Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 302 of 322
Found at i:100362336 original size:5 final size:5
Alignment explanation
Indices: 100362320--100362349 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
100362310 CTAATTTAAT
100362320 ATAAA ATCAAA ATAAA ATAAA ATAAA ATAA
1 ATAAA AT-AAA ATAAA ATAAA ATAAA ATAA
100362350 GATTTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:100367137 original size:18 final size:18
Alignment explanation
Indices: 100367114--100367148 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
100367104 GAGTTAAACG
*
100367114 AATCGAGTTATTTGAGTT
1 AATCGAGTTATTCGAGTT
100367132 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
100367149 CAACTCGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.40
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:100367227 original size:9 final size:9
Alignment explanation
Indices: 100367198--100367234 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
100367188 TGAGTTTTTG
100367198 AATTCGAAT
1 AATTCGAAT
*
100367207 AACTCGAAT
1 AATTCGAAT
100367216 AATTCGAAT
1 AATTCGAAT
*
100367225 AATTTGAAT
1 AATTCGAAT
100367234 A
1 A
100367235 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:100367587 original size:17 final size:17
Alignment explanation
Indices: 100367560--100367617 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
100367550 ACTCCCCTTA
*
100367560 TTTATTTCCCCTCAAACT
1 TTTATTTCCCC-AAAACT
100367578 TTTA-TTCCCCAAAACTT
1 TTTATTTCCCCAAAAC-T
*
100367595 TTTATTTTCCCCCTAAACT
1 TTTA-TTT-CCCCAAAACT
100367614 TTTA
1 TTTA
100367618 CTTCTCACCT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 4 0.12
17 11 0.32
18 4 0.12
19 7 0.21
20 8 0.24
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTATTTCCCCAAAACT
Found at i:100369559 original size:24 final size:24
Alignment explanation
Indices: 100369507--100369559 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
100369497 CATTAGACGT
*
100369507 GAAA-CTGCAAAGGTTGAAAAGCC
1 GAAAGCTGCAAAGGCTGAAAAGCC
100369530 GAAAAGCTG-AAAGGCTGAAAAGCC
1 G-AAAGCTGCAAAGGCTGAAAAGCC
100369554 AGAAAG
1 -GAAAG
100369560 TGGGTTGTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 1 0.04
24 21 0.81
25 4 0.15
ACGTcount: A:0.47, C:0.15, G:0.28, T:0.09
Consensus pattern (24 bp):
GAAAGCTGCAAAGGCTGAAAAGCC
Found at i:100369964 original size:27 final size:28
Alignment explanation
Indices: 100369934--100369995 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 28
100369924 TATTTACTTG
100369934 AAAATGATC-AAAATACCCCCATAAGGT
1 AAAATGATCTAAAATACCCCCATAAGGT
** *
100369961 AAAATGA-CTGTAATACCCCTATAAGGT
1 AAAATGATCTAAAATACCCCCATAAGGT
*
100369988 AAATTGAT
1 AAAATGAT
100369996 GGTTTTGCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (28 bp):
AAAATGATCTAAAATACCCCCATAAGGT
Found at i:100370320 original size:27 final size:27
Alignment explanation
Indices: 100369998--100370312 Score: 307
Period size: 27 Copynumber: 11.7 Consensus size: 27
100369988 AAATTGATGG
* * *
100369998 TTTTGCCCTTATGTGGAAAAATGATTG
1 TTTTGCCCTTATGTGGTAAAATGACTA
* * * *
100370025 TTTTGACCTTATATGTTAAAATGACGA
1 TTTTGCCCTTATGTGGTAAAATGACTA
* * *
100370052 TTTTGCCATTATGTGTTAAAATGACAA
1 TTTTGCCCTTATGTGGTAAAATGACTA
* *
100370079 TTTTGCCCTTATAT-GTCAAAATGGCTA
1 TTTTGCCCTTATGTGGT-AAAATGACTA
* *
100370106 TTTTGCCCTTATGT-GTCAAAATGATTG
1 TTTTGCCCTTATGTGGT-AAAATGACTA
*
100370133 TTTTGCCCTTATGTGTTAAAATGA-TGA
1 TTTTGCCCTTATGTGGTAAAATGACT-A
* *
100370160 TTTTGCCCTTGTGTGATAAAATGA-TA
1 TTTTGCCCTTATGTGGTAAAATGACTA
* * * *
100370186 GTTTTGACCTTATGTGGCAAAATGATTG
1 -TTTTGCCCTTATGTGGTAAAATGACTA
* *
100370214 TTTTGCCCTTATGTGTTAAAATGACGA
1 TTTTGCCCTTATGTGGTAAAATGACTA
*
100370241 TTTTTCCCTTATGTGGTAAAATGA-TAA
1 TTTTGCCCTTATGTGGTAAAATGACT-A
* *
100370268 TTTTTCCCTTATGAGGTAAAATGACTA
1 TTTTGCCCTTATGTGGTAAAATGACTA
*
100370295 TTTTGCCATTATGTGGTA
1 TTTTGCCCTTATGTGGTA
100370313 GGATGACTGT
Statistics
Matches: 239, Mismatches: 42, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.01
27 233 0.97
28 3 0.01
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (27 bp):
TTTTGCCCTTATGTGGTAAAATGACTA
Found at i:100374212 original size:54 final size:54
Alignment explanation
Indices: 100374125--100374389 Score: 259
Period size: 54 Copynumber: 4.9 Consensus size: 54
100374115 CCCCTGTAAT
* * * * *
100374125 ATAAAATGAC-GATATTT-CCCTTACGTGGAAAAATGATTGTTTTGCCATTATGTG
1 ATAAAATGACAG-T-TTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTG
* * * * * ** *
100374179 TTAAAATGACAATTTTGCCCTTATATGTTAAAATGACAATTTT-ATCTTATATG
1 ATAAAATGACAGTTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTG
** * *
100374232 ATAAAATGACAGTTTTGCTTTTATGTGTTAAAATGACGATTTTGCCCTTATGTG
1 ATAAAATGACAGTTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTG
* *
100374286 ATAAAATAACAGTTTTGCCCTTATGTGGCAAAATGACTATTTTGCCCTTATGTG
1 ATAAAATGACAGTTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTG
* * ** *
100374340 TTAAAACGATGGTTTTGCCCTTATGTGGTAAAATGA-TGATTTTTCCCTTA
1 ATAAAATGACAGTTTTGCCCTTATGTGGTAAAATGACT-ATTTTGCCCTTA
100374390 CGAGGTAAAA
Statistics
Matches: 172, Mismatches: 35, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
53 47 0.27
54 125 0.73
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.40
Consensus pattern (54 bp):
ATAAAATGACAGTTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTG
Found at i:100374377 original size:27 final size:27
Alignment explanation
Indices: 100374126--100374420 Score: 225
Period size: 27 Copynumber: 11.0 Consensus size: 27
100374116 CCCTGTAATA
* *
100374126 TAAAATGACGATATTT-CCCTTACGTGG
1 TAAAATGACAAT-TTTGCCCTTATGTGG
* *** * *
100374153 AAAAATGATTGTTTTGCCATTATGTGT
1 TAAAATGACAATTTTGCCCTTATGTGG
* *
100374180 TAAAATGACAATTTTGCCCTTATATGT
1 TAAAATGACAATTTTGCCCTTATGTGG
** * *
100374207 TAAAATGACAATTTT-ATCTTATATGA
1 TAAAATGACAATTTTGCCCTTATGTGG
* ** *
100374233 TAAAATGACAGTTTTGCTTTTATGTGT
1 TAAAATGACAATTTTGCCCTTATGTGG
* *
100374260 TAAAATGACGATTTTGCCCTTATGTGA
1 TAAAATGACAATTTTGCCCTTATGTGG
* *
100374287 TAAAATAACAGTTTTGCCCTTATGTGG
1 TAAAATGACAATTTTGCCCTTATGTGG
* * *
100374314 CAAAATGACTATTTTGCCCTTATGTGT
1 TAAAATGACAATTTTGCCCTTATGTGG
* ***
100374341 TAAAACGATGGTTTTGCCCTTATGTGG
1 TAAAATGACAATTTTGCCCTTATGTGG
** * * *
100374368 TAAAATGATGATTTTTCCCTTACGAGG
1 TAAAATGACAATTTTGCCCTTATGTGG
** * *
100374395 TAAAATGATTATTTTGTCGTTATGTG
1 TAAAATGACAATTTTGCCCTTATGTG
100374421 TAGGATGACT
Statistics
Matches: 214, Mismatches: 52, Indels: 4
0.79 0.19 0.01
Matches are distributed among these distances:
26 25 0.12
27 189 0.88
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (27 bp):
TAAAATGACAATTTTGCCCTTATGTGG
Found at i:100374388 original size:81 final size:81
Alignment explanation
Indices: 100374125--100374421 Score: 296
Period size: 81 Copynumber: 3.7 Consensus size: 81
100374115 CCCCTGTAAT
* * * * *
100374125 ATAAAATGACGATATTTCCCTTACGTGGAAAAATGATTGTTTTGCCATTATGTGTTAAAATGACA
1 ATAAAATGACGATTTTTCCCTTACGTGGTAAAATGACTATTTTGCCATTATGTGTTAAAATGACG
*
100374190 ATTTTGCCCTTATATG
66 ATTTTGCCCTTATGTG
* * ** * **
100374206 TTAAAATGACAATTTTAT--CTTATATGATAAAATGAC-AGTTTTGCTTTTATGTGTTAAAATGA
1 ATAAAATGACGATTTT-TCCCTTACGTGGTAAAATGACTA-TTTTGCCATTATGTGTTAAAATGA
100374268 CGATTTTGCCCTTATGTG
64 CGATTTTGCCCTTATGTG
* * * * * * *
100374286 ATAAAATAAC-AGTTTTGCCCTTATGTGGCAAAATGACTATTTTGCCCTTATGTGTTAAAACGAT
1 ATAAAATGACGA-TTTTTCCCTTACGTGGTAAAATGACTATTTTGCCATTATGTGTTAAAATGAC
*
100374350 GGTTTTGCCCTTATGTG
65 GATTTTGCCCTTATGTG
* * * * * *
100374367 GTAAAATGATGATTTTTCCCTTACGAGGTAAAATGATTATTTTGTCGTTATGTGT
1 ATAAAATGACGATTTTTCCCTTACGTGGTAAAATGACTATTTTGCCATTATGTGT
100374422 AGGATGACTG
Statistics
Matches: 175, Mismatches: 34, Indels: 14
0.78 0.15 0.06
Matches are distributed among these distances:
79 1 0.01
80 63 0.36
81 108 0.62
82 3 0.02
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (81 bp):
ATAAAATGACGATTTTTCCCTTACGTGGTAAAATGACTATTTTGCCATTATGTGTTAAAATGACG
ATTTTGCCCTTATGTG
Found at i:100374709 original size:52 final size:52
Alignment explanation
Indices: 100374631--100374733 Score: 161
Period size: 52 Copynumber: 2.0 Consensus size: 52
100374621 TATTACTGGC
* * *
100374631 AGCTCTGCTGCAAATATTGTTTAGTGCTACAACCAGTGCTAATTTTGGAGTA
1 AGCTCTGCTGCAAATACTGTTTAGTGCTACAACCAATGCTAATTCTGGAGTA
* *
100374683 AGCTCTGCTGCGAATACTGTTTAGTGCTGCAACCAATGCTAATTCTGGAGT
1 AGCTCTGCTGCAAATACTGTTTAGTGCTACAACCAATGCTAATTCTGGAGT
100374734 GTAGGGATGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (52 bp):
AGCTCTGCTGCAAATACTGTTTAGTGCTACAACCAATGCTAATTCTGGAGTA
Found at i:100374876 original size:18 final size:18
Alignment explanation
Indices: 100374834--100374876 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
100374824 CTGTTACTGC
*
100374834 TACTGCACTGTTTACTAT
1 TACTGTACTGTTTACTAT
*
100374852 TATTGTACTGTTTAC-AGT
1 TACTGTACTGTTTACTA-T
100374870 TACTGTA
1 TACTGTA
100374877 ATTGGCCAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.47
Consensus pattern (18 bp):
TACTGTACTGTTTACTAT
Found at i:100381051 original size:48 final size:48
Alignment explanation
Indices: 100380951--100381229 Score: 174
Period size: 48 Copynumber: 5.8 Consensus size: 48
100380941 CATCGGTGCT
* ** * * * *
100380951 GATGCCATG-TCCTAAACATGGTCTTACACTAACACATATAACAATGTC
1 GATGCCATGTTCC-AAACATAGTCTTACACTGGCTCACATAACAAGGCC
* * * *** *
100380999 GATGCCATGTTCCGAACATCGTTTTACACTGGCT-AGCATATTGAGGCT
1 GATGCCATGTTCCAAACATAGTCTTACACTGGCTCA-CATAACAAGGCC
* * * * *
100381047 GATGCCATGTCCCAGACATTGTCTTACGCTGGCTCACATAACAATGCC
1 GATGCCATGTTCCAAACATAGTCTTACACTGGCTCACATAACAAGGCC
* * *
100381095 GATGCCATGTTCCAAACATAGTCTTACACTGGCTCACGTACACAGGTGTC
1 GATGCCATGTTCCAAACATAGTCTTACACTGGCTCACATA-ACAAG-GCC
* * *** *
100381145 GATGCCATG-TCCTAGACATGGTCTTACACTGG--CACATATGGAGGTC
1 GATGCCATGTTCC-AAACATAGTCTTACACTGGCTCACATAACAAGGCC
* * * * *
100381191 GATGCCATGCT-CAAAAATGGCCTTACACTGGCTCTCATA
1 GATGCCATGTTCCAAACATAGTCTTACACTGGCTCACATA
100381230 TCGCCATGGT
Statistics
Matches: 179, Mismatches: 43, Indels: 19
0.74 0.18 0.08
Matches are distributed among these distances:
45 16 0.09
46 13 0.07
47 8 0.04
48 104 0.58
49 10 0.06
50 28 0.16
