Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 279 of 290
Found at i:96452445 original size:27 final size:26
Alignment explanation
Indices: 96452401--96452452 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
96452391 CTCGCTGCAA
*
96452401 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
96452428 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
96452453 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:96452512 original size:27 final size:26
Alignment explanation
Indices: 96452468--96452519 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
96452458 CTCGCTGCAA
*
96452468 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
96452495 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
96452520 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:96452579 original size:27 final size:26
Alignment explanation
Indices: 96452535--96452586 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
96452525 CTCGCTGCAA
*
96452535 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
96452562 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
96452587 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:96452646 original size:27 final size:26
Alignment explanation
Indices: 96452602--96452653 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
96452592 CTCGCTGCAA
*
96452602 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
96452629 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
96452654 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:96452713 original size:27 final size:26
Alignment explanation
Indices: 96452669--96452720 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
96452659 CTCGCTGCAA
*
96452669 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
96452696 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
96452721 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:96452780 original size:27 final size:26
Alignment explanation
Indices: 96452736--96452787 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
96452726 CTCGCTGCAA
*
96452736 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
96452763 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
96452788 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:96452847 original size:27 final size:26
Alignment explanation
Indices: 96452803--96452854 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
96452793 CTCGCTGCAA
*
96452803 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
96452830 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
96452855 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:96452914 original size:27 final size:26
Alignment explanation
Indices: 96452870--96452921 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
96452860 CTCGCTGCAA
*
96452870 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
96452897 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
96452922 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:96452981 original size:27 final size:26
Alignment explanation
Indices: 96452937--96452988 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
96452927 CTCGCTGCAA
*
96452937 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
96452964 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
96452989 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:96453048 original size:27 final size:26
Alignment explanation
Indices: 96453004--96453055 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
96452994 CTCGCTGCAA
*
96453004 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
96453031 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
96453056 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:96453115 original size:27 final size:26
Alignment explanation
Indices: 96453071--96453122 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
96453061 CTCGCTGCAA
*
96453071 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
96453098 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
96453123 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:96455344 original size:44 final size:42
Alignment explanation
Indices: 96455269--96455421 Score: 168
Period size: 43 Copynumber: 3.6 Consensus size: 42
96455259 GGTATATGAG
* * *
96455269 TTCGTGTAAGACCACGTCTAGGACGTTGGCATCGATTTGTGAT
1 TTCGTGTAAGACCACGTCTGGGAC-ATGGCATCGATATGTGAT
* *
96455312 TTGCGTGTAAGACCATGTCTGGGACATCGGCATCG-TATATGAGT
1 TT-CGTGTAAGACCACGTCTGGGACAT-GGCATCGATATGTGA-T
96455356 TT-GTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATGTGAT
1 TTCGTGTAAGACCAC-GTCTGGGACA-TGGCATCGATATGTGAT
* *
96455398 TACATGTAAGACCACGTCTGGGAC
1 TTCGTGTAAGACCACGTCTGGGAC
96455422 GTTAGCATTG
Statistics
Matches: 93, Mismatches: 9, Indels: 16
0.79 0.08 0.14
Matches are distributed among these distances:
42 29 0.31
43 33 0.35
44 31 0.33
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (42 bp):
TTCGTGTAAGACCACGTCTGGGACATGGCATCGATATGTGAT
Found at i:96455373 original size:42 final size:40
Alignment explanation
Indices: 96455262--96455393 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 40
96455252 GGATTTCGGT
* * *
96455262 ATATGAGTTCGTGTAAGACCAC-GTCTAGGACGTTGGCATCG
1 ATATGAGTTTGTGTAAGACC-CTGTCTGGGAC-ATGGCATCG
* * *
96455303 ATTTGTGATTTGCGTGTAAGACCATGTCTGGGACATCGGCATCG
1 ATATGAG-TTT--GTGTAAGACCCTGTCTGGGACAT-GGCATCG
96455347 TATATGAGTTTGTGTAAGACCCTGTCTGGGACAGTGGCATCG
1 -ATATGAGTTTGTGTAAGACCCTGTCTGGGACA-TGGCATCG
96455389 ATATG
1 ATATG
96455394 TGATTACATG
Statistics
Matches: 75, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
41 10 0.13
42 30 0.40
43 2 0.03
44 28 0.37
45 5 0.07
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (40 bp):
ATATGAGTTTGTGTAAGACCCTGTCTGGGACATGGCATCG
Found at i:96462579 original size:43 final size:42
Alignment explanation
Indices: 96462525--96462683 Score: 139
Period size: 44 Copynumber: 3.7 Consensus size: 42
96462515 AACATATACA
*
96462525 ATGCCAA-TGTCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAACTGTCCCAGACGTGGTCTTACACGTAAT-AAA-ATCG
* * * *
96462568 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATTAGATACA
1 ATGCCAACTGTCCCAGAC-GTGGTCTTACACGTAATAAAAT-CG
* * *
96462610 ATGCCGA-TGTCCCAGACATGGTCTTACACGTAAAATAGAAGTCG
1 ATGCCAACTGTCCCAGACGTGGTCTTACACGT--AATA-AAATCG
*
96462654 ATTCCAAC-GTCCCAGACGTGGTCTTACACG
1 ATGCCAACTGTCCCAGACGTGGTCTTACACG
96462684 AAATCACATA
Statistics
Matches: 93, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
41 2 0.02
42 29 0.31
43 29 0.31
44 31 0.33
45 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.23
Consensus pattern (42 bp):
ATGCCAACTGTCCCAGACGTGGTCTTACACGTAATAAAATCG
Found at i:96465094 original size:14 final size:15
Alignment explanation
Indices: 96465075--96465103 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
96465065 ACTAAGAATG
96465075 CTATGGAAAA-GATA
1 CTATGGAAAATGATA
96465089 CTATGGAAAATGATA
1 CTATGGAAAATGATA
96465104 GAAGCCTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.07, G:0.21, T:0.24
Consensus pattern (15 bp):
CTATGGAAAATGATA
Found at i:96467654 original size:27 final size:27
Alignment explanation
Indices: 96467624--96467847 Score: 169
Period size: 27 Copynumber: 8.6 Consensus size: 27
96467614 ATATTGAGTC
* *
96467624 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
96467651 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
96467678 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
96467706 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
96467733 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
96467760 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
96467787 CGCACCCTTAGTGCT--GT--T----T
1 CGCACACTTAGTGCTACATAATCAACT
* * *
96467806 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
96467833 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
96467848 GTACAATTTA
Statistics
Matches: 159, Mismatches: 27, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
19 14 0.09
21 1 0.01
23 2 0.01
25 1 0.01
27 117 0.74
28 24 0.15
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:96467763 original size:82 final size:76
Alignment explanation
Indices: 96467645--96467847 Score: 225
Period size: 82 Copynumber: 2.6 Consensus size: 76
96467635 TGCTATATAA
* *
96467645 TCAACTCGCACACTTAGTGC-TACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 TCAATTCGCACACTTAGTGCAT-CATAATCAAATCGCACACTTAGTGCTACATAGTCAAA-TCGC
96467709 ACACTTAGTGCCGCATGG
64 ACACTTAGT---GC-T-G
* ** * *
96467727 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCAC
1 TCAATTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCTACATAGTCAAATCGCAC
*
96467792 CCTTAGTGCTG
66 ACTTAGTGCTG
* *
96467803 T---TTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCT
1 TCAATTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCT
96467848 GTACAATTTA
Statistics
Matches: 106, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
73 38 0.36
76 2 0.02
77 1 0.01
78 2 0.02
81 12 0.11
82 50 0.47
83 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (76 bp):
TCAATTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCTACATAGTCAAATCGCAC
ACTTAGTGCTG
Found at i:96467824 original size:46 final size:46
Alignment explanation
Indices: 96467757--96467849 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
96467747 ATCATATTCA
*
96467757 TTTCGCACACTGAGTGCAACATAGTCAAATCGCACCCTTAGTGCTG
1 TTTCGCACACTGAGTGCAACATAGTCAAATCGCACACTTAGTGCTG
*
96467803 TTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTG
1 TTTCGCACACTGAGTGCAACATAGTCAAATCGCACACTTAGTGCTG
96467849 T
1 T
96467850 ACAATTTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (46 bp):
TTTCGCACACTGAGTGCAACATAGTCAAATCGCACACTTAGTGCTG
Found at i:96473621 original size:10 final size:10
Alignment explanation
