Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 364 of 425
Found at i:112295065 original size:46 final size:48
Alignment explanation
Indices: 112294921--112295184 Score: 178
Period size: 46 Copynumber: 5.7 Consensus size: 48
112294911 TTTATGTGCT
* *
112294921 AGTGTAAGA-CATGTCTTGGACAT-GCATCGGCCAT--ATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCC-TCGA-GATGTA-AGCC
** * * *
112294967 AGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGACG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA-AGCC
*
112295015 AGTGTAAGA-CATCTCTGGGACAT-GCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAAGCC
* * * * **
112295061 AGTGTAAGA-CATATCTGGAATAT-GCATTGG-CTACGAGATGT--GTA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTAAGCC
* * * * * * *
112295105 AGTGTAAGATCATGTCTGGGACATGGCATC-GACTTGATAGGTGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAAGCC
* *
112295152 AGTGTAAGACCATTTCTAGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
112295185 ATTATACCCT
Statistics
Matches: 175, Mismatches: 31, Indels: 22
0.77 0.14 0.10
Matches are distributed among these distances:
44 10 0.06
45 19 0.11
46 65 0.37
47 56 0.32
48 24 0.14
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAAGCC
Found at i:112295159 original size:47 final size:46
Alignment explanation
Indices: 112294918--112295183 Score: 177
Period size: 47 Copynumber: 5.7 Consensus size: 46
112294908 TTATTTATGT
* * * * * *
112294918 GCTAGTGTAAGACATGTCTTGGACATGCATCGGCCAT-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGACTTGA-GAGGTGA
* * *
112294964 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTA-TTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-ACTTGAGAGGTGA
* * * * *
112295012 GCTAGTGTAAGACATCTCTGGGACATGCATCGGCCTCGAGATGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGACTTGAGAGGTGA
* * * * * * *
112295058 GCCAGTGTAAGACATATCTGGAATATGCATTGG-C-T-ACGAGATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGACTTGA-GAGGTGA
*
112295102 G-TAAGTGTAAGATCATGTCTGGGACATGGCATC-GACTTGATAGGTGA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGACTTGAGAGGTGA
* *
112295149 GCTAGTGTAAGACCATTTCTAGGACATGGCATCGG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
112295184 CATTATACCC
Statistics
Matches: 172, Mismatches: 34, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 13 0.08
45 13 0.08
46 58 0.34
47 59 0.34
48 27 0.16
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGACTTGAGAGGTGA
Found at i:112296050 original size:30 final size:30
Alignment explanation
Indices: 112296014--112296078 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
112296004 CAAGGGCAGA
* *
112296014 GACACGGCTGTGTGCCTCAGCCATGTGAAG
1 GACACGGCTGTATGCCTCAACCATGTGAAG
* * *
112296044 GACACGGCTGTATGTCTTAACCTTGTGAAG
1 GACACGGCTGTATGCCTCAACCATGTGAAG
112296074 GACAC
1 GACAC
112296079 AACTTTTGGC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (30 bp):
GACACGGCTGTATGCCTCAACCATGTGAAG
Found at i:112296933 original size:19 final size:18
Alignment explanation
Indices: 112296909--112296948 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
112296899 AAGTAAATAT
* *
112296909 ATATAATATAATAAAGTAA
1 ATATAATAAAACAAAG-AA
112296928 ATATAATAAAACAAAGAA
1 ATATAATAAAACAAAGAA
112296946 ATA
1 ATA
112296949 AGTAAACGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (18 bp):
ATATAATAAAACAAAGAA
Found at i:112296989 original size:24 final size:24
Alignment explanation
Indices: 112296952--112297023 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
112296942 AGAAATAAGT
112296952 AAACGAATAAAGAAA-GAAAGAAACA
1 AAACGAA-AAAGAAAGGAAAGAAA-A
*
112296977 AAACGAAACAGAAAGGAAAGAAAA
1 AAACGAAAAAGAAAGGAAAGAAAA
* *
112297001 AAAAGAAAAAAAAAGGAAAGAAA
1 AAACGAAAAAGAAAGGAAAGAAA
112297024 GAAAGGGGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 27 0.64
25 15 0.36
ACGTcount: A:0.75, C:0.06, G:0.18, T:0.01
Consensus pattern (24 bp):
AAACGAAAAAGAAAGGAAAGAAAA
Found at i:112298005 original size:41 final size:41
Alignment explanation
Indices: 112297938--112298047 Score: 114
Period size: 41 Copynumber: 2.7 Consensus size: 41
112297928 GGTGCCAAGT
** * *
112297938 TACTTTGG-TTTAACCGATGAGACACTAGGTCTCGATTTAC
1 TACTTTGGATTTATTCGATAAGACACTAGGTCTCAATTTAC
*
112297978 TACTTTGGATTTATTCGATAAGACACTAGGTGTCAATTTAC
1 TACTTTGGATTTATTCGATAAGACACTAGGTCTCAATTTAC
* * * *
112298019 AACTTCTTCGAATTATTCGATAAGGCACT
1 TAC-T-TTGGATTTATTCGATAAGACACT
112298048 GGGTGCCAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
40 8 0.14
41 29 0.50
42 1 0.02
43 20 0.34
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.36
Consensus pattern (41 bp):
TACTTTGGATTTATTCGATAAGACACTAGGTCTCAATTTAC
Found at i:112306166 original size:23 final size:24
Alignment explanation
Indices: 112306112--112306168 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
112306102 TTAAAAATAC
*
112306112 TAAAAATATT-AAAATAAATATTT
1 TAAAAAAATTAAAAATAAATATTT
** *
112306135 CCAACAAATTAAAAATAAAT-TTT
1 TAAAAAAATTAAAAATAAATATTT
112306158 TAAAAAAATTA
1 TAAAAAAATTA
112306169 TACTTAAATA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.33
Consensus pattern (24 bp):
TAAAAAAATTAAAAATAAATATTT
Found at i:112306309 original size:19 final size:19
Alignment explanation
Indices: 112306287--112306326 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
112306277 GAAAAAAAGC
* *
112306287 AACAAGAAAATAGTAAAAA
1 AACAAGAAAAAAGCAAAAA
*
112306306 AACAATAAAAAAGCAAAAA
1 AACAAGAAAAAAGCAAAAA
112306325 AA
1 AA
112306327 AATACAATCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.78, C:0.07, G:0.07, T:0.07
Consensus pattern (19 bp):
AACAAGAAAAAAGCAAAAA
Found at i:112312593 original size:16 final size:16
Alignment explanation
Indices: 112312558--112312594 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
112312548 TAAAAAGGTT
*
112312558 TAAAATAAATAATGCG
1 TAAAATAAATAATGCA
*
112312574 TAAAATAAATAATGTA
1 TAAAATAAATAATGCA
112312590 TAAAA
1 TAAAA
112312595 ATATAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (16 bp):
TAAAATAAATAATGCA
Found at i:112313797 original size:5 final size:5
Alignment explanation
Indices: 112313787--112313811 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
112313777 ATTTTTCTTG
112313787 TAATT TAATT TAATT TAATT TAATT
1 TAATT TAATT TAATT TAATT TAATT
112313812 ATTTATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TAATT
Found at i:112318971 original size:6 final size:6
Alignment explanation
Indices: 112318960--112319011 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
112318950 TCCTCTTATC
* * * * *
112318960 TTTTTA TTTTTA TTTTTA TGTTTGA TTTTTC TTTCTA TTTCTA TTTTCA
