Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 76 of 343
Found at i:24958818 original size:51 final size:51
Alignment explanation
Indices: 24958696--24958818 Score: 124
Period size: 51 Copynumber: 2.4 Consensus size: 51
24958686 GATCACATGT
* * *
24958696 GTGGTACTAAGTGCAGGCCACTATGTATAAAAGATAGATTTGGTCACAAGT
1 GTGGTACTATGTGCAGGCCACTATGTATAAAAGATAGATTTGCTCACAAGG
* * * * * * *
24958747 ATGGTACTATGTGAAAGCCACTTTGTGA-ATAAGGTAGTTTTGACT-ACAAGG
1 GTGGTACTATGTGCAGGCCACTATGT-ATAAAAGATAGATTTG-CTCACAAGG
24958798 GTGGTACTATGTGCAGGCCAC
1 GTGGTACTATGTGCAGGCCAC
24958819 CGGGCATCTG
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
51 55 0.96
52 2 0.04
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (51 bp):
GTGGTACTATGTGCAGGCCACTATGTATAAAAGATAGATTTGCTCACAAGG
Found at i:24965766 original size:17 final size:18
Alignment explanation
Indices: 24965741--24965778 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
24965731 ACGAACTGAA
24965741 TTTAATTAAA-GATTTTT
1 TTTAATTAAAGGATTTTT
*
24965758 TTTACTTAAAGGATTTTT
1 TTTAATTAAAGGATTTTT
24965776 TTT
1 TTT
24965779 GTGTTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.61
Consensus pattern (18 bp):
TTTAATTAAAGGATTTTT
Found at i:24967317 original size:20 final size:20
Alignment explanation
Indices: 24967276--24967317 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
24967266 TTAATATGTT
*
24967276 AATGCAATATTTTCAGAAAA
1 AATGCAATATTTTCAAAAAA
24967296 AATGCAGAT-TTTTCAAAAAA
1 AATGCA-ATATTTTCAAAAAA
24967316 AA
1 AA
24967318 AAACTTCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.29
Consensus pattern (20 bp):
AATGCAATATTTTCAAAAAA
Found at i:24968083 original size:32 final size:32
Alignment explanation
Indices: 24968047--24968118 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
24968037 ATGCTCCTGT
*
24968047 GGCCCACACAA-CCCAAACGACCCAGACTGTGA
1 GGCCCACA-AAGCCCAAACAACCCAGACTGTGA
* *
24968079 GGCCCACAAAGCCTAAACAACCCAGACTGTGT
1 GGCCCACAAAGCCCAAACAACCCAGACTGTGA
*
24968111 GGACCACA
1 GGCCCACA
24968119 TAGTTTGGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 2 0.06
32 33 0.94
ACGTcount: A:0.35, C:0.38, G:0.19, T:0.08
Consensus pattern (32 bp):
GGCCCACAAAGCCCAAACAACCCAGACTGTGA
Found at i:24972858 original size:39 final size:39
Alignment explanation
Indices: 24972791--24972865 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
24972781 TGAGTATTGT
*
24972791 ATGATATAGGTTTAGCTCGGACGAGTAACCTGATATGTC
1 ATGATATAGGTTTAGCTCGAACGAGTAACCTGATATGTC
* *
24972830 ATGATATAGGTTTGGC-CTGAACGGGTAACCTGATAT
1 ATGATATAGGTTTAGCTC-GAACGAGTAACCTGATAT
24972866 AAATTTAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 1 0.03
39 31 0.97
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (39 bp):
ATGATATAGGTTTAGCTCGAACGAGTAACCTGATATGTC
Found at i:24989156 original size:95 final size:97
Alignment explanation
Indices: 24988912--24989180 Score: 264
Period size: 95 Copynumber: 2.8 Consensus size: 97
24988902 TGTACCGACG
* * * * * * *
24988912 CCATGTCCCGGACATGGTCTCACACT-G-GCTCACACATCAAAGTCGATGCCATGTTCCAGACAT
1 CCATATCCCAGACATGGTCTTACACTAGCTCTCATATATCAAAGTCGATGCCATGTCCCAGACAT
* ** *
24988975 GGTCTTACACTGACTCTCATATATCGGGGTCAATG
66 GGTCTTACACTG---CGCATATATCGAAGTCAATA
* * * * *
24989010 CCATATCCCAGACATGGTCTTACACTGGTTCTCATCTATCGATG-CTGATGCCATGTCCCAGACA
1 CCATATCCCAGACATGGTCTTACACTAGCTCTCATATATCAAAGTC-GATGCCATGTCCCAGACA
*
24989074 TGGTCTTACACTG-GCATATATC-AAGTCGATA
65 TGGTCTTACACTGCGCATATATCGAAGTCAATA
* *
24989105 CCA-AGTCCCAGACATAGG-CTTACACTAGCTCTCATATCTCAAGGTCGATGCCATGTCCCAGAC
1 CCATA-TCCCAGACAT-GGTCTTACACTAGCTCTCATATATCAAAGTCGATGCCATGTCCCAGAC
24989168 ATGGTCTTACACT
64 ATGGTCTTACACT
24989181 AGCTCTCATA
Statistics
Matches: 144, Mismatches: 21, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
94 1 0.01
95 68 0.47
96 11 0.08
98 23 0.16
99 2 0.01
100 39 0.27
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (97 bp):
CCATATCCCAGACATGGTCTTACACTAGCTCTCATATATCAAAGTCGATGCCATGTCCCAGACAT
GGTCTTACACTGCGCATATATCGAAGTCAATA
Found at i:24989177 original size:145 final size:147
Alignment explanation
Indices: 24988911--24989189 Score: 377
Period size: 145 Copynumber: 1.9 Consensus size: 147
24988901 ATGTACCGAC
* * * *
24988911 GCCATGTCCCGGACATGGTCTCACACTGGCTCACACATCAAAGTCGATGCCATGTTCCAGACATG
1 GCCATGTCCCAGACATGGTCTCACACTGGC-CACACATCAAAGTCGATACCAAGTCCCAGACATG
** * *
24988976 GTCTTACACTGACTCTCATATATCGGGGTCAATGCCATATCCCAGACATGGTCTTACACTGGTTC
65 GTCTTACACTGACTCTCATATATCAAGGTCAATGCCATATCCCAGACATGGTCTTACACTAGCTC
24989041 TCATCTATCGATGCTGAT
130 TCATCTATCGATGCTGAT
* * *
24989059 GCCATGTCCCAGACATGGTCTTACACTGG-CATATATC-AAGTCGATACCAAGTCCCAGACATAG
1 GCCATGTCCCAGACATGGTCTCACACTGGCCACACATCAAAGTCGATACCAAGTCCCAGACAT-G
* * *
24989122 G-CTTACACT-AGCTCTCATATCTCAAGGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
65 GTCTTACACTGA-CTCTCATATATCAAGGTCAATGCCATATCCCAGACATGGTCTTACACTAGCT
24989185 CTCAT
129 CTCAT
24989190 ATCTCTTTAA
Statistics
Matches: 115, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
144 1 0.01
145 79 0.69
146 8 0.07
148 27 0.23
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (147 bp):
GCCATGTCCCAGACATGGTCTCACACTGGCCACACATCAAAGTCGATACCAAGTCCCAGACATGG
TCTTACACTGACTCTCATATATCAAGGTCAATGCCATATCCCAGACATGGTCTTACACTAGCTCT
CATCTATCGATGCTGAT
Found at i:24989194 original size:50 final size:49
Alignment explanation
Indices: 24988911--24989191 Score: 288
Period size: 50 Copynumber: 5.8 Consensus size: 49
24988901 ATGTACCGAC
* * * * * *
24988911 GCCATGTCCCGGACATGGTCTCACACTG-GCTCACACATCAAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGCTCTCATATATCAAGGTCGAT
* ** *
24988959 GCCATGTTCCAGACATGGTCTTACACTGACTCTCATATATCGGGGTCAAT
1 GCCATGTCCCAGACATGGTCTTACACTG-CTCTCATATATCAAGGTCGAT
* * * * *
24989009 GCCATATCCCAGACATGGTCTTACACTGGTTCTCATCTATCGATG-CTGAT
1 GCCATGTCCCAGACATGGTCTTACACT-GCTCTCATATATCAAGGTC-GAT
*
24989059 GCCATGTCCCAGACATGGTCTTACACTG---GCATATATCAA-GTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGCTCTCATATATCAAGGTCGAT
* * *
24989104 ACCAAGTCCCAGACATAGG-CTTACACTAGCTCTCATATCTCAAGGTCGAT
1 GCCATGTCCCAGACAT-GGTCTTACACT-GCTCTCATATATCAAGGTCGAT
24989154 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT
1 GCCATGTCCCAGACATGGTCTTACACT-GCTCTCATAT
24989192 CTCTTTAACA
Statistics
Matches: 194, Mismatches: 27, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
45 26 0.13
46 12 0.06
48 25 0.13
49 13 0.07
50 117 0.60
51 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACACTGCTCTCATATATCAAGGTCGAT
Found at i:24993183 original size:22 final size:23
Alignment explanation
Indices: 24993143--24993186 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
24993133 AATTAATTTC
*
24993143 TAGAAAATAGATTAAATTTTTTA
1 TAGAAAATAAATTAAATTTTTTA
*
24993166 TAGAAAA-AAATTATATTTTTT
1 TAGAAAATAAATTAAATTTTTT
24993187 TGATGTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (23 bp):
TAGAAAATAAATTAAATTTTTTA
Found at i:24993400 original size:28 final size:28
Alignment explanation
Indices: 24993361--24993417 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
24993351 TAATTTTTTG
*
24993361 TAATAATTAATATC-ATATAAAAACTTAA
1 TAATAAATAATATCTA-ATAAAAACTTAA
*
24993389 TAATAAATAATATCTAATTAAAACTTAA
1 TAATAAATAATATCTAATAAAAACTTAA
24993417 T
1 T
24993418 TTAAAGTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (28 bp):
TAATAAATAATATCTAATAAAAACTTAA
Found at i:24996295 original size:43 final size:42
Alignment explanation
Indices: 24996248--24996358 Score: 105
Period size: 44 Copynumber: 2.5 Consensus size: 42
24996238 TGTACATGGA
*
24996248 AGGAGGTGTACAAGGTAATAATGGCCTTGCTCCCACACATAGG
1 AGGAGGT-TACAAGGTAATAATGACCTTGCTCCCACACATAGG
* * * *
24996291 AGGAGGTTATGGAAGGTAATAATGACTTTGCTCCTACACATGGG
1 AGGAGGTTA--CAAGGTAATAATGACCTTGCTCCCACACATAGG
* *
24996335 GGGAGGCCTACGAATGGTAATAAT
1 AGGAGG-TTAC-AA-GGTAATAAT
24996359 ATGACCCTTC
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
42 2 0.04
43 7 0.13
44 35 0.64
45 11 0.20
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (42 bp):
AGGAGGTTACAAGGTAATAATGACCTTGCTCCCACACATAGG
Found at i:24996598 original size:47 final size:45
Alignment explanation
Indices: 24996259--24996725 Score: 184
Period size: 45 Copynumber: 10.1 Consensus size: 45
24996249 GGAGGTGTAC
** * *
24996259 AAGGTAATAATGGCCTTGCTCCCACACATAGGAGGAGG-TTATGG
1 AAGGTAATAATGGCCTTGCTCCTGCACATAGGGGGAGGCTTACGG
* * * * *
24996303 AAGGTAATAATGACTTTGCTCCTACACATGGGGGGAGGCCTAC-G
1 AAGGTAATAATGGCCTTGCTCCTGCACATAGGGGGAGGCTTACGG
* * * * **
24996347 AATGGTAATAATATGACCCTT-CTCCCGTACAT-GGGGGAGGCTTTCAA
1 AA-GGTAAT-A-ATG-GCCTTGCTCCTGCACATAGGGGGAGGCTTACGG
* ** * * * * *
24996394 AAGGTAATAAAGTAGTATTGCT-CTCGTACATAAGAGGAAGCTTATGG
1 AAGGTAAT-AA-TGGCCTTGCTCCT-GCACATAGGGGGAGGCTTACGG
** * * * *
24996441 AAGGTAATAATGGTATTGCT-CTCGTACATAAGGGGTGACTTACGG
1 AAGGTAATAATGGCCTTGCTCCT-GCACATAGGGGGAGGCTTACGG
* ** * * * * **
24996486 AAGGTAGTAATGG-CTCTGCTCCCAAACGCAT-GAGAGGAGACTTGCAA
1 AAGGTAATAATGGCCT-TGCT-CC-TGCACATAG-GGGGAGGCTTACGG
*
24996533 AAGGTAATAATGGTCTTGCTCCTGCACATAGGGGGAGGCTTACGG
1 AAGGTAATAATGGCCTTGCTCCTGCACATAGGGGGAGGCTTACGG
* *
24996578 AAGGTAATAAAGTGGCCTTGCTCCTAG-ATGCAT-GGGAGGAGGTTTATGG
1 AAGGTAAT-AA-TGGCCTTGCTCCT-GCA--CATAGGG-GGAGGCTTACGG
* * * * *
24996627 AAGGTAATAATGGCCCTACTCTTGCACATAGGGAGGA-GCTTATGA
1 AAGGTAATAATGGCCTTGCTCCTGCACATAGGG-GGAGGCTTACGG
* * * *
24996672 AAGATCATAAAGTGGCCTTGCTCCAAGACACAT-GGGAGAAGGCTTACGG
1 AAGGTAAT-AA-TGGCCTTGCTCC-TG-CACATAGGG-GGAGGCTTACGG
24996721 AAGGT
1 AAGGT
24996726 GGTAATAGAA
Statistics
Matches: 321, Mismatches: 72, Indels: 55
0.72 0.16 0.12
Matches are distributed among these distances:
44 37 0.12
45 93 0.29
46 46 0.14
47 91 0.28
48 18 0.06
49 36 0.11
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (45 bp):
AAGGTAATAATGGCCTTGCTCCTGCACATAGGGGGAGGCTTACGG
Found at i:24996629 original size:49 final size:49
