Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 38 of 284
Found at i:13329730 original size:47 final size:48
Alignment explanation
Indices: 13329669--13329797 Score: 172
Period size: 47 Copynumber: 2.7 Consensus size: 48
13329659 CTGGAGGCCT
* * *
13329669 AGCCTCTTTTAATAACTGAGGCAAAAGACCTTTTAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGAGGCATAAGCCCTTTTAATAACTAGGGCATA
*
13329718 AGCCC-TTTAATAACT-AGGACATAAGCCCTTTTGATAACTAGGGCATA
1 AGCCCTTTTAATAACTGAGG-CATAAGCCCTTTTAATAACTAGGGCATA
* *
13329765 AGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTAATAACTGAGGCATAAGCCCTTTT
13329798 GCACTTCCTC
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
46 3 0.04
47 39 0.55
48 23 0.32
49 6 0.08
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGAGGCATAAGCCCTTTTAATAACTAGGGCATA
Found at i:13329798 original size:24 final size:24
Alignment explanation
Indices: 13329655--13329797 Score: 173
Period size: 24 Copynumber: 6.0 Consensus size: 24
13329645 GCTTTATCGT
*
13329655 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
13329680 ATAACTGAGGCAAAAGACCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
13329704 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* * *
13329727 ATAACTAGGACATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
13329751 ATAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
13329775 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
13329798 GCACTTCCTC
Statistics
Matches: 104, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
23 21 0.20
24 73 0.70
25 10 0.10
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:13329872 original size:20 final size:20
Alignment explanation
Indices: 13329847--13329912 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
13329837 TTATGAACAC
13329847 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
13329867 ATCATGTGCATAGCATACAT
1 ATCATGTGCATATCATACAT
* *
13329887 GTCATGTGC-TATCATAGAT
1 ATCATGTGCATATCATACAT
*
13329906 ACCATGT
1 ATCATGT
13329913 TTACTAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 13 0.32
20 27 0.68
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:13331922 original size:57 final size:57
Alignment explanation
Indices: 13331834--13332819 Score: 1774
Period size: 57 Copynumber: 17.3 Consensus size: 57
13331824 AAGTGAACAT
* * *
13331834 AGGCACTCTGTGTGTGAGTTCCGTAACCGAGCACTGTGTGTGTGAGATCGGTTGTTG
1 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
*
13331891 AGGCACTGTGTGTGTGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
*
13331948 AGGCACTGTGTGTGTGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
13332005 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
13332062 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
13332119 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
13332176 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
13332233 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
13332290 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
13332347 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
13332404 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
13332461 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
13332518 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
13332575 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
* * * * *
13332632 AGGCACTGTGTGTGCGAGTTTCGTAACCGAGCACTGTGTGTACGAGATCGATTGTTG
1 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
* * *
13332689 AGGCACTGTGTGTGCGAGTTCCATAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
* * * ** *
13332746 AGGCATTGTGTGTGCGAGTTCTGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
1 AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
* **
13332803 GGGCACTAAGTGTGTGA
1 AGGCACTGTGTGTGTGA
13332820 AATGAGATCA
Statistics
Matches: 907, Mismatches: 22, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 907 1.00
ACGTcount: A:0.15, C:0.19, G:0.36, T:0.30
Consensus pattern (57 bp):
AGGCACTGTGTGTGTGAGTTCCGTAACCGCGCACTGTGTGTGCGAGATCGGTTGTTG
Found at i:13336647 original size:23 final size:23
Alignment explanation
Indices: 13336596--13336641 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
13336586 TCGATAGTTA
13336596 ATTAAACAAAAAGGACTAAATTG
1 ATTAAACAAAAAGGACTAAATTG
13336619 ATTAAACAAAAAGGACTAAATTG
1 ATTAAACAAAAAGGACTAAATTG
13336642 TGTAAAGTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.09, G:0.13, T:0.22
Consensus pattern (23 bp):
ATTAAACAAAAAGGACTAAATTG
Found at i:13337823 original size:28 final size:28
Alignment explanation
Indices: 13337783--13337861 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
13337773 GCAATCAAAT
* * *
13337783 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
13337811 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
13337839 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
13337862 CAAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:13340316 original size:16 final size:16
Alignment explanation
Indices: 13340295--13340327 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13340285 AACTTTTCAA
13340295 GATTTCGAGATTTTTG
1 GATTTCGAGATTTTTG
*
13340311 GATTTCGGGATTTTTG
1 GATTTCGAGATTTTTG
13340327 G
1 G
13340328 GGCATTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.30, T:0.48
Consensus pattern (16 bp):
GATTTCGAGATTTTTG
Found at i:13346534 original size:29 final size:29
Alignment explanation
Indices: 13346466--13346571 Score: 110
Period size: 29 Copynumber: 3.7 Consensus size: 29
13346456 TTCACATACC
* *
13346466 TGTATCTGGCCCATTAAGCCC-AATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
13346494 T-TCATA-GAGCCTATTAGGCCCAAATCACC
1 TGT-ATATG-GCCCATTAGGCCCAAATCACA
*
13346523 TGTATATGGCCTATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
13346552 TTTATATGGCCCGTTAGGCC
1 TGTATATGGCCCATTAGGCC
13346572 TAGTCACATG
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
27 2 0.03
28 14 0.22
29 47 0.72
30 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:13348096 original size:16 final size:16
Alignment explanation
Indices: 13348077--13348146 Score: 76
Period size: 16 Copynumber: 4.6 Consensus size: 16
13348067 CAAGATTTTT
13348077 GGATTTTTGGATTTCG
1 GGATTTTTGGATTTCG
**
13348093 GGATTTCGGGATTT--
1 GGATTTTTGGATTTCG
*
13348107 --TTTTTTGGATTTCG
1 GGATTTTTGGATTTCG
*
13348121 AGATTTTTGGATTTCG
1 GGATTTTTGGATTTCG
13348137 GGATTTTTGG
1 GGATTTTTGG
13348147 GGAGTTACAC
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
12 9 0.21
16 34 0.79
ACGTcount: A:0.13, C:0.06, G:0.30, T:0.51
Consensus pattern (16 bp):
GGATTTTTGGATTTCG
Found at i:13348114 original size:36 final size:36
Alignment explanation
Indices: 13348072--13348144 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
13348062 AAATTCAAGA
*
13348072 TTTTTGGATTTTTG-GATTTCGGGATTTCGGGATTTT
1 TTTTTGGA-TTTCGAGATTTCGGGATTTCGGGATTTT
**
13348108 TTTTTGGATTTCGAGATTTTTGGATTTCGGGATTTT
1 TTTTTGGATTTCGAGATTTCGGGATTTCGGGATTTT
13348144 T
1 T
13348145 GGGGAGTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 4 0.12
36 29 0.88
ACGTcount: A:0.12, C:0.05, G:0.26, T:0.56
Consensus pattern (36 bp):
TTTTTGGATTTCGAGATTTCGGGATTTCGGGATTTT
Found at i:13349551 original size:20 final size:20
Alignment explanation
Indices: 13349526--13349579 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
13349516 AACAAGGGTC
13349526 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
13349546 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
* *
13349566 ACATGCCCATGTGG
1 ACACGCCCGTGTGG
13349580 GCAGGCCGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.13, C:0.30, G:0.37, T:0.20
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGGG
Found at i:13351077 original size:43 final size:42
Alignment explanation
Indices: 13351015--13351126 Score: 172
Period size: 43 Copynumber: 2.6 Consensus size: 42
13351005 TACTGTACCA
13351015 ATGCCATATCCCAGATATGGTCTTACATGGAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACAT-GAAGTCTCGTATCG
* *
13351057 ATGCCAATAGCCCAGCTATGGTCTTACATGAAGTCTCGTATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAGTCTCGTATCG
*
13351100 ATGCCATATCCCAGATATGGTCCTACA
1 ATGCCATATCCCAGATATGGTCTTACA
13351127 CGTAATCTTA
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
42 27 0.43
43 36 0.57
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCGTATCG
Found at i:13359613 original size:40 final size:40
Alignment explanation
Indices: 13359519--13359703 Score: 175
Period size: 40 Copynumber: 4.6 Consensus size: 40
13359509 TATTCGAATG
* *
13359519 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCGA-GTGACT
* *
13359560 ATAAT-CGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 AT-ATCCGGGCTAAGATCCGAAGGCATTTGTGCGAG-TGACT
* * *
13359600 ATATCCAGGCTAAGA-CCTGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCC-GAAGGCATTTGTGCGAGTGACT
* *
13359640 ATATTCGGGCTAAG-TCCCGAAGGCATTTATGCTG-GTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGC-GAGTGACT
*
13359680 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
13359704 CTTGTGCAAG
Statistics
Matches: 118, Mismatches: 16, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
39 5 0.04
40 81 0.69
41 29 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTGACT
Found at i:13359683 original size:80 final size:81
Alignment explanation
Indices: 13359519--13359703 Score: 234
Period size: 80 Copynumber: 2.3 Consensus size: 81
13359509 TATTCGAATG
* * *
13359519 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAATCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAATCGGACTAAGATCCGAAGGC
*
13359584 ATTCGTGCGAGTTGCT
66 ATTCATGCGAGTTGCT
* * * *
13359600 ATATCCAGGCTAAGACCTGAAGGCATTTGTGCTA-GCGACTATATTCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAATCGGACTAAGAT-CCGAAGG
*
13359663 CATTTATGCTG-G-TGACT
65 CATTCATGC-GAGTTG-CT
13359680 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
13359704 CTTGTGCAAG
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
79 3 0.03
80 56 0.62
81 31 0.34
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAATCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCT
Found at i:13364867 original size:41 final size:40
Alignment explanation
Indices: 13364788--13364871 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
13364778 TAATATACAT
* *
13364788 ATATTAGTAATTATTATATATTTACTTATAATTTAAGTAA
1 ATATTAGTAATTATTATATATTTAATTATAATTAAAGTAA
*
13364828 ATATTATTATATTATTATATTATATTAATTA-AA-TAAAGTAA
1 ATATTAGTA-ATTATTATA-TAT-TTAATTATAATTAAAGTAA
13364869 ATA
1 ATA
13364872 AATTAAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
