Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 175 of 373
Found at i:58559669 original size:17 final size:17
Alignment explanation
Indices: 58559647--58559679 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
58559637 GCTAATGAGG
*
58559647 TAAGTCTGTGTGACTAT
1 TAAGTCCGTGTGACTAT
58559664 TAAGTCCGTGTGACTA
1 TAAGTCCGTGTGACTA
58559680 AATAAACACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.36
Consensus pattern (17 bp):
TAAGTCCGTGTGACTAT
Found at i:58560135 original size:48 final size:47
Alignment explanation
Indices: 58560033--58560157 Score: 159
Period size: 47 Copynumber: 2.7 Consensus size: 47
58560023 GATATGTGTA
* *
58560033 CTAGTGTAAGACATGTCTGGGACAT-GTATCGGCCACATTATGAGAG
1 CTAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATGATGAGAG
* *
58560079 CCAGTGTAAGACCATGTCTGGGACATGGCATTGG-CA-ATGAGATGAGAG
1 CTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACAT--GATGAGAG
58560127 CTAGTGTAAGACATGTCTGGGACAT-GCATCG
1 CTAGTGTAAGACATGTCTGGGACATGGCATCG
58560158 ACCTCGAGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
46 17 0.25
47 30 0.43
48 22 0.32
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
CTAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATGATGAGAG
Found at i:58560177 original size:48 final size:47
Alignment explanation
Indices: 58560033--58560186 Score: 145
Period size: 48 Copynumber: 3.3 Consensus size: 47
58560023 GATATGTGTA
* * *
58560033 CTAGTGTAAGACATGTCTGGGACATGTATCGGCCAC-A-TTATGAGAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAT-AGAG
* * * *
58560079 CCAGTGTAAGACCATGTCTGGGACATGGCATTGGCAAT-GAGAT-GAGAG
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGATATAGAG
* *
58560127 CTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATACAAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATA-GAG
*
58560175 CTAATGTAAGAC
1 CTAGTGTAAGAC
58560187 CTGTGACATG
Statistics
Matches: 86, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
45 1 0.01
46 21 0.24
47 29 0.34
48 33 0.38
49 1 0.01
50 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (47 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAGAG
Found at i:58560272 original size:49 final size:48
Alignment explanation
Indices: 58560216--58560388 Score: 118
Period size: 49 Copynumber: 3.6 Consensus size: 48
58560206 TGATGTGTGT
*
58560216 CAGTGTAAGACATGTCTGGGACATGGCATCAACACCGATAGATGAGAGC
1 CAGTGTAAGACATGTCTGGGACATGGCATCAAC-CCGATAGATGAAAGC
* * * * * * * *
58560265 CAGTGTAAGACGTATCTGGGGCACGACAT-AGGCCTCGATATATGAAAGT
1 CAGTGTAAGACATGTCTGGGACATGGCATCA-ACC-CGATAGATGAAAGC
* * * * * ** **
58560314 CATTGTAAGACCTGTCTAGGACATGGTATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACATGTCTGGGACATGGCATCAAC-CCGATAGATGAAAGC
58560361 CAGTGTAAGACCATGTCTGGGACATGGC
1 CAGTGTAAGA-CATGTCTGGGACATGGC
58560389 GTCGGTATCT
Statistics
Matches: 90, Mismatches: 29, Indels: 11
0.69 0.22 0.08
Matches are distributed among these distances:
47 13 0.14
48 16 0.18
49 61 0.68
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (48 bp):
CAGTGTAAGACATGTCTGGGACATGGCATCAACCCGATAGATGAAAGC
Found at i:58571447 original size:14 final size:15
Alignment explanation
Indices: 58571415--58571461 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
58571405 TCAAACAGTA
*
58571415 AAATTAATACATGAA-
1 AAATTAACACAT-AAT
58571430 AAATTAACACAT-AT
1 AAATTAACACATAAT
*
58571444 AAATTCACACATAAT
1 AAATTAACACATAAT
58571459 AAA
1 AAA
58571462 CACAAAAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 11 0.39
15 16 0.57
ACGTcount: A:0.60, C:0.13, G:0.02, T:0.26
Consensus pattern (15 bp):
AAATTAACACATAAT
Found at i:58584100 original size:28 final size:28
Alignment explanation
Indices: 58584060--58584138 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
58584050 GCAATCAAAT
* *
58584060 ATGGCACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
58584088 ATGGCACTTAGTGTGTGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
58584116 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
58584139 CGAATGATTC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:58584579 original size:21 final size:22
Alignment explanation
Indices: 58584546--58584588 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
58584536 AAGAACGTAT
*
58584546 TATGATGTATGTGGAAATGAAA
1 TATGATGTATGTGCAAATGAAA
*
58584568 TATGAT-TATGTGCCAATGAAA
1 TATGATGTATGTGCAAATGAAA
58584589 CATAAATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.33
Consensus pattern (22 bp):
TATGATGTATGTGCAAATGAAA
Found at i:58588170 original size:13 final size:13
Alignment explanation
Indices: 58588152--58588185 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
58588142 CAAAAATATT
*
58588152 ATTTAATTAATTA
1 ATTTAATTAACTA
58588165 ATTTAATTAACTA
1 ATTTAATTAACTA
*
58588178 AATTAATT
1 ATTTAATT
58588186 TCTCAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTTAATTAACTA
Found at i:58591960 original size:46 final size:45
Alignment explanation
Indices: 58591893--58592066 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
58591883 TGTAACCCGC
*
58591893 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGTAT
* * *
58591939 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGT-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGTAT
* * * * *
58591985 ACATTTA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGTAT
*
58592031 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
58592067 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
44 1 0.01
45 4 0.04
46 94 0.89
47 5 0.05
48 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGTAT
Found at i:58592012 original size:92 final size:92
Alignment explanation
Indices: 58591901--58592070 Score: 286
Period size: 92 Copynumber: 1.8 Consensus size: 92
58591891 GCCCATAAGT
* * * *
58591901 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
*
58591966 TGAGTTCGGATGCCTAGTTACATTTAC
66 CGAGTTCGGATGCCTAGTTACATTTAC
*
58591993 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
58592058 CGAGTTCGGATGC
66 CGAGTTCGGATGC
58592071 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 72 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTAC
Found at i:58602215 original size:28 final size:26
Alignment explanation
Indices: 58602182--58602274 Score: 89
Period size: 27 Copynumber: 3.4 Consensus size: 26
58602172 TAAACATGTT
*
58602182 ATGAAAGAAATTCCTTTTGTAGTGAATC
1 ATGAAAGAAA-ACCTTTTGT-GTGAATC
*
58602210 ATGAAAGAAAAGCCTTTATG-GCGAATC
1 ATGAAAGAAAA-CCTTT-TGTGTGAATC
* *
58602237 ATGAAAGAAAAACATTTGTGGTGAATC
1 ATGAAAGAAAACCTTTTGT-GTGAATC
*
58602264 ATGCAAGAAAA
1 ATGAAAGAAAA
58602275 AAAATTGTGG
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
25 2 0.04
26 3 0.05
27 33 0.60
28 15 0.27
29 2 0.04
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (26 bp):
ATGAAAGAAAACCTTTTGTGTGAATC
Found at i:58602243 original size:27 final size:27
Alignment explanation
Indices: 58602205--58602275 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
58602195 CTTTTGTAGT
* *
58602205 GAATCATGAAAGAAAAGCCTTTATGGC
1 GAATCATGAAAGAAAAACATTTATGGC
* *
58602232 GAATCATGAAAGAAAAACATTTGTGGT
1 GAATCATGAAAGAAAAACATTTATGGC
*
58602259 GAATCATGCAAGAAAAA
1 GAATCATGAAAGAAAAA
58602276 AAATTGTGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.21
Consensus pattern (27 bp):
GAATCATGAAAGAAAAACATTTATGGC
Found at i:58602282 original size:27 final size:27
Alignment explanation
Indices: 58602198--58602287 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
58602188 GAAATTCCTT
* ****
58602198 TTGTAGTGAATCATGAAAGAAAAGCCT
1 TTGTGGTGAATCATGAAAGAAAAAAAA
* * * *
58602225 TTATGGCGAATCATGAAAGAAAAACAT
1 TTGTGGTGAATCATGAAAGAAAAAAAA
*
58602252 TTGTGGTGAATCATGCAAGAAAAAAAA
1 TTGTGGTGAATCATGAAAGAAAAAAAA
58602279 TTGTGGTGA
1 TTGTGGTGA
58602288 GCATTTGAGA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (27 bp):
TTGTGGTGAATCATGAAAGAAAAAAAA
Found at i:58632215 original size:49 final size:49
Alignment explanation
Indices: 58632154--58632329 Score: 155
Period size: 49 Copynumber: 3.6 Consensus size: 49
58632144 TGTTATGTGT
* *
58632154 CAGTATAAGACCTATCTGAGACATGGCATCGAAACCGATAAT-TGAAAGC
1 CAGTGTAAGACCTGTCTGAGACATGGCATC-AAACCGATAATATGAAAGC
* ** *
58632203 CAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGAT-ATATGAAAGT
1 CAGTGTAAGACCTGTCTGAGACATGGCATCAAAC-CGATAATATGAAAGC
* * * ** * **
58632252 CAGTGTAAGACTTGTCT-AGGACACGGTATC-AA-CTTTAATGTGCTAGC
1 CAGTGTAAGACCTGTCTGA-GACATGGCATCAAACCGATAATATGAAAGC
58632299 CAGTGTAAGACCATGTCTGAGACATGGCATC
1 CAGTGTAAGACC-TGTCTGAGACATGGCATC
58632330 GGCATTTGAT
Statistics
Matches: 100, Mismatches: 21, Indels: 13
0.75 0.16 0.10
Matches are distributed among these distances:
46 2 0.02
47 17 0.17
48 18 0.18
49 63 0.63
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGAGACATGGCATCAAACCGATAATATGAAAGC
Found at i:58633105 original size:30 final size:30
Alignment explanation
Indices: 58633064--58633132 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
58633054 CACACGAGTA
* **
58633064 GACACATGGGCGTGTGAATAGGCCATGTGT
1 GACACACGGGCGCATGAATAGGCCATGTGT
*
58633094 GACACACGGGCGCATGTATAGGCCATGTGT
1 GACACACGGGCGCATGAATAGGCCATGTGT
*
58633124 AACACACGG
1 GACACACGG
58633133 TATGCCCCAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.26, C:0.22, G:0.33, T:0.19
Consensus pattern (30 bp):
GACACACGGGCGCATGAATAGGCCATGTGT
Found at i:58636186 original size:15 final size:15
Alignment explanation
Indices: 58636166--58636197 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
58636156 AATAGTTTGT
58636166 AACACTTGGATAAGG
1 AACACTTGGATAAGG
58636181 AACACTTGGATAAGG
1 AACACTTGGATAAGG
58636196 AA
1 AA
58636198 TGACAGAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.19
Consensus pattern (15 bp):
AACACTTGGATAAGG
Found at i:58638427 original size:23 final size:23
Alignment explanation
Indices: 58638407--58638455 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
58638397 TTAAATTTTT
58638407 AATTATTTAGTGACAATATTTGG
1 AATTATTTAGTGACAATATTTGG
*
58638430 AATTATTTAGTGATAATATTTAGG
1 AATTATTTAGTGACAATATTT-GG
58638454 AA
1 AA
58638456 AAATCTAGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.43
Consensus pattern (23 bp):
AATTATTTAGTGACAATATTTGG
Found at i:58644334 original size:46 final size:46
Alignment explanation
Indices: 58644169--58644344 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
58644159 TGTAACCCGC
* * * *