Alignment explanation
Indices: 24996566--24996771 Score: 172
Period size: 49 Copynumber: 4.3 Consensus size: 49
24996556 GCACATAGGG
* * *
24996566 GGAGGCTTACGGAAGGTAATAAAGTGGCCTTGCTCCTAGATGCATGGGA
1 GGAGGCTTATGGAAGGTAATAAAGTGGCCCTGCTCCTAGACGCATGGGA
* * * *
24996615 GGAGGTTTATGGAAGGTAAT-AA-TGGCCCTACT-CTTG-CACATAGGGA
1 GGAGGCTTATGGAAGGTAATAAAGTGGCCCTGCTCCTAGACGCAT-GGGA
* * * * * *
24996661 GGA-GCTTATGAAAGATCATAAAGTGGCCTTGCTCCAAGACACATGGGA
1 GGAGGCTTATGGAAGGTAATAAAGTGGCCCTGCTCCTAGACGCATGGGA
* * ** ** *
24996709 GAAGGCTTACGGAAGGTGGTAATAGAAGCCCTGCTCCTAGACGAATGGG-
1 GGAGGCTTATGGAAGGTAATAA-AGTGGCCCTGCTCCTAGACGCATGGGA
24996758 GGAGGCTTATGGAA
1 GGAGGCTTATGGAA
24996772 AAATAGTGGT
Statistics
Matches: 121, Mismatches: 29, Indels: 14
0.74 0.18 0.09
Matches are distributed among these distances:
45 15 0.12
46 12 0.10
47 16 0.13
48 10 0.08
49 48 0.40
50 20 0.17
ACGTcount: A:0.29, C:0.17, G:0.33, T:0.22
Consensus pattern (49 bp):
GGAGGCTTATGGAAGGTAATAAAGTGGCCCTGCTCCTAGACGCATGGGA
Found at i:24996638 original size:94 final size:93
Alignment explanation
Indices: 24996153--24996725 Score: 293
Period size: 94 Copynumber: 6.2 Consensus size: 93
24996143 GACCATAAAG
* * * * * *
24996153 GGAGGCTTATGGAAAGTAATAAAGAGACCTTGCTCCTAAACGCATAGGGGAAGGCTTACAAAAGG
1 GGAGGCTTA-GGAAGGTAATAATG-G-CCTTGCTCCT--GCACATAGGGGGAGGCTTACGAAAGG
* * * *
24996218 TGATAAAGCGGCATTGCTCCT-G-TACATGGAA
61 TAATAAAGTGGCCTTGCTCCTAGATACATGGGA
* ** * * *
24996249 GGAGG-TGTA-CAAGGTAATAATGGCCTTGCTCCCACACATAGGAGGAGG-TTATGGAAGGTAAT
1 GGAGGCT-TAGGAAGGTAATAATGGCCTTGCTCCTGCACATAGGGGGAGGCTTACGAAAGGTAAT
* * * *
24996311 -AA-TGACTTTGCTCCT--ACACATGGGG
65 AAAGTGGCCTTGCTCCTAGATACATGGGA
* * * * * * *
24996336 GGAGGCCTACGAATGGTAATAATATGACCCTT-CTCCCGTACAT-GGGGGAGGCTTTCAAAAGGT
1 GGAGGCTTAGGAA-GGTAAT-A-ATG-GCCTTGCTCCTGCACATAGGGGGAGGCTTACGAAAGGT
* ** * **
24996399 AATAAAGTAGTATTGCT-CTCG-TACATAAGA
62 AATAAAGTGGCCTTGCTCCTAGATACATGGGA
* ** * * * * * *
24996429 GGAAGCTTATGGAAGGTAATAATGGTATTGCT-CTCGTACATAAGGGGTGACTTACGGAAGGTAG
1 GGAGGCTTA-GGAAGGTAATAATGGCCTTGCTCCT-GCACATAGGGGGAGGCTTACGAAAGGTAA
* * ** *
24996493 T-AA-TGG-CTCTGCTCCCAAACGCATGAGA
64 TAAAGTGGCCT-TGCTCCTAGATACATGGGA
* * * *
24996521 GGAGACTT-GCAAAAGGTAATAATGGTCTTGCTCCTGCACATAGGGGGAGGCTTACGGAAGGTAA
1 GGAGGCTTAG--GAAGGTAATAATGGCCTTGCTCCTGCACATAGGGGGAGGCTTACGAAAGGTAA
*
24996585 TAAAGTGGCCTTGCTCCTAGATGCATGGGA
64 TAAAGTGGCCTTGCTCCTAGATACATGGGA
* * * * * * *
24996615 GGAGGTTTATGGAAGGTAATAATGGCCCTACTCTTGCACATAGGGAGGA-GCTTATGAAAGATCA
1 GGAGGCTTA-GGAAGGTAATAATGGCCTTGCTCCTGCACATAGGG-GGAGGCTTACGAAAGGTAA
* *
24996679 TAAAGTGGCCTTGCTCCAAGACACATGGGA
64 TAAAGTGGCCTTGCTCCTAGATACATGGGA
*
24996709 GAAGGCTTACGGAAGGT
1 GGAGGCTTA-GGAAGGT
24996726 GGTAATAGAA
Statistics
Matches: 361, Mismatches: 87, Indels: 60
0.71 0.17 0.12
Matches are distributed among these distances:
87 23 0.06
88 4 0.01
89 17 0.05
90 30 0.08
91 36 0.10
92 90 0.25
93 29 0.08
94 118 0.33
95 6 0.02
96 8 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (93 bp):
GGAGGCTTAGGAAGGTAATAATGGCCTTGCTCCTGCACATAGGGGGAGGCTTACGAAAGGTAATA
AAGTGGCCTTGCTCCTAGATACATGGGA
Found at i:24999534 original size:72 final size:72
Alignment explanation
Indices: 24999458--24999604 Score: 258
Period size: 72 Copynumber: 2.0 Consensus size: 72
24999448 AATTGGCCTC
* * *
24999458 TTTAAAAAGTATTCTAAAATTATTTTAAAAGAATAACACCATTCAAATTTTAATAATATAAATTA
1 TTTAAAAAGTATTCTAAAATTATTTTAAAAGAATAAAACCATTCAAAATTTAATAATAAAAATTA
24999523 AAAGATA
66 AAAGATA
*
24999530 TTTAAAAAGTTTTCTAAAATTATTTTAAAAGAATAAAACCATTCAAAATTTAATAATAAAAATTA
1 TTTAAAAAGTATTCTAAAATTATTTTAAAAGAATAAAACCATTCAAAATTTAATAATAAAAATTA
24999595 AAAGATA
66 AAAGATA
24999602 TTT
1 TTT
24999605 GAAGGTTACA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (72 bp):
TTTAAAAAGTATTCTAAAATTATTTTAAAAGAATAAAACCATTCAAAATTTAATAATAAAAATTA
AAAGATA
Found at i:25001245 original size:40 final size:40
Alignment explanation
Indices: 25001195--25001361 Score: 237
Period size: 40 Copynumber: 4.1 Consensus size: 40
25001185 GTAAAAATTT
***
25001195 TAAAATACAGAGCAATAGTGGCG-TTTTAAAAAAAACGCCGC
1 TAAAA-ACAGAGCAATAGTGGCGCTTTT-GGTAAAACGCCGC
* *
25001236 TAAAAACAGAGCAATAGAGGCGCTTTTGGTAAAACGCCAC
1 TAAAAACAGAGCAATAGTGGCGCTTTTGGTAAAACGCCGC
25001276 TAAAAACAGAGCAATAGTGGCGCTTTTGGTAAAACGCCGC
1 TAAAAACAGAGCAATAGTGGCGCTTTTGGTAAAACGCCGC
* *
25001316 TAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAA-CAGAGCAATAGTGGCGCTTTTGGTAAAACGCCGC
25001357 TAAAA
1 TAAAA
25001362 GTCATATAAC
Statistics
Matches: 115, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 69 0.60
41 46 0.40
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGTGGCGCTTTTGGTAAAACGCCGC
Found at i:25001351 original size:81 final size:81
Alignment explanation
Indices: 25001195--25001361 Score: 248
Period size: 81 Copynumber: 2.1 Consensus size: 81
25001185 GTAAAAATTT
25001195 TAAAATACAGAGCAATAGTGGCGTTTTAAAAAAAACGCCGCTAAAAACAGAGCAATAGAGGCGCT
1 TAAAATACAGAGCAATAGTGGCGTTTTAAAAAAAACGCCGCTAAAAACAGAGCAATAGAGGCGCT
25001260 TTTGGTAAAACGCCAC
66 TTTGGTAAAACGCCAC
*** * *
25001276 TAAAA-ACAGAGCAATAGTGGCGCTTTT-GGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCG
1 TAAAATACAGAGCAATAGTGGCG-TTTTAAAAAAAACGCCGCTAAAAA-CAGAGCAATAGAGGCG
*
25001339 CTTTTGGTAAAACGCCGC
64 CTTTTGGTAAAACGCCAC
25001357 TAAAA
1 TAAAA
25001362 GTCATATAAC
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
80 33 0.42
81 45 0.58
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (81 bp):
TAAAATACAGAGCAATAGTGGCGTTTTAAAAAAAACGCCGCTAAAAACAGAGCAATAGAGGCGCT
TTTGGTAAAACGCCAC
Found at i:25002413 original size:15 final size:15
Alignment explanation
Indices: 25002393--25002424 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25002383 TTTAATTTAG
*
25002393 AAGATAAATGTATAT
1 AAGATAAATATATAT
25002408 AAGATAAATATATAT
1 AAGATAAATATATAT
25002423 AA
1 AA
25002425 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:25004801 original size:41 final size:41
Alignment explanation
Indices: 25004749--25004848 Score: 182
Period size: 41 Copynumber: 2.4 Consensus size: 41
25004739 ATAAGTCAAA
*
25004749 TTGTCCATCTTCATCTACAAGGGAAAAATAATTCAAAAATC
1 TTGTCCATCTTCATCTACAAGGGAAAAATAAGTCAAAAATC
25004790 TTGTCCATCTTCATCTACAAGGGAAAAATAAGTCAAAAATC
1 TTGTCCATCTTCATCTACAAGGGAAAAATAAGTCAAAAATC
*
25004831 TTATCCATCTTCATCTAC
1 TTGTCCATCTTCATCTAC
25004849 GTTAGCCGAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (41 bp):
TTGTCCATCTTCATCTACAAGGGAAAAATAAGTCAAAAATC
Found at i:25019413 original size:14 final size:12
Alignment explanation
Indices: 25019391--25019425 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
25019381 GTTTTAAAAT
25019391 AAAATAAAATTAA
1 AAAATAAAA-TAA
25019404 AAACATAAAATAA
1 AAA-ATAAAATAA
25019417 AAAATAAAA
1 AAAATAAAA
25019426 AATTTTAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 6 0.29
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:25019425 original size:19 final size:19
Alignment explanation
Indices: 25019389--25019426 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
25019379 TAGTTTTAAA
*
25019389 ATAAAATAAAATTAAAAAC
1 ATAAAATAAAAATAAAAAC
25019408 ATAAAATAAAAAATAAAAA
1 ATAAAAT-AAAAATAAAAA
25019427 ATTTTAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (19 bp):
ATAAAATAAAAATAAAAAC
Found at i:25021939 original size:27 final size:27
Alignment explanation
Indices: 25021903--25022107 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
25021893 TAAATTGTAC
*
25021903 AGCACAAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
25021930 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
25021957 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25021983 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
25022011 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
25022039 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25022066 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
25022093 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25022108 GACTCAATAT
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 132 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:25022043 original size:109 final size:108
Alignment explanation
Indices: 25021904--25022107 Score: 311
Period size: 109 Copynumber: 1.9 Consensus size: 108
25021894 AAATTGTACA
* *
25021904 GCACAAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACAAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
25021969 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
* *
25022012 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACAAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
25022077 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
25022108 GACTCAATAT
Statistics
Matches: 86, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
108 16 0.19
109 70 0.81
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACAAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:25024961 original size:55 final size:55
Alignment explanation
Indices: 25024826--25024969 Score: 153
Period size: 55 Copynumber: 2.6 Consensus size: 55
25024816 GTATGAAGGT
* * ** *
25024826 CCACACCGGTGTTGTTTTGGCAGGTTTGCCCACGGTTTCTTGGCATGGGCGTGTC
1 CCACACCCGTGTTGTTTTGGCAGGTTCGCCCACGGTTTCAAGGCACGGGCGTGTC
* ** ** * *
25024881 CCACGCCCGTGTTAATTTGATAGGTTCGGCCATGGTTTCAAGGCACGGGCGTGTC
1 CCACACCCGTGTTGTTTTGGCAGGTTCGCCCACGGTTTCAAGGCACGGGCGTGTC
** *
25024936 GGACACCCGTGTTGTTTTGGCAGGTTCACCCACG
1 CCACACCCGTGTTGTTTTGGCAGGTTCGCCCACG
25024970 ACCATGTAGC
Statistics
Matches: 67, Mismatches: 22, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
55 67 1.00
ACGTcount: A:0.13, C:0.26, G:0.31, T:0.29
Consensus pattern (55 bp):
CCACACCCGTGTTGTTTTGGCAGGTTCGCCCACGGTTTCAAGGCACGGGCGTGTC
Found at i:25037981 original size:43 final size:43
Alignment explanation
