTCATT
1 TTTTTCATTTTTCATT
11365090 TTTTTCATTTTT
1 TTTTTCATTTTT
11365102 TTGTTTGACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTCATTTTTCATT
Found at i:11365897 original size:7 final size:7
Alignment explanation
Indices: 11365885--11365918 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
11365875 TGACCTCTCC
11365885 TTTTTCT
1 TTTTTCT
11365892 TTTTTCT
1 TTTTTCT
11365899 TTTTT-T
1 TTTTTCT
11365905 ATTTTTCT
1 -TTTTTCT
11365913 TTTTTC
1 TTTTTC
11365919 CTATTTTGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 1 0.04
7 23 0.92
8 1 0.04
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTCT
Found at i:11365925 original size:21 final size:21
Alignment explanation
Indices: 11365885--11365925 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11365875 TGACCTCTCC
* *
11365885 TTTTTCTTTTTTCTTTTTTTA
1 TTTTTCTTTTTTCCTATTTTA
11365906 TTTTTCTTTTTTCCTATTTT
1 TTTTTCTTTTTTCCTATTTT
11365926 GACTTTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTCTTTTTTCCTATTTTA
Found at i:11365941 original size:37 final size:38
Alignment explanation
Indices: 11365898--11365979 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
11365888 TTCTTTTTTC
*
11365898 TTTTTTTATTTTTCTT-TTTTC-CTATTTTGACTTTGAT
1 TTTTTTTA-TTTTCTTGATTTCTCTATTTTGACTTTGAT
* *
11365935 TTTTTTTATTTTCTTGATTTCTTTATTTTGATTTTGAT
1 TTTTTTTATTTTCTTGATTTCTCTATTTTGACTTTGAT
11365973 TTTTTTT
1 TTTTTTT
11365980 TTAGTCTGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
36 7 0.17
37 12 0.30
38 21 0.52
ACGTcount: A:0.11, C:0.07, G:0.06, T:0.76
Consensus pattern (38 bp):
TTTTTTTATTTTCTTGATTTCTCTATTTTGACTTTGAT
Found at i:11370320 original size:14 final size:15
Alignment explanation
Indices: 11370291--11370332 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
11370281 CAATGTAAAT
11370291 AAAATGAAACATATAA
1 AAAAT-AAACATATAA
*
11370307 ACAATAAACA-ATAA
1 AAAATAAACATATAA
*
11370321 AAAATAATCATA
1 AAAATAAACATA
11370333 CGGGCAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 12 0.55
15 6 0.27
16 4 0.18
ACGTcount: A:0.69, C:0.10, G:0.02, T:0.19
Consensus pattern (15 bp):
AAAATAAACATATAA
Found at i:11371356 original size:3 final size:3
Alignment explanation
Indices: 11371350--11371392 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
11371340 AATAATAAAT
11371350 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
11371393 TAATAATAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:11371455 original size:3 final size:3
Alignment explanation
Indices: 11371391--11371438 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
11371381 CAACAACAAC
11371391 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11371439 TAGTTGAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11371679 original size:14 final size:13
Alignment explanation
Indices: 11371659--11371690 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
11371649 TTGTCCTCTC
11371659 TTTTTTGCTTCTG
1 TTTTTTGCTTCTG
11371672 TCTTTTTGCTTCTG
1 T-TTTTTGCTTCTG
11371686 TTTTT
1 TTTTT
11371691 GCAGGAGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.00, C:0.16, G:0.12, T:0.72
Consensus pattern (13 bp):
TTTTTTGCTTCTG
Found at i:11372000 original size:24 final size:22
Alignment explanation
Indices: 11371980--11372027 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
11371970 TTGATATTTG
11371980 TAAATAATTTTATATACATATAT
1 TAAATAATTTT-TATACATATAT
* *
11372003 TAAATAATTTTTATAAAAATAT
1 TAAATAATTTTTATACATATAT
11372025 TAA
1 TAA
11372028 TAAATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAATAATTTTTATACATATAT
Found at i:11372024 original size:22 final size:23
Alignment explanation
Indices: 11371980--11372035 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
11371970 TTGATATTTG
* *
11371980 TAAATAATTTTATATACATATAT
1 TAAATAATTTTATATAAAAATAT
11372003 TAAATAATTTT-TATAAAAATAT
1 TAAATAATTTTATATAAAAATAT
*
11372025 T-AATAAATTTA
1 TAAATAATTTTA
11372036 AAACAATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.28
22 10 0.34
23 11 0.38
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
TAAATAATTTTATATAAAAATAT
Found at i:11374771 original size:20 final size:21
Alignment explanation
Indices: 11374746--11374790 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
11374736 TTAAGTTTTT
*
11374746 AAATTTCACAATTAAATT-TA
1 AAATTTCACAAATAAATTATA
* *
11374766 AAATTTGACAAATATATTATA
1 AAATTTCACAAATAAATTATA
11374787 AAAT
1 AAAT
11374791 GTATTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (21 bp):
AAATTTCACAAATAAATTATA
Found at i:11376729 original size:13 final size:13
Alignment explanation
Indices: 11376711--11376740 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
11376701 ATATAAAAAA
11376711 TTCATTTTAATTT
1 TTCATTTTAATTT
11376724 TTCA-TTTAATTT
1 TTCATTTTAATTT
11376736 TTCAT
1 TTCAT
11376741 CTCTTATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (13 bp):
TTCATTTTAATTT
Found at i:11377324 original size:15 final size:15
Alignment explanation
Indices: 11377304--11377333 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11377294 GAAGAGAATG
*
11377304 AAAAAATGAAAGAAA
1 AAAAAAAGAAAGAAA
11377319 AAAAAAAGAAAGAAA
1 AAAAAAAGAAAGAAA
11377334 TTTAAAGTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (15 bp):
AAAAAAAGAAAGAAA
Found at i:11380421 original size:6 final size:6
Alignment explanation
Indices: 11380410--11380450 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
11380400 CAATACACTA
11380410 ATACAT ATACAT ATACATAT ATACAT ATACAT ATACAT ATA
1 ATACAT ATACAT ATAC--AT ATACAT ATACAT ATACAT ATA
11380451 TGTGATTGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (6 bp):
ATACAT
Found at i:11380433 original size:20 final size:20
Alignment explanation
Indices: 11380410--11380451 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
11380400 CAATACACTA
11380410 ATACATATACATATACATAT
1 ATACATATACATATACATAT
11380430 ATACATATACATATACATAT
1 ATACATATACATATACATAT
11380450 AT
1 AT
11380452 GTGATTGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (20 bp):
ATACATATACATATACATAT
Found at i:11380451 original size:14 final size:14
Alignment explanation
Indices: 11380414--11380444 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
11380404 ACACTAATAC
11380414 ATATACATATACAT
1 ATATACATATACAT
11380428 ATATACATATACAT
1 ATATACATATACAT
11380442 ATA
1 ATA
11380445 CATATATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (14 bp):
ATATACATATACAT
Found at i:11386455 original size:15 final size:15
Alignment explanation
Indices: 11386430--11386465 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
11386420 ACCTAAAAAA
11386430 ATTCT-GCTAAGGGT
1 ATTCTAGCTAAGGGT
11386444 ATTCTAGCTAAGGGT
1 ATTCTAGCTAAGGGT
11386459 ATTCTAG
1 ATTCTAG
11386466 TCATTTTAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (15 bp):
ATTCTAGCTAAGGGT
Found at i:11386549 original size:39 final size:41
Alignment explanation
Indices: 11386489--11386594 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 41
11386479 TTTTCTTATG
* * *
11386489 CTATTACACCTCTATTACATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
11386529 C-ATTACGCCTCTATTCCATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTC---T--ATTCCATTCAACCAAACAAAAGAATTAC
11386574 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
11386595 ACGCATCTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
39 9 0.16
40 1 0.02
41 8 0.14
42 1 0.02
43 1 0.02
44 22 0.39
45 4 0.07
46 10 0.18
ACGTcount: A:0.36, C:0.31, G:0.04, T:0.29
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:11386569 original size:44 final size:46
Alignment explanation
Indices: 11386506--11386594 Score: 155
Period size: 44 Copynumber: 2.0 Consensus size: 46
11386496 ACCTCTATTA
*
11386506 CATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCCATTC
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTC
11386550 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATT
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATT
11386595 ACGCATCTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
44 19 0.45
45 4 0.10
46 19 0.45
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.27
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTC
Found at i:11386597 original size:16 final size:16
Alignment explanation
Indices: 11386576--11386628 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
11386566 AGAATTACCT
11386576 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
11386592 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
11386608 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
11386624 ATTAC
1 ATTAC
11386629 AGTGAACCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.23, C:0.34, G:0.06, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:11387081 original size:41 final size:39
Alignment explanation
Indices: 11387036--11387172 Score: 129
Period size: 41 Copynumber: 3.5 Consensus size: 39
11387026 CGACTTCGAG
11387036 TCGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAAT
1 TCGATGAGACACTGGGTGTCAATTTA-TACTTCGGATT-AT
* *
11387077 TCGATGAGCCACTGGGTGCCAA-TT-TACTTC-GATT-T
1 TCGATGAGACACTGGGTGTCAATTTATACTTCGGATTAT
* * *
11387112 AGCTGATGAGACACTGGGTGTTAATTTATTTACTTCGAATTAT
1 -TC-GATGAGACACTGGGTGTCAATTTA--TACTTCGGATTAT
* *
11387155 CCGATGAGGCACTGGGTG
1 TCGATGAGACACTGGGTG
11387173 CCAAACTGGT
Statistics
Matches: 79, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
35 1 0.01
36 1 0.01
37 21 0.27
38 8 0.10
40 2 0.03
41 41 0.52
42 4 0.05
43 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (39 bp):
TCGATGAGACACTGGGTGTCAATTTATACTTCGGATTAT
Found at i:11390050 original size:17 final size:16
Alignment explanation
Indices: 11390022--11390074 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
11390012 TTTGGTTCGC
11390022 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11390038 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
11390055 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11390071 TGTA
1 TGTA
11390075 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:11401595 original size:10 final size:10
Alignment explanation
Indices: 11401544--11401606 Score: 54
Period size: 10 Copynumber: 5.8 Consensus size: 10
11401534 TATAATAAAT
*
11401544 AAAAGAAACA
1 AAAAGAAAGA
11401554 AAAAGAAAGA
1 AAAAGAAAGA
11401564 CAGAAAGCTAAACGA
1 -A-AAAG--AAA-GA
* *
11401579 AATAGAATGA
1 AAAAGAAAGA
11401589 AAAAGAAAGA
1 AAAAGAAAGA
11401599 AAAAGAAA
1 AAAAGAAA
11401607 AAGAGAAAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
10 27 0.63
11 3 0.07
12 4 0.09
13 3 0.07
14 4 0.09
15 2 0.05
ACGTcount: A:0.71, C:0.06, G:0.17, T:0.05
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:11402115 original size:85 final size:84
Alignment explanation
Indices: 11402025--11402186 Score: 234
Period size: 85 Copynumber: 1.9 Consensus size: 84
11402015 GACTAAATTC
**** * *
11402025 GAATTTAGGCAAATATTGAGTAAAATTTTTTTAAAATATTAAATATAAGATTGAATTGTGTTGTG
1 GAATTTAGGCAAATATTGAGTAAAAAAAATTTAAAATATTAAATATAAGATTGAATT-AGTTGTA
11402090 TTGATGAATTTTAATTGTTT
65 TTGATGAATTTTAATTGTTT
* * *
11402110 GAATTTGGGCAAATGTTGAGTAAAAAAAATTTGAAATATTAAATATAAGATTGAATTAGTTGTAT
1 GAATTTAGGCAAATATTGAGTAAAAAAAATTTAAAATATTAAATATAAGATTGAATTAGTTGTAT
11402175 TGATGAATTTTA
66 TGATGAATTTTA
11402187 GTTATTTTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
84 18 0.26
85 50 0.74
ACGTcount: A:0.40, C:0.01, G:0.17, T:0.42
Consensus pattern (84 bp):
GAATTTAGGCAAATATTGAGTAAAAAAAATTTAAAATATTAAATATAAGATTGAATTAGTTGTAT
TGATGAATTTTAATTGTTT
Found at i:11402594 original size:41 final size:39
Alignment explanation
Indices: 11402537--11402671 Score: 121
Period size: 40 Copynumber: 3.4 Consensus size: 39
11402527 GACTTCTAGA
*
11402537 CGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAATTTA-TACTTCGGATT-ATC
* * * * *
11402578 CGATGAGGCATTGGGTGCCAA-TT-TACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAATTTATACTTCGGATTATC
* * * * *
11402615 CGATGACACATTAGGTGTTAATTTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAATTTA-TACTTCGGATTATC
*
11402655 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
11402672 CCAAACTGGT
Statistics
Matches: 73, Mismatches: 18, Indels: 7
0.74 0.18 0.07
Matches are distributed among these distances:
37 17 0.23
38 12 0.16
40 26 0.36
41 18 0.25
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTTATACTTCGGATTATC
Found at i:11406867 original size:13 final size:13
Alignment explanation
Indices: 11406830--11406867 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
11406820 CGTCTAACAC
*
11406830 TTCTCTTCTTTCCT
1 TTCT-TTCTTTTCT
11406844 TTCTTTCTTTTCT
1 TTCTTTCTTTTCT
11406857 TTCTTTCTTTT
1 TTCTTTCTTTT
11406868 ATTTTGCTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TTCTTTCTTTTCT
Found at i:11407052 original size:112 final size:113
Alignment explanation
Indices: 11406896--11407120 Score: 443
Period size: 112 Copynumber: 2.0 Consensus size: 113
11406886 CATCCTTTCC
11406896 CACTTTCTTTTCATTTATTTTACTTTAATTTTATTTATTATTATAACATATAATGTATATTACAT
1 CACTTTCTTTTCATTTATTTTACTTTAATTTTATTTATTATTATAACATATAATGTATATTACAT
11406961 TATTACATATATATAATTCACACCCTTAATGACCGTCCACTATACATA
66 TATTACATATATATAATTCACACCCTTAATGACCGTCCACTATACATA
11407009 CACTTTC-TTTCATTTATTTTACTTTAATTTTATTTATTATTATAACATATAATGTATATTACAT
1 CACTTTCTTTTCATTTATTTTACTTTAATTTTATTTATTATTATAACATATAATGTATATTACAT
11407073 TATTACATATATATAATTCACACCCTTAATGACCGTCCACTATACATA
66 TATTACATATATATAATTCACACCCTTAATGACCGTCCACTATACATA
11407121 TATAATTACT
Statistics
Matches: 112, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
112 105 0.94
113 7 0.06
ACGTcount: A:0.34, C:0.17, G:0.03, T:0.47
Consensus pattern (113 bp):
CACTTTCTTTTCATTTATTTTACTTTAATTTTATTTATTATTATAACATATAATGTATATTACAT
TATTACATATATATAATTCACACCCTTAATGACCGTCCACTATACATA
Found at i:11407690 original size:37 final size:36
Alignment explanation
Indices: 11407630--11407723 Score: 107
Period size: 37 Copynumber: 2.6 Consensus size: 36
11407620 AGTACATAAG
* * * *
11407630 TAATCCAACCAAAACACACCAAATTCTCATGAGAGC
1 TAATCCAACCATAACACGCCAAATGCTCATAAGAGC
* *
11407666 TAATCCAACCGATAACACGTCAAATGCTCATAAGAGT
1 TAATCCAACC-ATAACACGCCAAATGCTCATAAGAGC
*
11407703 TAATCCAACTAATAACACGCC
1 TAATCCAAC-CATAACACGCC
11407724 TCGACACTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
36 10 0.21
37 38 0.79
ACGTcount: A:0.43, C:0.29, G:0.10, T:0.19
Consensus pattern (36 bp):
TAATCCAACCATAACACGCCAAATGCTCATAAGAGC
Found at i:11409346 original size:20 final size:21
Alignment explanation
Indices: 11409316--11409377 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
11409306 CCTAAACCCC
*
11409316 TATCTCCTAAATCCTAAATCA
1 TATCTCCTAAACCCTAAATCA
11409337 TATC-CCTAAACCCTAAATCA
1 TATCTCCTAAACCCTAAATCA
*
11409357 TAAACTCCT-AACCCTTAAATC
1 T-ATCTCCTAAACCC-TAAATC
11409378 TTAAACCCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 16 0.44
21 11 0.31
22 9 0.25
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (21 bp):
TATCTCCTAAACCCTAAATCA
Found at i:11409423 original size:15 final size:15
Alignment explanation
Indices: 11409403--11409433 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11409393 TAAACCATAA
*
11409403 CCATAATCCCTAAAC
1 CCATAATCCATAAAC
11409418 CCATAATCCATAAAC
1 CCATAATCCATAAAC
11409433 C
1 C
11409434 TTAAGATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (15 bp):
CCATAATCCATAAAC
Found at i:11410631 original size:43 final size:43
Alignment explanation
Indices: 11410578--11410884 Score: 319
Period size: 43 Copynumber: 7.1 Consensus size: 43
11410568 TGTTTTTGCG
* * * *
11410578 AAAAGTGCCGCTAAAGGT-TTGTTTTATAGTGCCGTTTGTGAT
1 AAAAGCGCCGCTAAAGGTCATGTTTTTTAGTGGCGTTTGTGAT
*
11410620 AAAAAGCGCCGCTAAAGGTCATGTTTTTTAGCGGCGTTTGTGAT