1 TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA TTTTTA TTTTTA
112319009 TTT
1 TTT
112319012 CAATTTTATT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
6 33 0.87
7 5 0.13
ACGTcount: A:0.13, C:0.08, G:0.04, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:112323758 original size:226 final size:225
Alignment explanation
Indices: 112323334--112323784 Score: 706
Period size: 226 Copynumber: 2.0 Consensus size: 225
112323324 ATGTAATTTA
*
112323334 GTCTTCCTAGAAAACCTCAAACTTTTTTTTAGTATGCGACGGAGGCAATTCTTGTATGGCCCTGA
1 GTCTTCCTAGAAAACCTCAAACTTTTTTTGAGTATGCGACGGAGGCAATTCTTGTATGGCCCTGA
* * * *
112323399 CTTTGTCCAGGTCGATCTCAATTCCTTTTTCACTGACTACAAGATCTAGCAATTTTTCAGACATG
66 CTTTGTCCAGGTCGATCTCAATTCCTTTTTCACTGACTACAAAACCTAGCAATTTTCCAGACATA
*
112323464 GCTCCAAAAGTACACTTTGCTGGATTAAGCTTTAGCTGGAACTTTCTCAACCTTAAGAATAATTT
131 GCTCCAAAAGTACACTTTGCTAGATTAAGCTTTAGCTGGAACTTTCTCAACCTTAAGAATAATTT
*
112323529 CCTCAGGATTTGTACGTGTTCCTTCTCTGT
196 CCTCAGGACTTGTACGTGTTCCTTCTCTGT
* * * *
112323559 GTCTTCTTAGAAAACCTTGAAA-TTCTTTTTGAGTATGCGATGGAGGCAATTCTTGTATGGTCCT
1 GTCTTCCTAGAAAACC-TCAAACTT-TTTTTGAGTATGCGACGGAGGCAATTCTTGTATGGCCCT
** * *
112323623 GACTTTGTCTGGGTGGATCTCAATTCCTTTTTCACTGACTACAAAACCTAGCAATTTTCCAGACC
64 GACTTTGTCCAGGTCGATCTCAATTCCTTTTTCACTGACTACAAAACCTAGCAATTTTCCAGACA
* * *
112323688 TAGCTTCGAAAGTACACTTTGTTAGATTAAGCTTTAGCTGGAACTTTCTCAACCTTAAGAATAAT
129 TAGCTCCAAAAGTACACTTTGCTAGATTAAGCTTTAGCTGGAACTTTCTCAACCTTAAGAATAAT
*
112323753 TTCCTCAGGACTTGTACGTGTTCTTTCTCTGT
194 TTCCTCAGGACTTGTACGTGTTCCTTCTCTGT
112323785 TCTAGACTTT
Statistics
Matches: 205, Mismatches: 19, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
225 17 0.08
226 188 0.92
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (225 bp):
GTCTTCCTAGAAAACCTCAAACTTTTTTTGAGTATGCGACGGAGGCAATTCTTGTATGGCCCTGA
CTTTGTCCAGGTCGATCTCAATTCCTTTTTCACTGACTACAAAACCTAGCAATTTTCCAGACATA
GCTCCAAAAGTACACTTTGCTAGATTAAGCTTTAGCTGGAACTTTCTCAACCTTAAGAATAATTT
CCTCAGGACTTGTACGTGTTCCTTCTCTGT
Found at i:112333009 original size:20 final size:20
Alignment explanation
Indices: 112332984--112333022 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
112332974 TTTGTTCTGT
112332984 TTCTTTCTT-TTATTTCTTTA
1 TTCTTT-TTATTATTTCTTTA
112333004 TTCTTTTTATTATTTCTTT
1 TTCTTTTTATTATTTCTTT
112333023 TATTTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (20 bp):
TTCTTTTTATTATTTCTTTA
Found at i:112333054 original size:13 final size:13
Alignment explanation
Indices: 112333036--112333073 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
112333026 TTATTTTACT
112333036 TTATATTATTATA
1 TTATATTATTATA
*
112333049 TTATATTTTTA-A
1 TTATATTATTATA
112333061 TTATAATTATTAT
1 TTAT-ATTATTAT
112333074 TTCTTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATATTATTATA
Found at i:112346681 original size:18 final size:17
Alignment explanation
Indices: 112346658--112346691 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
112346648 ACCAACTTAA
112346658 ATGAAAATTTAATAAATG
1 ATGAAAATTTAA-AAATG
*
112346676 ATGAAACTTTAAAAAT
1 ATGAAAATTTAAAAAT
112346692 AAAAGTCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.32
Consensus pattern (17 bp):
ATGAAAATTTAAAAATG
Found at i:112346870 original size:18 final size:18
Alignment explanation
Indices: 112346829--112346870 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
112346819 ATTACTTTAT
112346829 TAATAATTATTTTTTAAAA
1 TAAT-ATTATTTTTTAAAA
* *
112346848 AAATATTATTTTTTTAAA
1 TAATATTATTTTTTAAAA
112346866 TAATA
1 TAATA
112346871 CCTAAAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TAATATTATTTTTTAAAA
Found at i:112347941 original size:2 final size:2
Alignment explanation
Indices: 112347934--112347980 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
112347924 TATATGGTTT
112347934 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
112347976 TA TA T
1 TA TA T
112347981 TCATTGTTAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:112350826 original size:21 final size:21
Alignment explanation
Indices: 112350801--112350869 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
112350791 TATAATGATT
112350801 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
112350822 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
112350842 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
112350862 ATTATTAT
1 ATTATTAT
112350870 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:112350882 original size:15 final size:14
Alignment explanation
Indices: 112350856--112350886 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
112350846 TATGGTTTTA
112350856 TATTAGATTATTAT
1 TATTAGATTATTAT
112350870 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
112350885 TA
1 TA
112350887 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:112351224 original size:14 final size:14
Alignment explanation
Indices: 112351199--112351232 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
112351189 AAAGAATTAA
112351199 AGAAACAAAGAAAC
1 AGAAACAAAGAAAC
112351213 A-AAACAAAAGAAAC
1 AGAAAC-AAAGAAAC
112351227 AGAAAC
1 AGAAAC
112351233 GAAGCAGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 10 0.56
15 4 0.22
ACGTcount: A:0.74, C:0.15, G:0.12, T:0.00
Consensus pattern (14 bp):
AGAAACAAAGAAAC
Found at i:112355834 original size:20 final size:20
Alignment explanation
Indices: 112355797--112355834 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
112355787 TGATGGGGAG
*
112355797 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
112355817 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
112355835 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:112357786 original size:46 final size:46
Alignment explanation
Indices: 112357734--112358008 Score: 417
Period size: 46 Copynumber: 6.0 Consensus size: 46
112357724 ACTGTGCTCT
*
112357734 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
112357780 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
112357826 CTGATATGAAATGTGTAAGACCATGGTTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGG-TTGAAAGATACCATGGCAAC
*
112357873 CTGATATGAAATGTGTAATACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
112357919 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
112357965 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
112358009 TCATGTCAAA
Statistics
Matches: 213, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
45 1 0.00
46 167 0.78
47 45 0.21
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:112357896 original size:93 final size:92
Alignment explanation
Indices: 112357734--112358008 Score: 417