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCATGTTCCAAACATAGTCTTACACTGGCTCACATAACAAGGCC
Found at i:100381194 original size:96 final size:95
Alignment explanation
Indices: 100380948--100381224 Score: 272
Period size: 96 Copynumber: 2.9 Consensus size: 95
100380938 ATACATCGGT
* ** *
100380948 GCTGATGCCATGTCCTAAACATGGTCTTACACTAACACATATAACAATGTCGATGCCATGTTCCG
1 GCTGATGCCATGTCCTAGACATGGTCTTACACTGGCACATAT--CAATGTCGATGCCATGTTCCA
* * ***
100381013 AACATCGTTTTACACTGGCT-AGCATATTGAG
64 AACATAGTCTTACACTGGCTCAGCATACACAG
* * * * *
100381044 GCTGATGCCATGTCCCAGACATTGTCTTACGCTGGCTCACATAACAATGCCGATGCCATGTTCCA
1 GCTGATGCCATGTCCTAGACATGGTCTTACACTGG--CACATATCAATGTCGATGCCATGTTCCA
*
100381109 AACATAGTCTTACACTGGCTCA-CGTACACAG
64 AACATAGTCTTACACTGGCTCAGCATACACAG
* ** * *
100381140 GTGTCGATGCCATGTCCTAGACATGGTCTTACACTGGCACATATGGAGGTCGATGCCATGCT-CA
1 G-CT-GATGCCATGTCCTAGACATGGTCTTACACTGGCACATATCAATGTCGATGCCATGTTCCA
* * *
100381204 AAAATGGCCTTACACTGGCTC
64 AACATAGTCTTACACTGGCTC
100381225 TCATATCGCC
Statistics
Matches: 148, Mismatches: 28, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
95 20 0.14
96 91 0.61
97 2 0.01
98 35 0.24
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (95 bp):
GCTGATGCCATGTCCTAGACATGGTCTTACACTGGCACATATCAATGTCGATGCCATGTTCCAAA
CATAGTCTTACACTGGCTCAGCATACACAG
Found at i:100386619 original size:43 final size:42
Alignment explanation
Indices: 100386544--100386631 Score: 106
Period size: 43 Copynumber: 2.1 Consensus size: 42
100386534 GGGATATCGA
* * *
100386544 CATCATATTTGATTTCATGTAAGACATTGTCTGGGGCAGTGG
1 CATCATATTTGATTACATGTAAGACATCGTCTGGGACAGTGG
* *
100386586 CATCGATATTTGGTTACATGTAAGACCA-CGTCTGGGACATTGG
1 CATC-ATATTTGATTACATGTAAGA-CATCGTCTGGGACAGTGG
100386629 CAT
1 CAT
100386632 TGTACTATCT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 4 0.10
43 33 0.85
44 2 0.05
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
CATCATATTTGATTACATGTAAGACATCGTCTGGGACAGTGG
Found at i:100386849 original size:21 final size:21
Alignment explanation
Indices: 100386823--100386863 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
100386813 AAAATATGCT
100386823 ATATGTACAAATGAAT-TGAGG
1 ATATGT-CAAATGAATATGAGG
*
100386844 ATATGTGAAATGAATATGAG
1 ATATGTCAAATGAATATGAG
100386864 CTATATGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.44, C:0.02, G:0.24, T:0.29
Consensus pattern (21 bp):
ATATGTCAAATGAATATGAGG
Found at i:100390661 original size:36 final size:34
Alignment explanation
Indices: 100390610--100390735 Score: 130
Period size: 36 Copynumber: 3.6 Consensus size: 34
100390600 GTCAGATCAA
* *
100390610 CCAAA-ACACTAGATGCTCACACAAGACAATCCCT
1 CCAAACACACCAGATGCTCACACGAG-CAATCCCT
* *
100390644 CCGAAACACACCAGATGCTCACATGAGCCAGTCCCT
1 CC-AAACACACCAGATGCTCACACGAG-CAATCCCT
*
100390680 CCAAAACACAGCAGATGCTCACACGAGCTAATCCCT
1 CC-AAACACACCAGATGCTCACACGAGC-AATCCCT
*
100390716 CCATAACACATC-GATGCTCA
1 CCA-AACACACCAGATGCTCA
100390736 TAAGAGCTAC
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
34 2 0.03
35 13 0.17
36 63 0.81
ACGTcount: A:0.36, C:0.37, G:0.13, T:0.15
Consensus pattern (34 bp):
CCAAACACACCAGATGCTCACACGAGCAATCCCT
Found at i:100398003 original size:49 final size:50
Alignment explanation
Indices: 100397925--100398157 Score: 299
Period size: 49 Copynumber: 4.7 Consensus size: 50
100397915 ATCTATTTTA
*
100397925 AGGTCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
** * * *
100397975 -GGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * * **
100398025 CGATTACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
100398075 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
100398125 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
100398158 TGCGTACCAG
Statistics
Matches: 157, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
49 72 0.46
50 47 0.30
51 38 0.24
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:100398061 original size:28 final size:28
Alignment explanation
Indices: 100398029--100398113 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
100398019 TAACTTCGAT
100398029 TACGTGTGTAGTACTAAGTGCAGGCTAC
1 TACGTGTGTAGTACTAAGTGCAGGCTAC
* * *
100398057 TACGTGTATCAG-A-T-GGT-TAGG-T-C
1 TACGTGTGT-AGTACTAAGTGCAGGCTAC
100398080 -ACGTGTGTAGTACTAAGTGCAGGCTAC
1 TACGTGTGTAGTACTAAGTGCAGGCTAC
100398107 TACGTGT
1 TACGTGT
100398114 ACCGGATAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 15 0.35
29 2 0.05
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (28 bp):
TACGTGTGTAGTACTAAGTGCAGGCTAC
Found at i:100398116 original size:101 final size:98
Alignment explanation
Indices: 100397928--100398170 Score: 306
Period size: 100 Copynumber: 2.4 Consensus size: 98
100397918 TATTTTAAGG
* * **
100397928 TCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTTGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
*
100397993 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCCGATAA-TT-GA
* * * ** *
100398028 TTACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTAC
* * *
100398093 TAAGTGCAGGCTACTACGTGTACCGGATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCCGATAATTGA
* * *
100398127 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
100398171 GCTTTGGCTA
Statistics
Matches: 121, Mismatches: 21, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
99 38 0.31
100 42 0.35
101 41 0.34
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (98 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCCGATAATTGA
Found at i:100398878 original size:50 final size:50
Alignment explanation
Indices: 100398803--100399239 Score: 432
Period size: 50 Copynumber: 8.7 Consensus size: 50
100398793 ACCGAAGCTC
*
100398803 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * * *
100398853 TCTGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * ** *
100398903 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAA
* * ** * *
100398955 -CGGGT-CGCATAGTAGCCTATACTCAGTACTACACATGCGGCCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* *
100399003 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCCATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * * *
100399053 TCTGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * ** *
100399103 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAA
* * * *
100399155 T-GGGTACGCATAGTAGTCTGCACTTAGTACTACACATGCGACCTATTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
** * * *
100399204 TCCAGTACACGTAATAG-CTACACTTAGTACTACACA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
100399240 CTTGACTCAC
Statistics
Matches: 313, Mismatches: 67, Indels: 15
0.79 0.17 0.04
Matches are distributed among these distances:
48 3 0.01
49 29 0.09
50 237 0.76
51 41 0.13
52 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
Found at i:100398987 original size:100 final size:100
Alignment explanation
Indices: 100398814--100399190 Score: 490
Period size: 100 Copynumber: 3.8 Consensus size: 100
100398804 CTGGTACGCA
* *
100398814 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACATAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATCAATCGGGTACACATAGTAGCCTACACTT
100398879 AGTACTACACACGTGACTTAACCATCTGATACACG
66 AGTACTACACACGTGACTTAACCATCTGATACACG
* * * * *
100398914 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTAA-CGGGT-CGCATAGTAGCCTATAC
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TCAATCGGGTACACATAGTAGCCTACAC
* * * * * * * *
100398977 TCAGTACTACACATGCGGCCTATCAATCTGGTACACG
64 TTAGTACTACACACGTGACTTAACCATCTGATACACG
* *
100399014 TAGTAGCCTGCACTTAGTACTACACATGCGACCCATCAATCTGGTACACATAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATCAATCGGGTACACATAGTAGCCTACACTT
100399079 AGTACTACACACGTGACTTAACCATCTGATACACG
66 AGTACTACACACGTGACTTAACCATCTGATACACG
* * * * * *
100399114 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTAAT-GGGTACGCATAGTAGTCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TCAATCGGGTACACATAGTAGCCTACAC
100399178 TTAGTACTACACA
64 TTAGTACTACACA
100399191 TGCGACCTAT
Statistics
Matches: 233, Mismatches: 38, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
98 3 0.01
99 6 0.03
100 178 0.76
101 39 0.17
102 7 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATCAATCGGGTACACATAGTAGCCTACACTT
AGTACTACACACGTGACTTAACCATCTGATACACG
Found at i:100399146 original size:200 final size:201
Alignment explanation
Indices: 100398803--100399239 Score: 734
Period size: 200 Copynumber: 2.2 Consensus size: 201
100398793 ACCGAAGCTC
* * *
100398803 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACATAGT
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCCATCAATCTGGTACACATAGT
100398868 AGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTA
66 AGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTA
* *
100398933 CTACACATGTGATCGAAGTTAACGGGT-CGCATAGTAGCCTATACTCAGTACTACACATGCGGCC
131 CTACACATGTGATCGAAGTTAACGGGTACGCATAGTAGCCTACACTCAGTACTACACATGCGACC
100398997 TATCAA
196 TATCAA
100399003 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCCATCAATCTGGTACACATAGT
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCCATCAATCTGGTACACATAGT
100399068 AGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTA
66 AGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTA
* * * *
100399133 CTACACATGTGATCGAAGTTAATGGGTACGCATAGTAGTCTGCACTTAGTACTACACATGCGACC
131 CTACACATGTGATCGAAGTTAACGGGTACGCATAGTAGCCTACACTCAGTACTACACATGCGACC
*
100399198 TATTAA
196 TATCAA
** * *
100399204 TCCAGTACACGTAATAG-CTACACTTAGTACTACACA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
100399240 CTTGACTCAC
Statistics
Matches: 222, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
200 171 0.77
201 51 0.23
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (201 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCCATCAATCTGGTACACATAGT
AGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTA
CTACACATGTGATCGAAGTTAACGGGTACGCATAGTAGCCTACACTCAGTACTACACATGCGACC
TATCAA
Found at i:100402344 original size:70 final size:70
Alignment explanation
Indices: 100402265--100402403 Score: 224
Period size: 70 Copynumber: 2.0 Consensus size: 70