1 -AAAAGCGCCGCTAAAGGTCATGTTTTTTAGTGGCGTTTGTGAT
* * *
11410664 AAAAGTGCCGCTAAAGGTCATGTTTTTTAGTGGCGTTTTTGAC
1 AAAAGCGCCGCTAAAGGTCATGTTTTTTAGTGGCGTTTGTGAT
* *** * * *
11410707 AAAAGCGTCGCTAAAGGTCATGACATTTAGCGGCATTTGTGAC
1 AAAAGCGCCGCTAAAGGTCATGTTTTTTAGTGGCGTTTGTGAT
** * * * *
11410750 AAAAGCGCCATTAAAGGTCATGATCTTTAGCGGCGTTTGTAAT
1 AAAAGCGCCGCTAAAGGTCATGTTTTTTAGTGGCGTTTGTGAT
* * * *
11410793 AGAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGAT
1 AAAAGCGCCGCTAAAGGTCATGTTTTTTAGTGGCGTTTGTGAT
* * * * **
11410836 AGAAGCGCCGCTAAAGGCCATGATCTTTAGCAGCGTTTGTGAT
1 AAAAGCGCCGCTAAAGGTCATGTTTTTTAGTGGCGTTTGTGAT
11410879 AAAAGC
1 AAAAGC
11410885 TTTCACATAA
Statistics
Matches: 231, Mismatches: 32, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
43 211 0.91
44 20 0.09
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGTTTTTTAGTGGCGTTTGTGAT
Found at i:11410655 original size:107 final size:105
Alignment explanation
Indices: 11410464--11410668 Score: 313
Period size: 107 Copynumber: 1.9 Consensus size: 105
11410454 TTTTAGCGGC
* * *
11410464 GTTTTTGCTAGAAGCGCCGCTAAAGGTTTGTTCTTTAGTGGCATTGTGATAAAAGCGCCGCTAAA
1 GTTTTTGCGAAAAGCGCCGCTAAAGGTTTGTTCTTTAGTGCCATTGTGATAAAAGCGCCGCTAAA
11410529 GGTCATGGTTTATAGCGGCGTTTGTGATAAAAGAGTCGCT
66 GGTCATGGTTTATAGCGGCGTTTGTGATAAAAGAGTCGCT
* *
11410569 GTTTTTGCGAAAAGTGCCGCTAAAGGTTTGTT-TTATAGTGCCGTTTGTGATAAAAAGCGCCGCT
1 GTTTTTGCGAAAAGCGCCGCTAAAGGTTTGTTCTT-TAGTGCC-ATTGTGAT-AAAAGCGCCGCT
* *
11410633 AAAGGTCATGTTTTTTAGCGGCGTTTGTGATAAAAG
63 AAAGGTCATGGTTTATAGCGGCGTTTGTGATAAAAG
11410669 TGCCGCTAAA
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
104 2 0.02
105 35 0.39
106 7 0.08
107 46 0.51
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (105 bp):
GTTTTTGCGAAAAGCGCCGCTAAAGGTTTGTTCTTTAGTGCCATTGTGATAAAAGCGCCGCTAAA
GGTCATGGTTTATAGCGGCGTTTGTGATAAAAGAGTCGCT
Found at i:11410723 original size:86 final size:86
Alignment explanation
Indices: 11410610--11410884 Score: 361
Period size: 86 Copynumber: 3.2 Consensus size: 86
11410600 TTTATAGTGC
* * *
11410610 CGTTTGTGATAAAAAGCGCCGCTAAAGGTCATGTTTTTTAGCGGCGTTTGTGATAAAAGTGCCGC
1 CGTTTGTGAT-AAAAGCGCCGCTAAAGGTCATGATATTTAGCGGCGTTTGTGATAAAAGCGCCGC
* * *
11410675 TAAAGGTCATGTTTTTTAGTGG
65 TAAAGGTCATGATCTTTAGCGG
* * * * * * **
11410697 CGTTTTTGACAAAAGCGTCGCTAAAGGTCATGACATTTAGCGGCATTTGTGACAAAAGCGCCATT
1 CGTTTGTGATAAAAGCGCCGCTAAAGGTCATGATATTTAGCGGCGTTTGTGATAAAAGCGCCGCT
11410762 AAAGGTCATGATCTTTAGCGG
66 AAAGGTCATGATCTTTAGCGG
* * * *
11410783 CGTTTGTAATAGAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGATAGAAGCGCCGCT
1 CGTTTGTGATAAAAGCGCCGCTAAAGGTCATGATATTTAGCGGCGTTTGTGATAAAAGCGCCGCT
* *
11410848 AAAGGCCATGATCTTTAGCAG
66 AAAGGTCATGATCTTTAGCGG
11410869 CGTTTGTGATAAAAGC
1 CGTTTGTGATAAAAGC
11410885 TTTCACATAA
Statistics
Matches: 158, Mismatches: 30, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
86 150 0.95
87 8 0.05
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (86 bp):
CGTTTGTGATAAAAGCGCCGCTAAAGGTCATGATATTTAGCGGCGTTTGTGATAAAAGCGCCGCT
AAAGGTCATGATCTTTAGCGG
Found at i:11413934 original size:50 final size:50
Alignment explanation
Indices: 11413834--11414030 Score: 236
Period size: 50 Copynumber: 4.0 Consensus size: 50
11413824 TAACATCATT
* * *
11413834 GAGATGAGA-GCCCCCATGTAAGACCAT-TCTGGGACATGACGTTGGCACC
1 GAGATGAGAGGTCCCC-TGTAAGACCATGTCTGGGACATGGCATTGGCACC
* *
11413883 GAGATGAGAGGTCCCCTGTAAGACCATGTTTGGGACATGGCGTTGGCACC
1 GAGATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATTGGCACC
** * *
11413933 GAGATGAGAGGTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCATC
1 GAGATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATTGGCACC
* ** * * *
11413983 GATATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 GAGATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATTGGCA
11414031 GTACAGAATA
Statistics
Matches: 128, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
49 20 0.16
50 108 0.84
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
GAGATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATTGGCACC
Found at i:11414296 original size:12 final size:12
Alignment explanation
Indices: 11414279--11414317 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
11414269 ATGAGTTATT
11414279 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
11414291 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
11414303 TAAGTGAGTAAG
1 TAAGTAAGCAAG
11414315 TAA
1 TAA
11414318 AGACGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:11419611 original size:20 final size:20
Alignment explanation
Indices: 11419574--11419614 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
11419564 CCTTAAATTG
**
11419574 TTTTATTTATAAGGTTATTA
1 TTTTATTTATAAACTTATTA
11419594 TTTTATTTATAAACTTATTA
1 TTTTATTTATAAACTTATTA
11419614 T
1 T
11419615 GTTAATAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTTATTTATAAACTTATTA
Found at i:11419673 original size:21 final size:21
Alignment explanation
Indices: 11419649--11419689 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11419639 AAAATGCTAA
*
11419649 AAATATATTAATTTATTTTTT
1 AAATATATTAATGTATTTTTT
* *
11419670 AAATATTTTTATGTATTTTT
1 AAATATATTAATGTATTTTT
11419690 ATTGAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
AAATATATTAATGTATTTTTT
Found at i:11420194 original size:92 final size:93
Alignment explanation
Indices: 11420078--11420265 Score: 369
Period size: 92 Copynumber: 2.0 Consensus size: 93
11420068 TTATTTTAAA
11420078 TTATTTGAAGGATATTAGTAAAATAATAAATATTTATATTTAAAATAACATATATCTTAAAACTA
1 TTATTTGAAGGATATTAGTAAAATAATAAATATTTATATTTAAAATAACATATATCTTAAAACTA
11420143 AAATATTATTATCGTAAAAACTAGCTTT
66 AAATATTATTATCGTAAAAACTAGCTTT
11420171 TTATTTGAAGGA-ATTAGTAAAATAATAAATATTTATATTTAAAATAACATATATCTTAAAACTA
1 TTATTTGAAGGATATTAGTAAAATAATAAATATTTATATTTAAAATAACATATATCTTAAAACTA
11420235 AAATATTATTATCGTAAAAACTAGCTTT
66 AAATATTATTATCGTAAAAACTAGCTTT
11420263 TTA
1 TTA
11420266 AATTTAAATA
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
92 83 0.87
93 12 0.13
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.40
Consensus pattern (93 bp):
TTATTTGAAGGATATTAGTAAAATAATAAATATTTATATTTAAAATAACATATATCTTAAAACTA
AAATATTATTATCGTAAAAACTAGCTTT
Found at i:11422361 original size:2 final size:2
Alignment explanation
Indices: 11422354--11422381 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11422344 TATTTGATAT
11422354 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
11422382 CCTTGGCTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:11423249 original size:78 final size:78
Alignment explanation
Indices: 11423155--11423343 Score: 222
Period size: 80 Copynumber: 2.4 Consensus size: 78
11423145 AGTTTCGCTA
*
11423155 CTTCAGTGAAGGAAATAATGGTATTTGAGTTAAAGA-AAAAA-AAA-AAAGCAAAAGAAACTTAA
1 CTTCAGTGAAGTAAATAATGGTATTTGAGTTAAA-ATAAAAATAAATAAA-CAAAAGAAACTTAA
11423217 AAAGTTAGCTGCACCG
64 AAAGTT-GCTGCACCG
* * * * *
11423233 CTTCAGTGAAGTAAATAACGATGTTTGAGTTTTAAAATAAAAATAAATAAATAAAGGAAACTTAA
1 CTTCAGTGAAGTAAATAATGGTATTTGAG--TTAAAATAAAAATAAATAAACAAAAGAAACTTAA
* *
11423298 ATAGTTGCTTCACCG
64 AAAGTTGCTGCACCG
* *
11423313 CGTCAGTGAAATAAATAATGGTATTTGAGTT
1 CTTCAGTGAAGTAAATAATGGTATTTGAGTT
11423344 TTAGACAAAA
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
78 27 0.29
79 1 0.01
80 42 0.45
81 20 0.22
82 3 0.03
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.27
Consensus pattern (78 bp):
CTTCAGTGAAGTAAATAATGGTATTTGAGTTAAAATAAAAATAAATAAACAAAAGAAACTTAAAA
AGTTGCTGCACCG
Found at i:11425030 original size:15 final size:15
Alignment explanation
Indices: 11425012--11425048 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
11425002 CCAATTTTTC
11425012 TTTTCTAAATTGTTG
1 TTTTCTAAATTGTTG
*
11425027 TTTTCTAAATTTTTG
1 TTTTCTAAATTGTTG
11425042 TTTTCTA
1 TTTTCTA
11425049 TTTTCAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.65