Indices: 96473606--96473643 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
96473596 ATGATGCTAC
96473606 ATAAATATAT
1 ATAAATATAT
96473616 ATAAATATAT
1 ATAAATATAT
*
96473626 -TAAATACAT
1 ATAAATATAT
*
96473635 ATACATATA
1 ATAAATATA
96473644 CATACATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (10 bp):
ATAAATATAT
Found at i:96473631 original size:19 final size:19
Alignment explanation
Indices: 96473607--96473643 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
96473597 TGATGCTACA
*
96473607 TAAATATATATAAATATAT
1 TAAATACATATAAATATAT
*
96473626 TAAATACATATACATATA
1 TAAATACATATAAATATA
96473644 CATACATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATACATATAAATATAT
Found at i:96476069 original size:49 final size:49
Alignment explanation
Indices: 96475937--96476076 Score: 174
Period size: 49 Copynumber: 2.8 Consensus size: 49
96475927 TCTATTGTGA
96475937 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA--CGAAAACTGT
* * * * * *
96475988 GATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTAC-TAGACTGTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACGAAAACTG-T
* *
96476037 GGTCGCATGTGTAGTACTAAGTGCAAGATACTATGCGTAC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
96476077 CAGATAGCTT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
48 5 0.07
49 36 0.47
51 35 0.46
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACGAAAACTGT
Found at i:96480438 original size:23 final size:23
Alignment explanation
Indices: 96480412--96480464 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
96480402 AAGCACACGA
96480412 GCGTGTGCATTGCCTCCACACAG
1 GCGTGTGCATTGCCTCCACACAG
*
96480435 GCGTGTGCATTGCCTCCATACAG
1 GCGTGTGCATTGCCTCCACACAG
96480458 GCGTGTG
1 GCGTGTG
96480465 AGACTTTAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.25
Consensus pattern (23 bp):
GCGTGTGCATTGCCTCCACACAG
Found at i:96487931 original size:10 final size:10
Alignment explanation
Indices: 96487909--96487945 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
96487899 CTTTGTTCTT
96487909 AAAAAAATGA
1 AAAAAAATGA
96487919 AAAATAAAT--
1 AAAA-AAATGA
96487928 AAAAAAATGA
1 AAAAAAATGA
96487938 AAAAAAAT
1 AAAAAAAT
96487946 TGATTGAGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
8 4 0.17
9 4 0.17
10 12 0.50
11 4 0.17
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (10 bp):
AAAAAAATGA
Found at i:96487933 original size:18 final size:18
Alignment explanation
Indices: 96487908--96487945 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
96487898 ACTTTGTTCT
96487908 TAAAAAAATGAAAAATAAA
1 TAAAAAAATGAAAAA-AAA
96487927 TAAAAAAATGAAAAAAAA
1 TAAAAAAATGAAAAAAAA
96487945 T
1 T
96487946 TGATTGAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (18 bp):
TAAAAAAATGAAAAAAAA
Found at i:96493519 original size:13 final size:13
Alignment explanation
Indices: 96493501--96493525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96493491 ACAAACGATA
96493501 AAATTTTCACACT
1 AAATTTTCACACT
96493514 AAATTTTCACAC
1 AAATTTTCACAC
96493526 ATATAAATTA
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:0.00, T:0.36
Consensus pattern (13 bp):
AAATTTTCACACT
Found at i:96495119 original size:27 final size:26
Alignment explanation
Indices: 96495074--96495132 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
96495064 AATACATAGT
96495074 TTTAATATGTCTAGTTTA-GGACATTAA
1 TTTAATATGTCTAGTTTAGGGACA--AA
*
96495101 TTTAATGTGTCTA-TCTTAGGGACAAA
1 TTTAATATGTCTAGT-TTAGGGACAAA
96495127 TTTAAT
1 TTTAAT
96495133 TAGCTGTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 9 0.31
27 15 0.52
28 5 0.17
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.44
Consensus pattern (26 bp):
TTTAATATGTCTAGTTTAGGGACAAA
Found at i:96499545 original size:43 final size:43
Alignment explanation
Indices: 96499498--96499649 Score: 162
Period size: 43 Copynumber: 3.5 Consensus size: 43
96499488 AGATATGATT
*
96499498 TCGTGTAAGACCACGTCTGGGACATTGGCATCAATTTGAGATA
1 TCGTGTAAGACCACGTCTGGGACACTGGCATCAATTTGAGATA
** * * *
96499541 TCGTGTAAGACCGTGTCTAGGACACTGGCATCAATTAGAGATT
1 TCGTGTAAGACCACGTCTGGGACACTGGCATCAATTTGAGATA
** * * * * *
96499584 TCGTGTAAGACCTTGTCTGGGATAGTAGCATCAATATGTGATTA
1 TCGTGTAAGACCACGTCTGGGACACTGGCATCAATTTGAGA-TA
*
96499628 T-ATGTAAGACCACGTCTGGGAC
1 TCGTGTAAGACCACGTCTGGGAC
96499650 GTTGTCATTG
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
43 87 0.98
44 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
TCGTGTAAGACCACGTCTGGGACACTGGCATCAATTTGAGATA
Found at i:96504317 original size:22 final size:21
Alignment explanation
Indices: 96504284--96504324 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
96504274 TTATTGTTAT
*
96504284 TTTAAAAAATTATATATAATA
1 TTTAAAAAATTAAATATAATA
*
96504305 TTTATAAATATTAAATATAA
1 TTTA-AAAAATTAAATATAA
96504325 AATATTAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTAAAAAATTAAATATAATA
Found at i:96507783 original size:8 final size:7
Alignment explanation
Indices: 96507766--96507892 Score: 80
Period size: 7 Copynumber: 18.0 Consensus size: 7
96507756 ATTAATTAAT
96507766 CTAAACC
1 CTAAACC
96507773 CTAAACTC
1 CTAAAC-C
*
96507781 CTAATCC
1 CTAAACC
*
96507788 CTAATCC
1 CTAAACC
*
96507795 CTAATCC
1 CTAAACC
*
96507802 CTAATCC
1 CTAAACC
96507809 CTAAACC
1 CTAAACC
*
96507816 ATAAACC
1 CTAAACC
* *
96507823 TTAAATC
1 CTAAACC
*
96507830 CTAAAAC
1 CTAAACC
*
96507837 ATAAACC
1 CTAAACC
* *
96507844 CT-TACA
1 CTAAACC
*
96507850 CTGAACCC
1 CT-AAACC
*
96507858 CTAACCC
1 CTAAACC
96507865 CT-AACC
1 CTAAACC
96507871 CTTAAACC
1 C-TAAACC
96507879 CT-AACC
1 CTAAACC
96507885 CTTAAACC
1 C-TAAACC
96507893 ATAATCATAA
Statistics
Matches: 97, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
6 13 0.13
7 66 0.68
8 18 0.19
ACGTcount: A:0.38, C:0.39, G:0.01, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:96507905 original size:21 final size:23
Alignment explanation
Indices: 96507881--96507934 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
96507871 CTTAAACCCT
96507881 AACCCTTAAACCA-TAA-TCATA
1 AACCCTTAAACCAGTAACTCATA
* *
96507902 AACCTTTAAA-TAGTAACTCATA
1 AACCCTTAAACCAGTAACTCATA
96507924 AA-CCTTAAACC
1 AACCCTTAAACC
96507935 CTTAACCATA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
20 1 0.04
21 18 0.69
22 7 0.27
ACGTcount: A:0.46, C:0.26, G:0.02, T:0.26
Consensus pattern (23 bp):
AACCCTTAAACCAGTAACTCATA
Found at i:96507944 original size:21 final size:21
Alignment explanation
Indices: 96507807--96507944 Score: 52
Period size: 21 Copynumber: 6.6 Consensus size: 21
96507797 AATCCCTAAT
*
96507807 CCCTAAACCATAAACCTTAAA
1 CCCTTAACCATAAACCTTAAA
* * *
96507828 TCCTAAAACATAAACCCTT--A
1 CCCTTAACCATAAA-CCTTAAA
* * * * *
96507848 CACTGAACCCCTAACCCCT-AA
1 CCCTTAA-CCATAAACCTTAAA
* *
96507869 CCCTTAAACCCTAACCCTTAAA
1 CCCTT-AACCATAAACCTTAAA
* *
96507891 -CCATAATCATAAACCTTTAAA
1 CCCTTAACCATAAACC-TTAAA
***
96507912 -TAGTAACTCATAAACCTTAAA
1 CCCTTAAC-CATAAACCTTAAA
96507933 CCCTTAACCATA
1 CCCTTAACCATA
96507945 TGCCCTAAAT
Statistics
Matches: 86, Mismatches: 23, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
20 16 0.19
21 50 0.58
22 20 0.23
ACGTcount: A:0.42, C:0.33, G:0.01, T:0.23
Consensus pattern (21 bp):
CCCTTAACCATAAACCTTAAA
Found at i:96508415 original size:12 final size:12
Alignment explanation
Indices: 96508398--96508425 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
96508388 TTTTTCAATC
96508398 AAACGCCGCTAA
1 AAACGCCGCTAA
96508410 AAACGCCGCTAA
1 AAACGCCGCTAA
96508422 AAAC
1 AAAC
96508426 CTGTTTTACT
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:0.46, C:0.32, G:0.14, T:0.07
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:96515456 original size:29 final size:29
Alignment explanation
Indices: 96515411--96515491 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
96515401 GGCTTGGAAT
*
96515411 TGATTAGGGCC-AGATGGGTCATATAAATG
1 TGATTTGGGCCTA-ATGGGTCATATAAATG
* *
96515440 TGATTTGGGCCTAATGGGCCATATGAATG
1 TGATTTGGGCCTAATGGGTCATATAAATG
* *
96515469 AGA-TTGGGCCTAATGGGTTATAT
1 TGATTTGGGCCTAATGGGTCATAT
96515492 GCATGTATGT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 18 0.40
29 26 0.58
30 1 0.02
ACGTcount: A:0.27, C:0.11, G:0.31, T:0.31
Consensus pattern (29 bp):
TGATTTGGGCCTAATGGGTCATATAAATG
Found at i:96515491 original size:28 final size:29
Alignment explanation
Indices: 96515424--96515492 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
96515414 TTAGGGCCAG
* *
96515424 ATGGGTCATATAAATGTGATTTGGGCCTA
1 ATGGGTCATATGAATGAGATTTGGGCCTA
*
96515453 ATGGGCCATATGAATGAGA-TTGGGCCTA
1 ATGGGTCATATGAATGAGATTTGGGCCTA
*
96515481 ATGGGTTATATG
1 ATGGGTCATATG
96515493 CATGTATGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 19 0.54
29 16 0.46
ACGTcount: A:0.28, C:0.10, G:0.30, T:0.32
Consensus pattern (29 bp):
ATGGGTCATATGAATGAGATTTGGGCCTA
Found at i:96520923 original size:44 final size:44
Alignment explanation
Indices: 96520874--96520962 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
96520864 CGACTTGAAA
96520874 CTCAATCTCTTTTCTTTTCAAATCAGCATATGACTTTTGCCTAT
1 CTCAATCTCTTTTCTTTTCAAATCAGCATATGACTTTTGCCTAT
96520918 CTCAATCTCTTTTCTTTTCAAATCAGCATATGACTTTTGCCTAT
1 CTCAATCTCTTTTCTTTTCAAATCAGCATATGACTTTTGCCTAT
96520962 C
1 C
96520963 CGATGCCGCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.22, C:0.26, G:0.07, T:0.45
Consensus pattern (44 bp):
CTCAATCTCTTTTCTTTTCAAATCAGCATATGACTTTTGCCTAT
Found at i:96530190 original size:49 final size:47
Alignment explanation
Indices: 96530118--96530249 Score: 149
Period size: 48 Copynumber: 2.7 Consensus size: 47
96530108 GTGTAATGCT
* *
96530118 GATGCCACGTCCCAAACATGGTCTTACACTGACTA-TCAAAATCGGGACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGAC-ACTC-AAATCGGG-CC
* *** *
96530167 GATGCCATGTCCTAGACATGGTCTTACACTGACACCTCTCTTCGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACA-CTCAAATCGGGCC
