Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 32 of 290
Found at i:10870119 original size:31 final size:32
Alignment explanation
Indices: 10870081--10870142 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
10870071 CTCGCTGCAA
* *
10870081 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
10870112 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
10870143 GTGACTCTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:10870144 original size:27 final size:26
Alignment explanation
Indices: 10870104--10870162 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
10870094 CCACATATAT
* *
10870104 ATATCTGTTCTGGTGGC-CTAGCCACA
1 ATATCTATTCTGGTGACTCT-GCCACA
*
10870130 ATATCTATATCTGGTGACTCTGTCACA
1 ATATCTAT-TCTGGTGACTCTGCCACA
10870157 ATATCT
1 ATATCT
10870163 GGCAGCCTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.25
27 19 0.68
28 2 0.07
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.36
Consensus pattern (26 bp):
ATATCTATTCTGGTGACTCTGCCACA
Found at i:10870313 original size:6 final size:6
Alignment explanation
Indices: 10870282--10870375 Score: 72
Period size: 6 Copynumber: 15.3 Consensus size: 6
10870272 TTGCATTCAC
*
10870282 ATTCTG ATGT-TG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATT-T-
1 ATTCTG AT-TCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
10870329 TTTCACCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATT---CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
10870376 AATTTTTCTT
Statistics
Matches: 72, Mismatches: 4, Indels: 24
0.72 0.04 0.24
Matches are distributed among these distances:
4 2 0.03
5 5 0.07
6 56 0.78
7 5 0.07
8 2 0.03
9 2 0.03
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:10870320 original size:31 final size:32
Alignment explanation
Indices: 10870282--10870361 Score: 112
Period size: 31 Copynumber: 2.6 Consensus size: 32
10870272 TTGCATTCAC
10870282 ATTCTGATGT-TGATTCTGTT-ACCTGATACTG
1 ATTCTGAT-TCTGATTCTGTTCACCTGATACTG
* *
10870313 ATTCTGATTCTGATT-TTTTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTTCACCTGATACTG
10870344 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
10870362 ATTCTAGTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 4 0.09
31 38 0.88
32 1 0.02
ACGTcount: A:0.17, C:0.17, G:0.16, T:0.49
Consensus pattern (32 bp):
ATTCTGATTCTGATTCTGTTCACCTGATACTG
Found at i:10871605 original size:21 final size:22
Alignment explanation
Indices: 10871563--10871607 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
10871553 TAAAAGAAAT
*
10871563 TGTTTTAATATATGCTGGATTA
1 TGTTTTAATATATGCTAGATTA
* *
10871585 TGTTTTAAT-TATGTTATATTA
1 TGTTTTAATATATGCTAGATTA
10871606 TG
1 TG
10871608 AATGATATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.56
Consensus pattern (22 bp):
TGTTTTAATATATGCTAGATTA
Found at i:10873093 original size:141 final size:141
Alignment explanation
Indices: 10872836--10873113 Score: 457
Period size: 141 Copynumber: 2.0 Consensus size: 141
10872826 TGTCACTAGA
* ** **
10872836 AAACCATGTGTTATGTGATCTATGTGAATCCGGGTGTTGGTCATGCACGTCCTATTGGTGGCTAG
1 AAACCATGTGTTATGTGATCTATGTGAATCCAGGTGTTGGTCATGCACGTCCTACCGAAGGCTAG
* * *
10872901 GTAGTCTGGCATGTGTTACAGATACCTGGCACCTTGTGTGAGCAGCCCGTGTAGCAACGTCTTGA
66 GTAGTCCGGCATGTGTTACAGATACCTGACACCATGTGTGAGCAGCCCGTGTAGCAACGTCTTGA
10872966 CTGACAGTAGG
131 CTGACAGTAGG
*
10872977 AAACCATGTGTTATGTGATCTATGTGAATCCAGGTGTTGGTCATGCACGTCCTACCGAAGGCTGG
1 AAACCATGTGTTATGTGATCTATGTGAATCCAGGTGTTGGTCATGCACGTCCTACCGAAGGCTAG
* *
10873042 GTAGTCCGGCATGTGTTGCAGATACCTGACACCATGTGTGAGCAGCTCGTGTAGCAACGTCTTGA
66 GTAGTCCGGCATGTGTTACAGATACCTGACACCATGTGTGAGCAGCCCGTGTAGCAACGTCTTGA
10873107 CTGACAG
131 CTGACAG
10873114 CTTGTGTGAG
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
141 126 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (141 bp):
AAACCATGTGTTATGTGATCTATGTGAATCCAGGTGTTGGTCATGCACGTCCTACCGAAGGCTAG
GTAGTCCGGCATGTGTTACAGATACCTGACACCATGTGTGAGCAGCCCGTGTAGCAACGTCTTGA
CTGACAGTAGG
Found at i:10876193 original size:18 final size:18
Alignment explanation
Indices: 10876150--10876200 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
10876140 ATCGCATAGT
* *
10876150 TGTGAGCTCATCAAAAGT
1 TGTGAGCTCATCCAAAGA
**
10876168 TGCAAGCTCATCCAAAGA
1 TGTGAGCTCATCCAAAGA
*
10876186 TGTGAGCTCAACCAA
1 TGTGAGCTCATCCAA
10876201 GTTGTGATCG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.22
Consensus pattern (18 bp):
TGTGAGCTCATCCAAAGA
Found at i:10884782 original size:42 final size:42
Alignment explanation
Indices: 10884680--10884851 Score: 145
Period size: 43 Copynumber: 4.0 Consensus size: 42
10884670 AGCTCGTACA
* *
10884680 ATGCCAATGTCACAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTC-CAGACAG-GGTCTTACACGAAATCAAATATCG
* * *
10884723 ATGCCACTATCCCAGACAGGGTCTTACACGAAATCATATA-CG
1 ATGCCAATGT-CCAGACAGGGTCTTACACGAAATCAAATATCG
* * * *
10884765 ATGCCAATGTCCTAGACATGGTCTTACACATAAATGAAAAATCG
1 ATGCCAATGTCC-AGACAGGGTCTTACAC-GAAATCAAATATCG
* *
10884809 ATGCCAACGTCCCAGA-TGTGGTCTTACACGATAA-CAAATATCG
1 ATGCCAATGT-CCAGACAG-GGTCTTACACGA-AATCAAATATCG
10884852 GAATCCTATA
Statistics
Matches: 103, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
41 2 0.02
42 25 0.24
43 46 0.45
44 28 0.27
45 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCAGACAGGGTCTTACACGAAATCAAATATCG
Found at i:10884832 original size:86 final size:85
Alignment explanation
Indices: 10884680--10884839 Score: 200
Period size: 86 Copynumber: 1.9 Consensus size: 85
10884670 AGCTCGTACA
* ** *
10884680 ATGCCAATGTCACAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACAGGGT
1 ATGCCAATGTCACAGACATGGTCTTACACATAATCAAAAATCGATGCCACTATCCCAGACAGGGT
10884745 CTTACACGAAATCATATACG
66 CTTACACGAAATCATATACG
* * *
10884765 ATGCCAATGTC-CTAGACATGGTCTTACACATAAATGAAAAATCGATGCCAAC-GTCCCAGA-TG
1 ATGCCAATGTCAC-AGACATGGTCTTACACAT-AATCAAAAATCGATGCC-ACTATCCCAGACAG
10884827 TGGTCTTACACGA
63 -GGTCTTACACGA
10884840 TAACAAATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
84 1 0.02
85 27 0.42
86 34 0.53
87 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (85 bp):
ATGCCAATGTCACAGACATGGTCTTACACATAATCAAAAATCGATGCCACTATCCCAGACAGGGT
CTTACACGAAATCATATACG
Found at i:10892800 original size:39 final size:39
Alignment explanation
Indices: 10892746--10892861 Score: 196
Period size: 39 Copynumber: 3.0 Consensus size: 39
10892736 TTCAGTGATG
*
10892746 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
10892785 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* **
10892824 TATATCCAGACTTAAGGTCCGCAGGCTACATGCTGGAA
1 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAA
10892862 ATATGTTCGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (39 bp):
TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:10897103 original size:43 final size:42
Alignment explanation
Indices: 10897056--10897170 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 42
10897046 TCTTACATGT
* *
10897056 AATCAAATACAGATGTCATTGTCCCAGACAGGGTCTAACACAA
1 AATCAAATAC-GATGCCAATGTCCCAGACAGGGTCTAACACAA
* * * *
10897099 AATCATATACGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 AATCAAATACGATGCCAATGTCCCAGACAGGGTCTAACAC-AA
*
10897142 AATCACAA-ATCGATTCCAATGTCCCAGAC
1 AATCA-AATA-CGATGCCAATGTCCCAGAC
10897171 GTGGTCTTAC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 26 0.43
43 16 0.26
44 19 0.31
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.23
Consensus pattern (42 bp):
AATCAAATACGATGCCAATGTCCCAGACAGGGTCTAACACAA
Found at i:10897169 original size:44 final size:43
Alignment explanation
Indices: 10897036--10897184 Score: 142
Period size: 44 Copynumber: 3.5 Consensus size: 43
10897026 TACCAACGTT
* * * * *
10897036 CCAGACGTGGTCTTACATG-TAATCA-AATACAGATGTCATTGTC
1 CCAGACATGGTCTTACACGAAAATCACAA-AC-GATGCCAATGTC
* * * *
10897079 CCAGACAGGGTCTAACAC-AAAATCATATACGATGCCAATGTC
1 CCAGACATGGTCTTACACGAAAATCACAAACGATGCCAATGTC
* *
10897121 CCAGACATGGTCTTACACGTAAATCACAAATCGATTCCAATGTC
1 CCAGACATGGTCTTACACGAAAATCACAAA-CGATGCCAATGTC
*
10897165 CCAGACGTGGTCTTACACGA
1 CCAGACATGGTCTTACACGA
10897185 TAACACATAT
Statistics
Matches: 86, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
42 26 0.30
43 29 0.34
44 31 0.36
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
CCAGACATGGTCTTACACGAAAATCACAAACGATGCCAATGTC
Found at i:10897208 original size:44 final size:44
Alignment explanation
Indices: 10897075--10897208 Score: 125
Period size: 44 Copynumber: 3.1 Consensus size: 44
10897065 CAGATGTCAT
* * * * *
10897075 TGTCCCAGACAGGGTCTAACAC-AAAATCATATA-CG-ATGCCAA
1 TGTCCCAGACATGGTCTTACACGTAAATCACAAATCGAAT-CCAA
*
10897117 TGTCCCAGACATGGTCTTACACGTAAATCACAAATCGATTCCAA
1 TGTCCCAGACATGGTCTTACACGTAAATCACAAATCGAATCCAA
* * *
10897161 TGTCCCAGACGTGGTCTTACACG-ATAA-CACATATCGGAATCCTA
1 TGTCCCAGACATGGTCTTACACGTA-AATCACAAATC-GAATCCAA
10897205 TGTC
1 TGTC
10897209 GTGACATATG
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
42 20 0.26
43 16 0.21
44 40 0.52
45 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (44 bp):
TGTCCCAGACATGGTCTTACACGTAAATCACAAATCGAATCCAA
Found at i:10898558 original size:93 final size:93
Alignment explanation
Indices: 10898399--10898585 Score: 365
Period size: 93 Copynumber: 2.0 Consensus size: 93
10898389 ATAATATTAA
10898399 AATATTTTTCTGACTCAAATTCGTGGACCCAAAGCCACTATGCTGACAAGGGTCTAAACCGGGCT
1 AATATTTTTCTGACTCAAATTCGTGGACCCAAAGCCACTATGCTGACAAGGGTCTAAACCGGGCT
*
10898464 GTTACACCGTGTCTCTACTTGTGTGTTT
66 GTTACACCGTGTCTCTACTCGTGTGTTT
10898492 AATATTTTTCTGACTCAAATTCGTGGACCCAAAGCCACTATGCTGACAAGGGTCTAAACCGGGCT
1 AATATTTTTCTGACTCAAATTCGTGGACCCAAAGCCACTATGCTGACAAGGGTCTAAACCGGGCT
10898557 GTTACACCGTGTCTCTACTCGTGTGTTT
66 GTTACACCGTGTCTCTACTCGTGTGTTT
10898585 A
1 A
10898586 CTGCTGGGCA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (93 bp):
AATATTTTTCTGACTCAAATTCGTGGACCCAAAGCCACTATGCTGACAAGGGTCTAAACCGGGCT