Indices: 25037898--25038105 Score: 247
Period size: 43 Copynumber: 4.9 Consensus size: 43
25037888 TCTGATTTCA
* * * * *
25037898 TTCACTAGCATT-TCGCCTACTAGGTTCGAAGCCTGATATTAT
1 TTCACTAGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
*
25037940 TTCACTAGCATTATAGCCTGCTAGGCTCGAGGCCCAATATTAT
1 TTCACTAGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
*
25037983 TTCACTAGCATTATAGCCTGCTAGGCTCGAGGCCTGATATTAT
1 TTCACTAGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
** * * * *
25038026 TTCACCGGTATTATAGCCTGCTAGGCTTGAGGCTCGGTATTAT
1 TTCACTAGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
** * * *
25038069 TTCACCGGCATTATAGCCTGCTGGGGTCGAAGCCCGA
1 TTCACTAGCATTATAGCCTGCTAGGCTCGAGGCCCGA
25038106 ATTCATCATA
Statistics
Matches: 143, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 12 0.08
43 131 0.92
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (43 bp):
TTCACTAGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
Found at i:25041459 original size:15 final size:15
Alignment explanation
Indices: 25041435--25041466 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25041425 CTTTGTTATA
25041435 TTCTACTCTACTCTG
1 TTCTACTCTACTCTG
*
25041450 TTCTATTCTACTCTG
1 TTCTACTCTACTCTG
25041465 TT
1 TT
25041467 TGAATTGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.28, G:0.06, T:0.53
Consensus pattern (15 bp):
TTCTACTCTACTCTG
Found at i:25042146 original size:19 final size:18
Alignment explanation
Indices: 25042124--25042165 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
25042114 AAGTATTTAT
25042124 AGTAAAAAT-AATAATCAA
1 AGTAAAAATGAATAA-CAA
*
25042142 GAGTAATAATGAATAACAA
1 -AGTAAAAATGAATAACAA
25042161 AGTAA
1 AGTAA
25042166 TTAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 11 0.52
20 5 0.24
ACGTcount: A:0.62, C:0.05, G:0.12, T:0.21
Consensus pattern (18 bp):
AGTAAAAATGAATAACAA
Found at i:25042838 original size:24 final size:24
Alignment explanation
Indices: 25042811--25042869 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
25042801 GGTTACAAAG
*
25042811 AGATGAAATGTG-AAGAGTTAAGGA
1 AGATGAAAGGTGAAAG-GTTAAGGA
25042835 AGATGAAAGGTGAAAGGTTAAGGA
1 AGATGAAAGGTGAAAGGTTAAGGA
25042859 AGATGAAAGGT
1 AGATGAAAGGT
25042870 TGAACATCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.36, T:0.19
Consensus pattern (24 bp):
AGATGAAAGGTGAAAGGTTAAGGA
Found at i:25045277 original size:49 final size:49
Alignment explanation
Indices: 25045200--25045325 Score: 155
Period size: 49 Copynumber: 2.6 Consensus size: 49
25045190 AGATGTTGAC
* * *
25045200 GCCATGTCCCAGATATGGTCTTATACTGGCTTTTATATAGCGAG-GCCGAT
1 GCCATGTCCCAGATA-GGTCTTACACTGGCTCTCATATAGCG-GTGCCGAT
* * * *
25045250 GCCATGTCCCAAATAGGTCTTACACTGGCTCTCATCTATCGGTGTCGAT
1 GCCATGTCCCAGATAGGTCTTACACTGGCTCTCATATAGCGGTGCCGAT
*
25045299 GCCATGTCCCAGACAGGTCTTACACTG
1 GCCATGTCCCAGATAGGTCTTACACTG
25045326 ACACACCACA
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
48 1 0.02
49 51 0.77
50 14 0.21
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.29
Consensus pattern (49 bp):
GCCATGTCCCAGATAGGTCTTACACTGGCTCTCATATAGCGGTGCCGAT
Found at i:25045416 original size:48 final size:48
Alignment explanation
Indices: 25045345--25045464 Score: 138
Period size: 48 Copynumber: 2.5 Consensus size: 48
25045335 AAGCTGACGC
* **
25045345 CATGTCAC-AGACAGGTCTTACACTAGCTTGTATATCGT-GAGGCCAATG
1 CATGTC-CTAGACATGTCTTACACTAGCTTAAATATC-TCGAGGCCAATG
**
25045393 CATGTCCTAGACATGTCTTACACTAGCTTAAATATCTCGAGGCTGATG
1 CATGTCCTAGACATGTCTTACACTAGCTTAAATATCTCGAGGCCAATG
*
25045441 TATGTCCCTA-ACATGTCTTACACT
1 CATGT-CCTAGACATGTCTTACACT
25045465 GGCTCTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
47 2 0.03
48 57 0.90
49 4 0.06
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (48 bp):
CATGTCCTAGACATGTCTTACACTAGCTTAAATATCTCGAGGCCAATG
Found at i:25058197 original size:24 final size:24
Alignment explanation
Indices: 25058170--25058219 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
25058160 ACTAGCCCAT
25058170 CAAATAATCATTGCATATAATACA
1 CAAATAATCATTGCATATAATACA
* *
25058194 CAAATAATCGTTGCATCTAATACA
1 CAAATAATCATTGCATATAATACA
25058218 CA
1 CA
25058220 TTTACAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.28
Consensus pattern (24 bp):
CAAATAATCATTGCATATAATACA
Found at i:25058860 original size:19 final size:19
Alignment explanation
Indices: 25058811--25058860 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
25058801 TAAAAAATTC
*
25058811 AAATAT-TAAAAATTAGAA
1 AAATATATAAAAATCAGAA
* *
25058829 AAATCATA-GAAAATCATAA
1 AAAT-ATATAAAAATCAGAA
25058848 AAATATATAAAAA
1 AAATATATAAAAA
25058861 AAATTGTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.24
Consensus pattern (19 bp):
AAATATATAAAAATCAGAA
Found at i:25058907 original size:29 final size:28
Alignment explanation
Indices: 25058857--25058956 Score: 76
Period size: 29 Copynumber: 3.4 Consensus size: 28
25058847 AAAATATATA
*
25058857 AAAAAAATTGTAAAATTTTATAAAAATCGT
1 AAAAAAATTATAAAA--TTATAAAAATCGT
* * *
25058887 AAAAAAATTATACAATATATAGAAAT-AT
1 AAAAAAATTATAAAAT-TATAAAAATCGT
* * *
25058915 AAAAAAAATTCTAAAATTTTATAAAGTCGT
1 -AAAAAAATTATAAAATTATA-AAAATCGT
*
25058945 AAGAAAATTATA
1 AAAAAAATTATA
25058957 CAAAATGTAA
Statistics
Matches: 54, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
28 5 0.09
29 35 0.65
30 14 0.26
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (28 bp):
AAAAAAATTATAAAATTATAAAAATCGT
Found at i:25058952 original size:58 final size:60
Alignment explanation
Indices: 25058839--25058977 Score: 185
Period size: 59 Copynumber: 2.3 Consensus size: 60
25058829 AAATCATAGA
*
25058839 AAATCATAAA-AATATATAAAAAAAATTGTAAAATTTTATAAAAATCGTAAAAAAATTATAC
1 AAAT-ATAAAGAA-ATATAAAAAAAATTCTAAAATTTTATAAAAATCGTAAAAAAATTATAC
* * *
25058900 -AATATATAGAAATATAAAAAAAATTCTAAAATTTTAT-AAAGTCGTAAGAAAATTATAC
1 AAATATAAAGAAATATAAAAAAAATTCTAAAATTTTATAAAAATCGTAAAAAAATTATAC
*
25058958 AAAATGTAAAGAAATATAAA
1 -AAATATAAAGAAATATAAA
25058978 TTTCTTAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
58 19 0.28
59 29 0.42
60 21 0.30
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (60 bp):
AAATATAAAGAAATATAAAAAAAATTCTAAAATTTTATAAAAATCGTAAAAAAATTATAC
Found at i:25059032 original size:36 final size:36
Alignment explanation
Indices: 25058984--25059064 Score: 110
Period size: 36 Copynumber: 2.2 Consensus size: 36
25058974 TAAATTTCTT
*
25058984 AAAACAAAAACTAGGCAAG-ACGTAATGACTTTAATTG
1 AAAA-AAAAACTAGGC-AGCACATAATGACTTTAATTG
* *
25059021 AAAAAAAAACTAGGCGGCACATGATGACTTTAATTG
1 AAAAAAAAACTAGGCAGCACATAATGACTTTAATTG
25059057 AAAAAAAA
1 AAAAAAAA
25059065 CAAGGGGTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
35 1 0.03
36 35 0.88
37 4 0.10
ACGTcount: A:0.52, C:0.12, G:0.16, T:0.20
Consensus pattern (36 bp):
AAAAAAAAACTAGGCAGCACATAATGACTTTAATTG
Found at i:25059144 original size:20 final size:20
Alignment explanation
Indices: 25059082--25059160 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
25059072 TGGTTAATTT
* *
25059082 TTTTATAATTTTTAT-AAAG
1 TTTTACAATTTTTATAAAAA
* * ***
25059101 TTTTACAATTTTTTTTATTT
1 TTTTACAATTTTTATAAAAA
25059121 TTTTACAATTTTTATAAAAA
1 TTTTACAATTTTTATAAAAA
25059141 TTTT-CTAATTTTTAATAAAA
1 TTTTAC-AATTTTT-ATAAAA
25059161 TTTAAATTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
19 14 0.30
20 27 0.57
21 6 0.13
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (20 bp):
TTTTACAATTTTTATAAAAA
Found at i:25059153 original size:39 final size:39
Alignment explanation
Indices: 25059078--25059153 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
25059068 GGGGTGGTTA
* *
25059078 ATTTTTTTATAATTTTTATAAAGTTTTACAATTTTTTTT
1 ATTTTTTTACAATTTTTATAAAATTTTACAATTTTTTTT
25059117 ATTTTTTTACAATTTTTATAAAAATTTT-CTAATTTTT
1 ATTTTTTTACAATTTTTAT-AAAATTTTAC-AATTTTT
25059154 AATAAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 19 0.58
40 14 0.42
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (39 bp):
ATTTTTTTACAATTTTTATAAAATTTTACAATTTTTTTT
Found at i:25059173 original size:26 final size:27
Alignment explanation
Indices: 25059138--25059192 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
25059128 ATTTTTATAA
25059138 AAATTTTCTA-ATTTTTAATAAAATTT
1 AAATTTTCTATATTTTTAATAAAATTT
*
25059164 AAATTTTCTATATTTTTATTAAAATTT
1 AAATTTTCTATATTTTTAATAAAATTT
25059191 AA
1 AA
25059193 TAAATTTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (27 bp):
AAATTTTCTATATTTTTAATAAAATTT
Found at i:25059342 original size:89 final size:89
Alignment explanation
Indices: 25059247--25059453 Score: 267
Period size: 90 Copynumber: 2.3 Consensus size: 89
25059237 TTTTAATAAG
* * **
25059247 AGTAGGGACTTAATTGTTTTTTTTTGAAAAATTTTG-A-GTCTTTTTGATACATTTTGAAAGTTC
1 AGTAGGGACTTAATTGCTTTTTTTT-AAAAAGTTTGAAGGGATTTTTGATACATTTTGAAAGTTC
25059310 AACTACCCAATTGAGTGAAAAAAAA
65 AACTACCCAATTGAGTGAAAAAAAA
* * *
25059335 TAGTAGGGACTTAATTGCTTTTTTCTAAGAAGTTTGAAGGGATTTTTGATGCATTTTGAAAGTTC
1 -AGTAGGGACTTAATTGCTTTTTTTTAAAAAGTTTGAAGGGATTTTTGATACATTTTGAAAGTTC
* *
25059400 AAGTACTCAATTGAGTGAAAAAAAA
65 AACTACCCAATTGAGTGAAAAAAAA
* * *
25059425 AG-AGAGACTTAATTACTTTTTTTAAAAAA
1 AGTAGGGACTTAATTGCTTTTTTTTAAAAA
25059454 AAGTTTGAGG
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
88 30 0.29
89 26 0.25
90 46 0.45
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.38
Consensus pattern (89 bp):
AGTAGGGACTTAATTGCTTTTTTTTAAAAAGTTTGAAGGGATTTTTGATACATTTTGAAAGTTCA
ACTACCCAATTGAGTGAAAAAAAA
Found at i:25070968 original size:40 final size:40
Alignment explanation
Indices: 25070894--25071012 Score: 118
Period size: 41 Copynumber: 3.0 Consensus size: 40
25070884 TAGCTCCTCG
* *
25070894 TTCAAGTGCCTTCGGGACATAGCCCGG--TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGAATT-TAGTAACTCA
* *
25070934 TTCAATGCCTTCGGGACTTAACCCGGAATTTAGTATCTCG
1 TTCAATGCCTTCGGGACTTAACCCGGAATTTAGTAACTCA