*
96530215 AATGCCATGTCCCAGACATGGTCTTACACTGACAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACAC
96530250 ATCTCGTAGC
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
47 1 0.01
48 35 0.49
49 34 0.47
50 2 0.03
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACACTCAAATCGGGCC
Found at i:96537591 original size:45 final size:46
Alignment explanation
Indices: 96537477--96537601 Score: 139
Period size: 48 Copynumber: 2.7 Consensus size: 46
96537467 AAAATCAGGA
* ** *
96537477 CTGATGCCTTGTCCCAAATGTGGTCTTACACTAACACCTCTATTCGTG
1 CTGATGCCATGTCCCAAACATGGTCTTACACTAACACATC--TTCGTG
* * *
96537525 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC-TCGTAG
1 CTGATGCCATGTCCCAAACATGGTCTTACACTAACACATCTTCGT-G
96537571 CTGATG-CATGTCCCAAACAT-GTCTTACACTA
1 CTGATGCCATGTCCCAAACATGGTCTTACACTA
96537602 GCTCTTGTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
44 10 0.15
45 17 0.26
46 6 0.09
48 33 0.50
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (46 bp):
CTGATGCCATGTCCCAAACATGGTCTTACACTAACACATCTTCGTG
Found at i:96537690 original size:46 final size:44
Alignment explanation
Indices: 96537523--96537695 Score: 154
Period size: 46 Copynumber: 3.8 Consensus size: 44
96537513 CCTCTATTCG
* *
96537523 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTA
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCAC-TCT-ATA
* * * * * *
96537570 -GCTGATG-CATGTCCCAAACATGTCTTACACTAGCTCTTGTTTCAA
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTGGCAC-TCTAT--A
* *
96537615 TGTCGATGCCATGTCCCAGACATGGCTTACACTGGCACTCATAATA
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTGGCACTC-T-ATA
96537661 TGGCCGATG-CATGTCCCAGACATGTCTTACACTGG
1 T-GCCGATGCCATGTCCCAGACATGTCTTACACTGG
96537696 TACACAAATA
Statistics
Matches: 101, Mismatches: 18, Indels: 15
0.75 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 14 0.14
45 14 0.14
46 39 0.39
47 32 0.32
48 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (44 bp):
TGCCGATGCCATGTCCCAGACATGTCTTACACTGGCACTCTATA
Found at i:96537693 original size:93 final size:92
Alignment explanation
Indices: 96537427--96537693 Score: 254
Period size: 93 Copynumber: 2.8 Consensus size: 92
96537417 TAACCATTAA
* * * * *
96537427 GTCGATGCCATGTCCTAGACATGGTCTTACACTGAC-TATCAAAATCAGGACTGATGCCTTGTCC
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC-TAAT-A-G-CCGATG-CATGTCC
** * * * * *
96537491 CAAATGTGGTCTTACACTAACACCTCTATTC-GT
61 CAAACAT-GTCTTACACTAGCTCTTGT-TTCAAT
* ** *
96537524 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCTGATGCATGTCCCAAAC
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTAATAGCCGATGCATGTCCCAAAC
96537589 ATGTCTTACACTAGCTCTTGTTTCAAT
66 ATGTCTTACACTAGCTCTTGTTTCAAT
*
96537616 GTCGATGCCATGTCCCAGACATGG-CTTACACTGGCAC-TCATAATATGGCCGATGCATGTCCCA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC-TAATA--GCCGATGCATGTCCCA
*
96537679 GACATGTCTTACACT
63 AACATGTCTTACACT
96537694 GGTACACAAA
Statistics
Matches: 145, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
90 2 0.01
91 18 0.12
92 39 0.27
93 40 0.28
94 6 0.04
95 1 0.01
96 1 0.01
97 35 0.24
98 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (92 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTAATAGCCGATGCATGTCCCAAAC
ATGTCTTACACTAGCTCTTGTTTCAAT
Found at i:96549600 original size:14 final size:14
Alignment explanation
Indices: 96549581--96549608 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
96549571 GGAATTGGGT
96549581 TTTCTCCTTTAAAA
1 TTTCTCCTTTAAAA
96549595 TTTCTCCTTTAAAA
1 TTTCTCCTTTAAAA
96549609 CTTTAAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTCTCCTTTAAAA
Found at i:96552561 original size:27 final size:27
Alignment explanation
Indices: 96552542--96552722 Score: 218
Period size: 27 Copynumber: 6.7 Consensus size: 27
96552532 CCTTATGTGA
* *
96552542 TAAAATGATCGAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCTTATAGGG
*
96552569 TAAAATGACCGAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCTTATAGGG
* * * *
96552596 TAGAATGACCAAAATACCCCTGTAGGG
1 TAAAATGACCGAAATACCCTTATAGGG
96552623 TAAAATGACCGAAATACCCTTATAGGG
1 TAAAATGACCGAAATACCCTTATAGGG
* * * *
96552650 TAGAATGACTGAAACACCCTCATAGGG
1 TAAAATGACCGAAATACCCTTATAGGG
* * *
96552677 TAGAATGATCGAAATACCCTTGTAGGG
1 TAAAATGACCGAAATACCCTTATAGGG
* *
96552704 TAAAATGACTGTAATACCC
1 TAAAATGACCGAAATACCC
96552723 CGGTAAGGTA
Statistics
Matches: 131, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 131 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTTATAGGG
Found at i:96552642 original size:81 final size:81
Alignment explanation
Indices: 96552542--96552739 Score: 272
Period size: 81 Copynumber: 2.4 Consensus size: 81
96552532 CCTTATGTGA
* *
96552542 TAAAATGATCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAGAATGACCA
1 TAAAATGACCGAAATACCCTCATAGGGTAAAATGACCGAAACACCCTCATAGGGTAGAATGACCA
96552607 AAATACCCCTGTAGGG
66 AAATACCCCTGTAGGG
* * * * *
96552623 TAAAATGACCGAAATACCCTTATAGGGTAGAATGACTGAAACACCCTCATAGGGTAGAATGATCG
1 TAAAATGACCGAAATACCCTCATAGGGTAAAATGACCGAAACACCCTCATAGGGTAGAATGACCA
*
96552688 AAATACCCTTGTAGGG
66 AAATACCCCTGTAGGG
* * * *
96552704 TAAAATGACTGTAATACCC-CGGTAAGGTAAAATGAC
1 TAAAATGACCGAAATACCCTC-ATAGGGTAAAATGAC
96552740 AGATTTGTTC
Statistics
Matches: 102, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 102 1.00
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (81 bp):
TAAAATGACCGAAATACCCTCATAGGGTAAAATGACCGAAACACCCTCATAGGGTAGAATGACCA
AAATACCCCTGTAGGG
Found at i:96553100 original size:18 final size:18
Alignment explanation
Indices: 96553071--96553129 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
96553061 TTTGCTTGCA
*
96553071 TACTGTACTGATTATTGT
1 TACTGCACTGATTATTGT
* * *
96553089 TACTGCATTGATCATGGT
1 TACTGCACTGATTATTGT
*
96553107 TACTGCACTGATTACTGT
1 TACTGCACTGATTATTGT
96553125 TACTG
1 TACTG
96553130 AAATGGGCTA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (18 bp):
TACTGCACTGATTATTGT
Found at i:96560874 original size:29 final size:29
Alignment explanation
Indices: 96560829--96560911 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 29
96560819 TGAATGTGAC
* * *
96560829 TGGGCATAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
* *
96560858 TGTGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
* *
96560887 TGGGCCTAATGGGCCAAATACAGGT
1 TGGGCCTAATGGGCCATATAAAGGT
96560912 ATGTGAATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAAGGTGATT
Found at i:96578925 original size:43 final size:42
Alignment explanation
Indices: 96578840--96578953 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 42
96578830 CATCGACTTA
* *
96578840 TGATTTACATGTAAGACCATGGCTAGGACATGGGCATCATATT
1 TGATTT-CATGTAAGACCATGTCTGGGACATGGGCATCATATT
* *
96578883 TGATTTCATGTAAGACCTTGTCTGGGATA-GTGGCATCGATATT
1 TGATTTCATGTAAGACCATGTCTGGGACATG-GGCATC-ATATT
** * *
96578926 TGGCTACATGTAAGACCACGTCTGGGAC
1 TGATTTCATGTAAGACCATGTCTGGGAC
96578954 GTTAGCATTG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.02
42 25 0.42
43 33 0.56
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TGATTTCATGTAAGACCATGTCTGGGACATGGGCATCATATT
Found at i:96585013 original size:66 final size:64
Alignment explanation
Indices: 96584898--96585020 Score: 192
Period size: 66 Copynumber: 1.9 Consensus size: 64
96584888 TGAGTGAGCC
** *
96584898 TGCAAAGTTGAAGAGCTAGGGAAAGAGAAAAGAAAAGTTGACTTTGAAGCTAGAGATTCACGTA
1 TGCAAAGCCGAAGAGCTAGGGAAAGAAAAAAGAAAAGTTGACTTTGAAGCTAGAGATTCACGTA
*
96584962 NTGCAAAGCCGAAGAGCTTGGGAAAGAAAAAAAGAAAAGTTGACTTTGAAGCTAGAGAT
1 -TGCAAAGCCGAAGAGCTAGGGAAAG-AAAAAAGAAAAGTTGACTTTGAAGCTAGAGAT
96585021 GCACATAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
65 22 0.42
66 31 0.58
ACGTcount: A:0.43, C:0.10, G:0.28, T:0.19
Consensus pattern (64 bp):
TGCAAAGCCGAAGAGCTAGGGAAAGAAAAAAGAAAAGTTGACTTTGAAGCTAGAGATTCACGTA
Found at i:96594510 original size:93 final size:93
Alignment explanation
Indices: 96594351--96594801 Score: 812
Period size: 93 Copynumber: 4.8 Consensus size: 93
96594341 GGATGGTTGA
*
96594351 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
96594416 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
96594444 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
96594509 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
96594537 GCATCTGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
96594602 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* **
96594630 GCATCTGAACTAATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
96594695 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
96594723 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
96594788 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
96594802 CTTATGGGTG
Statistics
Matches: 347, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 347 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:96601260 original size:21 final size:21
Alignment explanation
Indices: 96601222--96601261 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
96601212 GGGGGCATAG
*
96601222 AGAAGCCGATTGATCCATCTT
1 AGAAGCCGATTCATCCATCTT
96601243 AGAAGCCAGATTCA-CCATC
1 AGAAGCC-GATTCATCCATC
96601262 AAGACTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (21 bp):
AGAAGCCGATTCATCCATCTT
Found at i:96612821 original size:27 final size:26
Alignment explanation
Indices: 96612777--96612828 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
96612767 CTCACTTCAA
*
96612777 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
96612804 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
96612829 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:96615746 original size:33 final size:33
Alignment explanation
Indices: 96615703--96615775 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
96615693 ATCTGGACCA
* *