40 8 0.21
41 19 0.50
42 5 0.13
43 6 0.16
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (40 bp):
ATATTAGTAATTATTATATATTTAATTATAATTAAAGTAA
Found at i:13365090 original size:17 final size:17
Alignment explanation
Indices: 13365054--13365086 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
13365044 GGGGAGAAAC
13365054 AAAGAAAGGAAAAAGGG
1 AAAGAAAGGAAAAAGGG
13365071 AAAGAAA-G-AAAAGGG
1 AAAGAAAGGAAAAAGGG
13365086 A
1 A
13365087 GAAATTGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (17 bp):
AAAGAAAGGAAAAAGGG
Found at i:13369128 original size:43 final size:41
Alignment explanation
Indices: 13369081--13369185 Score: 106
Period size: 41 Copynumber: 2.5 Consensus size: 41
13369071 CAATGCCAAC
* * * *
13369081 GTCCCAGACGTTGTCTTACATGTAATCATATCTCGATGCC-ATT
1 GTCCCAGACGTGGTCTTACACG-AATCAAAT-ACGATGCCGA-T
*
13369124 GTCCCACACAG-GGTCTTACACGAATCAAATACGATGCCGAT
1 GTCCCAGAC-GTGGTCTTACACGAATCAAATACGATGCCGAT
*
13369165 GTCCCAGACATGGTCTTACAC
1 GTCCCAGACGTGGTCTTACAC
13369186 ATAATCACAT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
41 26 0.50
42 8 0.15
43 17 0.33
44 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (41 bp):
GTCCCAGACGTGGTCTTACACGAATCAAATACGATGCCGAT
Found at i:13369830 original size:15 final size:15
Alignment explanation
Indices: 13369807--13369836 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13369797 TCAAAAATTC
13369807 TAATACAAAACATAT
1 TAATACAAAACATAT
*
13369822 TAATCCAAAACATAT
1 TAATACAAAACATAT
13369837 CTTTCATAAT
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:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (15 bp):
TAATACAAAACATAT
Found at i:13376032 original size:20 final size:21
Alignment explanation
Indices: 13376007--13376054 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
13375997 AAATGAATAC
*
13376007 ATCATGTGCATAACATA-CAT
1 ATCATGTGCATAACATATCAA
*
13376027 ATCATGTGCATATCATATCAA
1 ATCATGTGCATAACATATCAA
13376048 ATCATGT
1 ATCATGT
13376055 ATATCAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (21 bp):
ATCATGTGCATAACATATCAA
Found at i:13383312 original size:25 final size:25
Alignment explanation
Indices: 13383284--13383332 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
13383274 ATAATTAAAC
* * *
13383284 CCTAGGGGTATAACGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
13383309 CCTAGGGGCAAAACAGTCATTTTT
1 CCTAGGGGCAAAACAGTCATTTTT
13383333 CATATTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:13387804 original size:27 final size:27
Alignment explanation
Indices: 13387745--13387805 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
13387735 CATACATCTC
13387745 ATAGGGGCATAACAGTCATTTTATCAT
1 ATAGGGGCATAACAGTCATTTTATCAT
* * *
13387772 ACAGGGGCATAATAGTCGTTTTATCA-
1 ATAGGGGCATAACAGTCATTTTATCAT
13387798 ATTAGGGG
1 A-TAGGGG
13387806 TCTAGGTACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (27 bp):
ATAGGGGCATAACAGTCATTTTATCAT
Found at i:13390158 original size:40 final size:40
Alignment explanation
Indices: 13390074--13390257 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
13390064 TTGAATGATG
* * * *
13390074 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
13390113 ATCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
13390154 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
13390194 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
13390234 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
13390258 GTATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 112 0.91
41 9 0.07
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:13390211 original size:80 final size:81
Alignment explanation
Indices: 13390074--13390254 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
13390064 TTGAATGATG
* *
13390074 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* * *
13390138 TGTGTGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
13390154 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
13390215 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
13390234 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
13390255 ATTGTATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:13394584 original size:16 final size:16
Alignment explanation
Indices: 13394563--13394594 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13394553 TACCAAAACA
13394563 TATGTTTCATAACCTC
1 TATGTTTCATAACCTC
*
13394579 TATGTTTCATTACCTC
1 TATGTTTCATAACCTC
13394595 AAATTACTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.25, G:0.06, T:0.47
Consensus pattern (16 bp):
TATGTTTCATAACCTC
Found at i:13395235 original size:43 final size:44
Alignment explanation
Indices: 13395123--13395235 Score: 115
Period size: 43 Copynumber: 2.6 Consensus size: 44
13395113 CAATGCCAAC
* * * *
13395123 GTCCCAGACGTGGTCTTATATGT-AATCAAATATCAATGCCACT
1 GTCCCAGACATGGTCTTACATCTAAATCAAATATCAATGACACT
* * * * *
13395166 GTCCCAGACAGGGCCTTACA-CGAAATCAAATAT-GATGACATT
1 GTCCCAGACATGGTCTTACATCTAAATCAAATATCAATGACACT
*
13395208 GTCCCAGGCATGGTCTTACATCTAAATC
1 GTCCCAGACATGGTCTTACATCTAAATC
13395236 TCAAATCTTA
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
42 23 0.42
43 32 0.58
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACATCTAAATCAAATATCAATGACACT
Found at i:13409664 original size:53 final size:50
Alignment explanation
Indices: 13409514--13409664 Score: 187
Period size: 49 Copynumber: 3.0 Consensus size: 50
13409504 GCCGAAGCTA
* *
13409514 TCTGGTACCCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTCACAG
* * * *
13409563 TCTGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACGTCACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTCACAG
* * *
13409613 TTTTCGAGTACGCATTGTAGCCTGCACTTAGTACTACACATGCGACCTCACA
1 -TCT-G-GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTCACA
13409665 ATAGATCATT
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
49 39 0.46
50 4 0.05
51 2 0.02
52 1 0.01
53 39 0.46
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTCACAG
Found at i:13411466 original size:43 final size:42
Alignment explanation
Indices: 13411406--13411610 Score: 209
Period size: 43 Copynumber: 4.8 Consensus size: 42
13411396 TGGAAATACA
13411406 TGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATAAG
1 TGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATAAG
* * * *
13411448 TGATTACGTGTAAGACCATGTCTGGGACATTGGCACCGTTATG
1 TGATT-CGTGTAAGACCATGTCTAGGACATTGGCATCGATAAG
13411491 TGATTTCGTGTAAGACCATGTCTAGGACATTGGCATCGATATA-
1 TGA-TTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA-AG
* * ** * * *
13411534 TGAGTCGTATAAGACCATAACGA-GTCTATTGGCATCGATATG
1 TGATTCGTGTAAGACCATGTCTAGGAC-ATTGGCATCGATAAG
* * * *
13411576 TGATAACATGTAAGACCATATCTAGGATA-TGGCAT
1 TGAT-TCGTGTAAGACCATGTCTAGGACATTGGCAT
13411611 TGTATGTGAT
Statistics
Matches: 133, Mismatches: 23, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
41 2 0.02
42 42 0.32
43 86 0.65
44 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (42 bp):
TGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATAAG
Found at i:13411600 original size:85 final size:86
Alignment explanation
Indices: 13411413--13411610 Score: 233
Period size: 85 Copynumber: 2.3 Consensus size: 86
13411403 ACATGATTCG
* * ** *
13411413 TGTAAGACCATGTCTAGGACATTGGCATCGATAAGTGATTACGTGTAAGACCATGTCTGGGACAT
1 TGTAAGACCATGTCTAGGACATTGGCATCGATAAGTGAGTACGTATAAGACCATAACTGAGACAT
* ** *
13411478 TGGCACCGTTATGTGATTTCG
66 TGGCACCGATATGTGATAACA
*
13411499 TGTAAGACCATGTCTAGGACATTGGCATCGATATA-TGAGT-CGTATAAGACCATAAC-GAGTCT
1 TGTAAGACCATGTCTAGGACATTGGCATCGATA-AGTGAGTACGTATAAGACCATAACTGAGAC-
*
13411561 ATTGGCATCGATATGTGATAACA
64 ATTGGCACCGATATGTGATAACA
* *
13411584 TGTAAGACCATATCTAGGATA-TGGCAT
1 TGTAAGACCATGTCTAGGACATTGGCAT
13411611 TGTATGTGAT
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
84 9 0.09
85 50 0.52
86 37 0.38
87 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (86 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGATAAGTGAGTACGTATAAGACCATAACTGAGACAT
TGGCACCGATATGTGATAACA
Found at i:13427126 original size:29 final size:29
Alignment explanation
Indices: 13427084--13427139 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
13427074 GCGAGTTATA
13427084 CTGATTTGGCTTCAGGCCATGAATATCGG
1 CTGATTTGGCTTCAGGCCATGAATATCGG
*
13427113 CTGATTTGGCTTCAGTCCATGAATATC
1 CTGATTTGGCTTCAGGCCATGAATATC
13427140 AGTACTTCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (29 bp):
CTGATTTGGCTTCAGGCCATGAATATCGG
Found at i:13428539 original size:24 final size:24
Alignment explanation
Indices: 13428512--13428609 Score: 160
Period size: 24 Copynumber: 4.0 Consensus size: 24
13428502 AAGGCTGTCA
13428512 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
13428536 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
13428560 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
13428584 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
13428609 G
1 G
13428610 AGCAGGAGTT
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
24 66 0.96
25 3 0.04
ACGTcount: A:0.36, C:0.05, G:0.39, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:13433693 original size:25 final size:26
Alignment explanation
Indices: 13433659--13433713 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 26
13433649 TAAGAGTAAA
13433659 AAGAGTTCTTCTAGGCTTGAAATAC-
1 AAGAGTTCTTCTAGGCTTGAAATACG
13433684 AAGAGTTCTTCTAGGCTTGAAATACG
1 AAGAGTTCTTCTAGGCTTGAAATACG
13433710 AAGA
1 AAGA
13433714 AATTTGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (26 bp):
AAGAGTTCTTCTAGGCTTGAAATACG
Found at i:13434293 original size:46 final size:46
Alignment explanation
Indices: 13434133--13434402 Score: 190
Period size: 46 Copynumber: 5.7 Consensus size: 46
13434123 TCACTTGTGT
* * *
13434133 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-AAATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAA-GATGA
* * *** * * *
13434179 GAGCTAGTGTAACACCATGTCTGGGACATGGCAAATGCATTAAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGA
* * *
13434227 GAGCTAGTGTAAAACATGTCTGGGACATGCATCGGCCTCGAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-A
*
13434274 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CT-ACG-TGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGA
* * * * * * *
13434316 TGTGTCAATGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATACGA
1 -GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCT-CA-AGATGA
* *
13434367 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCG
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
13434403 ACACCTTACC
Statistics
