Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 117 of 187
Found at i:34607446 original size:15 final size:15
Alignment explanation
Indices: 34607426--34607455 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34607416 TAGATATACC
34607426 ATTCATTCAACAATT
1 ATTCATTCAACAATT
*
34607441 ATTCATTTAACAATT
1 ATTCATTCAACAATT
34607456 CACATTCCCA
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:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTCATTCAACAATT
Found at i:34607598 original size:13 final size:13
Alignment explanation
Indices: 34607558--34607590 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
34607548 ATATAATCGA
34607558 TTCATATAGCCAT
1 TTCATATAGCCAT
*
34607571 TTCATATAACCAT
1 TTCATATAGCCAT
34607584 TTCATAT
1 TTCATAT
34607591 GGTCATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.42
Consensus pattern (13 bp):
TTCATATAGCCAT
Found at i:34611774 original size:22 final size:22
Alignment explanation
Indices: 34611749--34611797 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
34611739 CGCCCGTGTC
34611749 TTAGGCCGTGTGGGTATTTGAA
1 TTAGGCCGTGTGGGTATTTGAA
34611771 TTAGGCCGTGTGGGTATTTGAA
1 TTAGGCCGTGTGGGTATTTGAA
*
34611793 ATAGG
1 TTAGG
34611798 GACACACGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.08, G:0.37, T:0.35
Consensus pattern (22 bp):
TTAGGCCGTGTGGGTATTTGAA
Found at i:34613838 original size:22 final size:22
Alignment explanation
Indices: 34613813--34613861 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
34613803 CGCCCGTGTC
34613813 TTAGGCCGTGTGGGTATTTGAA
1 TTAGGCCGTGTGGGTATTTGAA
34613835 TTAGGCCGTGTGGGTATTTGAA
1 TTAGGCCGTGTGGGTATTTGAA
*
34613857 ATAGG
1 TTAGG
34613862 GACACACGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.08, G:0.37, T:0.35
Consensus pattern (22 bp):
TTAGGCCGTGTGGGTATTTGAA
Found at i:34624371 original size:50 final size:50
Alignment explanation
Indices: 34624217--34624371 Score: 125
Period size: 50 Copynumber: 3.1 Consensus size: 50
34624207 TTGGGGAAAC
* * * * * *
34624217 AAGATTCACCGGTGTGGCTTTAATCTGTTCCACTGCACCTCCTGGGGAGT
1 AAGATTCACCGATGTGGCTTTAATCTATTCCACTGAATCGCTTGGGGAGT
** * * * * ** * *
34624267 AAGATTTGCTGTTATAGCTTTAATCTATTTAACTGCAAT-G-TCGGGGAAGC
1 AAGATTCACCGATGTGGCTTTAATCTATTCCACTG-AATCGCTTGGGG-AGT
*
34624317 AAGATTCACCGATGTGGCTTTAATCTATTCCACTGTATCGCTTGGGGAGT
1 AAGATTCACCGATGTGGCTTTAATCTATTCCACTGAATCGCTTGGGGAGT
34624367 AAGAT
1 AAGAT
34624372 CTGTAATTCT
Statistics
Matches: 75, Mismatches: 26, Indels: 8
0.69 0.24 0.07
Matches are distributed among these distances:
49 6 0.08
50 63 0.84
51 6 0.08
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (50 bp):
AAGATTCACCGATGTGGCTTTAATCTATTCCACTGAATCGCTTGGGGAGT
Found at i:34624785 original size:44 final size:44
Alignment explanation
Indices: 34624719--34624802 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
34624709 CTGTAACCAC
* ** * *
34624719 AGGGAGGTAAAATCTGCCATCTTTAATCTGCTCCACTACTACTT
1 AGGGAGATAAAATCTGAAATCTTCAATCTACTCCACTACTACTT
* *
34624763 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACT
1 AGGGAGATAAAATCTGAAATCTTCAATCTACTCCACTACT
34624803 GCCCAGGGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (44 bp):
AGGGAGATAAAATCTGAAATCTTCAATCTACTCCACTACTACTT
Found at i:34624811 original size:44 final size:44
Alignment explanation
Indices: 34624718--34624811 Score: 98
Period size: 44 Copynumber: 2.1 Consensus size: 44
34624708 GCTGTAACCA
* ** * * *
34624718 CAGGGAGGTAAAATCTGCCATCTTTAATCTGCTCCACTACTACT
1 CAGGGAGATAAAATCTGAAATCTTCAATCTACTCCACTACTACC
* * * *
34624762 TAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGCC
1 CAGGGAGATAAAATCTGAAATCTTCAATCTACTCCACTACTACC
34624806 CAGGGA
1 CAGGGA
34624812 AGTAGAATTA
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (44 bp):
CAGGGAGATAAAATCTGAAATCTTCAATCTACTCCACTACTACC
Found at i:34624863 original size:132 final size:130
Alignment explanation
Indices: 34624689--34625124 Score: 556
Period size: 132 Copynumber: 3.3 Consensus size: 130
34624679 AAATAGGATA
* * *
34624689 ACTGACTTCAATGTACTCCGCTGTAACCACAGGGAGGTAAAATCTGCCATCTTTAATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATC-TTAATCTGCTCCA
* *
34624754 CTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAAGTAGAA
65 CTACTACTTAGGGAGGTAAGATCT-AAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
34624819 TT
129 TT
* * * * * *
34624821 ACTGGCTTCAATGTACTCCACTGTAATCACAGGAAGGCAAAATCCACCATCTTCGATCTACTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTT-AATCTGCTCCA
* * *
34624886 CTACTAATTATGGAGGTAAGATCTAAAATCTTCAATCTATTCCACTGCTGCTCAGGGAAGTAGAA
65 CTACTACTTAGGGAGGTAAGATCT-AAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
34624951 TT
129 TT
* * *
34624953 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGCGGTAAAATCCGCCATC--AACCTGCTCCAC
1 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTAATCTGCTCCAC
* ** * * *
34625016 T-GTAGCCGAGAGAGGTAAGGTCTATAATCTTCAATCTATTCCACTGCTGCCTAGGG-AGATAGA
66 TACTA-CTTAGGGAGGTAAGATCTA-AATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGA
34625079 ATT
128 ATT
* *
34625082 ACCGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAAT
1 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT
34625125 TTGTAATCAA
Statistics
Matches: 265, Mismatches: 35, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
128 5 0.02
129 99 0.37
131 2 0.01
132 159 0.60
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (130 bp):
ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTAATCTGCTCCAC
TACTACTTAGGGAGGTAAGATCTAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
Found at i:34625292 original size:86 final size:88
Alignment explanation
Indices: 34625140--34625299 Score: 227
Period size: 86 Copynumber: 1.8 Consensus size: 88
34625130 ATCAACCTAC
* *
34625140 TCCACTGCAACCGCGGGAGGCAAGGTCTGGTATCTTCGATATGCCTCACTGTCAATGCAGGAAGG
1 TCCACTGCAACCGAGGGAGGCAAGGTCTGGTATCTTCGATATACCTCACTGTCAATGCAGGAAGG
34625205 CAAGATCTGGTAACTTAACGTCT
66 CAAGATCTGGTAACTTAACGTCT
* * * * *
34625228 TCCACTGCAACCGAGGGAGGCAAGG-CTTTGT-T-TTCGATCTACTTCGCTGTCGATGCAGGAAG
1 TCCACTGCAACCGAGGGAGGCAAGGTC-TGGTATCTTCGATATACCTCACTGTCAATGCAGGAAG
34625290 GCAAGATCTG
65 GCAAGATCTG
34625300 CTATCTTCAC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
86 35 0.55
87 2 0.03
88 27 0.42
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (88 bp):
TCCACTGCAACCGAGGGAGGCAAGGTCTGGTATCTTCGATATACCTCACTGTCAATGCAGGAAGG
CAAGATCTGGTAACTTAACGTCT
Found at i:34632803 original size:3 final size:3
Alignment explanation
Indices: 34632795--34632819 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
34632785 AGTAAAAAAC
34632795 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
34632820 GGAAATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:34634833 original size:52 final size:52
Alignment explanation
Indices: 34634777--34634893 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
34634767 AACAAGGGAC
*
34634777 ACACGATCGTGTCCAAGCCCGTGTCCTCACGTGTAACTCACTGAGTAAGGTT
1 ACACGGTCGTGTCCAAGCCCGTGTCCTCACGTGTAACTCACTGAGTAAGGTT
* *
34634829 ACACGGTCGTGTCCAAGCCTGTGTCCTCACGTGTAATTCACTGAGTAAGGTT
1 ACACGGTCGTGTCCAAGCCCGTGTCCTCACGTGTAACTCACTGAGTAAGGTT
34634881 ACACGGTCGTGTC
1 ACACGGTCGTGTC
34634894 ACACGACTGT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.26
Consensus pattern (52 bp):
ACACGGTCGTGTCCAAGCCCGTGTCCTCACGTGTAACTCACTGAGTAAGGTT
Found at i:34634912 original size:52 final size:52
Alignment explanation
Indices: 34634777--34634912 Score: 184
Period size: 52 Copynumber: 2.6 Consensus size: 52
34634767 AACAAGGGAC
* * * *
34634777 ACACGATCGTGTCCAAGCCCGTGTCCTCACGTGTAACTCACTGAGTAAGGTT
1 ACACGGTCGTGTCCAAGACTGTGTCCACACGTGTAACTCACTGAGTAAGGTT
* * *
34634829 ACACGGTCGTGTCCAAGCCTGTGTCCTCACGTGTAATTCACTGAGTAAGGTT
1 ACACGGTCGTGTCCAAGACTGTGTCCACACGTGTAACTCACTGAGTAAGGTT
*
34634881 ACACGGTCGTGTCACACGACTGTGT-CACACGT
1 ACACGGTCGTGTC-CAAGACTGTGTCCACACGT
34634913 CCGTCTGCCA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
52 68 0.88
53 9 0.12
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (52 bp):
ACACGGTCGTGTCCAAGACTGTGTCCACACGTGTAACTCACTGAGTAAGGTT
Found at i:34635784 original size:40 final size:40
Alignment explanation
Indices: 34635639--34635874 Score: 226
Period size: 40 Copynumber: 5.9 Consensus size: 40
34635629 GATTCAAGGT
* * * * * * * *
34635639 TACCAAAGTATAAACAAGGGCACATAAGTGCATTCTGGGC
1 TACCGAAGTACAAACAAGGACACGTATGTGCAATCAGGGG
* * *
34635679 TACCGAAGTACAAATAATGG-CATGTATTTGCAATCAGGGG
1 TACCGAAGTACAAACAA-GGACACGTATGTGCAATCAGGGG
* * * * *
34635719 TATCAAAGTTCAAGCAGGGGA-ACGTATGTGCAATCAGGGG
1 TACCGAAGTACAAACA-AGGACACGTATGTGCAATCAGGGG
* * **
34635759 CACCGAAGTACAAACAACGACACGTATGCACAATCAGGGG
1 TACCGAAGTACAAACAAGGACACGTATGTGCAATCAGGGG
*
34635799 TACCGAAGTACAAACAGGGACACGTATGCT-CAATCAGGGG
1 TACCGAAGTACAAACAAGGACACGTATG-TGCAATCAGGGG
*
34635839 TACCGAAGTACAAACAAGGGCACGTATGTGCAATCA
1 TACCGAAGTACAAACAAGGACACGTATGTGCAATCA
34635875 TCAATATGAT
Statistics
Matches: 157, Mismatches: 33, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
39 3 0.02
40 152 0.97
41 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (40 bp):
TACCGAAGTACAAACAAGGACACGTATGTGCAATCAGGGG
Found at i:34635816 original size:20 final size:20
Alignment explanation
Indices: 34635788--34635854 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
34635778 ACACGTATGC
*
34635788 ACAATCAGGGGTACCGAAGT
1 ACAAACAGGGGTACCGAAGT
*
34635808 ACAAACA-GGG-ACACGTATGCT
1 ACAAACAGGGGTAC-CG-AAG-T
*
34635829 -CAATCAGGGGTACCGAAGT
1 ACAAACAGGGGTACCGAAGT
34635848 ACAAACA
1 ACAAACA
34635855 AGGGCACGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 12
0.68 0.09 0.23
Matches are distributed among these distances:
18 2 0.06
19 6 0.17
20 20 0.56
21 6 0.17
22 2 0.06
ACGTcount: A:0.39, C:0.22, G:0.25, T:0.13
Consensus pattern (20 bp):
ACAAACAGGGGTACCGAAGT
Found at i:34639314 original size:17 final size:17
Alignment explanation
Indices: 34639292--34639325 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34639282 CACTAACATG
*
34639292 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
34639309 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
34639326 TATACTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:34644734 original size:34 final size:34
Alignment explanation
Indices: 34644669--34644734 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
34644659 AAGAAAGAAG
**
34644669 CAAAAATGAGTAAGAAAAAAAAGAATGTGAGATA
1 CAAAAATGAGTAAGAAAAAAAAGAAAATGAGATA
* *
34644703 CAAACATGAG-AAGAAAAGGAAAGAAAATGAGA
1 CAAAAATGAGTAAGAAAA-AAAAGAAAATGAGA
34644735 GAATGATTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 7 0.26
34 20 0.74
ACGTcount: A:0.62, C:0.05, G:0.23, T:0.11
Consensus pattern (34 bp):
CAAAAATGAGTAAGAAAAAAAAGAAAATGAGATA
Found at i:34658756 original size:54 final size:54
Alignment explanation
Indices: 34658674--34658778 Score: 165
Period size: 54 Copynumber: 1.9 Consensus size: 54
34658664 CTTATTATTT
* *
34658674 CAAGTCAATGAGTTACACGGCCCAGCACACGACCTGTGACACACCTGTGTGTCA
1 CAAGTCAAAGAGTTACACGGCCCAGCACACGACCTGTGACACAACTGTGTGTCA
* * *