** * *
25070974 CACAAAGGCCTTCGGGACTTAACCCGGAA-TTAATAACTC
1 TTC-AATGCCTTCGGGACTTAACCCGGAATTTAGTAACTC
25071013 GCACAAATAC
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
39 19 0.28
40 22 0.33
41 26 0.39
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGAATTTAGTAACTCA
Found at i:25071026 original size:40 final size:41
Alignment explanation
Indices: 25070941--25071081 Score: 137
Period size: 40 Copynumber: 3.5 Consensus size: 41
25070931 TCATTCAATG
* * *
25070941 CCTTCGGGACTTAACCCGGAATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGAATTTAATAACTCGCACAAAGA
*
25070982 CCTTCGGGACTTAACCCGGAA-TTAATAACTCGCACAAATA
1 CCTTCGGGACTTAACCCGGAATTTAATAACTCGCACAAAGA
** * * * *
25071022 CCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAAG-
1 CCTTCGGGA-CTTAACCCGGAATTTAATAAC-TCGCACAAAGA
*
25071062 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
25071082 CAGCATTCAA
Statistics
Matches: 83, Mismatches: 12, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
39 4 0.05
40 47 0.57
41 32 0.39
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
CCTTCGGGACTTAACCCGGAATTTAATAACTCGCACAAAGA
Found at i:25078825 original size:39 final size:40
Alignment explanation
Indices: 25078748--25078894 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
25078738 TAGCTCCTCG
* * *
25078748 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
25078788 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
25078827 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
25078867 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
25078895 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:25078905 original size:80 final size:80
Alignment explanation
Indices: 25078794--25078974 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
25078784 CTCATTCAAT
* * *
25078794 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
25078857 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
25078873 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
25078937 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
25078954 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
25078975 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:25078934 original size:40 final size:40
Alignment explanation
Indices: 25078791--25078974 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
25078781 TAACTCATTC
* *
25078791 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
25078831 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
25078871 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
25078911 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
25078952 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
25078975 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:25083917 original size:21 final size:20
Alignment explanation
Indices: 25083889--25083930 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
25083879 AGATCTTTAG
25083889 TCTTGAT-GATAAATTCGGCT
1 TCTTGATGGATAAA-TCGGCT
*
25083909 TCTTAGATGGATCAATCGGCT
1 TCTT-GATGGATAAATCGGCT
25083930 T
1 T
25083931 TCCTTGAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (20 bp):
TCTTGATGGATAAATCGGCT
Found at i:25096610 original size:35 final size:35
Alignment explanation
Indices: 25096571--25096643 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
25096561 GGTATGTGAT
*
25096571 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTAAGATTGATCTGACGAGA
25096606 ATATATATTATTTATGTAAGATTGATCTGACGAGA
1 ATATATATTATTTATGTAAGATTGATCTGACGAGA
25096641 ATA
1 ATA
25096644 AAGAATGTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (35 bp):
ATATATATTATTTATGTAAGATTGATCTGACGAGA
Found at i:25098437 original size:55 final size:55
Alignment explanation
Indices: 25098371--25098481 Score: 188
Period size: 55 Copynumber: 2.0 Consensus size: 55
25098361 AAGGTCTTGA
*
25098371 GTGATAGTGTGATCAAAGCTTTTGATGTCACTAGATTCC-CGATGCTAGCTTGGCG
1 GTGATAGTGTGATCAAAGCTTTTGATGTCACCAGA-TCCTCGATGCTAGCTTGGCG
*
25098426 GTGATAGTGTGATCGAAGCTTTTGATGTCACCAGATCCTCGATGCTAGCTTGGCG
1 GTGATAGTGTGATCAAAGCTTTTGATGTCACCAGATCCTCGATGCTAGCTTGGCG
25098481 G
1 G
25098482 CACTATAAGG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
54 3 0.06
55 50 0.94
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.32
Consensus pattern (55 bp):
GTGATAGTGTGATCAAAGCTTTTGATGTCACCAGATCCTCGATGCTAGCTTGGCG
Found at i:25108889 original size:30 final size:30
Alignment explanation
Indices: 25108855--25108915 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
25108845 TCCTTAACTC
25108855 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
25108885 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
25108915 A
1 A
25108916 GGCTCGGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:25113324 original size:30 final size:30
Alignment explanation
Indices: 25113290--25113350 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
25113280 TCCTTAACTC
25113290 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
25113320 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
25113350 A
1 A
25113351 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:25122021 original size:40 final size:43
Alignment explanation
Indices: 25121977--25122072 Score: 126
Period size: 40 Copynumber: 2.3 Consensus size: 43
25121967 GTTATAAATA
*
25121977 GCACTAAGTGTGCGAAATGGA-ATAGCTTCAGCTATAT-GA-G
1 GCACTAAGTGTGCGAAATCGAGATAGCTTCAGCTATATAGATG
* * *
25122017 GCACTAAGTGTGCGATATCGAGATAGCTTCAGTTATTTGAGATG
1 GCACTAAGTGTGCGAAATCGAGATAGCTTCAGCTATAT-AGATG
25122061 GCACTAAGTGTG
1 GCACTAAGTGTG
25122073 TGGAATCGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 19 0.40
41 14 0.29
43 2 0.04
44 13 0.27
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (43 bp):
GCACTAAGTGTGCGAAATCGAGATAGCTTCAGCTATATAGATG
Found at i:25133156 original size:43 final size:43
Alignment explanation
Indices: 25133095--25133178 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
25133085 TGTGATTCCA
**
25133095 ATATGTGTTTACAAGTAAGACC-CTGTCTGGGACAGTGGCATCG
1 ATATGTGGCTACAAGTAAGACCAC-GTCTGGGACAGTGGCATCG
* *
25133138 ATATGTGGCTACATGTAAGACCACGTCTGGGACATTGGCAT
1 ATATGTGGCTACAAGTAAGACCACGTCTGGGACAGTGGCAT
25133179 TGTACGATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 35 0.97
44 1 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (43 bp):
ATATGTGGCTACAAGTAAGACCACGTCTGGGACAGTGGCATCG
Found at i:25147085 original size:47 final size:49
Alignment explanation
Indices: 25146965--25147142 Score: 191
Period size: 45 Copynumber: 3.8 Consensus size: 49
25146955 TGTAACCCGC
* *
25146965 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG--G---TTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGATGCCATTCACAT
*
25147010 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
* *
25147060 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
25147103 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
25147143 TCAACCATCC
Statistics
Matches: 111, Mismatches: 8, Indels: 24
0.78 0.06 0.17
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 4 0.04
45 34 0.31
46 30 0.27
47 29 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:25147130 original size:93 final size:92
Alignment explanation
Indices: 25146972--25147142 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 92
25146962 CGCCCATAAG
*
25146972 CGAACTCGGACTCAACTCAACGAGCTCAGGGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25147037 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
*
25147064 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG--ATTCGCATCCATAAGTGAACTCGGACTCAACTC
25147128 AACGAGTTCGGATGC
64 AACGAGTTCGGATGC
25147143 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
91 2 0.03
92 26 0.35
93 47 0.63
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:25154625 original size:93 final size:93
Alignment explanation
Indices: 25154512--25154683 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
25154502 CGCCCATAAG
* *
25154512 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
25154577 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
25154605 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
25154670 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
25154684 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:25154680 original size:46 final size:46
Alignment explanation
Indices: 25154505--25154680 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
25154495 TGTAACCCGC
* * *
25154505 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
25154551 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
25154601 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
25154644 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
25154681 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:25160929 original size:49 final size:49
Alignment explanation
Indices: 25160873--25161061 Score: 243
Period size: 50 Copynumber: 3.8 Consensus size: 49
25160863 TAGCTAAAGC
* **
25160873 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATTTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
25160922 TATCTGGTACACATAGTAACCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * ** *
25160972 GATCTGATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* *
25161023 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
25161062 TGCGACCTCA
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 42 0.35
50 43 0.36
51 34 0.29
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:25161069 original size:101 final size:99
Alignment explanation
Indices: 25160886--25161069 Score: 278
Period size: 101 Copynumber: 1.8 Consensus size: 99
25160876 CTGGTACGCA
** *
25160886 TAGTAGCCTGCACTTAGTACTACACATTTGACCAATTATCTGGTACACATAGTAACCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAACCTGCACTTA
*