Consensus pattern (15 bp):
TTTTCTAAATTGTTG
Found at i:11434218 original size:18 final size:17
Alignment explanation
Indices: 11434191--11434224 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
11434181 TTCAATTGAT
11434191 AATGAAACCATTAAGTC
1 AATGAAACCATTAAGTC
11434208 AATGTAAACCATTAAGT
1 AATG-AAACCATTAAGT
11434225 TAATCTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (17 bp):
AATGAAACCATTAAGTC
Found at i:11438272 original size:2 final size:2
Alignment explanation
Indices: 11438267--11438303 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
11438257 AATATCATTG
11438267 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11438304 TTCATAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11438862 original size:91 final size:90
Alignment explanation
Indices: 11438722--11438990 Score: 327
Period size: 91 Copynumber: 3.0 Consensus size: 90
11438712 TTAAGTATGT
* *
11438722 AAAAA-ACCCTCAAAATTTTTCAAAAAAAGCAATTAAGCCCTTGCTTTTTTTTTTGCACTCAATT
1 AAAAAGACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCTTGC-CTTTTTTTTGCACTCAATT
11438786 GGGTACTTGAACTTTTAAAATGCATC
65 GGGTACTTGAACTTTTAAAATGCATC
*
11438812 AAAAAGACCCTCAAACTTTTTCAAAAAAAGCAATTAAGTCCTTGCC--TTTTTTGCACTCAATTG
1 AAAAAGACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCTTGCCTTTTTTTTGCACTCAATTG
* * *
11438875 GGTACTTGAACTATCAAAATGCATA
66 GGTACTTGAACTTTTAAAATGCATC
* * * * *
11438900 AAAAAG-CCTTCAAACTTTTTCAAAAAGAAAAAACAATTAAGCCCCT-ACTTTTTTCT-CACTCA
1 AAAAAGACCCTCAAACTTTTTC---AA-AAAAAGCAATTAAGCCCTTGCCTTTTTTTTGCACTCA
* *
11438962 ATTGGGTACTTGAA-TTGTCAAATGCATC
62 ATTGGGTACTTGAACTTTTAAAATGCATC
11438990 A
1 A
11438991 TCAAAAAGGC
Statistics
Matches: 155, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
87 14 0.09
88 45 0.29
90 18 0.12
91 73 0.47
92 5 0.03
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.32
Consensus pattern (90 bp):
AAAAAGACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCTTGCCTTTTTTTTGCACTCAATTG
GGTACTTGAACTTTTAAAATGCATC
Found at i:11439040 original size:20 final size:20
Alignment explanation
Indices: 11439004--11439041 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11438994 AAAAGGCTCT
**
11439004 TTGATCGTTAACTTTAACGG
1 TTGATCGTTAAAGTTAACGG
11439024 TTGATCGTTAAAGTTAAC
1 TTGATCGTTAAAGTTAAC
11439042 TTCTCCTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.39
Consensus pattern (20 bp):
TTGATCGTTAAAGTTAACGG
Found at i:11441479 original size:140 final size:141
Alignment explanation
Indices: 11441216--11441497 Score: 557
Period size: 140 Copynumber: 2.0 Consensus size: 141
11441206 GGGTAAATAT
11441216 GAGTTTTAGATGATAAAGGATTTATTTGAAGTGCATAATCAAAGTAGAGGTCCTTAAATAGAATT
1 GAGTTTTAGATGATAAAGGATTTATTTGAAGTGCATAATCAAAGTAGAGGTCCTTAAATAGAATT
11441281 AGACCATAAAATTTCCATGGACAAAAATAGGCATGCATAGATAAAAATAACTAAAGTTTTAATGA
66 AGACCATAAAATTTCCATGGACAAAAATAGGCATGCATAGATAAAAATAACTAAAGTTTTAATGA
11441346 ATGGTATTTTA
131 ATGGTATTTTA
11441357 GAGTTTTAGA-GATAAAGGATTTATTTGAAGTGCATAATCAAAGTAGAGGTCCTTAAATAGAATT
1 GAGTTTTAGATGATAAAGGATTTATTTGAAGTGCATAATCAAAGTAGAGGTCCTTAAATAGAATT
11441421 AGACCATAAAATTTCCATGGACAAAAATAGGCATGCATAGATAAAAATAACTAAAGTTTTAATGA
66 AGACCATAAAATTTCCATGGACAAAAATAGGCATGCATAGATAAAAATAACTAAAGTTTTAATGA
11441486 ATGGTATTTTA
131 ATGGTATTTTA
11441497 G
1 G
11441498 TCATTGAATA
Statistics
Matches: 141, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
140 131 0.93
141 10 0.07
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.31
Consensus pattern (141 bp):
GAGTTTTAGATGATAAAGGATTTATTTGAAGTGCATAATCAAAGTAGAGGTCCTTAAATAGAATT
AGACCATAAAATTTCCATGGACAAAAATAGGCATGCATAGATAAAAATAACTAAAGTTTTAATGA
ATGGTATTTTA
Found at i:11442464 original size:56 final size:56
Alignment explanation
Indices: 11442368--11442566 Score: 302
Period size: 56 Copynumber: 3.7 Consensus size: 56
11442358 ATTTTGGTAA
*
11442368 AGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCCTTGAGATCATG
* *
11442424 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC--GAGA-C--G
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCCTTGAGATCATG
*
11442474 AGAGGTCCTATGTAAGACCATGTCTAGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCCTTGAGATCATG
* *
11442530 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCAT
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCAT
11442567 GGGAACCGAT
Statistics
Matches: 128, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
50 40 0.31
51 2 0.02
52 1 0.01
53 8 0.06
54 1 0.01
55 2 0.02
56 74 0.58
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (56 bp):
AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCCTTGAGATCATG
Found at i:11442481 original size:50 final size:54
Alignment explanation
Indices: 11442368--11442619 Score: 286
Period size: 56 Copynumber: 4.7 Consensus size: 54
11442358 ATTTTGGTAA
* *
11442368 AGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGATCA-G
*
11442424 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAGA-C-G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGATCAG
* *
11442474 AGAGGTCCTATGTAAGACCATGTCTAGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGATCA-G
* * * *
11442530 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCA-TGGGAACC-GATAT--G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGATCAG
** * * *
11442580 AGAACTCCCATGTAAGACCATATCTGGGATATGACATTGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
11442620 TAGTATATAA
Statistics
Matches: 171, Mismatches: 18, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
50 71 0.42
51 5 0.03
52 1 0.01
53 12 0.07
54 1 0.01
55 8 0.05
56 73 0.43
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (54 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGATCAG
Found at i:11442562 original size:106 final size:106
Alignment explanation
Indices: 11442368--11442619 Score: 380
Period size: 106 Copynumber: 2.4 Consensus size: 106
11442358 ATTTTGGTAA
11442368 AGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
* * *
11442433 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
66 ATGTAAGACCATGTCTGGGACATGGCATGGGAACCGAGACG
* *
11442474 AGAGGTCCTATGTAAGACCATGTCTAGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
* * *
11442539 ATGTAAGACCATGTTTGGGACATGGCATGGGAACCGATATG
66 ATGTAAGACCATGTCTGGGACATGGCATGGGAACCGAGACG
* * * *
11442580 AGA-ACTCCCATGTAAGACCATATCTGGGATATGACATTGG
1 AGAGA-TCCCATGTAAGACCATGTCTAGGACATGGCATTGG
11442620 TAGTATATAA
Statistics
Matches: 131, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
106 131 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (106 bp):
AGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
ATGTAAGACCATGTCTGGGACATGGCATGGGAACCGAGACG
Found at i:11442657 original size:49 final size:49
Alignment explanation
Indices: 11442535--11442661 Score: 150
Period size: 50 Copynumber: 2.6 Consensus size: 49
11442525 TCATGAGAGG
* *
11442535 TCCCATGTAAGACCATGTTTGGGACATGGCATGGGAACCGATATGAGAAC
1 TCCCATGTAAGACCATGTTTGGGACATGACATGGGAA-CGATATGAAAAC
* * * * *
11442585 TCCCATGTAAGACCATATCTGGGATATGACATTGGTA-GTATAT-AAAAC
1 TCCCATGTAAGACCATGTTTGGGACATGACATGGGAACG-ATATGAAAAC
11442633 ATCCCATGTAAGACCATGTTTGGGACATG
1 -TCCCATGTAAGACCATGTTTGGGACATG
11442662 GCTTTGGCAT
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
48 5 0.08
49 29 0.45
50 31 0.48
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTTTGGGACATGACATGGGAACGATATGAAAAC
Found at i:11445254 original size:30 final size:30
Alignment explanation
Indices: 11445219--11445281 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
11445209 ACTTATTTTA
11445219 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
11445249 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
11445279 TTG
1 TTG
11445282 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:11452583 original size:15 final size:14
Alignment explanation