34658728 CAAGTCAAAGAGTTACACGGCCTAGCACACGGCCTGTGACATAACTGTGTG
1 CAAGTCAAAGAGTTACACGGCCCAGCACACGACCTGTGACACAACTGTGTG
34658779 ACCTAACTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.19
Consensus pattern (54 bp):
CAAGTCAAAGAGTTACACGGCCCAGCACACGACCTGTGACACAACTGTGTGTCA
Found at i:34658795 original size:54 final size:54
Alignment explanation
Indices: 34658678--34658801 Score: 151
Period size: 54 Copynumber: 2.3 Consensus size: 54
34658668 TTATTTCAAG
* * *
34658678 TCAATGAGTTACACGGCCCAGCACACGACCTGTGACACACCTGTGTGTCACAAG
1 TCAATGAGTTACACGGCCCAGCACACGACCTGTGACACAACTGTGTGACACAAC
* * * *
34658732 TCAAAGAGTTACACGGCCTAGCACACGGCCTGTGACATAACTGTGTGAC-CTAAC
1 TCAATGAGTTACACGGCCCAGCACACGACCTGTGACACAACTGTGTGACAC-AAC
* *
34658786 TTATTGAGTTACACGG
1 TCAATGAGTTACACGG
34658802 TTTAAGACAC
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.02
54 58 0.98
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (54 bp):
TCAATGAGTTACACGGCCCAGCACACGACCTGTGACACAACTGTGTGACACAAC
Found at i:34659886 original size:13 final size:13
Alignment explanation
Indices: 34659868--34659892 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34659858 ATCACTCTAT
34659868 AAATATTTAATAA
1 AAATATTTAATAA
34659881 AAATATTTAATA
1 AAATATTTAATA
34659893 GCTCAGTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATATTTAATAA
Found at i:34662770 original size:25 final size:25
Alignment explanation
Indices: 34662742--34662805 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
34662732 ATACATGTAT
34662742 GCTCATACGAGCT-ATGAATCGATAA
1 GCTCATACGAGCTGA-GAATCGATAA
*
34662767 GCTCATACGAGCTGAGAATCGGTAA
1 GCTCATACGAGCTGAGAATCGATAA
*
34662792 GCTCATAAGAGCTG
1 GCTCATACGAGCTG
34662806 TGGTGTGTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 35 0.97
26 1 0.03
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (25 bp):
GCTCATACGAGCTGAGAATCGATAA
Found at i:34666408 original size:13 final size:14
Alignment explanation
Indices: 34666390--34666422 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
34666380 TCGTATACAC
34666390 TTCATATATC-AGT
1 TTCATATATCTAGT
*
34666403 TTCATATATCTATT
1 TTCATATATCTAGT
34666417 TTCATA
1 TTCATA
34666423 AAAAAATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.52
Consensus pattern (14 bp):
TTCATATATCTAGT
Found at i:34668101 original size:33 final size:27
Alignment explanation
Indices: 34668059--34668136 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 27
34668049 TACGGTGGAG
34668059 TCAGCACTTAGCAACCGCCAATGAGTCTGGGAA
1 TCAGCACTTAGCAACC-CC-ATGA----GGGAA
* *
34668092 TCAGCACTTAGAAACCCCTTGAGGGAA
1 TCAGCACTTAGCAACCCCATGAGGGAA
34668119 TCAGCACTTAGCAACCCC
1 TCAGCACTTAGCAACCCC
34668137 CTTCGTATTC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 22 0.52
31 3 0.07
32 2 0.05
33 15 0.36
ACGTcount: A:0.31, C:0.31, G:0.21, T:0.18
Consensus pattern (27 bp):
TCAGCACTTAGCAACCCCATGAGGGAA
Found at i:34668128 original size:104 final size:104
Alignment explanation
Indices: 34667947--34668139 Score: 323
Period size: 104 Copynumber: 1.9 Consensus size: 104
34667937 TATCCGTTAT
* * *
34667947 CGGTGGATTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTGGGG
1 CGGTGGAGTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGAAACCCCTTGAGG
34668012 GAATAAGAACTTAGCAACCCCCTTTTATATTCAAGGATA
66 GAATAAGAACTTAGCAACCCCCTTTTATATTCAAGGATA
* *
34668051 CGGTGGAGTCAGCACTTAGCAACCGCCAATGAGTCTGGGAATCAGCACTTAGAAACCCCTTGAGG
1 CGGTGGAGTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGAAACCCCTTGAGG
* *
34668116 GAATCAGCACTTAGCAACCCCCTT
66 GAATAAGAACTTAGCAACCCCCTT
34668140 CGTATTCAAT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
104 82 1.00
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.21
Consensus pattern (104 bp):
CGGTGGAGTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGAAACCCCTTGAGG
GAATAAGAACTTAGCAACCCCCTTTTATATTCAAGGATA
Found at i:34674776 original size:33 final size:33
Alignment explanation
Indices: 34674732--34674887 Score: 152
Period size: 33 Copynumber: 4.5 Consensus size: 33
34674722 ATCGGTGGAT
*
34674732 TCAGCACTTAGCAACCACCAGTGATTCAGGGAA
1 TCAGCACTTAGCAACCACCAGTAATTCAGGGAA
* * * *
34674765 TTAGCACTTAGCAACCCCTTCACATTTAAGATACGATGGG-A
1 TCAGCACTTAGCAA--CC-AC-CA-GT-A-ATTC-A-GGGAA
* * *
34674806 TCAGCACTTAGCAACCACTAGTAATCCGGGGAA
1 TCAGCACTTAGCAACCACCAGTAATTCAGGGAA
34674839 TCAGCACTTAGCAACCACCAGTAATTCAGGGAA
1 TCAGCACTTAGCAACCACCAGTAATTCAGGGAA
34674872 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
34674888 CCTTTCACAT
Statistics
Matches: 99, Mismatches: 14, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
32 3 0.03
33 60 0.61
34 3 0.03
35 3 0.03
36 2 0.02
37 3 0.03
38 2 0.02
39 2 0.02
40 3 0.03
41 15 0.15
42 3 0.03
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAGTAATTCAGGGAA
Found at i:34674958 original size:108 final size:107
Alignment explanation
Indices: 34674732--34675066 Score: 425
Period size: 108 Copynumber: 3.1 Consensus size: 107
34674722 ATCGGTGGAT
*
34674732 TCAGCACTTAGCAACCACCAGTGATTCAGGGAATTAGCACTTAGCAACCCC-TTCACATTTAAGA
1 TCAGCACTTAGCAACCACCAGT-ATTCAGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGA
* * * * *
34674796 TACGATGGGATCAGCACTTAGCAACCACTAGT-AATCCGGGGAA
65 TACGGTGGGATCAGCACTTAGCAACCACCAATGAGT-CGAGGAA
34674839 TCAGCACTTAGCAACCACCAGTAATTCAGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGA
1 TCAGCACTTAGCAACCACCAGT-ATTCAGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGA
34674904 TACGGTGGGATCAGCACTTAGCAACCACCAATGAGTCGAGGAA
65 TACGGTGGGATCAGCACTTAGCAACCACCAATGAGTCGAGGAA
* ** * * *
34674947 CCAGCACTTAGCAACC-CC----TTGGGGGAATCAGCACTTAGCAACCCCCTTTTATATTCAAGG
1 TCAGCACTTAGCAACCACCAGTATTCAGGGAATCAGCACTTAGCAA-CCCCTTTCACATTTAA-G
* * *
34675007 ATACGGTGGAATAAACACTTAGCAACCACCAATGAGTC-AGGGAA
64 ATACGGTGGGATCAGCACTTAGCAACCACCAATGAGTCGA-GGAA
34675051 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
34675067 CCCTTCGTAT
Statistics
Matches: 206, Mismatches: 17, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
102 21 0.10
103 14 0.07
104 55 0.27
107 51 0.25
108 63 0.31
109 2 0.01
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (107 bp):
TCAGCACTTAGCAACCACCAGTATTCAGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGAT
ACGGTGGGATCAGCACTTAGCAACCACCAATGAGTCGAGGAA
Found at i:34677355 original size:14 final size:14
Alignment explanation
Indices: 34677336--34677380 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
34677326 TAAGCAATGT
34677336 TAAAGAAAGAGATA
1 TAAAGAAAGAGATA
34677350 TAAAGAATAGA-ATA
1 TAAAGAA-AGAGATA
*
34677364 -AAGGAAAGAGATA
1 TAAAGAAAGAGATA
34677377 TAAA
1 TAAA
34677381 CAATAGAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 3 0.12
13 8 0.31
14 12 0.46
15 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (14 bp):
TAAAGAAAGAGATA
Found at i:34677373 original size:27 final size:27
Alignment explanation
Indices: 34677336--34677397 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
34677326 TAAGCAATGT
*
34677336 TAAA-GAAAGAGATATAAAGAATAGAA
1 TAAAGGAAAGAGATATAAACAATAGAA
34677362 TAAAGGAAAGAGATATAAACAATAGAA
1 TAAAGGAAAGAGATATAAACAATAGAA
34677389 TAAAGGAAA
1 TAAAGGAAA
34677398 AAAGATGCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.65, C:0.02, G:0.19, T:0.15
Consensus pattern (27 bp):
TAAAGGAAAGAGATATAAACAATAGAA
Found at i:34678912 original size:20 final size:20
Alignment explanation
Indices: 34678884--34678922 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34678874 GTACTAATGA
*
34678884 TTGAGTTTTCTCTCACTTTT
1 TTGACTTTTCTCTCACTTTT
* *
34678904 TTGACTTTTTTGTCACTTT
1 TTGACTTTTCTCTCACTTT
34678923 GACTTTTTAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.10, C:0.18, G:0.10, T:0.62
Consensus pattern (20 bp):
TTGACTTTTCTCTCACTTTT
Found at i:34681349 original size:12 final size:12
Alignment explanation
Indices: 34681332--34681359 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
34681322 GTGATAGTTC
34681332 ATGAATGTGTTA
1 ATGAATGTGTTA
34681344 ATGAATGTGTTA
1 ATGAATGTGTTA
34681356 ATGA
1 ATGA
34681360 TCACTTTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.39
Consensus pattern (12 bp):
ATGAATGTGTTA
Found at i:34689995 original size:21 final size:22
Alignment explanation
Indices: 34689964--34690015 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
34689954 CAATTAAGAT
*
34689964 TAATAAAATAAATGAATAAAAG
1 TAATAAAATAAATAAATAAAAG
*
34689986 TAAT-AAATAAATAAATAAAAC
1 TAATAAAATAAATAAATAAAAG
*
34690007 TAACAAAAT
1 TAATAAAAT
34690016 TTAAAGTAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.23
Consensus pattern (22 bp):
TAATAAAATAAATAAATAAAAG
Found at i:34694286 original size:27 final size:27
Alignment explanation
Indices: 34694267--34694544 Score: 367
Period size: 27 Copynumber: 10.3 Consensus size: 27
34694257 GGGTATAACA
*
34694267 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
34694294 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
34694321 GTCATTTCACCCTGTGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
34694348 GTCATTCTACCCTATGGGGATATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
34694375 ATCATTTTACCATATGGGGATATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
34694402 GTCATTCTACCCTATGCGGAGTATTTCG
1 GTCATTTTACCCTATG-GGGGTATTTCG
* * * *
34694430 ATCATTTTACCATATGAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
34694457 GTCATTCTACCTTATGGGGGTATTTCT
1 GTCATTTTACCCTATGGGGGTATTTCG
*
34694484 GTCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
34694511 GTCATTTTACCCTATGGGGGTATTCCG
1 GTCATTTTACCCTATGGGGGTATTTCG
34694538 GTCATTT
1 GTCATTT
34694545 ATCGACCTCT
Statistics
Matches: 216, Mismatches: 34, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 195 0.90
28 21 0.10
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:34694488 original size:136 final size:135
Alignment explanation
Indices: 34694267--34694543 Score: 378
Period size: 136 Copynumber: 2.0 Consensus size: 135
34694257 GGGTATAACA
* * * *
34694267 GTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCATTTCACC
1 GTCATTCTACCCTATGAGGGTATTTCGATCATTTTACCATATGAGGGTATTTCGGTCATTTCACC
*
34694332 CTGTGGGGGTATTTCGGTCATTCTACCCTATGGGGATATTTC-GATCATTTTACCATATGGGGAT
66 CTATGGGGGTATTTCGGTCATTCTACCCTATGGGGATATTTCAG-TCATTTTACCATATGGGGAT
**
34694396 ATTTTG
130 ATTCCG
* *
34694402 GTCATTCTACCCTATGCGGAGTATTTCGATCATTTTACCATATGAGGGTATTTTGGTCA-TTCTA
1 GTCATTCTACCCTATGAGG-GTATTTCGATCATTTTACCATATGAGGGTATTTCGGTCATTTC-A
* * * * * *
34694466 CCTTATGGGGGTATTTCTGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGG
64 CCCTATGGGGGTATTTCGGTCATTCTACCCTATGGGGATATTTCAGTCATTTTACCATATGGGGA
34694531 TATTCCG
129 TATTCCG
34694538 GTCATT
1 GTCATT
34694544 TATCGACCTC
Statistics
Matches: 124, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
135 20 0.16
136 103 0.83
137 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40
Consensus pattern (135 bp):
GTCATTCTACCCTATGAGGGTATTTCGATCATTTTACCATATGAGGGTATTTCGGTCATTTCACC
CTATGGGGGTATTTCGGTCATTCTACCCTATGGGGATATTTCAGTCATTTTACCATATGGGGATA
TTCCG
Found at i:34705332 original size:25 final size:24
Alignment explanation
Indices: 34705287--34705360 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 24