96615703 AAGCCCTATTCAGTCTCGACATATACTGGGCCG
1 AAGCCTTATTCAGTCTCGACAAATACTGGGCCG
96615736 AAGCCTTATTCAGTCTCGACAAATACTGGGCCG
1 AAGCCTTATTCAGTCTCGACAAATACTGGGCCG
96615769 AAGCCTT
1 AAGCCTT
96615776 TCGTTTAACG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (33 bp):
AAGCCTTATTCAGTCTCGACAAATACTGGGCCG
Found at i:96616077 original size:24 final size:25
Alignment explanation
Indices: 96616050--96616101 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
96616040 GCCTAGCCTC
96616050 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
96616074 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
96616099 TTT
1 TTT
96616102 CGCACTTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:96616171 original size:32 final size:32
Alignment explanation
Indices: 96616135--96616199 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
96616125 ACCCAACCCA
*
96616135 TGCATATAATAAGTATATCAT-AGCATATCATG
1 TGCATATAATAA-CATATCATGAGCATATCATG
* * *
96616167 TGCATATCATTACATATCATGTGCATATCATG
1 TGCATATAATAACATATCATGAGCATATCATG
96616199 T
1 T
96616200 CCTATCATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 7 0.25
32 21 0.75
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (32 bp):
TGCATATAATAACATATCATGAGCATATCATG
Found at i:96616205 original size:10 final size:11
Alignment explanation
Indices: 96616157--96616209 Score: 74
Period size: 11 Copynumber: 5.0 Consensus size: 11
96616147 GTATATCATA
96616157 GCATATCATGT
1 GCATATCATGT
96616168 GCATATCAT-T
1 GCATATCATGT
*
96616178 ACATATCATGT
1 GCATATCATGT
96616189 GCATATCATGT
1 GCATATCATGT
*
96616200 -CCTATCATGT
1 GCATATCATGT
96616210 ATAACAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
10 18 0.47
11 20 0.53
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (11 bp):
GCATATCATGT
Found at i:96616209 original size:21 final size:21
Alignment explanation
Indices: 96616149--96616197 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
96616139 TATAATAAGT
96616149 ATATCA-TAGCATATCATGTGC
1 ATATCATTA-CATATCATGTGC
96616170 ATATCATTACATATCATGTGC
1 ATATCATTACATATCATGTGC
96616191 ATATCAT
1 ATATCAT
96616198 GTCCTATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (21 bp):
ATATCATTACATATCATGTGC
Found at i:96616352 original size:27 final size:27
Alignment explanation
Indices: 96616322--96616436 Score: 117
Period size: 27 Copynumber: 4.3 Consensus size: 27
96616312 AGGCAAAATG
*
96616322 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * * *
96616349 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTTTACCCCACAAGGGTATTTCA
* *
96616376 GT-ATTTCTACCCTACAAGGGTATTTCG
1 GTAATTT-TACCCCACAAGGGTATTTCA
* *
96616403 GTAATTCT-CCCCTACAGGGGTATTTCA
1 GTAATTTTACCCC-ACAAGGGTATTTCA
96616430 GTAATTT
1 GTAATTT
96616437 CACAATCGAG
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 6 0.08
27 64 0.88
28 3 0.04
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:96616387 original size:54 final size:55
Alignment explanation
Indices: 96616322--96616437 Score: 173
Period size: 54 Copynumber: 2.1 Consensus size: 55
96616312 AGGCAAAATG
*
96616322 GTAATTT-TACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCA
* * * *
96616376 GT-ATTTCTACCCTACAAGGGTATTTCGGTAATTCTCCCCTACAGGGGTATTTCA
1 GTAATTTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCA
96616430 GTAATTTC
1 GTAATTTC
96616438 ACAATCGAGG
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
53 4 0.07
54 46 0.84
55 5 0.09
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (55 bp):
GTAATTTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCA
Found at i:96616470 original size:27 final size:27
Alignment explanation
Indices: 96616440--96616561 Score: 165
Period size: 27 Copynumber: 4.5 Consensus size: 27
96616430 GTAATTTCAC
*
96616440 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
*
96616467 AATCGAGGGTAAAACAATAATTCTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
* *
96616494 AATCAAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTGTA
* **
96616521 AATCAAGGGTAAAACGGCAATTCTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
96616548 AATCGTA-GGTAAAA
1 AATCG-AGGGTAAAA
96616562 TAGTAATTGG
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 84 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.25
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTCTGTA
Found at i:96620821 original size:44 final size:42
Alignment explanation
Indices: 96620770--96620867 Score: 117
Period size: 44 Copynumber: 2.3 Consensus size: 42
96620760 ATATGTGTTG
*
96620770 TCGTGTAAGACCACATCTGGGACATTGCCATCG-ACTTATGATT
1 TCGTGTAAGACCACATCTGGGACATGGCCATCGTAC-T-TGATT
** * *
96620813 TACGTGTAAGACCATGTCTGGGACATGGGCATTGTACTTGATT
1 T-CGTGTAAGACCACATCTGGGACATGGCCATCGTACTTGATT
96620856 TCGTGTAAGACC
1 TCGTGTAAGACC
96620868 TTGTCTAGGA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
42 11 0.23
43 7 0.15
44 28 0.58
45 2 0.04
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCACATCTGGGACATGGCCATCGTACTTGATT
Found at i:96623725 original size:39 final size:39
Alignment explanation
Indices: 96623692--96623811 Score: 134
Period size: 39 Copynumber: 3.1 Consensus size: 39
96623682 TATATCCTAT
*
96623692 TACACATATAATCACCTAACATTCAAGCATATATCACAA
1 TACACATATAATCACATAACATTCAAGCATATATCACAA
* * ** * *
96623731 TACTCATATAGTCACATAACATTCTTGGATATTTCACAA
1 TACACATATAATCACATAACATTCAAGCATATATCACAA
* * *
96623770 TATACATTTAATCTCATAACATTTC-AGCATATATCACAA
1 TACACATATAATCACATAACA-TTCAAGCATATATCACAA
96623809 TAC
1 TAC
96623812 TCAAAAACAT
Statistics
Matches: 64, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 61 0.95
40 3 0.05
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.33
Consensus pattern (39 bp):
TACACATATAATCACATAACATTCAAGCATATATCACAA
Found at i:96625075 original size:21 final size:22
Alignment explanation
Indices: 96625032--96625082 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
96625022 ATTTTTATTT
* *
96625032 AAAACATGCAATTTAATGGCTA
1 AAAACATGCAATTTAAAGACTA
*
96625054 AAAACTTGC-ATTTAAAGACTA
1 AAAACATGCAATTTAAAGACTA
96625075 AATAACAT
1 AA-AACAT
96625083 TTAAAACTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.49, C:0.14, G:0.10, T:0.27
Consensus pattern (22 bp):
AAAACATGCAATTTAAAGACTA
Found at i:96625764 original size:26 final size:26
Alignment explanation
Indices: 96625735--96625878 Score: 182
Period size: 26 Copynumber: 5.5 Consensus size: 26
96625725 AATTTTCCTG
*
96625735 AAAAGCATTCTTTCATATTACACCAC
1 AAAAGCTTTCTTTCATATTACACCAC
*
96625761 AAAAGTTTTCTTTCATATTACACCAC
1 AAAAGCTTTCTTTCATATTACACCAC
**
96625787 AAAAGCTTTCTTTCATATTATGCCAC
1 AAAAGCTTTCTTTCATATTACACCAC
*
96625813 -AAAGACTTTCTTTCATATTACTCCAC
1 AAAAG-CTTTCTTTCATATTACACCAC
* * **
96625839 AAAGGCTTTGTTTCATATTATGCCAC
1 AAAAGCTTTCTTTCATATTACACCAC
*
96625865 AAAGGCTTTCTTTC
1 AAAAGCTTTCTTTC
96625879 TAGACGTGTT
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
25 4 0.04
26 97 0.93
27 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.38
Consensus pattern (26 bp):
AAAAGCTTTCTTTCATATTACACCAC
Found at i:96631277 original size:81 final size:81
Alignment explanation
Indices: 96631191--96631471 Score: 368
Period size: 81 Copynumber: 3.5 Consensus size: 81
96631181 TATGTCGATC
* * * *
96631191 ATTTTACAAATCGGGGGTGTTTTGGTAATTTTACAAATCGAAGGTATTTCGATAATTTTACAAAT
1 ATTTCACAAATCGAGGGTGTTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAAT
*
96631256 CGAGGGTATTTAAGTA
66 CGAGGGTATTTCAGTA
* * * * * *
96631272 ATTTTACAAATTGAGGGTGTTTCGGTAATTTCACAAATC-AGGGGTATTTTGATAATGTTAAAAA
1 ATTTCACAAATCGAGGGTGTTTCGGTAATTTTACAAATCGA-GGGTATTTCGATAATTTTACAAA
*
96631336 TCGAAGGTATTTCAGTA
65 TCGAGGGTATTTCAGTA
* *
96631353 ATTTCAC-AATCGAGGGTATTTCGGTAATTTTACAAATCGGGGGTATTTCGATAATTTTACAAAT
1 ATTTCACAAATCGAGGGTGTTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAAT
* * *
96631417 CAAGGGTGTTTCGGTA
66 CGAGGGTATTTCAGTA
* *
96631433 ATTTCACAAATCGGGGGTTTTTCGGTAATTTTACAAATC
1 ATTTCACAAATCGAGGGTGTTTCGGTAATTTTACAAATC
96631472 AGAATATTTT
Statistics
Matches: 173, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
80 69 0.40
81 104 0.60
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (81 bp):
ATTTCACAAATCGAGGGTGTTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAAT
CGAGGGTATTTCAGTA
Found at i:96631481 original size:27 final size:27
Alignment explanation
Indices: 96631177--96631471 Score: 324
Period size: 27 Copynumber: 11.0 Consensus size: 27
96631167 TTTATCTTAT
* * *
96631177 AGGGTATGTCGATCATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
96631204 GGGGTGTTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
96631231 AAGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** *
96631258 AGGGTATTTAAGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
96631285 AGGGTGTTTCGGTAATTTCACAAATC-
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
96631311 AGGGGTATTTTGATAATGTTAAAAATCG
1 A-GGGTATTTCGGTAATTTTACAAATCG
* * *
96631339 AAGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
96631365 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
96631392 GGGGTATTTCGATAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
96631419 AGGGTGTTTCGGTAATTTCACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
96631446 GGGGTTTTTCGGTAATTTTACAAATC
1 AGGGTATTTCGGTAATTTTACAAATC
96631472 AGAATATTTT
Statistics
Matches: 217, Mismatches: 48, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
26 24 0.11
27 192 0.88
28 1 0.00
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:96633771 original size:30 final size:30
Alignment explanation
Indices: 96633737--96633797 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
96633727 TTCCCGAGCC
*
96633737 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTATAAATATGCAAAAGTT
* *
96633767 TAGGGGCAAAATTATAAATTTGCAAAAGTT
1 TAGGGGCAAAAGTATAAATATGCAAAAGTT