Matches: 179, Mismatches: 32, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 11 0.06
45 16 0.09
46 62 0.35
47 30 0.17
48 21 0.12
49 3 0.02
50 31 0.17
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGA
Found at i:13436855 original size:39 final size:39
Alignment explanation
Indices: 13436811--13437125 Score: 522
Period size: 39 Copynumber: 8.1 Consensus size: 39
13436801 ATTATATTAT
* *
13436811 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
**
13436850 CAGCACGAAGCCTGCGGGACTTGGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
13436889 CAGCACGAAGCCTGCGGGACTTGAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
13436928 CAGCATGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
13436967 CAGCACGAAGCCTGCGGGACTTTGGCCCAGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
13437006 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
13437045 CATCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
13437084 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
13437123 CAG
1 CAG
13437126 TGTCTTGCAT
Statistics
Matches: 256, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 256 1.00
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:13439464 original size:20 final size:21
Alignment explanation
Indices: 13439426--13439464 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13439416 TCGAAAGAGC
13439426 CACACGGGCGTGTTACCCTTT
1 CACACGGGCGTGTTACCCTTT
*
13439447 CACACGGGCTTG-TACCCT
1 CACACGGGCGTGTTACCCT
13439465 GTTTCAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.36, G:0.23, T:0.26
Consensus pattern (21 bp):
CACACGGGCGTGTTACCCTTT
Found at i:13442073 original size:27 final size:27
Alignment explanation
Indices: 13442042--13442219 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
13442032 TAAATTGTAC
13442042 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
13442069 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
13442095 ATGCACTAAGTGTGCGAATTAACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
13442123 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
13442151 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
13442178 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
13442205 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13442220 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:13442156 original size:82 final size:81
Alignment explanation
Indices: 13442043--13442193 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
13442033 AAATTGTACA
* *
13442043 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
13442107 TGCGAATTAACCATGCG
65 TGCGAATTAACCATGCG
** *
13442124 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
13442189 TGCGA
65 TGCGA
13442194 GTTGATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 47 0.75
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTAACCATGCG
Found at i:13449566 original size:46 final size:47
Alignment explanation
Indices: 13449419--13449685 Score: 248
Period size: 46 Copynumber: 5.7 Consensus size: 47
13449409 TCACTTGTGT
* * * *
13449419 GAGCTAGTGTAAGACATGTTTGGGACAT-GCATCGGCCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGA-GATGA
* * * * *
13449465 GAGCTAGTGTAACACCATGTCTGGGACATGGCATCAACATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCAGCCTCGAGATGA
*
13449513 GAGCTAGTGTAAGACATGTCTAGGACAT-GCATCAGCCTCGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGAGATG-A
* * *
13449560 -AGCTAGTGTAAGACATGTCTGGGACA-AGCATC-GGCTACGAGATGT
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCCT-CGAGATGA
* * *
13449605 G-TC-AGTGTAAGACCATGTCTGGGACATGGCATCAGCAT-GAATATGCGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCAGCCTCG-AGAT--GA
13449653 GAGCTAGTGTAAGA-ATGTCTGGGACATGGCATC
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATC
13449686 GGCACCTTAC
Statistics
Matches: 181, Mismatches: 25, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
44 9 0.05
45 18 0.10
46 71 0.39
47 29 0.16
48 43 0.24
49 2 0.01
50 9 0.05
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGAGATGA
Found at i:13449658 original size:94 final size:90
Alignment explanation
Indices: 13449518--13449688 Score: 229
Period size: 94 Copynumber: 1.9 Consensus size: 90
13449508 GACGAGAGCT
* *
13449518 AGTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGATGTAAGCTAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTAGGACATGCATCAGCATCGAGATGGAAGCTAGTGTAAGA-ATGTCTGGG
13449583 ACA-AGCATCGGCTACGAGATGTGTC
65 ACATAGCATCGGCTACGAGATGTGTC
* *
13449608 AGTGTAAGACCATGTCTGGGACATGGCATCAGCAT-GAATATGCGAGAGCTAGTGTAAGAATGTC
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCAGCATCG-AGATG-GA-AGCTAGTGTAAGAATGTC
*
13449672 TGGGACATGGCATCGGC
61 TGGGACATAGCATCGGC
13449689 ACCTTACCCC
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
90 9 0.13
91 14 0.20
92 13 0.19
93 13 0.19
94 21 0.30
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (90 bp):
AGTGTAAGACATGTCTAGGACATGCATCAGCATCGAGATGGAAGCTAGTGTAAGAATGTCTGGGA
CATAGCATCGGCTACGAGATGTGTC
Found at i:13449685 original size:140 final size:140
Alignment explanation
Indices: 13449420--13449685 Score: 362
Period size: 140 Copynumber: 1.9 Consensus size: 140
13449410 CACTTGTGTG
* * *
13449420 AGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGAGCTAGTGTAACACCATGT
1 AGCTAGTGTAAGACATGTCTGGGACAAGCATCGGCCACATGATGAGAGCTAGTGTAACACCATGT
13449485 CTGGGACATGGCATCAACATTGAGACGAGAGCTAGTGTAAGACATGTCTAGGACATGCATCAGCC
66 CTGGGACATGGCATCAACATTGAGACGAGAGCTAGTGTAAGACATGTCTAGGACATGCATCAGCC
13449550 TCGAGATGTA
131 TCGAGATGTA
* * * *
13449560 AGCTAGTGTAAGACATGTCTGGGACAAGCATCGGCTACGA-GATGTG-TC-AGTGTAAGACCATG
1 AGCTAGTGTAAGACATGTCTGGGACAAGCATCGGCCAC-ATGATGAGAGCTAGTGTAACACCATG
* * *
13449622 TCTGGGACATGGCATCAGCA-TGAATATGCGAGAGCTAGTGTAAGA-ATGTCTGGGACATGGCAT
65 TCTGGGACATGGCATCAACATTG-AGA--CGAGAGCTAGTGTAAGACATGTCTAGGACAT-GCAT
13449685 C
126 C
13449686 GGCACCTTAC
Statistics
Matches: 111, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
137 2 0.02
138 34 0.31
139 13 0.12
140 61 0.55
141 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (140 bp):
AGCTAGTGTAAGACATGTCTGGGACAAGCATCGGCCACATGATGAGAGCTAGTGTAACACCATGT
CTGGGACATGGCATCAACATTGAGACGAGAGCTAGTGTAAGACATGTCTAGGACATGCATCAGCC
TCGAGATGTA
Found at i:13458080 original size:66 final size:66
Alignment explanation
Indices: 13457996--13458125 Score: 206
Period size: 66 Copynumber: 2.0 Consensus size: 66
13457986 ACTTACTCAT
* * * *
13457996 CAGTCTTTTCCTCGAATCTCTAGCTTCACAATCAACTTTTCTTTTCTCTTTATTGAACTCTTCGG
1 CAGTCTTTCCCTCAAATCTCTAGCTTCACAATCAACTTTTCTCTTCTCTTTATTCAACTCTTCGG
13458061 C
66 C
**
13458062 CAGTCTTTCCCTCAAATCTCTAGCTTCACAATCAGGTTTTCTCTTCTCTTTATTCAACTCTTCG
1 CAGTCTTTCCCTCAAATCTCTAGCTTCACAATCAACTTTTCTCTTCTCTTTATTCAACTCTTCG
13458126 ACCTTACAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.18, C:0.30, G:0.08, T:0.43
Consensus pattern (66 bp):
CAGTCTTTCCCTCAAATCTCTAGCTTCACAATCAACTTTTCTCTTCTCTTTATTCAACTCTTCGG
C
Found at i:13462939 original size:36 final size:36
Alignment explanation
Indices: 13462892--13462966 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
13462882 ATACAGTAAA
13462892 CTCTTTACCAGACTCTGGCTGAATCAAGACAAGAGC
1 CTCTTTACCAGACTCTGGCTGAATCAAGACAAGAGC
*
13462928 CTCTTTCCCAGACTCTGGCTGAATCAAGACAAGAGC
1 CTCTTTACCAGACTCTGGCTGAATCAAGACAAGAGC
13462964 CTC
1 CTC
13462967 AGTCAGAACT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.23
Consensus pattern (36 bp):
CTCTTTACCAGACTCTGGCTGAATCAAGACAAGAGC
Found at i:13466665 original size:34 final size:34
Alignment explanation
Indices: 13466581--13466665 Score: 98
Period size: 34 Copynumber: 2.5 Consensus size: 34
13466571 TTAGGGCCTT
* *
13466581 AGCCCATTTCAATAACAGCAGCAGCCTGGGCTTG
1 AGCCCATTTCAATAACAACAACAGCCTGGGCTTG
* * * * *
13466615 AGCCCATTTTAGTAACAATAACAGTCTGGGGTTG
1 AGCCCATTTCAATAACAACAACAGCCTGGGCTTG
*
13466649 AGCTCATTTCAATAACA
1 AGCCCATTTCAATAACA
13466666 GTATCAGTGC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (34 bp):
AGCCCATTTCAATAACAACAACAGCCTGGGCTTG
Found at i:13477595 original size:113 final size:113
Alignment explanation
Indices: 13477397--13477622 Score: 443
Period size: 113 Copynumber: 2.0 Consensus size: 113
13477387 CTGTGTACTA
*
13477397 GTCGTTTTAAAAATCATATCTTAAGTTTCGTAACTCGAAAATCAGTTTCTTGATTTTTCCCAGAA
1 GTCGTTTTAAAAATCATATCTTAAGTTTCGTAACTCGAAAATCAGTTTCGTGATTTTTCCCAGAA
13477462 ACTAGACTCATGTGCCCATCTATGTATTTTTTTCTAGAATTTTTGGTC
66 ACTAGACTCATGTGCCCATCTATGTATTTTTTTCTAGAATTTTTGGTC
13477510 GTCGTTTTAAAAATCATATCTTAAGTTTCGTAACTCGAAAATCAGTTTCGTGATTTTTCCCAGAA
1 GTCGTTTTAAAAATCATATCTTAAGTTTCGTAACTCGAAAATCAGTTTCGTGATTTTTCCCAGAA
13477575 ACTAGACTCATGTGCCCATCTATGTATTTTTTTCTAGAATTTTTGGTC
66 ACTAGACTCATGTGCCCATCTATGTATTTTTTTCTAGAATTTTTGGTC
13477623 AGGCCAATTA
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 112 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.42
Consensus pattern (113 bp):
GTCGTTTTAAAAATCATATCTTAAGTTTCGTAACTCGAAAATCAGTTTCGTGATTTTTCCCAGAA
ACTAGACTCATGTGCCCATCTATGTATTTTTTTCTAGAATTTTTGGTC
Found at i:13477995 original size:119 final size:119
Alignment explanation
Indices: 13477784--13478020 Score: 447
Period size: 119 Copynumber: 2.0 Consensus size: 119
13477774 CTGTACATAT
13477784 ATGGTACGACCCATAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATC
1 ATGGTACGACCCATAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATC
* *
13477849 CAGAAACCGTTCTGGTCCTGTCCCACAAAAATCTGATTATCTCTTAATATACTA
66 CAGAAACCGTTCTGGCCCTATCCCACAAAAATCTGATTATCTCTTAATATACTA
*
13477903 ATGGTACGACCCATAATTATCTCTGGTTAATTTATAATGAATTTCCAAATTCGGAGCAGGGAATC
1 ATGGTACGACCCATAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATC
13477968 CAGAAACCGTTCTGGCCCTATCCCACAAAAATCTGATTATCTCTTAATATACT
66 CAGAAACCGTTCTGGCCCTATCCCACAAAAATCTGATTATCTCTTAATATACT
13478021 CCCCATATGA
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
119 115 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (119 bp):
ATGGTACGACCCATAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATC
CAGAAACCGTTCTGGCCCTATCCCACAAAAATCTGATTATCTCTTAATATACTA
Found at i:13478901 original size:27 final size:27
Alignment explanation
Indices: 13478871--13479048 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
13478861 ATATTGAGTC
* * * *
13478871 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
13478898 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
13478925 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
13478953 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
13478980 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