GTTACACCGTGTCTCTACTCGTGTGTTT
Found at i:10904937 original size:20 final size:20
Alignment explanation
Indices: 10904909--10904949 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
10904899 ATCATAGCTG
*
10904909 TAATTATTTTTGACT-ATTTT
1 TAATGATTTTT-ACTGATTTT
10904929 TAATGATTTTTACTGATTTT
1 TAATGATTTTTACTGATTTT
10904949 T
1 T
10904950 TTACTATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.63
Consensus pattern (20 bp):
TAATGATTTTTACTGATTTT
Found at i:10905273 original size:14 final size:14
Alignment explanation
Indices: 10905254--10905283 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10905244 ATTCACTAAG
10905254 AATTTAAAAAATAT
1 AATTTAAAAAATAT
10905268 AATTTAAAAAATAT
1 AATTTAAAAAATAT
10905282 AA
1 AA
10905284 ATCATAGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTTAAAAAATAT
Found at i:10906250 original size:48 final size:48
Alignment explanation
Indices: 10906110--10906237 Score: 204
Period size: 48 Copynumber: 2.7 Consensus size: 48
10906100 ACGATGCCCC
* *
10906110 ATGCCGATGCCATGTCCTAGAAATGGTCTTACACTGGCTCACATAAAG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAAG
* *
10906158 ATTCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAACA-
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAA-AG
10906206 ATGCCGATGCCATGTCCCAGACATGGTCTTAC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTAC
10906238 GCGGTTACAC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
48 72 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAAG
Found at i:10907563 original size:48 final size:48
Alignment explanation
Indices: 10907508--10907619 Score: 179
Period size: 48 Copynumber: 2.3 Consensus size: 48
10907498 GATGCCTCAT
* *
10907508 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATAACGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCC
* *
10907556 GATGCCATGTCCCATACATGGTCTTACACTTGCTCACATAACAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCC
*
10907604 GACGCCATGTCCCAGA
1 GATGCCATGTCCCAGA
10907620 TGTGGTTTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCC
Found at i:10909283 original size:41 final size:41
Alignment explanation
Indices: 10909233--10909350 Score: 155
Period size: 41 Copynumber: 2.9 Consensus size: 41
10909223 GTTAATTATT
*
10909233 CCCTGAATTACACATATGTGCCCCTGTTTGTACTTTAGTAC
1 CCCTAAATTACACATATGTGCCCCTGTTTGTACTTTAGTAC
* **
10909274 CCCTAAATTACACATATATGCCCCTGTTTGTACTTCGGTAC
1 CCCTAAATTACACATATGTGCCCCTGTTTGTACTTTAGTAC
* ** **
10909315 CCCTAAATTGCACATGCGTGCCCCCATTTGTACTTT
1 CCCTAAATTACACATATGTGCCCCTGTTTGTACTTT
10909351 TCTGCCCCCG
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.35
Consensus pattern (41 bp):
CCCTAAATTACACATATGTGCCCCTGTTTGTACTTTAGTAC
Found at i:10918835 original size:27 final size:27
Alignment explanation
Indices: 10918805--10918858 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
10918795 AAATAAAATG
10918805 GGAAAAATGTACCAAAAATCAGCCATT
1 GGAAAAATGTACCAAAAATCAGCCATT
*
10918832 GGAAAAATGTACCAAAACTCAGCCATT
1 GGAAAAATGTACCAAAAATCAGCCATT
10918859 CTTCTTCTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.19
Consensus pattern (27 bp):
GGAAAAATGTACCAAAAATCAGCCATT
Found at i:10919735 original size:27 final size:27
Alignment explanation
Indices: 10919697--10919750 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
10919687 TGCAGTAAGG
10919697 ATTTAGCCCAGAAGGGTAATCTGTTGA
1 ATTTAGCCCAGAAGGGTAATCTGTTGA
*
10919724 ATTTATCCCAGAAGGGTAATCTGTTGA
1 ATTTAGCCCAGAAGGGTAATCTGTTGA
10919751 TCTCATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (27 bp):
ATTTAGCCCAGAAGGGTAATCTGTTGA
Found at i:10919948 original size:54 final size:54
Alignment explanation
Indices: 10919866--10919997 Score: 264
Period size: 54 Copynumber: 2.4 Consensus size: 54
10919856 TAGGATCTGA
10919866 ATTTAGCCTGGACTGGTAATCCCGACATCACCTTATGAGTTTCTAAAATGGGGG
1 ATTTAGCCTGGACTGGTAATCCCGACATCACCTTATGAGTTTCTAAAATGGGGG
10919920 ATTTAGCCTGGACTGGTAATCCCGACATCACCTTATGAGTTTCTAAAATGGGGG
1 ATTTAGCCTGGACTGGTAATCCCGACATCACCTTATGAGTTTCTAAAATGGGGG
10919974 ATTTAGCCTGGACTGGTAATCCCG
1 ATTTAGCCTGGACTGGTAATCCCG
10919998 CCATAAGATG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 78 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (54 bp):
ATTTAGCCTGGACTGGTAATCCCGACATCACCTTATGAGTTTCTAAAATGGGGG
Found at i:10921624 original size:40 final size:39
Alignment explanation
Indices: 10921531--10921626 Score: 138
Period size: 40 Copynumber: 2.4 Consensus size: 39
10921521 CTATCTCGGT
10921531 ATCACACACTTAGTGCCTTATGTAGCCGAAGCTATTCCA
1 ATCACACACTTAGTGCCTTATGTAGCCGAAGCTATTCCA
* * * *
10921570 ACTCGCACAGTTAGTGCCTTTTGTAGCCGAAGCTATTTCGA
1 A-TCACACACTTAGTGCCTTATGTAGCCGAAGCTA-TTCCA
10921611 ATCACACACTTAGTGC
1 ATCACACACTTAGTGC
10921627 TGAACTTAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
39 1 0.02
40 43 0.88
41 5 0.10
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (39 bp):
ATCACACACTTAGTGCCTTATGTAGCCGAAGCTATTCCA
Found at i:10924798 original size:20 final size:20
Alignment explanation
Indices: 10924775--10924842 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
10924765 TGGTTTCTTA
*
10924775 GTTTGTACTTTGGTACCCTT
1 GTTTGTACTTAGGTACCCTT
* * * *
10924795 GTTTGCACATAGGTGCCATT
1 GTTTGTACTTAGGTACCCTT
* *
10924815 GTTTATACTTCA-GTACCCCT
1 GTTTGTACTT-AGGTACCCTT
10924835 GTTTGTAC
1 GTTTGTAC
10924843 ATACATGCCC
Statistics
Matches: 35, Mismatches: 12, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
20 34 0.97
21 1 0.03
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (20 bp):
GTTTGTACTTAGGTACCCTT
Found at i:10924838 original size:40 final size:40
Alignment explanation
Indices: 10924787--10924887 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
10924777 TTGTACTTTG
* ** * *
10924787 GTACCCTTGTTTGCACATAGGTGCCATTGTTTATACTTCA
1 GTACCCCTGTTTGCACATACATGCCACTATTTATACTTCA
* * *
10924827 GTACCCCTGTTTGTACATACATGCCCCTATTTCTACTTCA
1 GTACCCCTGTTTGCACATACATGCCACTATTTATACTTCA
* *
10924867 GTACTCCTGTTTGCACGTACA
1 GTACCCCTGTTTGCACATACA
10924888 CCCCCTATTT
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.38
Consensus pattern (40 bp):
GTACCCCTGTTTGCACATACATGCCACTATTTATACTTCA
Found at i:10924923 original size:65 final size:66
Alignment explanation
Indices: 10924840--10924967 Score: 161
Period size: 65 Copynumber: 2.0 Consensus size: 66
10924830 CCCCTGTTTG
* *
10924840 TACATACATGCCCCTATTTCTACTTCAGTACTCC-TGTTTGCACGTACA-CCCCCTATTTGTACA
1 TACATACATACCCCTATTTCTACTTCAGTAC-CCTTGTTTGCACATACATCCCCCTATTTGTACA
10924903 TA
65 TA
* * * * * *
10924905 TACATACGTACCCTTATTTGTACTTCGGTACCCTTGTTTGCACATATATGCCCCTATTTGTAC
1 TACATACATACCCCTATTTCTACTTCAGTACCCTTGTTTGCACATACATCCCCCTATTTGTAC
10924968 TGTGGTACCC
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
64 2 0.04
65 38 0.72
66 13 0.25
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.38
Consensus pattern (66 bp):
TACATACATACCCCTATTTCTACTTCAGTACCCTTGTTTGCACATACATCCCCCTATTTGTACAT
A
Found at i:10929784 original size:29 final size:29
Alignment explanation
Indices: 10929743--10929819 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 29
10929733 AATCATATTC
* *
10929743 ATATGGCCTATTAGGCCCAAATAACCTAT
1 ATATGGCCCATTAGGCCCAAATAACATAT
* * *
10929772 GTATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATAACATAT
*
10929801 ATATGGCCCGTTAGGCCCA
1 ATATGGCCCATTAGGCCCA
10929820 GTCACATTCA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATAACATAT
Found at i:10930086 original size:16 final size:17
Alignment explanation
Indices: 10930050--10930095 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
10930040 AAACTTTCAG
*
10930050 CTTTTTGGCA-TTTCGA
1 CTTTTTGGCATTTTGGA
10930066 CTTTTTGGCATTTTGGA
1 CTTTTTGGCATTTTGGA
*
10930083 -TTTTCGGC-TTTTG
1 CTTTTTGGCATTTTG
10930096 CCGATCTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 5 0.19
16 17 0.63
17 5 0.19
ACGTcount: A:0.09, C:0.15, G:0.22, T:0.54
Consensus pattern (17 bp):
CTTTTTGGCATTTTGGA
Found at i:10932109 original size:50 final size:50
Alignment explanation
Indices: 10931992--10932162 Score: 174
Period size: 50 Copynumber: 3.5 Consensus size: 50
10931982 TTGGGTATAA
* * *
10931992 TGCCAATGCCATGTCCTAGACATGGTCTTACACT-GACTATCGA-A-ATT-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTC-ACATATTCG
* *
10932040 AGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTCG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTCG
* * * *
10932091 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAACAC-CTC-TATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTCG
* *
10932139 TGCTGATGCCATGTCCTAGACATG
1 TGCCGATGCCATGTCCCAGACATG
10932163 CCCAAAATTC
Statistics
Matches: 105, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
48 28 0.27
49 37 0.35
50 39 0.37
51 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (50 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTCG
Found at i:10932160 original size:48 final size:50
Alignment explanation
Indices: 10931992--10932162 Score: 174
Period size: 49 Copynumber: 3.5 Consensus size: 50
10931982 TTGGGTATAA
* * * *
10931992 TGCCAATGCCATGTCCTAGACATGGTCTTACACTGACTA-TCGAAAT-TGA-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAAC-ACTC-ACATAT-ACG
* * * *
10932042 -GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAACACTCACATATACG
*
10932091 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAACAC-CTC-TATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAACACTCACATATACG
* *
10932139 TGCTGATGCCATGTCCTAGACATG
1 TGCCGATGCCATGTCCCAGACATG
10932163 CCCAAAATTC
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
48 30 0.29
49 37 0.36
50 35 0.34
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (50 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAACACTCACATATACG
Found at i:10933760 original size:24 final size:24
Alignment explanation
Indices: 10933732--10933778 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