34705277 TTCTAGCTCT
*
34705287 TATGAGCTTATTGATACTCAGCTTG
1 TATGAGCTTA-TGATATTCAGCTTG
* *
34705312 TATGAGCTTACTGCTATTCAGCTCG
1 TATGAGCTTA-TGATATTCAGCTTG
* * *
34705337 AAGGAGCTTATCGTTATTCAGCTT
1 TATGAGCTTAT-GATATTCAGCTT
34705361 AGAGGAGCTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 1 0.03
25 39 0.98
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (24 bp):
TATGAGCTTATGATATTCAGCTTG
Found at i:34709011 original size:35 final size:35
Alignment explanation
Indices: 34708972--34709038 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
34708962 TTTTTTTATT
*
34708972 CTTTAAATGTTTATGTAAATTATGATAATCATAAA
1 CTTTAAATGTTTATGTAAATTATAATAATCATAAA
* *
34709007 CTTTAAATGTTTATGTAAGTTATAATTATCAT
1 CTTTAAATGTTTATGTAAATTATAATAATCAT
34709039 CTTTAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (35 bp):
CTTTAAATGTTTATGTAAATTATAATAATCATAAA
Found at i:34709057 original size:13 final size:13
Alignment explanation
Indices: 34709039--34709065 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34709029 TAATTATCAT
34709039 CTTTAAATTTTAA
1 CTTTAAATTTTAA
34709052 CTTTAAATTTTAA
1 CTTTAAATTTTAA
34709065 C
1 C
34709066 CCTTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (13 bp):
CTTTAAATTTTAA
Found at i:34711309 original size:22 final size:23
Alignment explanation
Indices: 34711256--34711311 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
34711246 TTTAATTAAA
* * *
34711256 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
34711279 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
34711301 ATTAAAATTAA
1 ATTAAAATTAA
34711312 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:34711324 original size:16 final size:16
Alignment explanation
Indices: 34711287--34711326 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
34711277 TTAATAAAAT
* *
34711287 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
34711303 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
34711319 TAAAATTA
1 TAAAATTA
34711327 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:34711396 original size:66 final size:67
Alignment explanation
Indices: 34711315--34711457 Score: 234
Period size: 68 Copynumber: 2.1 Consensus size: 67
34711305 AAATTAATTG
*
34711315 TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
*
34711379 GA
66 AA
* *
34711381 TTAGTAAATTTATCAAATTATTATTTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
34711446 TAA
65 TAA
34711449 TTAGTAAAA
1 TTAGTAAAA
34711458 CAAACTTGAT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 25 0.36
68 45 0.64
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.45
Consensus pattern (67 bp):
TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
AA
Found at i:34711563 original size:22 final size:24
Alignment explanation
Indices: 34711523--34711566 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
34711513 AAATAAACTT
34711523 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
34711547 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
34711567 AATATTATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:34712569 original size:21 final size:22
Alignment explanation
Indices: 34712534--34712575 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
34712524 TCTTTGATCG
*
34712534 TAAAACAATTCTTTAAAAATTT
1 TAAAACAATGCTTTAAAAATTT
34712556 TAAAA-AATGCTTTAAAAATT
1 TAAAACAATGCTTTAAAAATT
34712576 CAAATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAAACAATGCTTTAAAAATTT
Found at i:34714027 original size:48 final size:48
Alignment explanation
Indices: 34713966--34714090 Score: 160
Period size: 48 Copynumber: 2.6 Consensus size: 48
34713956 TATATTTTTC
* * * * *
34713966 TCAAGCAACGAAAAGACTGAGAAATAAAAGGGGCGGGATTTTGGGGTT
1 TCAAGCAAAGAAAAGACTGAGAAAGAAAAGGGACCGAATTTTGGGGTT
* ** *
34714014 TCAAGTAAAGAAAAGTTTGAGAACGAAAAGGGACCGAATTTTGGGGTT
1 TCAAGCAAAGAAAAGACTGAGAAAGAAAAGGGACCGAATTTTGGGGTT
*
34714062 TCAAGCAAACAAAAGACTGAGAAAGAAAA
1 TCAAGCAAAGAAAAGACTGAGAAAGAAAA
34714091 TAATTCGTGT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.44, C:0.10, G:0.28, T:0.18
Consensus pattern (48 bp):
TCAAGCAAAGAAAAGACTGAGAAAGAAAAGGGACCGAATTTTGGGGTT
Found at i:34714208 original size:41 final size:41
Alignment explanation
Indices: 34714163--34714259 Score: 115
Period size: 41 Copynumber: 2.4 Consensus size: 41
34714153 AAAAAAAAAA
* **
34714163 TTGTGGC-TTTTTTTCCATAAATGCCGCTATTGCTTTACCTG
1 TTGTGGCGTTTTTCT-CATAAACACCGCTATTGCTTTACCTG
* * *
34714204 TTGTGGCGTTTTTCTCATAAACACCGCTATTGTTTTACTTA
1 TTGTGGCGTTTTTCTCATAAACACCGCTATTGCTTTACCTG
*
34714245 TTGCGGCGTTTTTCT
1 TTGTGGCGTTTTTCT
34714260 ATTAGCGCCA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 42 0.88
42 6 0.12
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (41 bp):
TTGTGGCGTTTTTCTCATAAACACCGCTATTGCTTTACCTG
Found at i:34721394 original size:19 final size:19
Alignment explanation
Indices: 34721347--34721414 Score: 82
Period size: 19 Copynumber: 3.4 Consensus size: 19
34721337 AAATTAAATC
*
34721347 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
34721367 TTTTCTAAGATTGCATATCATA
1 ---TCTAAGATTACATATCATA
34721389 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
34721408 TCTAAGA
1 TCTAAGA
34721415 ATGAATATCC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 25 0.60
22 7 0.17
23 10 0.24
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:34721422 original size:19 final size:19
Alignment explanation
Indices: 34721370--34721423 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
34721360 AATCATATTT
* *
34721370 TCTAAGATTGCATATCATA
1 TCTAAGAATGAATATCATA
*
34721389 TCTAAG-ATTACATATCATA
1 TCTAAGAATGA-ATATCATA
34721408 TCTAAGAATGAATATC
1 TCTAAGAATGAATATC
34721424 CTTGAAGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.03
19 25 0.86
20 3 0.10
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (19 bp):
TCTAAGAATGAATATCATA
Found at i:34721423 original size:38 final size:40
Alignment explanation
Indices: 34721347--34721423 Score: 95
Period size: 38 Copynumber: 1.9 Consensus size: 40
34721337 AAATTAAATC
* *
34721347 TCTAAGATTACAAAATCATATTTTCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGAATGAATATCATA
*
34721389 TCTAAGATTAC-ATATCATA-TCTAAGAATGAATATC
1 TCTAAGATTACAAAATCATATTCTAAGAATGAATATC
34721424 CTTGAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 14 0.44
41 7 0.22
42 11 0.34
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGAATGAATATCATA
Found at i:34721495 original size:1 final size:1
Alignment explanation
Indices: 34721489--34721517 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
34721479 NNNNNNNNNN
34721489 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
34721518 GGAAAACACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:34726512 original size:19 final size:19
Alignment explanation
Indices: 34726488--34726533 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
34726478 AACCAAAATT
*
34726488 TATTTTACTTTATTATATA
1 TATTTTACTTTATTATACA
*
34726507 TATTTTAATTTTATTATACA
1 TATTTT-ACTTTATTATACA
34726527 TATTTTA
1 TATTTTA
34726534 TTACCTCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (19 bp):
TATTTTACTTTATTATACA
Found at i:34726521 original size:20 final size:20
Alignment explanation
Indices: 34726496--34726533 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
34726486 TTTATTTTAC
*
34726496 TTTATTATATATATTTTAAT
1 TTTATTATACATATTTTAAT
34726516 TTTATTATACATATTTTA
1 TTTATTATACATATTTTA
34726534 TTACCTCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTATTATACATATTTTAAT
Found at i:34736745 original size:26 final size:26
Alignment explanation
Indices: 34736707--34736767 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
34736697 TACCCTTTGG
* * *
34736707 GGGTATTTCGATAATTTTCCTATCAA
1 GGGTATTTTGATAATTTACCCATCAA
*
34736733 GGGTATTTTGATAATTTACCCATCGA
1 GGGTATTTTGATAATTTACCCATCAA
34736759 GGGTATTTT
1 GGGTATTTT
34736768 AGTACAGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.43
Consensus pattern (26 bp):
GGGTATTTTGATAATTTACCCATCAA
Found at i:34737022 original size:19 final size:19
Alignment explanation
Indices: 34736987--34737029 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
34736977 GTGTGGGGCC
*
34736987 CACGAGCCCATTGGACCCA
1 CACGAGCCCATTCGACCCA
34737006 CACGA-CCCATTTCGACCCA
1 CACGAGCCCA-TTCGACCCA
34737025 -ACGAG
1 CACGAG
34737030 GCTCATAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.28, C:0.42, G:0.19, T:0.12
Consensus pattern (19 bp):
CACGAGCCCATTCGACCCA
Found at i:34741288 original size:223 final size:223
Alignment explanation
Indices: 34740900--34741345 Score: 856
Period size: 223 Copynumber: 2.0 Consensus size: 223
34740890 CCTAAAAATA
34740900 ATTATTTATGAATGCAATTTAAAACACTTTGGTGAAGAAAAATATTTTGGTTTGAGGAAGTGATT
1 ATTATTTATGAATGCAATTTAAAACACTTTGGTGAAGAAAAATATTTTGGTTTGAGGAAGTGATT
*
34740965 AACAATTTGGACTTTTACCAAGTAAAATAAATAAAAATAAAATAAAAGTTCCAATGCACGATTTC
66 AAAAATTTGGACTTTTACCAAGTAAAATAAATAAAAATAAAATAAAAGTTCCAATGCACGATTTC
* *
34741030 AAAAGATGATTTTAATCAAGAAGACATAATTGTGCTAGATTAATTACATTTATTAACTTAGAATT
131 AAAAGATGATTTTAATCAAGAAGACATAATTGTGCTAGATGAATTACATGTATTAACTTAGAATT
34741095 ATTAAACTAATGTTCATGTTGTTACTAT
196 ATTAAACTAATGTTCATGTTGTTACTAT
34741123 ATTATTTATGAATGCAATTTAAAACACTTTGGTGAAGAAAAATATTTTGGTTTGAGGAAGTGATT
1 ATTATTTATGAATGCAATTTAAAACACTTTGGTGAAGAAAAATATTTTGGTTTGAGGAAGTGATT
*
34741188 AAAAATTTGGATTTTTACCAAGTAAAATAAATAAAAATAAAATAAAAGTTCCAATGCACGATTTC
66 AAAAATTTGGACTTTTACCAAGTAAAATAAATAAAAATAAAATAAAAGTTCCAATGCACGATTTC
34741253 AAAAGATGATTTTAATCAAGAAGACATAATTGTGCTAGATGAATTACATGTATTAACTTAGAATT
131 AAAAGATGATTTTAATCAAGAAGACATAATTGTGCTAGATGAATTACATGTATTAACTTAGAATT
34741318 ATTAAACTAATGTTCATGTTGTTACTAT
196 ATTAAACTAATGTTCATGTTGTTACTAT
34741346 TAAATTCACG
Statistics
Matches: 219, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
223 219 1.00
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.36
Consensus pattern (223 bp):
ATTATTTATGAATGCAATTTAAAACACTTTGGTGAAGAAAAATATTTTGGTTTGAGGAAGTGATT
AAAAATTTGGACTTTTACCAAGTAAAATAAATAAAAATAAAATAAAAGTTCCAATGCACGATTTC
AAAAGATGATTTTAATCAAGAAGACATAATTGTGCTAGATGAATTACATGTATTAACTTAGAATT
ATTAAACTAATGTTCATGTTGTTACTAT
Found at i:34741525 original size:64 final size:64
Alignment explanation
Indices: 34741424--34741551 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
34741414 TTGACTATAT
34741424 CTCTATGTCAATTCAATCGATTAAAAAAATTTTAATAAGCAAATGTGTTAATGCACATACATAC
1 CTCTATGTCAATTCAATCGATTAAAAAAATTTTAATAAGCAAATGTGTTAATGCACATACATAC
* *
34741488 CTCTATGTTAATTCAATCGATTAAACAAATTTTAATAAGCAAATGTGTTAATGCACATACATAC
1 CTCTATGTCAATTCAATCGATTAAAAAAATTTTAATAAGCAAATGTGTTAATGCACATACATAC
34741552 TTATGAAATT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (64 bp):
CTCTATGTCAATTCAATCGATTAAAAAAATTTTAATAAGCAAATGTGTTAATGCACATACATAC
Found at i:34743440 original size:64 final size:64
Alignment explanation
Indices: 34743339--34743530 Score: 366
Period size: 64 Copynumber: 3.0 Consensus size: 64
34743329 TTGACTATAT
* *
34743339 CTCTATGTCAATTCAATCGATTAAAAAAATTTTAATAAGCAAATGTGTTAATGCACATACATAC