58644169 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCAT
* * * *
58644215 CCATGAGTGAACTCGGACTCAACACAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
58644265 CTCA-CA---AACTTGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
58644308 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
58644345 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 8 0.08
44 1 0.01
45 2 0.02
46 57 0.54
47 26 0.25
49 1 0.01
50 6 0.06
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:58644342 original size:93 final size:93
Alignment explanation
Indices: 58644178--58644347 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
58644168 CCCATAAGCG
* *
58644178 AACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATGAGTGAACTCGGACTCAACACAAC
1 AACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACACAAC
58644243 GAGTTCGGATGCCTAGTTACATCTCACA
66 GAGTTCGGATGCCTAGTTACATCTCACA
* * * *
58644271 AACTTGGACTCAACTCAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACACAA
58644335 CGAGTTCGGATGC
65 CGAGTTCGGATGC
58644348 TCAACCATCC
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACACAAC
GAGTTCGGATGCCTAGTTACATCTCACA
Found at i:58649304 original size:23 final size:23
Alignment explanation
Indices: 58649274--58649323 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
58649264 ATTTTTAAAT
*
58649274 TTTA-AATTATATAGTGATAATA
1 TTTAGAATTATATACTGATAATA
*
58649296 TTTAGAATTATTTACTGATAATA
1 TTTAGAATTATATACTGATAATA
58649319 TTTAG
1 TTTAG
58649324 GAAAGATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (23 bp):
TTTAGAATTATATACTGATAATA
Found at i:58650647 original size:14 final size:12
Alignment explanation
Indices: 58650613--58650649 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
58650603 ATAATAATAA
58650613 GTTAGTATATAT
1 GTTAGTATATAT
58650625 GTTAGTATATAT
1 GTTAGTATATAT
58650637 GTTA-TATTATAT
1 GTTAGTA-TATAT
58650649 G
1 G
58650650 ATAACTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 2 0.08
12 22 0.92
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.51
Consensus pattern (12 bp):
GTTAGTATATAT
Found at i:58653043 original size:22 final size:22
Alignment explanation
Indices: 58653015--58653081 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
58653005 GTGTATATTT
58653015 ATTTTATGAAATTATTCAAAGA
1 ATTTTATGAAATTATTCAAAGA
58653037 ATTTTATGAAATTATTCAAAGA
1 ATTTTATGAAATTATTCAAAGA
58653059 ATTTTATGAAATTATTCAAAGA
1 ATTTTATGAAATTATTCAAAGA
58653081 A
1 A
58653082 GACTTAAGCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.40
Consensus pattern (22 bp):
ATTTTATGAAATTATTCAAAGA
Found at i:58659981 original size:22 final size:22
Alignment explanation
Indices: 58659953--58660019 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
58659943 GTGTATATTT
58659953 ATTTTATGAAATTATTCAAAGA
1 ATTTTATGAAATTATTCAAAGA
58659975 ATTTTATGAAATTATTCAAAGA
1 ATTTTATGAAATTATTCAAAGA
58659997 ATTTTATGAAATTATTCAAAGA
1 ATTTTATGAAATTATTCAAAGA
58660019 A
1 A
58660020 GACTCAAGCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.40
Consensus pattern (22 bp):
ATTTTATGAAATTATTCAAAGA
Found at i:58660200 original size:55 final size:53
Alignment explanation
Indices: 58660113--58660367 Score: 270
Period size: 55 Copynumber: 4.8 Consensus size: 53
58660103 ATTAGGGTTT
* *
58660113 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTATAAGGC
* * * *
58660168 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TATAAGGC
* * *
58660223 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTTATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGC
* * *
58660276 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTT-CAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGC
* * * *
58660325 AAGGATACCACT-TAAGACCATGGCAAGTCATGGAAATGGTAAG
1 AAGGATACCA-TGTAAGACCATGCCAAGACATGGCATTGGTAAG
58660368 GTACCCGTGT
Statistics
Matches: 173, Mismatches: 22, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
49 38 0.22
50 1 0.01
52 6 0.03
53 47 0.27
54 7 0.04
55 70 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGC
Found at i:58660300 original size:108 final size:110
Alignment explanation
Indices: 58660120--58660320 Score: 334
Period size: 108 Copynumber: 1.8 Consensus size: 110
58660110 TTTAAGGATA
* *
58660120 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTATAAGGCAAGGAAACCATGTAAGA
*
58660185 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
58660230 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-GTTTATAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTATAAGGCAAGGAAACCATGTAAGA
*
58660293 CCATGTCAAGACATGGCAATGGTAAGTT
66 CCATGTCAAGACATGGCAATGATAAGTT
58660321 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
108 51 0.60
109 7 0.08
110 27 0.32
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTATAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:58660462 original size:23 final size:24
Alignment explanation
Indices: 58660436--58660480 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
58660426 AAGGTAAGGT
*
58660436 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
58660459 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
58660481 GATGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:58660580 original size:16 final size:16
Alignment explanation
Indices: 58660559--58660589 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58660549 ATAAATTTGA
58660559 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
58660575 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
58660590 AGTGAAAAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:58661886 original size:39 final size:39
Alignment explanation
Indices: 58661837--58661916 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
58661827 CATATGTGTG
* *
58661837 ATTGTCTATAATCAGCTATATAGGAAATATATGTGTAAA
1 ATTGTCTATAATCAACTACATAGGAAATATATGTGTAAA
*
58661876 ATTGTGTATAATCAACTACATAGGAAATATATGTGTAAA
1 ATTGTCTATAATCAACTACATAGGAAATATATGTGTAAA
58661915 AT
1 AT
58661917 GTCATATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.35
Consensus pattern (39 bp):
ATTGTCTATAATCAACTACATAGGAAATATATGTGTAAA
Found at i:58671883 original size:6 final size:6
Alignment explanation
Indices: 58671872--58671900 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
58671862 TTTGACTGCC
58671872 TATTTT TATTTT TATTTT TATTTT TATTT
1 TATTTT TATTTT TATTTT TATTTT TATTT
58671901 CTAGCATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TATTTT
Found at i:58673504 original size:17 final size:17
Alignment explanation
Indices: 58673478--58673518 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
58673468 GCACAGTTAA
*
58673478 AATTAATATATGAA-TTT
1 AATTATTATAT-AAGTTT
58673495 AATTATTATATAAGTTT
1 AATTATTATATAAGTTT
58673512 AA-TATTA
1 AATTATTA
58673519 ACTGAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (17 bp):
AATTATTATATAAGTTT
Found at i:58675091 original size:26 final size:26
Alignment explanation
Indices: 58675027--58675102 Score: 66
Period size: 26 Copynumber: 3.0 Consensus size: 26
58675017 ATATATAATT
* * **
58675027 TATTTATTTTAAAAA-ACTATACATA
1 TATTTATATAAAAAATACTATTTATA
*
58675052 TA-TTATTATCAAAAATACTATTTATA
1 TATTTA-TATAAAAAATACTATTTATA
**
58675078 TATTTATATAAAAAATTTTATTTAT
1 TATTTATATAAAAAATACTATTTAT
58675103 CAAATATTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
24 3 0.07
25 9 0.22
26 26 0.63
27 3 0.07
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (26 bp):
TATTTATATAAAAAATACTATTTATA
Found at i:58675146 original size:25 final size:24
Alignment explanation
Indices: 58675118--58675174 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 24
58675108 ATTATTTTCC
58675118 TATATATATTTACATTATAT-TTTAT
1 TATATATATTT--ATTATATATTTAT
58675143 TATATAATATTTATTATATATTTAT
1 TATAT-ATATTTATTATATATTTAT
58675168 TATATAT
1 TATATAT
58675175 TACTTATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
24 9 0.30
25 15 0.50
26 6 0.20
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TATATATATTTATTATATATTTAT
Found at i:58675181 original size:11 final size:11
Alignment explanation
Indices: 58675120--58675175 Score: 60
Period size: 11 Copynumber: 4.7 Consensus size: 11
58675110 TATTTTCCTA
58675120 TATATATTTACAT
1 TATATATTT--AT
58675133 TATAT-TTTATT
1 TATATATTTA-T
58675144 ATATAATATTTAT
1 -TAT-ATATTTAT
58675157 TATATATTTAT
1 TATATATTTAT
58675168 TATATATT
1 TATATATT
58675176 ACTTATTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
10 1 0.03
11 17 0.44
12 9 0.23
13 8 0.21
14 4 0.10
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
TATATATTTAT
Found at i:58676657 original size:22 final size:22
Alignment explanation
Indices: 58676629--58676672 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
58676619 ACAATAAGAG
58676629 AGTCAGGCCGTGTAATTGATTA
1 AGTCAGGCCGTGTAATTGATTA
58676651 AGTCAGGCCGTGTAATTGATTA
1 AGTCAGGCCGTGTAATTGATTA
58676673 TCTCTTGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (22 bp):
AGTCAGGCCGTGTAATTGATTA
Found at i:58687635 original size:205 final size:205
Alignment explanation
Indices: 58687178--58687757 Score: 946
Period size: 205 Copynumber: 2.8 Consensus size: 205
58687168 TAGGCCACGG
* * * *
58687178 CATAGCAGATCTGGACTTCAGATGTTTATACTAAAGCCGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCT-AACTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
58687243 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTATGTTGAAGCAAATCT
65 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTATGTTGAAGCAAATCT
*
58687308 AAGATGGTTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACG
130 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACG
* *
58687373 GAGGGTAGACA
195 AAGGGCAGACA
* *
58687384 CATAGCAGATCCAACCTTCAGATGTTTATACTGAAGCAAATCCAAGATGGTTTGGTATCCTTGTG
1 CATAGCAGATCTAA-CTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
*
58687449 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCT
65 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTATGTTGAAGCAAATCT
58687514 AAGATGATTT-GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACG
130 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACG
58687578 AAGGGCAGACA
195 AAGGGCAGACA
* * *
58687589 CATAGCAGATCTAACTTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTATG
1 CATAGCAGATCTAAC-TTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
* * ** *
58687654 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTAGTTTTCGTGTGCTTATGCTGAAGCAAATCT