10933722 AAATGGGTAC
10933732 AATGAATATTCAG-CTGATATGAAA
1 AATGAATATT-AGACTGATATGAAA
*
10933756 AATGAATATTTGACTGATATGAA
1 AATGAATATTAGACTGATATGAA
10933779 TTGGCAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.32
Consensus pattern (24 bp):
AATGAATATTAGACTGATATGAAA
Found at i:10936957 original size:24 final size:24
Alignment explanation
Indices: 10936925--10936973 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
10936915 AAGGACGAGT
10936925 AGAAACTCATGAGGGTATGAATAA
1 AGAAACTCATGAGGGTATGAATAA
10936949 AGAAACTCATGAGGGTATGAATAA
1 AGAAACTCATGAGGGTATGAATAA
10936973 A
1 A
10936974 AGTTCATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.08, G:0.24, T:0.20
Consensus pattern (24 bp):
AGAAACTCATGAGGGTATGAATAA
Found at i:10939849 original size:14 final size:14
Alignment explanation
Indices: 10939808--10939840 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
10939798 TAGTTGTTAT
*
10939808 TTAAAAGTATTTTG
1 TTAAGAGTATTTTG
10939822 TTAAGAGTATTTTG
1 TTAAGAGTATTTTG
10939836 TTAAG
1 TTAAG
10939841 TGATTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (14 bp):
TTAAGAGTATTTTG
Found at i:10944694 original size:30 final size:31
Alignment explanation
Indices: 10944660--10944756 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
10944650 AGCTCACTCC
*
10944660 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
10944690 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
10944720 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
10944750 TAGCTCA
1 TAGCTCA
10944757 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:10946451 original size:12 final size:12
Alignment explanation
Indices: 10946434--10946471 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
10946424 TATACAAGTC
10946434 AAAAAAAATTCG
1 AAAAAAAATTCG
*
10946446 AAAAAAAATTCA
1 AAAAAAAATTCG
*
10946458 AAAAAAAAATCG
1 AAAAAAAATTCG
10946470 AA
1 AA
10946472 TAGAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.74, C:0.08, G:0.05, T:0.13
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:10947448 original size:37 final size:37
Alignment explanation
Indices: 10947397--10947467 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
10947387 CATTCTTGTA
10947397 AAGAGAAAACAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
10947434 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAAGAAAAAGAAAA
10947468 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:10947467 original size:6 final size:6
Alignment explanation
Indices: 10947407--10947456 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
10947397 AAGAGAAAAC
*
10947407 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
10947456 A
1 A
10947457 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:10947549 original size:11 final size:12
Alignment explanation
Indices: 10947517--10947547 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
10947507 TTGAGAGAAC
10947517 TTGAAAAAGCCT
1 TTGAAAAAGCCT
10947529 TTGAAAAAGCCT
1 TTGAAAAAGCCT
10947541 TTGAAAA
1 TTGAAAA
10947548 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:10949202 original size:30 final size:30
Alignment explanation
Indices: 10949168--10949264 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
10949158 AGCTCACTCC
10949168 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
10949198 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
10949228 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
10949258 TAGCTCA
1 TAGCTCA
10949265 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:10957007 original size:27 final size:27
Alignment explanation
Indices: 10956950--10957022 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 27
10956940 TATAAAATAC
* *
10956950 AATAT-TAAAAAGGTATATATATACGT
1 AATATATAAAAAGGTATATACATACAT
*
10956976 AATATATAAAAATGTATATACATA-AT
1 AATATATAAAAAGGTATATACATACAT
*
10957002 -ATATATAAGAA--TATATACATA
1 AATATATAAAAAGGTATATACATA
10957023 AAGTATTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 10 0.24
25 10 0.24
26 6 0.14
27 16 0.38
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (27 bp):
AATATATAAAAAGGTATATACATACAT
Found at i:10957038 original size:23 final size:23
Alignment explanation
Indices: 10956966--10957023 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
10956956 AAAAAGGTAT
*
10956966 ATATATACGTAATATATA-AA-A
1 ATATATACATAATATATATAAGA
10956987 ATGTATATACATAATATATATAAGA
1 A--TATATACATAATATATATAAGA
10957012 ATATATACATAA
1 ATATATACATAA
10957024 AGTATTAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 1 0.03
23 27 0.84
24 2 0.06
25 2 0.06
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATATACATAATATATATAAGA
Found at i:10957701 original size:21 final size:21
Alignment explanation
Indices: 10957675--10957801 Score: 72
Period size: 22 Copynumber: 6.0 Consensus size: 21
10957665 AGGTATATGC
*
10957675 ATAAAAAT-TATACATGATAGT
1 ATAAAAATATATACATAATA-T
*
10957696 ATAAAAGTATATACATAATAT
1 ATAAAAATATATACATAATAT
*
10957717 ATATTAGAAATA-ATA-ATTATAT
1 ATA--A-AAATATATACATAATAT
10957739 ATAAAAAGGTATATGTACATAATAT
1 ATAAAAA--TATA--TACATAATAT
* * *
10957764 AT-AAAATATA-AAAGAA-AC
1 ATAAAAATATATACATAATAT
10957782 AT-AAAATATATACAT-ATAT
1 ATAAAAATATATACATAATAT
10957801 A
1 A
10957802 AATATTAAGC
Statistics
Matches: 83, Mismatches: 11, Indels: 26
0.69 0.09 0.22
Matches are distributed among these distances:
18 12 0.14
19 11 0.13
20 1 0.01
21 13 0.16
22 24 0.29
23 4 0.05
24 10 0.12
25 8 0.10
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.32
Consensus pattern (21 bp):
ATAAAAATATATACATAATAT
Found at i:10958515 original size:11 final size:11
Alignment explanation
Indices: 10958482--10958522 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
10958472 AAATCATTTT
10958482 GAAGAGAGAAA
1 GAAGAGAGAAA
*
10958493 GAA-A-AAAAA
1 GAAGAGAGAAA
*
10958502 GAAGGGAGAAA
1 GAAGAGAGAAA
10958513 GAAGAGAGAA
1 GAAGAGAGAA
10958523 GAGAGGGGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
9 7 0.29
10 1 0.04
11 16 0.67
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:10961759 original size:17 final size:17
Alignment explanation
Indices: 10961737--10961771 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
10961727 GTTTACCCCT
10961737 ATGGGGCCCACAAGGCC
1 ATGGGGCCCACAAGGCC
*
10961754 ATGGGGCCCACATGGCC
1 ATGGGGCCCACAAGGCC
10961771 A
1 A
10961772 ATTTTGGCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.34, G:0.34, T:0.09
Consensus pattern (17 bp):
ATGGGGCCCACAAGGCC
Found at i:10982011 original size:98 final size:98
Alignment explanation
Indices: 10981842--10982035 Score: 388
Period size: 98 Copynumber: 2.0 Consensus size: 98
10981832 TAAAAGAGAA
10981842 AGAAAATGAAGCTAAAATTAAAAGACTAGTTCTCAATTGAATGAAAGGTCCCATAACATGTGCCA
1 AGAAAATGAAGCTAAAATTAAAAGACTAGTTCTCAATTGAATGAAAGGTCCCATAACATGTGCCA
10981907 AATGAGCCTATTTATAGATTCTCAATTGCCACT
66 AATGAGCCTATTTATAGATTCTCAATTGCCACT
10981940 AGAAAATGAAGCTAAAATTAAAAGACTAGTTCTCAATTGAATGAAAGGTCCCATAACATGTGCCA
1 AGAAAATGAAGCTAAAATTAAAAGACTAGTTCTCAATTGAATGAAAGGTCCCATAACATGTGCCA
10982005 AATGAGCCTATTTATAGATTCTCAATTGCCA
66 AATGAGCCTATTTATAGATTCTCAATTGCCA
10982036 TCGTCCTTAA
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.27
Consensus pattern (98 bp):
AGAAAATGAAGCTAAAATTAAAAGACTAGTTCTCAATTGAATGAAAGGTCCCATAACATGTGCCA
AATGAGCCTATTTATAGATTCTCAATTGCCACT
Found at i:10993041 original size:36 final size:36
Alignment explanation
Indices: 10992994--10993064 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
10992984 AGTAAACTCT
*
10992994 ATTCAGCTCAGTATCCTTTTGGATCTATTCTGACTA
1 ATTCAGCTCAGTAGCCTTTTGGATCTATTCTGACTA
*
10993030 ATTCAGTTCAGTAGCCTTTTGGATCTATTCTGACT
1 ATTCAGCTCAGTAGCCTTTTGGATCTATTCTGACT
10993065 GATGTGCTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.42
Consensus pattern (36 bp):
ATTCAGCTCAGTAGCCTTTTGGATCTATTCTGACTA
Found at i:10998213 original size:24 final size:24
Alignment explanation
Indices: 10998164--10998213 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
10998154 ACTCAAGCTT
*
10998164 CTGCTAAAGCACCCATTCAACGTG
1 CTGCTAAAGCACCCATTCAAAGTG
* * *
10998188 CTGCTAAGGCACCTATTCAAATTG
1 CTGCTAAAGCACCCATTCAAAGTG
10998212 CT
1 CT
10998214 ACGGAAGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (24 bp):
CTGCTAAAGCACCCATTCAAAGTG
Found at i:11013184 original size:18 final size:18
Alignment explanation
Indices: 11013163--11013199 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
11013153 GGTGTCATCT
11013163 ACAAATAGGGTGCCCAGC
1 ACAAATAGGGTGCCCAGC
11013181 ACAAATAGGGTGCCCAGC
1 ACAAATAGGGTGCCCAGC
11013199 A
1 A
11013200 TTCCCCGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.27, G:0.27, T:0.11
Consensus pattern (18 bp):
ACAAATAGGGTGCCCAGC
Found at i:11016960 original size:30 final size:31
Alignment explanation
Indices: 11016926--11016984 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
11016916 CTCCAAAATT
11016926 GGCCTAACCCGATAA-ATTTTGAAAAAAAAA
1 GGCCTAACCCGATAATATTTTGAAAAAAAAA
* *
11016956 GGCCTAATCCGATAATATTTTGTAAAAAA
1 GGCCTAACCCGATAATATTTTGAAAAAAA
11016985 TGACCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (31 bp):
GGCCTAACCCGATAATATTTTGAAAAAAAAA
Found at i:11022473 original size:17 final size:17
Alignment explanation
Indices: 11022453--11022485 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11022443 TTTTTTTTAC
*
11022453 TTTTTATAACTTTTAAT
1 TTTTTATAAATTTTAAT
11022470 TTTTTATAAATTTTAA
1 TTTTTATAAATTTTAA
11022486 ATATTTGTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTATAAATTTTAAT
Found at i:11023469 original size:18 final size:18
Alignment explanation
Indices: 11023446--11023483 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11023436 ATTGTTTTGA
* *
11023446 TTATTTTACTATTACTTT
1 TTATTTTAATATTAATTT
11023464 TTATTTTAATATTAATTT
1 TTATTTTAATATTAATTT
11023482 TT
1 TT