1 CTCTATGTTAATTCAATCGATTAAACAAATTTTAATAAGCAAATGTGTTAATGCACATACATAC
34743403 CTCTATGTTAATTCAATCGATTAAACAAATTTTAATAAGCAAATGTGTTAATGCACATACATAC
1 CTCTATGTTAATTCAATCGATTAAACAAATTTTAATAAGCAAATGTGTTAATGCACATACATAC
34743467 CTCTATGTTAATTCAATCGATTAAACAAATTTTAATAAGCAAATGTGTTAATGCACATACATAC
1 CTCTATGTTAATTCAATCGATTAAACAAATTTTAATAAGCAAATGTGTTAATGCACATACATAC
34743531 TTATGAAATT
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 126 1.00
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (64 bp):
CTCTATGTTAATTCAATCGATTAAACAAATTTTAATAAGCAAATGTGTTAATGCACATACATAC
Found at i:34744723 original size:40 final size:40
Alignment explanation
Indices: 34744634--34744859 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
34744624 GACTAGCATA
* * *
34744634 AAGCTTGCGAGGCACTAAGCCT-AAGT-AC-CACCGACACG
1 AAGCCTGCTAGGCACTAAGCCTGAA-TAACACACCGGCACG
** * *
34744672 AAGCCTGCTAGGTGCTAAACCTGAATAACACACTGGCACG
1 AAGCCTGCTAGGCACTAAGCCTGAATAACACACCGGCACG
** * *
34744712 AAGCCTGCTAGGCACTAAGCCTGAATAACACAATGACATG
1 AAGCCTGCTAGGCACTAAGCCTGAATAACACACCGGCACG
*
34744752 AAGCCTGCTAGGCACTAAGCCTGAATAACACACCGGCATG
1 AAGCCTGCTAGGCACTAAGCCTGAATAACACACCGGCACG
* *
34744792 AAGCCTGCTAAGCACTAAGCCTGAATAACACACCGGCACA
1 AAGCCTGCTAGGCACTAAGCCTGAATAACACACCGGCACG
* **
34744832 AAACCTAATAGGCACTAAGCCTGAATAA
1 AAGCCTGCTAGGCACTAAGCCTGAATAA
34744860 TTATAAGGTA
Statistics
Matches: 162, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
38 18 0.11
39 4 0.02
40 140 0.86
ACGTcount: A:0.36, C:0.28, G:0.20, T:0.15
Consensus pattern (40 bp):
AAGCCTGCTAGGCACTAAGCCTGAATAACACACCGGCACG
Found at i:34744815 original size:120 final size:116
Alignment explanation
Indices: 34744587--34744859 Score: 309
Period size: 120 Copynumber: 2.3 Consensus size: 116
34744577 AAAACTTGAT
* * ** * *
34744587 ACACCAGCACAAAGCCTGCTAGGCATTAAGCCT-AAT-TGACTAGCATAAAGCTTGCGAGGCACT
1 ACACCGGCACAAAGCCTGCTAGGCACTAAGCCTGAATAACACAAGCATAAAGCCTGCGAGGCACT
* **
34744650 AAGCCTAAGTACCACCGACACGAAGCCTGCTAGGTGCTAAACCTGAATAAC
66 AAGCCTAAGTACCACCGACACGAAGCCTGCTAAGCACTAAACCTGAATAAC
* * * *
34744701 ACACTGGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACAATGACATGAAGCCTGCTAGGCA
1 ACACCGGCACAAAGCCTGCTAGGCACTAAGCCTGAATAACACAA-G-CATAAAGCCTGCGAGGCA
* * *
34744766 CTAAGCCTGAA-TAACACACCGGCATGAAGCCTGCTAAGCACTAAGCCTGAATAAC
64 CTAAGCCT-AAGT-AC-CACCGACACGAAGCCTGCTAAGCACTAAACCTGAATAAC
* **
34744821 ACACCGGCACAAAACCTAATAGGCACTAAGCCTGAATAA
1 ACACCGGCACAAAGCCTGCTAGGCACTAAGCCTGAATAA
34744860 TTATAAGGTA
Statistics
Matches: 131, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
114 29 0.22
115 3 0.02
116 3 0.02
117 1 0.01
118 24 0.18
119 4 0.03
120 67 0.51
ACGTcount: A:0.36, C:0.28, G:0.20, T:0.16
Consensus pattern (116 bp):
ACACCGGCACAAAGCCTGCTAGGCACTAAGCCTGAATAACACAAGCATAAAGCCTGCGAGGCACT
AAGCCTAAGTACCACCGACACGAAGCCTGCTAAGCACTAAACCTGAATAAC
Found at i:34752866 original size:592 final size:592
Alignment explanation
Indices: 34751742--34752925 Score: 2368
Period size: 592 Copynumber: 2.0 Consensus size: 592
34751732 AATTTTTGTC
34751742 CATCTTCAACCCCTAGACCGAAAATTGCATGGAGAAACCATGGATAGGGTTTTTCAAGCTTCCAA
1 CATCTTCAACCCCTAGACCGAAAATTGCATGGAGAAACCATGGATAGGGTTTTTCAAGCTTCCAA
34751807 GCTCGATTGTAAGTCCGTTCTATCCATATTTTTAATGATTTTTAGTTTTTGAAATCCTCGTAACA
66 GCTCGATTGTAAGTCCGTTCTATCCATATTTTTAATGATTTTTAGTTTTTGAAATCCTCGTAACA
34751872 AGATTTACCTATTTTTACCATTTTTTTAAACTAGATTTTGTGTTTAAAAATTTACCTATGAATGA
131 AGATTTACCTATTTTTACCATTTTTTTAAACTAGATTTTGTGTTTAAAAATTTACCTATGAATGA
34751937 TATGTATGTATTTTGATGTTTTATGGAATAATATGAATGTTTGGAGTGTGATAAACGATTTGTAC
196 TATGTATGTATTTTGATGTTTTATGGAATAATATGAATGTTTGGAGTGTGATAAACGATTTGTAC
34752002 TAAGTAATTTTCGATGAAAATGCCTAAAAGGATTAATTTGTAAAAGTTATAAAATGTCACAAGTG
261 TAAGTAATTTTCGATGAAAATGCCTAAAAGGATTAATTTGTAAAAGTTATAAAATGTCACAAGTG
34752067 TGTGAATAAGTGAGTATTGTGAACTGCTATAGTTATGAAAATGGTTTAGCTAGGCCTAAAATGCA
326 TGTGAATAAGTGAGTATTGTGAACTGCTATAGTTATGAAAATGGTTTAGCTAGGCCTAAAATGCA
34752132 AGGAAATTAAATAAAAATTATTTTACGAGCCTAGGGGCAAAACCGTAATTTTGTGAAACTTTAGG
391 AGGAAATTAAATAAAAATTATTTTACGAGCCTAGGGGCAAAACCGTAATTTTGTGAAACTTTAGG
34752197 GGCAAAAACATAATTTTTCCAAAGTATGATTTTTTGACTGGAATGAATAGTGTGAAGGTTATATA
456 GGCAAAAACATAATTTTTCCAAAGTATGATTTTTTGACTGGAATGAATAGTGTGAAGGTTATATA
34752262 AGTTAAATGTATTGTTATAATCAAGAAAGGCGAGAAATTGAAATTGATCGATAAAAAGAAAAGTG
521 AGTTAAATGTATTGTTATAATCAAGAAAGGCGAGAAATTGAAATTGATCGATAAAAAGAAAAGTG
34752327 AGAAAAT
586 AGAAAAT
34752334 CATCTTCAACCCCTAGACCGAAAATTGCATGGAGAAACCATGGATAGGGTTTTTCAAGCTTCCAA
1 CATCTTCAACCCCTAGACCGAAAATTGCATGGAGAAACCATGGATAGGGTTTTTCAAGCTTCCAA
34752399 GCTCGATTGTAAGTCCGTTCTATCCATATTTTTAATGATTTTTAGTTTTTGAAATCCTCGTAACA
66 GCTCGATTGTAAGTCCGTTCTATCCATATTTTTAATGATTTTTAGTTTTTGAAATCCTCGTAACA
34752464 AGATTTACCTATTTTTACCATTTTTTTAAACTAGATTTTGTGTTTAAAAATTTACCTATGAATGA
131 AGATTTACCTATTTTTACCATTTTTTTAAACTAGATTTTGTGTTTAAAAATTTACCTATGAATGA
34752529 TATGTATGTATTTTGATGTTTTATGGAATAATATGAATGTTTGGAGTGTGATAAACGATTTGTAC
196 TATGTATGTATTTTGATGTTTTATGGAATAATATGAATGTTTGGAGTGTGATAAACGATTTGTAC
34752594 TAAGTAATTTTCGATGAAAATGCCTAAAAGGATTAATTTGTAAAAGTTATAAAATGTCACAAGTG
261 TAAGTAATTTTCGATGAAAATGCCTAAAAGGATTAATTTGTAAAAGTTATAAAATGTCACAAGTG
34752659 TGTGAATAAGTGAGTATTGTGAACTGCTATAGTTATGAAAATGGTTTAGCTAGGCCTAAAATGCA
326 TGTGAATAAGTGAGTATTGTGAACTGCTATAGTTATGAAAATGGTTTAGCTAGGCCTAAAATGCA
34752724 AGGAAATTAAATAAAAATTATTTTACGAGCCTAGGGGCAAAACCGTAATTTTGTGAAACTTTAGG
391 AGGAAATTAAATAAAAATTATTTTACGAGCCTAGGGGCAAAACCGTAATTTTGTGAAACTTTAGG
34752789 GGCAAAAACATAATTTTTCCAAAGTATGATTTTTTGACTGGAATGAATAGTGTGAAGGTTATATA
456 GGCAAAAACATAATTTTTCCAAAGTATGATTTTTTGACTGGAATGAATAGTGTGAAGGTTATATA
34752854 AGTTAAATGTATTGTTATAATCAAGAAAGGCGAGAAATTGAAATTGATCGATAAAAAGAAAAGTG
521 AGTTAAATGTATTGTTATAATCAAGAAAGGCGAGAAATTGAAATTGATCGATAAAAAGAAAAGTG
34752919 AGAAAAT
586 AGAAAAT
34752926 GTGAAAAATT
Statistics
Matches: 592, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
592 592 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (592 bp):
CATCTTCAACCCCTAGACCGAAAATTGCATGGAGAAACCATGGATAGGGTTTTTCAAGCTTCCAA
GCTCGATTGTAAGTCCGTTCTATCCATATTTTTAATGATTTTTAGTTTTTGAAATCCTCGTAACA
AGATTTACCTATTTTTACCATTTTTTTAAACTAGATTTTGTGTTTAAAAATTTACCTATGAATGA
TATGTATGTATTTTGATGTTTTATGGAATAATATGAATGTTTGGAGTGTGATAAACGATTTGTAC
TAAGTAATTTTCGATGAAAATGCCTAAAAGGATTAATTTGTAAAAGTTATAAAATGTCACAAGTG
TGTGAATAAGTGAGTATTGTGAACTGCTATAGTTATGAAAATGGTTTAGCTAGGCCTAAAATGCA
AGGAAATTAAATAAAAATTATTTTACGAGCCTAGGGGCAAAACCGTAATTTTGTGAAACTTTAGG
GGCAAAAACATAATTTTTCCAAAGTATGATTTTTTGACTGGAATGAATAGTGTGAAGGTTATATA
AGTTAAATGTATTGTTATAATCAAGAAAGGCGAGAAATTGAAATTGATCGATAAAAAGAAAAGTG
AGAAAAT
Found at i:34753131 original size:50 final size:49
Alignment explanation
Indices: 34753037--34753214 Score: 187
Period size: 51 Copynumber: 3.6 Consensus size: 49
34753027 AAAGTGAAAG
* *
34753037 TGAT-GGTCACGTGTGTAGTACTATGTGCATGCTACTACGTGTACCAGAA
1 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAG-A
* * * *
34753086 TGATAGGTCGCATGTGCAGTACTATGTGCAGGCTACTATGCGTACCAGA
1 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA
* * * * * * *
34753135 TAGTTTCGATCACGTGTGTAGTACTATGTGCAGGCTACTAGGTGTATCGGA
1 T-G-ATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA
34753186 TGATAATGGTCACATGTGTAGTACTATGT
1 TGAT-A-GGTCACATGTGTAGTACTATGT
34753215 AAATCCTACT
Statistics
Matches: 104, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
49 7 0.07
50 39 0.38
51 58 0.56
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (49 bp):
TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA
Found at i:34753287 original size:45 final size:45
Alignment explanation
Indices: 34753231--34753325 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
34753221 TACTATATGA
* *
34753231 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGTTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGTTGAATCC
*
34753276 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGTTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGTTGAATCC
34753321 ACCGA
1 ACCGA
34753326 GTATCGTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGTTGAATCC
Found at i:34760636 original size:6 final size:6
Alignment explanation
Indices: 34760625--34760652 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
34760615 AGGCCACTAT
34760625 GTGAAA GTGAAA GTGAAA GTGAAA GTGA
1 GTGAAA GTGAAA GTGAAA GTGAAA GTGA
34760653 TGGTCACGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.36, T:0.18
Consensus pattern (6 bp):
GTGAAA
Found at i:34760775 original size:51 final size:50
Alignment explanation
Indices: 34760708--34760839 Score: 167
Period size: 51 Copynumber: 2.6 Consensus size: 50
34760698 TGATAGGTCG
*
34760708 CATGTGTAATACTATGTGCAGGCTACTATGCATACCGGATAGCT-TCGATCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAG-TAT-GATCA
* * ** * *
34760759 CATGTGTAGTACTATGTACAGGCTACTACGTGTATCGGATAGTGATGGTCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGT-ATGATCA
34760810 CATGTGTAGTACTATGTGCAGGCTACTATG
1 CATGTGTAGTACTATGTGCAGGCTACTATG
34760840 TGAACCGGTA
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 1 0.01
51 68 0.97
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
CATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGTATGATCA
Found at i:34760841 original size:26 final size:26
Alignment explanation
Indices: 34760760--34760841 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
34760750 CTTCGATCAC
*
34760760 ATGTGTAGTACTATGTACAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* *
34760786 ACGTGTA-T-CGGATAGTG-ATGG-TCAC-
1 ATGTGTAGTAC-TAT-GTGCA-GGCT-ACT
34760811 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
34760837 ATGTG
1 ATGTG
34760842 AACCGGTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 18
0.65 0.08 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:34761414 original size:51 final size:51
Alignment explanation
Indices: 34761286--34761478 Score: 212
Period size: 51 Copynumber: 3.8 Consensus size: 51
34761276 TGAAAGTGAA
* * * *** *
34761286 AGTGATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACATGTACTAGA-
1 AGTGATGATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAT
*
34761336 A-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAT
1 AGTGAT-GATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAT
* ** * * *
34761387 AGCT-TTGATCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAT
1 AG-TGATGATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAT
*
34761438 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATG
1 AGTGATGATCACATGTGTAGTACTATGTGCAGGCTACTATG
34761479 TGAACCGATA
Statistics
Matches: 120, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
49 4 0.03
50 40 0.33
51 74 0.62
52 1 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
AGTGATGATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAT
Found at i:34761480 original size:26 final size:26
Alignment explanation
Indices: 34761400--34761480 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
34761390 TTTGATCATG
34761400 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
34761426 CGTGTA-T-CAGATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
34761451 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