65 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTATGTTGAAGCAAATCT
* *
58687719 AAGATGATTTGGTATCTGTGTATTGTCAGAGAACAAATC
130 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
58687758 AAAGAAGCAG
Statistics
Matches: 348, Mismatches: 23, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
204 1 0.00
205 191 0.55
206 156 0.45
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (205 bp):
CATAGCAGATCTAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGC
TTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTATGTTGAAGCAAATCTA
AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGA
AGGGCAGACA
Found at i:58689456 original size:25 final size:24
Alignment explanation
Indices: 58689428--58689505 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 24
58689418 ATTATTTTCC
58689428 TATATATATTTACATTATA-TTTTAT
1 TATATATATTT--ATTATATTTTTAT
*
58689453 TATATAACATTTATTATATTTTTAT
1 TATAT-ATATTTATTATATTTTTAT
*
58689478 TATATATTACTTATT-T-TTTTTAT
1 TATATA-TATTTATTATATTTTTAT
58689501 TATAT
1 TATAT
58689506 GTTATGTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
23 12 0.26
24 8 0.17
25 22 0.47
26 5 0.11
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (24 bp):
TATATATATTTATTATATTTTTAT
Found at i:58689491 original size:14 final size:13
Alignment explanation
Indices: 58689443--58689566 Score: 50
Period size: 14 Copynumber: 9.5 Consensus size: 13
58689433 ATATTTACAT
58689443 TATATT-TTATTA
1 TATATTATTATTA
**
58689455 TATAACATTTATTA
1 TATATTA-TTATTA
58689469 TAT-TT-TTATTA
1 TATATTATTATTA
58689480 TATATTACTTATT-
1 TATATTA-TTATTA
58689493 T-T-TT-TTATTA
1 TATATTATTATTA
* *
58689503 TATGTTATGTATAATG
1 TATATTAT-TAT--TA
58689519 TATATTATCTATTA
1 TATATTAT-TATTA
58689533 TATTATTTATGT-TT-
1 TA-TA-TTAT-TATTA
58689547 TATATTATTCATTA
1 TATATTATT-ATTA
*
58689561 TTTATT
1 TATATT
58689567 TATAATTTAA
Statistics
Matches: 85, Mismatches: 10, Indels: 32
0.67 0.08 0.25
Matches are distributed among these distances:
9 5 0.06
10 1 0.01
11 13 0.15
12 13 0.15
13 6 0.07
14 27 0.32
15 4 0.05
16 16 0.19
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (13 bp):
TATATTATTATTA
Found at i:58706597 original size:42 final size:42
Alignment explanation
Indices: 58706437--58706611 Score: 147
Period size: 42 Copynumber: 4.2 Consensus size: 42
58706427 ACACATAGAA
* * * **
58706437 TCATACCAATACCATATCCCAGATATGGTCTTACATGGGATC
1 TCATAACAATGCCATATCCCAGATATGGTCTTACACGAAATC
* *** * * * *
58706479 TCACATTGATGCCAATAGCCCAAAAATGGTCTTACACG-ATTC
1 TCATAACAATGCC-ATATCCCAGATATGGTCTTACACGAAATC
* * * *
58706521 TCATATCAATGCCATATCCCGGACATAGTCTTACACGAAATC
1 TCATAACAATGCCATATCCCAGATATGGTCTTACACGAAATC
* *
58706563 TCATAACAATGCCATATCCCAGATATGGTATTACATGTAAA-C
1 TCATAACAATGCCATATCCCAGATATGGTCTTACACG-AAATC
58706605 TCATAAC
1 TCATAAC
58706612 CCTAATGTCA
Statistics
Matches: 104, Mismatches: 26, Indels: 6
0.76 0.19 0.04
Matches are distributed among these distances:
41 19 0.18
42 62 0.60
43 23 0.22
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (42 bp):
TCATAACAATGCCATATCCCAGATATGGTCTTACACGAAATC
Found at i:58708439 original size:20 final size:18
Alignment explanation
Indices: 58708414--58708472 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 18
58708404 ATTAACATGT
58708414 TTAATCATAATTAATTAA
1 TTAATCATAATTAATTAA
*
58708432 TCTTAATCATGATTTAACTTAA
1 --TTAATCAT-AATTAA-TTAA
58708454 TTAATCTATATATTAATTA
1 TTAATC-ATA-ATTAATTA
58708473 GTCTAATGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
20 18 0.55
21 11 0.33
22 4 0.12
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATCATAATTAATTAA
Found at i:58722973 original size:55 final size:54
Alignment explanation
Indices: 58722908--58723043 Score: 236
Period size: 55 Copynumber: 2.5 Consensus size: 54
58722898 GTCGCTATAA
*
58722908 GGGATTTAGCCTGGACTAGTAATCCTGACATCACCTTATGAGTTTGTGATATGGG
1 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTTGTGATAT-GG
**
58722963 GGGATTTAGCCTGGACTGGTAATCCCAACATCACCTTATGAGTTTGTGATATGG
1 GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTTGTGATATGG
58723017 GGGATTTAGCCTGGACTGGTAATCCTG
1 GGGATTTAGCCTGGACTGGTAATCCTG
58723044 CCATGAGATG
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
54 27 0.36
55 49 0.64
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.32
Consensus pattern (54 bp):
GGGATTTAGCCTGGACTGGTAATCCTGACATCACCTTATGAGTTTGTGATATGG
Found at i:58732991 original size:33 final size:33
Alignment explanation
Indices: 58732949--58733014 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
58732939 CGAACTCGTC
*
58732949 CGTAGAGTTAAACTCA-TTCACACAATCAATCAT
1 CGTAGAGTTAAACT-AGTCCACACAATCAATCAT
58732982 CGTAGAGTTAAACTAGTCCACACAATCAATCAT
1 CGTAGAGTTAAACTAGTCCACACAATCAATCAT
58733015 ACAGTTCATG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 1 0.03
33 30 0.97
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.26
Consensus pattern (33 bp):
CGTAGAGTTAAACTAGTCCACACAATCAATCAT
Found at i:58737742 original size:24 final size:24
Alignment explanation
Indices: 58737710--58737757 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
58737700 TACAAACTTA
58737710 CTAAGCATGTAATGCTTTCTCCGT
1 CTAAGCATGTAATGCTTTCTCCGT
58737734 CTAAGCATGTAATGCTTTCTCCGT
1 CTAAGCATGTAATGCTTTCTCCGT
58737758 TTAATTTTTC
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:0.21, C:0.25, G:0.17, T:0.38
Consensus pattern (24 bp):
CTAAGCATGTAATGCTTTCTCCGT
Found at i:58746331 original size:40 final size:40
Alignment explanation
Indices: 58746257--58746433 Score: 241
Period size: 40 Copynumber: 4.5 Consensus size: 40
58746247 AAGTATCTTT
* *
58746257 GGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTC
* **
58746296 GGGTCTTAGCCCGGATATAGTCACTAGCATGAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
** *
58746336 GGGACTTAGCCCGGATATAGTCACTAGCATGAATTCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
* *
58746376 GGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
58746416 GGGACTTAGCCCGGATAT
1 GGGACTTAGCCCGGATAT
58746434 CATCCGAATA
Statistics
Matches: 124, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 7 0.06
40 116 0.94
41 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (40 bp):
GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
Found at i:58749022 original size:17 final size:17
Alignment explanation
Indices: 58749000--58749051 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 17
58748990 ATGGAAATAT
*
58749000 AATCTTCAATGATATGC
1 AATCTTAAATGATATGC
58749017 AATCTTAGATATGATATGC
1 AATCTTA-A-ATGATATGC
*
58749036 AATCTTAAAAGATATG
1 AATCTTAAATGATATG
58749052 ATTTTGTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 13 0.42
18 2 0.06
19 16 0.52
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (17 bp):
AATCTTAAATGATATGC
Found at i:58749070 original size:22 final size:22
Alignment explanation
Indices: 58749008--58749053 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 22
58748998 ATAATCTTCA
58749008 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAAAAGAT
58749027 ATGATATGCAATCTTAAAAGAT
1 ATGATATGCAATCTTAAAAGAT
58749049 ATGAT
1 ATGAT
58749054 TTTGTAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.62
22 9 0.38
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (22 bp):
ATGATATGCAATCTTAAAAGAT
Found at i:58749359 original size:17 final size:17
Alignment explanation
Indices: 58749335--58749369 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58749325 TGTTTCTCAG
*
58749335 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
58749353 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
58749370 GTATCATATC
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:58752594 original size:120 final size:120
Alignment explanation
Indices: 58752400--58752691 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
58752390 GCTCCTCGTT
* * *
58752400 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTTGCACAAATGCCTTCGGGACTTAACCCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
*
58752464 GATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
65 GATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
*
58752520 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCC-G
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
58752584 AATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
66 -ATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
* *
58752640 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGG
58752692 ATCTTAGTCC
Statistics
Matches: 162, Mismatches: 8, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
119 36 0.22
120 124 0.77
121 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
Found at i:58752698 original size:40 final size:40
Alignment explanation
Indices: 58752400--58752743 Score: 434
Period size: 40 Copynumber: 8.7 Consensus size: 40
58752390 GCTCCTCGTT
* * * * *
58752400 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTTGCA
1 CAAATGCCTTCGGGACTTAACCCGGAAT-TAGTAACTCGCA
* *
58752440 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
*
58752480 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
*
58752520 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
58752560 CAAATGCCTTCGGGACTTAACCC-GAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAA-TTAGTAACTCGCA
58752600 CAAATGCCTTCGGGACTTAACCC-GAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAA-TTAGTAACTCGCA
* *
58752640 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
** * *
58752679 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGA-ATTAGTAAC-TCGCA
*
58752720 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
58752744 CAGCATTCAA
Statistics
Matches: 282, Mismatches: 14, Indels: 17
0.90 0.04 0.05
Matches are distributed among these distances:
38 2 0.01
39 48 0.17
40 222 0.79
41 10 0.04
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
Found at i:58762526 original size:78 final size:78
Alignment explanation
Indices: 58762386--58762688 Score: 387
Period size: 78 Copynumber: 3.8 Consensus size: 78
58762376 TCTTCACATC
* * ** ** *
58762386 GAAGTAGATCCAAGATGACTTGGCATC-CTTGCGTT-GACAAGGAGCAGATCAAAGACATAGCAG
1 GAAGCAGATCCAAGATGATTTGGCATCTC-TGTATTAGACGGGGAGCAGATCGAAGACATAGCAG
*
58762449 ATCTTACCTTCATT
65 ATCTGACCTTCATT
* *
58762463 GAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGA
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGA
58762528 TCTGACCTTCATT
66 TCTGACCTTCATT
** *
58762541 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAAGAGCAGATCGAAGACATAACAGA
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGA
58762606 T-TGGACCTTCATT
66 TCT-GACCTTCATT
* * *
58762619 AAATCAGATCCAAGATTACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAG
1 GAAGCAGATCCAAGA-T---GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAG
58762684 CAGAT
62 CAGAT
58762689 TTGGCTTTCA
Statistics
Matches: 198, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
77 29 0.15
78 122 0.62
79 1 0.01
82 46 0.23
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (78 bp):
GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGA
TCTGACCTTCATT
Found at i:58762688 original size:160 final size:155
Alignment explanation
Indices: 58762386--58762688 Score: 405
Period size: 160 Copynumber: 1.9 Consensus size: 155
58762376 TCTTCACATC
* * *
58762386 GAAGTAGATCCAAGATGACTTGGCATCCTTGCGTTGACAAGGAGCAGATCAAAGACATAGCAGAT
1 GAAGCAGATCCAAGATGACTTGGCATCCTTGCATTGACAAGGAGCAGATCAAAGACATAACAGAT
* * * *
58762451 CTTACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGA
66 CTGACCTTCATTAAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGA
58762516 AGACACAGCAGATCTGACCTTCATT
131 AGACACAGCAGATCTGACCTTCATT
* * *
58762541 GAAGCAGATCCAAGATGATTTGGCAT-CTCTGTATTAGACGAA-GAGCAGATCGAAGACATAACA
1 GAAGCAGATCCAAGATGACTTGGCATCCT-TGCATT-GAC-AAGGAGCAGATCAAAGACATAACA
*
58762604 GAT-TGGACCTTCATTAAATCAGATCCAAGATTACAGATTTGGCATCTCTGTATTAGACGGGGAG
63 GATCT-GACCTTCATTAAAGCAGATCCAAGA-T---GATTTGGCATCTCTGTATTAGACGGGGAG
*
58762668 CAAATCGAAGACATAGCAGAT
123 CAAATCGAAGACACAGCAGAT
58762689 TTGGCTTTCA
Statistics
Matches: 128, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
154 2 0.02
155 29 0.23
156 46 0.36
157 3 0.02
160 48 0.38
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (155 bp):
GAAGCAGATCCAAGATGACTTGGCATCCTTGCATTGACAAGGAGCAGATCAAAGACATAACAGAT
CTGACCTTCATTAAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGA
AGACACAGCAGATCTGACCTTCATT
Found at i:58762872 original size:78 final size:78
Alignment explanation
Indices: 58762770--58763141 Score: 532
Period size: 78 Copynumber: 4.8 Consensus size: 78
58762760 CGAAGAAACA
** * * * *
58762770 GATTTGGCATCTCCATATTCGACAGAGAACAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
58762835 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * ** *
58762848 GATTTGGCATCTCTGTATTAGACAGAGAGTGGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
58762913 GTAGATCCAAGAT
66 GCAGATCCAAGAT
**
58762926 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAATAGAT-TGAACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTG-ACCTTCATTGA
*
58762990 AACAGATCCAAGAT
65 AGCAGATCCAAGAT
* * * *
58763004 GATTTGGCATCTCTGTATTAGACGGGGAGAAGTTCGAAGACGTAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
58763068 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
*
58763082 AATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCA
58763142 CGTGTTTACA
Statistics
Matches: 264, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
77 2 0.01
78 260 0.98
79 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:58763076 original size:447 final size:448
Alignment explanation
Indices: 58762220--58763231 Score: 1335
Period size: 447 Copynumber: 2.2 Consensus size: 448
58762210 ACAGGCTAAA
* * * * ** *
58762220 ACATAGTAGATTTGGCTTTCATGTGTTTACGCTAAAGTAGATCTAAGATGATTTAACATCTCTAT
1 ACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGT
* * *
58762285 ATTGTCAAAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
66 ATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAACAGATCGAA
* * *
58762350 TACATAGCAGATCTAACCTTAGGATGTCTTCACATCGAAGTAGATCCAAGATGACTTGGCATCCT
131 GACATAGCAGA-CT-A-CTTA-GA-GCCTT-ACATCGAAGCAGATCCAAGATGACTTGGCATCCT
* * * *
58762415 TGCGTTGACAAGGAGCAGATCAAAGACATAGCAGATCTTACCTTCATTGAAGCAGATCTAAGATG
190 TGCATTGACAAGGAGCAGATCAAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATG
* *
58762480 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAG
255 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAAA
*
58762545 CAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAAGAGCAGATCGAAGACATAACAGATTGG
320 CAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAAGAGAAGATCGAAGACATAACAGATTGG
*
58762610 ACCTTCATTAAATCAGATCCAAGATTACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCG
385 ACCTTCATTAAAGCAGATCCAAGA-T--A-ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCG
58762675 AAG
446 AAG
*
58762678 ACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTGTGT
1 ACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGT
*
58762743 ACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAACAGATCGAA
66 ATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAACAGATCGAA
* * *
58762808 GACATAGCAGA-T-C-T-GA-CCTT-CATTGAAGCAGATCCAAGATGATTTGGCAT-CTCTGTAT
131 GACATAGCAGACTACTTAGAGCCTTACATCGAAGCAGATCCAAGATGACTTGGCATCCT-TGCAT
** * *
58762866 TAGAC-AGAGAGTGGATCGAAGACACAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATT
195 T-GACAAG-GAGCAGATCAAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATT
* *
58762930 TGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAATAGAT-TGAACCTTCATTGAAACA
258 TGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTG-ACCTTCATTGAAACA
** * *
58762994 GATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGAAGTTCGAAGACGTAACAGATTGGAC
322 GATCCAAGATGATTTGGCATCTCTGTATTAGACGAAGAGAAGATCGAAGACATAACAGATTGGAC
* *
58763059 CTTCATTGAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG
387 CTTCATTAAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAG
* * * * *
58763121 ACATAGCAGATCTGACCTTCACGTGTTTAC-ATCGAAGCATATCTAAGATTACAGATTTGGCATC
1 ACATAGCAGATTTGGCTTTCACGTGTTTACGCT-GAAGCAGATCTAAGA-T---GATTTGGCATC
* * *
58763185 TCTGTATTAGTCGGGGAGCAAATC-AGAGATAACAGATTTGGCATCTC
61 TCTGTATT-GTCAGAGAACAAATCGA-AGA-AACAGATTTGGCATCTC
58763232 TGTATTAGAC
Statistics
Matches: 494, Mismatches: 48, Indels: 33
0.86 0.08 0.06
Matches are distributed among these distances:
442 1 0.00
443 78 0.16
444 2 0.00
445 2 0.00
446 36 0.07
447 207 0.42
448 18 0.04
449 17 0.03
450 2 0.00
452 1 0.00
453 1 0.00
456 1 0.00
458 128 0.26
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (448 bp):
ACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGT
ATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAACAGATCGAA
GACATAGCAGACTACTTAGAGCCTTACATCGAAGCAGATCCAAGATGACTTGGCATCCTTGCATT
GACAAGGAGCAGATCAAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGG
CATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAAACAGATC
CAAGATGATTTGGCATCTCTGTATTAGACGAAGAGAAGATCGAAGACATAACAGATTGGACCTTC
ATTAAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAG
Found at i:58763235 original size:45 final size:45
Alignment explanation
Indices: 58763165--58763327 Score: 222
Period size: 45 Copynumber: 3.6 Consensus size: 45
58763155 AAGCATATCT
* * *
58763165 AAGATTACAGATTTGGCATCTCTGTATTAGTCGGGGAGCAAA-TC
1 AAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTG
* *
58763209 AGAGATAACAGATTTGGCATCTCTGTATTAGACGGGAAGCAGATTG
1 A-AGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTG
* * *
58763255 AAGA-AGCAAATTTGGCATCTCTGTATTAGACGGAGAGCAAATTG
1 AAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTG
*
58763299 AAGATAACAGATTTGGCGTCTCTGTATTA
1 AAGATAACAGATTTGGCATCTCTGTATTA
58763328 AATGGGCAGC
Statistics
Matches: 103, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
44 40 0.39
45 61 0.59
46 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (45 bp):
AAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTG
Found at i:58763283 original size:44 final size:45
Alignment explanation
Indices: 58763083--58763355 Score: 209
Period size: 45 Copynumber: 6.0 Consensus size: 45
58763073 ATCCAAGATA
* * *
58763083 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAG
1 ATTTGGCATCTCTGTATTAGACGGGAAGCAGATTGAAG--ATAACAG
* * * * * * *
58763130 ATCTGACCTTCACGTGT-TTACATC--GAAGCATATCT-AAGATTACAG
1 ATTTG-GCATCTC-TGTATTAGA-CGGGAAGCAGAT-TGAAGATAACAG
* * * *
58763175 ATTTGGCATCTCTGTATTAGTCGGGGAGCA-AATCAGAGATAACAG
1 ATTTGGCATCTCTGTATTAGACGGGAAGCAGATTGA-AGATAACAG
* *
58763220 ATTTGGCATCTCTGTATTAGACGGGAAGCAGATTGAAGA-AGCAA
1 ATTTGGCATCTCTGTATTAGACGGGAAGCAGATTGAAGATAACAG
*
58763264 ATTTGGCATCTCTGTATTAGAC-GGAGAGCAAATTGAAGATAACAG
1 ATTTGGCATCTCTGTATTAGACGGGA-AGCAGATTGAAGATAACAG
* * * * ** *
58763309 ATTTGGCGTCTCTGTATTAAATGGGCAGCAGATCAAAGATAGCAG
1 ATTTGGCATCTCTGTATTAGACGGGAAGCAGATTGAAGATAACAG
58763354 AT
1 AT
58763356 ATCGCCTTCC
Statistics
Matches: 177, Mismatches: 36, Indels: 28
0.73 0.15 0.12
Matches are distributed among these distances:
43 8 0.05
44 46 0.26
45 92 0.52
46 5 0.03
47 14 0.08
48 8 0.05
49 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (45 bp):
ATTTGGCATCTCTGTATTAGACGGGAAGCAGATTGAAGATAACAG
Found at i:58763293 original size:89 final size:89
Alignment explanation
Indices: 58763175--58763341 Score: 255
Period size: 89 Copynumber: 1.9 Consensus size: 89
58763165 AAGATTACAG
* *
58763175 ATTTGGCATCTCTGTATTAGTCGGGGAGCAAATCAG-AGATAACAGATTTGGCATCTCTGTATTA
1 ATTTGGCATCTCTGTATTAGACGGAGAGCAAAT-AGAAGATAACAGATTTGGCATCTCTGTATTA
*
58763239 GACGGGAAGCAGATTGAAGAAGCAA
65 AACGGGAAGCAGATTGAAGAAGCAA
* *
58763264 ATTTGGCATCTCTGTATTAGACGGAGAGCAAATTGAAGATAACAGATTTGGCGTCTCTGTATTAA
1 ATTTGGCATCTCTGTATTAGACGGAGAGCAAATAGAAGATAACAGATTTGGCATCTCTGTATTAA
* *
58763329 ATGGGCAGCAGAT
66 ACGGGAAGCAGAT
58763342 CAAAGATAGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
88 1 0.01
89 69 0.99
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (89 bp):
ATTTGGCATCTCTGTATTAGACGGAGAGCAAATAGAAGATAACAGATTTGGCATCTCTGTATTAA
ACGGGAAGCAGATTGAAGAAGCAA
Found at i:58763718 original size:17 final size:18
Alignment explanation
Indices: 58763696--58763773 Score: 67
Period size: 17 Copynumber: 4.4 Consensus size: 18
58763686 ATGGGAAAAT
58763696 AATCTTCA-ATGATATGC
1 AATCTTCATATGATATGC
*
58763713 AATCTTAGATATGATA--C
1 AATCTT-CATATGATATGC
*
58763730 AATCTTAGATATGAT-TGC
1 AATCTT-CATATGATATGC
*
58763748 AATCTTAGATATGATATGC
1 AATCTT-CATATGATATGC
58763767 AAT-TTCA
1 AATCTTCA
58763774 GAAGATATGA
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
17 23 0.43
18 19 0.35
19 12 0.22
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (18 bp):