11023484 TTCAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTTTAATATTAATTT
Found at i:11027700 original size:56 final size:56
Alignment explanation
Indices: 11027639--11027807 Score: 338
Period size: 56 Copynumber: 3.0 Consensus size: 56
11027629 TACAACAGAG
11027639 ACACATCTAAAGGCTACTTATCCTTAATCTTACTAACCAAAGTAGGATTCACTTGC
1 ACACATCTAAAGGCTACTTATCCTTAATCTTACTAACCAAAGTAGGATTCACTTGC
11027695 ACACATCTAAAGGCTACTTATCCTTAATCTTACTAACCAAAGTAGGATTCACTTGC
1 ACACATCTAAAGGCTACTTATCCTTAATCTTACTAACCAAAGTAGGATTCACTTGC
11027751 ACACATCTAAAGGCTACTTATCCTTAATCTTACTAACCAAAGTAGGATTCACTTGC
1 ACACATCTAAAGGCTACTTATCCTTAATCTTACTAACCAAAGTAGGATTCACTTGC
11027807 A
1 A
11027808 ACTCTACTAG
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 113 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (56 bp):
ACACATCTAAAGGCTACTTATCCTTAATCTTACTAACCAAAGTAGGATTCACTTGC
Found at i:11029595 original size:29 final size:29
Alignment explanation
Indices: 11029562--11029852 Score: 224
Period size: 29 Copynumber: 10.2 Consensus size: 29
11029552 ATTCATCAAT
11029562 AGATAGCCACAAAGGCTTCCTTATAACAG
1 AGATAGCCACAAAGGCTTCCTTATAACAG
* **
11029591 AGATAGCCACAAAGGCTTTCATT-TAATGG
1 AGATAGCCACAAAGGC-TTCCTTATAACAG
*
11029620 AGATCGCCACAAAGGCTTCCTTATAACAG
1 AGATAGCCACAAAGGCTTCCTTATAACAG
* * * *
11029649 AGATAGCTACAAAGGTTTCATTATAACAT
1 AGATAGCCACAAAGGCTTCCTTATAACAG
* * *
11029678 ATATCGCCACAAAGGAGGCTT-CTT-T-TC--
1 AGATAGCCAC-AA--AGGCTTCCTTATAACAG
* * * *
11029705 AGATAGCCACAAAAGCGTCC--AT-TCAT
1 AGATAGCCACAAAGGCTTCCTTATAACAG
* * *
11029731 AGATAGCCCACAAAGGCATCCTTTTAACAA
1 AGATAG-CCACAAAGGCTTCCTTATAACAG
* *
11029761 AGATCGCCACAAAGACTTCCTTATAACAG
1 AGATAGCCACAAAGGCTTCCTTATAACAG
* * *
11029790 AGATCA-CCACAAAGACTTCCTTAGAATAG
1 AGAT-AGCCACAAAGGCTTCCTTATAACAG
* * *
11029819 AGATTGCCAAAAAGGTTTCCTTATAACAG
1 AGATAGCCACAAAGGCTTCCTTATAACAG
11029848 AGATA
1 AGATA
11029853 TCCAAAAAAG
Statistics
Matches: 205, Mismatches: 42, Indels: 30
0.74 0.15 0.11
Matches are distributed among these distances:
24 7 0.03
25 1 0.00
26 8 0.04
27 20 0.10
28 5 0.02
29 142 0.69
30 15 0.07
31 2 0.01
32 5 0.02
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (29 bp):
AGATAGCCACAAAGGCTTCCTTATAACAG
Found at i:11042916 original size:13 final size:13
Alignment explanation
Indices: 11042898--11042932 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
11042888 GATAAGGTAT
11042898 CAATACCAAATTA
1 CAATACCAAATTA
11042911 CAATACCAAATTA
1 CAATACCAAATTA
11042924 CAATACCAA
1 CAATACCAA
11042933 CTTCCTGCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (13 bp):
CAATACCAAATTA
Found at i:11044214 original size:30 final size:30
Alignment explanation
Indices: 11044180--11044244 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
11044170 CTCAGGGGAT
*
11044180 ACACGACCGTGTACAAAGGCCATGTGTCAC
1 ACACGACCATGTACAAAGGCCATGTGTCAC
* *
11044210 ACACGACTATGTACCAAGGCCATGTGTCAC
1 ACACGACCATGTACAAAGGCCATGTGTCAC
11044240 ACACG
1 ACACG
11044245 GTCAAGCCAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.31, G:0.22, T:0.17
Consensus pattern (30 bp):
ACACGACCATGTACAAAGGCCATGTGTCAC
Found at i:11046114 original size:40 final size:40
Alignment explanation
Indices: 11046070--11046333 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
11046060 GCTCCTCGTT
* *
11046070 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
11046110 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
11046150 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
11046190 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
11046230 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
11046269 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
11046310 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
11046334 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:11054773 original size:40 final size:40
Alignment explanation
Indices: 11054729--11054990 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
11054719 GCTCCTCGTT
* *
11054729 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
11054769 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
11054809 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
11054848 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
11054887 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
11054926 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
11054967 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
11054991 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:11068214 original size:27 final size:27
Alignment explanation
Indices: 11068184--11068250 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
11068174 TTTTAATTAC
*
11068184 ATGAATATTTGAACCTAGTATAAAAAT
1 ATGAATATTTCAACCTAGTATAAAAAT
11068211 ATGAATATTTCAACCTAGTATAAAAAT
1 ATGAATATTTCAACCTAGTATAAAAAT
11068238 ATGAATATTTCAA
1 ATGAATATTTCAA
11068251 ATTATGCTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (27 bp):
ATGAATATTTCAACCTAGTATAAAAAT
Found at i:11068584 original size:33 final size:34
Alignment explanation
Indices: 11068546--11068626 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 34
11068536 CTTTTATTAA
*
11068546 ATATTTTTAAAAAAATCTGTCAAATAATA-AAAT
1 ATATTTTTAAAAAAATCTGTCAAAAAATATAAAT
* * *
11068579 ATA-TTTTACAAAAATTCTTTCAAAAAATATTAAT
1 ATATTTTTA-AAAAAATCTGTCAAAAAATATAAAT
11068613 -T-TTTTTAAAAAAAT
1 ATATTTTTAAAAAAAT
11068627 AAATTATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
32 11 0.28
33 26 0.65
34 3 0.08
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (34 bp):
ATATTTTTAAAAAAATCTGTCAAAAAATATAAAT
Found at i:11068625 original size:20 final size:21
Alignment explanation
Indices: 11068600--11068648 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 21
11068590 AAATTCTTTC
11068600 AAAAAATATTAATT-TTTTTA
1 AAAAAATATTAATTATTTTTA
*
11068620 AAAAAATA--AATTATTTTTC
1 AAAAAATATTAATTATTTTTA
*
11068639 AAAAATTATT
1 AAAAAATATT
11068649 TTACGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 4 0.17
19 12 0.50
20 8 0.33
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
AAAAAATATTAATTATTTTTA
Found at i:11070495 original size:54 final size:54
Alignment explanation
Indices: 11070428--11070532 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 54
11070418 ATTTAGAGAT
*
11070428 CAAAAATTAAGAATA-CTAAATCGTAATCTTTAATATATTATACCCTAATCCAAA
1 CAAAAATTAAGAATATC-AAATCGTAATATTTAATATATTATACCCTAATCCAAA
* * * * *
11070482 CAAAAATTGAGAATATCATATTGTAATATTTAATATATTGTACTCTAATCC
1 CAAAAATTAAGAATATCAAATCGTAATATTTAATATATTATACCCTAATCC
11070533 TAATATATCT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
54 43 0.98
55 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (54 bp):
CAAAAATTAAGAATATCAAATCGTAATATTTAATATATTATACCCTAATCCAAA
Found at i:11072055 original size:28 final size:28
Alignment explanation
Indices: 11072023--11072080 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
11072013 TCTCTTCTCC
*
11072023 ACCTTTCAACTACATACAAATACTCCTA
1 ACCTTTAAACTACATACAAATACTCCTA
*
11072051 ACCTTTAAACTACATGCAAATACTCCTA
1 ACCTTTAAACTACATACAAATACTCCTA
11072079 AC
1 AC
11072081 TTGTTTTAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.31, G:0.02, T:0.28
Consensus pattern (28 bp):
ACCTTTAAACTACATACAAATACTCCTA
Found at i:11074547 original size:26 final size:26
Alignment explanation
Indices: 11074518--11074625 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
11074508 TGGTACAAAT
11074518 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11074544 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11074570 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11074596 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11074622 TGAT
1 TGAT
11074626 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11076381 original size:64 final size:64
Alignment explanation
Indices: 11076280--11076404 Score: 232
Period size: 64 Copynumber: 2.0 Consensus size: 64
11076270 TGGAGGCTTT
*
11076280 GCCTCAATTTATTATTAACTGAGCAGCAAGGCTGCAACTGTGGAGTGTTGGGCTGGGCGGGAAA
1 GCCTCAATTTATTATTAACTGAGCAGCAAGGCTGCAACTGTAGAGTGTTGGGCTGGGCGGGAAA
*
11076344 GCCTCAATTTATTGTTAACTGAGCAGCAAGGCTGCAACTGTAGAGTGTTGGGCTGGGCGGG
1 GCCTCAATTTATTATTAACTGAGCAGCAAGGCTGCAACTGTAGAGTGTTGGGCTGGGCGGG
11076405 TTGAGCTATT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.26
Consensus pattern (64 bp):
GCCTCAATTTATTATTAACTGAGCAGCAAGGCTGCAACTGTAGAGTGTTGGGCTGGGCGGGAAA
Found at i:11077974 original size:23 final size:24
Alignment explanation
Indices: 11077941--11077993 Score: 99
Period size: 23 Copynumber: 2.2 Consensus size: 24
11077931 AAGTTTTATT
11077941 ATGGAGAACGGACTTCTTGATAGA
1 ATGGAGAACGGACTTCTTGATAGA
11077965 ATGGA-AACGGACTTCTTGATAGA
1 ATGGAGAACGGACTTCTTGATAGA
11077988 ATGGAG
1 ATGGAG
11077994 GGCAACGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 23 0.82
24 5 0.18
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (24 bp):
ATGGAGAACGGACTTCTTGATAGA
Found at i:11080264 original size:299 final size:299
Alignment explanation
Indices: 11079721--11080318 Score: 1106
Period size: 299 Copynumber: 2.0 Consensus size: 299
11079711 TTGGCATAAG
*
11079721 AAACTACCGCCTACTCTCTATGCTTACGCTGGGGAAAACACCTTCAATTCTAGTTGTTTCAAAGG
1 AAACTACCGCCTACTCTCTATGCTTACGCTGGGGAAAACACCTTCAATTCCAGTTGTTTCAAAGG
* * *
11079786 TTCCAACTATCATCCTTGGAATGGGTGCATTGTTTGGCTTTCTTGAGCAGTCTGATGTGTCGTCA
66 TTCCAACCATCATCCTTGGAATGGGTGCATTGTTTGGCTTTCCTGAGCAGTCTGATGTGCCGTCA
*
11079851 ATAGCTGCGATGGTTAGCTCCAGGCGGTGGCCATTGATTTCCAACTATGGGGCATCAGGCCGTAC
131 ATAGCTGCGATGGTTAGCTCCAGGCGGTGGCCATTGATTTCCAACTATGGGGCATCAAGCCGTAC
*
11079916 GCAGTCTCTGAAGCTTAAAATGATAGATTCTTTCTTCAAAACCAGTTTCTAACAAAGTGGATGAC
196 ACAGTCTCTGAAGCTTAAAATGATAGATTCTTTCTTCAAAACCAGTTTCTAACAAAGTGGATGAC
11079981 GGTATCATGAAGGAAGCTCTCTTAGACTTCTATACAAGT
261 GGTATCATGAAGGAAGCTCTCTTAGACTTCTATACAAGT
*
11080020 AAACTACCGCCTACTCTCTATGCTTACGCTGGGGCAAACACCTTCAATTCCAGTTGTTTCAAAGG