25160951 GTACTACACACGTGACCTAACGATCTGATACATG
66 GTACTACACACGCGACCTAACGATCTGATACATG
* * *
25160985 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAACCTGCACT
*
25161050 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
25161070 CACAATAGAT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
99 29 0.39
100 3 0.04
101 43 0.57
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAACCTGCACTTA
GTACTACACACGCGACCTAACGATCTGATACATG
Found at i:25169918 original size:16 final size:16
Alignment explanation
Indices: 25169897--25169927 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25169887 GTAAAAAAAA
*
25169897 ACATGAATATAAATAG
1 ACATGAAAATAAATAG
25169913 ACATGAAAATAAATA
1 ACATGAAAATAAATA
25169928 AAGATAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.06, G:0.10, T:0.23
Consensus pattern (16 bp):
ACATGAAAATAAATAG
Found at i:25178433 original size:49 final size:50
Alignment explanation
Indices: 25178380--25178668 Score: 251
Period size: 50 Copynumber: 5.7 Consensus size: 50
25178370 AACCGAAGCT
* *
25178380 ATTTGGTACACATATTAGCCTGCACTTAGTACTACACATGTGACC-AACA
1 ATTTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACA
** *
25178429 ATTTGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
1 ATTTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACA
* * * * *
25178479 ATTTGATACACGTAGTAGCCTGCACTCAGTACTACACACGTGA-TTGAA-G
1 ATTTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AACA
* * * * * * *
25178528 TTGTCTGGTACGCATAGTAGCCTGCACTCAATACTACACATGCGACCTAACT
1 AT-T-TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACA
* * * * * *
25178580 ATCTAGTACACATAGTATCCTGCACTTTGTACTACACACATGACCTAAAACC
1 ATTTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACA
*** ** *
25178632 ATTTTAAACACATAGTATTCTGCACATAGTACTACAC
1 ATTTGGTACACATAGTAGCCTGCACTTAGTACTACAC
25178669 TTGTGTTCTT
Statistics
Matches: 194, Mismatches: 38, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
49 43 0.22
50 80 0.41
51 36 0.19
52 35 0.18
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (50 bp):
ATTTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACA
Found at i:25178625 original size:151 final size:151
Alignment explanation
Indices: 25178383--25178668 Score: 369
Period size: 151 Copynumber: 1.9 Consensus size: 151
25178373 CGAAGCTATT
* * * * * * **
25178383 TGGTACACATATTAGCCTGCACTTAGTACTACACATGTGACCAACAATTTGGTACATGTAGTAGC
1 TGGTACACATAGTAGCCTGCACTCAATACTACACATGCGACCAACAATCTAGTACACATAGTAGC
* * *
25178448 CTGCACTTAGTACTACACACGTGACCT-AACCATTTGATACACGTAGTAGCCTGCAC-TCAGTAC
66 CTGCACTTAGTACTACACACATGACCTAAACCATTTGAAACACATAGTAGCCTGCACAT-AGTAC
25178511 TACACACGTGATTGAAGTTGTC
130 TACACACGTGATTGAAGTTGTC
* * *
25178533 TGGTACGCATAGTAGCCTGCACTCAATACTACACATGCGACCTAACTATCTAGTACACATAGTAT
1 TGGTACACATAGTAGCCTGCACTCAATACTACACATGCGACC-AACAATCTAGTACACATAGTAG
* * **
25178598 CCTGCACTTTGTACTACACACATGACCTAAAACCATTTTAAACACATAGTATTCTGCACATAGTA
65 CCTGCACTTAGTACTACACACATGACCT-AAACCATTTGAAACACATAGTAGCCTGCACATAGTA
25178663 CTACAC
129 CTACAC
25178669 TTGTGTTCTT
Statistics
Matches: 114, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
150 37 0.32
151 42 0.37
153 34 0.30
154 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (151 bp):
TGGTACACATAGTAGCCTGCACTCAATACTACACATGCGACCAACAATCTAGTACACATAGTAGC
CTGCACTTAGTACTACACACATGACCTAAACCATTTGAAACACATAGTAGCCTGCACATAGTACT
ACACACGTGATTGAAGTTGTC
Found at i:25188391 original size:57 final size:57
Alignment explanation
Indices: 25188283--25188393 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 57
25188273 TTTACTCAAT
* * * *
25188283 AGAGCTTAGTCAGGATTACCAGTCCAGACTAAATTCTTTATGTAACGTATGCTCAGA
1 AGAGCTTAATCAGGATTACCAGTCCAGACTAAATCCTATATGTAACATATGCTCAGA
* * * *
25188340 AGAGCTTAATTAGGATTACCAGTCTAGGCTAAATCCTA-ATTGTATCATATGCTC
1 AGAGCTTAATCAGGATTACCAGTCCAGACTAAATCCTATA-TGTAACATATGCTC
25188394 GAGAGGAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
56 1 0.02
57 44 0.98
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (57 bp):
AGAGCTTAATCAGGATTACCAGTCCAGACTAAATCCTATATGTAACATATGCTCAGA
Found at i:25188829 original size:20 final size:20
Alignment explanation
Indices: 25188804--25188850 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
25188794 TCTATCCCCT
*
25188804 AATTTGGTCTATCTAG-ATCC
1 AATTTGGTCGAT-TAGAATCC
*
25188824 AATTTGGTCGATTCGAATCC
1 AATTTGGTCGATTAGAATCC
25188844 AATTTGG
1 AATTTGG
25188851 CCAAGAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (20 bp):
AATTTGGTCGATTAGAATCC
Found at i:25190681 original size:21 final size:21
Alignment explanation
Indices: 25190655--25190695 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
25190645 CAACTTAACC
25190655 ATATTTTTACCTATTTTGATA
1 ATATTTTTACCTATTTTGATA
25190676 ATATTTTTACCTATTTTGAT
1 ATATTTTTACCTATTTTGAT
25190696 CCCTATAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.10, G:0.05, T:0.59
Consensus pattern (21 bp):
ATATTTTTACCTATTTTGATA
Found at i:25197048 original size:48 final size:48
Alignment explanation
Indices: 25196977--25197120 Score: 180
Period size: 48 Copynumber: 3.0 Consensus size: 48
25196967 TGGTATGATA
* * * *
25196977 CCAATGCCATATCTCGGATATGGTCTTACATGGGATCACATATCGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATG
* ** ** *
25197025 CCAATGCCATGTCCTAGACATGGTCTTACATGGGATCGTAGGTTGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATG
* *
25197073 CCAATGCCATGTCCCAGATATGGTCTTACATAGGATCACATATCGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATG
25197121 TCGATAGCCA
Statistics
Matches: 78, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.28
Consensus pattern (48 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATG
Found at i:25199331 original size:32 final size:33
Alignment explanation
Indices: 25199266--25199334 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
25199256 TTTTTCCTAG
*
25199266 TTTTATTTAATTAATTTTCTTTTGATTTCTTTC
1 TTTTATTGAATTAATTTTCTTTTGATTTCTTTC
*
25199299 TTTTATTGATTTAATTTAT-TTTT-ATTTCTTTC
1 TTTTATTGAATTAATTT-TCTTTTGATTTCTTTC
25199331 TTTT
1 TTTT
25199335 GTTGCAGGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 13 0.39
33 19 0.58
34 1 0.03
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (33 bp):
TTTTATTGAATTAATTTTCTTTTGATTTCTTTC
Found at i:25201296 original size:12 final size:12
Alignment explanation
Indices: 25201279--25201309 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
25201269 GAACATTAGA
*
25201279 TCATTTTGTCAT
1 TCATTTTGTCAC
25201291 TCATTTTGTCAC
1 TCATTTTGTCAC
25201303 TCATTTT
1 TCATTTT
25201310 TCCATGACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.19, G:0.06, T:0.58
Consensus pattern (12 bp):
TCATTTTGTCAC
Found at i:25208473 original size:20 final size:20
Alignment explanation
Indices: 25208448--25208492 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
25208438 GATATGACAT
*
25208448 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
25208468 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
25208488 ACATG
1 ACATG
25208493 CTGTATTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:25208625 original size:24 final size:24
Alignment explanation
Indices: 25208544--25208686 Score: 220
Period size: 23 Copynumber: 6.0 Consensus size: 24
25208534 GAGGAAGTGC
25208544 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
25208568 -AAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATT
25208591 ATAAAGGGCTTATGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATT
25208616 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
25208640 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
25208663 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
25208687 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
23 41 0.37
24 39 0.35
25 31 0.28
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:25208661 original size:72 final size:72
Alignment explanation
Indices: 25208544--25208686 Score: 220
Period size: 72 Copynumber: 2.0 Consensus size: 72
25208534 GAGGAAGTGC
*
25208544 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGATAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGA-AAAGAGGC-TAGGCCT
25208607 CCAGTTATT
64 CCAGTTATT
*
25208616 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATGAAAAGAGGCTAGGCCTC
25208680 CAGTTAT
65 CAGTTAT
25208687 ATGATAAAGC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
71 9 0.14
72 48 0.73
73 9 0.14
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGAAAAGAGGCTAGGCCTCC
AGTTATT
Found at i:25208683 original size:48 final size:48
Alignment explanation
Indices: 25208544--25208686 Score: 220
Period size: 48 Copynumber: 3.0 Consensus size: 48
25208534 GAGGAAGTGC
25208544 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATG
*
25208591 ATAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATG
*
25208640 AAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTATGCC-CCAGTTAT
25208687 ATGATAAAGC
Statistics
Matches: 90, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
47 24 0.27
48 43 0.48
49 23 0.26
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATG
Found at i:25208916 original size:31 final size:31
Alignment explanation
Indices: 25208881--25208944 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
25208871 CGTTTACAGT
25208881 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
25208912 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
25208943 AA
1 AA
25208945 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:25215422 original size:22 final size:21
Alignment explanation
Indices: 25215392--25215436 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
25215382 CTTCCTTCTC
*
25215392 TTTCTTTCAAACAGCCCATTAT
1 TTTCCTTCAAACA-CCCATTAT
**
25215414 TTTCCTTCATTCACCCATTAT
1 TTTCCTTCAAACACCCATTAT
25215435 TT
1 TT
25215437 CTTTCCTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.22, C:0.29, G:0.02, T:0.47