Period size: 93 Copynumber: 3.0 Consensus size: 92
112357724 ACTGTGCTCT
*
112357734 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
112357799 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
112357826 CTGATATGAAATGTGTAAGACCATGGTTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAA
1 CTGATATGAAATGTGTAAGACCATGG-TTGAAAGATACCATGGCAACCTGATATGAAATGTGTAA
*
112357891 TACCATGGTTGAAAGATACCATGGCAAC
65 GACCATGGTTGAAAGATACCATGGCAAC
* *** * * *
112357919 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATGTGTAA
* * *
112357983 GACCATAGTTGAAAGACACTATGGCA
65 GACCATGGTTGAAAGATACCATGGCA
112358009 TCATGTCAAA
Statistics
Matches: 168, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
91 1 0.01
92 81 0.48
93 86 0.51
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:112357984 original size:139 final size:138
Alignment explanation
Indices: 112357734--112358008 Score: 417
Period size: 139 Copynumber: 2.0 Consensus size: 138
112357724 ACTGTGCTCT
* ***
112357734 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAG
* * * * *
112357799 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTTGAAAGATAC
66 ACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAG-TTGAAAGACAC
112357864 CATGGCAAC
130 CATGGCAAC
* *
112357873 CTGATATGAAATGTGTAATACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAG
112357938 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACAC
66 ACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGACAC
*
112358002 TATGGCA
130 CATGGCA
112358009 TCATGTCAAA
Statistics
Matches: 123, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
138 17 0.14
139 106 0.86
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (138 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAG
ACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACC
ATGGCAAC
Found at i:112359552 original size:25 final size:25
Alignment explanation
Indices: 112359524--112359573 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
112359514 ATTCTCGAAG
112359524 ATAGCACTACCAATGACTAAACTAC
1 ATAGCACTACCAATGACTAAACTAC
112359549 ATAGCACTACCAATGACTAAACTAC
1 ATAGCACTACCAATGACTAAACTAC
112359574 TGCAGAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.28, G:0.08, T:0.20
Consensus pattern (25 bp):
ATAGCACTACCAATGACTAAACTAC
Found at i:112361929 original size:21 final size:21
Alignment explanation
Indices: 112361904--112361972 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
112361894 TATAATGATT
112361904 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
112361925 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
112361945 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
112361965 ATTATTAT
1 ATTATTAT
112361973 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:112361985 original size:15 final size:14
Alignment explanation
Indices: 112361959--112361989 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
112361949 TATGGTTTTA
112361959 TATTAGATTATTAT
1 TATTAGATTATTAT
112361973 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
112361988 TA
1 TA
112361990 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:112362328 original size:14 final size:14
Alignment explanation
Indices: 112362304--112362336 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
112362294 AAGAATTAAG
112362304 GAAACAAAGAAACA
1 GAAACAAAGAAACA
112362318 -AAACAAAAGAAACA
1 GAAAC-AAAGAAACA
112362332 GAAAC
1 GAAAC
112362337 GAAGCAGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.24
14 9 0.53
15 4 0.24
ACGTcount: A:0.73, C:0.15, G:0.12, T:0.00
Consensus pattern (14 bp):
GAAACAAAGAAACA
Found at i:112382923 original size:18 final size:18
Alignment explanation
Indices: 112382902--112382940 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
112382892 TTTTAGATTA
*
112382902 AATTTTATTTTTAAAAT-T
1 AATTTT-TTTTAAAAATAT
112382920 AATTTTTTTTAAAAATAT
1 AATTTTTTTTAAAAATAT
112382938 AAT
1 AAT
112382941 ACACTAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTTTTTTTAAAAATAT
Found at i:112387937 original size:9 final size:9
Alignment explanation
Indices: 112387923--112387949 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
112387913 TATGTATACA
112387923 CAACCAAAC
1 CAACCAAAC
112387932 CAACCAAAC
1 CAACCAAAC
112387941 CAACCAAAC
1 CAACCAAAC
112387950 TATTAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.44, G:0.00, T:0.00
Consensus pattern (9 bp):
CAACCAAAC
Found at i:112395593 original size:21 final size:19
Alignment explanation
Indices: 112395569--112395610 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
112395559 GTAACTTTTA
112395569 ATGTTTACATTATAATATTAT
1 ATGTTTA-ATT-TAATATTAT
*
112395590 ATGTTTAATTTAATTTTAT
1 ATGTTTAATTTAATATTAT
112395609 AT
1 AT
112395611 AAATTACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 3 0.15
21 7 0.35
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (19 bp):
ATGTTTAATTTAATATTAT
Found at i:112398075 original size:2 final size:2
Alignment explanation
Indices: 112398068--112398104 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
112398058 ACCATCCTAT
112398068 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
112398105 TCTCATGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:112400234 original size:2 final size:2
Alignment explanation
Indices: 112400227--112400269 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
112400217 TCATCTTTCT
* * *
112400227 TC TC TC TC TC TC TC GC TC TC GC TC TC TC TC TC CC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
112400269 T
1 T
112400270 GTCACTAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.05, T:0.44
Consensus pattern (2 bp):
TC
Found at i:112401405 original size:2 final size:2
Alignment explanation
Indices: 112401393--112401424 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
112401383 TATTGGTGTT
*
112401393 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
112401425 GCATTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:112405193 original size:2 final size:2
Alignment explanation
Indices: 112405181--112405226 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
112405171 ATTTCAGGTT
*
112405181 GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
112405223 GA GA
1 GA GA
112405227 ATATGTGAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:112408431 original size:17 final size:17
Alignment explanation
Indices: 112408412--112408447 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
112408402 AAGAAGGTAT
112408412 AAATATTATTAAATATTAA
1 AAATA-TATT-AATATTAA
112408431 AAATATATTAATATTAA
1 AAATATATTAATATTAA
112408448 TATAAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 4 0.24