1 AAACTACCGCCTACTCTCTATGCTTACGCTGGGGAAAACACCTTCAATTCCAGTTGTTTCAAAGG
11080085 TTCCAACCATCATCCTTGGAATGGGTGCATTGTTTGGCTTTCCTGAGCAGTCTGATGTGCCGTCA
66 TTCCAACCATCATCCTTGGAATGGGTGCATTGTTTGGCTTTCCTGAGCAGTCTGATGTGCCGTCA
11080150 ATAGCTGCGATGGTTAGCTCCAGGCGGTGGCCATTGATTTCCAACTATGGGGCATCAAGCCGTAC
131 ATAGCTGCGATGGTTAGCTCCAGGCGGTGGCCATTGATTTCCAACTATGGGGCATCAAGCCGTAC
* * *
11080215 ACAGTCTCTGAAGCTTAAAATGATATATTCTTTCTTCAAAACTAGTTTCTGACAAAGTGGATGAC
196 ACAGTCTCTGAAGCTTAAAATGATAGATTCTTTCTTCAAAACCAGTTTCTAACAAAGTGGATGAC
11080280 GGTATCATGAAGGAAGCTCTCTTAGACTTCTATACAAGT
261 GGTATCATGAAGGAAGCTCTCTTAGACTTCTATACAAGT
11080319 TCAGGGAAGA
Statistics
Matches: 289, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
299 289 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (299 bp):
AAACTACCGCCTACTCTCTATGCTTACGCTGGGGAAAACACCTTCAATTCCAGTTGTTTCAAAGG
TTCCAACCATCATCCTTGGAATGGGTGCATTGTTTGGCTTTCCTGAGCAGTCTGATGTGCCGTCA
ATAGCTGCGATGGTTAGCTCCAGGCGGTGGCCATTGATTTCCAACTATGGGGCATCAAGCCGTAC
ACAGTCTCTGAAGCTTAAAATGATAGATTCTTTCTTCAAAACCAGTTTCTAACAAAGTGGATGAC
GGTATCATGAAGGAAGCTCTCTTAGACTTCTATACAAGT
Found at i:11081530 original size:121 final size:121
Alignment explanation
Indices: 11081323--11081582 Score: 520
Period size: 121 Copynumber: 2.1 Consensus size: 121
11081313 GAAGCCAAAA
11081323 TGAAAACCCGCAAAGGGCACTTTGGGACTTCTATTTCAAAAAAAAGGAAAAAAGAAAAGAAAAAG
1 TGAAAACCCGCAAAGGGCACTTTGGGACTTCTATTTCAAAAAAAAGGAAAAAAGAAAAGAAAAAG
11081388 ATAAAAAAATATATAAAAAGAAAAAAGAGAAAAAAGAAAAAATGGAGAGGCCAAGG
66 ATAAAAAAATATATAAAAAGAAAAAAGAGAAAAAAGAAAAAATGGAGAGGCCAAGG
11081444 TGAAAACCCGCAAAGGGCACTTTGGGACTTCTATTTCAAAAAAAAGGAAAAAAGAAAAGAAAAAG
1 TGAAAACCCGCAAAGGGCACTTTGGGACTTCTATTTCAAAAAAAAGGAAAAAAGAAAAGAAAAAG
11081509 ATAAAAAAATATATAAAAAGAAAAAAGAGAAAAAAGAAAAAATGGAGAGGCCAAGG
66 ATAAAAAAATATATAAAAAGAAAAAAGAGAAAAAAGAAAAAATGGAGAGGCCAAGG
11081565 TGAAAACCCGCAAAGGGC
1 TGAAAACCCGCAAAGGGC
11081583 GCCTTGAGAC
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 139 1.00
ACGTcount: A:0.57, C:0.10, G:0.20, T:0.12
Consensus pattern (121 bp):
TGAAAACCCGCAAAGGGCACTTTGGGACTTCTATTTCAAAAAAAAGGAAAAAAGAAAAGAAAAAG
ATAAAAAAATATATAAAAAGAAAAAAGAGAAAAAAGAAAAAATGGAGAGGCCAAGG
Found at i:11082556 original size:43 final size:43
Alignment explanation
Indices: 11082508--11082646 Score: 124
Period size: 43 Copynumber: 3.3 Consensus size: 43
11082498 CACCTTAATC
11082508 CCCTAAGCAGTAAGGTAACAGGTTAAATTTGTAGATCTTATCT
1 CCCTAAGCAGTAAGGTAACAGGTTAAATTTGTAGATCTTATCT
* * * ** *** * *
11082551 CCCTAAGCAGT-AGTGGAGCAGATCGAA-GACTCG-CCTTAATC-
1 CCCTAAGCAGTAAG-GTAACAGGTTAAATTTGTAGATCTT-ATCT
* *
11082592 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAAGGTAACAGGTTAAATTTGTAGATCTTATCT
11082635 CCCTAAGCAGTA
1 CCCTAAGCAGTA
11082647 GTGGAGCAGA
Statistics
Matches: 68, Mismatches: 22, Indels: 12
0.67 0.22 0.12
Matches are distributed among these distances:
41 22 0.32
42 12 0.18
43 34 0.50
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (43 bp):
CCCTAAGCAGTAAGGTAACAGGTTAAATTTGTAGATCTTATCT
Found at i:11082641 original size:84 final size:84
Alignment explanation
Indices: 11082500--11082952 Score: 711
Period size: 84 Copynumber: 5.4 Consensus size: 84
11082490 AAATTTAGCA
* *
11082500 CCTTAATCCCCTAAGCAGTAAGGTAACAGGTTAAATTTGTAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
11082565 GGAGCAGATCGAAGACTCG
66 GGAGCAGATCGAAGACTCG
11082584 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
11082649 GGAGCAGATCGAAGACTCG
66 GGAGCAGATCGAAGACTCG
* *
11082668 CCTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATTTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
* *
11082728 GGAGCAGATCAACGACGACTCA
66 GGAGCAGAT---CGAAGACTCG
*
11082750 CCTTAATCCCCTAAGCAATAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
*
11082815 GGAGCAGATCGACGACTCG
66 GGAGCAGATCGAAGACTCG
* ** *
11082834 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAAACTGCAGATCTTATCTCCCTAAACAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
11082899 GGAGCAGATCGAAGA-TGCG
66 GGAGCAGATCGAAGACT-CG
*
11082918 CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAA
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA
11082953 GTATAGCAGA
Statistics
Matches: 342, Mismatches: 18, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
79 37 0.11
82 37 0.11
83 1 0.00
84 230 0.67
87 37 0.11
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (84 bp):
CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCGAAGACTCG
Found at i:11082781 original size:166 final size:163
Alignment explanation
Indices: 11082500--11082952 Score: 674
Period size: 166 Copynumber: 2.7 Consensus size: 163
11082490 AAATTTAGCA
* * *
11082500 CCTTAATCCCCTAAGCAGTAAGGTAACAGGTTAAATTTGTAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTAGT
11082565 GGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
61 GGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
11082630 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCG
126 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCG
*
11082668 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATTTTATCTCCCTAAGCAGTAGTGGAGC
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGTGGAGC
* * *
11082733 AGATCAACGACGACTCACCTTAATCCCCTAAGCAATAGGGTAACAGGTTAAATTTGCAGATCTTA
66 AGAT---CGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTA
*
11082798 TCTCCCTAAGCAGTAGTGGAGCAGATCGACGACTCG
128 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCG
* *
11082834 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAAACTGCAGATCTTATCTCCCTAAACAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGT----TC-GCAGATCTTATCTCCCTAAGCAGTAGT
*
11082899 GGAGCAGATCGAAGA-TGCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAA
61 GGAGCAGATCGAAGACT-CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA
11082953 GTATAGCAGA
Statistics
Matches: 261, Mismatches: 15, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
163 36 0.14
166 121 0.46
167 1 0.00
168 68 0.26
170 1 0.00
171 34 0.13
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (163 bp):
CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGTGGAGC
AGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
CCCTAAGCAGTAGTGGAGCAGATCGAAGACTCG
Found at i:11082939 original size:250 final size:250
Alignment explanation
Indices: 11082498--11082949 Score: 807
Period size: 250 Copynumber: 1.8 Consensus size: 250
11082488 CAAAATTTAG
* *
11082498 CACCTTAATCCCCTAAGCAGTAAGGTAACAGGTTAAATTTGTAGATCTTATCTCCCTAAGCAGTA
1 CACCTTAATCCCCTAAGCAATAAGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* **
11082563 GTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGAT
66 GTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAAACTGCAGAT
* *
11082628 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTA
131 CTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTA
11082693 ACAGGTTCGCAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCAACGACGACT
196 ACAGGTTCGCAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCAACGACGACT
*
11082748 CACCTTAATCCCCTAAGCAATAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CACCTTAATCCCCTAAGCAATAAGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
11082813 GTGGAGCAGATCGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAAACTGCAGAT
66 GTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAAACTGCAGAT
11082878 CTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGA-TGCGCCTTAACCCCCTAAGCAGTAGGGT
131 CTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACT-CGCCTTAACCCCCTAAGCAGTAGGGT
11082942 AACAGGTT
195 AACAGGTT
11082950 AAAGTATAGC
Statistics
Matches: 192, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
249 1 0.01
250 191 0.99
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (250 bp):
CACCTTAATCCCCTAAGCAATAAGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAAACTGCAGAT
CTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTA
ACAGGTTCGCAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCAACGACGACT
Found at i:11083307 original size:205 final size:205
Alignment explanation
Indices: 11082955--11083532 Score: 1012
Period size: 205 Copynumber: 2.8 Consensus size: 205
11082945 AGGTTAAAGT
*
11082955 ATAGCAGATCTAGCCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGC
1 ATAGCAGATCTAGCCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGC
*
11083020 TTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTA
66 TTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTA
* *
11083085 AGATGATTTGACATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCGATGGA
131 AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCGACGGA
11083150 GAACAGATAC
196 GAACAGATAC
*
11083160 ATAGCAGATCCAGCCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGC
1 ATAGCAGATCTAGCCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGC
*
11083225 TTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTA
66 TTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTA
* *
11083290 AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCATCTCCACTTTGACGGA
131 AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCGACGGA
*
11083355 GAACATATAC
196 GAACAGATAC
* * * *
11083365 ATAGCAGATCTAACCTTCGGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTGTGC
1 ATAGCAGATCTAGCCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGC
* * *
11083430 TTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGATGGAGCAAATCTA
66 TTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTA
11083495 AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
131 AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
11083533 GAAGAAGCAG
Statistics
Matches: 355, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
205 355 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (205 bp):
ATAGCAGATCTAGCCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGC
TTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTA
AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCGACGGA
GAACAGATAC
Found at i:11083547 original size:43 final size:44
Alignment explanation
Indices: 11083499--11083581 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
11083489 AATCTAAGAT
*
11083499 GATTTGGCATCTCTGTATT-GTCAGAGAACAAATCGAAGAAGCA
1 GATTTGGCATCTCTGTATTCGGCAGAGAACAAATCGAAGAAGCA
* * * * *
11083542 GATTTGGCGTCTTTGTGTTCGGCAGAGAGCAGATCGAAGA
1 GATTTGGCATCTCTGTATTCGGCAGAGAACAAATCGAAGA
11083582 TATCAACATG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 16 0.48
44 17 0.52
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTCGGCAGAGAACAAATCGAAGAAGCA
Found at i:11083959 original size:18 final size:18
Alignment explanation
Indices: 11083911--11083963 Score: 81
Period size: 17 Copynumber: 2.9 Consensus size: 18
11083901 ATAATCTTCA
11083911 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
11083930 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
11083947 ATGATTGCAATCTTAGA
1 ATGATTGCAATCTTAGA
11083964 AGATATGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 16 0.52
18 11 0.35
19 4 0.13
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:11084183 original size:41 final size:41
Alignment explanation
Indices: 11084138--11084301 Score: 319
Period size: 41 Copynumber: 4.0 Consensus size: 41
11084128 GAGAGCATTC
11084138 ACTCAAATTTCTCTCCCTCTTGCGTTCTTACTCTCTGTGGT
1 ACTCAAATTTCTCTCCCTCTTGCGTTCTTACTCTCTGTGGT
11084179 ACTCAAATTTCTCTCCCTCTTGCGTTCTTACTCTCTGTGGT
1 ACTCAAATTTCTCTCCCTCTTGCGTTCTTACTCTCTGTGGT
11084220 ACTCAAATTTCTCTCCCTCTTGCGTTCTTACTCTCTGTGGT
1 ACTCAAATTTCTCTCCCTCTTGCGTTCTTACTCTCTGTGGT
*
11084261 ACTCAAATTTCTCTCCCTCTTGCGTTCTTACTCCCTGTGGT
1 ACTCAAATTTCTCTCCCTCTTGCGTTCTTACTCTCTGTGGT
11084302 TTGTTCTTAT
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 122 1.00
ACGTcount: A:0.12, C:0.32, G:0.12, T:0.43
Consensus pattern (41 bp):
ACTCAAATTTCTCTCCCTCTTGCGTTCTTACTCTCTGTGGT
Found at i:11088269 original size:20 final size:20
Alignment explanation
Indices: 11088244--11088283 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
11088234 GTAGTCTTGG
11088244 CTATTTTACTATATATCAAT
1 CTATTTTACTATATATCAAT
*
11088264 CTATTTTATTATATATCAAT
1 CTATTTTACTATATATCAAT
11088284 TAAAGAACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (20 bp):
CTATTTTACTATATATCAAT
Found at i:11090530 original size:21 final size:21
Alignment explanation
Indices: 11090504--11090545 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
11090494 AAGTAGTATC
11090504 GATTAAGTAGTATTGCATTTT
1 GATTAAGTAGTATTGCATTTT
*
11090525 GATTAAGTAGTATTGTATTTT
1 GATTAAGTAGTATTGCATTTT
11090546 TGGATGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.02, G:0.19, T:0.50
Consensus pattern (21 bp):
GATTAAGTAGTATTGCATTTT
Found at i:11092680 original size:58 final size:57
Alignment explanation
Indices: 11092611--11092745 Score: 148
Period size: 58 Copynumber: 2.3 Consensus size: 57
11092601 TTTTTATAAT
* *
11092611 ATTATATATTATGATTTTTTAATT-CATATAATAATAATTATATTAAGAATATTATTAA
1 ATTATATATTAT-ATTTTTAAATTGCATATAATAATAATTATATTAA-AATATGATTAA
* ** *
11092669 ATTATATATTAT-TTTATAAAATTGTGTTTAATAATAATTATATTAAAATATGATTAA
1 ATTATATATTATATTT-TTAAATTGCATATAATAATAATTATATTAAAATATGATTAA
* *
11092726 ATTATTTATTTTTATTTTTA
1 ATTATATA-TTATATTTTTA
11092746 TTAAAACATA
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
56 3 0.05
57 22 0.34
58 36 0.56
59 3 0.05
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (57 bp):
ATTATATATTATATTTTTAAATTGCATATAATAATAATTATATTAAAATATGATTAA
Found at i:11092714 original size:15 final size:15
Alignment explanation
Indices: 11092630--11092718 Score: 55
Period size: 15 Copynumber: 6.1 Consensus size: 15
11092620 TATGATTTTT
11092630 TAATTCATA-TAATAA
1 TAATT-ATATTAATAA
*
11092645 TAATTATATTAAGAA
1 TAATTATATTAATAA
* *
11092660 T-ATTAT-TAAATTA
1 TAATTATATTAATAA
*
11092673 TATATTAT-TTTATAA
1 TA-ATTATATTAATAA
* *
11092688 -AATTGTGTTTAATAA
1 TAATTAT-ATTAATAA
11092703 TAATTATATTAA-AA
1 TAATTATATTAATAA
11092717 TA
1 TA
11092719 TGATTAAATT
Statistics
Matches: 57, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
13 9 0.16
14 13 0.23
15 30 0.53
16 5 0.09
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.47
Consensus pattern (15 bp):
TAATTATATTAATAA
Found at i:11092760 original size:61 final size:58
Alignment explanation
Indices: 11092639--11092766 Score: 143
Period size: 58 Copynumber: 2.2 Consensus size: 58
11092629 TTAATTCATA
* ** *
11092639 TAATAATAATTATATTAAGAATATTATTAAATTATATATTATTTTATAAAATTGTGTT
1 TAATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATAAAATCATATT
*
11092697 TAATAATAATTATATTAA-AATATGATTAAATTATTTATTTTTATTTTTATTAAAA-CATATT
1 TAATAATAATTATATTAAGAATATGATTAAATTA--TA-TATTA-TTTTA-TAAAATCATATT
*
11092758 TAACAATAA
1 TAATAATAA
11092767 ATTTGTTAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
57 14 0.24
58 18 0.31
59 2 0.03
60 4 0.07
61 16 0.27
62 5 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (58 bp):
TAATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATAAAATCATATT
Found at i:11092967 original size:16 final size:16
Alignment explanation
Indices: 11092945--11092997 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
11092935 TTGAATTACT
11092945 AATTACAGATCTATTC
1 AATTACAGATCTATTC
* *
11092961 CATTACAGCTCTATTC
1 AATTACAGATCTATTC
*
11092977 AATTACA-ACCCTATTC
1 AATTACAGA-TCTATTC
11092993 AATTA
1 AATTA
11092998 TAGTCTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.36
Consensus pattern (16 bp):
AATTACAGATCTATTC
Found at i:11100439 original size:20 final size:21
Alignment explanation
Indices: 11100399--11100441 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
11100389 AAGCTAAATA
11100399 CCAGATTTATGAAATTTTTTT
1 CCAGATTTATGAAATTTTTTT
11100420 CCAGATTTATGAAATTTTTTT
1 CCAGATTTATGAAATTTTTTT
11100441 C
1 C
11100442 AACTTTCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (21 bp):
CCAGATTTATGAAATTTTTTT
Found at i:11102806 original size:57 final size:57
Alignment explanation
Indices: 11102625--11102808 Score: 149
Period size: 57 Copynumber: 3.2 Consensus size: 57
11102615 TATAACTATT
*
11102625 TATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
1 TATATTAATAAATTCAATAAAATATATAAAATTAATATTTTGTATGAATCAAATTCA
* * ** * ** * * * *
11102682 TATATCAATTATATTCTTTCCAAAAGAATATTAATTTTCATGTTTTTTAT-AATTAACTATT--
1 TATATTAA-TAAATTCAAT--AAAA-TATA-TAAAATTAATATTTTGTATGAATCAA--ATTCA
** *
11102743 TATATTAATAAATTCGGTAAAATATATAAAATTAATATTTTGTATGAATCAAGTTCA
1 TATATTAATAAATTCAATAAAATATATAAAATTAATATTTTGTATGAATCAAATTCA
11102800 TATATTAAT
1 TATATTAAT
11102809 TCTATCTATA
Statistics
Matches: 93, Mismatches: 24, Indels: 20
0.68 0.18 0.15
Matches are distributed among these distances:
55 2 0.02
56 14 0.15
57 24 0.26
58 11 0.12
60 11 0.12
61 15 0.16
62 13 0.14
63 3 0.03
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (57 bp):
TATATTAATAAATTCAATAAAATATATAAAATTAATATTTTGTATGAATCAAATTCA
Found at i:11106884 original size:6 final size:6
Alignment explanation
Indices: 11106870--11106923 Score: 81
Period size: 6 Copynumber: 9.0 Consensus size: 6
11106860 CAGTTGCCTC
* *
11106870 TTCACT TTCAGT TTCACC TTCACT TTCACT TTCACT TTCACT TTCACT
1 TTCACT TTCACT TTCACT TTCACT TTCACT TTCACT TTCACT TTCACT
*
11106918 TCCACT
1 TTCACT
11106924 CTCTTCCGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.17, C:0.35, G:0.02, T:0.46
Consensus pattern (6 bp):
TTCACT
Found at i:11109274 original size:13 final size:13
Alignment explanation
Indices: 11109256--11109280 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11109246 ACATCAAGTA
11109256 TTGATAGCATTAG
1 TTGATAGCATTAG
11109269 TTGATAGCATTA
1 TTGATAGCATTA
11109281 TTTGCCTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (13 bp):
TTGATAGCATTAG
Found at i:11116929 original size:23 final size:23
Alignment explanation
Indices: 11116884--11116929 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11116874 ATATTAAGTC
*
11116884 CGCACACTCAGTGCTATATAATT
1 CGCACACTCAGTGCTATACAATT
* *
11116907 CGCACACTTAGTGCTGTACAATT
1 CGCACACTCAGTGCTATACAATT
11116930 TAATCCCGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (23 bp):
CGCACACTCAGTGCTATACAATT
Found at i:11124874 original size:55 final size:54
Alignment explanation
Indices: 11124754--11124944 Score: 201
Period size: 55 Copynumber: 3.5 Consensus size: 54
11124744 TAAGGATATC
* * * ***
11124754 ATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGTCAAGGAAATT
1 ATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATCCT
* * *
11124808 ATATAAGACCATGTCAAGACATAGCATTGATGAGTTACTATAAGGCAAAGG-TCCT
1 ATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC-AAGGATCCT
* *
11124863 ATGTAAGACCATACCAAGGCATGGCATT-AGTGAGTTC-ATAAGGCAAGGATACC-
1 ATGTAAGACCATGCCAAGACATGGCATTGA-TGAGTTCTATAAGGCAAGGAT-CCT
* *
11124916 ATGTAAGACCATGTCAAGACATGACATTG
1 ATGTAAGACCATGCCAAGACATGGCATTG
11124945 GTAAGGCAAG
Statistics
Matches: 113, Mismatches: 18, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
52 4 0.04
53 32 0.28
54 35 0.31
55 38 0.34
56 4 0.04
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (54 bp):
ATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATCCT
Found at i:11124952 original size:45 final size:44
Alignment explanation
Indices: 11124901--11125367 Score: 369
Period size: 45 Copynumber: 10.0 Consensus size: 44
11124891 AGTGAGTTCA
*
11124901 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGACATTGG
1 TAAGGCAAGGAT-CCATGTAAGACCATGTCAAGACATGGCATTGG
* * *
11124946 TAAGGCAAGGATCCCGTGTAAGACCATGTCAAGACATGGCATCGA
1 TAAGGCAAGGAT-CCATGTAAGACCATGTCAAGACATGGCATTGG
* * *
11124991 TAAGGCAAGGATCTCGTGTAAGACCATGTCAAGACATGGCATCGA
1 TAAGGCAAGGATC-CATGTAAGACCATGTCAAGACATGGCATTGG
* * *
11125036 TAAGGCAAGGATCTCGTGTAAGACCATGTCAAGACATGGCATCGA