Indices: 11452551--11452588 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
11452541 TGGGTGAACA
11452551 TTTTTGTTTTCTCC
1 TTTTTGTTTTCTCC
11452565 TTTTTGTTTTCTCC
1 TTTTTGTTTTCTCC
*
11452579 TTTTTCTTTT
1 TTTTTGTTTT
11452589 GGTGTCGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.76
Consensus pattern (14 bp):
TTTTTGTTTTCTCC
Found at i:11453509 original size:26 final size:26
Alignment explanation
Indices: 11453471--11453545 Score: 123
Period size: 26 Copynumber: 2.9 Consensus size: 26
11453461 TTGCCACATA
* *
11453471 CACTGTTACTGGCAGTTTTGCTGCAT
1 CACTATTACTGGCAGCTTTGCTGCAT
*
11453497 TACTATTACTGGCAGCTTTGCTGCAT
1 CACTATTACTGGCAGCTTTGCTGCAT
11453523 CACTATTACTGGCAGCTTTGCTG
1 CACTATTACTGGCAGCTTTGCTG
11453546 TGATTTGGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.37
Consensus pattern (26 bp):
CACTATTACTGGCAGCTTTGCTGCAT
Found at i:11453697 original size:28 final size:28
Alignment explanation
Indices: 11453657--11453717 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
11453647 ATTGTATTGA
* * **
11453657 TTACTGTATTGGGTTAAGGTTCACACTG
1 TTACTGTAATGGGCTAAGGCCCACACTG
11453685 TTACTGTAATGGGCTAAGGCCCACACTG
1 TTACTGTAATGGGCTAAGGCCCACACTG
11453713 -TACTG
1 TTACTG
11453718 ATACTGTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (28 bp):
TTACTGTAATGGGCTAAGGCCCACACTG
Found at i:11458462 original size:9 final size:9
Alignment explanation
Indices: 11458448--11458474 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
11458438 ACCTTGTGTG
11458448 GGTGTCGTA
1 GGTGTCGTA
11458457 GGTGTCGTA
1 GGTGTCGTA
11458466 GGTGTCGTA
1 GGTGTCGTA
11458475 CTCCTACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.44, T:0.33
Consensus pattern (9 bp):
GGTGTCGTA
Found at i:11459292 original size:27 final size:27
Alignment explanation
Indices: 11459261--11459432 Score: 165
Period size: 27 Copynumber: 6.4 Consensus size: 27
11459251 GGCAAATAAC
**
11459261 CGAATTACCCTCGAAGGGTAAAATGTT
1 CGAATTACCCTCGAAGGGTAAAATGAA
* *
11459288 CGAATTA-CTTCTGAAGGGTAAAATGAC
1 CGAATTACCCTC-GAAGGGTAAAATGAA
* *
11459315 CGAATTACCC-CTAAAAGGTAAAATGAA
1 CGAATTACCCTC-GAAGGGTAAAATGAA
*
11459342 CGAATTAACCC-CGAAAGGTAAAATG-A
1 CGAATT-ACCCTCGAAGGGTAAAATGAA
* *
11459368 CTGAATTACCCTTGAAGGGTAAGAT-AA
1 C-GAATTACCCTCGAAGGGTAAAATGAA
*
11459395 CTGAATTACCCTCGAAGGGTAAAATGAC
1 C-GAATTACCCTCGAAGGGTAAAATGAA
*
11459423 CGAAATACCC
1 CGAATTACCC
11459433 CCATAGGATA
Statistics
Matches: 123, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
26 9 0.07
27 106 0.86
28 8 0.07
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.22
Consensus pattern (27 bp):
CGAATTACCCTCGAAGGGTAAAATGAA
Found at i:11459322 original size:54 final size:53
Alignment explanation
Indices: 11459254--11459432 Score: 191
Period size: 54 Copynumber: 3.3 Consensus size: 53
11459244 AATCATAGGC
* ** *
11459254 AAATAACCGAATTACCCTCGAAGGGTAAAATGTTCGAATTACTTCTGAAGGGTA
1 AAATGACCGAATTACCCTCGAAGGGTAAAATGAACGAATTAC-CCTGAAGGGTA
* * * *
11459308 AAATGACCGAATTACCC-CTAAAAGGTAAAATGAACGAATTAACCCCGAAAGGTA
1 AAATGACCGAATTACCCTC-GAAGGGTAAAATGAACGAATT-ACCCTGAAGGGTA
* * *
11459362 AAATGACTGAATTACCCTTGAAGGGTAAGAT-AACTGAATTACCCTCGAAGGGTA
1 AAATGACCGAATTACCCTCGAAGGGTAAAATGAAC-GAATTACCCT-GAAGGGTA
*
11459416 AAATGACCGAAATACCC
1 AAATGACCGAATTACCC
11459433 CCATAGGATA
Statistics
Matches: 103, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
53 8 0.08
54 93 0.90
55 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (53 bp):
AAATGACCGAATTACCCTCGAAGGGTAAAATGAACGAATTACCCTGAAGGGTA
Found at i:11459401 original size:81 final size:80
Alignment explanation
Indices: 11459261--11459451 Score: 199
Period size: 81 Copynumber: 2.4 Consensus size: 80
11459251 GGCAAATAAC
* * * *
11459261 CGAATTACCCTCGAAGGGTAAAATG-TTCGAATTACTTCTGAAGGGTAAAATGACCGAATTACCC
1 CGAATTACCC-CGAAAGGTAAAATGACT-GAATTACCTCTGAAGGGTAAAATAACCGAATTACCC
11459325 -CTAAAAGGTAAAATGAA
64 TC-AAAAGGTAAAATGAA
* *
11459342 CGAATTAACCCCGAAAGGTAAAATGACTGAATTACC-CTTGAAGGGTAAGATAACTGAATTACCC
1 CGAATT-ACCCCGAAAGGTAAAATGACTGAATTACCTC-TGAAGGGTAAAATAACCGAATTACCC
* * *
11459406 TCGAAGGGTAAAATGAC
64 TCAAAAGGTAAAATGAA
* * *
11459423 CGAAATACCCCCATAGGATAAAATGACTG
1 CGAATTACCCCGAAAGG-TAAAATGACTG
11459452 TTATACCCCT
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
80 10 0.11
81 77 0.83
82 6 0.06
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (80 bp):
CGAATTACCCCGAAAGGTAAAATGACTGAATTACCTCTGAAGGGTAAAATAACCGAATTACCCTC
AAAAGGTAAAATGAA
Found at i:11459654 original size:26 final size:26
Alignment explanation
Indices: 11459599--11459700 Score: 107
Period size: 26 Copynumber: 3.9 Consensus size: 26
11459589 AGGGGAAGTA
** **
11459599 TACTG-TACTGGTGGCTTTGCCACAT
1 TACTGTTACTGGCAGCTTTGCTGCAT
*
11459624 ATACTGTTACTGGCAGGTTTGCTGCAT
1 -TACTGTTACTGGCAGCTTTGCTGCAT
*
11459651 TACTGTTACTGGCAGCTTTGCTACAT
1 TACTGTTACTGGCAGCTTTGCTGCAT
* * *
11459677 CACTATTACTGGTAGCTTTGCTGC
1 TACTGTTACTGGCAGCTTTGCTGC
11459701 GATATTAGTG
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 49 0.77
27 15 0.23
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCAT
Found at i:11459688 original size:52 final size:52
Alignment explanation
Indices: 11459599--11459700 Score: 125
Period size: 52 Copynumber: 2.0 Consensus size: 52
11459589 AGGGGAAGTA
** * * *
11459599 TACTGTACTGGTGGCTTTGCCACATATACTGTTACTGGCAGGTTTGCTGCAT
1 TACTGTACTGGCAGCTTTGCCACATACACTATTACTGGCAGCTTTGCTGCAT
* *
11459651 TACTGTTACTGGCAGCTTTGCTACAT-CACTATTACTGGTAGCTTTGCTGC
1 TACTG-TACTGGCAGCTTTGCCACATACACTATTACTGGCAGCTTTGCTGC
11459701 GATATTAGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
52 25 0.60
53 17 0.40
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (52 bp):
TACTGTACTGGCAGCTTTGCCACATACACTATTACTGGCAGCTTTGCTGCAT
Found at i:11459894 original size:33 final size:32
Alignment explanation
Indices: 11459805--11459894 Score: 89
Period size: 28 Copynumber: 2.8 Consensus size: 32
11459795 ATCATTGCAT
*
11459805 TGTATTGATTACTGTATTGGGCTAAGACCCACAC
1 TGTA-TGA-TACTGTATTGGGCTAAGGCCCACAC
* *
11459839 TG--T--TACTCTAATGGGCTAAGGCCCACAC
1 TGTATGATACTGTATTGGGCTAAGGCCCACAC
*
11459867 TGTACTGATACTGTATTGGGCTCAGGCC
1 TGTA-TGATACTGTATTGGGCTAAGGCC
11459895 TAGACTGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
28 24 0.53
31 2 0.04
33 17 0.38
34 2 0.04
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (32 bp):
TGTATGATACTGTATTGGGCTAAGGCCCACAC
Found at i:11461854 original size:26 final size:26
Alignment explanation
Indices: 11461825--11461886 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
11461815 AATAGAGGTC
11461825 GCCAC-AAGGACTTCCATTCAGAGATA
1 GCCACAAAGG-CTTCCATTCAGAGATA
*
11461851 GCCACAAAGGCTTCCATTCAGATATA
1 GCCACAAAGGCTTCCATTCAGAGATA
*
11461877 GCCATAAAGG
1 GCCACAAAGG
11461887 TTTTCTCGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 29 0.88
27 4 0.12
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (26 bp):
GCCACAAAGGCTTCCATTCAGAGATA
Found at i:11461906 original size:28 final size:27
Alignment explanation
Indices: 11461874--11461968 Score: 81
Period size: 28 Copynumber: 3.5 Consensus size: 27
11461864 CCATTCAGAT
* *
11461874 ATAGCCATAAAGGTTTTCTCGTAAGGAA
1 ATAGCCACAAAGGTTATCTCGTAA-GAA
11461902 ATAGCCACAAAGGCTGTCAT-TC--AA-AA
1 ATAGCCACAAAGG-T-T-ATCTCGTAAGAA
*
11461928 ATAGCCATAAAGGTTATCTCGTAAAGAA
1 ATAGCCACAAAGGTTATCTCGT-AAGAA
*
11461956 ATTGCCACAAAGG
1 ATAGCCACAAAGG
11461969 CATTTCTTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
23 2 0.04
24 3 0.06
25 1 0.02
26 14 0.26
27 2 0.04
28 27 0.50
29 1 0.02
30 3 0.06
31 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (27 bp):
ATAGCCACAAAGGTTATCTCGTAAGAA
Found at i:11461932 original size:54 final size:54
Alignment explanation
Indices: 11461848--11461969 Score: 183
Period size: 54 Copynumber: 2.3 Consensus size: 54
11461838 CCATTCAGAG
* * * *
11461848 ATAGCCACAAAGGCTTCCATTCAGATATAGCCATAAAGGTTTTCTCGTAAGGAA