19 5 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATATATTAATATTAA
Found at i:112408510 original size:22 final size:23
Alignment explanation
Indices: 112408476--112408518 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
112408466 TAAAATTAAT
*
112408476 AAAATATATTTAAATTTTATAAA
1 AAAATATATTTAAATTCTATAAA
*
112408499 AAAATGTA-TTAAATTCTATA
1 AAAATATATTTAAATTCTATA
112408519 GAAATCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
AAAATATATTTAAATTCTATAAA
Found at i:112408576 original size:16 final size:16
Alignment explanation
Indices: 112408543--112408575 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
112408533 TATTAAAATT
*
112408543 AATATAAACTTATAAA
1 AATATAAACTTAAAAA
112408559 AATATAAA-TTAAAAA
1 AATATAAACTTAAAAA
112408574 AA
1 AA
112408576 AAAACATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AATATAAACTTAAAAA
Found at i:112408730 original size:17 final size:16
Alignment explanation
Indices: 112408697--112408728 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
112408687 CGGTTGAACC
*
112408697 AAATTTTTTTATTTTT
1 AAATATTTTTATTTTT
112408713 AAATATTTTTATTTTT
1 AAATATTTTTATTTTT
112408729 TATTTTATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
AAATATTTTTATTTTT
Found at i:112409084 original size:8 final size:8
Alignment explanation
Indices: 112409065--112409143 Score: 52
Period size: 9 Copynumber: 8.9 Consensus size: 8
112409055 TTTGAATTAT
112409065 TTTTATTAA
1 TTTTA-TAA
112409074 TTTTATAA
1 TTTTATAA
112409082 TTTATTTATAA
1 --T-TTTATAA
112409093 -TTTATTAGA
1 TTTTA-TA-A
*
112409102 TTTTTATAT
1 -TTTTATAA
112409111 TTTTATAA
1 TTTTATAA
112409119 TATTTATAA
1 T-TTTATAA
112409128 TTTTAATAA
1 TTTT-ATAA
*
112409137 GTTTATA
1 TTTTATA
112409144 TCAATATTTA
Statistics
Matches: 58, Mismatches: 3, Indels: 19
0.73 0.04 0.24
Matches are distributed among these distances:
7 4 0.07
8 19 0.33
9 21 0.36
10 3 0.05
11 11 0.19
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (8 bp):
TTTTATAA
Found at i:112412839 original size:23 final size:25
Alignment explanation
Indices: 112412802--112412849 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
112412792 ATAAATAAAA
*
112412802 TTTTAAAATTATAATTA-TTAATTT
1 TTTTAAAATTATAATAATTTAATTT
*
112412826 TTTTAGAATT-TAATAATTTAATTT
1 TTTTAAAATTATAATAATTTAATTT
112412850 AAGTTCGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
TTTTAAAATTATAATAATTTAATTT
Found at i:112424315 original size:14 final size:14
Alignment explanation
Indices: 112424293--112424349 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
112424283 AAAGAAAAAG
112424293 AAAAA-GAAAACAA
1 AAAAATGAAAACAA
*
112424306 AAAAATGAAAAGAA
1 AAAAATGAAAACAA
* *
112424320 AAAAATGACAAGAA
1 AAAAATGAAAACAA
* *
112424334 AAAAAAGAAATCAA
1 AAAAATGAAAACAA
112424348 AA
1 AA
112424350 GCCAGAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
13 5 0.14
14 32 0.86
ACGTcount: A:0.79, C:0.05, G:0.11, T:0.05
Consensus pattern (14 bp):
AAAAATGAAAACAA
Found at i:112424333 original size:33 final size:31
Alignment explanation
Indices: 112424279--112424350 Score: 85
Period size: 33 Copynumber: 2.3 Consensus size: 31
112424269 GTTGATAGTC
112424279 ATGAAAAGAAAAAGAAAAAGAAAACAAAA-AA
1 ATGAAAAGAAAAAGAAAAAGAAAA-AAAAGAA
112424310 ATGAAAAGAAAAA-AATGACAAGAAAAAAAAGAA
1 ATGAAAAGAAAAAGAA--A-AAGAAAAAAAAGAA
*
112424343 ATCAAAAG
1 ATGAAAAG
112424351 CCAGAAAGAG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
30 2 0.06
31 13 0.36
32 5 0.14
33 16 0.44
ACGTcount: A:0.76, C:0.04, G:0.14, T:0.06
Consensus pattern (31 bp):
ATGAAAAGAAAAAGAAAAAGAAAAAAAAGAA
Found at i:112426633 original size:73 final size:72
Alignment explanation
Indices: 112426497--112426727 Score: 309
Period size: 73 Copynumber: 3.2 Consensus size: 72
112426487 TTGATGTTTT
* *
112426497 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCATGCTGAGGT
1 ATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
*
112426562 AATTTCA
66 ATTTTCA
* ** * * * *
112426569 ATTTCTATTTGTCAAAACTCAACTCATATTGCGAGAAATGAGTCGAGCCTCAAGACACGTTGAGG
1 ATTTCTATTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
112426634 TATTTTCA
65 TATTTTCA
* *
112426642 ATTTATGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
1 ATTTCT-ATTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
112426707 GGTATTTTCA
63 GGTATTTTCA
*
112426717 ATTTCCATTTT
1 ATTTCTATTTT
112426728 TCAATTTATG
Statistics
Matches: 133, Mismatches: 22, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
72 9 0.07
73 60 0.45
74 7 0.05
75 57 0.43
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (72 bp):
ATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
ATTTTCA
Found at i:112426821 original size:16 final size:16
Alignment explanation
Indices: 112426800--112426830 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
112426790 CTGAGGTAAT
*
112426800 TTCAATTTCTGTTTTC
1 TTCAATTTATGTTTTC
112426816 TTCAATTTATGTTTT
1 TTCAATTTATGTTTT
112426831 TCAAAAATCA
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:0.16, C:0.13, G:0.06, T:0.65
Consensus pattern (16 bp):
TTCAATTTATGTTTTC
Found at i:112426824 original size:89 final size:90
Alignment explanation
Indices: 112426638--112426980 Score: 466
Period size: 89 Copynumber: 4.0 Consensus size: 90
112426628 TTGAGGTATT
*
112426638 TTCAATTTATGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTCAATTTATGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* **
112426703 CTGAGGTATTTTCAATTTC-CATTT-
65 CTGAGGTAATTTCAATTTCTGTTTTC
*
112426727 TTCAATTTATGCTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
112426791 TGAGGTAATTTCAATTTCTGTTTTC
66 TGAGGTAATTTCAATTTCTGTTTTC
* * *
112426816 TTCAATTTATGTTTTTC-AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* *
112426880 TGAGGTATTTTCAA--T-T-TTTGC
66 TGAGGTAATTTCAATTTCTGTTTTC
112426901 TTC------TGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACGC
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
112426958 TGAGGTAATTTCAATTTATGTTT
66 TGAGGTAATTTCAATTTCTGTTT
112426981 GTCAAAAAAA
Statistics
Matches: 233, Mismatches: 14, Indels: 21
0.87 0.05 0.08
Matches are distributed among these distances:
78 17 0.07
79 7 0.03
80 41 0.18
81 1 0.00
82 3 0.01
85 7 0.03
86 1 0.00
87 63 0.27
88 3 0.01
89 90 0.39
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (90 bp):
TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAATTTCAATTTCTGTTTTC
Found at i:112427008 original size:73 final size:73
Alignment explanation
Indices: 112426816--112427091 Score: 323
Period size: 73 Copynumber: 3.8 Consensus size: 73
112426806 TTCTGTTTTC
* *