34761477 TGTG
1 TGTG
34761481 AACCGATACC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:34761725 original size:16 final size:16
Alignment explanation
Indices: 34761704--34761735 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34761694 TGATTGAAAG
*
34761704 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
34761720 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
34761736 GCAACAAAAC
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:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:34765058 original size:51 final size:51
Alignment explanation
Indices: 34764930--34765122 Score: 203
Period size: 51 Copynumber: 3.8 Consensus size: 51
34764920 TGAAAGTGAA
* * * *** *
34764930 AGTGATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACATGTACTAGA-
1 AGTGATGATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAT
*
34764980 A-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAT
1 AGTGAT-GATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAT
* ** * * * *
34765031 AGCT-TTGATCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT
1 AG-TGATGATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAT
*
34765082 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATG
1 AGTGATGATCACATGTGTAGTACTATGTGCAGGCTACTATG
34765123 TGAACCGATA
Statistics
Matches: 119, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
49 4 0.03
50 40 0.34
51 73 0.61
52 1 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
AGTGATGATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAT
Found at i:34765124 original size:26 final size:26
Alignment explanation
Indices: 34765044--34765124 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
34765034 TTTGATCATG
34765044 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
34765070 CGTGTA-T-CGGATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
34765095 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
34765121 TGTG
1 TGTG
34765125 AACCGATACC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:34770154 original size:26 final size:26
Alignment explanation
Indices: 34770074--34770154 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
34770064 GATGGTCACG
34770074 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
34770100 CGTGTA-T-CAGATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
34770125 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
34770151 TGTG
1 TGTG
34770155 AACCGGTATC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:34771941 original size:51 final size:51
Alignment explanation
Indices: 34771808--34771994 Score: 193
Period size: 51 Copynumber: 3.7 Consensus size: 51
34771798 AGTGAAAGTG
* * *
34771808 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACTGGA-A-TG
1 ATGGTCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAGTA
*** * *
34771857 ATAGGTCGCATGTGTAGTACTATGTGCTGGCTACTACGCGTACTGGATAGT-
1 AT-GGTCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAGTA
* * * *
34771908 TTCGGTCATGTGTATAGTACTATGTGCATGCTACTACGTGTA-TCGGATGGTA
1 AT-GGTCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTACT-GGATAGTA
* *
34771960 ATGGTCATATGTGTAGTACTACGTGCAGGCTACTA
1 ATGGTCATGTGTGTAGTACTATGTGCAGGCTACTA
34771995 TGTGAACCGA
Statistics
Matches: 113, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
49 2 0.02
50 40 0.35
51 69 0.61
52 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.33
Consensus pattern (51 bp):
ATGGTCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAGTA
Found at i:34771941 original size:101 final size:102
Alignment explanation
Indices: 34771810--34771994 Score: 250
Period size: 101 Copynumber: 1.8 Consensus size: 102
34771800 TGAAAGTGAT
* * *
34771810 GGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTA-CTGGAATGAT-A-GGTCGCATGTGT
1 GGTCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATC-GG-ATGATAATGGTCACATGTGT
* *
34771872 AGTACTATGTGCTGGCTACTACGCGTACTGGATAGTTTC
64 AGTACTACGTGCAGGCTACTACGCGTACTGGATAGTTTC
* * * *
34771911 GGTCATGTGTATAGTACTATGTGCATGCTACTACGTGTATCGGATGGTAATGGTCATATGTGTAG
1 GGTCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCGGATGATAATGGTCACATGTGTAG
34771976 TACTACGTGCAGGCTACTA
66 TACTACGTGCAGGCTACTA
34771995 TGTGAACCGA
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
100 4 0.06
101 38 0.53
102 30 0.42
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (102 bp):
GGTCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCGGATGATAATGGTCACATGTGTAG
TACTACGTGCAGGCTACTACGCGTACTGGATAGTTTC
Found at i:34772091 original size:45 final size:45
Alignment explanation
Indices: 34772000--34772091 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
34771990 TACTATGTGA
* * * *
34772000 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGTTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCC
*
34772045 ACCGGACATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCC
34772090 AC
1 AC
34772092 TGAGTATCTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCC
Found at i:34794907 original size:41 final size:41
Alignment explanation
Indices: 34794780--34794907 Score: 157
Period size: 41 Copynumber: 3.1 Consensus size: 41
34794770 CTTTCGAAAA
* * * *
34794780 TTTAGCGGCATTTTTGAGGAAGCGCCGCTAAGGCTCGGGGC
1 TTTAACGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * *
34794821 TTTAGCGGCATTTTTAAGAAAGCACCGCTAATGCTCAGGGC
1 TTTAACGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * * *
34794862 TTTAATGGCGTTTTTGAGAAAGCGCTGCTAATGCTCAGGGA
1 TTTAACGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
34794903 TTTAA
1 TTTAA
34794908 AATAATTTAA
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (41 bp):
TTTAACGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:34795180 original size:7 final size:7
Alignment explanation
Indices: 34795168--34795198 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
34795158 GGTTTAGAGG
34795168 TTATGGT
1 TTATGGT
34795175 TTATGGT
1 TTATGGT
34795182 TTATGGT
1 TTATGGT
34795189 TTATGGT
1 TTATGGT
34795196 TTA
1 TTA
34795199 AAGGTTGGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.26, T:0.58
Consensus pattern (7 bp):
TTATGGT
Found at i:34795184 original size:21 final size:22
Alignment explanation
Indices: 34795153--34795198 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
34795143 GGTTTATAGA
34795153 TTATGGGTTTA-GAGGTTATGGT
1 TTATGGGTTTATG-GGTTATGGT
*
34795175 TTAT-GGTTTATGGTTTATGGT
1 TTATGGGTTTATGGGTTATGGT
34795196 TTA
1 TTA
34795199 AAGGTTGGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.52
Consensus pattern (22 bp):
TTATGGGTTTATGGGTTATGGT
Found at i:34795210 original size:21 final size:21
Alignment explanation
Indices: 34795186--34795225 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
34795176 TATGGTTTAT
*
34795186 GGTTTATGGTTTAAAGGTTGG
1 GGTTTAAGGTTTAAAGGTTGG
*
34795207 GGTTTAAGGTTTAGAGGTT
1 GGTTTAAGGTTTAAAGGTT
34795226 ATGTATTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (21 bp):
GGTTTAAGGTTTAAAGGTTGG
Found at i:34795276 original size:35 final size:37
Alignment explanation
Indices: 34795209--34795278 Score: 99
Period size: 35 Copynumber: 1.9 Consensus size: 37
34795199 AAGGTTGGGG
34795209 TTTAAGGTTTAGAGGTTATGTATTAAGGGTTTAGAGT
1 TTTAAGGTTTAGAGGTTATGTATTAAGGGTTTAGAGT
* * *
34795246 TTTAGGGTTTAGA-TTTATG-ATTTAGGGTTTAGA
1 TTTAAGGTTTAGAGGTTATGTATTAAGGGTTTAGA
34795279 TTAACTAGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 13 0.43
36 5 0.17
37 12 0.40
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.46
Consensus pattern (37 bp):
TTTAAGGTTTAGAGGTTATGTATTAAGGGTTTAGAGT
Found at i:34795606 original size:7 final size:7
Alignment explanation
Indices: 34795596--34795628 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
34795586 GGGTTTTATA
34795596 GTTTAAG
1 GTTTAAG
34795603 GTTTAAG
1 GTTTAAG
34795610 GTTTAAG
1 GTTTAAG
*
34795617 GTTTAAT
1 GTTTAAG
34795624 GTTTA
1 GTTTA
34795629 GTATTTTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.48
Consensus pattern (7 bp):
GTTTAAG
Found at i:34796747 original size:6 final size:6
Alignment explanation
Indices: 34796723--34796765 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
34796713 GAATGAATCG
* * * *
34796723 GCGTCT GCATCT GCATCT GTGTCT GCGTCT GCGTCA GCGTCT G
1 GCGTCT GCGTCT GCGTCT GCGTCT GCGTCT GCGTCT GCGTCT G
34796766 TGGATAAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.07, C:0.30, G:0.30, T:0.33
Consensus pattern (6 bp):
GCGTCT
Found at i:34801224 original size:42 final size:42
Alignment explanation
Indices: 34801131--34801282 Score: 216
Period size: 42 Copynumber: 3.6 Consensus size: 42
34801121 TCAAAGCATT
* * *
34801131 GCTAAAAGTCTTGAGCTATAGCGGTGTTTGTGGA-AAAAGCGCC
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGT--ATAAAAGCGCC
34801174 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTATAAAAGCGCC
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTATAAAAGCGCC
* * *
34801216 GCTAAAGGTCTTGATCTATGGCGGCGTTTGTGTAAAAGTGCC
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTATAAAAGCGCC
*
34801258 GCTAAAGGTCCTGATCTATAGCGGC
1 GCTAAAGGTCTTGATCTATAGCGGC
34801283 ATTTATTTCT
Statistics
Matches: 100, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
41 1 0.01
42 71 0.71
43 28 0.28
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (42 bp):
GCTAAAGGTCTTGATCTATAGCGGCGTTTGTATAAAAGCGCC
Found at i:34806007 original size:25 final size:25
Alignment explanation
Indices: 34805969--34806062 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 25
34805959 CATTTACATA
*
34805969 TATGCTCATACGAGCTGTGAATCGG
1 TATGCTCACACGAGCTGTGAATCGG
* *
34805994 TATGCTCACTCGAGCTGT-AGATCAG
1 TATGCTCACACGAGCTGTGA-ATCGG
* * * * *
34806019 TATGCTCTCACAAGCTATAAATCGA
1 TATGCTCACACGAGCTGTGAATCGG
*
34806044 TATGCTCACACGAGTTGTG
1 TATGCTCACACGAGCTGTG
34806063 GGTCATAATG
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
24 1 0.02
25 51 0.96
26 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (25 bp):
TATGCTCACACGAGCTGTGAATCGG
Found at i:34807738 original size:55 final size:55
Alignment explanation
Indices: 34807653--34807797 Score: 175
Period size: 55 Copynumber: 2.6 Consensus size: 55
34807643 CAGAAAATGA
* * **
34807653 AAGCCTTTGTCGCAATCTATGAATTGGAAGCTTTCATGATGTATCTATAAAACAG
1 AAGCCTTTGTGGCAATCTATGAAATGGAAGCTTTCATGACATATCTATAAAACAG
* * * * **
34807708 AAGCCTTTATGGCAATCTATGAAATAGAAGCCTTCGTGACATATCTATAAAATGG
1 AAGCCTTTGTGGCAATCTATGAAATGGAAGCTTTCATGACATATCTATAAAACAG
34807763 AAGCCTTTGTGAG-AATCTATGAAATGGAAGTCTTT
1 AAGCCTTTGTG-GCAATCTATGAAATGGAAG-CTTT
34807798 GAGGCAATCT
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
55 71 0.95
56 4 0.05
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (55 bp):
AAGCCTTTGTGGCAATCTATGAAATGGAAGCTTTCATGACATATCTATAAAACAG
Found at i:34807824 original size:55 final size:55
Alignment explanation
Indices: 34807646--34807828 Score: 142
Period size: 55 Copynumber: 3.3 Consensus size: 55
34807636 AACACGCCAG
* * * * * **
34807646 AAAATGAAAGCCTTTGTCG-CAATCTATGAATTGGAAGCTTTC-ATGATGTATCTAT
1 AAAATGGAAGCCTTTGT-GAGAATCTATGAAATAGAAGCCTTCGA-GACATATCTAT