AATCTTCATATGATATGC
Found at i:58763725 original size:14 final size:15
Alignment explanation
Indices: 58763706--58763761 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
58763696 AATCTTCAAT
58763706 GATATG-CAATCTTA
1 GATATGACAATCTTA
58763720 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
58763737 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
58763755 GATATGA
1 GATATGA
58763762 TATGCAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:58763752 original size:18 final size:19
Alignment explanation
Indices: 58763704--58763769 Score: 111
Period size: 17 Copynumber: 3.6 Consensus size: 19
58763694 ATAATCTTCA
58763704 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
58763723 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
58763740 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
58763758 ATGATATGCAAT
1 ATGATATGCAAT
58763770 TTCAGAAGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
17 16 0.36
18 16 0.36
19 12 0.27
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:58764090 original size:17 final size:17
Alignment explanation
Indices: 58764066--58764100 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58764056 TGTTTCCCAG
*
58764066 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
58764084 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
58764101 GTATCATATC
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:58766028 original size:28 final size:29
Alignment explanation
Indices: 58766000--58766125 Score: 118
Period size: 28 Copynumber: 4.4 Consensus size: 29
58765990 GCATGAGTAT
* *
58766000 AATGTGATTTGGGCCAGATGGGCCATATA
1 AATGTGAATTGGGCCAGATGGGCCATATG
* *
58766029 AATGAG-ATTGGGCCTA-ATGCGCCATATG
1 AATGTGAATTGGGCC-AGATGGGCCATATG
* *
58766057 AATGTGAATTGGGCC-TATGGGCCGTATG
1 AATGTGAATTGGGCCAGATGGGCCATATG
* *
58766085 AACT-TGAATTGGGCCAGATGGGCCGTATA
1 AA-TGTGAATTGGGCCAGATGGGCCATATG
*
58766114 AATGAG-ATTGGG
1 AATGTGAATTGGG
58766126 ACTAGTGGGC
Statistics
Matches: 81, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
28 52 0.64
29 29 0.36
ACGTcount: A:0.27, C:0.14, G:0.33, T:0.26
Consensus pattern (29 bp):
AATGTGAATTGGGCCAGATGGGCCATATG
Found at i:58775800 original size:237 final size:237
Alignment explanation
Indices: 58775385--58775859 Score: 950
Period size: 237 Copynumber: 2.0 Consensus size: 237
58775375 ATTCTAGTCG
58775385 TTCCAAATATCCAAGCCCTCAATTAGTAGCCTTTAATCCACGCTATAGGAAAAGAGTGCCTTTCG
1 TTCCAAATATCCAAGCCCTCAATTAGTAGCCTTTAATCCACGCTATAGGAAAAGAGTGCCTTTCG
58775450 GCATAGTAATTCTTTTTAAATTCCAATTCCATAATTTGCTCCTTGATTTGGCCAAATTCGAAGTT
66 GCATAGTAATTCTTTTTAAATTCCAATTCCATAATTTGCTCCTTGATTTGGCCAAATTCGAAGTT
58775515 TGAATTTCATTCAAACTCCCAACCGATCAGCAGCCTTATCCACCTGCTTGCATCGCTTCATCATG
131 TGAATTTCATTCAAACTCCCAACCGATCAGCAGCCTTATCCACCTGCTTGCATCGCTTCATCATG
58775580 CTGCCAAGAGTCCTGGTCAGACCCCAATTCCTTCCCCACGCA
196 CTGCCAAGAGTCCTGGTCAGACCCCAATTCCTTCCCCACGCA
58775622 TTCCAAATATCCAAGCCCTCAATTAGTAGCCTTTAATCCACGCTATAGGAAAAGAGTGCCTTTCG
1 TTCCAAATATCCAAGCCCTCAATTAGTAGCCTTTAATCCACGCTATAGGAAAAGAGTGCCTTTCG
58775687 GCATAGTAATTCTTTTTAAATTCCAATTCCATAATTTGCTCCTTGATTTGGCCAAATTCGAAGTT
66 GCATAGTAATTCTTTTTAAATTCCAATTCCATAATTTGCTCCTTGATTTGGCCAAATTCGAAGTT
58775752 TGAATTTCATTCAAACTCCCAACCGATCAGCAGCCTTATCCACCTGCTTGCATCGCTTCATCATG
131 TGAATTTCATTCAAACTCCCAACCGATCAGCAGCCTTATCCACCTGCTTGCATCGCTTCATCATG
58775817 CTGCCAAGAGTCCTGGTCAGACCCCAATTCCTTCCCCACGCA
196 CTGCCAAGAGTCCTGGTCAGACCCCAATTCCTTCCCCACGCA
58775859 T
1 T
58775860 GCAGCAAAAA
Statistics
Matches: 238, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
237 238 1.00
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.31
Consensus pattern (237 bp):
TTCCAAATATCCAAGCCCTCAATTAGTAGCCTTTAATCCACGCTATAGGAAAAGAGTGCCTTTCG
GCATAGTAATTCTTTTTAAATTCCAATTCCATAATTTGCTCCTTGATTTGGCCAAATTCGAAGTT
TGAATTTCATTCAAACTCCCAACCGATCAGCAGCCTTATCCACCTGCTTGCATCGCTTCATCATG
CTGCCAAGAGTCCTGGTCAGACCCCAATTCCTTCCCCACGCA
Found at i:58776721 original size:19 final size:18
Alignment explanation
Indices: 58776684--58776727 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
58776674 ACACATGCAG
58776684 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
58776701 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
58776720 TACTAATT
1 TAATAATT
58776728 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:58778790 original size:18 final size:18
Alignment explanation
Indices: 58778744--58778790 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
58778734 ATTCAAGATT
58778744 AAATTGAAACAAAATAGAA
1 AAATTGAAA-AAAATAGAA
* * *
58778763 AATTTCAAAAAAATTGAA
1 AAATTGAAAAAAATAGAA
58778781 AAATTGAAAA
1 AAATTGAAAA
58778791 GTAGGGTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.66, C:0.04, G:0.09, T:0.21
Consensus pattern (18 bp):
AAATTGAAAAAAATAGAA
Found at i:58780536 original size:23 final size:23
Alignment explanation
Indices: 58780520--58780575 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
58780510 CGCAGTGTAG
58780520 CTACTAATAGTAACGCAGCAAAA
1 CTACTAATAGTAACGCAGCAAAA
* *
58780543 CTGCTAATAGTAACGCAGCAAAG
1 CTACTAATAGTAACGCAGCAAAA
*
58780566 CTGCTAATAG
1 CTACTAATAG
58780576 CGGTAAACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (23 bp):
CTACTAATAGTAACGCAGCAAAA
Found at i:58784778 original size:25 final size:25
Alignment explanation
Indices: 58784750--58784800 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
58784740 AACCCAAATA
58784750 TGTAAGCTTAAATAAATTGAGTTAT
1 TGTAAGCTTAAATAAATTGAGTTAT
58784775 TGTAAGCTTAAATAAATTGAGTTAT
1 TGTAAGCTTAAATAAATTGAGTTAT
58784800 T
1 T
58784801 AACAACCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.41
Consensus pattern (25 bp):
TGTAAGCTTAAATAAATTGAGTTAT
Found at i:58786865 original size:40 final size:39
Alignment explanation
Indices: 58786749--58786865 Score: 119
Period size: 40 Copynumber: 2.9 Consensus size: 39
58786739 GGTGTTATAG
* * *
58786749 GTACTGAAGTACAAACAGGAGCACTCATGTGCATTCAGGT
1 GTACTGAAGTACAAACAGGGGCA-TTATGTGCATTCAGGA
* * * * *
58786789 GTAC-CACAGTACAAATAGGGGCACATATATGTATTCAGGA
1 GTACTGA-AGTACAAACAGGGGCA-TTATGTGCATTCAGGA
58786829 GTACTGAAGTACAAACAGGGGCATGTATGTGCATTCA
1 GTACTGAAGTACAAACAGGGGCAT-TATGTGCATTCA
58786866 ATAACATTTT
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
39 1 0.02
40 59 0.97
41 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (39 bp):
GTACTGAAGTACAAACAGGGGCATTATGTGCATTCAGGA
Found at i:58794027 original size:26 final size:26
Alignment explanation
Indices: 58793989--58794169 Score: 89
Period size: 26 Copynumber: 7.0 Consensus size: 26
58793979 ATTTGAATAG
* * *
58793989 CAGGCCTTAAGTCTATGATTATTTAA
1 CAGGCCTTGAGCCGATGATTATTTAA
* * *
58794015 CAGGCCTTGAGTC-AGTGATTACTTAG
1 CAGGCCTTGAGCCGA-TGATTATTTAA
* * * *
58794041 TAGG-CTATGAGCCGGTAATTATTTAG
1 CAGGCCT-TGAGCCGATGATTATTTAA
* * *
58794067 TAGACCTTGAACCGATGATTATTTAA
1 CAGGCCTTGAGCCGATGATTATTTAA
* * * *
58794093 CAGGCCTTGAACGGGTGATTACTTAA
1 CAGGCCTTGAGCCGATGATTATTTAA
* ** *
58794119 CAAG-CTATGAGTTGGTGATTATTTAA
1 CAGGCCT-TGAGCCGATGATTATTTAA
* * * *
58794145 TAAGCCTTGAGTCGGTGATTATTTA
1 CAGGCCTTGAGCCGATGATTATTTA
58794170 GTAGGTACTA
Statistics
Matches: 124, Mismatches: 25, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
25 5 0.04
26 115 0.93
27 4 0.03
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (26 bp):
CAGGCCTTGAGCCGATGATTATTTAA
Found at i:58794140 original size:78 final size:78
Alignment explanation
Indices: 58794003--58794169 Score: 194
Period size: 78 Copynumber: 2.1 Consensus size: 78
58793993 CCTTAAGTCT
* ** * *
58794003 ATGATTATTTAACAGGCCTTGAGTCAGTGATTACTTAGTAGGCTATGAGCCGGTAATTATTTAGT
1 ATGATTATTTAACAGGCCTTGAGACAGTGATTACTTAACAAGCTATGAGCCGGTAATTATTTAAT
58794068 -AGACCTTGAACCG
66 AAG-CCTTGAACCG
* ** *
58794081 ATGATTATTTAACAGGCCTTGA-ACGGGTGATTACTTAACAAGCTATGAGTTGGTGATTATTTAA
1 ATGATTATTTAACAGGCCTTGAGAC-AGTGATTACTTAACAAGCTATGAGCCGGTAATTATTTAA
**
58794145 TAAGCCTTGAGTCG
65 TAAGCCTTGAACCG
*
58794159 GTGATTATTTA
1 ATGATTATTTA
58794170 GTAGGTACTA
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
77 1 0.01
78 72 0.96
79 2 0.03
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (78 bp):
ATGATTATTTAACAGGCCTTGAGACAGTGATTACTTAACAAGCTATGAGCCGGTAATTATTTAAT
AAGCCTTGAACCG
Found at i:58796083 original size:25 final size:25
Alignment explanation
Indices: 58796055--58796113 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
58796045 AATTTTTAAT
*
58796055 AATAAAAAAAAAGCAGTCCAAAATC
1 AATAAAAAAAAAGCAGTCCAAAAGC
* *
58796080 AAT-AGAAAAAAGTAGTCCAAAAGC
1 AATAAAAAAAAAGCAGTCCAAAAGC
*
58796104 AATAGAAAAA
1 AATAAAAAAA
58796114 TATGAAATTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 21 0.75
25 7 0.25
ACGTcount: A:0.64, C:0.12, G:0.12, T:0.12
Consensus pattern (25 bp):
AATAAAAAAAAAGCAGTCCAAAAGC
Found at i:58796088 original size:24 final size:24
Alignment explanation
Indices: 58796061--58796113 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
58796051 TAATAATAAA
*
58796061 AAAAAAGCAGTCCAAAATCAATAG
1 AAAAAAGCAGTCCAAAAGCAATAG
*
58796085 AAAAAAGTAGTCCAAAAGCAATAG
1 AAAAAAGCAGTCCAAAAGCAATAG
58796109 AAAAA
1 AAAAA
58796114 TATGAAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.62, C:0.13, G:0.13, T:0.11
Consensus pattern (24 bp):
AAAAAAGCAGTCCAAAAGCAATAG
Found at i:58799067 original size:15 final size:15
Alignment explanation
Indices: 58799034--58799067 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
58799024 TTATGAAGCC
58799034 AAAAAAATGTTTTGG
1 AAAAAAATGTTTTGG
*
58799049 AAAAAGAT-TTTTGG
1 AAAAAAATGTTTTGG
58799063 AAAAA
1 AAAAA
58799068 TGCCAATGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (15 bp):
AAAAAAATGTTTTGG
Found at i:58801923 original size:39 final size:39
Alignment explanation
Indices: 58801761--58801913 Score: 279
Period size: 39 Copynumber: 3.9 Consensus size: 39
58801751 ATTACCAGCA
*
58801761 CCAGCACGAAGCCTGCGGGACTTTAGCCCGAATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
58801800 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
58801839 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
58801878 CCAGCACGAAGCCTGCGGGACTCTAACCCGGATACA
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACA
58801914 ATCTCAGCAC
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 111 1.00
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.18
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:58805916 original size:17 final size:17