112426816 TTCAATTTATGTTTTTC-AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTCAATTTATGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GGCACGC
112426880 TGAGGTATT
65 TGAGGTATT
*
112426889 TTCAATTTTTGCTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
1 TTCAATTTATG-TT-TG----TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
112426954 -ACGCTGAGGTAAT
60 CACGCTGAGGTATT
* *
112426967 TTCAATTTATGTTTGTCAAAAAAATCAACTCATATTCCGAGAGGTGAGTTGAGCCTCGGGGCACG
1 TTCAATTTATGTTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGCACG
112427032 CTGAGGTATT
64 CTGAGGTATT
* * ** *
112427042 TTTAGTTTATGTTT-T----AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTCAATTTATGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
112427092 TTTAATTTTT
Statistics
Matches: 179, Mismatches: 14, Indels: 24
0.82 0.06 0.11
Matches are distributed among these distances:
69 31 0.17
72 2 0.01
73 48 0.27
74 5 0.03
75 25 0.14
76 2 0.01
77 2 0.01
78 22 0.12
79 4 0.02
80 38 0.21
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (73 bp):
TTCAATTTATGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACGCT
GAGGTATT
Found at i:112427249 original size:127 final size:125
Alignment explanation
Indices: 112426986--112427346 Score: 455
Period size: 127 Copynumber: 2.9 Consensus size: 125
112426976 TGTTTGTCAA
* * * * * *
112426986 AAAAATCAACTCATATTCCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
** **
112427051 TGTTTTAA-ATTGACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTTTTGTTTTTC
66 TGTTTTAAGATCAACTCATATTGCGAGAGGTGAGTTGAAGCCTTTTAATTTTACTTTTTC
*
112427109 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* *
112427174 TGTTTGTCAAGAGTCAACTCATATTGCAAGAGGTGGGTTGAA-CCTTTTAATTTCTACTTTTTC
66 TGTTT-T-AAGA-TCAACTCATATTGCGAGAGGTGAGTTGAAGCCTTTTAATTT-TACTTTTTC
* *
112427237 -AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCA-GATCACGCCGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACGCTGAGGTATTTTCAATTT
*
112427300 CTTTTTTTAGAAGAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCT
65 C-TGTTTT--AAG-ATCAACTCATATTGCGAGAGGTGAGTTGAAGCCT
112427347 CGGGTCACAT
Statistics
Matches: 207, Mismatches: 20, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
123 63 0.30
124 1 0.00
125 2 0.01
126 3 0.01
127 93 0.45
128 44 0.21
129 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (125 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTAAGATCAACTCATATTGCGAGAGGTGAGTTGAAGCCTTTTAATTTTACTTTTTC
Found at i:112427387 original size:14 final size:14
Alignment explanation
Indices: 112427368--112427394 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
112427358 TCGAGGTATT
112427368 TTCAAATTCTGTTA
1 TTCAAATTCTGTTA
112427382 TTCAAATTCTGTT
1 TTCAAATTCTGTT
112427395 TTTAATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (14 bp):
TTCAAATTCTGTTA
Found at i:112427588 original size:73 final size:71
Alignment explanation
Indices: 112427412--112427781 Score: 242
Period size: 73 Copynumber: 5.4 Consensus size: 71
112427402 TTTACTTTCC
* * * * * * * *
112427412 TAAAATTAACTCATATTGTGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTTAGTTT
1 TAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTCAATTT
112427477 ATGTTT
66 ATGTTT
**
112427483 TAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTTCAATTT
1 TAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTCAATTT
*
112427547 CTGTTT
66 ATGTTT
* * * *** ** *
112427553 GTCAAGAATCAACTCATATGGCGAGAGGTGGGTTGAACCT-TTTA-ATTTCT-A-CT-T-TTTCA
1 -T-AA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA-CGCTGAGGTATATTTCA
112427612 A---A-----
62 ATTTATGTTT
* * * * *
112427614 ----ACCAGCTCATATTGTGAGAGGTGAGTTGAGCCTCACGACACGATGAGGTA-ATTTCAATTT
1 TAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTCAATTT
*
112427674 CTGTTT
66 ATGTTT
*
112427680 GTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTA-ATTTCAA
1 -T-AA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTCAA
* *
112427744 TTTCTATTT
63 TTTATGTTT
112427753 GTCAAGAATCAACTCATATTGCGAGAGGT
1 -T-AA-AATCAACTCATATTGCGAGAGGT
112427782 AGGTTGAACC
Statistics
Matches: 231, Mismatches: 42, Indels: 50
0.72 0.13 0.15
Matches are distributed among these distances:
54 27 0.12
55 2 0.01
56 2 0.01
57 1 0.00
58 6 0.03
69 6 0.03
70 13 0.06
71 50 0.22
72 5 0.02
73 119 0.52
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (71 bp):
TAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTCAATTT
ATGTTT
Found at i:112427788 original size:73 final size:73
Alignment explanation
Indices: 112427596--112427781 Score: 302
Period size: 73 Copynumber: 2.5 Consensus size: 73
112427586 TGAACCTTTT
* * * *
112427596 AATTTCTACTTTTTCAA-AACCAGCTCATATTGTGAGAGGTGAGTTGAGCCTCACGACACGATGA
1 AATTTCTA-TTTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACGACACGATGA
112427660 GGTAATTTC
65 GGTAATTTC
* *
112427669 AATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAG
1 AATTTCTATTTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACGACACGATGAG
112427734 GTAATTTC
66 GTAATTTC
112427742 AATTTCTATTTGTCAAGAATCAACTCATATTGCGAGAGGT
1 AATTTCTATTTGTCAAGAATCAACTCATATTGCGAGAGGT
112427782 AGGTTGAACC
Statistics
Matches: 105, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
72 7 0.07
73 98 0.93
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (73 bp):
AATTTCTATTTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACGACACGATGAG
GTAATTTC
Found at i:112427883 original size:14 final size:14
Alignment explanation
Indices: 112427864--112427898 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
112427854 CGCTGAGGTA
* *
112427864 TTTTCAATTTCTGC
1 TTTTCAATTCCTAC
112427878 TTTTCAATTCCTAC
1 TTTTCAATTCCTAC
112427892 TTTTCAA
1 TTTTCAA
112427899 AAAAAATCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.23, G:0.03, T:0.54
Consensus pattern (14 bp):
TTTTCAATTCCTAC
Found at i:112427946 original size:90 final size:90
Alignment explanation
Indices: 112427811--112427974 Score: 251
Period size: 90 Copynumber: 1.8 Consensus size: 90
112427801 CTACTTTTTC
* * * *
112427811 AAAATCAGCTCATATTGCGAGAGGTGAGTCGAGCCTCGGGGCACGCTGAGGTA-TTTTCAATTTC
1 AAAATCAGCTCATATTGCGAGAGGTGAGTCGAGCCTCAGGACACGCTAAAGTAGTTTT-AATTTC
112427875 TGCTTT-TCAATTCCTACTTTTCAAAA
65 TG-TTTGTCAATTCCTACTTTTCAAAA
*
112427901 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAAGTAGTTTTAATTTCT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTCGAGCCTCAGGACACGCTAAAGTAGTTTTAATTTCT
112427966 GTTTGTCAA
66 GTTTGTCAA
112427975 AAATTAACTC
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
89 3 0.04
90 60 0.90
91 4 0.06