** * *
34807701 AAAACAGAAGCCTTTATG-GCAATCTATGAAATAGAAGCCTTCGTGACATATCTAT
1 AAAATGGAAGCCTTTGTGAG-AATCTATGAAATAGAAGCCTTCGAGACATATCTAT
* * * *
34807756 AAAATGGAAGCCTTTGTGAGAATCTATGAAATGGAAGTCTTTGAGGCA-ATCTAT
1 AAAATGGAAGCCTTTGTGAGAATCTATGAAATAGAAGCCTTCGAGACATATCTAT
*
34807810 GGAAA-GGAATGCCTTTGTG
1 -AAAATGGAA-GCCTTTGTG
34807829 GCACATTCTA
Statistics
Matches: 103, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
54 11 0.11
55 91 0.88
56 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (55 bp):
AAAATGGAAGCCTTTGTGAGAATCTATGAAATAGAAGCCTTCGAGACATATCTAT
Found at i:34807826 original size:28 final size:27
Alignment explanation
Indices: 34807647--34807831 Score: 117
Period size: 27 Copynumber: 6.7 Consensus size: 27
34807637 ACACGCCAGA
* **
34807647 AAATGAAAGCCTTTGTCGCAATCTATG
1 AAATGGAAGCCTTTGAGGCAATCTATG
* * * * *
34807674 AATTGGAAGCTTTCATGATG-TATCTATA
1 AAATGGAAGCCTT--TGAGGCAATCTATG
**
34807702 AAACAGAAGCCTTT-ATGGCAATCTATG
1 AAATGGAAGCCTTTGA-GGCAATCTATG
* * * * *
34807729 AAATAGAAGCCTTCGTGACATATCTATA
1 AAATGGAAGCCTTTGAGGCA-ATCTATG
*
34807757 AAATGGAAGCCTTTGTGAG-AATCTATG
1 AAATGGAAGCCTTTGAG-GCAATCTATG
*
34807784 AAATGGAAGTCTTTGAGGCAATCTATGG
1 AAATGGAAGCCTTTGAGGCAATCTAT-G
*
34807812 AAA-GGAATGCCTTTGTGGCA
1 AAATGGAA-GCCTTTGAGGCA
34807832 CATTCTAAAG
Statistics
Matches: 121, Mismatches: 27, Indels: 19
0.72 0.16 0.11
Matches are distributed among these distances:
25 1 0.01
26 3 0.02
27 63 0.52
28 51 0.42
29 3 0.02
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (27 bp):
AAATGGAAGCCTTTGAGGCAATCTATG
Found at i:34807882 original size:28 final size:28
Alignment explanation
Indices: 34807812--34807888 Score: 81
Period size: 27 Copynumber: 2.8 Consensus size: 28
34807802 CAATCTATGG
34807812 AAAGG-AATGCCTTTGTGGC--ACATTCT
1 AAAGGAAATG-CTTTGTGGCAAACATTCT
** *
34807838 AAAGGAAGGGCCTTGTGGCAAACA-TCT
1 AAAGGAAATGCTTTGTGGCAAACATTCT
34807865 AAAGGAAATGCTTTTGTGGCAAAC
1 AAAGGAAATGC-TTTGTGGCAAAC
34807889 CCTGGAACAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
26 13 0.32
27 14 0.34
28 14 0.34
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (28 bp):
AAAGGAAATGCTTTGTGGCAAACATTCT
Found at i:34808001 original size:27 final size:27
Alignment explanation
Indices: 34807971--34808034 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
34807961 TGGCTAACTC
* * *
34807971 TGAAGGACTGGAAGGTATGGTAAACAT
1 TGAAGGAATAGAAGGTATGGCAAACAT
* * *
34807998 TGAAGGAATAGTATGTATGGCGAACAT
1 TGAAGGAATAGAAGGTATGGCAAACAT
34808025 TGAAGGAATA
1 TGAAGGAATA
34808035 TTACATATGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.39, C:0.06, G:0.31, T:0.23
Consensus pattern (27 bp):
TGAAGGAATAGAAGGTATGGCAAACAT
Found at i:34808043 original size:27 final size:27
Alignment explanation
Indices: 34807993--34808063 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
34807983 AGGTATGGTA
** *
34807993 AACATTGAAGGAATAGTATGTATGGCG
1 AACATTGAAGGAATAGTACATATGGAG
*
34808020 AACATTGAAGGAATATTACATATGGAG
1 AACATTGAAGGAATAGTACATATGGAG
* *
34808047 AACTTTAAAGGAATAGT
1 AACATTGAAGGAATAGT
34808064 GCGTATGGCA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.42, C:0.07, G:0.24, T:0.27
Consensus pattern (27 bp):
AACATTGAAGGAATAGTACATATGGAG
Found at i:34808070 original size:27 final size:27
Alignment explanation
Indices: 34807985--34808071 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
34807975 GGACTGGAAG
* *
34807985 GTATGGTA-AACATTGAAGGAATAGTAT
1 GTATGG-AGAACATTAAAGGAATAGTAC
* * *
34808012 GTATGGCGAACATTGAAGGAATATTAC
1 GTATGGAGAACATTAAAGGAATAGTAC
* * *
34808039 ATATGGAGAACTTTAAAGGAATAGTGC
1 GTATGGAGAACATTAAAGGAATAGTAC
34808066 GTATGG
1 GTATGG
34808072 CAAACACTAA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.28
Consensus pattern (27 bp):
GTATGGAGAACATTAAAGGAATAGTAC
Found at i:34810300 original size:50 final size:50
Alignment explanation
Indices: 34810237--34810367 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 50
34810227 CTATACTACT
* * **
34810237 AATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCC
* ** *
34810287 CATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCC
*
34810337 AACGCCATGTCCCAGACATGGTCTTACATGG
1 AATGCCATGTCCCAGACATGGTCTTACATGG
34810368 AATCTCATTC
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCC
Found at i:34817621 original size:20 final size:20
Alignment explanation
Indices: 34817596--34817634 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
34817586 TACTTTCTTC
34817596 TTTACTTACTCTCTTACTTG
1 TTTACTTACTCTCTTACTTG
*
34817616 TTTACTTACTTTCTTACTT
1 TTTACTTACTCTCTTACTT
34817635 AAATAACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.23, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTACTTACTCTCTTACTTG
Found at i:34817965 original size:50 final size:50
Alignment explanation
Indices: 34817888--34818076 Score: 189
Period size: 50 Copynumber: 3.7 Consensus size: 50
34817878 TCCTGTGCTA
* * * * **
34817888 CCAATGCCATATCCCATATATGATCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* ** *
34817938 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* **
34817988 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTG
* *
34818044 CCAATGCCATGTCCCTGACATGGTCTTAGATGG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGG
34818077 TATCTCATTC
Statistics
Matches: 113, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
50 79 0.70
53 2 0.02
56 32 0.28
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:34818624 original size:20 final size:20
Alignment explanation
Indices: 34818599--34818637 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
34818589 AACTAAAATT
34818599 TTTAATTTTATCTAATTTTA
1 TTTAATTTTATCTAATTTTA
34818619 TTTAATTTTATCTAATTTT
1 TTTAATTTTATCTAATTTT
34818638 TATAAATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTAATTTTATCTAATTTTA
Found at i:34818640 original size:11 final size:10
Alignment explanation
Indices: 34818601--34818637 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
34818591 CTAAAATTTT
34818601 TAATTTTATC
1 TAATTTTATC
*
34818611 TAATTTTATT
1 TAATTTTATC
34818621 TAATTTTATC
1 TAATTTTATC
34818631 TAATTTT
1 TAATTTT
34818638 TATAAATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (10 bp):
TAATTTTATC
Found at i:34820882 original size:15 final size:15
Alignment explanation
Indices: 34820862--34820891 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34820852 GAGTTGAAAG
34820862 TGAAGAAGAAGATGA
1 TGAAGAAGAAGATGA
*
34820877 TGAAGATGAAGATGA
1 TGAAGAAGAAGATGA
34820892 AACTGATCCA
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:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (15 bp):
TGAAGAAGAAGATGA
Found at i:34821263 original size:43 final size:43
Alignment explanation
Indices: 34821202--34821452 Score: 319
Period size: 43 Copynumber: 5.9 Consensus size: 43
34821192 GCTTGTAATT
* *
34821202 AAAGCGTCGGTAAAGGTCTTGATCTATAGCGGCGTTTGTGAGA
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAGA
* * * *
34821245 AAAGCGCCGCTTAAGGTCTTGATCTATAGTGACGTTTGTGGGA
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAGA
* * *
34821288 AAAGCGCCGCTAAAGGTCTTGATCTATAGTGGCGTTTGTGGGG
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAGA
* ** *
34821331 AAAGCGCCGCTAAAGATCCCGAGCTATAGCGGCGTTTGTGTAG-
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTG-AGA
* *
34821374 -AAGCGCCGTTAAAGGTCTTGATCTATAGCAGCGTTTGTTG-GA
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTG-TGAGA
*
34821416 AAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTT
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTT
34821453 ATTTCTAAAA
Statistics
Matches: 180, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.01
42 31 0.17
43 147 0.82
44 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAGA
Found at i:34821411 original size:85 final size:86
Alignment explanation
Indices: 34821202--34821452 Score: 333
Period size: 85 Copynumber: 2.9 Consensus size: 86
34821192 GCTTGTAATT
* * * * *
34821202 AAAGCGTCGGTAAAGGTCTTGATCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTTAAGGTCTTGA
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
* *
34821267 TCTATAGTGACGTTTGTGGGA
66 TCTATAGCGGCGTTTGTGGGA
* * * **
34821288 AAAGCGCCGCTAAAGGTCTTGATCTATAGTGGCGTTTGTGGGGAAAGCGCCGCTAAAGATCCCGA
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
* *
34821353 GCTATAGCGGCGTTTGT-GTA
66 TCTATAGCGGCGTTTGTGGGA
* * * *
34821373 GAAGCGCCGTTAAAGGTCTTGATCTATAGCAGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCATGA
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
34821438 TCTATAGCGGCGTTT
66 TCTATAGCGGCGTTT
34821453 ATTTCTAAAA
Statistics
Matches: 142, Mismatches: 23, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
85 72 0.51
86 70 0.49
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (86 bp):
AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
TCTATAGCGGCGTTTGTGGGA
Found at i:34828490 original size:17 final size:17
Alignment explanation
Indices: 34828468--34828502 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
34828458 GATCTTTATC
34828468 ACTATCCGAGGAGTACA
1 ACTATCCGAGGAGTACA
34828485 ACTATCCGAGGAGTACA
1 ACTATCCGAGGAGTACA
34828502 A
1 A
34828503 AGGTGTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (17 bp):
ACTATCCGAGGAGTACA
Found at i:34838805 original size:25 final size:25
Alignment explanation
Indices: 34838764--34838829 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
34838754 GCCATGAGGG
34838764 TTACCGAT-TTCAGCTCGAACGAGC
1 TTACCGATATTCAGCTCGAACGAGC
* * *
34838788 TTACCGATACTCAGCTCGCATGAGC
1 TTACCGATATTCAGCTCGAACGAGC
*
34838813 TTACCGTTATTCAGCTC
1 TTACCGATATTCAGCTC
34838830 AGAGGATCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 8 0.22
25 28 0.78
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (25 bp):
TTACCGATATTCAGCTCGAACGAGC
Found at i:34842178 original size:54 final size:54
Alignment explanation
Indices: 34842096--34842203 Score: 180
Period size: 54 Copynumber: 2.0 Consensus size: 54
34842086 TTCATATGTT
* * *
34842096 TGCATGAATTTAGTGTCTAGTAAGAATTTACTTGTTGAGTCCAGTGGATTCGTG
1 TGCATGAATTTAGTGTCTAGTAAGAATTTACCTATTGAGTCCAGTAGATTCGTG
*
34842150 TGCATGAATTTAGTGTCTAGTAAGAATTTACCTATTGAGTCCATTAGATTCGTG
1 TGCATGAATTTAGTGTCTAGTAAGAATTTACCTATTGAGTCCAGTAGATTCGTG
34842204 ATAAATGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (54 bp):
TGCATGAATTTAGTGTCTAGTAAGAATTTACCTATTGAGTCCAGTAGATTCGTG
Found at i:34845000 original size:42 final size:42
Alignment explanation
Indices: 34844941--34845020 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
34844931 AAAGCAGCTT
34844941 TAGATCGTCAAAAATCATATGCGAATCTTAAACATAAAGATA
1 TAGATCGTCAAAAATCATATGCGAATCTTAAACATAAAGATA
* *
34844983 TAGATCGTTAGAAATCATATGCGAATCTTAAACATAAA
1 TAGATCGTCAAAAATCATATGCGAATCTTAAACATAAA
34845021 CATACAGTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (42 bp):
TAGATCGTCAAAAATCATATGCGAATCTTAAACATAAAGATA
Found at i:34846477 original size:25 final size:25
Alignment explanation
Indices: 34846423--34846529 Score: 78
Period size: 25 Copynumber: 4.3 Consensus size: 25
34846413 GGTTATCGAT
**
34846423 TTCAGCTCGAACG-AGCTTACCAATA