96633797 T
1 T
96633798 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAGTATAAATATGCAAAAGTT
Found at i:96638621 original size:27 final size:27
Alignment explanation
Indices: 96638331--96638680 Score: 397
Period size: 27 Copynumber: 13.0 Consensus size: 27
96638321 TACCCTACAG
* * * *
96638331 GGGTATGTCGATCATTTTAC-ACTACAA
1 GGGTATTTCGATAATTTTACAAAT-CGA
* *
96638358 GGGTATTTCGATAATTTTAC-ACTACAA
1 GGGTATTTCGATAATTTTACAAAT-CGA
*
96638385 GGGTATTTTGATAATTTTACAAATCGA
1 GGGTATTTCGATAATTTTACAAATCGA
* *
96638412 GGGTGTTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGATAATTTTACAAATCGA
96638439 GGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTCGATAATTTTACAAATCGA
* * *
96638466 GGGTATTTCAATAATTTTTCAAATCAA
1 GGGTATTTCGATAATTTTACAAATCGA
* * * *
96638493 GGGTGTTTTGATAATTTCACAAATCGG
1 GGGTATTTCGATAATTTTACAAATCGA
96638520 GGGTATTTCAGA-AATTTTACAAATCGA
1 GGGTATTTC-GATAATTTTACAAATCGA
* * *
96638547 GGGTATTTTAGA-AATTTCAC-AATCAA
1 GGGTA-TTTCGATAATTTTACAAATCGA
* *
96638573 GGGTATTTCAATAATTTTACAAATTGA
1 GGGTATTTCGATAATTTTACAAATCGA
96638600 GGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTCGATAATTTTACAAATCGA
* *
96638627 GGGTGTTTC-AGTAATTTCACAAATCGA
1 GGGTATTTCGA-TAATTTTACAAATCGA
*
96638654 GGGTATCTCGATAATTTTACAAATCGA
1 GGGTATTTCGATAATTTTACAAATCGA
96638681 CAGTTTTTTA
Statistics
Matches: 277, Mismatches: 39, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.01
26 18 0.06
27 247 0.89
28 8 0.03
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAATCGA
Found at i:96638623 original size:134 final size:135
Alignment explanation
Indices: 96638384--96638698 Score: 420
Period size: 134 Copynumber: 2.3 Consensus size: 135
96638374 TTACACTACA
* * * ** * * *
96638384 AGGGTATTTTGATAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATCGAGGGTATTTCG
1 AGGGTATCTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTTCACAAATCAAGGGTATTTCA
* *
96638449 ATAATTTTACAAATCGAGGGTATTTCAATAATTTTTCAAATCAAGGGTGTTT-TGATAATTTCAC
66 ATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCAAGGGTGTTTCAG-TAATTTCAC
96638513 AAATCG
130 AAATCG
* * *
96638519 GGGGTATTTCAGA-AATTTTACAAATCGAGGGTATTTTAGAAATTTCAC-AATCAAGGGTATTTC
1 AGGGTATCTC-GATAATTTTACAAATCGAGGGTATTTTAGTAATTTCACAAATCAAGGGTATTTC
* * *
96638582 AATAATTTTACAAATTGAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCAGTAATTTCAC
65 AATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCAAGGGTGTTTCAGTAATTTCAC
96638647 AAATCG
130 AAATCG
** *
96638653 AGGGTATCTCGATAATTTTACAAATCGACAGTTTTTTAGTAATTTC
1 AGGGTATCTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTTC
96638699 TCTTTATTAT
Statistics
Matches: 157, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
133 2 0.01
134 114 0.73
135 39 0.25
136 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (135 bp):
AGGGTATCTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTTCACAAATCAAGGGTATTTCA
ATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCAAGGGTGTTTCAGTAATTTCACA
AATCG
Found at i:96643012 original size:27 final size:27
Alignment explanation
Indices: 96642973--96643066 Score: 116
Period size: 27 Copynumber: 3.5 Consensus size: 27
96642963 TGATTGACTG
*
96642973 AAATGACTATTTTGCCCTTATAAGGTA
1 AAATGACTATTTTGCCCTTATATGGTA
* * *
96643000 AAATGAATGTTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATATGGTA
* *
96643027 AAATGACTATTTTGACCTTTTATGGTA
1 AAATGACTATTTTGCCCTTATATGGTA
* *
96643054 AGATGACTGTTTT
1 AAATGACTATTTT
96643067 ACCCCTATGT
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTTATATGGTA
Found at i:96643065 original size:54 final size:54
Alignment explanation
Indices: 96642973--96643077 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
96642963 TGATTGACTG
* * *
96642973 AAATGACTATTTTGCCCTTATAAGGTAAAATGAATGTTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGACCTTATAAGGTAAAATGAATGTTTTACCCCTATGTGGTA
* * * *
96643027 AAATGACTATTTTGACCTTTTATGGTAAGATGACTGTTTTACCCCTATGTG
1 AAATGACTATTTTGACCTTATAAGGTAAAATGAATGTTTTACCCCTATGTG
96643078 ATGTATGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (54 bp):
AAATGACTATTTTGACCTTATAAGGTAAAATGAATGTTTTACCCCTATGTGGTA
Found at i:96643397 original size:6 final size:6
Alignment explanation
Indices: 96643386--96643437 Score: 63
Period size: 6 Copynumber: 8.8 Consensus size: 6
96643376 TGCATATTGT
* *
96643386 TTACTG TTACTG -TACTG TTACTG TTACTA TTACTG -CACTG TTTACTG
1 TTACTG TTACTG TTACTG TTACTG TTACTG TTACTG TTACTG -TTACTG
96643433 TTACT
1 TTACT
96643438 ACAATGGGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 9 0.23
6 26 0.67
7 4 0.10
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.48
Consensus pattern (6 bp):
TTACTG
Found at i:96643408 original size:17 final size:18
Alignment explanation
Indices: 96643386--96643437 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
96643376 TGCATATTGT
96643386 TTACTGTTACTG-TACTG
1 TTACTGTTACTGTTACTG
*
96643403 TTACTGTTACTATTACTG
1 TTACTGTTACTGTTACTG
*
96643421 -CACTGTTTACTGTTACT
1 TTACTG-TTACTGTTACT
96643438 ACAATGGGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.48
Consensus pattern (18 bp):
TTACTGTTACTGTTACTG
Found at i:96643418 original size:23 final size:24
Alignment explanation
Indices: 96643386--96643438 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
96643376 TGCATATTGT
* *
96643386 TTACTGTTACTGTACTG-TTACTG
1 TTACTATTACTGCACTGTTTACTG
96643409 TTACTATTACTGCACTGTTTACTG
1 TTACTATTACTGCACTGTTTACTG
96643433 TTACTA
1 TTACTA
96643439 CAATGGGCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 15 0.56
24 12 0.44
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (24 bp):
TTACTATTACTGCACTGTTTACTG
Found at i:96644277 original size:30 final size:30
Alignment explanation
Indices: 96644243--96644302 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
96644233 TTTGATGAGT
96644243 ATGTACATCCTTGATTATAAACTTATACAC
1 ATGTACATCCTTGATTATAAACTTATACAC
96644273 ATGTACATCCTTGATTATAAACTTATACAC
1 ATGTACATCCTTGATTATAAACTTATACAC
96644303 CTTGAGTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (30 bp):
ATGTACATCCTTGATTATAAACTTATACAC
Found at i:96656579 original size:25 final size:25
Alignment explanation
Indices: 96656504--96656572 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
96656494 TCATGTACAT
* * *
96656504 GTATGCTCATACGATCTGTAAAT-A
1 GTATGCTCACACGAGCTGTAGATCA
*
96656528 GGTATGCTCACTCGAGCTGTAGATCA
1 -GTATGCTCACACGAGCTGTAGATCA
*
96656554 GTATGCTCTCACGAGCTGT
1 GTATGCTCACACGAGCTGT
96656573 GGGTCAGAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
25 36 0.97
26 1 0.03
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAGATCA
Found at i:96659009 original size:25 final size:25
Alignment explanation
Indices: 96658975--96659088 Score: 113
Period size: 25 Copynumber: 4.6 Consensus size: 25
96658965 TGCTCTACAA
* *
96658975 CTCGTGAGAGCATACTGATTTATAG
1 CTCGTAAGAGCATACCGATTTATAG
*
96659000 CTCGTAAGAGCATACCGATTTATAA
1 CTCGTAAGAGCATACCGATTTATAG
* ** *
96659025 CTCGTGAGAGCATATTGATCTATAG
1 CTCGTAAGAGCATACCGATTTATAG
* * *
96659050 CTCG-AGTGAGCATACCGATTCACAG
1 CTCGTA-AGAGCATACCGATTTATAG
*
96659075 CTCGTATGAGCATA
1 CTCGTAAGAGCATA
96659089 AATGTACATG
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
25 71 0.99
26 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (25 bp):
CTCGTAAGAGCATACCGATTTATAG
Found at i:96659049 original size:50 final size:50
Alignment explanation
Indices: 96658973--96659069 Score: 151
Period size: 50 Copynumber: 1.9 Consensus size: 50
96658963 GATGCTCTAC
*
96658973 AACTCGTGAGAGCATACTGATTTATAGCTCGTA-AGAGCATACCGATTTAT
1 AACTCGTGAGAGCATACTGATCTATAGCTCG-AGAGAGCATACCGATTTAT
* *
96659023 AACTCGTGAGAGCATATTGATCTATAGCTCGAGTGAGCATACCGATT
1 AACTCGTGAGAGCATACTGATCTATAGCTCGAGAGAGCATACCGATT
96659070 CACAGCTCGT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 1 0.02
50 42 0.98
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (50 bp):
AACTCGTGAGAGCATACTGATCTATAGCTCGAGAGAGCATACCGATTTAT
Found at i:96659079 original size:50 final size:50
Alignment explanation
Indices: 96658971--96659088 Score: 150
Period size: 50 Copynumber: 2.4 Consensus size: 50
96658961 CGGATGCTCT
* *
96658971 ACAACTCGTGAGAGCATACTGATTTATAGCTCGTAAGAGCATACCGATTT
1 ACAACTCGTGAGAGCATACTGATCTATAGCTCGTAAGAGCATACCGATTC
* * *
96659021 ATAACTCGTGAGAGCATATTGATCTATAGCTCG-AGTGAGCATACCGATTC
1 ACAACTCGTGAGAGCATACTGATCTATAGCTCGTA-AGAGCATACCGATTC
*
96659071 ACAGCTCGT-ATGAGCATA
1 ACAACTCGTGA-GAGCATA
96659089 AATGTACATG
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
49 2 0.03
50 57 0.97
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (50 bp):
ACAACTCGTGAGAGCATACTGATCTATAGCTCGTAAGAGCATACCGATTC
Found at i:96664611 original size:26 final size:25
Alignment explanation
Indices: 96664555--96664661 Score: 144
Period size: 25 Copynumber: 4.2 Consensus size: 25
96664545 GATACTCCAC
* *
96664555 AGCTCGTGAGAGCATACCGATTTAT
1 AGCTCGTAAGAGCATATCGATTTAT
96664580 AGCTCGTAAGAGCATATCGATTTTAT
1 AGCTCGTAAGAGCATATCGA-TTTAT
* *
96664606 AGCTCGTAAAAGCATATCAATTTAT
1 AGCTCGTAAGAGCATATCGATTTAT
*
96664631 AGCTCGTAAGAGCATA-CTGATCTAT
1 AGCTCGTAAGAGCATATC-GATTTAT
96664656 AGCTCG
1 AGCTCG
96664662 AGTGATCATA
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
24 1 0.01
25 49 0.67
26 23 0.32
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (25 bp):
AGCTCGTAAGAGCATATCGATTTAT
Found at i:96665058 original size:8 final size:8
Alignment explanation
Indices: 96665047--96665087 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
96665037 CTATTACTTG
96665047 AATGCTTA
1 AATGCTTA
96665055 AATGCTTA
1 AATGCTTA
96665063 AATGCTTA
1 AATGCTTA
96665071 CTAA-GCTTA
1 --AATGCTTA
96665080 AATGCTTA
1 AATGCTTA
96665088 CTCTGTGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 2 0.07
8 21 0.70
9 5 0.17
10 2 0.07