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (90 bp):
AAAATCAGCTCATATTGCGAGAGGTGAGTCGAGCCTCAGGACACGCTAAAGTAGTTTTAATTTCT
GTTTGTCAATTCCTACTTTTCAAAA
Found at i:112428048 original size:14 final size:14
Alignment explanation
Indices: 112428029--112428057 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
112428019 TGCTGGGGTC
112428029 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
112428043 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
112428057 T
1 T
112428058 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:112428147 original size:161 final size:160
Alignment explanation
Indices: 112427792--112428258 Score: 516
Period size: 161 Copynumber: 2.9 Consensus size: 160
112427782 AGGTTGAACC
* * * *
112427792 TTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTCGAGCCTCGGGGCAC--
1 TTTTAATTTCTGCTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAT
* * ** *
112427855 GCTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTACTTTTCAAAAAAAATCAGCTCATATTGCG
65 GCTGAGGTATTTTCAATTTCTGTTTTTCAATT--T-CTGTTC-ATCAAAATCAACTCATATTGCG
112427920 AGAGGTGAGTTGAGCCTCAGGACACGCTAAAGTAG
126 AGAGGTGAGTTGAGCCTCAGGACACGCTAAAGTAG
* * * *
112427955 TTTTAATTTCTG-TTTGTCAAAAATTAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACA
1 TTTTAATTTCTGCTTT-T-TAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
* * *
112428019 TGCTGGGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGA
64 TGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTCATCAAAATCAACTCATATTGCGAGA
* * *
112428084 GGTAAGTTGAGCCTCAAGG-CACGCTGAGGTA-
129 GGTGAGTTGAGCCTC-AGGACACGCTAAAGTAG
* *
112428115 TTTTCAATTTAC-GCTTTTTAATAATCAACTCATATTACGAAAGGTGAGTTGAGCCTCGGGTCAC
1 TTTT-AATTT-CTGCTTTTTAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* ** ** * *
112428179 ATGCCGAGGTATTTTCAAAATCTGTTTGGCAAATTCTGTT-TTCAAAAATCAACTCATATTGCGA
63 ATGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTCATC-AAAATCAACTCATATTGCGA
*
112428243 GAAGTGAGTTGAGCCT
127 GAGGTGAGTTGAGCCT
112428259 TTGCTCACGT
Statistics
Matches: 258, Mismatches: 36, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
160 8 0.03
161 155 0.60
162 15 0.06
163 51 0.20
165 29 0.11
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.34
Consensus pattern (160 bp):
TTTTAATTTCTGCTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG
CTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTCATCAAAATCAACTCATATTGCGAGAGG
TGAGTTGAGCCTCAGGACACGCTAAAGTAG
Found at i:112432087 original size:24 final size:24
Alignment explanation
Indices: 112432060--112432111 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
112432050 AACATGATAG
112432060 CACTGAAGTCAATTACAAGACAAA
1 CACTGAAGTCAATTACAAGACAAA
112432084 CACTGAAGTCAATTACAAGACAAA
1 CACTGAAGTCAATTACAAGACAAA
112432108 CACT
1 CACT
112432112 AGAATAGTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.48, C:0.23, G:0.12, T:0.17
Consensus pattern (24 bp):
CACTGAAGTCAATTACAAGACAAA
Found at i:112441750 original size:39 final size:39
Alignment explanation
Indices: 112441707--112441784 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
112441697 AAACAACATG
112441707 AAATAAAGAAAATTAATGTAAGTGGAAGAATAATCAATC
1 AAATAAAGAAAATTAATGTAAGTGGAAGAATAATCAATC
112441746 AAATAAAGAAAATTAATGTAAGTGGAAGAATAATCAATC
1 AAATAAAGAAAATTAATGTAAGTGGAAGAATAATCAATC
112441785 TTGGGACTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.56, C:0.05, G:0.15, T:0.23
Consensus pattern (39 bp):
AAATAAAGAAAATTAATGTAAGTGGAAGAATAATCAATC
Found at i:112442563 original size:11 final size:11
Alignment explanation
Indices: 112442547--112442571 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
112442537 GGGTGGATGT
112442547 AAATTTTGCGG
1 AAATTTTGCGG
112442558 AAATTTTGCGG
1 AAATTTTGCGG
112442569 AAA
1 AAA
112442572 ATGAAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (11 bp):
AAATTTTGCGG
Found at i:112444800 original size:5 final size:5
Alignment explanation
Indices: 112444790--112444820 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
112444780 TTAGTTGTTA
112444790 TATTT TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
112444821 TGTACTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:112447368 original size:2 final size:2
Alignment explanation
Indices: 112447361--112447393 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
112447351 TATATTATGT
112447361 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
112447394 TATGTAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:112447815 original size:16 final size:16
Alignment explanation
Indices: 112447794--112447828 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
112447784 CACCTGTTCT
112447794 TGGCAAGGTAGATCCA
1 TGGCAAGGTAGATCCA
112447810 TGGCAAGGTAGATCCA
1 TGGCAAGGTAGATCCA
112447826 TGG
1 TGG
112447829 TGCTCCATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.17, G:0.34, T:0.20
Consensus pattern (16 bp):
TGGCAAGGTAGATCCA
Found at i:112451015 original size:25 final size:25
Alignment explanation
Indices: 112450983--112451034 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
112450973 TTACTGGACT
112450983 AAGGTTATGAGGCATTACTGTATAA
1 AAGGTTATGAGGCATTACTGTATAA
112451008 AAGGTTATGAGGCATTACTGTATAA
1 AAGGTTATGAGGCATTACTGTATAA
112451033 AA
1 AA
112451035 CACAGTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (25 bp):
AAGGTTATGAGGCATTACTGTATAA
Found at i:112456789 original size:20 final size:21
Alignment explanation
Indices: 112456746--112456791 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
112456736 ACTGTTCTGT
112456746 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
112456766 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
112456785 TATGGGC
1 TATGGGC
112456792 AAGGCCAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:112456931 original size:27 final size:28
Alignment explanation
Indices: 112456879--112456931 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
112456869 TTACTGTAAG
* *
112456879 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
*
112456907 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
112456932 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:112462245 original size:20 final size:21
Alignment explanation
Indices: 112462202--112462247 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
112462192 ACTGTTCTGT
112462202 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
112462222 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
112462241 TATGGGC
1 TATGGGC
112462248 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:112462388 original size:27 final size:28
Alignment explanation