13479007 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
13479034 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13479049 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:13479010 original size:82 final size:81
Alignment explanation
Indices: 13478892--13479047 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
13478882 TGCTATATAA
* *
13478892 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
13478957 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
13478974 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
13479038 CACTTAGTGC
65 CACTTAGTGC
13479048 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:13480855 original size:13 final size:13
Alignment explanation
Indices: 13480837--13480876 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
13480827 TAAGCAATCG
**
13480837 CACACGAGTGTGT
1 CACACGAGCATGT
13480850 CACACGAGCATGT
1 CACACGAGCATGT
*
13480863 CACACGGGCATGT
1 CACACGAGCATGT
13480876 C
1 C
13480877 CCTGCCGAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.25, C:0.30, G:0.28, T:0.17
Consensus pattern (13 bp):
CACACGAGCATGT
Found at i:13489285 original size:15 final size:15
Alignment explanation
Indices: 13489238--13489285 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 15
13489228 ATTAAAACCC
13489238 AATTTATT-AATA-A
1 AATTTATTAAATATA
**
13489251 AACATATTAAA-ATA
1 AATTTATTAAATATA
13489265 AA-TTATTAAATATA
1 AATTTATTAAATATA
13489279 AATTTAT
1 AATTTAT
13489286 ATTTTATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 14 0.50
14 10 0.36
15 4 0.14
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
AATTTATTAAATATA
Found at i:13490139 original size:2 final size:2
Alignment explanation
Indices: 13490134--13490160 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13490124 ATATTTGATA
13490134 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
13490161 CTGTAGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:13490232 original size:44 final size:44
Alignment explanation
Indices: 13490169--13490257 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
13490159 GTCTGTAGAA
*
13490169 TAACATGCAATAGGATTACCCGCAAAATAGTTCATCGGGTATCT
1 TAACATGCAATAGGATTACCCACAAAATAGTTCATCGGGTATCT
*
13490213 TAACATG-AAGTAGGATTACCCACAAAATAGTTCTTCGGGTATCT
1 TAACATGCAA-TAGGATTACCCACAAAATAGTTCATCGGGTATCT
13490257 T
1 T
13490258 TTCGTAAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 2 0.05
44 40 0.95
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (44 bp):
TAACATGCAATAGGATTACCCACAAAATAGTTCATCGGGTATCT
Found at i:13494976 original size:30 final size:31
Alignment explanation
Indices: 13494929--13494998 Score: 133
Period size: 30 Copynumber: 2.3 Consensus size: 31
13494919 TTATCTTGTA
13494929 CTCAACATTTAAAATTGTACCCAAATAAGTT
1 CTCAACATTTAAAATTGTACCCAAATAAGTT
13494960 CTCAACATTT-AAATTGTACCCAAATAAGTT
1 CTCAACATTTAAAATTGTACCCAAATAAGTT
13494990 CTCAACATT
1 CTCAACATT
13494999 AAGTAAGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
30 29 0.74
31 10 0.26
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.33
Consensus pattern (31 bp):
CTCAACATTTAAAATTGTACCCAAATAAGTT
Found at i:13495276 original size:25 final size:26
Alignment explanation
Indices: 13495224--13495278 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
13495214 GTTAAATTCA
13495224 AGTTTATTATAATGTACTTTTTTTTT
1 AGTTTATTATAATGTACTTTTTTTTT
13495250 AGTTTATTATAATGTAC-TTTTTTTT
1 AGTTTATTATAATGTACTTTTTTTTT
13495275 AGTT
1 AGTT
13495279 ACACTACTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 12 0.41
26 17 0.59
ACGTcount: A:0.24, C:0.04, G:0.09, T:0.64
Consensus pattern (26 bp):
AGTTTATTATAATGTACTTTTTTTTT
Found at i:13496669 original size:3 final size:3
Alignment explanation
Indices: 13496661--13496698 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
13496651 TCTAACACCA
13496661 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13496699 AATCTACGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13497671 original size:28 final size:28
Alignment explanation
Indices: 13497640--13497702 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
13497630 TCCCATACTA
*
13497640 ATGGGGTATAGGAAAAGTCTCATAATTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
13497668 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
13497696 ATGGGGT
1 ATGGGGT
13497703 TGATAATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.33
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:13498362 original size:147 final size:147
Alignment explanation
Indices: 13498095--13498386 Score: 566
Period size: 147 Copynumber: 2.0 Consensus size: 147
13498085 TCTGGAGGTC
13498095 ATGAGTGAAGAAGAATTTTGGTGCAATGTGTTTTGTTCTGTCACCTTTGATGTATCCACTATCGA
1 ATGAGTGAAGAAGAATTTTGGTGCAATGTGTTTTGTTCTGTCACCTTTGATGTATCCACTATCGA
*
13498160 GCTGATCAATGCATGCTGTGTTGTCTTCAAACAAGACAGTTGTAGCTTCCTTTCCAGATGATAAA
66 GCTGATCAATGCATGCTGTGTTGTCTTCAAACAACACAGTTGTAGCTTCCTTTCCAGATGATAAA
*
13498225 CTACAATTATTCCTTTG
131 CCACAATTATTCCTTTG
13498242 ATGAGTGAAGAAGAATTTTGGTGCAATGTGTTTTGTTCTGTCACCTTTGATGTATCCACTATCGA
1 ATGAGTGAAGAAGAATTTTGGTGCAATGTGTTTTGTTCTGTCACCTTTGATGTATCCACTATCGA
13498307 GCTGATCAATGCATGCTGTGTTGTCTTCAAACAACACAGTTGTAGCTTCCTTTCCAGATGATAAA
66 GCTGATCAATGCATGCTGTGTTGTCTTCAAACAACACAGTTGTAGCTTCCTTTCCAGATGATAAA
13498372 CCACAATTATTCCTT
131 CCACAATTATTCCTT
13498387 ATATGCTGGA
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 143 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (147 bp):
ATGAGTGAAGAAGAATTTTGGTGCAATGTGTTTTGTTCTGTCACCTTTGATGTATCCACTATCGA
GCTGATCAATGCATGCTGTGTTGTCTTCAAACAACACAGTTGTAGCTTCCTTTCCAGATGATAAA
CCACAATTATTCCTTTG
Found at i:13499170 original size:33 final size:33
Alignment explanation
Indices: 13499128--13499198 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
13499118 AGATCCAAAC
13499128 TTCTTAATGAAAATGCATGGGCAAATTGGATCA
1 TTCTTAATGAAAATGCATGGGCAAATTGGATCA
13499161 TTCTTAATGAAAATGCATGGGCAAATTGGATCA
1 TTCTTAATGAAAATGCATGGGCAAATTGGATCA
13499194 TTCTT
1 TTCTT
13499199 GTATCATTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.34
Consensus pattern (33 bp):
TTCTTAATGAAAATGCATGGGCAAATTGGATCA
Found at i:13509352 original size:28 final size:28
Alignment explanation
Indices: 13509320--13509389 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
13509310 AATGAGATTG
*
13509320 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
13509348 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
13509376 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
13509390 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:13512797 original size:28 final size:28
Alignment explanation
Indices: 13512766--13512828 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
13512756 TCCCATATTA
*
13512766 ATGGGGTATAGGAAAAGTCTCATAATTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
13512794 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
13512822 ATGGGGT
1 ATGGGGT
13512829 TGATAATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.33
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:13514013 original size:20 final size:20
Alignment explanation
Indices: 13513988--13514053 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
13513978 TAAAATTTAA
*
13513988 ATTTTGAAATTTTTATAAA-T
1 ATTTTGAAA-TTTTAAAAATT
*
13514008 ATTTTG-AACTTTAAAAATT
1 ATTTTGAAATTTTAAAAATT
*
13514027 ATTTTAAAATTTTAAAAATT
1 ATTTTGAAATTTTAAAAATT
13514047 ATTTTGA
1 ATTTTGA
13514054 TTTTTTTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
18 7 0.18
19 8 0.21
20 24 0.62
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (20 bp):
ATTTTGAAATTTTAAAAATT
Found at i:13514059 original size:20 final size:20
Alignment explanation
Indices: 13513974--13514058 Score: 77
Period size: 20 Copynumber: 4.2 Consensus size: 20
13513964 TTTTTCTAAT
*
13513974 TTTTTAAAATTTAAATTTTGAAA
1 TTTTTAAAAATT--ATTTTG-AA
*
13513997 TTTTTATAAA-TATTTTGAA
1 TTTTTAAAAATTATTTTGAA
* *
13514016 -CTTTAAAAATTATTTTAAA
1 TTTTTAAAAATTATTTTGAA
*
13514035 ATTTTAAAAATTATTTTG-A
1 TTTTTAAAAATTATTTTGAA
13514054 TTTTT
1 TTTTT
13514059 TTTAATTTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.13
19 15 0.29
20 21 0.40
22 1 0.02
23 8 0.15
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAA
Found at i:13515961 original size:49 final size:50
Alignment explanation
Indices: 13515881--13516056 Score: 228
Period size: 49 Copynumber: 3.5 Consensus size: 50
13515871 ATCTATTGTG
* *
13515881 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
13515931 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * **
13515981 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
13516031 AGGTCACGTGTGTAGTACTAAGTGCA
1 AGGTCACGTGTGTAGTACTAAGTGCA
13516057 TGTAACGTCC
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 41 0.38
50 28 0.26
51 38 0.36
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:13533611 original size:49 final size:47
Alignment explanation
Indices: 13533504--13533629 Score: 135
Period size: 49 Copynumber: 2.6 Consensus size: 47
13533494 TAAGATGCCA
* * * *
13533504 ATGCCATGTCTCAGACATGGTCTTACACTGGCTAGTATATTAAAGTCG
1 ATGCCATGTCCCAGACA-GGTCTTACACTGACTAGTATATCAAAGCCG
*** * *
13533552 ATGTTGTGTCCCAGACAGGTCTTACACTGACTTTCGTATATCAAGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGAC--TAGTATATCAAAGCCG
*
13533601 ATGCCATGTCCCAGATAGGTCTTACACTG
1 ATGCCATGTCCCAGACAGGTCTTACACTG
13533630 GCTCTCATCT
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
47 13 0.21
48 13 0.21
49 37 0.59
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (47 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTAGTATATCAAAGCCG
Found at i:13546605 original size:47 final size:47
Alignment explanation
Indices: 13546498--13547114 Score: 1144
Period size: 47 Copynumber: 13.1 Consensus size: 47
13546488 GAAATGGTAG
13546498 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
13546547 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13546594 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13546641 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13546688 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13546735 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13546782 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13546829 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13546876 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13546923 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13546970 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13547017 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