Consensus pattern (21 bp):
TTTCCTTCAAACACCCATTAT
Found at i:25216564 original size:20 final size:20
Alignment explanation
Indices: 25216529--25216601 Score: 61
Period size: 20 Copynumber: 4.0 Consensus size: 20
25216519 TGATACGTGG
25216529 GATATGATAT--ACATGATT
1 GATATGATATGCACATGATT
25216547 GATATGATATGCACATGA--
1 GATATGATATGCACATGATT
* *
25216565 CATGT-A-ATGCACATGATAT
1 GATATGATATGCACATGAT-T
*
25216584 G-TATGAAATGCACATGAT
1 GATATGATATGCACATGAT
25216602 GTATTCATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
16 10 0.23
17 1 0.02
18 15 0.34
19 1 0.02
20 17 0.39
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (20 bp):
GATATGATATGCACATGATT
Found at i:25216576 original size:16 final size:16
Alignment explanation
Indices: 25216555--25216586 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25216545 TTGATATGAT
25216555 ATGCACATGACATGTA
1 ATGCACATGACATGTA
*
25216571 ATGCACATGATATGTA
1 ATGCACATGACATGTA
25216587 TGAAATGCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (16 bp):
ATGCACATGACATGTA
Found at i:25216723 original size:48 final size:47
Alignment explanation
Indices: 25216651--25216774 Score: 178
Period size: 48 Copynumber: 2.6 Consensus size: 47
25216641 GAGGAAGTGC
* *
25216651 AAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATGCCCCAGTTATG
* * *
25216698 ATAAAGGGCTTATGCCCCAGTTATTAAAAAGGTTTATGCCCCAGTTTTT
1 A-AAAGGGCTTATGCCCCAGTTATT-AAAAGGCTTATGCCCCAGTTATG
25216747 AAAAGGGCTT-TGCCCCAGTTATTAAAAG
1 AAAAGGGCTTATGCCCCAGTTATTAAAAG
25216775 AGGCTAGGCC
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
46 5 0.07
47 14 0.20
48 31 0.44
49 20 0.29
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATGCCCCAGTTATG
Found at i:25216773 original size:23 final size:24
Alignment explanation
Indices: 25216651--25216793 Score: 184
Period size: 23 Copynumber: 6.0 Consensus size: 24
25216641 GAGGAAGTGC
*
25216651 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
25216675 -AAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATT
25216698 ATAAAGGGCTTATGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATT
* * *
25216723 AAAAAGGTTTATGCCCCAGTTTTT
1 AAAAGGGCTTATGCCCCAGTTATT
25216747 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
25216770 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
25216794 ATGATAAAGT
Statistics
Matches: 104, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
23 39 0.38
24 34 0.33
25 31 0.30
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:25216790 original size:48 final size:48
Alignment explanation
Indices: 25216651--25216793 Score: 177
Period size: 48 Copynumber: 3.0 Consensus size: 48
25216641 GAGGAAGTGC
*
25216651 AAAAGGGCTTATGCCCTAGTTATT-AAAG-GGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TATGCCCCAGTTATG
* * *
25216698 ATAAAGGGCTTATGCCCCAGTTATTAAAA-AGGTTTATGCCCCAGTTTTT
1 A-AAAGGGCTTATGCCCCAGTTATTAAAAGAGG-CTATGCCCCAGTTATG
*
25216747 AAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTATGCC-CCAGTTAT
25216794 ATGATAAAGT
Statistics
Matches: 83, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
47 23 0.28
48 41 0.49
49 19 0.23
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTATGCCCCAGTTATG
Found at i:25216790 original size:72 final size:72
Alignment explanation
Indices: 25216659--25216793 Score: 186
Period size: 72 Copynumber: 1.9 Consensus size: 72
25216649 GCAAAAGGGC
* *
25216659 TTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTATTA
1 TTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCCCAGTTATTA
25216724 AAAAGGT
66 AAAAGGT
* *
25216731 TTATGCCCCAGTTTTTAAAAGGGCTT-TGCCCCAGTTATTA-AAAGAGGC-TAGGCCTCCAGTTA
1 TTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATGATAAAG-GGCTTAGGCC-CCAGTTA
25216793 T
63 T
25216794 ATGATAAAGT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
71 9 0.16
72 38 0.68
73 9 0.16
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (72 bp):
TTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCCCAGTTATTA
AAAAGGT
Found at i:25233316 original size:21 final size:21
Alignment explanation
Indices: 25233292--25233367 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
25233282 CATCATGAAC
25233292 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* * **
25233313 TCAGATGTCACATATATC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
*
25233337 TCAGACCACAACTCAATGCGT
1 TCAGACCACAACTCAATGAGT
*
25233358 TCAGATCACA
1 TCAGACCACA
25233368 TAGTTCCTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
20 2 0.05
21 18 0.45
22 4 0.10
23 4 0.10
24 10 0.25
25 2 0.05
ACGTcount: A:0.37, C:0.28, G:0.13, T:0.22
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:25250764 original size:26 final size:26
Alignment explanation
Indices: 25250741--25250803 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
25250731 CACCAATATC
*
25250741 GCAGCAAAGCTGCCAGTAATAATAAT
1 GCAGCAAAGCTGCCAGAAATAATAAT
**
25250767 GCAGCGTAGCTGCCAGAAATAATGAAT
1 GCAGCAAAGCTGCCAGAAATAAT-AAT
**
25250794 GTGGCAAAGC
1 GCAGCAAAGC
25250804 CACCAGTATC
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 20 0.69
27 9 0.31
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGAAATAATAAT
Found at i:25250864 original size:14 final size:14
Alignment explanation
Indices: 25250845--25250900 Score: 78
Period size: 14 Copynumber: 3.9 Consensus size: 14
25250835 AGTTCAATGA
25250845 ATGTAAAATCATAT
1 ATGTAAAATCATAT
25250859 ATGTAAAATCATACT
1 ATGTAAAATCATA-T
*
25250874 CA-GTACAATCATAT
1 -ATGTAAAATCATAT
25250888 ATGTAAAATCATA
1 ATGTAAAATCATA
25250901 AGCACATCAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
13 1 0.03
14 24 0.65
15 11 0.30
16 1 0.03
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.32
Consensus pattern (14 bp):
ATGTAAAATCATAT
Found at i:25250966 original size:27 final size:27
Alignment explanation
Indices: 25250936--25250995 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
25250926 GGGCATACTC
*
25250936 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
25250963 GTCATTTTACCTTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
25250990 GTCATT
1 GTCATT
25250996 GGGGGAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:25256461 original size:22 final size:22
Alignment explanation
Indices: 25256436--25256487 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
25256426 TATAGGGCTC
* *
25256436 ACACGCCTATTTGGTACAAGGG
1 ACACGCCCATGTGGTACAAGGG
* * *
25256458 ACACACCCGTGTGGTCCAAGGG
1 ACACGCCCATGTGGTACAAGGG
25256480 ACACGCCC
1 ACACGCCC
25256488 GTGCTACAGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.25, C:0.33, G:0.27, T:0.15
Consensus pattern (22 bp):
ACACGCCCATGTGGTACAAGGG
Found at i:25256488 original size:22 final size:22
Alignment explanation
Indices: 25256447--25256490 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
25256437 CACGCCTATT
25256447 TGGTACAAGGGACACACCCGTG
1 TGGTACAAGGGACACACCCGTG
* *
25256469 TGGTCCAAGGGACACGCCCGTG
1 TGGTACAAGGGACACACCCGTG
25256491 CTACAGGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.30, G:0.34, T:0.14
Consensus pattern (22 bp):
TGGTACAAGGGACACACCCGTG
Found at i:25262328 original size:42 final size:42
Alignment explanation
Indices: 25262282--25262439 Score: 183
Period size: 42 Copynumber: 3.7 Consensus size: 42
25262272 GACTATGTGC
* * * *
25262282 AAGACCATATCTGGGATATGGCATCT-ATATAAGACTGCGTGT
1 AAGACCATATCTGAGATATGGCAT-TGATATGAGATTACGTGT
* * *
25262324 AAGACCATATCTGGGATATGGCTTTGATATGAGATTTCGTGT
1 AAGACCATATCTGAGATATGGCATTGATATGAGATTACGTGT
* * * *
25262366 AAGACCATAGCTGAGTTATTGGCATTGATACGAGATTACATGT
1 AAGACCATATCTGAGATA-TGGCATTGATATGAGATTACGTGT
*
25262409 AAGACCATATCTGAGATATGGCATTGGTATG
1 AAGACCATATCTGAGATATGGCATTGATATG
25262440 GTACCAAGTG
Statistics
Matches: 99, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
41 1 0.01
42 62 0.63
43 36 0.36
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (42 bp):
AAGACCATATCTGAGATATGGCATTGATATGAGATTACGTGT
Found at i:25265681 original size:25 final size:25
Alignment explanation
Indices: 25265653--25265727 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
25265643 GTCTTACATA
25265653 TTTCGTATCATGTTGCCATGATATC
1 TTTCGTATCATGTTGCCATGATATC
* * * *
25265678 TTTC-AACCATGGTT--C-T-ACATA
1 TTTCGTATCAT-GTTGCCATGATATC
*
25265699 TTTCGTATCATGTTGCCATGGTATC
1 TTTCGTATCATGTTGCCATGATATC
25265724 TTTC
1 TTTC
25265728 AACCATGGTC
Statistics
Matches: 35, Mismatches: 9, Indels: 12
0.62 0.16 0.21
Matches are distributed among these distances:
21 10 0.29
22 5 0.14
23 2 0.06
24 5 0.14
25 13 0.37
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.44
Consensus pattern (25 bp):
TTTCGTATCATGTTGCCATGATATC
Found at i:25265748 original size:46 final size:46
Alignment explanation
Indices: 25265425--25265748 Score: 382
Period size: 46 Copynumber: 6.9 Consensus size: 46
25265415 TTATCTTCGA
* * * * * *
25265425 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-AAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCGTAT
* * * ** ***
25265471 CATGTTGTCATGGTATCTTTTAACCATAGTCTTATTCATTTCCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT-CGTAT
*
25265518 CATGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATTGTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-----GTAT
25265569 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCGTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCGTAT
* * *
25265615 CATCTTGTCATGGTATCTTTCAACCATGGTCTTACATATTTCGTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCGTAT
* *
25265661 CATGTTGCCATGATATCTTTCAACCATGGT-TCTACATATTTCGTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCT-TACACATTTCGTAT
25265707 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
25265749 ATTTCAGAAA
Statistics
Matches: 243, Mismatches: 26, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