1 ATAGCCACAAAGGCTTCCATTCAAAAATAGCCATAAAGGTTATCTCGTAAAGAA
11461902 ATAGCCACAAAGGCTGT-CATTCAAAAATAGCCATAAAGGTTATCTCGTAAAGAA
1 ATAGCCACAAAGGCT-TCCATTCAAAAATAGCCATAAAGGTTATCTCGTAAAGAA
*
11461956 ATTGCCACAAAGGC
1 ATAGCCACAAAGGC
11461970 ATTTCTTTTA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 61 0.98
55 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (54 bp):
ATAGCCACAAAGGCTTCCATTCAAAAATAGCCATAAAGGTTATCTCGTAAAGAA
Found at i:11473757 original size:38 final size:39
Alignment explanation
Indices: 11473672--11473796 Score: 209
Period size: 38 Copynumber: 3.3 Consensus size: 39
11473662 AGTTTGAGTC
*
11473672 TTAATTATGTCTTAGTTTGAACATCATTAATATGTGACT
1 TTAATTATGTCTTATTTTGAACATCATTAATATGTGACT
11473711 TTAATTATGTCTTATTTTGAACATCATTAATAT-TGACT
1 TTAATTATGTCTTATTTTGAACATCATTAATATGTGACT
* *
11473749 TTAATTATGTCTTATTTTGAACACCATTAATATGTG-TT
1 TTAATTATGTCTTATTTTGAACATCATTAATATGTGACT
11473787 TTAATTATGT
1 TTAATTATGT
11473797 GTCTTAATTC
Statistics
Matches: 82, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
38 48 0.59
39 34 0.41
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (39 bp):
TTAATTATGTCTTATTTTGAACATCATTAATATGTGACT
Found at i:11492851 original size:24 final size:24
Alignment explanation
Indices: 11492820--11492877 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
11492810 TGATGTTGCC
11492820 GAAGAGCCCACTCAA-ACTGCTGTT
1 GAAGAGCCCACTCAACA-TGCTGTT
* *
11492844 GAGGAGCCTACTCAACATGCTGTT
1 GAAGAGCCCACTCAACATGCTGTT
11492868 GAAGAGCCCA
1 GAAGAGCCCA
11492878 AAAAGATGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 28 0.97
25 1 0.03
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.19
Consensus pattern (24 bp):
GAAGAGCCCACTCAACATGCTGTT
Found at i:11502805 original size:11 final size:12
Alignment explanation
Indices: 11502776--11502810 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
11502766 GCAGTGCGTC
*
11502776 CTTCCTTCTTTT
1 CTTCTTTCTTTT
11502788 CTTCTTTCTTTT
1 CTTCTTTCTTTT
11502800 -TTCTTTCTTTT
1 CTTCTTTCTTTT
11502811 ATTTTGCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
CTTCTTTCTTTT
Found at i:11505999 original size:20 final size:19
Alignment explanation
Indices: 11505948--11506033 Score: 77
Period size: 20 Copynumber: 4.4 Consensus size: 19
11505938 AAGAACTGAG
*
11505948 GTGCAAATAGAGGCA-CAA
1 GTGCAAACAGAGGCACCAA
*
11505966 TGTGCAATCAGAGGCACCAA
1 -GTGCAAACAGAGGCACCAA
* *
11505986 CGTACAAACAGAGGCATCGAA
1 -GTGCAAACAGAGGCA-CCAA
*
11506007 GTGCAAACAAAGGCACCGAA
1 GTGCAAACAGAGGCACC-AA
11506027 GTG-AAAC
1 GTGCAAAC
11506034 CTCGTACAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
19 18 0.33
20 34 0.62
21 3 0.05
ACGTcount: A:0.42, C:0.22, G:0.26, T:0.10
Consensus pattern (19 bp):
GTGCAAACAGAGGCACCAA
Found at i:11506521 original size:15 final size:15
Alignment explanation
Indices: 11506489--11506534 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 15
11506479 CTATATATTA
*
11506489 ATTAAA-TTCAATTT
1 ATTAAATTTCAATTC
*
11506503 ATTAAATTTAAATTC
1 ATTAAATTTCAATTC
11506518 ATTAAAATTTCAATTC
1 ATT-AAATTTCAATTC
11506534 A
1 A
11506535 ATGCATGAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 6 0.22
15 9 0.33
16 12 0.44
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATTTCAATTC
Found at i:11513008 original size:424 final size:424
Alignment explanation
Indices: 11512220--11513229 Score: 1776
Period size: 424 Copynumber: 2.4 Consensus size: 424
11512210 TTTACTAAGT
* * * *
11512220 TCTAACTTGCCAAATTTTCAATTATACAATTTAAGAGCATAAAGGAAAGAAAGTTAAATAATGTT
1 TCTAACTTACCAAATTTTCAATTATACAATTTAAGAACAAAAAGGAAAGAATGTTAAATAATGTT
11512285 CATATTGTATATACTTACCTGGCAAAATGATAACTCGCCACAATAGAGTCTACTCAAAAACTTTT
66 CATATTGTATATACTTACCTGGCAAAATGATAACTCGCCACAATAGAGTCTACTCAAAAACTTTT
* *
11512350 CCTTTCCCACGATCTTCTCTTGAAGGATTCAAATGGCTATATATACATGTAAGGTTATTAGTCCA
131 CCTTTCCCACGATCTTCTCTTGAAGGATTCAAATGGCAATATATACATGTAAGGTTACTAGTCCA
11512415 GACTAAACCTTTAAAACAACATCGAATTACCAGTCCAGGCTAAATCTGTGCCACATGTATCTTTG
196 GACTAAACCTTTAAAACAACATCGAATTACCAGTCCAGGCTAAATCTGTGCCACATGTATCTTTG
*
11512480 AGTTCGCAACAAATGATGGATCTCAGAATCATCATGAAATAACATGTAACCATTATTTGAGTCAT
261 AGTTCGCAACAAATGATGGATCTCAGAATCATCAAGAAATAACATGTAACCATTATTTGAGTCAT
* * *
11512545 TTACTGAGTTTATCGAGACACTTTCATTTTTTAATTTTACTCACATTCCTTTGTAATATAGTTTA
326 TTACTAAGTTTATCGAGACACTTTCATTTTTTAATTTTACTCACATTCCTTCGTAATATAGTTCA
11512610 GT-ATTTCTCTCCTCTATATATTTAACAACCCAAA
391 -TCATTTCTCTCCTCTATATATTTAACAACCCAAA
11512644 TCTAACTTACCAAATTTTCAATTATACAATTTAAGAACAAAAAGGAAAGAATGTTAAATAATGTT
1 TCTAACTTACCAAATTTTCAATTATACAATTTAAGAACAAAAAGGAAAGAATGTTAAATAATGTT
11512709 CATATTGTATATACTTACCTGGCAAAATGATAACTCGCCACAATAGAGTCTACTCAAAAACTTTT
66 CATATTGTATATACTTACCTGGCAAAATGATAACTCGCCACAATAGAGTCTACTCAAAAACTTTT
11512774 CCTTTCCCACGATCTTCTCTTGAAGGATTCAAATGGCAATATATACATGTAAGGTTACTAGTCCA
131 CCTTTCCCACGATCTTCTCTTGAAGGATTCAAATGGCAATATATACATGTAAGGTTACTAGTCCA
* *
11512839 GACTAAAGCTTTAAAACAGCATCGAATTACCAGTCCAGGCTAAATCTGTGCCACATGTATCTTTG
196 GACTAAACCTTTAAAACAACATCGAATTACCAGTCCAGGCTAAATCTGTGCCACATGTATCTTTG
* * *
11512904 AG-TCTGCAACAAATGCTGGATCTCAGAATCATCAAGAAATAACATGTAACCATTGTTTGAGTCT
261 AGTTC-GCAACAAATGATGGATCTCAGAATCATCAAGAAATAACATGTAACCATTATTTGAGTCA
*
11512968 TTTACTAAGTTTATC-AGGACACTTTC-TTTTTGTAATTTTACTCATATTCCTTCGTAATATAGT
325 TTTACTAAGTTTATCGA-GACACTTTCATTTTT-TAATTTTACTCACATTCCTTCGTAATATAGT
11513031 TCATCATTTCTCTCCTCTATATATTTAACAACCCAAA
388 TCATCATTTCTCTCCTCTATATATTTAACAACCCAAA
*
11513068 TCTAACTTACCAAATTTTCAGTTATACAATTTAAGAACAAAAAGGAAAGAATGTTAAATAATGTT
1 TCTAACTTACCAAATTTTCAATTATACAATTTAAGAACAAAAAGGAAAGAATGTTAAATAATGTT
*
11513133 CATATTGTATATACTTACCTAGCAAAATGATAACTCGCCACAATAGAGTCTACTCAAAAACTTTT
66 CATATTGTATATACTTACCTGGCAAAATGATAACTCGCCACAATAGAGTCTACTCAAAAACTTTT
* *
11513198 CCTTTCCCACGATCTTCTCTTGATGAATTCAA
131 CCTTTCCCACGATCTTCTCTTGAAGGATTCAA
11513230 TCTTGATCTA
Statistics
Matches: 562, Mismatches: 20, Indels: 8
0.95 0.03 0.01
Matches are distributed among these distances:
423 9 0.02
424 553 0.98
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (424 bp):
TCTAACTTACCAAATTTTCAATTATACAATTTAAGAACAAAAAGGAAAGAATGTTAAATAATGTT
CATATTGTATATACTTACCTGGCAAAATGATAACTCGCCACAATAGAGTCTACTCAAAAACTTTT
CCTTTCCCACGATCTTCTCTTGAAGGATTCAAATGGCAATATATACATGTAAGGTTACTAGTCCA
GACTAAACCTTTAAAACAACATCGAATTACCAGTCCAGGCTAAATCTGTGCCACATGTATCTTTG
AGTTCGCAACAAATGATGGATCTCAGAATCATCAAGAAATAACATGTAACCATTATTTGAGTCAT
TTACTAAGTTTATCGAGACACTTTCATTTTTTAATTTTACTCACATTCCTTCGTAATATAGTTCA
TCATTTCTCTCCTCTATATATTTAACAACCCAAA
Found at i:11518832 original size:47 final size:48
Alignment explanation
Indices: 11518780--11518894 Score: 205
Period size: 48 Copynumber: 2.4 Consensus size: 48
11518770 TTTTTTTACA
11518780 TCAATTTTCTTTTCTTTTTCACATTC-TTTTCACTCTCAATCTCTTTT
1 TCAATTTTCTTTTCTTTTTCACATTCTTTTTCACTCTCAATCTCTTTT
*
11518827 TCAATTTTCTTTTGTTTTTCACATTCTTTTTCACTCTCAATCTCTTTT
1 TCAATTTTCTTTTCTTTTTCACATTCTTTTTCACTCTCAATCTCTTTT
*
11518875 TCAATTTTGTTTTCTTTTTC
1 TCAATTTTCTTTTCTTTTTC
11518895 TTTCATTTCT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
47 25 0.39
48 39 0.61
ACGTcount: A:0.14, C:0.23, G:0.02, T:0.62
Consensus pattern (48 bp):
TCAATTTTCTTTTCTTTTTCACATTCTTTTTCACTCTCAATCTCTTTT
Found at i:11521941 original size:18 final size:18
Alignment explanation
Indices: 11521920--11521956 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11521910 TTGGTTTTCG
*
11521920 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCGAAT
*
11521938 AATTTGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
11521956 A
1 A
11521957 TCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:11522039 original size:30 final size:31
Alignment explanation
Indices: 11522005--11522067 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
11521995 TAAACCTCTT
11522005 CACTTT-CCTCCCAAAACTTTTACT-CCCTCC