100402255 AAATAAATTA
* * *
100402265 AGTTAAATAATAAAAACATGGTGTCATCTTCACCATTTAGTTTCCGCAACCAAAAATGCATGAAG
1 AGTTAAATAATAAAAACATGGTGCCAGCTTCACCATTTAGTTTCCACAACCAAAAATGCATGAAG
100402330 AAAAT
66 AAAAT
* * *
100402335 AGTTAAATAATAAAAACATGGTGCCAGCTTCACCATTTAGTTTCCACCATCGAAAATGCATGAAG
1 AGTTAAATAATAAAAACATGGTGCCAGCTTCACCATTTAGTTTCCACAACCAAAAATGCATGAAG
100402400 AAAA
66 AAAA
100402404 ATAGCCATGG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (70 bp):
AGTTAAATAATAAAAACATGGTGCCAGCTTCACCATTTAGTTTCCACAACCAAAAATGCATGAAG
AAAAT
Found at i:100402604 original size:56 final size:56
Alignment explanation
Indices: 100402532--100402637 Score: 203
Period size: 56 Copynumber: 1.9 Consensus size: 56
100402522 CGTACCTCCA
100402532 ATTTCGAAATTCTTAAAGATTTTGATGGCTACCATTGTTGAGATTATGTGCCTCTG
1 ATTTCGAAATTCTTAAAGATTTTGATGGCTACCATTGTTGAGATTATGTGCCTCTG
*
100402588 ATTTTGAAATTCTTAAAGATTTTGATGGCTACCATTGTTGAGATTATGTG
1 ATTTCGAAATTCTTAAAGATTTTGATGGCTACCATTGTTGAGATTATGTG
100402638 TTCTTTGATG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.42
Consensus pattern (56 bp):
ATTTCGAAATTCTTAAAGATTTTGATGGCTACCATTGTTGAGATTATGTGCCTCTG
Found at i:100403375 original size:43 final size:43
Alignment explanation
Indices: 100403286--100403448 Score: 145
Period size: 43 Copynumber: 3.8 Consensus size: 43
100403276 GTTGAGATGA
* * * * * *
100403286 GATTACATGTCAGACCATGTCTGAGACATTGTCATTGTATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTACTAT
* *
100403329 GATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTTA-TAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TACTAT
* * *
100403372 GATTTC-TGGTAAGACCATGTCTGGAACATTGGCATCGATACGA-
1 GATTACAT-GTAAGACCATGTCTGGGACATTGGCATCG-TACTAT
* * *
100403415 GATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT
100403449 TGTATGAGCT
Statistics
Matches: 99, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
42 7 0.07
43 88 0.89
44 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTACTAT
Found at i:100419403 original size:24 final size:24
Alignment explanation
Indices: 100419370--100419450 Score: 119
Period size: 24 Copynumber: 3.4 Consensus size: 24
100419360 CTGGAGGCCT
*
100419370 AGCCTCTTTTAATAAATGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCAAA
*
100419395 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCAAA
*
100419419 AGCCC-TTTAATAACTGGGGCACA
1 AGCCCTTTTAATAACTGGGGCAAA
100419442 AGCCCTTTT
1 AGCCCTTTT
100419451 TCACTTCCTC
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
23 22 0.42
24 26 0.50
25 4 0.08
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCAAA
Found at i:100419431 original size:23 final size:23
Alignment explanation
Indices: 100419377--100419449 Score: 110
Period size: 23 Copynumber: 3.1 Consensus size: 23
100419367 CCTAGCCTCT
*
100419377 TTTAATAAATGGGGCAAAAGCCC
1 TTTAATAACTGGGGCAAAAGCCC
*
100419400 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCAAAAGCCC
*
100419424 TTTAATAACTGGGGCACAAGCCC
1 TTTAATAACTGGGGCAAAAGCCC
100419447 TTT
1 TTT
100419450 TTCACTTCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
23 25 0.54
24 21 0.46
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCAAAAGCCC
Found at i:100419522 original size:9 final size:9
Alignment explanation
Indices: 100419508--100419560 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
100419498 ACATCACGTG
100419508 CATATCATA
1 CATATCATA
100419517 CATATCATGTA
1 CATATCA--TA
100419528 CATATCATA
1 CATATCATA
* *
100419537 CATGTCATGTG
1 CATATCA--TA
100419548 CATATCATA
1 CATATCATA
100419557 CATA
1 CATA
100419561 CCCTGTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:100419529 original size:11 final size:11
Alignment explanation
Indices: 100419515--100419555 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
100419505 GTGCATATCA
100419515 TACATATCATG
1 TACATATCATG
100419526 TACATATCA--
1 TACATATCATG
*
100419535 TACATGTCATG
1 TACATATCATG
*
100419546 TGCATATCAT
1 TACATATCAT
100419556 ACATACCCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 8 0.32
11 17 0.68
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37
Consensus pattern (11 bp):
TACATATCATG
Found at i:100419531 original size:20 final size:20
Alignment explanation
Indices: 100419508--100419560 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
100419498 ACATCACGTG
100419508 CATATCATACATATCATGTA
1 CATATCATACATATCATGTA
* *
100419528 CATATCATACATGTCATGTG
1 CATATCATACATATCATGTA
100419548 CATATCATACATA
1 CATATCATACATA
100419561 CCCTGTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (20 bp):
CATATCATACATATCATGTA
Found at i:100422580 original size:31 final size:31
Alignment explanation
Indices: 100422535--100422615 Score: 139
Period size: 31 Copynumber: 2.7 Consensus size: 31
100422525 TCAGTCTCAA
*
100422535 CATAT-ACTGAGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
100422565 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
100422596 CATATCACT-GGCCGAAGCCT
1 CATATCACTGGGCCGAAGCCT
100422616 ATATTGTAAG
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 16 0.33
31 33 0.67
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:100422864 original size:25 final size:25
Alignment explanation
Indices: 100422836--100422905 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
100422826 CTCTTTTAAT
*
100422836 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
100422861 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
100422886 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
100422906 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:100423776 original size:27 final size:27
Alignment explanation
Indices: 100423715--100423791 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
100423705 GGCATATTCA
100423715 TCATTTTACCATACAGGGGTATTACGG
1 TCATTTTACCATACAGGGGTATTACGG
* *
100423742 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAGGGG-TATTACGG
* *
100423769 TCTTTTTACC-TATTAGGGGTATT
1 TCATTTTACCATA-CAGGGGTATT
100423792 TTAGTCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 38 0.90
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACGG
Found at i:100423862 original size:27 final size:27
Alignment explanation
Indices: 100423832--100424052 Score: 158
Period size: 27 Copynumber: 8.1 Consensus size: 27
100423822 GTAAATGTAC
**
100423832 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTTGGTAATTTTGT
* *
100423859 AAACCAATGGTATTTCT-ATAATTTT-T
1 AAACCAAGGGTATTT-TGGTAATTTTGT
** *
100423885 AAAAAGTTAAGGGTATTTTTGTAATTTTGT
1 --AAA-CCAAGGGTATTTTGGTAATTTTGT
* **
100423915 AAATCAAGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTTGGTAATTTTGT
*** * ***
100423942 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTTGGTAATTTTGT
* ** **
100423969 AATCCACTGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTTGGTAATTTTGT
* *
100423996 AAACTAGGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTTGGTAATTTTGT
* *
100424023 AAACCAAGGGTATTTTAGTCATTTTGT
1 AAACCAAGGGTATTTTGGTAATTTTGT
100424050 AAA
1 AAA
100424053 TTGAGGGTAA
Statistics
Matches: 155, Mismatches: 33, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
26 1 0.01
27 130 0.84
28 7 0.05
29 16 0.10
30 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTTGGTAATTTTGT
Found at i:100424035 original size:54 final size:54
Alignment explanation
Indices: 100423810--100424047 Score: 226
Period size: 54 Copynumber: 4.4 Consensus size: 54
100423800 TTCATCCTAT
* * * * *
100423810 AAGGGTGTTTTGGTAAATGTACAAACCAAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACC
* * * * ** *
100423864 AATGGTATTTCT-ATAATTTTTAAAAAGTTAAGGGTATTTTTGTAATTTTGTAAATC
1 AAGGGTATTT-TGGTAA-TTTTACAAA-CTAAGGGTATTTCGGTAATTTTGTAAACC
* * *** *
100423920 AAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAATCC
1 AAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACC
** * *
100423974 ACTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACC
* *
100424028 AAGGGTATTTTAGTCATTTT
1 AAGGGTATTTTGGTAATTTT
100424048 GTAAATTGAG
Statistics
Matches: 144, Mismatches: 36, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
54 92 0.64
55 16 0.11
56 36 0.25
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (54 bp):
AAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACC
Found at i:100424061 original size:54 final size:54
Alignment explanation
Indices: 100423838--100424079 Score: 218
Period size: 54 Copynumber: 4.4 Consensus size: 54
100423828 GTACAAACCA
* * * *
100423838 AGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTA-TAATTTTTAAAAAGTTA
1 AGGGTATTTCGGTAATTTTGTAAACCAAGGGTATTT-TAGTAA-TTTTACAAA-TTG
** * *
100423894 AGGGTATTTTTGTAATTTTGTAAATCAAGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAATTG
*** * ** * *
100423948 AGGGTATTTCGGTAATTTCACAATCCACTGGTATTTTGGTAATTTTACAAACT-
1 AGGGTATTTCGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAATTG
* * **
100424001 AGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTCATTTTGTAAATTG
1 A-GGGTATTTCGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAATTG
*** *
100424056 AGGGTAAAACGGTAATTCTGTAAA
1 AGGGTATTTCGGTAATTTTGTAAA
100424080 TTGAGGATAA
Statistics
Matches: 149, Mismatches: 34, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
53 1 0.01
54 103 0.69
55 10 0.07
56 35 0.23
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.41
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAATTG
Found at i:100424123 original size:27 final size:27
Alignment explanation
Indices: 100423894--100424128 Score: 138
Period size: 27 Copynumber: 8.7 Consensus size: 27
100423884 TAAAAAGTTA
*
100423894 AGGGTATTTTTGTAATTTTGTAAATCA-
1 AGGGTATTTTGGTAATTTTGTAAAT-AG
** *
100423921 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTTGGTAATTTTGTAAATAG
* * **
100423948 AGGGTATTTCGGTAA-TTT-CACAATCC
1 AGGGTATTTTGGTAATTTTGTA-AATAG
* **
100423974 ACTGGTATTTTGGTAATTTTACAAACTAG
1 A-GGGTATTTTGGTAATTTTGTAAA-TAG
*
100424003 -GGGTATTTTGGTAATTTTGTAAACCA-
1 AGGGTATTTTGGTAATTTTGTAAA-TAG
* * *
100424029 AGGGTATTTTAGTCATTTTGTAAATTG
1 AGGGTATTTTGGTAATTTTGTAAATAG
**** * *
100424056 AGGGTAAAACGGTAATTCTGTAAATTG