Alignment explanation
Indices: 58805894--58805936 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
58805884 ATTTCATTTA
**
58805894 AAATGTCAATTTCCATC
1 AAATGTCAATTAACATC
*
58805911 AAATGTCCATTAACATC
1 AAATGTCAATTAACATC
58805928 AAAT-TCAAT
1 AAATGTCAAT
58805937 ACAATCATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATGTCAATTAACATC
Found at i:58808968 original size:27 final size:28
Alignment explanation
Indices: 58808918--58809074 Score: 157
Period size: 27 Copynumber: 5.8 Consensus size: 28
58808908 GCGAGGCTGC
* * *
58808918 CAGATAT-TGTGACAAAGTCACCAGATA
1 CAGATATATGTGGCAGAGCCACCAGATA
**
58808945 CAGATAT-TGTGGCAGAGCTTCCAGA-A
1 CAGATATATGTGGCAGAGCCACCAGATA
*
58808971 CAGATATATATGGCAGAGCCACCAGAT-
1 CAGATATATGTGGCAGAGCCACCAGATA
* *
58808998 CAGATA-ATTGTGGCATAGCCACCAG-GA
1 CAGATATA-TGTGGCAGAGCCACCAGATA
*
58809025 CAGATATATGTGGCAGAGCCACCATAT-
1 CAGATATATGTGGCAGAGCCACCAGATA
* *
58809052 CAGATAAATGTGGCATAGCCACC
1 CAGATATATGTGGCAGAGCCACC
58809075 GGGACGCTTC
Statistics
Matches: 108, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
26 9 0.08
27 98 0.91
28 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (28 bp):
CAGATATATGTGGCAGAGCCACCAGATA
Found at i:58809008 original size:54 final size:54
Alignment explanation
Indices: 58808936--58809074 Score: 190
Period size: 54 Copynumber: 2.6 Consensus size: 54
58808926 GTGACAAAGT
**
58808936 CACCAGATACAGAT-ATTGTGGCAGAGCTTCCAGAACAGATATATATGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCAGAGCCACCAGAACAGATATATATGGCAGAGC
* * *
58808990 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCAGAGCCACCAGAACAGATATATATGGCAGAGC
* * *
58809044 CACCATATCAGATAAATGTGGCATAGCCACC
1 CACCAGATCAGATAATTGTGGCAGAGCCACC
58809075 GGGACGCTTC
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 5 0.06
54 72 0.94
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCAGAGCCACCAGAACAGATATATATGGCAGAGC
Found at i:58809056 original size:81 final size:80
Alignment explanation
Indices: 58808918--58809074 Score: 190
Period size: 81 Copynumber: 1.9 Consensus size: 80
58808908 GCGAGGCTGC
* * ** *
58808918 CAGATATTGTGACAAAGTCACCAGATACAGATATTGTGGCAGAGCTTCCAGAACAGATATATATG
1 CAGATATTGTGACAAAGCCACCAGAGACAGATATTGTGGCAGAGCCACCAGAACAGATAAATATG
58808983 GCAGAGCCACCAGAT
66 GCAGAGCCACCAGAT
* * * * *
58808998 CAGATAATTGTGGCATAGCCACCAG-GACAGATATATGTGGCAGAGCCACCATATCAGATAAATG
1 CAGAT-ATTGTGACAAAGCCACCAGAGACAGATAT-TGTGGCAGAGCCACCAGAACAGATAAATA
*
58809062 TGGCATAGCCACC
64 TGGCAGAGCCACC
58809075 GGGACGCTTC
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
80 13 0.20
81 51 0.80
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (80 bp):
CAGATATTGTGACAAAGCCACCAGAGACAGATATTGTGGCAGAGCCACCAGAACAGATAAATATG
GCAGAGCCACCAGAT
Found at i:58810698 original size:26 final size:26
Alignment explanation
Indices: 58810667--58810774 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
58810657 TGAAATGCCC
*
58810667 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
58810693 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
58810719 ATCATAGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
58810745 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
58810771 ATCA
1 ATCA
58810775 AATTTGTACC
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:58813970 original size:29 final size:30
Alignment explanation
Indices: 58813924--58814011 Score: 97
Period size: 31 Copynumber: 2.9 Consensus size: 30
58813914 TGATTGAATA
* *
58813924 TGCAATTGTATACAT-AAACTTTAATTTGG
1 TGCAATTATATACTTAAAACTTTAATTTGG
*
58813953 TGCAATTATATACTTAAAACTCTAATTGTGG
1 TGCAATTATATACTTAAAACTTTAATT-TGG
* * * *
58813984 TTCAAATATATACTTGAAATTTTAATTT
1 TGCAATTATATACTTAAAACTTTAATTT
58814012 TGATTTAATC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
29 13 0.27
30 11 0.22
31 25 0.51
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.43
Consensus pattern (30 bp):
TGCAATTATATACTTAAAACTTTAATTTGG
Found at i:58814369 original size:25 final size:24
Alignment explanation
Indices: 58814308--58814369 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
58814298 AAATTTCATA
*
58814308 AAAATATTAAAATTGATATATATTT
1 AAAATA-TAAAATTGATAAATATTT
* * *
58814333 AGATTATGAAAATTTATAAATATTAT
1 AAAATAT-AAAATTGATAAATATT-T
58814359 AAAATATAAAA
1 AAAATATAAAA
58814370 ATATAATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
24 1 0.03
25 22 0.76
26 6 0.21
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (24 bp):
AAAATATAAAATTGATAAATATTT
Found at i:58814371 original size:18 final size:18
Alignment explanation
Indices: 58814335--58814379 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
58814325 ATATATTTAG
* *
58814335 ATTATGAAAATTTATAAAT
1 ATTAT-AAAATATAAAAAT
58814354 ATTATAAAATATAAAAAT
1 ATTATAAAATATAAAAAT
*
58814372 ATAATAAA
1 ATTATAAA
58814380 TTCTAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
ATTATAAAATATAAAAAT
Found at i:58814478 original size:10 final size:9
Alignment explanation
Indices: 58814461--58814521 Score: 59
Period size: 9 Copynumber: 6.4 Consensus size: 9
58814451 TTAGAATTCT
*
58814461 TAAAAATTG
1 TAAAAATTA
58814470 TAAATAATTA
1 TAAA-AATTA
*
58814480 TAAAAAATA
1 TAAAAATTA
*
58814489 TTAAAATTGA
1 TAAAAATT-A
*
58814499 TATAAACTTA
1 TA-AAAATTA
58814509 TAAAAATTA
1 TAAAAATTA
58814518 TAAA
1 TAAA
58814522 CAAATCGTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
9 24 0.57
10 13 0.31
11 5 0.12
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:58814517 original size:38 final size:37
Alignment explanation
Indices: 58814434--58814526 Score: 96
Period size: 38 Copynumber: 2.4 Consensus size: 37
58814424 TAACACGTTT
* * * *
58814434 AAAATTAAAAAAACATATTAGAATTCTTAAAAATTGTA
1 AAAATTATAAAAA-ATATTAAAATTCATAAAAATTATA
* *
58814472 AATAATTATAAAAAATATTAAAATTGATATAAACTTATA
1 AA-AATTATAAAAAATATTAAAATTCATA-AAAATTATA
58814511 AAAATTATAAACAAAT
1 AAAATTATAAA-AAAT
58814527 CGTAAAAACT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
38 23 0.50
39 23 0.50
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.32
Consensus pattern (37 bp):
AAAATTATAAAAAATATTAAAATTCATAAAAATTATA
Found at i:58814822 original size:18 final size:18
Alignment explanation
Indices: 58814796--58814830 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58814786 ATTAAATGAA
58814796 ATATAAAAAATTAAAAAT
1 ATATAAAAAATTAAAAAT
* *
58814814 ATATTAAAATTTAAAAA
1 ATATAAAAAATTAAAAA
58814831 AAAAAATTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
ATATAAAAAATTAAAAAT
Found at i:58814980 original size:9 final size:9
Alignment explanation
Indices: 58814954--58815158 Score: 74
Period size: 9 Copynumber: 21.1 Consensus size: 9
58814944 TCAAGTTTTT
*
58814954 ATTTTTATT
1 ATTTTTATA
58814963 ATTTTTATA
1 ATTTTTATA
58814972 ATTTTTATA
1 ATTTTTATA
*
58814981 AGTTTATATCA
1 A-TTTTTAT-A
*
58814992 A-TTTTAAA
1 ATTTTTATA
*
58815000 ACTTTTAGTA
1 ATTTTTA-TA
* *
58815010 CTTTTTACA
1 ATTTTTATA
*
58815019 ATTTTTATG
1 ATTTTTATA
58815028 ATTTTTATAGA
1 ATTTTTAT--A
*
58815039 ATTTTAATA
1 ATTTTTATA
*
58815048 CGTTTTTATAA
1 -ATTTTTAT-A
*
58815059 AATTTTA-A
1 ATTTTTATA
*
58815067 ATATTTTAATT
1 AT-TTTT-ATA
58815078 ATGTTTTATTA
1 AT-TTTTA-TA
*
58815089 ATATTTATAGTT
1 AT-TTT-TA-TA
*
58815101 TTTTTTATAA
1 ATTTTTAT-A
*
58815111 ATTATTAT-
1 ATTTTTATA
*
58815119 ATTTTGGATAA
1 ATTTT-TAT-A
*
58815130 TATTTTTATT
1 -ATTTTTATA
*
58815140 TTTTTTATA
1 ATTTTTATA
58815149 ATTTTTATA
1 ATTTTTATA
58815158 A
1 A
58815159 ATTGATATCA
Statistics
Matches: 143, Mismatches: 35, Indels: 36
0.67 0.16 0.17
Matches are distributed among these distances:
8 8 0.06
9 66 0.46
10 33 0.23
11 27 0.19
12 9 0.06
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (9 bp):
ATTTTTATA
Found at i:58814997 original size:28 final size:28
Alignment explanation
Indices: 58814963--58815036 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 28
58814953 TATTTTTATT
*
58814963 ATTTTTATAATTTTTATAAGTTTATATCA
1 ATTTTTATAATTTTTATAACTTTATA-CA
* * *
58814992 A-TTTTAAAACTTTTAGT-ACTTTTTACA
1 ATTTTTATAATTTTTA-TAACTTTATACA
*
58815019 ATTTTTATGATTTTTATA
1 ATTTTTATAATTTTTATA
58815037 GAATTTTAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
27 4 0.11
28 29 0.83
29 2 0.06
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.58
Consensus pattern (28 bp):
ATTTTTATAATTTTTATAACTTTATACA
Found at i:58815123 original size:20 final size:20
Alignment explanation
Indices: 58815081--58815150 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
58815071 TTTAATTATG
58815081 TTTTATTAATATT-TATAGTTTT
1 TTTTA-TAATATTAT-TA-TTTT
*
58815103 TTTTATAA-ATTATTATATT
1 TTTTATAATATTATTATTTT
** *
58815122 TTGGATAATATTTTTATTTT
1 TTTTATAATATTATTATTTT
58815142 TTTTATAAT
1 TTTTATAAT
58815151 TTTTATAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
19 9 0.23
20 21 0.54
21 4 0.10
22 5 0.13
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (20 bp):
TTTTATAATATTATTATTTT
Found at i:58815152 original size:18 final size:19
Alignment explanation
Indices: 58815099--58815156 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 19
58815089 ATATTTATAG
*
58815099 TTTTTTTTATAAATTATTA
1 TTTTTTTTATAAATTTTTA
* **
58815118 TATTTTGGATAATATTTTTA
1 TTTTTTTTATAA-ATTTTTA
58815138 TTTTTTTTAT-AATTTTTA
1 TTTTTTTTATAAATTTTTA
58815156 T
1 T
58815157 AAATTGATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
18 8 0.26
19 10 0.32
20 13 0.42
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTTTTTATAAATTTTTA
Found at i:58815248 original size:17 final size:18
Alignment explanation
Indices: 58815226--58815260 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
58815216 TTTTTTCTGA
58815226 TTATTTATAAT-ATTTTT
1 TTATTTATAATCATTTTT
*
58815243 TTATTTTTAATCATTTTT
1 TTATTTATAATCATTTTT
58815261 ATTAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TTATTTATAATCATTTTT
Found at i:58819515 original size:43 final size:43
Alignment explanation
Indices: 58819467--58819582 Score: 137
Period size: 43 Copynumber: 2.6 Consensus size: 43
58819457 ATATCACATA
* *
58819467 ATAATATCCTATAATATCCTATTAGGAATTAAATTTCTAAGA-G
1 ATAATATCCTATAATATCCTATTAGGAATCAAATTGCTAA-ATG
58819510 ATAATATCCTATAATATCTCT-TTAGGAATCAAATTGCTAAATG
1 ATAATATCCTATAATATC-CTATTAGGAATCAAATTGCTAAATG
* *
58819553 ATAATATTTCATAATAATATCCTAATAGGA
1 ATAATA--TCCT-ATAATATCCTATTAGGA
58819583 TTGTAATAGG
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
42 1 0.02