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (8 bp):
AATGCTTA
Found at i:96670384 original size:27 final size:27
Alignment explanation
Indices: 96670337--96670448 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
96670327 CATGGTTTCT
** *
96670337 AGAACAGATA-TTGTGATAGAGTCACC
1 AGAACAGATATTTGTGGCAGAGCCACC
*
96670363 AGATACAGATA-TTATGGCAGAGCCACC
1 AGA-ACAGATATTTGTGGCAGAGCCACC
*
96670390 AGAACAGATATTTGTGGCATAGCCACC
1 AGAACAGATATTTGTGGCAGAGCCACC
*
96670417 AGAAACAGATATTTGTGGCATAGCCACC
1 AG-AACAGATATTTGTGGCAGAGCCACC
96670445 AGAA
1 AGAA
96670449 TGCTTCCTCC
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
26 10 0.13
27 40 0.52
28 27 0.35
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.21
Consensus pattern (27 bp):
AGAACAGATATTTGTGGCAGAGCCACC
Found at i:96670432 original size:28 final size:28
Alignment explanation
Indices: 96670359--96670448 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
96670349 GTGATAGAGT
* * *
96670359 CACCAGATACAGATA-TTATGGCAGAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
96670386 CACCAG-AACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
96670413 CACCAGAAACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
96670441 CACCAGAA
1 CACCAGAA
96670449 TGCTTCCTCC
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
26 7 0.12
27 22 0.38
28 29 0.50
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (28 bp):
CACCAGAAACAGATATTTGTGGCATAGC
Found at i:96682287 original size:30 final size:30
Alignment explanation
Indices: 96682251--96682310 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
96682241 TTCTCGAGCC
*
96682251 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
96682281 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
96682311 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:96683022 original size:23 final size:23
Alignment explanation
Indices: 96682992--96683038 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
96682982 CATATTGGTA
96682992 AGTGTGATGAATGAGAAAATTTG
1 AGTGTGATGAATGAGAAAATTTG
96683015 AGTGTGATGAATGAGAAAATTTG
1 AGTGTGATGAATGAGAAAATTTG
96683038 A
1 A
96683039 CAGGTATGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (23 bp):
AGTGTGATGAATGAGAAAATTTG
Found at i:96685985 original size:47 final size:47
Alignment explanation
Indices: 96685934--96686125 Score: 282
Period size: 47 Copynumber: 4.1 Consensus size: 47
96685924 TTAGGATTTT
96685934 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
96685981 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
96686028 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
96686075 ATGTGGTGAATATGAACATGCATATGTG-GCA-AA-GCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTG-ATAAGGCCGAATGGCCA
96686120 ATGTGA
1 ATGTGA
96686126 AATATATATA
Statistics
Matches: 135, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
45 16 0.12
46 3 0.02
47 116 0.86
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:96685987 original size:22 final size:22
Alignment explanation
Indices: 96685959--96686034 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
96685949 ACATGCATAT
96685959 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
96685981 ATGTGATAAATGTG-AGCAT-GCATA
1 ATGTGAT-AA-G-GCCGAATGGC-CA
96686005 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
96686028 ATGTGAT
1 ATGTGAT
96686035 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:96686083 original size:25 final size:25
Alignment explanation
Indices: 96686008--96686083 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
96685998 ATGCATATAT
96686008 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
96686033 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
96686055 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
96686080 GTGA
1 GTGA
96686084 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:96686379 original size:37 final size:37
Alignment explanation
Indices: 96686329--96686437 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
96686319 TGGAAATATA
*
96686329 TTCCGGGTAAGACCCAATGACTACGTGTGGAGATTAT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
96686366 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
* * *
96686403 GTCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATT
96686438 TCGTCTGAGC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
Found at i:96689927 original size:18 final size:19
Alignment explanation
Indices: 96689894--96689930 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
96689884 GATATGATAC
*
96689894 TAAAATTATTTAAAAAAAT
1 TAAAATTATATAAAAAAAT
96689913 TAAAA-TATATAAAAAAAT
1 TAAAATTATATAAAAAAAT
96689931 CAGGGAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATTATATAAAAAAAT
Found at i:96690243 original size:19 final size:19
Alignment explanation
Indices: 96690219--96690309 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
96690209 AATCATATCT
*
96690219 TCTAAGATTGCATATTATA
1 TCTAAGATTGCATATCATA
96690238 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
96690256 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
96690273 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
96690292 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
96690310 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 15 0.22
19 37 0.54
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:96690279 original size:35 final size:37
Alignment explanation
Indices: 96690212--96690309 Score: 141
Period size: 35 Copynumber: 2.7 Consensus size: 37
96690202 ATTACAAAAT
*
96690212 CATATC-T-TCTAAGATTGCATATTATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
96690248 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
96690283 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
96690310 TGAAGATTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
35 21 0.38
36 19 0.34
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:96690744 original size:44 final size:45
Alignment explanation
Indices: 96690661--96690859 Score: 258
Period size: 45 Copynumber: 4.5 Consensus size: 45
96690651 GGAAGGCGAT
* * *
96690661 ATCTGCTATCTTTGATTTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
96690706 ATCTGTTATCTTCGATCTGCT-CCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * *
96690750 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAAAGATGTCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * *
96690794 ATCTGTTATCTTTGATTTGCTCCCCGTCTAATATAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
96690839 ATCTGTCATCTTGGATCTGCT
1 ATCTGTTATCTTCGATCTGCT
96690860 TCGATGTAAA
Statistics
Matches: 134, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
43 12 0.09
44 55 0.41
45 67 0.50
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:96690795 original size:88 final size:89
Alignment explanation
Indices: 96690678--96690843 Score: 262
Period size: 88 Copynumber: 1.9 Consensus size: 89
96690668 ATCTTTGATT
*
96690678 TGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCT-CCCGTCTAATACAGA
1 TGCTCCCCGTCTAATACAAAGACGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGA
96690742 GACGCCAAATCTGCTTCTTCAATC
66 GACGCCAAATCTGCTTCTTCAATC
* * * * *
96690766 TGCTCCCCGTCTAATACAAAGATGTCAAATCTGTTATCTTTGATTTGCTCCCCGTCTAATATAGA
1 TGCTCCCCGTCTAATACAAAGACGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGA
*
96690831 GATGCCAAATCTG
66 GACGCCAAATCTG
96690844 TCATCTTGGA
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
88 44 0.63
89 26 0.37
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (89 bp):
TGCTCCCCGTCTAATACAAAGACGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGA
GACGCCAAATCTGCTTCTTCAATC
Found at i:96690938 original size:133 final size:130
Alignment explanation
Indices: 96690666--96690947 Score: 327
Period size: 133 Copynumber: 2.1 Consensus size: 130
96690656 GCGATATCTG
*
96690666 CTATCTTTGATTTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCCCG
1 CTATCTTTGATTTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCCCG
*
96690731 TCTAATACAGAGACGCCAAATCTGCTTCTTCAATCTGCTCCCCGTCTAATACAAAGATGTCAAAT
66 TCTAACACAGAGACGCCAAATCTGCTTCTTCAATCTGCTCCCCGTCTAATACAAAGATGTCAAAT
* * *
96690796 CTGTTATCTTTGATTTGCTCCCCGTCTAATATAGAGATGCCAAATCTGTCATCTTGGATCTGCT-
1 C---TATCTTTGATTTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTC
* * * * * * * *
96690860 TCGATGTAAACACATGA-AGGTCAGATCTGCTATGTCTTCGATTTGCTCCCCGTCTAATACAGAG
63 CCG-TCT-AACACA-GAGACGCCAAATCTGC--T-TCTTCAATCTGCTCCCCGTCTAATACAAAG
96690924 ATGTCAAAT
122 ATGTCAAAT
* *
96690933 C-ATCTTGGATCTGCT
1 CTATCTTTGATTTGCT
96690948 TCAATGAAGG
Statistics
Matches: 128, Mismatches: 15, Indels: 15
0.81 0.09 0.09
Matches are distributed among these distances:
130 1 0.01
132 2 0.02
133 70 0.55
134 15 0.12
135 2 0.02
136 1 0.01
137 37 0.29
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (130 bp):
CTATCTTTGATTTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCCCG
TCTAACACAGAGACGCCAAATCTGCTTCTTCAATCTGCTCCCCGTCTAATACAAAGATGTCAAAT
Found at i:96691002 original size:78 final size:78
Alignment explanation
Indices: 96690873--96691089 Score: 337
Period size: 78 Copynumber: 2.8 Consensus size: 78
96690863 ATGTAAACAC
* *
96690873 ATGAAGGTCAGATCTGCTATGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGTCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
96690938 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
96690951 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCTTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
96691015 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
** * **
96691029 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTACGTCAAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
96691090 TGTTTCTTCT
Statistics
Matches: 126, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
77 2 0.02