13547064 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13547111 TAAG
1 TAAG
13547115 TCCCGAAGGG
Statistics
Matches: 558, Mismatches: 10, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
47 522 0.94
49 36 0.06
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:13549882 original size:32 final size:32
Alignment explanation
Indices: 13549838--13549898 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
13549828 TAAGTTATCT
**
13549838 GTTCTACCCGATTCAACCTGAAGAACATCTCC
1 GTTCTACCCGATTCAACCCAAAGAACATCTCC
*
13549870 GTTCTACTCGATTCAACCCAAAGAACATC
1 GTTCTACCCGATTCAACCCAAAGAACATC
13549899 CTCGTTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.31, C:0.33, G:0.11, T:0.25
Consensus pattern (32 bp):
GTTCTACCCGATTCAACCCAAAGAACATCTCC
Found at i:13551922 original size:21 final size:20
Alignment explanation
Indices: 13551894--13551933 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
13551884 CACTTAAAAC
13551894 AGGGAACACGCCCGTGTGGA
1 AGGGAACACGCCCGTGTGGA
* *
13551914 AGGGCAACATGCCTGTGTGG
1 AGGG-AACACGCCCGTGTGG
13551934 CCCTATTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.23, C:0.23, G:0.40, T:0.15
Consensus pattern (20 bp):
AGGGAACACGCCCGTGTGGA
Found at i:13568570 original size:47 final size:47
Alignment explanation
Indices: 13568519--13569446 Score: 1759
Period size: 47 Copynumber: 19.7 Consensus size: 47
13568509 TTAGGATTCT
* * *
13568519 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGTCG
13568566 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
13568613 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
13568660 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
13568707 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
13568754 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
13568801 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
13568848 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
13568895 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
13568942 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
13568989 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
13569036 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
13569083 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
13569130 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
13569177 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
13569224 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
13569271 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
13569318 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
* * *
13569365 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
* * *
13569412 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
13569447 TCCCGAAGGG
Statistics
Matches: 871, Mismatches: 9, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
46 1 0.00
47 870 1.00
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
Found at i:13569634 original size:37 final size:37
Alignment explanation
Indices: 13569571--13569642 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
13569561 TCTAAAGACT
* * *
13569571 CGATGACTACGTGTGGGGATTTTGTCCGGGTAAGATC
1 CGATAACTACGTGTGGAGATTATGTCCGGGTAAGATC
*
13569608 CGATAACTTCGTGTGGAGATTATGTCCGGGTAAGA
1 CGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
13569643 CTTCGTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.22, C:0.15, G:0.33, T:0.29
Consensus pattern (37 bp):
CGATAACTACGTGTGGAGATTATGTCCGGGTAAGATC
Found at i:13570629 original size:16 final size:16
Alignment explanation
Indices: 13570610--13570640 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13570600 CTTCATCACT
13570610 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
13570626 TACTTACTTACTTAA
1 TACTCACTTACTTAA
13570641 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:13570646 original size:20 final size:20
Alignment explanation
Indices: 13570607--13570646 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13570597 AAACTTCATC
* *
13570607 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
13570627 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
13570647 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:13570757 original size:23 final size:24
Alignment explanation
Indices: 13570716--13570763 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
13570706 ACCTTTGCTC
*
13570716 TTCTAGCATGAACTTGTCTTACCT
1 TTCTAGCATGAACTCGTCTTACCT
*
13570740 TTCTAGTAT-AACTCGTCTTACCT
1 TTCTAGCATGAACTCGTCTTACCT
13570763 T
1 T
13570764 ACCTTACCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.21, C:0.25, G:0.10, T:0.44
Consensus pattern (24 bp):
TTCTAGCATGAACTCGTCTTACCT
Found at i:13571021 original size:55 final size:53
Alignment explanation
Indices: 13570879--13571086 Score: 222
Period size: 55 Copynumber: 3.8 Consensus size: 53
13570869 ATCCTTTTGA
* * * *
13570879 AACTTACCATTGCTATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* *
13570932 AACTCATCAATGCCATGCCTTGACATGGTCTTACATGGGA-CCTTTGCCTTATCG
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G
* ***
13570986 TAACTTATCAATGCCATGTCTTAACATGGTCTTACATGATTTCCTTGCCTTA-G
1 -AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
13571039 AAACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -AA-CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
13571087 AAACCCTAAT
Statistics
Matches: 130, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
52 2 0.02
53 46 0.35
54 8 0.06
55 72 0.55
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (53 bp):
AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:13571023 original size:108 final size:110
Alignment explanation
Indices: 13570879--13571079 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
13570869 ATCCTTTTGA
* * * * *
13570879 AACTTACCATTGCTATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCATCAA
1 AACTTACCAATGCCATGTCTTAACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
13570942 -TGCCATGCCTTGACATGGTCTTACATGGGACCTTTGCCTTATCGT
65 TTGCCATGCCTTGACATGGTCTTACATGGGACCTTTGCCTTATCGT
* * *
13570987 AACTTATCAATGCCATGTCTTAACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTAACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
13571052 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGACATGGTCTTACATGG
13571080 TATCCTTAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.58
109 6 0.07
110 27 0.33
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTAACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGACATGGTCTTACATGGGACCTTTGCCTTATCGT
Found at i:13579707 original size:36 final size:36
Alignment explanation
Indices: 13579660--13579731 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
13579650 TTAGTCTGCT
13579660 TAAAATTTCATATTAAATAACTAAGTAAAAGACATC
1 TAAAATTTCATATTAAATAACTAAGTAAAAGACATC
13579696 TAAAATTTCATATTAAATAACTAAGTAAAAGACATC
1 TAAAATTTCATATTAAATAACTAAGTAAAAGACATC
13579732 ATTTGGACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.31
Consensus pattern (36 bp):
TAAAATTTCATATTAAATAACTAAGTAAAAGACATC
Found at i:13589384 original size:27 final size:27
Alignment explanation
Indices: 13589353--13589530 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
13589343 TAAATTGTAC
*
13589353 AGCACTAAGGGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
13589380 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
13589406 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
13589434 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
13589462 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
13589489 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
13589516 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13589531 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:13589467 original size:82 final size:81
Alignment explanation
Indices: 13589354--13589509 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
13589344 AAATTGTACA
* *
13589354 GCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
13589418 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
13589435 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
13589500 TGCGAGTTGA
65 TGCGAATTGA
13589510 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:13589521 original size:82 final size:81
Alignment explanation
Indices: 13589350--13589530 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
13589340 GATTAAATTG
* * *
13589350 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
13589415 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
13589431 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
13589495 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
13589513 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
13589531 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:13594465 original size:39 final size:40
Alignment explanation
Indices: 13594308--13594532 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
13594298 GCTACTCGTT
* *
13594308 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
* *
13594348 CAAATGCCTTCGGGACGTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
13594388 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
13594428 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
13594467 CAAATGCCTT-TGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
13594508 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
13594533 CATCATTCGA
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 114 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:13595731 original size:56 final size:56
Alignment explanation
Indices: 13595664--13595783 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
13595654 TATTAGTTTA
13595664 TTGCCCATGCTTCTTATTTTATTCCTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCCTCCATTAACACAACATGTTTCATGACATGTT
*
13595720 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCCTCCATTAACACAACATGTTTCATGACATGTT
13595776 TTGCCCAT
1 TTGCCCAT
13595784 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.25, G:0.09, T:0.43
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCCTCCATTAACACAACATGTTTCATGACATGTT
Found at i:13606815 original size:40 final size:40
Alignment explanation
Indices: 13606721--13606865 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
13606711 TACTCGAATG
*
13606721 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
*
13606762 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
13606802 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
13606842 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
13606866 CTTGTGCGAG
Statistics