45 4 0.02
46 158 0.65
47 39 0.16
51 42 0.17
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCGTAT
Found at i:25267870 original size:8 final size:8
Alignment explanation
Indices: 25267857--25267891 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
25267847 TATACTAAAT
25267857 AAATAATA
1 AAATAATA
25267865 AAATAAT-
1 AAATAATA
25267872 AAA-AATA
1 AAATAATA
25267879 AAATAATA
1 AAATAATA
25267887 AAATA
1 AAATA
25267892 TCTCATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 3 0.12
7 6 0.24
8 16 0.64
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAATAATA
Found at i:25267880 original size:14 final size:14
Alignment explanation
Indices: 25267854--25267889 Score: 63
Period size: 14 Copynumber: 2.5 Consensus size: 14
25267844 TTTTATACTA
25267854 AATAAATAATAAAAT
1 AATAAA-AATAAAAT
25267869 AATAAAAATAAAAT
1 AATAAAAATAAAAT
25267883 AATAAAA
1 AATAAAA
25267890 TATCTCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAAAAATAAAAT
Found at i:25270827 original size:46 final size:47
Alignment explanation
Indices: 25270758--25271177 Score: 474
Period size: 46 Copynumber: 8.9 Consensus size: 47
25270748 TTATATTCAA
* * * * * *
25270758 CATGATGCCATAGTAACTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
* * * ** * **
25270804 CATGTTTCTATGGTATCTTTCAACCATGGTCATATTCATTTCCCCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
*
25270851 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCGTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TT--T-TCATAT
* ** *
25270902 CATGTTACCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
*
25270948 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATTGTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC--A---TAT
*
25270999 CATGTTGCCATGGTATCTTTCAACCATGTTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
*
25271045 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCGTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
* *
25271091 CATGTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTT-GTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
* **
25271137 CATGTTGCCATGGTATCTGTCAACCATTATCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
25271178 CATTTCAGAA
Statistics
Matches: 325, Mismatches: 38, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
46 201 0.62
47 38 0.12
48 3 0.01
49 2 0.01
50 1 0.00
51 80 0.25
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
Found at i:25270989 original size:97 final size:96
Alignment explanation
Indices: 25270758--25271181 Score: 540
Period size: 97 Copynumber: 4.5 Consensus size: 96
25270748 TTATATTCAA
* * * * * * *
25270758 CATGATGCCATAGTAACTTTCAACTATGGTCTTACTCA-TT--TTC-TGTCATGTTTCTATGGTA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTCGTATCATGTTTCCATGGTA
* ** **
25270819 TCTTTCAACCATGGTCATATTCATTTCCCCAT
66 TCTTTCAACCATGGTCTTACACATTT-CATAT
*
25270851 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCGTATCATGTTACCATGGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-TCGTATCATGTTTCCATGGT
** *
25270916 ATCTTTCAACCATGGTCTTATTCATTTCATGT
65 ATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
25270948 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTGTATCATGTTGCCATGGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-TCGTATCATGTTTCCATGGT
*
25271013 ATCTTTCAACCATGTTCTTACACATTTCATAT
65 ATCTTTCAACCATGGTCTTACACATTTCATAT
25271045 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA--T--TTCGTATCATGTTTCCATGGTA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTCGTATCATGTTTCCATGGTA
**
25271106 TCTTTCAACCATGGTCTTACACATTTTGTAT
66 TCTTTCAACCATGGTCTTACACATTTCATAT
* **
25271137 CATGTTGCCATGGTATCTGTCAACCATTATCTTACACATTTCATT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATT
25271182 TCAGAAAGCA
Statistics
Matches: 294, Mismatches: 28, Indels: 15
0.87 0.08 0.04
Matches are distributed among these distances:
92 82 0.28
93 34 0.12
94 3 0.01
95 1 0.00
96 3 0.01
97 131 0.45
98 40 0.14
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (96 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTCGTATCATGTTTCCATGGTA
TCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:25271026 original size:24 final size:24
Alignment explanation
Indices: 25270999--25271072 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
25270989 CATATTGTAT
25270999 CATGTTGCCATGGTATCTTTCAAC
1 CATGTTGCCATGGTATCTTTCAAC
* *
25271023 CATGTT--C-T--TACACATTTCATAT
1 CATGTTGCCATGGTA-TC-TTTCA-AC
25271045 CATGTTGCCATGGTATCTTTCAAC
1 CATGTTGCCATGGTATCTTTCAAC
25271069 CATG
1 CATG
25271073 GTCTTACACA
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
19 2 0.05
20 1 0.03
21 6 0.16
22 8 0.21
24 12 0.32
25 6 0.16
26 1 0.03
27 2 0.05
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (24 bp):
CATGTTGCCATGGTATCTTTCAAC
Found at i:25273297 original size:11 final size:11
Alignment explanation
Indices: 25273278--25273309 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
25273268 CTTTTATACT
25273278 AAATAAATAATA
1 AAAT-AATAATA
25273290 AAATAATAATA
1 AAATAATAATA
25273301 AAATAATAA
1 AAATAATAA
25273310 AATATCTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAATAATAATA
Found at i:25277209 original size:79 final size:81
Alignment explanation
Indices: 25277100--25277282 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
25277090 TACTCGTTCA
* * *
25277100 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGGAAAAATGCCTTCGAGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCAAAAATGCCTTCG-GATCTTAACCCGG
* *
25277163 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* * **
25277180 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCAAAAATGCCTTCGGATCTTAACCCGGA
* *
25277243 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
25277259 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
25277283 CATCATTCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 2 0.02
79 57 0.66
80 28 0.32
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCAAAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:25277282 original size:40 final size:40
Alignment explanation
Indices: 25277079--25277282 Score: 202
Period size: 40 Copynumber: 5.1 Consensus size: 40
25277069 CGGAATTTAA
** *
25277079 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * * *
25277119 CCGGTTATAGTAACTCGGAAAAATGCCTTCGAGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25277159 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25277198 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
25277238 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
25277278 CCGGA
1 CCGGA
25277283 CATCATTCGA
Statistics
Matches: 134, Mismatches: 23, Indels: 14
0.78 0.13 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.24
40 88 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:25279479 original size:11 final size:11
Alignment explanation
Indices: 25279463--25279488 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
25279453 AATATCTAGA
25279463 TTTCTCTTCAT
1 TTTCTCTTCAT
25279474 TTTCTCTTCAT
1 TTTCTCTTCAT
25279485 TTTC
1 TTTC
25279489 ATCAGCTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.27, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTCTCTTCAT
Found at i:25281458 original size:10 final size:10
Alignment explanation
Indices: 25281443--25281470 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
25281433 ATAGTACATG
25281443 TTTACTTTGT
1 TTTACTTTGT
25281453 TTTACTTTGT
1 TTTACTTTGT
25281463 TTTACTTT
1 TTTACTTT
25281471 TTCCCCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.71
Consensus pattern (10 bp):
TTTACTTTGT
Found at i:25283221 original size:10 final size:10
Alignment explanation
Indices: 25283191--25283228 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
25283181 TATTGAATAG
25283191 TAAAATTTAA
1 TAAAATTTAA
*
25283201 TTAAAAATTAA
1 -TAAAATTTAA
25283212 TAAAATTTAA
1 TAAAATTTAA
25283222 TAAAATT
1 TAAAATT
25283229 CAAAATTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
TAAAATTTAA
Found at i:25297015 original size:14 final size:14
Alignment explanation
Indices: 25296996--25297032 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
25296986 AAATAGGTAA
25296996 ATGAGATATATTTT
1 ATGAGATATATTTT
25297010 ATGAGATATATTTT
1 ATGAGATATATTTT
*
25297024 CTGAGATAT
1 ATGAGATAT
25297033 TTAAATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (14 bp):
ATGAGATATATTTT
Found at i:25309386 original size:40 final size:40
Alignment explanation
Indices: 25309331--25309547 Score: 314
Period size: 40 Copynumber: 5.5 Consensus size: 40
25309321 GGATGATAAT
** * *
25309331 CGGGCTAAGTCCCGAAGGCATTTACGCTAGTGACTAGT-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATC
25309371 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
25309411 CGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
25309451 CAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
25309491 CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
* *
25309531 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
25309548 TACTTGGCTT
Statistics
Matches: 164, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 17 0.10
40 147 0.90
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:25321685 original size:15 final size:15
Alignment explanation
Indices: 25321661--25321697 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
25321651 TTTTTATAAT
25321661 AATAAAATAAAAGAA
1 AATAAAATAAAAGAA
*
25321676 AATAACATAAAAG-A
1 AATAAAATAAAAGAA
25321690 AATAAAAT
1 AATAAAAT
25321698 TTCAAGAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (15 bp):
AATAAAATAAAAGAA
Found at i:25326669 original size:13 final size:13
Alignment explanation
Indices: 25326651--25326677 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25326641 ATAATGAATT
25326651 TAACTTGTTAATA