1 AGGGTATTTTGGTAATTTTGTAAATAG
* **** *
100424083 AGGATAAAACGGTAATTCTGTAAATAG
1 AGGGTATTTTGGTAATTTTGTAAATAG
*
100424110 AGGGTACTTTGGTAATTTT
1 AGGGTATTTTGGTAATTTT
100424129 ACAAATTGAG
Statistics
Matches: 166, Mismatches: 34, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
25 2 0.01
26 7 0.04
27 149 0.90
28 5 0.03
29 3 0.02
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTGTAAATAG
Found at i:100426494 original size:30 final size:31
Alignment explanation
Indices: 100426418--100426497 Score: 128
Period size: 31 Copynumber: 2.6 Consensus size: 31
100426408 TCAGTCTCGA
**
100426418 CATAT-ACTGGGCCGAAGCATTTTCATAAAT
1 CATATCACTGGGCCGAAGCCCTTTCATAAAT
100426448 CATATCACTGGGCCGAAGCCCTTTCATAAAT
1 CATATCACTGGGCCGAAGCCCTTTCATAAAT
100426479 CATATCACT-GGCCGAAGCC
1 CATATCACTGGGCCGAAGCC
100426498 TTTACTGTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 15 0.32
31 32 0.68
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCCTTTCATAAAT
Found at i:100426744 original size:24 final size:24
Alignment explanation
Indices: 100426712--100426769 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 24
100426702 GTCTAGCCTA
* *
100426712 TTTTAATAACTGGAACAAATCCCT
1 TTTTGATAACTGGAACAAAGCCCT
**
100426736 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTGAT-AACTGGAACAAAGCCCT
*
100426761 TTTCGATAA
1 TTTTGATAA
100426770 ACTAGGGCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (24 bp):
TTTTGATAACTGGAACAAAGCCCT
Found at i:100426747 original size:25 final size:25
Alignment explanation
Indices: 100426719--100426772 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
100426709 CTATTTTAAT
* *
100426719 AACTGGAACAAATCCCTTTTTGATA
1 AACTGGAACAAAGCCCTTTTCGATA
**
100426744 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGAACAAAGCCCTTTTCGATA
100426769 AACT
1 AACT
100426773 AGGGCATAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (25 bp):
AACTGGAACAAAGCCCTTTTCGATA
Found at i:100426777 original size:25 final size:25
Alignment explanation
Indices: 100426727--100426788 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
100426717 ATAACTGGAA
* * *
100426727 CAAATCCCTTTTTGATAAACTGGGG
1 CAAAGCCCTTTTCGATAAACTAGGG
100426752 CAAAGCCCTTTTCGATAAACTAGGG
1 CAAAGCCCTTTTCGATAAACTAGGG
*
100426777 CATAGCCCTTTT
1 CAAAGCCCTTTT
100426789 AGCACTTCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (25 bp):
CAAAGCCCTTTTCGATAAACTAGGG
Found at i:100427662 original size:26 final size:27
Alignment explanation
Indices: 100427590--100427656 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
100427580 GGGCATATTC
* * *
100427590 GTCATTTTACCATAC-AGGGGTATTACG
1 GTCACTTTACCCTACAAGGGCT-TTACG
100427617 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAAGGGCTTTACG
*
100427644 GTC-CTTTTCCCTA
1 GTCACTTTACCCTA
100427657 TTAGGGGTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 9 0.26
27 21 0.60
28 5 0.14
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (27 bp):
GTCACTTTACCCTACAAGGGCTTTACG
Found at i:100427739 original size:27 final size:27
Alignment explanation
Indices: 100427709--100427964 Score: 165
Period size: 27 Copynumber: 9.4 Consensus size: 27
100427699 TAAATCTACG
*
100427709 AACCAAGGGTATTTCAGTAATTTTGTA
1 AACCAAGGGTATTTCAGTAATTTTATA
* *
100427736 AACCAATGGTATTTCTA-TAATTTTTAGA
1 AACCAAGGGTATTTC-AGTAA-TTTTATA
* * *
100427764 AAGTCAAGGGTATTTCTGTAATTTTGTA
1 AA-CCAAGGGTATTTCAGTAATTTTATA
* ** *
100427792 AATCAAGGGTATTTTGGTAATTTTACA
1 AACCAAGGGTATTTCAGTAATTTTATA
*** * *
100427819 AATTGAGGGTATTTCGGTAATTTTACA
1 AACCAAGGGTATTTCAGTAATTTTATA
** *
100427846 AACC-AGTGGTATTTTGGTAATTTTACA
1 AACCAAG-GGTATTTCAGTAATTTTATA
* ** *
100427873 AACCAGGGGTATTTTGGTAATTTTGTA
1 AACCAAGGGTATTTCAGTAATTTTATA
* * * *
100427900 AACTAAAGGTATTTTAGTAATTTTGTA
1 AACCAAGGGTATTTCAGTAATTTTATA
* ** ***
100427927 AATCGGGGGTAAAACAGTAATTTTATA
1 AACCAAGGGTATTTCAGTAATTTTATA
*
100427954 AATCAAGGGTA
1 AACCAAGGGTA
100427965 AAACGGTAAC
Statistics
Matches: 186, Mismatches: 37, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
26 2 0.01
27 154 0.83
28 16 0.09
29 14 0.08
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
AACCAAGGGTATTTCAGTAATTTTATA
Found at i:100427857 original size:54 final size:54
Alignment explanation
Indices: 100427693--100427923 Score: 239
Period size: 54 Copynumber: 4.2 Consensus size: 54
100427683 TACAAGGGTG
* * * * *
100427693 TTTTGGTAAATCTACGAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTGTAAACCAATGGTA
* * * * *
100427747 TTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAAGGGTA
1 TTT-TGGTAA-TTTTACAAA-TCAAGGGTATTTCGGTAATTTTGTAAACCAATGGTA
** ** *
100427803 TTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTGTAAACCAATGGTA
* * * * *
100427857 TTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACTAAAGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTGTAAACCAATGGTA
*
100427911 TTTTAGTAATTTT
1 TTTTGGTAATTTT
100427924 GTAAATCGGG
Statistics
Matches: 143, Mismatches: 30, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
54 90 0.63
55 15 0.10
56 38 0.27
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.42
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTGTAAACCAATGGTA
Found at i:100427965 original size:27 final size:27
Alignment explanation
Indices: 100427915--100427989 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
100427905 AAGGTATTTT
* **
100427915 AGTAATTTTGTAAATCGGGGGTAAAAC
1 AGTAATTTTATAAATCAAGGGTAAAAC
100427942 AGTAATTTTATAAATCAAGGGTAAAAC
1 AGTAATTTTATAAATCAAGGGTAAAAC
* * *
100427969 GGTAACTCTATAAATCCAAGG
1 AGTAATTTTATAAAT-CAAGG
100427990 TACTTTGGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
27 36 0.88
28 5 0.12
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (27 bp):
AGTAATTTTATAAATCAAGGGTAAAAC
Found at i:100433369 original size:43 final size:42
Alignment explanation
Indices: 100433280--100433447 Score: 137
Period size: 43 Copynumber: 4.0 Consensus size: 42
100433270 ACCGAGATGA
* * *
100433280 GATTACAC-GTAAGACCATG-CTTGGGACATTGTCATTGTATTGT
1 GATTAC-CTGTAAGACCATGTC-TGGGACATTGGCATCGTA-TAT
*
100433323 GATTACCTGTAAGACCATGTCTAGGACATTGGCATCGTTATAT
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATCG-TATAT
*** *
100433366 GATTTTGTGTAAGACCATGTCTGGGACCTTGGCATCG-ATAT
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATCGTATAT
* * * * *
100433407 GAGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 --GATTACCTGTAAGACCATGTCTGGGACATTGGCATCGTAT
100433448 GAGCTTTATG
Statistics
Matches: 102, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
41 4 0.04
42 8 0.08
43 87 0.85
44 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (42 bp):
GATTACCTGTAAGACCATGTCTGGGACATTGGCATCGTATAT
Found at i:100435648 original size:43 final size:44
Alignment explanation
Indices: 100435600--100435767 Score: 182
Period size: 43 Copynumber: 3.9 Consensus size: 44
100435590 GCCGAGATGA
* * *
100435600 GATTACATGTAAGACCATGTTTGGGACATTGTCATTGTAT-TGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATGT
* * *
100435643 GATTACCTGTAAGACCATGTCTGGGGCATTGGCATCGT-TATAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATGT
* * *
100435686 GATTTCGTGTAAGACCATGTCTGGGACATTGGCATCG-ATATGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATGT
* * * * *
100435729 GATAACATGTAAGACTATATCTGGGATA-TGGCATTGTAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
100435768 GAGCTTTATG
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 8 0.08
43 96 0.92
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (44 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATGT
Found at i:100437231 original size:29 final size:29
Alignment explanation
Indices: 100437186--100437301 Score: 130
Period size: 29 Copynumber: 4.0 Consensus size: 29
100437176 TACCTATATC
* *
100437186 TGGCCCATTATGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
100437214 TGGCCCCTTTAGGCCCAAATCACCTGT-ATA
1 TGG-CCCATTAGGCCCAAATCACAT-TCATA
*
100437244 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
100437273 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
100437301 T
1 T
100437302 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
28 16 0.21
29 46 0.61
30 12 0.16
31 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:100437250 original size:58 final size:58
Alignment explanation
Indices: 100437177--100437288 Score: 154
Period size: 58 Copynumber: 1.9 Consensus size: 58
100437167 AAATTCACAT
* * * *
100437177 ACCTATATCTGGCCCATTATGCCC-AATCATATTCATATGGCCCCTTTAGGCCCAAATC
1 ACCTATATATGGCCCATTAGGCCCAAATCACATTCATATGG-CCCGTTAGGCCCAAATC
* *
100437235 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTATATATGGCCCATTAGGCCCAAATCACATTCATATGGCCCGTTAGGCCCA
100437289 GTCACATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
58 33 0.70
59 14 0.30
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (58 bp):
ACCTATATATGGCCCATTAGGCCCAAATCACATTCATATGGCCCGTTAGGCCCAAATC
Found at i:100437533 original size:16 final size:16
Alignment explanation
Indices: 100437512--100437558 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
100437502 GTAGCCAAAC
100437512 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
* *
100437528 TTTCAGCTTTTTGGTA
1 TTTCAGCTTTTCGGCA
* *
100437544 TTTCTGCATTTCGGC
1 TTTCAGCTTTTCGGC
100437559 TTTTGCCGAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.11, C:0.21, G:0.19, T:0.49
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:100438812 original size:16 final size:16
Alignment explanation
Indices: 100438791--100438823 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
100438781 AGAAAAATTC
100438791 TAGATTTCAAGATTTT
1 TAGATTTCAAGATTTT
*
100438807 TAGATTTCGAGATTTT
1 TAGATTTCAAGATTTT
100438823 T
1 T
100438824 GGGGCGTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.06, G:0.15, T:0.52
Consensus pattern (16 bp):
TAGATTTCAAGATTTT
Found at i:100448003 original size:43 final size:42
Alignment explanation
Indices: 100447925--100448040 Score: 110
Period size: 43 Copynumber: 2.7 Consensus size: 42
100447915 CTCGTACAAC
* * * * *
100447925 GCCAACGTCCTAGAC-GTGGTCTTACATGTAATCAAATATTGAT