1 TTCAGCTCGAA-GAAGCTTACCGTTA
* * *
34846448 CTCAGCTCGCATG-AGCTTGCCGTTA
1 TTCAGCTCG-AAGAAGCTTACCGTTA
*
34846473 TTCAGGTCGAAGAAGCTTACCGTTA
1 TTCAGCTCGAAGAAGCTTACCGTTA
* *
34846498 TTCAACTC-AGAGGAGCTTACCGTT-
1 TTCAGCTCGA-AGAAGCTTACCGTTA
*
34846522 TACAGCTC
1 TTCAGCTC
34846530 ATAAGAGCAT
Statistics
Matches: 65, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
24 9 0.14
25 55 0.85
26 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (25 bp):
TTCAGCTCGAAGAAGCTTACCGTTA
Found at i:34846537 original size:24 final size:25
Alignment explanation
Indices: 34846481--34846537 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
34846471 TATTCAGGTC
*
34846481 GAAGAAGCTTACCGTTATTCAACTCA
1 GAAG-AGCTTACCGTTATACAACTCA
* *
34846507 GAGGAGCTTACCGTT-TACAGCTCA
1 GAAGAGCTTACCGTTATACAACTCA
*
34846531 TAAGAGC
1 GAAGAGC
34846538 ATACTGATTC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 12 0.46
25 11 0.42
26 3 0.12
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (25 bp):
GAAGAGCTTACCGTTATACAACTCA
Found at i:34850081 original size:28 final size:29
Alignment explanation
Indices: 34850041--34850116 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 29
34850031 CCTCGATATG
* * *
34850041 ATGTCAGCTTGTGTGAGCAA-ATTCATAA
1 ATGTCAACTTGTGTGAGCAACATTAACAA
* * *
34850069 ATGTCAACTTGTGTAAGCAACCTTAACCA
1 ATGTCAACTTGTGTGAGCAACATTAACAA
*
34850098 TTGTCAACTTGTGTGAGCA
1 ATGTCAACTTGTGTGAGCA
34850117 GTATAGTCCT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 18 0.46
29 21 0.54
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (29 bp):
ATGTCAACTTGTGTGAGCAACATTAACAA
Found at i:34852278 original size:41 final size:40
Alignment explanation
Indices: 34852233--34852354 Score: 127
Period size: 41 Copynumber: 3.0 Consensus size: 40
34852223 AGTACATCCA
* *
34852233 GGGTACCGAAGTGCAAACAAGGGCATATATGTGCAATTCAG
1 GGGTATCGAAGTACAAACAAGGGCA-ATATGTGCAATTCAG
* * *
34852274 GGGTATCGAAGTACAAACACGGGCAAGCATGTGCATTTCAG
1 GGGTATCGAAGTACAAACAAGGGCAA-TATGTGCAATTCAG
* * * * *
34852315 GCGTATTGAAGTACAAATAGGGGCACGTATGTGCAATTCA
1 GGGTATCGAAGTACAAACAAGGGCA-ATATGTGCAATTCA
34852355 TCTTTATTAT
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
40 1 0.01
41 66 0.99
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (40 bp):
GGGTATCGAAGTACAAACAAGGGCAATATGTGCAATTCAG
Found at i:34871981 original size:47 final size:47
Alignment explanation
Indices: 34871912--34872005 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
34871902 GCTACTATAG
34871912 CCATACGGATATCATTATTCAACCCATCTTCAAATCTAATACACATT
1 CCATACGGATATCATTATTCAACCCATCTTCAAATCTAATACACATT
*
34871959 CCATACGGATATCATTATTCAACCTATCTTCAAATCTAATACACATT
1 CCATACGGATATCATTATTCAACCCATCTTCAAATCTAATACACATT
34872006 TTTGCCTCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (47 bp):
CCATACGGATATCATTATTCAACCCATCTTCAAATCTAATACACATT
Found at i:34880335 original size:20 final size:20
Alignment explanation
Indices: 34880312--34880351 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
34880302 CCGTAGTGTG
34880312 AACAGAGACA-TCGAAGTGCA
1 AACAGAGACACT-GAAGTGCA
*
34880332 AACAGAGGCACTGAAGTGCA
1 AACAGAGACACTGAAGTGCA
34880352 GTCCCATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.20, G:0.28, T:0.10
Consensus pattern (20 bp):
AACAGAGACACTGAAGTGCA
Found at i:34885335 original size:19 final size:19
Alignment explanation
Indices: 34885306--34885350 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
34885296 AGAGAAATAG
*
34885306 AAAGTAAAAAAAAGAGCGAA
1 AAAG-AAAAAAAAGAACGAA
*
34885326 AAAGAAAAAAAAGAATGAA
1 AAAGAAAAAAAAGAACGAA
34885345 AAAGAA
1 AAAGAA
34885351 TATGAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (19 bp):
AAAGAAAAAAAAGAACGAA
Found at i:34913536 original size:103 final size:102
Alignment explanation
Indices: 34913292--34913658 Score: 563
Period size: 102 Copynumber: 3.6 Consensus size: 102
34913282 TAACCGTTAT
* * *
34913292 CGGTGGATTCCGCACTTAGCAACCACCAATGAATCGGGGAATCAACACACAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACACAGCAACCCCTAGGGG
*
34913357 GAATCAGCACTTAGCAACCCCCGTCACATTTCAGATG
66 GAATCAGCACTTAGCAACCCCCTTCACATTTCAGATG
* * * * ** *
34913394 CGGTGGAATCAGCACTTAGTAACCACCAATGAATAGGGGAATTAGCACTTAGCAACCCCTCGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACACAGCAACCCCTAGGGG
* * *
34913459 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
66 GAATCAGCACTTAGCAACCCCC-TTCACATTTCAGATG
*
34913497 CGGTGGAATCAGCACTTACCAACCACCAATGAATCGGGGAATCAACACACAGCAACCCCTAGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACACAGCAACCCCTAGGGG
34913562 GAATCAGCACTTAGCAACCCCCTTCACATTTCAGATG
66 GAATCAGCACTTAGCAACCCCCTTCACATTTCAGATG
* * *
34913599 CGGTGGAATCAGCACTTAGCAACCACCAATGAATTGGGGAATTAGCACACAGCAACCCCT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACACAGCAACCCCT
34913659 TTATATGCAA
Statistics
Matches: 236, Mismatches: 28, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
102 146 0.62
103 90 0.38
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.18
Consensus pattern (102 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACACAGCAACCCCTAGGGG
GAATCAGCACTTAGCAACCCCCTTCACATTTCAGATG
Found at i:34920870 original size:103 final size:102
Alignment explanation
Indices: 34920626--34920993 Score: 565
Period size: 102 Copynumber: 3.6 Consensus size: 102
34920616 TAACCATTAT
* * * *
34920626 CGGTGGATTCCGCACTTAGCAACCATCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
* *
34920691 GAATCAGCACTTATCAACCCCCTTCACATTTCAGATA
66 GAATCAGCACTTAGCAACCCCCTTCACATTTAAGATA
* * ** *
34920728 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATTAGCACTTAGCAACCCCTCGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
*
34920793 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
66 GAATCAGCACTTAGCAACCCCC-TTCACATTTAAGATA
* *
34920831 TGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGGACACAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
* * *
34920896 GAATCAGCACTTAGCAACCCCGTTCACATTTTAGATG
66 GAATCAGCACTTAGCAACCCCCTTCACATTTAAGATA
*
34920933 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGGAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTT
34920994 TATATGCAAT
Statistics
Matches: 239, Mismatches: 26, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
102 147 0.62
103 92 0.38
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (102 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
GAATCAGCACTTAGCAACCCCCTTCACATTTAAGATA
Found at i:34925219 original size:50 final size:50
Alignment explanation
Indices: 34925165--34925370 Score: 243
Period size: 50 Copynumber: 4.1 Consensus size: 50
34925155 ACATTGGAGT
* * * *
34925165 TCTCATATAGGTGCCCATGCCATGTCCCAGACATGGTCATACGGGGGACC
1 TCTCATCTAGGTGCCAACGCCATGTCCCAGACATGGTCATACAGGGGACC
* * *
34925215 TCTCATCTCA-GTGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACC
1 TCTCATCT-AGGTGCCAACGCCATGTCCCAGACATGGTCATACAGGGGACC
* * * *
34925265 TCTTATCTCGGTGCCAGCGCCATGTCCCAGACATGGTCATACGGGGGACC
1 TCTCATCTAGGTGCCAACGCCATGTCCCAGACATGGTCATACAGGGGACC
* * * * * *
34925315 TCTCATCTCGGTGCCAATGCCATGTCTCAGACATGGTCTTACATGAGACC
1 TCTCATCTAGGTGCCAACGCCATGTCCCAGACATGGTCATACAGGGGACC
34925365 TCTCAT
1 TCTCAT
34925371 AATCTCAATG
Statistics
Matches: 132, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
50 131 0.99
51 1 0.01
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (50 bp):
TCTCATCTAGGTGCCAACGCCATGTCCCAGACATGGTCATACAGGGGACC
Found at i:34925253 original size:100 final size:100
Alignment explanation
Indices: 34925139--34925371 Score: 335
Period size: 100 Copynumber: 2.3 Consensus size: 100
34925129 CAATGTCATA
* * ** *
34925139 TCCTAGATATGGTCTTACATTGGAGTTCTCATATAGGTGCCCA-TGCCATGTCCCAGACATGGTC
1 TCCTAGACATGGTCTTACATGGGACCTCTCATATAGGTG-CCAGCGCCATGTCCCAGACATGGTC
34925203 ATACGGGGGACCTCTCATCTCAGTGCCAACGCCATG
65 ATACGGGGGACCTCTCATCTCAGTGCCAACGCCATG
* * *
34925239 TCCTAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAGCGCCATGTCCCAGACATGGTCA
1 TCCTAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAGCGCCATGTCCCAGACATGGTCA
* *
34925304 TACGGGGGACCTCTCATCTCGGTGCCAATGCCATG
66 TACGGGGGACCTCTCATCTCAGTGCCAACGCCATG
*
34925339 T-CTCAGACATGGTCTTACATGAGACCTCTCATA
1 TCCT-AGACATGGTCTTACATGGGACCTCTCATA
34925372 ATCTCAATGA
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
99 5 0.04
100 113 0.96
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (100 bp):
TCCTAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAGCGCCATGTCCCAGACATGGTCA
TACGGGGGACCTCTCATCTCAGTGCCAACGCCATG
Found at i:34931682 original size:51 final size:51
Alignment explanation
Indices: 34931519--34931759 Score: 236
Period size: 50 Copynumber: 4.7 Consensus size: 51
34931509 TTTCTTGTAC
* * * * ** * * *
34931519 TGCCAATGCCATATCCAAGATATGGTCTTACATGGGA-GTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCCTCTCATCTCGA
* * ** *
34931569 TGTCC-ATGCCATGTCCTAGACATGGTCTTACGGGGGA-CCTCTCATCTCGG
1 TG-CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCCTCTCATCTCGA
*
34931619 TGCCAACGCCATGTCCCAGACATGGTCTTAAATGGGACCCTCTCATCTCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCCTCTCATCTCGA
* * *
34931670 TGCCAACGCCATGTCCCTGACATGGTCTTACATGGGACCTCTTATAATCTCAACGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACC-C-TCTCATCT---CGA
*
34931726 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
34931760 AGATCTCATC
Statistics
Matches: 162, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
49 2 0.01
50 67 0.41
51 51 0.31
52 1 0.01
53 6 0.04
56 35 0.22
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (51 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCCTCTCATCTCGA
Found at i:34931748 original size:56 final size:51
Alignment explanation
Indices: 34931469--34931759 Score: 229
Period size: 50 Copynumber: 5.7 Consensus size: 51
34931459 CGAATATAAC
* * * * * *
34931469 ATGCCAAAGCTATGTCCTAGACATAGTCTTACATGGGA--TGTT--TCTTG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTCATCTCG
* * * * ** * *
34931516 TACTGCCAATGCCATATCCAAGATATGGTCTTACATGGGAGTTC-TCATATAG
1 -A-TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTCATCTCG
* * * **
34931568 GTGTCC-ATGCCATGTCCTAGACATGGTCTTACGGGGGACCTC-TCATCTCG
1 ATG-CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTCATCTCG
* *
34931618 GTGCCAACGCCATGTCCCAGACATGGTCTTAAATGGGACC-CTCTCATCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT-TCATCTCG
* *
34931669 ATGCCAACGCCATGTCCCTGACATGGTCTTACATGGGACCTCTTATAATCTCAACG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTC-T-TCATCT---CG
*
34931725 ATGCCAATGCCATGTCCCAGACATGGTCTTACATG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATG
34931760 AGATCTCATC
Statistics
Matches: 198, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
48 1 0.01
49 34 0.17
50 70 0.35
51 48 0.24
52 4 0.02
53 6 0.03
56 35 0.18
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (51 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTCATCTCG
Found at i:34938438 original size:13 final size:13
Alignment explanation
Indices: 34938420--34938444 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34938410 CTGCAGGGTC
34938420 ACACGGCTAAGAG