78 122 0.97
79 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:96691334 original size:45 final size:45
Alignment explanation
Indices: 96691270--96691535 Score: 245
Period size: 45 Copynumber: 5.9 Consensus size: 45
96691260 ATCTGCTATG
* * * * **
96691270 TCTTTGATCTACTCTCCGTCGAATATGGAGATGCCAAATCTGTTA
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTA
* *
96691315 TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCT-
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTA
*
96691359 TCTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTA
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTA
* * *
96691404 TC-TCTGATTTGCTCCCTGTCTAATACAGAGATGCCAAATCTGTCA
1 TCTTC-GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTA
* * * * * * * * * *
96691449 TCTTGGATCTACT--TCGATGTAA-ACACATGAAGGTCAGATATGCTATG
1 TCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAAATCTG-T-TA
96691496 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
96691536 ATCTTGGATC
Statistics
Matches: 175, Mismatches: 35, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
43 5 0.03
44 48 0.27
45 92 0.53
46 2 0.01
47 17 0.10
48 5 0.03
49 6 0.03
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (45 bp):
TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTA
Found at i:96691969 original size:13 final size:13
Alignment explanation
Indices: 96691948--96691978 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
96691938 AAAGAAAGAA
*
96691948 TTTCCTCGAGTTT
1 TTTCATCGAGTTT
96691961 TTTCATCGAGTTT
1 TTTCATCGAGTTT
96691974 TTTCA
1 TTTCA
96691979 AACCTCACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.19, G:0.13, T:0.55
Consensus pattern (13 bp):
TTTCATCGAGTTT
Found at i:96695811 original size:36 final size:36
Alignment explanation
Indices: 96695764--96695832 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
96695754 TTATATCATC
96695764 AGCAATATGCGTGCCAATTTTCACCTCTTTCCCATT
1 AGCAATATGCGTGCCAATTTTCACCTCTTTCCCATT
96695800 AGCAATATGCGTGCCAATTTTCACCTCTTTCCC
1 AGCAATATGCGTGCCAATTTTCACCTCTTTCCC
96695833 TTCCTCTAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.35
Consensus pattern (36 bp):
AGCAATATGCGTGCCAATTTTCACCTCTTTCCCATT
Found at i:96696098 original size:24 final size:24
Alignment explanation
Indices: 96696069--96696116 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
96696059 CAAAGAATGA
96696069 ATGAATTTAAGAATGATTATTTAT
1 ATGAATTTAAGAATGATTATTTAT
96696093 ATGAATTTAAGAATGATTATTTAT
1 ATGAATTTAAGAATGATTATTTAT
96696117 GTGCTATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (24 bp):
ATGAATTTAAGAATGATTATTTAT
Found at i:96703162 original size:18 final size:19
Alignment explanation
Indices: 96703129--96703165 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
96703119 GATATGATAC
*
96703129 TAAAATTATTTAAAAAAAT
1 TAAAATTATATAAAAAAAT
96703148 TAAAA-TATATAAAAAAAT
1 TAAAATTATATAAAAAAAT
96703166 CAGGGAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATTATATAAAAAAAT
Found at i:96703452 original size:22 final size:22
Alignment explanation
Indices: 96703417--96703474 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
96703407 AAAAGGTATC
* *
96703417 TACAAATTAAATCTT-TAAGAT
1 TACAAATCATATCTTCTAAGAT
96703438 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
96703461 TGCATATCATATCT
1 TACAAATCATATCT
96703475 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 20 0.65
23 8 0.26
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:96703509 original size:35 final size:37
Alignment explanation
Indices: 96703446--96703543 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
96703436 ATTACAAAAT
96703446 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
96703482 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
96703517 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
96703544 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:96703551 original size:17 final size:19
Alignment explanation
Indices: 96703453--96703543 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
96703443 AATCATATCT
96703453 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
96703472 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
96703490 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
96703507 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
96703526 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
96703544 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:96707282 original size:27 final size:27
Alignment explanation
Indices: 96707252--96707761 Score: 572
Period size: 27 Copynumber: 18.6 Consensus size: 27
96707242 TTAGTTTACC
96707252 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
96707279 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
96707306 AAATCACCAAAATACCGAAATACCCCCAGTTTG-A
1 AAAT--------TACCAAAATACCCCTGGTTTGTA
*
96707340 AAATTACCAAAATACCCCTGGTTTGAA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
96707367 AAATTACCAAAATACCTCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
96707394 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
96707421 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
96707448 AAATTATCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
96707475 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** * **
96707502 AAATTAGTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
96707529 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
96707556 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
96707583 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** * *
96707610 AAATTACTAAAATACCATTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
96707637 AAATTACCAAAATACCCCTGGTTTGAA
1 AAATTACCAAAATACCCCTGGTTTGTA
96707664 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
96707691 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
96707718 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
*
96707745 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
96707762 TCGACCTATA
Statistics
Matches: 400, Mismatches: 74, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
26 18 0.05
27 363 0.91
34 5 0.01
35 14 0.04
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:96707315 original size:54 final size:54
Alignment explanation
Indices: 96707252--96707761 Score: 639
Period size: 54 Copynumber: 9.3 Consensus size: 54
96707242 TTAGTTTACC
*
96707252 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* ** * *
96707306 AAATCACCAAAATACCGAAATACCCCCAGTTTG-AAAATTACCAAAATACCCCTGGTTTGA-A
1 AAAT--------TACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTT-ATA
* *
96707367 AAATTACCAAAATACCTCTGGTTTGTAAAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
*
96707421 AAATCACCAAAATACCCCTGGTTTGTAAAATTA-TCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACT-AAAATACCCTTGGTTTATA
* * *
96707475 AAATCACCAAAATACCCCTGGTTTGTAAAATTAGTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
*
96707529 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * *
96707583 AAATCACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCATTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * *
96707637 AAATTACCAAAATACCCCTGGTTTGAAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * * ** * *
96707691 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
*
96707745 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
96707762 TCGACCTATA
Statistics
Matches: 401, Mismatches: 42, Indels: 26
0.86 0.09 0.06
Matches are distributed among these distances:
53 19 0.05
54 335 0.84
55 1 0.00
61 27 0.07
62 19 0.05
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:96707830 original size:27 final size:27
Alignment explanation
Indices: 96707314--96707831 Score: 499
Period size: 27 Copynumber: 19.3 Consensus size: 27
96707304 TAAAATCACC
* ** *
96707314 AAAA-TACCGAAATACCCCCAGTTT-G
1 AAAATTACCAAAATACCCCTGGTTTAT
96707339 AAAATTACCAAAATACCCCTGGTTTGA-
1 AAAATTACCAAAATACCCCTGGTTT-AT
* *
96707366 AAAATTACCAAAATACCTCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTAT
* * *
96707393 AAAATTACTAGAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTAT
* *
96707420 AAAATCACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTAT
* *
96707447 AAAATTATCAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTAT
* *
96707474 AAAATCACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTAT
** * *
96707501 AAAATTAGTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTAT
*
96707528 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTAT
* * *
96707555 AAAATTACTAGAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTAT
* * *
96707582 AAAATCACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTAT
* ** *
96707609 AAAATTACTAAAATACCATTTGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTAT
96707636 AAAATTACCAAAATACCCCTGGTTTGA-
1 AAAATTACCAAAATACCCCTGGTTT-AT
*
96707663 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTAT
* * *
96707690 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTAT
** *
96707717 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTAT
* * ***
96707744 GAAATTACTAAAATA-CCCTCGACCTAT
1 AAAATTACCAAAATACCCCT-GGTTTAT
*** ** *
96707771 AAAATTATTGAAATA-CCCTCGACTTGT
1 AAAATTACCAAAATACCCCT-GGTTTAT
* *
96707798 AAAATTACCAAATTACCCCTGATTTAT
1 AAAATTACCAAAATACCCCTGGTTTAT
*
96707825 AGAATTA
1 AAAATTA
96707832 TCATTTTACC
Statistics
Matches: 408, Mismatches: 77, Indels: 14
0.82 0.15 0.03
Matches are distributed among these distances:
25 4 0.01
26 21 0.05
27 378 0.93
28 5 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTAT
Found at i:96707842 original size:81 final size:81
Alignment explanation
Indices: 96707713--96707870 Score: 185
Period size: 81 Copynumber: 2.0 Consensus size: 81
96707703 TACCCCTAGT
* *