1 TAAGGCAAGGATC-CATGTAAGACCATGTCAAGACATGGCATTGG
* *
11125081 TAAGGCAAGGATCTCGTGTAAGACCATGTCAAGACATGGCATCGG
1 TAAGGCAAGGATC-CATGTAAGACCATGTCAAGACATGGCATTGG
* * ** ** **
11125126 CATTGATTAAGGACTCCATGTAAGACCACATCAAGATGTGGCATTGG
1 TA-AG-GCAAGGA-TCCATGTAAGACCATGTCAAGACATGGCATTGG
* ***
11125173 CACTAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 ---TAAGGCAAGGAT-CCATGTAAGACCATGTCAAG-ACATGGCA-TTGG
* ***
11125223 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGGCAAGGAT-CCATGTAAGACCATGTCAAG-ACATGGCA-TTGG
** * * *
11125270 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAG
1 TAAGGCAAGGAT-CCATGTAAGACCATGTCAAGACATGGCATTG----G
11125319 TTCTATAAGGCAAGGAAAT-CATGTAAGACCATGTCAAGACATGGCATTG
1 -----TAAGGCAAGG--ATCCATGTAAGACCATGTCAAGACATGGCATTG
11125368 ATGAGTTACT
Statistics
Matches: 363, Mismatches: 38, Indels: 33
0.84 0.09 0.08
Matches are distributed among these distances:
44 1 0.00
45 176 0.48
46 8 0.02
47 105 0.29
48 22 0.06
49 8 0.02
50 5 0.01
54 36 0.10
56 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (44 bp):
TAAGGCAAGGATCCATGTAAGACCATGTCAAGACATGGCATTGG
Found at i:11125235 original size:47 final size:47
Alignment explanation
Indices: 11125176--11125297 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
11125166 GCATTGGCAC
11125176 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
11125223 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
11125270 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
11125298 CCAAGGCATG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:11125405 original size:55 final size:54
Alignment explanation
Indices: 11125276--11125472 Score: 263
Period size: 55 Copynumber: 3.6 Consensus size: 54
11125266 TTGGTAAGAT
* * *
11125276 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
11125330 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * *
11125385 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
11125438 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
11125473 ATGGTAAGTT
Statistics
Matches: 126, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
52 4 0.03
53 33 0.26
54 42 0.33
55 43 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:11127669 original size:18 final size:18
Alignment explanation
Indices: 11127629--11127683 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
11127619 ATTACAAAAT
* *
11127629 AATTCAAAATAATTTTTAAA
1 AATTC-AAAT-ATTTATATA
11127649 AATTCAAATATTTATATA
1 AATTCAAATATTTATATA
11127667 AATTTCAAAT-TTTATAT
1 AA-TTCAAATATTTATAT
11127684 TTTTCAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 16 0.50
19 11 0.34
20 5 0.16
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTCAAATATTTATATA
Found at i:11137763 original size:21 final size:21
Alignment explanation
Indices: 11137739--11137779 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11137729 TTACCTTGGA
* *
11137739 TATGAATTGAATTAAATTGAC
1 TATGAAATGAATGAAATTGAC
*
11137760 TATGAAATGGATGAAATTGA
1 TATGAAATGAATGAAATTGA
11137780 TGTTAAATTT
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:0.44, C:0.02, G:0.20, T:0.34
Consensus pattern (21 bp):
TATGAAATGAATGAAATTGAC
Found at i:11138251 original size:26 final size:26
Alignment explanation
Indices: 11138222--11138277 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
11138212 TTTATGAGAA
*
11138222 TCCTGATTAAA-GGTTCTTTGTGAACT
1 TCCTG-TTAAATGGCTCTTTGTGAACT
*
11138248 TCCTGTTAAATTGGCTCTTTGTGAGCT
1 TCCTGTTAAA-TGGCTCTTTGTGAACT
11138275 TCC
1 TCC
11138278 CAATAGTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 5 0.19
26 5 0.19
27 16 0.62
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.43
Consensus pattern (26 bp):
TCCTGTTAAATGGCTCTTTGTGAACT
Found at i:11138347 original size:24 final size:24
Alignment explanation
Indices: 11138320--11138376 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
11138310 CTATTCAGAG
**
11138320 CTTCCCGATATTGTTCTTTGTGAA
1 CTTCCCGATAAGGTTCTTTGTGAA
* * *
11138344 CTTCTCAACAAGGTTCTTTGTGAA
1 CTTCCCGATAAGGTTCTTTGTGAA
11138368 CTTCCCGAT
1 CTTCCCGAT
11138377 TATGGCTCCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.40
Consensus pattern (24 bp):
CTTCCCGATAAGGTTCTTTGTGAA
Found at i:11138445 original size:23 final size:24
Alignment explanation
Indices: 11138415--11138469 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
11138405 AGCTCAGATA
* *
11138415 AGCTTCCCGATA-GGCTCTTTATG
1 AGCTTCCCGAAATGGCTCTGTATG
*
11138438 AGCTTCCCGAAATGGCTCTGTGTG
1 AGCTTCCCGAAATGGCTCTGTATG
11138462 AGCTTCCC
1 AGCTTCCC
11138470 TTTACAAGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 11 0.39
24 17 0.61
ACGTcount: A:0.16, C:0.29, G:0.24, T:0.31
Consensus pattern (24 bp):
AGCTTCCCGAAATGGCTCTGTATG
Found at i:11150459 original size:18 final size:18
Alignment explanation
Indices: 11150432--11150480 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
11150422 CTTCAAAAAT
*
11150432 AATT-AAAAGAAATATAA
1 AATTAAAAAGAAAAATAA
11150449 AATTAAAAAGAAAAATAA
1 AATTAAAAAGAAAAATAA
* *
11150467 AAATAAAAATAAAA
1 AATTAAAAAGAAAA
11150481 TAATTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 4 0.14
18 24 0.86
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (18 bp):
AATTAAAAAGAAAAATAA
Found at i:11150483 original size:5 final size:6
Alignment explanation
Indices: 11150445--11150480 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
11150435 TAAAAGAAAT
* *
11150445 ATAAAA TTAAAA AGAAAA ATAAAA ATAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
11150481 TAATTAAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:11163470 original size:39 final size:38
Alignment explanation
Indices: 11163412--11163514 Score: 136
Period size: 39 Copynumber: 2.7 Consensus size: 38
11163402 TTTTGTTTTG
*
11163412 GCCCACTGCCTACTATGACCCAAGGCACTCTTGCGAAA
1 GCCCACTGCCTACTATGACCAAAGGCACTCTTGCGAAA
* *
11163450 TGCCCACTGCCTACTCTGACCAAAGGCACTCTTGTGAAA
1 -GCCCACTGCCTACTATGACCAAAGGCACTCTTGCGAAA
* *
11163489 GACCCACTGCCTGCTGTGA-CAAAGGC
1 G-CCCACTGCCTACTATGACCAAAGGC
11163515 GCTCCTACGA
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
38 8 0.14
39 50 0.86
ACGTcount: A:0.25, C:0.35, G:0.20, T:0.19
Consensus pattern (38 bp):
GCCCACTGCCTACTATGACCAAAGGCACTCTTGCGAAA
Found at i:11163527 original size:38 final size:39
Alignment explanation
Indices: 11163413--11163527 Score: 117
Period size: 39 Copynumber: 3.0 Consensus size: 39
11163403 TTTGTTTTGG
* * * *
11163413 CCCACTGCCTACTATGACCCAAGGCACTCTTGCGAAATG-
1 CCCACTGCCTACTCTGACCAAAGGCACTCCTACGAAA-GA
* **
11163452 CCCACTGCCTACTCTGACCAAAGGCACTCTTGTGAAAGA
1 CCCACTGCCTACTCTGACCAAAGGCACTCCTACGAAAGA
* * *
11163491 CCCACTGCCTGCTGTGA-CAAAGGCGCTCCTACGAAAG
1 CCCACTGCCTACTCTGACCAAAGGCACTCCTACGAAAG
11163528 GCCCCAGCCT
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
38 17 0.26
39 49 0.74
ACGTcount: A:0.26, C:0.35, G:0.20, T:0.19
Consensus pattern (39 bp):
CCCACTGCCTACTCTGACCAAAGGCACTCCTACGAAAGA
Found at i:11165486 original size:21 final size:20
Alignment explanation
Indices: 11165460--11165507 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
11165450 GACAATTAAA
* *
11165460 ATTAAAATTATATATATAATT
1 ATTAAAATTATATA-AAAATC
*
11165481 ATTAAAATTTTATAAAAATC
1 ATTAAAATTATATAAAAATC
11165501 ATTAAAA
1 ATTAAAA
11165508 AGCATAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTAAAATTATATAAAAATC
Found at i:11166025 original size:26 final size:26
Alignment explanation
Indices: 11165996--11166103 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
11165986 TGGTACAAAT
* *
11165996 TGATAATGGGCTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
11166022 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
11166048 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
11166074 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
11166100 TGAT
1 TGAT
11166104 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:11169242 original size:20 final size:20
Alignment explanation
Indices: 11169201--11169244 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11169191 TGTTAACAAA
*
11169201 TTTTAATAAATTTTTTAATT
1 TTTTAATAAATTTTGTAATT
*
11169221 TTTTAA-AAATTTATGTACTT
1 TTTTAATAAATTT-TGTAATT
11169241 TTTT
1 TTTT
11169245 CATTATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTAATAAATTTTGTAATT
Found at i:11169282 original size:19 final size:18
Alignment explanation
Indices: 11169260--11169345 Score: 52
Period size: 19 Copynumber: 4.4 Consensus size: 18
11169250 TAATAATTTC
11169260 TTTTATAATTTTCTATATA
1 TTTTATAATTTT-TATATA
11169279 TTTTAT--TTTTTGCACTTTAATA
1 TTTTATAATTTTT--A---TA-TA
*
11169301 TTTT-TAATTTTTAAAAATA
1 TTTTATAATTTTT--ATATA
11169320 TTTTTATAATTTTTATATA
1 -TTTTATAATTTTTATATA
11169339 TTTTATA
1 TTTTATA
11169346 TAAGTTTCTA
Statistics
Matches: 53, Mismatches: 4, Indels: 21
0.68 0.05 0.27
Matches are distributed among these distances:
16 1 0.02
17 4 0.08
18 8 0.15
19 12 0.23
20 5 0.09
21 11 0.21
22 6 0.11
23 6 0.11
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTTATAATTTTTATATA
Found at i:11176524 original size:31 final size:31
Alignment explanation
Indices: 11176483--11176627 Score: 240
Period size: 31 Copynumber: 4.7 Consensus size: 31
11176473 TCAGAAATAA
*
11176483 TGGGCTCACACGCCTATGTGGCCTAACCGTG
1 TGGGCCCACACGCCTATGTGGCCTAACCGTG
11176514 TGGGCCCACACGCCTATGTGGCCTAACCGTG
1 TGGGCCCACACGCCTATGTGGCCTAACCGTG
*
11176545 TGGGCTCACACGCCTATGTGGCCTAACCGTG
1 TGGGCCCACACGCCTATGTGGCCTAACCGTG
*
11176576 TGGGCCCACAAGCCTATGTGGCC-AACCGTG
1 TGGGCCCACACGCCTATGTGGCCTAACCGTG
*
11176606 TGGG-CCACACGCCTGTGTGGCC
1 TGGGCCCACACGCCTATGTGGCC
11176628 CACAGGGCCT
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
29 16 0.15
30 11 0.10
31 81 0.75
ACGTcount: A:0.16, C:0.34, G:0.30, T:0.20
Consensus pattern (31 bp):
TGGGCCCACACGCCTATGTGGCCTAACCGTG
Found at i:11180666 original size:27 final size:27