1 ACACGGCTAAGAG
34938433 ACACGGCTAAGA
1 ACACGGCTAAGA
34938445 TACAGGCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.28, T:0.08
Consensus pattern (13 bp):
ACACGGCTAAGAG
Found at i:34939768 original size:720 final size:715
Alignment explanation
Indices: 34938540--34939971 Score: 2490
Period size: 720 Copynumber: 2.0 Consensus size: 715
34938530 CACCCTTCAT
*
34938540 GCATGTACATATAACCATTTTTGCACAATTCAACAAGCCATCAAAATGCATCAAAACCATACATA
1 GCATGTACATATAACCATTTTTGCACAATTCAACAAGCCATCAAAATGCACCAAAACCATACATA
* *
34938605 ATCAAGCTAACCGAATATGGTACATTTGCATACAACCAATATGCCCAGAGGAGTCTCTATGACAC
66 ATCAAGCTAACCAAATATGGTACATTTGCATACAACCAATATGCCCAAAGGAGTCTCTATGACAC
* *
34938670 TATATAAACATATATAACCATGTGCATCATTTAACCAACAGTTATCAGTTTGATCACATACCAAA
131 TATATAAACATATATAACCATGTGCATCATTTAACCAACAATTATCACTTTGATCACATACCAAA
*
34938735 TTCACATCCACAAATACCAAATTTACCATTTACCAAATAGCATCATAACTCATATATGCCATCTA
196 TTCACATCCACAAATACCAAATTTACCATTTACCAAATAACATCATAACTCATATATGCCATCTA
* *
34938800 CACTTTCATAGCAAAATGACTATATTCTCATCCATCATCTAAGCATCCATGAACTATAAAATCAA
261 CACTTTCATACCAAAATGACTATATTCTCATCCATCATCTAAGCATCCACGAACTATAAAATCAA
* * * * *
34938865 TCATTATAGGGCCACATGCGTATAACAATATATTCAACCATTTCAAACATTCTAAATACTAAATT
326 CCATTATAAGGCCACATGCATATAACAATATATTCAACCATTTCAAACATTCTAAATACCAAACT
* *
34938930 CTTAAGCGAAAACATATTGGCCAAAACAAACGGCTACTTCAACAACCAAAATACCTATACATGCC
391 CTCAAGCCAAAACATATTGGCCAAAACAAACGGCTACTTCAACAACCAAAATACCTATACATGCC
*
34938995 ATTATAACCAAACTTAGAAACATCCAAAAGTACCAATATAGTCGAAAGATAGTGTGATATAACCC
456 ATTATAACCAAACTTAGAAACATCCAAAAGTACCAATATAGCCGAAAGATAGTGTGATATAACCC
* *
34939060 TGACAAGCTTCCAACCTGAACGAGCTTTCGATTCATTATAAAACACAAAAAATAACAGAGTGTAA
521 TGACAAGCTTCCAACCCGAACGAGCTTTCGATTCACTATAAAACACAAAAAATAACAGAGTGTAA
*
34939125 GCATAAATGCTTAGTAAGTTCGTATAATGTAAAACACAACTTACCATTTAATCCAATAATAGGTA
586 GCATAAATGC-T--T-AGTTCGTATAATGTAAAACACAACTTACCATTGAATCCAATAATAGGTA
*
34939190 AGTTCACATGGCATATTTCAATCACAATTTGGCCAAAGCCTAAGCATGTACACCAAACATGTTAG
647 AGTTAACATGGCATATTTCAATCACAATTTGGCCAAAGCCTAAGCAT-TACACCAAACATGTTAG
34939255 CCTAA
711 CCTAA
*
34939260 GCATGTACATATAATCATTTTTGCACAATTCAACAAGCCATCAAAATGCACCAAAACCATACATA
1 GCATGTACATATAACCATTTTTGCACAATTCAACAAGCCATCAAAATGCACCAAAACCATACATA
*
34939325 ATCAAGCTAACCAAATATGGTACATTTGCATACAACCCATATGCCCAAAGGCA-TCTCTATGACA
66 ATCAAGCTAACCAAATATGGTACATTTGCATACAACCAATATGCCCAAAGG-AGTCTCTATGAC-
*
34939389 AC-ATATAAATATATATAACCATGTGCATCATTTAACCAACAATTATCACTTTGATCACATACCA
129 ACTATATAAACATATATAACCATGTGCATCATTTAACCAACAATTATCACTTTGATCACATACCA
34939453 AATTCACATCCACAAATACCAAATTTACCATTTACCAAATAACATCATAACTCATATATGCCATC
194 AATTCACATCCACAAATACCAAATTTACCATTTACCAAATAACATCATAACTCATATATGCCATC
* * *
34939518 TACACTTTCATACCTAACTGACTATATTCTCATCCATCATCTAAGCATCCACGAACTATAAATTC
259 TACACTTTCATACCAAAATGACTATATTCTCATCCATCATCTAAGCATCCACGAACTATAAAATC
34939583 AACCATTATAAGGCCACATGCATATAACAATATATTCAACCATTTCAAACATTCTAAATACCAAA
324 AACCATTATAAGGCCACATGCATATAACAATATATTCAACCATTTCAAACATTCTAAATACCAAA
*
34939648 CTCTCAAGCCAAAACATATTGGCCAAAACAAATGGCTACTTCAACAACCAAAATACCTATACATG
389 CTCTCAAGCCAAAACATATTGGCCAAAACAAACGGCTACTTCAACAACCAAAATACCTATACATG
**
34939713 CCATTATAACCAAACTTAGAAACATCCAAAAGTACCAATATAGCCGATGGATAGTGTGATATAAC
454 CCATTATAACCAAACTTAGAAACATCCAAAAGTACCAATATAGCCGAAAGATAGTGTGATATAAC
* * *
34939778 CCTGACAAGCTTCCAACCCGAACGAGCTTTCGATTCACTATAAAACATAGAAAATAACATAGTGT
519 CCTGACAAGCTTCCAACCCGAACGAGCTTTCGATTCACTATAAAACACAAAAAATAACAGAGTGT
34939843 AAGCATAAATGCTTAGTTCGTATAATGTAAAACACAACTTACCATTGAATCCAATAATAGGTAAG
584 AAGCATAAATGCTTAGTTCGTATAATGTAAAACACAACTTACCATTGAATCCAATAATAGGTAAG
*
34939908 TTAACATGGCATATTTCAATCACAATTTGGCCAAAGCCTAAGCATTACACCAAACGTGTTAGCC
649 TTAACATGGCATATTTCAATCACAATTTGGCCAAAGCCTAAGCATTACACCAAACATGTTAGCC
34939972 ATTTACACAT
Statistics
Matches: 677, Mismatches: 33, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
715 18 0.03
716 94 0.14
717 1 0.00
719 1 0.00
720 560 0.83
721 3 0.00
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (715 bp):
GCATGTACATATAACCATTTTTGCACAATTCAACAAGCCATCAAAATGCACCAAAACCATACATA
ATCAAGCTAACCAAATATGGTACATTTGCATACAACCAATATGCCCAAAGGAGTCTCTATGACAC
TATATAAACATATATAACCATGTGCATCATTTAACCAACAATTATCACTTTGATCACATACCAAA
TTCACATCCACAAATACCAAATTTACCATTTACCAAATAACATCATAACTCATATATGCCATCTA
CACTTTCATACCAAAATGACTATATTCTCATCCATCATCTAAGCATCCACGAACTATAAAATCAA
CCATTATAAGGCCACATGCATATAACAATATATTCAACCATTTCAAACATTCTAAATACCAAACT
CTCAAGCCAAAACATATTGGCCAAAACAAACGGCTACTTCAACAACCAAAATACCTATACATGCC
ATTATAACCAAACTTAGAAACATCCAAAAGTACCAATATAGCCGAAAGATAGTGTGATATAACCC
TGACAAGCTTCCAACCCGAACGAGCTTTCGATTCACTATAAAACACAAAAAATAACAGAGTGTAA
GCATAAATGCTTAGTTCGTATAATGTAAAACACAACTTACCATTGAATCCAATAATAGGTAAGTT
AACATGGCATATTTCAATCACAATTTGGCCAAAGCCTAAGCATTACACCAAACATGTTAGCCTAA
Found at i:34942331 original size:33 final size:35
Alignment explanation
Indices: 34942288--34942352 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
34942278 TTTATTTTAA
*
34942288 TTCTTTTTA-TTA-TAATATAACATATATATACAT
1 TTCTTATTATTTATTAATATAACATATATATACAT
34942321 TTCTTATTATTTATTAATATAACATATATATA
1 TTCTTATTATTTATTAATATAACATATATATA
34942353 TGCAAAATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 8 0.28
34 3 0.10
35 18 0.62
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (35 bp):
TTCTTATTATTTATTAATATAACATATATATACAT
Found at i:34943999 original size:25 final size:24
Alignment explanation
Indices: 34943965--34944050 Score: 109
Period size: 25 Copynumber: 3.5 Consensus size: 24
34943955 CCACAACTCA
*
34943965 TGAGAGCATATCAATTTATATCTCG
1 TGAGAGCATA-CAATTTATAGCTCG
*
34943990 TGAGAGCATACAGATTTATAGCTCA
1 TGAGAGCATACA-ATTTATAGCTCG
*
34944015 TGAGAGCATACGGATTTATAGCTCG
1 TGAGAGCATAC-AATTTATAGCTCG
*
34944040 CGAGAGCATAC
1 TGAGAGCATAC
34944051 CGATCTACAT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
24 2 0.04
25 52 0.96
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (24 bp):
TGAGAGCATACAATTTATAGCTCG
Found at i:34944072 original size:50 final size:50
Alignment explanation
Indices: 34943961--34944075 Score: 117
Period size: 50 Copynumber: 2.3 Consensus size: 50
34943951 TACTCCACAA
* * * * * *
34943961 CTCATGAGAGCATATC-AATTTATATCTCGTGAGAGCATACAGATTTATAG
1 CTCATAAGAGCATA-CGGATTTATAGCTCGCGAGAGCATACAGATCTACAG
* * *
34944011 CTCATGAGAGCATACGGATTTATAGCTCGCGAGAGCATACCGATCTACAT
1 CTCATAAGAGCATACGGATTTATAGCTCGCGAGAGCATACAGATCTACAG
34944061 CTCA-AATGAGCATAC
1 CTCATAA-GAGCATAC
34944076 CAATTCACAG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 2 0.04
50 53 0.96
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (50 bp):
CTCATAAGAGCATACGGATTTATAGCTCGCGAGAGCATACAGATCTACAG
Found at i:34954232 original size:20 final size:19
Alignment explanation
Indices: 34954162--34954232 Score: 52
Period size: 20 Copynumber: 3.5 Consensus size: 19
34954152 AAAACTAACA
*
34954162 GGTATCGATAGTTTTTAAAT
1 GGTATCGATA-ATTTTAAAT
* *
34954182 GAGTATCAATAATTTTAGAAA
1 G-GTATCGATAATTTTA-AAT
** *
34954203 AATATTGATAATTCTTAAAT
1 GGTATCGATAATT-TTAAAT
34954223 GGTATCGATA
1 GGTATCGATA
34954233 CCAAATTGCG
Statistics
Matches: 37, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
20 24 0.65
21 13 0.35
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.39
Consensus pattern (19 bp):
GGTATCGATAATTTTAAAT
Found at i:34956425 original size:22 final size:22
Alignment explanation
Indices: 34956391--34956786 Score: 459
Period size: 22 Copynumber: 18.0 Consensus size: 22
34956381 AGCAATTATC
**
34956391 CAACATTCAGACAACATTTAAT
1 CAACATTTGGACAACATTTAAT
*
34956413 TAACATTTGGACAACATTTAAT
1 CAACATTTGGACAACATTTAAT
* * * *
34956435 CAACAATTGAACAACAATCAAT
1 CAACATTTGGACAACATTTAAT
* *
34956457 CAACATTTGGATAGCATTTAAT
1 CAACATTTGGACAACATTTAAT
* * ** *
34956479 CAATAATTGGACAGTATTAAAT
1 CAACATTTGGACAACATTTAAT
*
34956501 CAACATTTGGACAGCATTTAAT
1 CAACATTTGGACAACATTTAAT
* * *
34956523 CAACAATTGGACAGCATTCAAT
1 CAACATTTGGACAACATTTAAT
*
34956545 CAATATTTGGACAACATTTAAT
1 CAACATTTGGACAACATTTAAT
* *
34956567 CAACAATTGGACAACATTAAAT
1 CAACATTTGGACAACATTTAAT
* *
34956589 CAACTTTTGGACGACATTTAAT
1 CAACATTTGGACAACATTTAAT
* *
34956611 CAACAATTGGACAACATTAAAT
1 CAACATTTGGACAACATTTAAT
*
34956633 CAACATTTGGACAGCATTTAAT
1 CAACATTTGGACAACATTTAAT
* * *
34956655 AAACAATTGGACAACATTCAAT
1 CAACATTTGGACAACATTTAAT
*
34956677 CAATATTTGGACAACATTTAAT
1 CAACATTTGGACAACATTTAAT
* *
34956699 CAACAATTGGACAACATTAAAT
1 CAACATTTGGACAACATTTAAT
* *
34956721 CGACATTTGAACAACATTTAAT
1 CAACATTTGGACAACATTTAAT
* *
34956743 CAACAATTGGACAACATTCAAT
1 CAACATTTGGACAACATTTAAT
*
34956765 CAATATTTGGACAACATTTAAT
1 CAACATTTGGACAACATTTAAT
34956787 AAAAAAAAAT
Statistics
Matches: 309, Mismatches: 65, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 309 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.29
Consensus pattern (22 bp):
CAACATTTGGACAACATTTAAT
Found at i:34956449 original size:44 final size:44
Alignment explanation
Indices: 34956400--34956786 Score: 558
Period size: 44 Copynumber: 8.8 Consensus size: 44
34956390 CCAACATTCA
* *
34956400 GACAACATTTAATTAACATTTGGACAACATTTAATCAACAATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
* * * * * *
34956444 AACAACAATCAATCAACATTTGGATAGCATTTAATCAATAATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
** *
34956488 GACAGTATTAAATCAACATTTGGACAGCATTTAATCAACAATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
* * *
34956532 GACAGCATTCAATCAATATTTGGACAACATTTAATCAACAATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
* *
34956576 GACAACATTAAATCAACTTTTGGACGACATTTAATCAACAATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
* *
34956620 GACAACATTAAATCAACATTTGGACAGCATTTAATAAACAATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
* *
34956664 GACAACATTCAATCAATATTTGGACAACATTTAATCAACAATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
* *
34956708 GACAACATTAAATCGACATTTGAACAACATTTAATCAACAATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
* *
34956752 GACAACATTCAATCAATATTTGGACAACATTTAAT
1 GACAACATTAAATCAACATTTGGACAACATTTAAT
34956787 AAAAAAAAAT
Statistics
Matches: 304, Mismatches: 39, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 304 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.29
Consensus pattern (44 bp):
GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
Found at i:34957668 original size:42 final size:43
Alignment explanation
Indices: 34957606--34957767 Score: 193
Period size: 43 Copynumber: 3.8 Consensus size: 43
34957596 TAATCAAACA
* * * * *
34957606 ACGATGCCATTGTCCTAGACAGGGTCTTACATGT-AATCATAT
1 ACGACGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAT
*
34957648 ACGACGCTAATGTCCCAGACATGGTCTTACACGTAAATCATAT
1 ACGACGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAT
* * *
34957691 ATGACGCCAATGTCCCAGACATGGTCTTACACATAAATC-TCAA
1 ACGACGCCAATGTCCCAGACATGGTCTTACACGTAAATCAT-AT
* *
34957734 ATCGAGGCCAACGTCCCAGACATGGTCTTACACG
1 A-CGACGCCAATGTCCCAGACATGGTCTTACACG
34957768 GTGCCACATT
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
42 29 0.28
43 46 0.45
44 28 0.27
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ACGACGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAT
Done.