1 TAACTTGTTAATA
25326664 TAACTTGTTAATA
1 TAACTTGTTAATA
25326677 T
1 T
25326678 GAATAGCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TAACTTGTTAATA
Found at i:25336055 original size:27 final size:27
Alignment explanation
Indices: 25336018--25336222 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
25336008 TAAATTGTAC
25336018 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
25336045 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
25336072 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25336098 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
25336126 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
25336154 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25336181 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
25336208 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25336223 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:25336157 original size:109 final size:108
Alignment explanation
Indices: 25336019--25336222 Score: 320
Period size: 109 Copynumber: 1.9 Consensus size: 108
25336009 AAATTGTACA
* *
25336019 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
25336084 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
*
25336127 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
25336192 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
25336223 GACTCAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 17 0.20
109 70 0.80
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:25344156 original size:27 final size:27
Alignment explanation
Indices: 25344119--25344323 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
25344109 TAAATTGTAC
25344119 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
25344146 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
25344173 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25344199 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
25344227 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
25344255 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25344282 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
25344309 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25344324 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:25344258 original size:109 final size:108
Alignment explanation
Indices: 25344120--25344323 Score: 320
Period size: 109 Copynumber: 1.9 Consensus size: 108
25344110 AAATTGTACA
* *
25344120 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
25344185 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
*
25344228 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
25344293 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
25344324 GACTCAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 17 0.20
109 70 0.80
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:25349905 original size:7 final size:7
Alignment explanation
Indices: 25349893--25349917 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
25349883 CTATAAAATG
25349893 AAAATTA
1 AAAATTA
25349900 AAAATTA
1 AAAATTA
25349907 AAAATTA
1 AAAATTA
25349914 AAAA
1 AAAA
25349918 AATCAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATTA
Found at i:25352453 original size:3 final size:3
Alignment explanation
Indices: 25352447--25352486 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
25352437 TACTACTACT
25352447 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC -TC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
25352487 TTCATTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:25352627 original size:3 final size:3
Alignment explanation
Indices: 25352614--25352653 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
25352604 TGCCCATGAG
* *
25352614 TCT TTT TCT TCT TCT TTT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
25352654 TATAACATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TCT
Found at i:25352631 original size:12 final size:12
Alignment explanation
Indices: 25352614--25352654 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
25352604 TGCCCATGAG
25352614 TCTTTTTCTTCT
1 TCTTTTTCTTCT
25352626 TCTTTTTCTTCT
1 TCTTTTTCTTCT
*
25352638 TCTTCTTCTTCT
1 TCTTTTTCTTCT
25352650 TCTTT
1 TCTTT
25352655 ATAACATAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
TCTTTTTCTTCT
Found at i:25365236 original size:46 final size:49
Alignment explanation
Indices: 25365130--25365251 Score: 135
Period size: 50 Copynumber: 2.5 Consensus size: 49
25365120 TGTCTTCGAC
* *
25365130 ATGGACTTACATGAATT-ATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATG-GTTCATTCCTGTCTCCAAAGCCA-ATATATATCTAAT
* * *
25365180 ATGGGCTTACATGGTTCATTCCTGTCTCCAAAGTC-ATATAT-T-TGAT
1 ATGGACTTACATGGTTCATTCCTGTCTCCAAAGCCAATATATATCTAAT
* *
25365226 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGTTCATTCCTGTC
25365252 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
46 26 0.41
47 1 0.02
48 6 0.10
49 2 0.03
50 28 0.44
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (49 bp):
ATGGACTTACATGGTTCATTCCTGTCTCCAAAGCCAATATATATCTAAT
Found at i:25365557 original size:24 final size:24
Alignment explanation
Indices: 25365525--25365572 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
25365515 ATTTCGTTCT
25365525 TCTTGATCTATAATAGCAAATTTA
1 TCTTGATCTATAATAGCAAATTTA
25365549 TCTTGATCTATAATAGCAAATTTA
1 TCTTGATCTATAATAGCAAATTTA
25365573 ACTTATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (24 bp):
TCTTGATCTATAATAGCAAATTTA
Found at i:25366569 original size:39 final size:39
Alignment explanation
Indices: 25366526--25366626 Score: 159
Period size: 39 Copynumber: 2.6 Consensus size: 39
25366516 AACATGTTTT
25366526 TGAGTATAGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATAGTGATATATGCTTGAATGTTATGTGATTATA
*
25366565 TGAGTATTA-TGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTA-TAGTGATATATGCTTGAATGTTATGTGATTATA
* *
25366604 TGAGTATTGTGTTATATGCTTGA
1 TGAGTATAGTGATATATGCTTGA
25366627 TTATATATGT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
38 1 0.02
39 53 0.95
40 2 0.04
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.46
Consensus pattern (39 bp):
TGAGTATAGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:25367759 original size:18 final size:19
Alignment explanation
Indices: 25367732--25367767 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
25367722 CGACTATGTG
*
25367732 ACCCTGTTTTCA-ATTTTT
1 ACCCTATTTTCATATTTTT
25367750 ACCCTATTTTCATATTTT
1 ACCCTATTTTCATATTTT
25367768 GATTCAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.19, C:0.22, G:0.03, T:0.56
Consensus pattern (19 bp):
ACCCTATTTTCATATTTTT
Found at i:25370104 original size:43 final size:44
Alignment explanation
Indices: 25370049--25370160 Score: 126
Period size: 43 Copynumber: 2.6 Consensus size: 44
25370039 ATATCGTACA
* * *
25370049 ATGCCAAC-GTCCCAGACCTGGTCTTATATGTAA-T-CATATATCG
1 ATGCCAACTGTCCCAGACATGGTCTTAAACG-AATTACATATA-CG
*
25370092 ATGCC-ACTGTCCCAGACAGGGTCTTAAACGAATTACATATACG
1 ATGCCAACTGTCCCAGACATGGTCTTAAACGAATTACATATACG
*
25370135 ATGCCGA-TGTCCCAGACATGGTCTTA
1 ATGCCAACTGTCCCAGACATGGTCTTA
25370161 CACGCTATCA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
42 4 0.07
43 49 0.82
44 7 0.12
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (44 bp):
ATGCCAACTGTCCCAGACATGGTCTTAAACGAATTACATATACG
Found at i:25372928 original size:28 final size:27
Alignment explanation
Indices: 25372886--25372975 Score: 90
Period size: 28 Copynumber: 3.2 Consensus size: 27
25372876 GTGACAGAGT
*
25372886 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGGGC
* * **
25372915 CACTAGAATAGATATACGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGGGC
**
25372942 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGAT-ATTTGTGGCAGGGC
25372970 CACCAG
1 CACCAG
25372976 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
27 21 0.43
28 22 0.45
29 6 0.12
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGGGC
Found at i:25373128 original size:28 final size:28
Alignment explanation
Indices: 25373081--25373173 Score: 152
Period size: 28 Copynumber: 3.3 Consensus size: 28
25373071 AAATTAACCC
*
25373081 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
*
25373109 TAGGGGTATAATGGTAATTTGGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
25373137 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
25373165 TAGGGGTAT
1 TAGGGGTAT
25373174 TCTAGTACAT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 1 0.02
28 60 0.98
ACGTcount: A:0.30, C:0.08, G:0.29, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:25380251 original size:19 final size:19
Alignment explanation
Indices: 25380215--25380253 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
25380205 TTTTCATCAT
* *
25380215 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
25380234 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
25380253 A
1 A
25380254 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:25380756 original size:55 final size:56
Alignment explanation
Indices: 25380691--25380805 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
25380681 AGCATGGCTG
* * *
25380691 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
25380747 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
25380802 CCAG
1 CCAG
25380806 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:25380802 original size:28 final size:27
Alignment explanation
Indices: 25380716--25380805 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
25380706 GTGACAGAGT
*
25380716 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
25380745 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
25380772 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
25380800 CACCAG
1 CACCAG
25380806 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Done.