43 42 0.67
44 2 0.03
45 5 0.08
46 13 0.21
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (43 bp):
ATAATATCCTATAATATCCTATTAGGAATCAAATTGCTAAATG
Found at i:58821111 original size:12 final size:12
Alignment explanation
Indices: 58821094--58821127 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
58821084 TTTAGATTTA
58821094 TTATTATTATTG
1 TTATTATTATTG
58821106 TTATTATTATTG
1 TTATTATTATTG
*
58821118 TTATCATTAT
1 TTATTATTAT
58821128 CATTTGCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (12 bp):
TTATTATTATTG
Found at i:58830234 original size:22 final size:22
Alignment explanation
Indices: 58830183--58830234 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
58830173 GTTATTGATT
58830183 TAATTTTTATGCTTTAATTTGA
1 TAATTTTTATGCTTTAATTTGA
* *
58830205 TCACTTTTAAT-CTTT-ATATTGA
1 T-AATTTTTATGCTTTAAT-TTGA
58830227 TAATTTTT
1 TAATTTTT
58830235 TTGGTTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
21 7 0.29
22 10 0.42
23 7 0.29
ACGTcount: A:0.27, C:0.08, G:0.06, T:0.60
Consensus pattern (22 bp):
TAATTTTTATGCTTTAATTTGA
Found at i:58835256 original size:10 final size:10
Alignment explanation
Indices: 58835243--58835276 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
58835233 TTTTTATAGT
58835243 TTTTAATAAA
1 TTTTAATAAA
58835253 TTTTAAT-AA
1 TTTTAATAAA
*
58835262 TTTTAATAAT
1 TTTTAATAAA
58835272 TTTTA
1 TTTTA
58835277 CAACTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:58835256 original size:19 final size:18
Alignment explanation
Indices: 58835243--58835287 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
58835233 TTTTTATAGT
58835243 TTTTAATAAATTTTAATAA
1 TTTTAATAAATTTT-ATAA
* *
58835262 TTTTAATAATTTTTACAA
1 TTTTAATAAATTTTATAA
58835280 CTTTTAAT
1 -TTTTAAT
58835288 GATTTGTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTAATAAATTTTATAA
Found at i:58835263 original size:9 final size:9
Alignment explanation
Indices: 58835243--58835274 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
58835233 TTTTTATAGT
58835243 TTTTAATAAA
1 TTTTAAT-AA
58835253 TTTTAATAA
1 TTTTAATAA
58835262 TTTTAATAA
1 TTTTAATAA
58835271 TTTT
1 TTTT
58835275 TACAACTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 15 0.68
10 7 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTTAATAA
Found at i:58844524 original size:40 final size:40
Alignment explanation
Indices: 58844469--58844546 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
58844459 AAAAAAAAAA
58844469 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
58844509 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
58844547 GTTACATCCG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:58852188 original size:42 final size:42
Alignment explanation
Indices: 58852088--58852242 Score: 134
Period size: 42 Copynumber: 3.7 Consensus size: 42
58852078 CAATAAGATG
* * ** *
58852088 TCAATGCCATGTCCCAGATATGGTCTT-TACATGGGATCTCACG
1 TCAATGCCATATCCCAAATATGGTCTTATAC--GAAATCTCACT
**
58852131 TCAATTTCATATCCCAAATATGGTCTTATACGAAATCTCACT
1 TCAATGCCATATCCCAAATATGGTCTTATACGAAATCTCACT
* * * * * *
58852173 TCAATGCCATGTCCCAGACATGGTTTTACACGAAACCTCA-T
1 TCAATGCCATATCCCAAATATGGTCTTATACGAAATCTCACT
**
58852214 ATCAACACCATATCCCAAATATGGTCTTA
1 -TCAATGCCATATCCCAAATATGGTCTTA
58852243 CATGATATCA
Statistics
Matches: 89, Mismatches: 21, Indels: 5
0.77 0.18 0.04
Matches are distributed among these distances:
41 1 0.01
42 62 0.70
43 23 0.26
44 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (42 bp):
TCAATGCCATATCCCAAATATGGTCTTATACGAAATCTCACT
Found at i:58852238 original size:84 final size:85
Alignment explanation
Indices: 58852088--58852242 Score: 213
Period size: 84 Copynumber: 1.8 Consensus size: 85
58852078 CAATAAGATG
* * ** * * ***
58852088 TCAATGCCATGTCCCAGATATGGTCTTTACATGGGATCTCACGTCAATTTCATATCCCAAATATG
1 TCAATGCCATGTCCCAGACATGGTCTTTACACGAAACCTCACATCAACACCATATCCCAAATATG
58852153 GTCTTATACGAAATCTCACT
66 GTCTTATACGAAATCTCACT
*
58852173 TCAATGCCATGTCCCAGACATGGT-TTTACACGAAACCTCATATCAACACCATATCCCAAATATG
1 TCAATGCCATGTCCCAGACATGGTCTTTACACGAAACCTCACATCAACACCATATCCCAAATATG
58852237 GTCTTA
66 GTCTTA
58852243 CATGATATCA
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 37 0.62
85 23 0.38
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (85 bp):
TCAATGCCATGTCCCAGACATGGTCTTTACACGAAACCTCACATCAACACCATATCCCAAATATG
GTCTTATACGAAATCTCACT
Found at i:58869843 original size:80 final size:79
Alignment explanation
Indices: 58869674--58869933 Score: 332
Period size: 79 Copynumber: 3.3 Consensus size: 79
58869664 TATTCGGATG
* * * *
58869674 ATAACCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTCGGGCTAAGCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGCCCGAAGGCA
58869738 TTTGTGC-AGGTTACT
65 TTTGTGCGA-GTTACT
* *
58869753 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAGTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAG-CCCGAAGGCA
58869818 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
* *
58869833 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCT-AGCCCCGAAGACA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAG-CCCGAAGGCA
*
58869897 TTTGAGCGAG-TAGCT
65 TTTGTGCGAGTTA-CT
* * *
58869912 ATATCC-GGTTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
58869934 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
78 16 0.10
79 73 0.45
80 72 0.44
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:58869893 original size:119 final size:118
Alignment explanation
Indices: 58869682--58869933 Score: 341
Period size: 119 Copynumber: 2.1 Consensus size: 118
58869672 TGATAACCGA
* **
58869682 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGCAG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGTGCAG
* * * *
58869747 GTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAG-TATATCCGG
66 GTTACTATAACCGGGCTAAGCCCCGAAGACATTTGAGCGAG-TAGCTATATCC-G
*
58869801 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGTGC
58869865 -GAGTTACTATAACCGGGCT-AGCCCCGAAGACATTTGAGCGAGTAGCTATATCCG
64 AG-GTTACTATAACCGGGCTAAGCCCCGAAGACATTTGAGCGAGTAGCTATATCCG
* *
58869919 GTTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
58869934 TACTTGGTTT
Statistics
Matches: 119, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
118 19 0.16
119 67 0.56
120 33 0.28
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (118 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGTGCAG
GTTACTATAACCGGGCTAAGCCCCGAAGACATTTGAGCGAGTAGCTATATCCG
Found at i:58869914 original size:39 final size:40
Alignment explanation
Indices: 58869682--58869933 Score: 336
Period size: 40 Copynumber: 6.4 Consensus size: 40
58869672 TGATAACCGA
* * *
58869682 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGG
58869722 GCTAAG-CCCGAAGGCATTTGTGC-AGGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTATATCCGG
*
58869761 GCTAAGTCCCGAAGGCATTTGTGCGAGTTAGTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
58869801 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
58869841 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* * *
58869881 GCT-AGCCCCGAAGACATTTGAGCGAG-TAGCTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
* *
58869919 GTTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
58869934 TACTTGGTTT
Statistics
Matches: 193, Mismatches: 13, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
38 6 0.03
39 68 0.35
40 118 0.61
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:58876813 original size:70 final size:70
Alignment explanation
Indices: 58876737--58876871 Score: 227
Period size: 70 Copynumber: 1.9 Consensus size: 70
58876727 TAGTTTATTA
* *
58876737 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGA-AAAATCTATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATC-ATGGT
58876801 GCTTAG
65 GCTTAG
*
58876807 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGTTGTCCAAATTAGGACAAAATCATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
58876872 TTATGTGCTA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
70 55 0.90
71 6 0.10
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
CTTAG
Found at i:58877796 original size:42 final size:43
Alignment explanation
Indices: 58877643--58877813 Score: 211
Period size: 43 Copynumber: 4.0 Consensus size: 43
58877633 TTATCGAAAT
* *
58877643 ATGATATACAGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAA
1 ATGATAT-CGGGCTTCAAGCCTAGCAGGCTATAATGCCGGTGAA
** *
58877687 ATGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAG
1 ATGATATCGGGCTTCAAGCCTAGCAGGCTATAATGCCGGTGAA
* * * * * *
58877730 ATAATATCGAGCCTCGAGCTTAGCAGGCTATAAT-ACGGTGAA
1 ATGATATCGGGCTTCAAGCCTAGCAGGCTATAATGCCGGTGAA
*
58877772 ATGATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 ATGATATCGGGCTTCAAGCCTAGCAGGCTATAATGCCGGTGAA
58877814 TGAATTCAGA
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
41 3 0.03
42 37 0.34
43 62 0.57
44 7 0.06
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (43 bp):
ATGATATCGGGCTTCAAGCCTAGCAGGCTATAATGCCGGTGAA
Found at i:58885165 original size:12 final size:12
Alignment explanation
Indices: 58885148--58885172 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58885138 TTTTCATACA
58885148 GCCTAGCACACG
1 GCCTAGCACACG
58885160 GCCTAGCACACG
1 GCCTAGCACACG
58885172 G
1 G
58885173 GTGTGTTGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.40, G:0.28, T:0.08
Consensus pattern (12 bp):
GCCTAGCACACG
Found at i:58890414 original size:27 final size:27
Alignment explanation
Indices: 58890383--58890560 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
58890373 TAAATTGTAC
*
58890383 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
58890410 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
58890436 ATGCACTAAGTGTGCGGATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
58890464 GGCACTAAGTGTGCGAGATGGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
58890492 GGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
58890519 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
58890546 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58890561 GGCTCAATAA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 101 0.81
28 24 0.19
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:58890497 original size:82 final size:81
Alignment explanation
Indices: 58890384--58890533 Score: 212
Period size: 82 Copynumber: 1.8 Consensus size: 81
58890374 AAATTGTACA