Matches: 94, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 63 0.67
41 29 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:13608496 original size:20 final size:20
Alignment explanation
Indices: 13608471--13608520 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
13608461 AGGGACTAAA
*
13608471 ATGAAAAATTGTAAAATTTG
1 ATGAAAAATTATAAAATTTG
*
13608491 ATGAAAAATTATAAAATTTT
1 ATGAAAAATTATAAAATTTG
13608511 ATGAATAAAT
1 ATGAA-AAAT
13608521 GTGCTAGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTATAAAATTTG
Found at i:13619678 original size:42 final size:42
Alignment explanation
Indices: 13619569--13619723 Score: 159
Period size: 42 Copynumber: 3.7 Consensus size: 42
13619559 TACCGTACCA
* * * * *
13619569 ATGCCATATCCTAGATATGATATTACATGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCG
* * * *
13619611 AAGCCAATAGCCCAGCTATAGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* **
13619654 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATTA
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
**
13619696 ATGCCATATCCTGGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
13619724 ATAGTCTTAA
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 63 0.68
43 30 0.32
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:13622495 original size:180 final size:180
Alignment explanation
Indices: 13622222--13622580 Score: 494
Period size: 180 Copynumber: 2.0 Consensus size: 180
13622212 GAGCTACGGA
*
13622222 ACTCCAAATTAAGATCCGTTAATTTTTCCCAAAAACTAGACTCACATATATTCTTACCATAAAAT
1 ACTCCAAATTAAGATCCGCTAATTTTTCCCAAAAACTAGACTCACATATATTCTTACCATAAAAT
* * *
13622287 TTTTAGAATTTTTGGTTTAGCCAATTAGTAAAGTTTATTCAT-TAAATATAACTCTATTTCACTA
66 TTTAAGAATTTTTGGTTTAGCAAATTAGTAAAGTTTATTCATATAAATAT--CCCTATTTCACTA
13622351 TC-CAACAGTTCTGACCTCTATTCACTAAAAATTATTTAACGCATGGTACACG
129 TCTC-ACAGTTCTGACCTCTATTCACTAAAAATTATTTAACGCATGGTACACG
*
13622403 ACTCCAAATTAAGAAT-TGCTAA-TTTT-CCAAGAAACTAGACTCACATATATTCTTACCATAAA
1 ACTCCAAATTAAG-ATCCGCTAATTTTTCCCAA-AAACTAGACTCACATATATTCTTACCATAAA
* *
13622465 ATTTTAAGAATTTTTGGTTTAGTAAATTAGTACAGTTTATTCATAATAAATATCCCTATTTCACT
64 ATTTTAAGAATTTTTGGTTTAGCAAATTAGTAAAGTTTATTCAT-ATAAATATCCCTATTTCACT
* * * * * * * *
13622530 GTCTCATAGTTTTGATCTTTCTTCACTAAAAATTATTTATCTCATGGTACA
128 ATCTCACAGTTCTGACCTCTATTCACTAAAAATTATTTAACGCATGGTACA
13622581 GATCTCGGAT
Statistics
Matches: 158, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
179 4 0.03
180 127 0.80
181 18 0.11
182 9 0.06
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (180 bp):
ACTCCAAATTAAGATCCGCTAATTTTTCCCAAAAACTAGACTCACATATATTCTTACCATAAAAT
TTTAAGAATTTTTGGTTTAGCAAATTAGTAAAGTTTATTCATATAAATATCCCTATTTCACTATC
TCACAGTTCTGACCTCTATTCACTAAAAATTATTTAACGCATGGTACACG
Found at i:13623212 original size:50 final size:50
Alignment explanation
Indices: 13623137--13623383 Score: 262
Period size: 50 Copynumber: 4.9 Consensus size: 50
13623127 ACCGAAGCTC
* * * * *
13623137 TCTGGTACGCATAGTAGCTTGCACTTAGTACAACACATGTGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * *
13623187 TCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACTTATCCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
** * ** *
13623237 TCTAATACACGTAGTAGCCTGCACTTAGTACTACATACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* ** * * * *
13623289 -CGGGTATGCATAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* *
13623338 TCCGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTA
13623384 AAACTGTCTT
Statistics
Matches: 157, Mismatches: 37, Indels: 6
0.79 0.19 0.03
Matches are distributed among these distances:
49 3 0.02
50 119 0.76
51 33 0.21
52 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
Found at i:13623322 original size:101 final size:101
Alignment explanation
Indices: 13623198--13623379 Score: 265
Period size: 101 Copynumber: 1.8 Consensus size: 101
13623188 CTGGTACACG
* * * *
13623198 TAGTAGCCTACACTTAGTACTACACACGTGACTTATCCATCTAATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTACACTTAGTACTACACACGCGACCTATCAATCCAATACACGTAGTAGCCTGCACTT
*
13623263 AGTACTACATACGTGATCGAAGTTAACGGGTATGCA
66 AGTACTACACACGTGATCGAAGTTAACGGGTATGCA
* * * ** *
13623299 TAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAATCCGGTACATGTAGTAGCCTGCACTT
1 TAGTAGCCTACACTTAGTACTACACACGCGACCTATCAATCCAATACACGTAGTAGCCTGCACTT
13623364 AGTACTACACACGTGA
66 AGTACTACACACGTGA
13623380 CCTAAAACTG
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 70 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTACACTTAGTACTACACACGCGACCTATCAATCCAATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAGTTAACGGGTATGCA
Found at i:13645203 original size:15 final size:15
Alignment explanation
Indices: 13645178--13645226 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
13645168 TTTTATCACT
13645178 TTTTCCACTCTTTTTC
1 TTTT-CACTCTTTTTC
*
13645194 TTTTCACTCTTTTTA
1 TTTTCACTCTTTTTC
*
13645209 TTTT-TCTCTTTTTC
1 TTTTCACTCTTTTTC
13645223 TTTT
1 TTTT
13645227 TCTCTTTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 12 0.40
15 14 0.47
16 4 0.13
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTCACTCTTTTTC
Found at i:13645217 original size:14 final size:14
Alignment explanation
Indices: 13645185--13645233 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
13645175 ACTTTTTCCA
*
13645185 CTCTTTTTCTTTTCA
1 CTCTTTTTCTTTT-T
*
13645200 CTCTTTTTATTTTT
1 CTCTTTTTCTTTTT
13645214 CTCTTTTTCTTTTT
1 CTCTTTTTCTTTTT
13645228 CTCTTT
1 CTCTTT
13645234 CAATGGATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
14 19 0.61
15 12 0.39
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.73
Consensus pattern (14 bp):
CTCTTTTTCTTTTT
Found at i:13650834 original size:43 final size:42
Alignment explanation
Indices: 13650787--13650942 Score: 174
Period size: 43 Copynumber: 3.6 Consensus size: 42
13650777 ACATATACAG
13650787 TGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATCGA
1 TGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAA-ATCGA
* * *
13650830 TGCC-ACTGTCCTAAACAG-GGTCTTACATGAAATC-AAATACGA
1 TGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAAAAT-CGA
* * * *
13650872 TGCCAATGTCCCAGACATGATCTTACATGTAAAACATAAATCGA
1 TGCCAACGTCCCAGACGTGGTCTTACATGT-AATCA-AAATCGA
13650916 TGCCAACGTCCCAGACGTGGTCTTACA
1 TGCCAACGTCCCAGACGTGGTCTTACA
13650943 CAGAAACACA
Statistics
Matches: 92, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
41 2 0.02
42 28 0.30
43 30 0.33
44 28 0.30
45 4 0.04
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
TGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAAATCGA
Found at i:13652816 original size:43 final size:42
Alignment explanation
Indices: 13652769--13652924 Score: 174
Period size: 43 Copynumber: 3.6 Consensus size: 42
13652759 ACATATACAG
13652769 TGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATCGA
1 TGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAA-ATCGA
* * *
13652812 TGCC-ACTGTCCTAAACAG-GGTCTTACATGAAATC-AAATACGA
1 TGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAAAAT-CGA
* * * *
13652854 TGCCAATGTCCCAGACATGATCTTACATGTAAAACATAAATCGA
1 TGCCAACGTCCCAGACGTGGTCTTACATGT-AATCA-AAATCGA
13652898 TGCCAACGTCCCAGACGTGGTCTTACA
1 TGCCAACGTCCCAGACGTGGTCTTACA
13652925 CAGAAACACA
Statistics
Matches: 92, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
41 2 0.02
42 28 0.30
43 30 0.33
44 28 0.30
45 4 0.04
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
TGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAAATCGA
Found at i:13658269 original size:27 final size:27
Alignment explanation
Indices: 13658193--13658313 Score: 136
Period size: 27 Copynumber: 4.5 Consensus size: 27
13658183 CTATACCGTC
* *
13658193 AAGGCATTCCTTTCAAAGT-TTACCACA
1 AAGGCATTCCTTTCATA-TATTGCCACA
* * *
13658220 AAAGCATTCCTTTCGTATTTTGCCACA
1 AAGGCATTCCTTTCATATATTGCCACA
*
13658247 AAGGCATTCCTTCCATATATTGCCACA
1 AAGGCATTCCTTTCATATATTGCCACA
* * * *
13658274 AATGCGTTCCTTTCATAAATTGTCACA
1 AAGGCATTCCTTTCATATATTGCCACA
13658301 AAGGCATTCCTTT
1 AAGGCATTCCTTT
13658314 TATAACATTT
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 77 0.99
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.34
Consensus pattern (27 bp):
AAGGCATTCCTTTCATATATTGCCACA
Found at i:13672576 original size:17 final size:17
Alignment explanation
Indices: 13672554--13672586 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
13672544 TTTCATATCT
13672554 TATTCAACTTATAATTA
1 TATTCAACTTATAATTA
13672571 TATTCAACTTATAATT
1 TATTCAACTTATAATT
13672587 CGATTTCCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (17 bp):
TATTCAACTTATAATTA
Found at i:13672977 original size:50 final size:50
Alignment explanation
Indices: 13672913--13673189 Score: 285
Period size: 50 Copynumber: 5.6 Consensus size: 50
13672903 CTGGTACGTA
* *
13672913 TAGTAGCCTACACTTAGTACTACACGTGCGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
* * * *
13672963 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
* * * * *
13673013 TAGTAGCCTCCACTTAGTACTACACA--C-A--TAATCGAAGCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-C-AATCTGGTACACG
*
13673060 TAGTAGCTTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
* * * * *** *
13673110 TAGTAGCCTGCACTTAGTACTACACACGTGACATAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCT--AACAATCTGGTACACG
* *
13673162 TAGTAGCCTGCACATAGTACTGCACATG
1 TAGTAGCCTGCACTTAGTACTACACATG
13673190 TTTTCTCACA
Statistics
Matches: 186, Mismatches: 32, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
45 3 0.02
46 1 0.01
47 32 0.17
49 1 0.01
50 109 0.59
51 1 0.01
52 39 0.21
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
Found at i:13673188 original size:147 final size:146
Alignment explanation
Indices: 13672905--13673182 Score: 439
Period size: 147 Copynumber: 1.9 Consensus size: 146
13672895 AAAGCTCTCT
* *
13672905 GGTACGTATAGTAGCCTACACTTAGTACTACACGTGCGACCTAACAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
* * * *
13672970 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTCCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACATAACCATCTGAAACACATAGTAGCCTCCACATAGTACTA
13673035 CACACATAATCGAAGCG
131 -ACACATAATCGAAGCG
* *
13673052 GGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
* *
13673117 CTGCACTTAGTACTACACACGTGACATAAAACCATCTTAAACACATAGTAGCCTGCACATAGTAC
66 CTGCACTTAGTACTACACACGTGACAT--AACCATCTGAAACACATAGTAGCCTCCACATAGTAC
13673182 T
129 T
13673183 GCACATGTTT
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
147 87 0.73
149 32 0.27
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (146 bp):
GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACATAACCATCTGAAACACATAGTAGCCTCCACATAGTACTA
ACACATAATCGAAGCG
Found at i:13676966 original size:21 final size:21
Alignment explanation
Indices: 13676937--13676980 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
13676927 GAGTAGTGGA
*
13676937 GTTTGACTCAAACTCTGCAAG
1 GTTTCACTCAAACTCTGCAAG
13676958 GTTTCACTCAAACTCTGCAAG
1 GTTTCACTCAAACTCTGCAAG
13676979 GT
1 GT
13676981 GGAATTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (21 bp):
GTTTCACTCAAACTCTGCAAG
Found at i:13683446 original size:50 final size:50
Alignment explanation
Indices: 13683360--13683653 Score: 266
Period size: 50 Copynumber: 5.8 Consensus size: 50
13683350 ACCGAAGCTC
* * *
13683360 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * * ** * *
13683410 TCTGTTACATGTAGTAGCCTACACTTAGTACTACACACATGATCTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * * * * * * *
13683460 TCTGATACACGTAATAGCCTGCACTTAATACTAGACACGTAACCGAAGCTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAA
* ** * * *
13683511 TCGGGTACAAATAGTAGCCTTCAGTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * *
13683561 TTTGGTACACGTAGTAGCCTACACTTAGTACTACACAAGTGACCTAA-AA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
** * *
13683610 TCGTCTGAAACACATAGTAGCCTGCACATAGTACTACACATGTG
1 ---TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTG
13683654 TTCTCACAGC
Statistics
Matches: 190, Mismatches: 50, Indels: 6
0.77 0.20 0.02
Matches are distributed among these distances:
49 2 0.01
50 118 0.62
51 36 0.19
52 34 0.18
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
Found at i:13683667 original size:151 final size:151
Alignment explanation
Indices: 13683347--13683649 Score: 392
Period size: 151 Copynumber: 2.0 Consensus size: 151
13683337 TACCACCCTT
** * **
13683347 GTAACCGAAGCTCTCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATC
1 GTAACCGAAGCTAGCGGGTACAAATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATC
* * * * *
13683412 TGTTACATGTAGTAGCCTACACTTAGTACTACACACATGATCTAACCATCTGATACACGTAATAG
66 TGGTACACGTAGTAGCCTACACTTAGTACTACACACATGACCTAACCATCTGAAACACATAATAG
* *
13683477 CCTGCACTTAATACTAGACAC
131 CCTGCACATAATACTACACAC
* * * *
13683498 GTAACCGAAGCTATCGGGTACAAATAGTAGCCTTCAGTTAGTACTACACATGCGACCTAACAATT
1 GTAACCGAAGCTAGCGGGTACAAATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATC
* * *
13683563 TGGTACACGTAGTAGCCTACACTTAGTACTACACA-AGTGACCTAAAATCGTCTGAAACACATAG
66 TGGTACACGTAGTAGCCTACACTTAGTACTACACACA-TGACCT--AACCATCTGAAACACATAA
*
13683627 TAGCCTGCACATAGTACTACACA
128 TAGCCTGCACATAATACTACACA
13683650 TGTGTTCTCA
Statistics
Matches: 131, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
150 1 0.01
151 96 0.73
153 34 0.26
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (151 bp):
GTAACCGAAGCTAGCGGGTACAAATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATC
TGGTACACGTAGTAGCCTACACTTAGTACTACACACATGACCTAACCATCTGAAACACATAATAG
CCTGCACATAATACTACACAC
Found at i:13686461 original size:25 final size:25
Alignment explanation
Indices: 13686432--13686479 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
13686422 TTATAATATG
* * *
13686432 AAAATAACCGTTTTGCCCCTAGGTA
1 AAAATAACCATTATACCCCTAGGTA
*
13686457 AAAATGACCATTATACCCCTAGG
1 AAAATAACCATTATACCCCTAGG
13686480 GTTTAAATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATAACCATTATACCCCTAGGTA
Found at i:13686563 original size:11 final size:11
Alignment explanation
Indices: 13686527--13686582 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
13686517 CATGGTATGT
13686527 ATGATATGCAC
1 ATGATATGCAC
* *
13686538 ATGACATG--T
1 ATGATATGCAC
13686547 ATGATATGCAC
1 ATGATATGCAC
*
13686558 ATGATATG--T
1 ATGATATGCAC
13686567 ATGATATGCAC
1 ATGATATGCAC
13686578 ATGAT
1 ATGAT
13686583 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:13686582 original size:20 final size:20
Alignment explanation
Indices: 13686516--13686582 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
13686506 ATTTTGATAA
*
13686516 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
13686536 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
13686556 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
13686576 ACATGAT
1 ACATGAT
13686583 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:13686660 original size:26 final size:26
Alignment explanation
Indices: 13686631--13686753 Score: 152
Period size: 25 Copynumber: 4.9 Consensus size: 26
13686621 GGAGGAAGTG
*
13686631 TAAAAGGGCTTATGCCCCAATTATGA
1 TAAAAGGGCTTATGCCCCAGTTATGA
*
13686657 T-AAAGGGCTTATGCCCCAGTTACGA
1 TAAAAGGGCTTATGCCCCAGTTATGA
13686682 TAAAAGGGCTTATGCCCCAGTTAT--
1 TAAAAGGGCTTATGCCCCAGTTATGA
13686706 TAAAAGGGCTT-TGCCCCAGTTAT--
1 TAAAAGGGCTTATGCCCCAGTTATGA
*
13686729 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
13686754 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.21
24 17 0.19
25 31 0.35
26 22 0.25
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (26 bp):
TAAAAGGGCTTATGCCCCAGTTATGA
Found at i:13694661 original size:20 final size:20
Alignment explanation
Indices: 13694595--13694661 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
13694585 ATTTTGATAA
* *
13694595 ACATGGTATGTATGATGTGC
1 ACATGATATGTATGATATGC
*
13694615 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
13694635 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
13694655 ACATGAT
1 ACATGAT
13694662 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:13694797 original size:24 final size:24
Alignment explanation
Indices: 13694713--13694904 Score: 253
Period size: 25 Copynumber: 7.9 Consensus size: 24
13694703 GGAAGTGTAG
*
13694713 AAGGGCTTATGCCCCAGTTATGATA
1 AAGGGCTTATGCCCCAGTTATTA-A
**
13694738 AAGGGCTTATGCCCCAGTTACGATA
1 AAGGGCTTATGCCCCAGTTATTA-A
*
13694763 ATGGGCTTATGCCCCAGTTATTAA
1 AAGGGCTTATGCCCCAGTTATTAA
**
13694787 AAGGGCTTATGCCCCAGTTACGATA
1 AAGGGCTTATGCCCCAGTTATTA-A
13694812 AAGGGCTTATGCCCCAGTTATTAA
1 AAGGGCTTATGCCCCAGTTATTAA
*
13694836 AAAGGCTTATGCCCCAGTTATTAA
1 AAGGGCTTATGCCCCAGTTATTAA
13694860 AAGGGCTT-TGCCCCAGTTATTAA
1 AAGGGCTTATGCCCCAGTTATTAA
*
13694883 AAGAGGC-TAGGCCTCCAGTTAT
1 AAG-GGCTTATGCC-CCAGTTAT
13694905 ATGATAAAGC
Statistics
Matches: 151, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
23 19 0.13
24 58 0.38
25 74 0.49
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
AAGGGCTTATGCCCCAGTTATTAA
Found at i:13694804 original size:49 final size:49
Alignment explanation
Indices: 13694713--13694903 Score: 280
Period size: 49 Copynumber: 3.9 Consensus size: 49
13694703 GGAAGTGTAG
*
13694713 AAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTACGATA
1 AAGGGCTTATGCCCCAGTTATTA-AAAGGGCTTATGCCCCAGTTACGATA
*
13694763 ATGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTACGATA
1 AAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTACGATA
* **
13694812 AAGGGCTTATGCCCCAGTTATTAAAAAGGCTTATGCCCCAGTTATTA-A
1 AAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTACGATA
*
13694860 AAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTA
1 AAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTATGCC-CCAGTTA
13694904 TATGATAAAG
Statistics
Matches: 131, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
47 22 0.17
48 19 0.15
49 69 0.53
50 21 0.16
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (49 bp):
AAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTACGATA
Found at i:13695299 original size:26 final size:26
Alignment explanation
Indices: 13695263--13695317 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
13695253 TTTCCTTAAC
*
13695263 CTTGTAGGTGAGTCTTGATGTGGGGA
1 CTTGCAGGTGAGTCTTGATGTGGGGA
13695289 CTTGCAGGTGAGTCTTGATGTGGGGA
1 CTTGCAGGTGAGTCTTGATGTGGGGA
13695315 CTT
1 CTT
13695318 ATGCCGGAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.15, C:0.11, G:0.40, T:0.35
Consensus pattern (26 bp):
CTTGCAGGTGAGTCTTGATGTGGGGA
Found at i:13708592 original size:15 final size:15
Alignment explanation
Indices: 13708572--13708601 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13708562 TATTATCTAA
*
13708572 TATTAGAACTTTTCC
1 TATTAGAACATTTCC
13708587 TATTAGAACATTTCC
1 TATTAGAACATTTCC
13708602 CTTGAACCAT
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:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (15 bp):
TATTAGAACATTTCC
Found at i:13708875 original size:25 final size:25
Alignment explanation
Indices: 13708837--13708891 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
13708827 AATAATGGGT
13708837 AGCTCCGAAGAGCCAT-TAATCAGGA
1 AGCTCCGAAGAGCCATAT-ATCAGGA
* *
13708862 AGCTCCGGATAGCCATATATCAGGA
1 AGCTCCGAAGAGCCATATATCAGGA
13708887 AGCTC
1 AGCTC
13708892 AAGCGTGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 26 0.96
26 1 0.04
ACGTcount: A:0.33, C:0.25, G:0.24, T:0.18
Consensus pattern (25 bp):
AGCTCCGAAGAGCCATATATCAGGA
Found at i:13718710 original size:93 final size:93
Alignment explanation
Indices: 13718595--13719416 Score: 1581
Period size: 93 Copynumber: 8.8 Consensus size: 93
13718585 GCCCCTAAGT
13718595 GAACTCGGACTCAACTCAACGAGTTTGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTTGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
13718660 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
13718688 GAACTCGGACTCAACTCAACGAGTTTGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTTGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
13718753 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
13718781 GAACTCGGACTCAACTCAACGAGTTTGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTTGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
13718846 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
13718874 GAACTCGGACTCAACTCAACGAGTTTGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTTGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
13718939 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
13718967 GAACTCGGACTCAACTCAACGAGTTTGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTTGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
13719032 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
13719060 GAACTCGGACTCAACTCAACGAGTTTGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTTGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
13719125 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
13719153 GAACTCGGACTCAACTCAACGAGTTTGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTTGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
13719218 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