1 GCCAACATCCCAGACAG-GGTCTTACACGAAATCAAATA-CGAT
*
100447968 GCC-ACTATCCCATACAGGGTCTTACACGAAATCAAATACGAT
1 GCCAAC-ATCCCAGACAGGGTCTTACACGAAATCAAATACGAT
* **
100448010 GCCAACGTCCCAGACTTGGTCTTACACGAAA
1 GCCAACATCCCAGACAGGGTCTTACACGAAA
100448041 ACACATATCG
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
42 29 0.48
43 30 0.50
44 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (42 bp):
GCCAACATCCCAGACAGGGTCTTACACGAAATCAAATACGAT
Found at i:100448031 original size:42 final size:43
Alignment explanation
Indices: 100447925--100448050 Score: 130
Period size: 42 Copynumber: 3.0 Consensus size: 43
100447915 CTCGTACAAC
* * * * *
100447925 GCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATATTGAT
1 GCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCGAT
* * *
100447968 GCC-ACTATCCCATACAGGGTCTTACACGAAATCAAATA-CGAT
1 GCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAATATCGAT
* * *
100448010 GCCAACGTCCCAGACTTGGTCTTACACGAAAACACATATCG
1 GCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCG
100448051 GATCCTATGT
Statistics
Matches: 66, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 34 0.52
43 32 0.48
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
GCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCGAT
Found at i:100454188 original size:20 final size:20
Alignment explanation
Indices: 100454163--100454277 Score: 77
Period size: 20 Copynumber: 5.8 Consensus size: 20
100454153 GTACTTGCAA
** *
100454163 CTTGTCTACAATTTTGGTGG
1 CTTGTCTACAATACTGGTAG
100454183 CTTGTCTACAATACTGGTAG
1 CTTGTCTACAATACTGGTAG
* * * * *
100454203 CTTGTCCATACTACTGGCAA
1 CTTGTCTACAATACTGGTAG
* * * * *
100454223 TTTATCTGCATTACTGGTGG
1 CTTGTCTACAATACTGGTAG
* * * *
100454243 CTTGTCCATATTACCGGTAG
1 CTTGTCTACAATACTGGTAG
100454263 CTTGTCTACAATACT
1 CTTGTCTACAATACT
100454278 AGTGGCATGT
Statistics
Matches: 67, Mismatches: 28, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (20 bp):
CTTGTCTACAATACTGGTAG
Found at i:100454283 original size:40 final size:40
Alignment explanation
Indices: 100454177--100454330 Score: 121
Period size: 40 Copynumber: 3.9 Consensus size: 40
100454167 TCTACAATTT
* * * * *
100454177 TGGTGGCTTGTCTACAATACTGGTAGCTTGTCCATACTAC
1 TGGTAGCTTATCTACAATACTAGTGGCTTGTCCATATTAC
* ** * * *
100454217 TGGCAATTTATCTGCATTACTGGTGGCTTGTCCATATTAC
1 TGGTAGCTTATCTACAATACTAGTGGCTTGTCCATATTAC
* * * * *
100454257 CGGTAGCTTGTCTACAATACTAGTGGCATGTCCACATTTC
1 TGGTAGCTTATCTACAATACTAGTGGCTTGTCCATATTAC
* * *
100454297 TGGTAGTTTATCTGCATTACTTA-TGGCTTGTCCA
1 TGGTAGCTTATCTACAATAC-TAGTGGCTTGTCCA
100454331 CAAACTGGTG
Statistics
Matches: 87, Mismatches: 26, Indels: 2
0.76 0.23 0.02
Matches are distributed among these distances:
40 85 0.98
41 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (40 bp):
TGGTAGCTTATCTACAATACTAGTGGCTTGTCCATATTAC
Found at i:100454307 original size:80 final size:80
Alignment explanation
Indices: 100454182--100454330 Score: 208
Period size: 80 Copynumber: 1.9 Consensus size: 80
100454172 AATTTTGGTG
* * * *
100454182 GCTTGTCTACAATACTGGTAGCTTGTCCATACTACTGGCAATTTATCTGCATTACTGGTGGCTTG
1 GCTTGTCTACAATACTAGTAGCATGTCCACACTACTGGCAATTTATCTGCATTACTGATGGCTTG
100454247 TCCATATTACCGGTA
66 TCCATATTACCGGTA
* * * * * *
100454262 GCTTGTCTACAATACTAGTGGCATGTCCACATTTCTGGTAGTTTATCTGCATTACTTATGGCTTG
1 GCTTGTCTACAATACTAGTAGCATGTCCACACTACTGGCAATTTATCTGCATTACTGATGGCTTG
100454327 TCCA
66 TCCA
100454331 CAAACTGGTG
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 59 1.00
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (80 bp):
GCTTGTCTACAATACTAGTAGCATGTCCACACTACTGGCAATTTATCTGCATTACTGATGGCTTG
TCCATATTACCGGTA
Found at i:100455970 original size:42 final size:42
Alignment explanation
Indices: 100455911--100456125 Score: 256
Period size: 42 Copynumber: 5.1 Consensus size: 42
100455901 TGAGGTTACA
*
100455911 TGTAAGACCATATCTGGGATATGGCATCGAGATGAGACTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTTG
*
100455953 TGTAAGACCATATCTGGGATATGGCATTGATATGAGACTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTTG
* * * * *
100455995 TGTAAGACCATAGCTAGTATGTGGCATCGATATGAGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTTG
* *
100456037 TGTAAGACCATAGT-TGGGCTATTGGCATCGAT-TCGAGA-TTTCA
1 TGTAAGACCATA-TCTGGGATA-TGGCATCGATAT-GAGACTTT-G
* * * *
100456080 TGTAAGACCATATCTGGGATATGGCATTGGTATGATACTGTG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTTG
100456122 TGTA
1 TGTA
100456126 TGAGATTCCC
Statistics
Matches: 145, Mismatches: 21, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
42 110 0.76
43 35 0.24
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTTG
Found at i:100456731 original size:29 final size:29
Alignment explanation
Indices: 100456689--100456745 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
100456679 GTTGTTAAAG
*
100456689 TAAACATTGTGACTAATTAAAATTATAAC
1 TAAACATTGTGACTAATTAAAACTATAAC
100456718 TAAACATTGTGACTAATTAAAACTATAA
1 TAAACATTGTGACTAATTAAAACTATAA
100456746 TTGTGAGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (29 bp):
TAAACATTGTGACTAATTAAAACTATAAC
Found at i:100456751 original size:22 final size:23
Alignment explanation
Indices: 100456709--100456751 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
100456699 GACTAATTAA
*
100456709 AATTATAACTAAACATTGTGACT
1 AATTAAAACTAAACATTGTGACT
*
100456732 AATTAAAACTATA-ATTGTGA
1 AATTAAAACTAAACATTGTGA
100456752 GATTTATAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (23 bp):
AATTAAAACTAAACATTGTGACT
Found at i:100462348 original size:50 final size:52
Alignment explanation
Indices: 100462291--100462409 Score: 170
Period size: 50 Copynumber: 2.3 Consensus size: 52
100462281 TTAATAAAGT
* *
100462291 CATGCATTATGTAACTCTCATGTAAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTAAGA
* * *
100462341 CATGCATTATGTAATTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGT
1 CATGCATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTAAGA
*
100462393 CATGCATTAAGTAACTC
1 CATGCATTATGTAACTC
100462410 ATTTGTTCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 25 0.42
51 12 0.20
52 23 0.38
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTAAGA
Found at i:100463976 original size:36 final size:36
Alignment explanation
Indices: 100463936--100464004 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
100463926 TTATAAACAC
* *
100463936 TGTCACATGGCATGAATAACATACCCACATATTTAA
1 TGTCACATGGCATGAACAACACACCCACATATTTAA
* *
100463972 TGTCACATGGCATGGACAACACACCCTCATATT
1 TGTCACATGGCATGAACAACACACCCACATATT
100464005 CACTTTCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (36 bp):
TGTCACATGGCATGAACAACACACCCACATATTTAA
Found at i:100464077 original size:8 final size:8
Alignment explanation
Indices: 100464061--100464107 Score: 67
Period size: 8 Copynumber: 5.9 Consensus size: 8
100464051 CTCATATATG
*
100464061 TTCATAAT
1 TTCACAAT
100464069 TTCACAAT
1 TTCACAAT
100464077 TTCACAAT
1 TTCACAAT
*
100464085 TTCATAAT
1 TTCACAAT
*
100464093 TTCATAAT
1 TTCACAAT
100464101 TTCACAA
1 TTCACAA
100464108 GCATACATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.43
Consensus pattern (8 bp):
TTCACAAT
Found at i:100464085 original size:16 final size:16
Alignment explanation
Indices: 100464061--100464107 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
100464051 CTCATATATG
100464061 TTCATAATTTCACAAT
1 TTCATAATTTCACAAT
* *
100464077 TTCACAATTTCATAAT
1 TTCATAATTTCACAAT
100464093 TTCATAATTTCACAA
1 TTCATAATTTCACAA
100464108 GCATACATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.43
Consensus pattern (16 bp):
TTCATAATTTCACAAT
Found at i:100464088 original size:24 final size:24
Alignment explanation
Indices: 100464061--100464107 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
100464051 CTCATATATG
100464061 TTCATAATTTCACAATTTCACAAT
1 TTCATAATTTCACAATTTCACAAT
*
100464085 TTCATAATTTCATAATTTCACAA
1 TTCATAATTTCACAATTTCACAA
100464108 GCATACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.43
Consensus pattern (24 bp):
TTCATAATTTCACAATTTCACAAT
Found at i:100465725 original size:40 final size:40
Alignment explanation
Indices: 100465678--100465858 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
100465668 CTTGCGCAAG
* *
100465678 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
100465718 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
100465758 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * *
100465798 GCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-
1 GCCTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAAT
*
100465838 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGTCTTAGCCCGGA
100465859 CATCATTCGA
Statistics
Matches: 124, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 114 0.92
41 9 0.07
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:100471636 original size:50 final size:49
Alignment explanation
Indices: 100471572--100471667 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 49
100471562 ATTCAGCCCG
* *
100471572 TCCTCGAAACGTTTACACATCATGGCTTCTGAAGAAATGCATTCCNTCCA
1 TCCTCGAAACGTTTACACATCACGGCTTCTGAAGAAATCCATTCC-TCCA
*
100471622 TCCTCGAAATGTTTACACATCACGGCTTCTGAAGAAATCCATTCCT
1 TCCTCGAAACGTTTACACATCACGGCTTCTGAAGAAATCCATTCCT
100471668 GCGCGTACCG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
49 1 0.02
50 42 0.98
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.29
Consensus pattern (49 bp):
TCCTCGAAACGTTTACACATCACGGCTTCTGAAGAAATCCATTCCTCCA
Found at i:100476248 original size:22 final size:21
Alignment explanation
Indices: 100476222--100476272 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
100476212 AGTTTTATTT
*
100476222 AAAACATGAGATTTAATGACTA
1 AAAACATG-GATTTAAAGACTA
* *
100476244 AAAACTTGGTTTTAAAGACTA
1 AAAACATGGATTTAAAGACTA
100476265 AACAACAT
1 AA-AACAT
100476273 TTAATATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (21 bp):
AAAACATGGATTTAAAGACTA
Found at i:100476579 original size:32 final size:32
Alignment explanation
Indices: 100476538--100476603 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
100476528 AAAATAAACT