* * * *
58890384 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
58890448 TGCGGATTGACCATGCG
65 TGCGGATTGACCATGCG
** *
58890465 GCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-ATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
58890530 TGCG
65 TGCG
58890534 AGTTGATTAT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 15 0.25
82 44 0.73
83 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGGATTGACCATGCG
Found at i:58890551 original size:82 final size:81
Alignment explanation
Indices: 58890380--58890560 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
58890370 GATTAAATTG
* * * *
58890380 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
58890445 GTGTGCGGATTGACCA
66 GTGTGCGGATTGACCA
* * ** *
58890461 TGCGGCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-ATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
58890525 AAGTGTGC-GAGTTGATTA
64 AAGTGTGCGGA-TTGACCA
* *
58890543 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
58890561 GGCTCAATAA
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 20 0.24
82 62 0.76
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGGATTGACCA
Found at i:58898448 original size:27 final size:27
Alignment explanation
Indices: 58898417--58898594 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
58898407 TAAATTGTAC
*
58898417 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
58898444 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
58898470 ATGCACTAAGTGTGCGGATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
58898498 GGCACTAAGTGTGCGAGATGGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
58898526 GGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
58898553 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
58898580 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58898595 GGCTCAATAA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 101 0.81
28 24 0.19
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:58898531 original size:82 final size:81
Alignment explanation
Indices: 58898418--58898567 Score: 212
Period size: 82 Copynumber: 1.8 Consensus size: 81
58898408 AAATTGTACA
* * * *
58898418 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
58898482 TGCGGATTGACCATGCG
65 TGCGGATTGACCATGCG
** *
58898499 GCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-ATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
58898564 TGCG
65 TGCG
58898568 AGTTGATTAT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 15 0.25
82 44 0.73
83 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGGATTGACCATGCG
Found at i:58898585 original size:82 final size:81
Alignment explanation
Indices: 58898414--58898594 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
58898404 GATTAAATTG
* * * *
58898414 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
58898479 GTGTGCGGATTGACCA
66 GTGTGCGGATTGACCA
* * ** *
58898495 TGCGGCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-ATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
58898559 AAGTGTGC-GAGTTGATTA
64 AAGTGTGCGGA-TTGACCA
* *
58898577 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
58898595 GGCTCAATAA
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 20 0.24
82 62 0.76
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGGATTGACCA
Found at i:58900708 original size:27 final size:27
Alignment explanation
Indices: 58900670--58900724 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
58900660 AGGAGGGTGA
58900670 TGTAATTCATGGCCTTAATGATATAAC
1 TGTAATTCATGGCCTTAATGATATAAC
58900697 TGTAATTCATGGCCTTAATGATATAAC
1 TGTAATTCATGGCCTTAATGATATAAC
58900724 T
1 T
58900725 CACATTGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (27 bp):
TGTAATTCATGGCCTTAATGATATAAC
Found at i:58901727 original size:20 final size:21
Alignment explanation
Indices: 58901686--58901727 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
58901676 TTAGAATTAA
*
58901686 TTCCACACGGGCATGTTGCCC
1 TTCCACACGAGCATGTTGCCC
*
58901707 TTCCACACGAGCGTG-TGCCC
1 TTCCACACGAGCATGTTGCCC
58901727 T
1 T
58901728 GTTTCAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.14, C:0.38, G:0.24, T:0.24
Consensus pattern (21 bp):
TTCCACACGAGCATGTTGCCC
Found at i:58911068 original size:46 final size:47
Alignment explanation
Indices: 58910938--58911153 Score: 153
Period size: 46 Copynumber: 4.6 Consensus size: 47
58910928 GAGAGCCAGC
* * * * * *
58910938 GTAAGACCATGTCTGGAACATGGCATCAGTATTGAA-ATGAGAGTTAGT
1 GTAAGACTATGTCTGGGACATGGCATCGGCA-CGAAGATGA-AGTCAGT
* * * *
58910986 GTAAGAC-ATGTCTAGGATAT-GCATTGGC-CTTG-AGATGCAAGCCAGT
1 GTAAGACTATGTCTGGGACATGGCATCGGCAC--GAAGATG-AAGTCAGT
* * *
58911032 GTAAGA-TATGTTTGGGACAT-GCATCGGCTAC-AAGATG-TGTCAAT
1 GTAAGACTATGTCTGGGACATGGCATCGGC-ACGAAGATGAAGTCAGT
* *
58911076 GTAAGACCATGTCTGGGACATGGCATCGGCACGAATATGTTAAAGTCAGT
1 GTAAGACTATGTCTGGGACATGGCATCGGCACGAAGATG---AAGTCAGT
58911126 GTAAGACTATGTCTGGGACATGGCATCG
1 GTAAGACTATGTCTGGGACATGGCATCG
58911154 ACTTGATGTG
Statistics
Matches: 131, Mismatches: 22, Indels: 28
0.72 0.12 0.15
Matches are distributed among these distances:
44 10 0.08
45 15 0.11
46 55 0.42
47 11 0.08
48 8 0.06
50 32 0.24
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (47 bp):
GTAAGACTATGTCTGGGACATGGCATCGGCACGAAGATGAAGTCAGT
Found at i:58911138 original size:50 final size:46
Alignment explanation
Indices: 58911028--58911153 Score: 150
Period size: 50 Copynumber: 2.7 Consensus size: 46
58911018 AGATGCAAGC
*
58911028 CAGTGTAAGA-TATGTTTGGGACAT-GCATCGGCTACAAGATGTGT
1 CAGTGTAAGACTATGTCTGGGACATGGCATCGGCTACAAGATGTGT
* * *
58911072 CAATGTAAGACCATGTCTGGGACATGGCATCGGC-ACGAATATGTTAAAGT
1 CAGTGTAAGACTATGTCTGGGACATGGCATCGGCTAC-AAGATG-T---GT
58911122 CAGTGTAAGACTATGTCTGGGACATGGCATCG
1 CAGTGTAAGACTATGTCTGGGACATGGCATCG
58911154 ACTTGATGTG
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
44 9 0.13
45 14 0.20
46 13 0.19
47 1 0.01
50 32 0.46
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (46 bp):
CAGTGTAAGACTATGTCTGGGACATGGCATCGGCTACAAGATGTGT
Found at i:58911193 original size:47 final size:50
Alignment explanation
Indices: 58911075--58911198 Score: 139
Period size: 50 Copynumber: 2.5 Consensus size: 50
58911065 GATGTGTCAA
* * *
58911075 TGTAAGACCATGTCTGGGACATGGCATCGGCACGAATATGTTAAAGTCAG
1 TGTAAGAACATGTCTGGGACATGGCATCGACACGAATATGTTAAACTCAG
** * * *
58911125 TGTAAG-ACTATGTCTGGGACATGGCATCGACTTG-ATGTG-TGAACT-AT
1 TGTAAGAAC-ATGTCTGGGACATGGCATCGACACGAATATGTTAAACTCAG
58911172 TGTAAGAACATGTCTGGGACATGGCAT
1 TGTAAGAACATGTCTGGGACATGGCAT
58911199 TGGCATTATA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
47 25 0.39
48 6 0.09
49 5 0.08
50 28 0.44
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.27
Consensus pattern (50 bp):
TGTAAGAACATGTCTGGGACATGGCATCGACACGAATATGTTAAACTCAG
Found at i:58912187 original size:83 final size:83
Alignment explanation
Indices: 58912062--58912229 Score: 264
Period size: 83 Copynumber: 2.0 Consensus size: 83
58912052 AGAATTGCTA
58912062 ACGTTAGAAACAGAATGTCCAAGTTCTTGCACATAGGCTAAGACACAAGCGTGTCATAGCCGTGT
1 ACGTTAGAAACAGAATGTCCAAGTTCTTGCACATAGGCTAAGACACAAGCGTGTCATAGCCGTGT
58912127 GAGAGACACGGGCCATGG
66 GAGAGACACGGGCCATGG
* * * * * * *
58912145 ACGTTAGAAACAGAATGTCTAAGTTTTTGTACATGGGTTAAGACATAGGCGTGTCATAGCCGTGT
1 ACGTTAGAAACAGAATGTCCAAGTTCTTGCACATAGGCTAAGACACAAGCGTGTCATAGCCGTGT
*
58912210 GAGAGACATGGGCCATGG
66 GAGAGACACGGGCCATGG
58912228 AC
1 AC
58912230 ACGAGCGTGT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 77 1.00
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (83 bp):
ACGTTAGAAACAGAATGTCCAAGTTCTTGCACATAGGCTAAGACACAAGCGTGTCATAGCCGTGT
GAGAGACACGGGCCATGG
Found at i:58918722 original size:47 final size:45
Alignment explanation
Indices: 58918612--58918875 Score: 193
Period size: 46 Copynumber: 5.7 Consensus size: 45
58918602 TTAATTGTGT
* * *
58918612 GCTAGTGTAAGA-CATGTCTGGAACATGCATCAGC-CACATTACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTTA-A--ACGAGA
* *
58918658 GCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGAAACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGC-TT-AAACGAGA
* * * *
58918706 GCTAGTGTAAGA-CATGTCTAGGATATGCATTGGCCTTGAAATGCA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGG-CTT-AAACG-AGA
* *
58918752 GCCAGTGTAAGA-CATGTCTGGGACATGCATCGGC-TACAA-GATGT
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTTA-AACGA-GA
* ** *
58918796 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAATGTGTGA
1 GCT-AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTTAA-ACGAGA
*
58918843 GCTAGTGTAAGACCATGTCTGGGGCATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATC
58918876 AGATTATACC
Statistics
Matches: 181, Mismatches: 20, Indels: 33
0.77 0.09 0.14
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 13 0.07
45 15 0.08
46 62 0.34
47 60 0.33
48 26 0.14
50 1 0.01
51 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTTAAACGAGA
Found at i:58926115 original size:18 final size:17
Alignment explanation
Indices: 58926092--58926127 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
58926082 TTAATGCAAA
58926092 TTATTTTTATTTTTATTT
1 TTATTTTTA-TTTTATTT
58926110 TTATTTTTATTTTATTT
1 TTATTTTTATTTTATTT
58926127 T
1 T
58926128 AAATTAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (17 bp):
TTATTTTTATTTTATTT
Found at i:58926128 original size:5 final size:6
Alignment explanation
Indices: 58926092--58926127 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
58926082 TTAATGCAAA
58926092 TTATTT TTATTT TTATTT TTATTT TTA-TT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT T
58926128 AAATTAATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:58930311 original size:5 final size:5
Alignment explanation
Indices: 58930301--58930327 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
58930291 CAATACATAT
58930301 AGAAA AGAAA AGAAA AGAAA AGAAA AG
1 AGAAA AGAAA AGAAA AGAAA AGAAA AG
58930328 GGTGTGTGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:58934452 original size:15 final size:16
Alignment explanation
Indices: 58934425--58934461 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
58934415 ATCAAAATTC
58934425 TATTTTTATTTTATAT
1 TATTTTTATTTTATAT
*
58934441 TATTTTTA-TTTATTT
1 TATTTTTATTTTATAT
58934456 TATTTT
1 TATTTT
58934462 CTTTATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TATTTTTATTTTATAT
Done.