96707713 TTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTAAAATACCCTCGACCTATAAAATTA
1 TTGTAAAATTACCAAAATACCCCTAATTTATGAAATTACTAAAATACCCTCGACCTACAAAATTA
**
96707778 TTGAAATACCCTCGAC
66 CCGAAATACCCTCGAC
* * *** **
96707794 TTGTAAAATTACCAAATTACCCCTGATTTAT-AGAATTA-TCATTTTACCCTCGATTTACAAAAT
1 TTGTAAAATTACCAAAATACCCCTAATTTATGA-AATTACT-AAAATACCCTCGACCTACAAAAT
96707857 TACCGAAATACCCT
64 TACCGAAATACCCT
96707871 TATAGGGTAG
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
80 2 0.03
81 62 0.97
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCCCTAATTTATGAAATTACTAAAATACCCTCGACCTACAAAATTA
CCGAAATACCCTCGAC
Found at i:96707891 original size:27 final size:27
Alignment explanation
Indices: 96707861--96708072 Score: 257
Period size: 27 Copynumber: 7.9 Consensus size: 27
96707851 CAAAATTACC
* *
96707861 GAAATACCCTTATAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAAATACT
*
96707888 GAAATACCCCTGTAAGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAAATACT
96707915 GAAATACCCCTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAAATACT
* * * *
96707942 AAAATACCCCTATAAGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAAATACT
* *
96707969 AAAATACCCCTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAAATACT
96707996 GAAATACCCCTGTAGGGTA-AAATTACT
1 GAAATACCCCTGTAGGGTAGAAA-TACT
* * * *
96708023 AAAATACCCCTGTAGGGTGGAATTACC
1 GAAATACCCCTGTAGGGTAGAAATACT
* * *
96708050 GAGATACCCTTGTGGGGTA-AAAT
1 GAAATACCCCTGTAGGGTAGAAAT
96708073 TACCATTTTA
Statistics
Matches: 159, Mismatches: 24, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
26 6 0.04
27 151 0.95
28 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAAATACT
Found at i:96708057 original size:81 final size:81
Alignment explanation
Indices: 96707852--96708072 Score: 293
Period size: 81 Copynumber: 2.7 Consensus size: 81
96707842 CTCGATTTAC
** * * * *
96707852 AAAATTACCGAAATACCCTTATAGGGTAGAAATACTGAAATACCCCTGTAAGGTAGAAATACTGA
1 AAAATTACTAAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAATACCGA
96707917 AATACCCCTGTAGGGT
66 AATACCCCTGTAGGGT
* *
96707933 AGAAA-TACTAAAATACCCCTATAAGGTAGAATTACTAAAATACCCCTGTAGGGTAGAAATACCG
1 A-AAATTACTAAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAATACCG
96707997 AAATACCCCTGTAGGGT
65 AAATACCCCTGTAGGGT
* * * * * *
96708014 AAAATTACTAAAATACCCCTGTAGGGTGGAATTACCGAGATACCCTTGTGGGGTA-AAAT
1 AAAATTACTAAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAAT
96708073 TACCATTTTA
Statistics
Matches: 122, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
80 7 0.06
81 112 0.92
82 3 0.02
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAATACCGA
AATACCCCTGTAGGGT
Found at i:96708365 original size:27 final size:26
Alignment explanation
Indices: 96708321--96708371 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
96708311 CTCGCTGCAA
*
96708321 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
96708348 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
96708372 AGCAGTCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:96708436 original size:33 final size:32
Alignment explanation
Indices: 96708387--96708450 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
96708377 TCTCGTGCAA
* *
96708387 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
96708420 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
96708451 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:96708627 original size:6 final size:6
Alignment explanation
Indices: 96708590--96708677 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
96708580 TTGCATTCAC
* * * *
96708590 ATTCTA ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTATG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
96708639 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
96708678 AACGTTTCTT
Statistics
Matches: 63, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.83
7 5 0.08
8 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:96708635 original size:31 final size:31
Alignment explanation
Indices: 96708590--96708668 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
96708580 TTGCATTCAC
* * * *
96708590 ATTCTAATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
* *
96708621 ATTCTGATTCTGATTATGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
96708652 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
96708669 AGTTCTGATA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTG
Found at i:96711828 original size:34 final size:34
Alignment explanation
Indices: 96711750--96711836 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 34
96711740 GATACTATAT
* * **
96711750 TGAAATGGTCTAAGGCCCACACTAATACTGTTAC
1 TGAAATGGGCTAAGGCCCACACTAACACTGCGAC
* *
96711784 TG-TATGGGGCTAAGGCCCACACTAACATTGCGAC
1 TGAAAT-GGGCTAAGGCCCACACTAACACTGCGAC
*
96711818 TGAAATGGGCTTAGGCCCA
1 TGAAATGGGCTAAGGCCCA
96711837 GACTGTTCAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
33 2 0.05
34 39 0.91
35 2 0.05
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (34 bp):
TGAAATGGGCTAAGGCCCACACTAACACTGCGAC
Found at i:96717330 original size:5 final size:5
Alignment explanation
Indices: 96717322--96717351 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
96717312 ATAAAATAAA
96717322 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
96717352 GTCCCGAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:96718788 original size:39 final size:39
Alignment explanation
Indices: 96718734--96718812 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
96718724 ATATACCCTA
*
96718734 ACGGGTACTTTTGCACATGAGTATACTAACTGAACATCC
1 ACGGGTACTTTTGCACATGAGTATACTAACCGAACATCC
96718773 ACGGGTACTTTTGCACATGAGTATACTAACCGAACATCC
1 ACGGGTACTTTTGCACATGAGTATACTAACCGAACATCC
96718812 A
1 A
96718813 TTGAAATTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (39 bp):
ACGGGTACTTTTGCACATGAGTATACTAACCGAACATCC
Found at i:96721279 original size:28 final size:27
Alignment explanation
Indices: 96721224--96721339 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
96721214 AACATGGCTG
* * *
96721224 CCAGAACAGATA-TTGTGACAAAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
* * *
96721250 CCAGATACAGATAATTGTGGTAGGGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
*
96721278 CCAGAAACAGATATTTGTGGCAAAGCCA
1 CCAG-AACAGATATTTGTGGCAGAGCCA
96721306 CCAGAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
96721333 CCAGAAC
1 CCAGAAC
96721340 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.06
27 36 0.47
28 35 0.45
29 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:96721317 original size:55 final size:55
Alignment explanation
Indices: 96721224--96721338 Score: 162
Period size: 55 Copynumber: 2.1 Consensus size: 55
96721214 AACATGGCTG
* * *
96721224 CCAG-AACAGATATTGTGACAAAGTCACCAGATACAGATAATTGTGGTAGGGCCA
1 CCAGAAACAGATATTGTGACAAAGCCACCAGATACAGATAATTGTGGCAGAGCCA
* *
96721278 CCAGAAACAGATATTTGTGGCAAAGCCACCAGA-ACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATA-TTGTGACAAAGCCACCAGATACAGATAATTGTGGCAGAGCCA
96721333 CCAGAA
1 CCAGAA
96721339 CGCTTCCTCC
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 4 0.07
55 33 0.61
56 17 0.31
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.18
Consensus pattern (55 bp):
CCAGAAACAGATATTGTGACAAAGCCACCAGATACAGATAATTGTGGCAGAGCCA
Found at i:96721500 original size:26 final size:26
Alignment explanation
Indices: 96721442--96721503 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
96721432 AAAATCAACC
* *
96721442 CTAAGGGTATAATGGTCATTTTGCAC
1 CTAAGGGTATAATGGTAATTTTGCAA
96721468 CTAAGGGTATAATGGTAATTTT-CATA
1 CTAAGGGTATAATGGTAATTTTGCA-A
*
96721494 CTTAGGGTAT
1 CTAAGGGTAT
96721504 TTTAGTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 2 0.06
26 30 0.94
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (26 bp):
CTAAGGGTATAATGGTAATTTTGCAA
Found at i:96722586 original size:18 final size:18
Alignment explanation
Indices: 96722530--96722586 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
96722520 GGCTATAGAG
96722530 GAAAAGAAGAAGAAGAGAA
1 GAAAAGAAGAAG-AGAGAA
* * *
96722549 -AATAGATGAAGAGAGGA
1 GAAAAGAAGAAGAGAGAA
*
96722566 GAAAAGAAGAAGAGAAAA
1 GAAAAGAAGAAGAGAGAA
96722584 GAA
1 GAA
96722587 TTGTCAGAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 5 0.17
18 25 0.83
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.04
Consensus pattern (18 bp):
GAAAAGAAGAAGAGAGAA
Found at i:96725077 original size:30 final size:30
Alignment explanation
Indices: 96725024--96725096 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
96725014 CTATCAAATT
* *
96725024 ATGAAAAGGGATAGTGGCGACCATCAAACA
1 ATGAAAAGGGATAGTGACAACCATCAAACA
* * **
96725054 ATGAAAAGGGATGGTTACAACCATTGAACA
1 ATGAAAAGGGATAGTGACAACCATCAAACA
96725084 ATGAAAAGGGATA
1 ATGAAAAGGGATA
96725097 TCAAATTATG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.45, C:0.12, G:0.26, T:0.16
Consensus pattern (30 bp):
ATGAAAAGGGATAGTGACAACCATCAAACA
Found at i:96725116 original size:80 final size:80
Alignment explanation
Indices: 96725015--96725176 Score: 204
Period size: 80 Copynumber: 2.0 Consensus size: 80
96725005 TAGCTTCGGC
* *
96725015 TATCAAATTATGAAAAGGGATAG-TGGC-GACCATCAAACAATGAAAAGGGATGGTTACAACCAT
1 TATCAAATTATGAAAAAGGATAGCT-GCAG-CCATCAAACAATGAAAAGGGATGGTGACAACCA-
96725078 TGAA-CAATGAAAAGGGA
63 TGAAGCAATGAAAAGGGA
* * ** *
96725095 TATCAAATTATGAAAAAGGATAGCTTCAGCTATCAAATTATGAAAAGGGATGGTGACGACCATGA
1 TATCAAATTATGAAAAAGGATAGCTGCAGCCATCAAACAATGAAAAGGGATGGTGACAACCATGA
*
96725160 AGCTATGAAAAGGGA
66 AGCAATGAAAAGGGA
96725175 TA
1 TA
96725177 GCTTCGGCTA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
79 4 0.06
80 65 0.92
81 2 0.03
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (80 bp):
TATCAAATTATGAAAAAGGATAGCTGCAGCCATCAAACAATGAAAAGGGATGGTGACAACCATGA
AGCAATGAAAAGGGA
Done.