100476538 TAGAATGGGGTTTATTAGGTTGAATTTTAAAA
1 TAGAATGGGGTTTATTAGGTTGAATTTTAAAA
100476570 TAGAATGGGGTTTATTAGGTTGAATTTTAAAA
1 TAGAATGGGGTTTATTAGGTTGAATTTTAAAA
100476602 TA
1 TA
100476604 TGATCTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (32 bp):
TAGAATGGGGTTTATTAGGTTGAATTTTAAAA
Found at i:100477644 original size:16 final size:15
Alignment explanation
Indices: 100477623--100477661 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
100477613 TTAAATTATG
*
100477623 GATATGTGTATATTGT
1 GATATGTGTATA-TAT
*
100477639 GATATGTGTTTATAT
1 GATATGTGTATATAT
100477654 GATATGTG
1 GATATGTG
100477662 GCCATTATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (15 bp):
GATATGTGTATATAT
Found at i:100477739 original size:39 final size:39
Alignment explanation
Indices: 100477696--100477848 Score: 198
Period size: 39 Copynumber: 3.9 Consensus size: 39
100477686 CATGTTTTTT
*
100477696 AGTATTGTGATATATGCTTCAATGTTAAATGATTATATG
1 AGTATTGTGATATATGCTTAAATGTTAAATGATTATATG
* * * **
100477735 AGTATTATGATATATGTTTGAATGTTATGTGATTATATG
1 AGTATTGTGATATATGCTTAAATGTTAAATGATTATATG
**
100477774 AGTATTGTGATATATGCTTAAATGTTATGTGATTATATG
1 AGTATTGTGATATATGCTTAAATGTTAAATGATTATATG
* * *
100477813 TGTAATGTGATATATGCTTAAAAGTTAAAATGATTA
1 AGTATTGTGATATATGCTTAAATGTT-AAATGATTA
100477849 CCATGTAAAT
Statistics
Matches: 100, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 93 0.93
40 7 0.07
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44
Consensus pattern (39 bp):
AGTATTGTGATATATGCTTAAATGTTAAATGATTATATG
Found at i:100486170 original size:17 final size:19
Alignment explanation
Indices: 100486128--100486171 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
100486118 ATGAAATTTT
*
100486128 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
100486147 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
100486165 AA-TATTA
1 AATTATTA
100486172 CTGTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:100488585 original size:25 final size:25
Alignment explanation
Indices: 100488556--100488605 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
100488546 CCTTATAACA
* * *
100488556 TAAAAATGACCGTTTTGCCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
100488581 TAAAAATGACCATTATACCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
100488606 GTTTATGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (25 bp):
TAAAAATGACCATTATACCCCTAGG
Found at i:100488672 original size:20 final size:20
Alignment explanation
Indices: 100488649--100488705 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
100488639 TAAACATGGT
100488649 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
100488669 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
100488689 ATGTATGATATGCACAT
1 ATGTATGATATGCACAT
100488706 AATGTATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:100488689 original size:11 final size:11
Alignment explanation
Indices: 100488653--100488705 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
100488643 CATGGTATGT
100488653 ATGATATGCAC
1 ATGATATGCAC
* *
100488664 ATGACATG--T
1 ATGATATGCAC
100488673 ATGATATGCAC
1 ATGATATGCAC
*
100488684 ATGATATG--T
1 ATGATATGCAC
100488693 ATGATATGCAC
1 ATGATATGCAC
100488704 AT
1 AT
100488706 AATGTATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.47
11 17 0.53
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:100488785 original size:24 final size:24
Alignment explanation
Indices: 100488758--100488828 Score: 101
Period size: 23 Copynumber: 3.0 Consensus size: 24
100488748 GAGGAAGTGC
100488758 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
100488782 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
100488805 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
100488829 ATGATCAAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
23 19 0.44
24 16 0.37
25 8 0.19
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:100489053 original size:7 final size:7
Alignment explanation
Indices: 100489041--100489068 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
100489031 GGCCCAATGT
100489041 TATGAAA
1 TATGAAA
100489048 TATGAAA
1 TATGAAA
100489055 TATGAAA
1 TATGAAA
100489062 TATGAAA
1 TATGAAA
100489069 AGGGCTACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TATGAAA
Found at i:100491093 original size:17 final size:19
Alignment explanation
Indices: 100491051--100491094 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
100491041 ATGAAATTTT
*
100491051 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
100491070 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
100491088 AA-TATTA
1 AATTATTA
100491095 CTGTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:100491141 original size:45 final size:44
Alignment explanation
Indices: 100491092--100491178 Score: 106
Period size: 45 Copynumber: 1.9 Consensus size: 44
100491082 TAGAAAAATA
*
100491092 TTACTGTA-AGT-ATGTTTGAAAATTTTTTATGAAAATTATTATTAT
1 TTACTGTATAGTGATATTTG-AAA-TTTTTAT-AAAATTATTATTAT
*
100491137 TTACTGTATTATTGATATTTGAAATTTTTATAAAATTATTAT
1 TTACTGTA-TAGTGATATTTGAAATTTTTATAAAATTATTAT
100491179 AATTATTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
45 19 0.51
46 7 0.19
47 5 0.14
48 6 0.16
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (44 bp):
TTACTGTATAGTGATATTTGAAATTTTTATAAAATTATTATTAT
Found at i:100493618 original size:20 final size:20
Alignment explanation
Indices: 100493595--100493651 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
100493585 TAAACATGGT
*
100493595 ATGTATGGTATGCACATGAC
1 ATGTATGATATGCACATGAC
* *
100493615 ATGTATGATATGCACAGGAT
1 ATGTATGATATGCACATGAC
100493635 ATGTATGATATGCACAT
1 ATGTATGATATGCACAT
100493652 AATGTATTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:100493826 original size:23 final size:24
Alignment explanation
Indices: 100493704--100493832 Score: 190
Period size: 23 Copynumber: 5.4 Consensus size: 24
100493694 GAGGAAGTGC
*
100493704 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
100493728 -AAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATT
*
100493751 ATAAAGGGCCTATGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATT
100493776 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
100493800 AAAAGGGCTT-TGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
100493823 AAAAGAGGCT
1 AAAAG-GGCT
100493833 AGGCCTCTAG
Statistics
Matches: 96, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
23 38 0.40
24 36 0.38
25 22 0.23
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:100493845 original size:72 final size:72
Alignment explanation
Indices: 100493704--100493837 Score: 193
Period size: 72 Copynumber: 1.9 Consensus size: 72
100493694 GAGGAAGTGC
* * *
100493704 AAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTATGATAAAGGGCCTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAATTATGATAAAGGGCCTAGGCCCC
100493769 AGTTATT
66 AGTTATT
*
100493776 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTT-TGCCCCAATTATTA-AAAGAGG-CTAGGCC
1 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAATTATGATAAAG-GGCCTAGGCC
100493838 TCTAGTTACA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
71 10 0.18
72 37 0.66
73 9 0.16
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAATTATGATAAAGGGCCTAGGCCCC
AGTTATT
Found at i:100496441 original size:49 final size:49
Alignment explanation
Indices: 100496173--100496728 Score: 893
Period size: 49 Copynumber: 11.6 Consensus size: 49
100496163 CCCTTCGGGA
* * * * *
100496173 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
100496220 CCTGTCAC--ATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
100496267 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
100496314 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
100496361 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
100496408 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
100496457 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
100496506 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
100496555 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
100496602 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
100496651 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
100496700 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
100496729 TATTCAAATA
Statistics
Matches: 484, Mismatches: 19, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 226 0.47
49 257 0.53
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:100496570 original size:194 final size:194
Alignment explanation
Indices: 100496173--100496728 Score: 944
Period size: 194 Copynumber: 2.9 Consensus size: 194
100496163 CCCTTCGGGA
* * * * * * *
100496173 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATAC
*
100496236 ACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
*
100496299 CATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 CATCGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
100496361 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATAC
*
100496426 ACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
* *
100496491 CATCGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
131 CATCGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
100496555 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATAC
100496620 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
*
100496685 CATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATT
131 CATCGGCCATTCGGCCTTATCACATATATATACACTTTCACATT
100496729 TATTCAAATA
Statistics
Matches: 347, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
188 48 0.14
190 45 0.13
192 46 0.13
194 208 0.60
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (194 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
CATCGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:100507826 original size:26 final size:26
Alignment explanation
Indices: 100507797--100507850 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
100507787 AGAATGCTTG
100507797 TTGGAAACTAACAAGATAGAAAGAAC
1 TTGGAAACTAACAAGATAGAAAGAAC