1 CACTTTCCCT-CCAAAACTTTTACTCCCCTCC
* *
11522035 CACTTTCCCTCCATAACTTTTGCTCCCCTCC
1 CACTTTCCCTCCAAAACTTTTACTCCCCTCC
11522066 CA
1 CA
11522068 TCCTACTCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 18 0.62
31 11 0.38
ACGTcount: A:0.17, C:0.48, G:0.02, T:0.33
Consensus pattern (31 bp):
CACTTTCCCTCCAAAACTTTTACTCCCCTCC
Found at i:11522667 original size:19 final size:19
Alignment explanation
Indices: 11522630--11522667 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11522620 AAAGTCAATA
*
11522630 ACAAATTTGATTATAGTGG
1 ACAAATTTGATTACAGTGG
*
11522649 ACAAATTTGATTACGGTGG
1 ACAAATTTGATTACAGTGG
11522668 GTGACGATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (19 bp):
ACAAATTTGATTACAGTGG
Found at i:11524395 original size:20 final size:21
Alignment explanation
Indices: 11524372--11524411 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11524362 TTGAATTACC
*
11524372 AAATCGAAA-TAGATGAAATG
1 AAATCAAAAGTAGATGAAATG
*
11524392 AAATCAAAAGTTGATGAAAT
1 AAATCAAAAGTAGATGAAAT
11524412 TGAGATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.55, C:0.05, G:0.17, T:0.23
Consensus pattern (21 bp):
AAATCAAAAGTAGATGAAATG
Found at i:11527910 original size:27 final size:27
Alignment explanation
Indices: 11527880--11527994 Score: 115
Period size: 27 Copynumber: 4.3 Consensus size: 27
11527870 ACAGTCCATC
*
11527880 TAGAGTTTTCCACAAAGACTCTTCCTT
1 TAGAGTTTGCCACAAAGACTCTTCCTT
*
11527907 TAGAGTTTGCCACAAAGGCTCTTCCTT
1 TAGAGTTTGCCACAAAGACTCTTCCTT
* * * *
11527934 CT-GAGTTCGCCACAATGGCTCTTTCTT
1 -TAGAGTTTGCCACAAAGACTCTTCCTT
* * * * *
11527961 CAAAGTTTGCCACAATGACTTTTCTTT
1 TAGAGTTTGCCACAAAGACTCTTCCTT
11527988 TAGAGTT
1 TAGAGTT
11527995 CACCTTAAAA
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
27 71 0.99
28 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (27 bp):
TAGAGTTTGCCACAAAGACTCTTCCTT
Found at i:11531371 original size:19 final size:19
Alignment explanation
Indices: 11531347--11531404 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
11531337 GTAACTTTGA
11531347 AACATACATCTCATACATT
1 AACATACATCTCATACATT
*
11531366 AACATA-A--ACATAGC---
1 AACATACATCTCATA-CATT
11531380 AACATACATCTCATACATT
1 AACATACATCTCATACATT
11531399 AACATA
1 AACATA
11531405 AACATAGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
14 6 0.20
15 1 0.03
16 5 0.17
17 5 0.17
18 1 0.03
19 12 0.40
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (19 bp):
AACATACATCTCATACATT
Found at i:11531389 original size:33 final size:33
Alignment explanation
Indices: 11531347--11531413 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
11531337 GTAACTTTGA
11531347 AACATACATCTCATACATTAACATAAACATAGC
1 AACATACATCTCATACATTAACATAAACATAGC
11531380 AACATACATCTCATACATTAACATAAACATAGC
1 AACATACATCTCATACATTAACATAAACATAGC
11531413 A
1 A
11531414 TAAATCATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.49, C:0.24, G:0.03, T:0.24
Consensus pattern (33 bp):
AACATACATCTCATACATTAACATAAACATAGC
Found at i:11531426 original size:28 final size:31
Alignment explanation
Indices: 11531348--11531431 Score: 93
Period size: 33 Copynumber: 2.7 Consensus size: 31
11531338 TAACTTTGAA
*
11531348 ACATACATCTCATACATTAACATAAACATAG
1 ACATACATATCATACATTAACATAAACATAG
*
11531379 CAACATACATCTCATACATTAACATAAACATAG
1 --ACATACATATCATACATTAACATAAACATAG
* *
11531412 -CATA-A-ATCATTCATTTACAT
1 ACATACATATCATACATTAACAT
11531432 GCATATTGTC
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
28 12 0.25
29 1 0.02
30 4 0.08
33 31 0.65
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.29
Consensus pattern (31 bp):
ACATACATATCATACATTAACATAAACATAG
Found at i:11543358 original size:43 final size:43
Alignment explanation
Indices: 11543310--11543430 Score: 170
Period size: 43 Copynumber: 2.8 Consensus size: 43
11543300 GCGTTTTCTC
* * * *
11543310 ACAAACGTCGCTATAGAACATGTTCTTTAGCGGTGCTTTTACT
1 ACAAACGTCACTAAAGAACATGATCTTTAGCGGTGCCTTTACT
*
11543353 ACAAACGTCACTACAGAACATGATCTTTAGCGGTGCCTTTACT
1 ACAAACGTCACTAAAGAACATGATCTTTAGCGGTGCCTTTACT
* * *
11543396 ACAAACGCCACTAAAGAACATGGTCTTTTGCGGTG
1 ACAAACGTCACTAAAGAACATGATCTTTAGCGGTG
11543431 ATTCTAGTTA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (43 bp):
ACAAACGTCACTAAAGAACATGATCTTTAGCGGTGCCTTTACT
Found at i:11562919 original size:14 final size:14
Alignment explanation
Indices: 11562896--11562931 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
11562886 TTCTCCCTTG
11562896 CTTT-TTTTTCTTT
1 CTTTCTTTTTCTTT
11562909 CTTTCTTTTTCTTT
1 CTTTCTTTTTCTTT
11562923 CTTTTCTTT
1 C-TTTCTTT
11562932 GATTAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.19
14 10 0.48
15 7 0.33
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
CTTTCTTTTTCTTT
Found at i:11565570 original size:18 final size:17
Alignment explanation
Indices: 11565549--11565582 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11565539 TTATTATTAA
*
11565549 ATATATTTTAATTAAAAC
1 ATATAATTTAA-TAAAAC
11565567 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
11565583 TTCTTAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAC
Found at i:11570098 original size:23 final size:24
Alignment explanation
Indices: 11570038--11570100 Score: 87
Period size: 23 Copynumber: 2.7 Consensus size: 24
11570028 TCTACTCACT
11570038 AACAAATCAAGAACAATTTCCAGC
1 AACAAATCAAGAACAATTTCCAGC
*
11570062 AGAC-TATCAA-AACAATTTCCAG-
1 A-ACAAATCAAGAACAATTTCCAGC
11570084 AACAAATCAAGAACAAT
1 AACAAATCAAGAACAAT
11570101 ATCAAAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 2 0.06
22 6 0.18
23 18 0.53
24 6 0.18
25 2 0.06
ACGTcount: A:0.52, C:0.22, G:0.08, T:0.17
Consensus pattern (24 bp):
AACAAATCAAGAACAATTTCCAGC
Found at i:11570109 original size:22 final size:22
Alignment explanation
Indices: 11570067--11570112 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
11570057 CCAGCAGACT
* *
11570067 ATCAAAACAATTTCCAGAACAA
1 ATCAAAACAATATCCAAAACAA
11570089 ATCAAGAACAATAT-CAAAACAA
1 ATCAA-AACAATATCCAAAACAA
11570111 AT
1 AT
11570113 GCAACAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.59, C:0.20, G:0.04, T:0.17
Consensus pattern (22 bp):
ATCAAAACAATATCCAAAACAA
Found at i:11570156 original size:23 final size:23
Alignment explanation
Indices: 11570130--11570208 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
11570120 TTTCCAGTTT
11570130 CATTGAAAATAGCAGACAATTTC
1 CATTGAAAATAGCAGACAATTTC
* * * *
11570153 CATTGCAACAATATCAAAAAACTGTCTG
1 CATTG-AA-AATAGCAGACAA-T-T-TC
* *
11570181 AATTGAAAACAGCAGACAATTTC
1 CATTGAAAATAGCAGACAATTTC
11570204 CATTG
1 CATTG
11570209 CTCACTGTAT
Statistics
Matches: 40, Mismatches: 11, Indels: 10
0.66 0.18 0.16
Matches are distributed among these distances:
23 10 0.25
24 3 0.08
25 10 0.25
26 9 0.22
27 3 0.08
28 5 0.12
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (23 bp):
CATTGAAAATAGCAGACAATTTC
Found at i:11570718 original size:291 final size:291
Alignment explanation
Indices: 11570158--11570739 Score: 1112
Period size: 290 Copynumber: 2.0 Consensus size: 291
11570148 ATTTCCATTG
11570158 CAACAATATCAAAAAACTGTCTGAATTGAAAACAGCAGACAATTTCCATTGCTCACTGTATCAAT
1 CAACAATATCAAAAAACTGTCTGAATTGAAAACAGCAGACAATTTCCATTGCTCACTGTATCAAT
11570223 ACGAATATTTTAGCAGACAAAATGAAAATTGCGAACACAAACAGATAATCAAGACATAAAGCAAA
66 ACGAATATTTTAGCAGACAAAATGAAAATTGCGAACACAAACAGATAATCAAGACATAAAGCAAA
11570288 TAAAAACACATTAAAAGAAAAATAATACAGCATAACAAATAATATACTATTAAAAATATCATCTC
131 TAAAAACACATTAAAAGAAAAATAATACAGCATAACAAATAATATACTATTAAAAATATCATCTC
* *
11570353 AAAACAGAAGGACAATCAGAGTGAAACCACATGTAAATGAAGAAACAATCAAGAGATAGAAAAAT
196 AAAACAAAAGGAAAATCAGAGTGAAACCACATGTAAATGAAGAAACAATCAAGAGATAGAAAAAT
11570418 TATATCTAACAACAACTATTCAAGGGGAGCA
261 TATATCTAACAACAACTATTCAAGGGGAGCA
11570449 CAACAATATC-AAAAACTGTCTGAATTGAAAACAGCAGACAATTTCCATTGCTCACTGTATCAAT
1 CAACAATATCAAAAAACTGTCTGAATTGAAAACAGCAGACAATTTCCATTGCTCACTGTATCAAT