13719246 GAACTCGGACTCAACTCAACGAGTTTGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTTGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
13719311 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * * * * *
13719339 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTAAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTTGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
13719404 CGAGTTCGGATGC
66 CGAGTTCGGATGC
13719417 TCAACCATCC
Statistics
Matches: 722, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 722 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTTGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13727941 original size:263 final size:263
Alignment explanation
Indices: 13727474--13727998 Score: 1005
Period size: 263 Copynumber: 2.0 Consensus size: 263
13727464 ATTCTTATGT
*
13727474 TTTATAACATGCTGATCACTTTTCCCTTCTATGGCAACATCAAATTCTCACTCTAACATATACTT
1 TTTATAACATGCTGATCACTTTTCCCTTCTATGGAAACATCAAATTCTCACTCTAACATATACTT
* *
13727539 GTGACTATTAGGTATTTTTGCCGATTAAGCCCTTTTACTCGTTTTCACTCAAAACCGAGTAGCAC
66 GTGACTATTAGGCATTTTTACCGATTAAGCCCTTTTACTCGTTTTCACTCAAAACCGAGTAGCAC
13727604 AAGTTCTCTAACATAATTTAAAACCCCATATTCTATCATAAAACATCAAAATACACAAATTTCAC
131 AAGTTCTCTAACATAATTTAAAACCCCATATTCTATCATAAAACATCAAAATACACAAATTTCAC
*
13727669 CTATGGGTATTTTTCCAAATATAAACCCTAGGTTGAATTATTGCTAGCATAAGCTTAATTGAGCT
196 CTATGGGTATTTTTCCAAATATAAACCCTAGGTTGAATTATTGCTAGCATAAGCTTAATCGAGCT
13727734 TCC
261 TCC
13727737 TTTATAACATGCTGATCACTTTTCCCTTCTATGGAAACATCAAATTCTCACTCTAACATATACTT
1 TTTATAACATGCTGATCACTTTTCCCTTCTATGGAAACATCAAATTCTCACTCTAACATATACTT
13727802 GTGACTATTAGGCATTTTTACCGATTAAGCCCTTTTACTCGTTTTCACTCAAAACCGAGTAGCAC
66 GTGACTATTAGGCATTTTTACCGATTAAGCCCTTTTACTCGTTTTCACTCAAAACCGAGTAGCAC
13727867 AAGTTCTCTAACATAATTTAAAACCCCATATTCTATCATAAAACATCAAAATACACAAATTTCAC
131 AAGTTCTCTAACATAATTTAAAACCCCATATTCTATCATAAAACATCAAAATACACAAATTTCAC
*
13727932 CTATGGGTATTTTTCCAAATATAAACCCTAGGTTGACTTATTGCTAGCATAAGCTTAATCGAGCT
196 CTATGGGTATTTTTCCAAATATAAACCCTAGGTTGAATTATTGCTAGCATAAGCTTAATCGAGCT
13727997 TC
261 TC
13727999 TGGGATTCCA
Statistics
Matches: 257, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
263 257 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.35
Consensus pattern (263 bp):
TTTATAACATGCTGATCACTTTTCCCTTCTATGGAAACATCAAATTCTCACTCTAACATATACTT
GTGACTATTAGGCATTTTTACCGATTAAGCCCTTTTACTCGTTTTCACTCAAAACCGAGTAGCAC
AAGTTCTCTAACATAATTTAAAACCCCATATTCTATCATAAAACATCAAAATACACAAATTTCAC
CTATGGGTATTTTTCCAAATATAAACCCTAGGTTGAATTATTGCTAGCATAAGCTTAATCGAGCT
TCC
Found at i:13732095 original size:31 final size:32
Alignment explanation
Indices: 13732036--13732096 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
13732026 TTCCCTGAAA
13732036 CTAGACTCATATTCCCATCTACATATTTTTTT
1 CTAGACTCATATTCCCATCTACATATTTTTTT
13732068 CTAGACTCATATTCCCATCT-CATATTTTT
1 CTAGACTCATATTCCCATCTACATATTTTT
13732097 CTTGAGCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.31
32 20 0.69
ACGTcount: A:0.25, C:0.26, G:0.03, T:0.46
Consensus pattern (32 bp):
CTAGACTCATATTCCCATCTACATATTTTTTT
Found at i:13733474 original size:27 final size:27
Alignment explanation
Indices: 13733444--13733595 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
13733434 ATATTGAGTC
* * *
13733444 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
13733471 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
13733499 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
13733526 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
13733554 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
13733581 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13733596 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:13733528 original size:55 final size:55
Alignment explanation
Indices: 13733444--13733620 Score: 264
Period size: 55 Copynumber: 3.2 Consensus size: 55
13733434 ATATTGAGTC
* * *
13733444 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
13733499 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
13733554 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAACT
13733610 CGCACACTTAG
1 CGCACACTTAG
13733621 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
55 95 0.86
56 16 0.14
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:13734088 original size:12 final size:12
Alignment explanation
Indices: 13734071--13734096 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13734061 ATGGCATACT
13734071 TATGTATATATA
1 TATGTATATATA
13734083 TATGTATATATA
1 TATGTATATATA
13734095 TA
1 TA
13734097 CTTCGGAATG
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:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:13736423 original size:19 final size:20
Alignment explanation
Indices: 13736399--13736436 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
13736389 GGTACCACCA
13736399 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
13736418 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
13736437 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:13736781 original size:93 final size:93
Alignment explanation
Indices: 13736666--13736836 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
13736656 GCCCCTAAGT
* * *
13736666 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
*
13736731 CGAGTTTGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
13736759 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
13736824 CGAGTTCGGATGC
66 CGAGTTCGGATGC
13736837 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:13736833 original size:46 final size:46
Alignment explanation
Indices: 13736661--13736833 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
13736651 AACCCGCCCC
* * * *
13736661 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * * *
13736707 TAAATGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
13736755 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
13736800 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13736834 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 58 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:13737289 original size:30 final size:30
Alignment explanation
Indices: 13737255--13737314 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
13737245 ATTTAATACT
13737255 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
13737285 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
13737315 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:13739436 original size:42 final size:41
Alignment explanation
Indices: 13739389--13739510 Score: 145
Period size: 43 Copynumber: 2.9 Consensus size: 41
13739379 TTAGGGTTAT
* *
13739389 TGAGACTACGTGTAATACAATATCTGGGATGTGGCATCAATA
1 TGAGACTACGTGTAAGACCATATCTGGGAT-TGGCATCAATA
* *
13739431 TGAGACTTCGTGTAAGACCATACCTGGGCTATTGGCATCAATA
1 TGAGACTACGTGTAAGACCATATCTGGG--ATTGGCATCAATA
* * *
13739474 CGAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 TGAGACTACGTGTAAGACCATATCTGGGAT-TGGCAT
13739511 TGGTACGATA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.03
42 30 0.44
43 34 0.50
44 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (41 bp):
TGAGACTACGTGTAAGACCATATCTGGGATTGGCATCAATA
Found at i:13759050 original size:47 final size:47
Alignment explanation
Indices: 13758989--13759383 Score: 646
Period size: 47 Copynumber: 8.4 Consensus size: 47
13758979 CAGCCAAGAC
13758989 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
13759036 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
13759083 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
13759130 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
13759177 AGTGTATATGTGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
13759224 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
13759271 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
13759318 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
13759365 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
13759384 TCCCGAAGGG
Statistics
Matches: 325, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 325 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:13759558 original size:37 final size:37
Alignment explanation
Indices: 13759506--13759580 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
13759496 GCTCTAAAGG
* *
13759506 CCCGATGACTACGTGTGG-GAATTTTGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAG-ATTATGTCCGGGTAAGA
*
13759543 CCCGATAACTTCGTGTGGAGATTATGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
13759580 C
1 C
13759581 TTCGTAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 33 0.97
38 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.27
Consensus pattern (37 bp):
CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
Found at i:13764655 original size:101 final size:99
Alignment explanation
Indices: 13764437--13764637 Score: 285
Period size: 101 Copynumber: 2.0 Consensus size: 99
13764427 TATGTAGCCA
* * * * *
13764437 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACA
13764502 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
66 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
* * * * *
13764536 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCGGGTACG
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACA
*
13764601 CATAGTAGCCTGCACTTAGTACTACACATGTGACCT
64 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT
13764637 A
1 A
13764638 GCTACATATA
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 42 0.47
100 3 0.03
101 44 0.49
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (99 bp):
AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACA
TAGTAGCCTGCACTTAGTACTACACACGTGACCT
Found at i:13764768 original size:68 final size:63
Alignment explanation
Indices: 13764611--13764782 Score: 166
Period size: 68 Copynumber: 2.6 Consensus size: 63
13764601 CATAGTAGCC
* * *
13764611 TGCACTTAGTACTACACATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTG
1 TGCACTTAGTACCA-ACATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTAAATGATG
* * * * **
13764675 TACACATAGTATCAACCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTAC-AAAT
1 TGCACTTAGTACCAA-CATGTGACCTAGCTACAT-AT-A--TCCCGTAGCTCTCTTGT-CTAAAT
13764739 GATG
60 GATG
*
13764743 TGCACTTAGCACCATACATGTGACCTAGCTACATACTATC
1 TGCACTTAGTACCA-ACATGTGACCTAGCTACATA-TATC
13764783 TGTATCATCC
Statistics
Matches: 86, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
63 1 0.01
64 27 0.31
65 4 0.05
66 1 0.01
67 2 0.02
68 49 0.57
69 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (63 bp):
TGCACTTAGTACCAACATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTAAATGATG
Done.