100507823 TTGGAAACTAACAAGATAGAAAGAAC
1 TTGGAAACTAACAAGATAGAAAGAAC
100507849 TT
1 TT
100507851 TTCCTTCTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.52, C:0.11, G:0.19, T:0.19
Consensus pattern (26 bp):
TTGGAAACTAACAAGATAGAAAGAAC
Found at i:100514100 original size:25 final size:25
Alignment explanation
Indices: 100514047--100514100 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
100514037 GTATTTAATT
* *
100514047 TGTCTTAGTTGCTGCATATTTAAGT
1 TGTCTTAGTTGCTGCATATTAAAGA
100514072 TGTCTTAGTTCAGCTG-A-ATTAAAGA
1 TGTCTTAGTT--GCTGCATATTAAAGA
100514097 TGTC
1 TGTC
100514101 CTAAACTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 20 0.80
26 1 0.04
27 4 0.16
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (25 bp):
TGTCTTAGTTGCTGCATATTAAAGA
Found at i:100515446 original size:27 final size:26
Alignment explanation
Indices: 100515399--100515454 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 26
100515389 ACTGTAACTA
100515399 ATTAAATTTGTCTCTAAACTAGACAC
1 ATTAAATTTGTCTCTAAACTAGACAC
100515425 ATTAAATTGATGTC-CTAAACTAGACAC
1 ATTAAATT--TGTCTCTAAACTAGACAC
100515452 ATT
1 ATT
100515455 TAAGCTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 8 0.29
27 16 0.57
28 4 0.14
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (26 bp):
ATTAAATTTGTCTCTAAACTAGACAC
Found at i:100517840 original size:40 final size:40
Alignment explanation
Indices: 100517780--100517968 Score: 270
Period size: 40 Copynumber: 4.7 Consensus size: 40
100517770 ATTCGGATTG
* * *
100517780 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGATTTACA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
100517820 ATAATCGGGCTAAGTCCCGAAGGCATTTGTGTGAGCTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
100517860 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
100517900 ATAACCGGGCTAGGTCCCAAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
100517940 ATAACCGAGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
100517969 AGCTAGTAGC
Statistics
Matches: 129, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 129 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:100517982 original size:40 final size:39
Alignment explanation
Indices: 100517780--100517991 Score: 246
Period size: 40 Copynumber: 5.3 Consensus size: 39
100517770 ATTCGGATTG
* * *
100517780 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGATTTACA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTACT
* * *
100517820 ATAATCGGGCTAAGTCCCGAAGGCATTTGTGTGAGCTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACT
* *
100517860 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACT
* *
100517900 ATAACCGGGCTAGGTCCCAAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACT
* * *
100517940 ATAACCGAGCTAAGTCCCGAAGGCATTTGAGCTAGTAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CT
*
100517980 ATATCC-GGCTAA
1 ATAACCGGGCTAA
100517992 ACTCCGAAGG
Statistics
Matches: 147, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 7 0.05
40 140 0.95
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (39 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACT
Found at i:100525853 original size:40 final size:40
Alignment explanation
Indices: 100525651--100525839 Score: 297
Period size: 40 Copynumber: 4.7 Consensus size: 40
100525641 ATTCGGATTG
*
100525651 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
100525691 ATAACCAGGCTAAGTCCCAAAGGCATTTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
100525731 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
100525771 ATAACCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
100525811 ATAACCGAGCTAAGTCCCGACGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
100525840 AGCTAGTAGC
Statistics
Matches: 134, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 134 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:100529737 original size:20 final size:20
Alignment explanation
Indices: 100529714--100529752 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
100529704 TTTCCACTCT
100529714 TTTTCTT-TTCTTTCTTTTTA
1 TTTTCTTCTT-TTTCTTTTTA
*
100529734 TTTTGTTCTTTTTCTTTTT
1 TTTTCTTCTTTTTCTTTTT
100529753 CTCTTCCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.82
Consensus pattern (20 bp):
TTTTCTTCTTTTTCTTTTTA
Found at i:100529752 original size:15 final size:14
Alignment explanation
Indices: 100529711--100529757 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
100529701 CTTTTTCCAC
100529711 TCTTTTTCTTTTCTT
1 TCTTTTTCTTTT-TT
* *
100529726 TCTTTTTATTTTGT
1 TCTTTTTCTTTTTT
*
100529740 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTT
100529754 TCTT
1 TCTT
100529758 CCAATGGATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (14 bp):
TCTTTTTCTTTTTT
Found at i:100531820 original size:19 final size:21
Alignment explanation
Indices: 100531792--100531830 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
100531782 TTCCAATCAC
100531792 TTTTTGTTTG-AATTTTTTTA
1 TTTTTGTTTGAAATTTTTTTA
100531812 TTTTT-TTTGAAATTTTTTT
1 TTTTTGTTTGAAATTTTTTT
100531831 TCAACTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (21 bp):
TTTTTGTTTGAAATTTTTTTA
Found at i:100535505 original size:23 final size:24
Alignment explanation
Indices: 100535477--100535532 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
100535467 AGCCCAAATA
* *
100535477 AGCTTCCCGATA-GGCTCTTTGTG
1 AGCTTCCCGAAATGGCTCTGTGTG
100535500 AGCTTCCCGAAATGGCTCTGTGTG
1 AGCTTCCCGAAATGGCTCTGTGTG
100535524 AGCTTCCCG
1 AGCTTCCCG
100535533 TTACAAGGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 11 0.37
24 19 0.63
ACGTcount: A:0.14, C:0.29, G:0.27, T:0.30
Consensus pattern (24 bp):
AGCTTCCCGAAATGGCTCTGTGTG
Found at i:100544007 original size:25 final size:25
Alignment explanation
Indices: 100543973--100544025 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
100543963 AGTAACTTGT
100543973 TCCCTCGGAACAATAGAAATCAGAA
1 TCCCTCGGAACAATAGAAATCAGAA
100543998 TCCCTCGGAACAATAGAAATCAGAA
1 TCCCTCGGAACAATAGAAATCAGAA
100544023 TCC
1 TCC
100544026 TCCACCAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.42, C:0.26, G:0.15, T:0.17
Consensus pattern (25 bp):
TCCCTCGGAACAATAGAAATCAGAA
Found at i:100547875 original size:30 final size:29
Alignment explanation
Indices: 100547841--100547900 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
100547831 TTCCCGAGCC
100547841 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATG-AAAAGTT
* * * *
100547871 TAGGGGTAAAATTGTAATTTTGAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGAAAAGTT
100547900 T
1 T
100547901 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.32
Consensus pattern (29 bp):
TAGGGGCAAAAGTGTAAATATGAAAAGTT
Found at i:100548479 original size:68 final size:68
Alignment explanation
Indices: 100548365--100548491 Score: 177
Period size: 68 Copynumber: 1.9 Consensus size: 68
100548355 CAAATGGTAT
* *
100548365 GTAGCTAGGTCACATGTGTAATACAGGATGTATACCATGTGTACAAGAGAGCTACGAGACATTAT
1 GTAGCTAGGTCACATGGGTAATACAGGATGTACACCATGTGTACAAGAGAGCTACGAGACATTAT
100548430 GAG
66 GAG
* * *
100548433 GTAGCTAGGTCGCATGGGTTATACTATG-TGTACACCATGTAG-ACAAGAGAGCTACGAGA
1 GTAGCTAGGTCACATGGGTAATAC-AGGATGTACACCATGT-GTACAAGAGAGCTACGAGA
100548492 TAAATGTAGC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
68 49 0.94
69 3 0.06
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (68 bp):
GTAGCTAGGTCACATGGGTAATACAGGATGTACACCATGTGTACAAGAGAGCTACGAGACATTAT
GAG
Found at i:100550196 original size:40 final size:39
Alignment explanation
Indices: 100550112--100550296 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
100550102 TTGAATGATG
* * * *
100550112 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTTACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
100550152 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
100550192 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
100550231 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
100550272 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
100550297 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:100550248 original size:79 final size:81
Alignment explanation
Indices: 100550112--100550296 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
100550102 TTGAATGATG
* *
100550112 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTTACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTTACCAAATCCGGACTAAGATCCGAAGGCATT
*
100550176 TGTGCGAGATACTA-A
66 TGTACGAGATACTATA
* * **
100550191 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTTACCAAATCCGGACTAAGAT-CCGAAGGCA
*
100550253 TTTGTACGAGTTACTATA
64 TTTGTACGAGATACTATA
* *
100550271 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
100550297 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTTACCAAATCCGGACTAAGATCCGAAGGCATT
TGTACGAGATACTATA
Found at i:100550318 original size:79 final size:79
Alignment explanation
Indices: 100550165--100550329 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
100550155 GGACTAAGAT
* * ** *
100550165 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
100550230 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
100550244 CCGAAGGCATTTGTACGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTACGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-C
* *
100550307 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
100550323 CCGAAGG
1 CCGAAGG
100550330 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:100552249 original size:12 final size:12
Alignment explanation
Indices: 100552232--100552258 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
100552222 AAAGGAATTC
100552232 TATATTCTGAGA
1 TATATTCTGAGA
100552244 TATATTCTGAGA
1 TATATTCTGAGA
100552256 TAT
1 TAT
100552259 TTAAGTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (12 bp):
TATATTCTGAGA
Found at i:100554404 original size:8 final size:8
Alignment explanation
Indices: 100554393--100554417 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
100554383 ATACAGACTA
100554393 AATAAAAT
1 AATAAAAT
100554401 AATAAAAT
1 AATAAAAT
100554409 AATAAAAT
1 AATAAAAT
100554417 A
1 A