Alignment explanation
Indices: 11180636--11180817 Score: 265
Period size: 27 Copynumber: 6.7 Consensus size: 27
11180626 TACTGAAATG
* *
11180636 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
11180663 CCCTCGATTTATAGAATTATCGTTTCA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
11180690 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
11180717 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
11180744 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
**
11180771 CCCTCGATTTATAGAATTACTATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
11180798 CCCTCGATTTACAAAATTAC
1 CCCTCGATTTATAGAATTAC
11180818 TAAAATACCC
Statistics
Matches: 139, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 139 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Found at i:11180826 original size:27 final size:27
Alignment explanation
Indices: 11180622--11181043 Score: 201
Period size: 27 Copynumber: 15.7 Consensus size: 27
11180612 TTAGTTTACC
** * *
11180622 AAATTACTGAAATGCCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* ***
11180649 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * *** *
11180676 GAATTATC-GTTTCACCCTCGATTTACA
1 AAATTACCAAAAT-ACCCTCGATTTATA
****
11180703 AAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* **** *
11180730 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* ****
11180757 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * *** *
11180784 GAATTACTATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * * *
11180811 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTATA
*
11180838 AAATTACCAAAATACCCTCGA-TCAGTA
1 AAATTACCAAAATACCCTCGATTTA-TA
* * *
11180865 AAATTACCAAAATACCCTAG-TCTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* * * *
11180891 AAATTGCTAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
* *
11180918 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * * * *
11180945 AAATTACCAAAATACCATTGGTTTGTG
1 AAATTACCAAAATACCCTCGATTTATA
** * *
11180972 AAATTACCGTAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
*
11180999 AAATTACCAAAATACCC-CTGATTTACA
1 AAATTACCAAAATACCCTC-GATTTATA
*
11181026 AAGTTA-CAGAAATACCCT
1 AAATTACCA-AAATACCCT
11181044 TGACTTTCTA
Statistics
Matches: 322, Mismatches: 62, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
26 26 0.08
27 293 0.91
28 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:11180854 original size:54 final size:54
Alignment explanation
Indices: 11180796--11181126 Score: 233
Period size: 54 Copynumber: 6.1 Consensus size: 54
11180786 ATTACTATTT
* * **
11180796 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * * *
11180850 TACCCTCGA-TCAGTAAAATTACCAAAATACCC-TAGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTA-CAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* ** *
11180903 TACCC-CTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTACAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * *** ** * *
11180957 TACCATTGGTTTGTGAAATTACCGTAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * *
11181011 TACCC-CTGATTTACAAAGTTA-CAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTC-GATTTACAAAATTACCA-AAATACCCTT-AGTTTGT-AAAATTACCA-AAA
* * * ** * * *
11181067 TACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
*
11181121 CACCCT
1 TACCCT
11181127 TGTAGGATGA
Statistics
Matches: 214, Mismatches: 50, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
52 1 0.00
53 43 0.20
54 123 0.57
55 11 0.05
56 36 0.17
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:11180922 original size:80 final size:80
Alignment explanation
Indices: 11180810--11180960 Score: 223
Period size: 80 Copynumber: 1.9 Consensus size: 80
11180800 CTCGATTTAC
*
11180810 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
11180874 AAATACCCTAGTCTGT
65 AAATACCCTAGTCTGT
* ** * **
11180890 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
11180955 AATACC
66 AATACC
11180961 ATTGGTTTGT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
79 2 0.03
80 61 0.97
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (80 bp):
AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
AATACCCTAGTCTGT
Found at i:11181093 original size:27 final size:27
Alignment explanation
Indices: 11181054--11181105 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
11181044 TGACTTTCTA
11181054 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
11181081 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
11181106 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:11181223 original size:27 final size:27
Alignment explanation
Indices: 11181146--11181223 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
11181136 AAATGACTAA
* *
11181146 AATACCCCT-AATAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
11181173 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
11181200 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
11181224 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:11182070 original size:25 final size:25
Alignment explanation
Indices: 11182032--11182101 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
11182022 AGGAAGTGCT
* *
11182032 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
11182057 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
11182082 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
11182102 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:11182114 original size:24 final size:24
Alignment explanation
Indices: 11182031--11182126 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
11182021 GAGGAAGTGC
*
11182031 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
11182056 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
11182080 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
11182104 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
11182127 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:11182125 original size:50 final size:50
Alignment explanation
Indices: 11182032--11182126 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
11182022 AGGAAGTGCT
**
11182032 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
11182082 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
11182127 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:11193847 original size:26 final size:26
Alignment explanation
Indices: 11193818--11193871 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
11193808 AATTTGCCCC
11193818 TATCTTGTCTTAAAGTATTTAGTTAA
1 TATCTTGTCTTAAAGTATTTAGTTAA
11193844 TATCTTGTCTTAAAGTATTTAGTTAA
1 TATCTTGTCTTAAAGTATTTAGTTAA
11193870 TA
1 TA
11193872 CCCAATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.07, G:0.11, T:0.50
Consensus pattern (26 bp):
TATCTTGTCTTAAAGTATTTAGTTAA
Found at i:11200306 original size:67 final size:67
Alignment explanation
Indices: 11200222--11200363 Score: 250
Period size: 67 Copynumber: 2.1 Consensus size: 67
11200212 ACAACTATCC
11200222 AAGCAATACTATAGATAAGTACAATCAAAATGTTTT-AGTAACAAACAAGTAAATACAGAAGTCC
1 AAGCAATACTATAGATAAGTACAATCAAAAT-TTTTGAGTAACAAACAAGTAAATACAGAAGTCC
11200286 TTA
65 TTA
* *
11200289 AAGCAATACTATGGATAAGTACAATCAAAATTTTTGAGTTACAAACAAGTAAATACAGAAGTCCT
1 AAGCAATACTATAGATAAGTACAATCAAAATTTTTGAGTAACAAACAAGTAAATACAGAAGTCCT
11200354 TA
66 TA
11200356 AAGCAATA
1 AAGCAATA
11200364 TACAATTCAA
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 4 0.06
67 68 0.94
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (67 bp):
AAGCAATACTATAGATAAGTACAATCAAAATTTTTGAGTAACAAACAAGTAAATACAGAAGTCCT
TA
Found at i:11204083 original size:21 final size:19
Alignment explanation
Indices: 11204049--11204093 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 19
11204039 AGTACATGAA
11204049 TTTTTATAGAAAAAAATAT
1 TTTTTATAGAAAAAAATAT
*
11204068 TTTTTATAAGGAAAAAATTAT
1 TTTTTAT-A-GAAAAAAATAT
11204089 TTTTT
1 TTTTT
11204094 GTTATAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.30
20 1 0.04
21 15 0.65
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (19 bp):
TTTTTATAGAAAAAAATAT
Found at i:11205357 original size:40 final size:40
Alignment explanation
Indices: 11205302--11205386 Score: 170
Period size: 40 Copynumber: 2.1 Consensus size: 40
11205292 ATTTTCATTA
11205302 TTTTAAAATTCAATTTTAGGTACCTGAATCTCTTCTAGAG
1 TTTTAAAATTCAATTTTAGGTACCTGAATCTCTTCTAGAG
11205342 TTTTAAAATTCAATTTTAGGTACCTGAATCTCTTCTAGAG
1 TTTTAAAATTCAATTTTAGGTACCTGAATCTCTTCTAGAG
11205382 TTTTA
1 TTTTA
11205387 CTTATTAGCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (40 bp):
TTTTAAAATTCAATTTTAGGTACCTGAATCTCTTCTAGAG
Found at i:11208539 original size:17 final size:17
Alignment explanation
Indices: 11208517--11208549 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11208507 ATATTATGGG
11208517 TATAAATGTTTT-TAATA
1 TATAAAT-TTTTATAATA
11208534 TATAAATTTTTATAAT
1 TATAAATTTTTATAAT
11208550 TTTATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
TATAAATTTTTATAATA
Found at i:11208685 original size:44 final size:44
Alignment explanation
Indices: 11208619--11208709 Score: 119
Period size: 44 Copynumber: 2.1 Consensus size: 44
11208609 AATTCTATTT
* * *
11208619 TTAGTTTACCACTTAAACTCTGATTAGTATAGGTTATATTAATA
1 TTAGTTTACCACATAAAATCTGATTAGTACAGGTTATATTAATA
* * * *
11208663 TTAGTTTCCCACATAAAATCTGATTAGTGCCGGTTATTTTAATA
1 TTAGTTTACCACATAAAATCTGATTAGTACAGGTTATATTAATA
11208707 TTA
1 TTA
11208710 TTTGGCCTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (44 bp):
TTAGTTTACCACATAAAATCTGATTAGTACAGGTTATATTAATA
Found at i:11210112 original size:12 final size:12
Alignment explanation
Indices: 11210095--11210120 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11210085 TCAGACGATA
11210095 TTAAGGTATCTC
1 TTAAGGTATCTC
11210107 TTAAGGTATCTC
1 TTAAGGTATCTC
11210119 TT
1 TT
11210121 GAGGCTATCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (12 bp):
TTAAGGTATCTC
Done.