11570513 ACGAATATTTTAGCAGACAAAATGAAAATTGCGAACACAAACAGATAATCAAGACATAAAGCAAA
66 ACGAATATTTTAGCAGACAAAATGAAAATTGCGAACACAAACAGATAATCAAGACATAAAGCAAA
11570578 TAAAAACACATTAAAAGAAAAATAATACAGCATAACAAATAATATACTATTAAAAAATATCATCT
131 TAAAAACACATTAAAAGAAAAATAATACAGCATAACAAATAATATACTATT-AAAAATATCATCT
*
11570643 CAAGACAAAAGGAAAATCAGAGTGAAACCACATGTAAATGAAGAAACAATCAAGAGATAGAAAAA
195 CAAAACAAAAGGAAAATCAGAGTGAAACCACATGTAAATGAAGAAACAATCAAGAGATAGAAAAA
*
11570708 TTATATCTAACAACAACTATTCAAGGGTAGCA
260 TTATATCTAACAACAACTATTCAAGGGGAGCA
11570740 AATGATATCA
Statistics
Matches: 286, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
290 170 0.59
291 116 0.41
ACGTcount: A:0.52, C:0.16, G:0.12, T:0.20
Consensus pattern (291 bp):
CAACAATATCAAAAAACTGTCTGAATTGAAAACAGCAGACAATTTCCATTGCTCACTGTATCAAT
ACGAATATTTTAGCAGACAAAATGAAAATTGCGAACACAAACAGATAATCAAGACATAAAGCAAA
TAAAAACACATTAAAAGAAAAATAATACAGCATAACAAATAATATACTATTAAAAATATCATCTC
AAAACAAAAGGAAAATCAGAGTGAAACCACATGTAAATGAAGAAACAATCAAGAGATAGAAAAAT
TATATCTAACAACAACTATTCAAGGGGAGCA
Found at i:11576885 original size:46 final size:46
Alignment explanation
Indices: 11576834--11576927 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
11576824 ATAGTGTAGC
*
11576834 GTTCATCATATATCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
*
11576880 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
11576926 GT
1 GT
11576928 CTTTTAAACC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.35
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
Found at i:11577294 original size:15 final size:14
Alignment explanation
Indices: 11577258--11577293 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
11577248 ATCAAGTTGT
11577258 AAAAAAAATTCGTG
1 AAAAAAAATTCGTG
*
11577272 AAAAAAAATTCTTG
1 AAAAAAAATTCGTG
11577286 AAAAAAAA
1 AAAAAAAA
11577294 AGTTAGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.67, C:0.06, G:0.08, T:0.19
Consensus pattern (14 bp):
AAAAAAAATTCGTG
Found at i:11581284 original size:46 final size:46
Alignment explanation
Indices: 11581233--11581325 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
11581223 TAGTGTGGCA
* * *
11581233 TTCATCATATACTAAGGTTCCTATCATCCTTGATAGTGGGTCGAGG
1 TTCATCATATACCAAGGTTCATATCATCCTTGATAGTGGGTCAAGG
* *
11581279 TTCATCATATACCAATGTTCATATCATTCTTGATAGTGGGTCAAGG
1 TTCATCATATACCAAGGTTCATATCATCCTTGATAGTGGGTCAAGG
11581325 T
1 T
11581326 CTTTTAAACT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (46 bp):
TTCATCATATACCAAGGTTCATATCATCCTTGATAGTGGGTCAAGG
Found at i:11585974 original size:30 final size:30
Alignment explanation
Indices: 11585938--11585994 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
11585928 GAGGGTCGGA
* **
11585938 TTGGTTTGCTGGTTTAACAATCATGGTAGG
1 TTGGTTTACTGGTACAACAATCATGGTAGG
11585968 TTGGTTTACTGGTACAACAATCATGGT
1 TTGGTTTACTGGTACAACAATCATGGT
11585995 TTCATTCACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.39
Consensus pattern (30 bp):
TTGGTTTACTGGTACAACAATCATGGTAGG
Found at i:11592802 original size:30 final size:30
Alignment explanation
Indices: 11592768--11592824 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
11592758 CAGGCTTGGT
*
11592768 TTGGTTTGCTAGTTCAATAATCATGGTGGG
1 TTGGTTTCCTAGTTCAATAATCATGGTGGG
*
11592798 TTGGTTTCCTAGTTCAATAGTCATGGT
1 TTGGTTTCCTAGTTCAATAATCATGGT
11592825 TTCATTCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.12, G:0.26, T:0.42
Consensus pattern (30 bp):
TTGGTTTCCTAGTTCAATAATCATGGTGGG
Found at i:11596026 original size:141 final size:142
Alignment explanation
Indices: 11595857--11596139 Score: 559
Period size: 141 Copynumber: 2.0 Consensus size: 142
11595847 AAAAACACCT
11595857 TATAATCATAAAAATTTATATTTTTTTATTTATTTAAAATTATCTTTAATTCTTATGTGTCCCAA
1 TATAATCATAAAAATTTATATTTTTTTATTTATTTAAAATTATCTTTAATTCTTATGTGTCCCAA
11595922 TCCAATTAAACTCACATCTTTCTACACCAACAATAATATTAATACTAATAAATTGAGAACCAATC
66 TCCAATTAAACTCACATCTTTCTACACCAACAATAATATTAATACTAATAAATTGAGAACCAATC
11595987 AAGTATGTTTTA
131 AAGTATGTTTTA
11595999 TATAATCAT-AAAATTTATATTTTTTTATTTATTTAAAATTATCTTTAATTCTTATGTGTCCCAA
1 TATAATCATAAAAATTTATATTTTTTTATTTATTTAAAATTATCTTTAATTCTTATGTGTCCCAA
11596063 TCCAATTAAACTCACATCTTTCTACACCAACAATAATATTAATACTAATAAATTGAGAACCAATC
66 TCCAATTAAACTCACATCTTTCTACACCAACAATAATATTAATACTAATAAATTGAGAACCAATC
11596128 AAGTATGTTTTA
131 AAGTATGTTTTA
11596140 CTAATTATAA
Statistics
Matches: 141, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
141 132 0.94
142 9 0.06
ACGTcount: A:0.39, C:0.15, G:0.04, T:0.42
Consensus pattern (142 bp):
TATAATCATAAAAATTTATATTTTTTTATTTATTTAAAATTATCTTTAATTCTTATGTGTCCCAA
TCCAATTAAACTCACATCTTTCTACACCAACAATAATATTAATACTAATAAATTGAGAACCAATC
AAGTATGTTTTA
Found at i:11596189 original size:141 final size:141
Alignment explanation
Indices: 11595892--11596190 Score: 413
Period size: 141 Copynumber: 2.1 Consensus size: 141
11595882 TTATTTATTT
* *
11595892 AAAATTATCTTTAATTCTTATGTGTCCCAATCCAATTAAACTCACATCTTTCTACACCAACAATA
1 AAAAATATCTATAATTCTTATGTGTCCCAATCCAATTAAACTCACATCTTTCTACACCAACAATA
* ** *
11595957 ATATTAATACTAATAAATTGAGAACCAATCAAGTATGTTTTATATAATCATAAAATTTATATTTT
66 ATATTAATACTAATAAATTGAGAACCAATCAAGTATGTTTTATATAATCATAAAATTCATACATC
** * * *
11596022 TTTATTTATTT
131 TAAATTAAATG
* *
11596033 AAAATTATCTTTAATTCTTATGTGTCCCAATCCAATTAAACTCACATCTTTCTACACCAACAATA
1 AAAAATATCTATAATTCTTATGTGTCCCAATCCAATTAAACTCACATCTTTCTACACCAACAATA
* * * *
11596098 ATATTAATACTAATAAATTGAGAACCAATCAAGTATGTTTTA-CTAATTATAACATTCATCCATC
66 ATATTAATACTAATAAATTGAGAACCAATCAAGTATGTTTTATATAATCATAAAATTCATACATC
11596162 TAAATTGAAATG
131 TAAATT-AAATG
11596174 AAAAATAT-TAATAATTC
1 AAAAATATCT-ATAATTC
11596191 CGAATTAGTG
Statistics
Matches: 141, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
140 19 0.13
141 122 0.87
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (141 bp):
AAAAATATCTATAATTCTTATGTGTCCCAATCCAATTAAACTCACATCTTTCTACACCAACAATA
ATATTAATACTAATAAATTGAGAACCAATCAAGTATGTTTTATATAATCATAAAATTCATACATC
TAAATTAAATG
Found at i:11602695 original size:20 final size:21
Alignment explanation
Indices: 11602670--11602709 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
11602660 TTTGAACTAC
11602670 TATAATAATAAACA-ATAATA
1 TATAATAATAAACATATAATA
*
11602690 TATAATAATTAACATATAAT
1 TATAATAATAAACATATAAT
11602710 GTACTACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TATAATAATAAACATATAATA
Found at i:11607809 original size:17 final size:16
Alignment explanation
Indices: 11607784--11607828 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
11607774 TATTATTGAA
*
11607784 TTTTGAAATTTTTATAT
1 TTTTAAAATTTTT-TAT
*
11607801 TTTTAAAATCATTTTAT
1 TTTTAAAAT-TTTTTAT
11607818 TTTTAAAATTT
1 TTTTAAAATTT
11607829 AAAGAGTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 1 0.04
17 20 0.83
18 3 0.12
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (16 bp):
TTTTAAAATTTTTTAT
Found at i:11608288 original size:29 final size:31
Alignment explanation
Indices: 11608229--11608297 Score: 106
Period size: 29 Copynumber: 2.3 Consensus size: 31
11608219 ATTTTTATTA
*
11608229 TGGTACTTGTATTTTTATAAAATGTCCAATG
1 TGGTACTTGTATCTTTATAAAATGTCCAATG
*
11608260 TGGTACTTGTA-CTTT-TAAAATGTTCAATG
1 TGGTACTTGTATCTTTATAAAATGTCCAATG
11608289 TGGTACTTG
1 TGGTACTTG
11608298 AACTATCGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 22 0.61
30 3 0.08
31 11 0.31
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (31 bp):
TGGTACTTGTATCTTTATAAAATGTCCAATG
Found at i:11608311 original size:29 final size:29
Alignment explanation
Indices: 11608247--11608304 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
11608237 GTATTTTTAT
* * *
11608247 AAAATGTCCAATGTGGTACTTGTACTTTT
1 AAAATGTCCAATGTGGTACTTGAACTATC
*
11608276 AAAATGTTCAATGTGGTACTTGAACTATC
1 AAAATGTCCAATGTGGTACTTGAACTATC
11608305 GATATGTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (29 bp):
AAAATGTCCAATGTGGTACTTGAACTATC
Done.