100554418 TTTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:100555003 original size:19 final size:19
Alignment explanation
Indices: 100554979--100555024 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
100554969 CTATTTCTAG
100554979 CCATATTTTGAAGTAAGGT
1 CCATATTTTGAAGTAAGGT
100554998 CCATATTTTGAAGTAAGGT
1 CCATATTTTGAAGTAAGGT
*
100555017 TCATATTT
1 CCATATTT
100555025 AAAATTTGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.41
Consensus pattern (19 bp):
CCATATTTTGAAGTAAGGT
Found at i:100564053 original size:19 final size:20
Alignment explanation
Indices: 100564029--100564066 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
100564019 GGTACCACCA
100564029 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
100564048 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
100564067 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:100564473 original size:14 final size:14
Alignment explanation
Indices: 100564454--100564481 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
100564444 ATTAAACTAG
100564454 AAATTTCACCCGTT
1 AAATTTCACCCGTT
100564468 AAATTTCACCCGTT
1 AAATTTCACCCGTT
100564482 GAACACATCG
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:0.29, G:0.07, T:0.36
Consensus pattern (14 bp):
AAATTTCACCCGTT
Found at i:100564631 original size:46 final size:45
Alignment explanation
Indices: 100564564--100564738 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
100564554 TGTAACCTGC
100564564 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCAT
* *
100564610 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--T
* * *
100564656 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCAT
*
100564703 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
100564739 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 4 0.04
46 63 0.58
47 30 0.28
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
Found at i:100564684 original size:93 final size:93
Alignment explanation
Indices: 100564572--100564742 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
100564562 GCCCATAAGT
100564572 GAACTCGGACTCAACTCAACGAGTTCAGG-CATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
100564636 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
*
100564665 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
100564730 TGAGTTCGGATGC
66 CGAGTTCGGATGC
100564743 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:100565196 original size:30 final size:30
Alignment explanation
Indices: 100565162--100565221 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
100565152 ATTTAATACG
100565162 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
100565192 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
100565222 GGCTCAGGAA
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:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:100567135 original size:309 final size:309
Alignment explanation
Indices: 100566576--100567196 Score: 1242
Period size: 309 Copynumber: 2.0 Consensus size: 309
100566566 AAATATAATT
100566576 TTTCACATATGAGCGGGTTTCAATATACTTTGGGTATTGAATTTTTTAAAAATAAAATACAAAAA
1 TTTCACATATGAGCGGGTTTCAATATACTTTGGGTATTGAATTTTTTAAAAATAAAATACAAAAA
100566641 TAATATAATTTATTTTCATAATTTTTTTAACCAAGTTGGTATCGTGTTGACTCATGACATCAACT
66 TAATATAATTTATTTTCATAATTTTTTTAACCAAGTTGGTATCGTGTTGACTCATGACATCAACT
100566706 TACTCTTCATTATTTTTTAGAAAAAATTACTCTTTATCTTAAAAAAAACTGGTTAAAAAAATAAA
131 TACTCTTCATTATTTTTTAGAAAAAATTACTCTTTATCTTAAAAAAAACTGGTTAAAAAAATAAA
100566771 TAAAATATAATAATTTGAATTCAAATAAATATAATTTTTCTCACATGAGCAAGTTTCAATATATT
196 TAAAATATAATAATTTGAATTCAAATAAATATAATTTTTCTCACATGAGCAAGTTTCAATATATT
100566836 TTGGGTGCGGTTGATAATCCTTTGAAATTTTATATTTACTTGAAAATAA
261 TTGGGTGCGGTTGATAATCCTTTGAAATTTTATATTTACTTGAAAATAA
100566885 TTTCACATATGAGCGGGTTTCAATATACTTTGGGTATTGAATTTTTTAAAAATAAAATACAAAAA
1 TTTCACATATGAGCGGGTTTCAATATACTTTGGGTATTGAATTTTTTAAAAATAAAATACAAAAA
100566950 TAATATAATTTATTTTCATAATTTTTTTAACCAAGTTGGTATCGTGTTGACTCATGACATCAACT
66 TAATATAATTTATTTTCATAATTTTTTTAACCAAGTTGGTATCGTGTTGACTCATGACATCAACT
100567015 TACTCTTCATTATTTTTTAGAAAAAATTACTCTTTATCTTAAAAAAAACTGGTTAAAAAAATAAA
131 TACTCTTCATTATTTTTTAGAAAAAATTACTCTTTATCTTAAAAAAAACTGGTTAAAAAAATAAA
100567080 TAAAATATAATAATTTGAATTCAAATAAATATAATTTTTCTCACATGAGCAAGTTTCAATATATT
196 TAAAATATAATAATTTGAATTCAAATAAATATAATTTTTCTCACATGAGCAAGTTTCAATATATT
100567145 TTGGGTGCGGTTGATAATCCTTTGAAATTTTATATTTACTTGAAAATAA
261 TTGGGTGCGGTTGATAATCCTTTGAAATTTTATATTTACTTGAAAATAA
100567194 TTT
1 TTT
100567197 TCAACTTTTA
Statistics
Matches: 312, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
309 312 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (309 bp):
TTTCACATATGAGCGGGTTTCAATATACTTTGGGTATTGAATTTTTTAAAAATAAAATACAAAAA
TAATATAATTTATTTTCATAATTTTTTTAACCAAGTTGGTATCGTGTTGACTCATGACATCAACT
TACTCTTCATTATTTTTTAGAAAAAATTACTCTTTATCTTAAAAAAAACTGGTTAAAAAAATAAA
TAAAATATAATAATTTGAATTCAAATAAATATAATTTTTCTCACATGAGCAAGTTTCAATATATT
TTGGGTGCGGTTGATAATCCTTTGAAATTTTATATTTACTTGAAAATAA
Found at i:100567590 original size:16 final size:16
Alignment explanation
Indices: 100567571--100567604 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
100567561 TGCTTATAAA
*
100567571 TTTTAGTACTTAATTT
1 TTTTAGCACTTAATTT
*
100567587 TTTTAGCATTTAATTT
1 TTTTAGCACTTAATTT
100567603 TT
1 TT
100567605 CAATTTATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTTAGCACTTAATTT
Found at i:100567939 original size:51 final size:51
Alignment explanation
Indices: 100567842--100567940 Score: 119
Period size: 51 Copynumber: 1.9 Consensus size: 51
100567832 ATGTATTTTT
* * **
100567842 AAAATATATATTAAGGGTGGAGGGAGAGAGATGGGTGGCAGCAGTATTAAA
1 AAAATATATATTAAGAGTGGAGGGAGAGAGATAGGCAGCAGCAGTATTAAA
* * *
100567893 AAAATATTTTTTAAGAGTGGATGGAGAGAGATAGGCAGCA-CTAGTATT
1 AAAATATATATTAAGAGTGGAGGGAGAGAGATAGGCAGCAGC-AGTATT
100567941 TTCTAGTGTA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 1 0.03
51 39 0.98
ACGTcount: A:0.38, C:0.05, G:0.31, T:0.25
Consensus pattern (51 bp):
AAAATATATATTAAGAGTGGAGGGAGAGAGATAGGCAGCAGCAGTATTAAA
Found at i:100568020 original size:27 final size:27
Alignment explanation
Indices: 100567968--100568020 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
100567958 AATTTAATTG
**
100567968 GTGGAGGGTGAGAGAGAGGCGGCACCA
1 GTGGAGGGTGAGAGAGAGGCAACACCA
100567995 GTGGAGGGTGAGAGAGAGGCAACACC
1 GTGGAGGGTGAGAGAGAGGCAACACC
100568021 CATGTTGTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.28, C:0.15, G:0.49, T:0.08
Consensus pattern (27 bp):
GTGGAGGGTGAGAGAGAGGCAACACCA
Found at i:100568209 original size:17 final size:18
Alignment explanation
Indices: 100568175--100568209 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
100568165 AAATAAAATA
*
100568175 TTTAGAAATTTAATTATT
1 TTTACAAATTTAATTATT
100568193 TTTACAAATTT-ATTATT
1 TTTACAAATTTAATTATT
100568210 GAAATGGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTACAAATTTAATTATT
Found at i:100569451 original size:12 final size:12
Alignment explanation
Indices: 100569421--100569453 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
100569411 ACCCGAAAGC
*
100569421 ATAGATAGCTAA
1 ATAGATGGCTAA
100569433 ATAGATGGCTAA
1 ATAGATGGCTAA
100569445 ATAGATGGC
1 ATAGATGGC
100569454 CATGGAGCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (12 bp):
ATAGATGGCTAA
Found at i:100572776 original size:14 final size:14
Alignment explanation
Indices: 100572753--100572782 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
100572743 TTGAAAATAT
100572753 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
100572767 GTTGATTTGGATTG
1 GTTGAATTGGATTG
100572781 GT
1 GT
100572783 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:100583523 original size:24 final size:24
Alignment explanation
Indices: 100583491--100583551 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
100583481 ACTTATTCGC
** *
100583491 ACACATAGTGCCATGTTTTCTTGA
1 ACACATAGTGCCATGTAATCTCGA
*
100583515 ACACATAGTGCCATGTAATCTCGC
1 ACACATAGTGCCATGTAATCTCGA
100583539 ACACATAGTGCCA
1 ACACATAGTGCCA
100583552 CATAGCCTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (24 bp):
ACACATAGTGCCATGTAATCTCGA
Found at i:100583564 original size:24 final size:24
Alignment explanation
Indices: 100583510--100583573 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
100583500 GCCATGTTTT
* ** *
100583510 CTTGAACACATAGTGCCATGTAAT
1 CTTGCACACATAGTGCCACATAAC
* *
100583534 CTCGCACACATAGTGCCACATAGC
1 CTTGCACACATAGTGCCACATAAC
100583558 CTTGCACACATAGTGC
1 CTTGCACACATAGTGC
100583574 TGTATTTTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (24 bp):
CTTGCACACATAGTGCCACATAAC
Found at i:100586729 original size:16 final size:16
Alignment explanation
Indices: 100586708--100586745 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
100586698 TTACCATTAA
100586708 AATTTAATATGTGACC
1 AATTTAATATGTGACC
100586724 AATTTAATATGTGACC
1 AATTTAATATGTGACC
100586740 AATTTA
1 AATTTA
100586746 GTAGGAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (16 bp):
AATTTAATATGTGACC
Found at i:100595386 original size:24 final size:23
Alignment explanation
Indices: 100595329--100595386 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
100595319 TTAGACACCA
* *
100595329 ATTGTGTTTTATGAATCATATAT
1 ATTGTGTTTTATGAAGCACATAT
*
100595352 ATTGTTGTTTTATGAAGGACATAT
1 ATTG-TGTTTTATGAAGCACATAT
100595376 ATTGTGATTTT
1 ATTGTG-TTTT
100595387 TTTATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.20
24 24 0.80
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.52
Consensus pattern (23 bp):
ATTGTGTTTTATGAAGCACATAT
Found at i:100596153 original size:16 final size:18
Alignment explanation
Indices: 100596129--100596172 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
100596119 GACATCTATA
*
100596129 TAATCAAATT-TATT-TT
1 TAATTAAATTATATTATT
100596145 TAATTAAATTATATTATT
1 TAATTAAATTATATTATT
100596163 TAATATAAAT
1 TAAT-TAAAT
100596173 AAAAATTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 9 0.38
17 4 0.17
18 6 0.25
19 5 0.21
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TAATTAAATTATATTATT
Done.