Indices: 112462336--112462388 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
112462326 TTACTGTAAG
* *
112462336 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
*
112462364 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
112462389 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:112463803 original size:18 final size:18
Alignment explanation
Indices: 112463765--112463881 Score: 132
Period size: 18 Copynumber: 6.6 Consensus size: 18
112463755 TTTATTGTTT
*
112463765 AGTAACAGTCAGTCA-TC
1 AGTAACAGTCAGTTATTC
* *
112463782 AGTAATAATCAGTTATTC
1 AGTAACAGTCAGTTATTC
112463800 AGTAACAGTC-GTTTATTC
1 AGTAACAGTCAG-TTATTC
* * *
112463818 AATATCAGTCAATTATTC
1 AGTAACAGTCAGTTATTC
*
112463836 AGTAGCAGTCAGTTATTC
1 AGTAACAGTCAGTTATTC
112463854 AGTAACAGTCA-TTGATTC
1 AGTAACAGTCAGTT-ATTC
112463872 AGTAACAGTC
1 AGTAACAGTC
112463882 GATTATTTAG
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
17 15 0.18
18 69 0.82
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.33
Consensus pattern (18 bp):
AGTAACAGTCAGTTATTC
Found at i:112463849 original size:54 final size:54
Alignment explanation
Indices: 112463790--112463894 Score: 156
Period size: 54 Copynumber: 1.9 Consensus size: 54
112463780 TCAGTAATAA
* * *
112463790 TCAGTTATTCAGTAACAGTCGTTTATTCAATATCAGTCAATTATTCAGTAGCAG
1 TCAGTTATTCAGTAACAGTCATTGATTCAATAACAGTCAATTATTCAGTAGCAG
* * *
112463844 TCAGTTATTCAGTAACAGTCATTGATTCAGTAACAGTCGATTATTTAGTAG
1 TCAGTTATTCAGTAACAGTCATTGATTCAATAACAGTCAATTATTCAGTAG
112463895 TGGTTAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.37
Consensus pattern (54 bp):
TCAGTTATTCAGTAACAGTCATTGATTCAATAACAGTCAATTATTCAGTAGCAG
Found at i:112464096 original size:6 final size:6
Alignment explanation
Indices: 112464085--112464116 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
112464075 ACAAATCCAG
*
112464085 AACAGT AACAGT AATAGT AACAGT AACAGT AA
1 AACAGT AACAGT AACAGT AACAGT AACAGT AA
112464117 GGTACGGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.19
Consensus pattern (6 bp):
AACAGT
Found at i:112464154 original size:63 final size:64
Alignment explanation
Indices: 112464022--112464161 Score: 183
Period size: 63 Copynumber: 2.2 Consensus size: 64
112464012 TACACAGCAT
* * *
112464022 CAGTAACAATAACAGTAATAGTAACAGTACGGTACATAGAGTACCTCATCGGAACAAATCCAGAA
1 CAGTAACAGTAACAGTAACAGTAACAGTAAGGTACA-AGAGTACCTCATCGGAACAAATCCAGAA
* * * ***
112464087 CAGTAACAGTAATAGTAACAGTAACAGTAAGGTAC-GGAGTACCTCTTCGGAACAAATTTGGAA
1 CAGTAACAGTAACAGTAACAGTAACAGTAAGGTACAAGAGTACCTCATCGGAACAAATCCAGAA
112464150 CAGTAACAGTAA
1 CAGTAACAGTAA
112464162 GGCGACACTT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
63 35 0.53
65 31 0.47
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20
Consensus pattern (64 bp):
CAGTAACAGTAACAGTAACAGTAACAGTAAGGTACAAGAGTACCTCATCGGAACAAATCCAGAA
Found at i:112466878 original size:33 final size:33
Alignment explanation
Indices: 112466836--112466898 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
112466826 CCATTTGGTC
112466836 TAATTTCATTTTAAAACCTCCTATTAAAAGGTA
1 TAATTTCATTTTAAAACCTCCTATTAAAAGGTA
*
112466869 TAATTTCATTTTAAAACCTTCTATTAAAAG
1 TAATTTCATTTTAAAACCTCCTATTAAAAG
112466899 AACAACAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (33 bp):
TAATTTCATTTTAAAACCTCCTATTAAAAGGTA
Found at i:112472774 original size:15 final size:16
Alignment explanation
Indices: 112472751--112472783 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
112472741 AGAGGTCTAC
*
112472751 AAGTTAAAA-TAAATA
1 AAGTGAAAAGTAAATA
112472766 AAGTGAAAAGTAAATA
1 AAGTGAAAAGTAAATA
112472782 AA
1 AA
112472784 TTAAATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (16 bp):
AAGTGAAAAGTAAATA
Found at i:112472831 original size:4 final size:4
Alignment explanation
Indices: 112472822--112472901 Score: 51
Period size: 4 Copynumber: 20.0 Consensus size: 4
112472812 TAAAATAGTG
* ** * *
112472822 TAAA TAAA TAAA TTAAT TAAA TAGT TAAA TAAA -AGTA TAAA -AAT TAAAA
1 TAAA TAAA TAAA -TAAA TAAA TAAA TAAA TAAA TA-AA TAAA TAAA T-AAA
112472871 TAAA TAAA TAAA TAAA GT-AA T-AA TAAA TAAA
1 TAAA TAAA TAAA TAAA -TAAA TAAA TAAA TAAA
112472902 ATACAGATGA
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
3 7 0.12
4 44 0.75
5 8 0.14
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.29
Consensus pattern (4 bp):
TAAA
Found at i:112473310 original size:22 final size:22
Alignment explanation
Indices: 112473274--112473329 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
112473264 CAGCTGTCTC
* * * *
112473274 ACCACCGCAAATTCCATCACTG
1 ACCACCGTAAGTTCCACCACCG
*
112473296 ACCACTGTAAGTTCCACCACCG
1 ACCACCGTAAGTTCCACCACCG
112473318 ACCACCGTAAGT
1 ACCACCGTAAGT
112473330 CATTGTCGAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.30, C:0.39, G:0.12, T:0.18
Consensus pattern (22 bp):
ACCACCGTAAGTTCCACCACCG
Found at i:112475850 original size:16 final size:17
Alignment explanation
Indices: 112475819--112475851 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
112475809 TCTATAAGTA
112475819 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
112475836 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
112475852 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:112476197 original size:46 final size:46
Alignment explanation
Indices: 112476132--112476336 Score: 288
Period size: 46 Copynumber: 4.5 Consensus size: 46
112476122 TTATCTTTGA
* * * * *
112476132 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
112476178 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* *
112476224 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCA-GT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTT-CATGT
*
112476270 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* *
112476316 TAGGTTGCCATGGTATCTTTC
1 CATGTTGCCATGGTATCTTTC
112476337 TGTAGCACCC
Statistics
Matches: 144, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
45 6 0.04
46 136 0.94
47 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:112477553 original size:28 final size:27
Alignment explanation
Indices: 112477512--112477581 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 27
112477502 TAAAACTGTA
112477512 AATTTTCTACTTTTAAAGGTATTTCAGT
1 AATTTTCTACTTTT-AAGGTATTTCAGT
*
112477540 AATTTATCTA-TTTTAAGGTTTTTCA-T
1 AATTT-TCTACTTTTAAGGTATTTCAGT
*
112477566 ACATATTCCTACTTTT
1 A-AT-TTTCTACTTTT
112477582 CACGTACTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
26 2 0.06
27 15 0.42
28 15 0.42
29 4 0.11
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (27 bp):
AATTTTCTACTTTTAAGGTATTTCAGT
Found at i:112479012 original size:26 final size:26
Alignment explanation
Indices: 112478983--112479149 Score: 208
Period size: 26 Copynumber: 6.2 Consensus size: 26
112478973 TAAAATGCCC
*
112478983 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
112479009 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
112479035 ATCATGGAATATTTACCTAATCCATTAT
1 ATCATGGAACATTTACCTAACCCA-T-T
112479063 CATGGAACATGGAACATTTACCTAACCCATT
1 -AT----CATGGAACATTTACCTAACCCATT
* * *
112479094 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAACCCATT
*
112479120 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
112479146 ATCA
1 ATCA
112479150 ATTTGTACCA
Statistics
Matches: 122, Mismatches: 12, Indels: 14
0.82 0.08 0.09
Matches are distributed among these distances:
26 94 0.77
27 1 0.01
28 1 0.01
29 2 0.02
30 2 0.02
31 1 0.01
32 1 0.01
33 20 0.16
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:112479060 original size:52 final size:52
Alignment explanation
Indices: 112478983--112479149 Score: 235
Period size: 52 Copynumber: 3.1 Consensus size: 52
112478973 TAAAATGCCC
* *
112478983 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
112479035 ATCATGGAATATTTACCTAATCCATTATCATGGAACATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCA-T-T-AT----CATGGAACATTTACCTAACCCATT
* *
112479094 ATCATGGAATATTTACCTAATCTATTATCATAGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
112479146 ATCA
1 ATCA
112479150 ATTTGTACCA
Statistics
Matches: 104, Mismatches: 4, Indels: 14
0.85 0.03 0.11
Matches are distributed among these distances:
52 49 0.47
53 1 0.01
54 1 0.01
55 2 0.02
56 2 0.02
57 1 0.01
58 1 0.01
59 47 0.45
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.33
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
Found at i:112479082 original size:33 final size:33
Alignment explanation
Indices: 112479037--112479102 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
112479027 AACCCATTAT
* *
112479037 CATGGAATATTTACCTAATCCATTATCATGGAA
1 CATGGAACATTTACCTAACCCATTATCATGGAA
112479070 CATGGAACATTTACCTAACCCATTATCATGGAA
1 CATGGAACATTTACCTAACCCATTATCATGGAA
112479103 TATTTACCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.30
Consensus pattern (33 bp):
CATGGAACATTTACCTAACCCATTATCATGGAA
Found at i:112479103 original size:59 final size:59
Alignment explanation
Indices: 112479011--112479131 Score: 224
Period size: 59 Copynumber: 2.1 Consensus size: 59
112479001 AAACCATTAT
*
112479011 CATGGAACATTTACCTAACCCATTATCATGGAATATTTACCTAATCCATTATCATGGAA
1 CATGGAACATTTACCTAACCCATTATCATGGAATATTTACCTAATCCATTATCATAGAA
*
112479070 CATGGAACATTTACCTAACCCATTATCATGGAATATTTACCTAATCTATTATCATAGAA
1 CATGGAACATTTACCTAACCCATTATCATGGAATATTTACCTAATCCATTATCATAGAA
112479129 CAT
1 CAT
112479132 TTACCTAACC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (59 bp):
CATGGAACATTTACCTAACCCATTATCATGGAATATTTACCTAATCCATTATCATAGAA
Found at i:112479134 original size:85 final size:85
Alignment explanation
Indices: 112478985--112479149 Score: 267
Period size: 85 Copynumber: 1.9 Consensus size: 85
112478975 AAATGCCCAT
* *
112478985 CATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCATGGAATATTTA
1 CATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCATAGAACATTTA
*
112479050 CCTAATCCATTATCATGGAA
66 CCTAACCCATTATCATGGAA
* * * *
112479070 CATGGAACATTTACCTAACCCATTATCATGGAATATTTACCTAATCTATTATCATAGAACATTTA
1 CATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCATAGAACATTTA
112479135 CCTAACCCATTATCA
66 CCTAACCCATTATCA
112479150 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 73 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (85 bp):
CATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCATAGAACATTTA
CCTAACCCATTATCATGGAA
Found at i:112494029 original size:30 final size:30
Alignment explanation
Indices: 112493995--112494067 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
112493985 TTGATCTTTC
*
112493995 TAAAAAT-AGTAAAAACTTGATTTAACCCTT
1 TAAAAATGA-TAAAAACTTGACTTAACCCTT
** *
112494025 TAAAAATGATAAAATTTTGACTTAACTCTT
1 TAAAAATGATAAAAACTTGACTTAACCCTT
*
112494055 TAAAAATTATAAA
1 TAAAAATGATAAA
112494068 GATATAAACT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 36 0.97
31 1 0.03
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (30 bp):
TAAAAATGATAAAAACTTGACTTAACCCTT
Found at i:112495942 original size:11 final size:11
Alignment explanation
Indices: 112495928--112495976 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
112495918 ATATCCAAAT
*
112495928 AATAACATCAA
1 AATAATATCAA
*
112495939 AATAGTATCAA
1 AATAATATCAA
*
112495950 TATAATATCAA
1 AATAATATCAA
* *
112495961 AATGATAGCAA
1 AATAATATCAA
112495972 AATAA
1 AATAA
112495977 CGAAAAAATA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.59, C:0.10, G:0.06, T:0.24
Consensus pattern (11 bp):
AATAATATCAA
Found at i:112496433 original size:22 final size:21
Alignment explanation
Indices: 112496395--112496452 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 21
112496385 TTAATTATTA
112496395 TAAAATATAATTATTATAAATT
1 TAAAATATAATT-TTATAAATT
*
112496417 TAAATATATAATTTTATATATT
1 TAAA-ATATAATTTTATAAATT
112496439 TAAAATA-AATTTTA
1 TAAAATATAATTTTA
112496453 ATTGAAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.21
21 3 0.09
22 16 0.47
23 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAAAATATAATTTTATAAATT
Found at i:112497617 original size:15 final size:15
Alignment explanation
Indices: 112497606--112497635 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
112497596 CCGAAAACCC
112497606 AAAAACCCAAAAACA
1 AAAAACCCAAAAACA
112497621 AAAAACCCACAAAAC
1 AAAAACCCA-AAAAC
112497636 GTAAACACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.70, C:0.30, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAACCCAAAAACA
Found at i:112503482 original size:29 final size:29
Alignment explanation
Indices: 112503428--112503484 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
112503418 AGAATTCAGT
* * *
112503428 TATTCTATTATTAAATAGATTAATTTAAC
1 TATTATATTATTAAAAAAATTAATTTAAC
112503457 TATTATATTATTAAAAAAA-TATATTTAA
1 TATTATATTATTAAAAAAATTA-ATTTAA
112503485 ATTGTAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (29 bp):
TATTATATTATTAAAAAAATTAATTTAAC
Found at i:112505590 original size:43 final size:43
Alignment explanation
Indices: 112505536--112505792 Score: 417
Period size: 43 Copynumber: 6.0 Consensus size: 43
112505526 TTATTTTAAA
* *
112505536 AAACGACGCTAAAGGTCATGGCCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAATGTCATGGCCTTTAGCGGCGCTTTTCCCAC
* *
112505579 AAATGCCGCTAAATGTCATGGCCTTTAGCGGCGCTTTTCCTAC
1 AAACGCCGCTAAATGTCATGGCCTTTAGCGGCGCTTTTCCCAC
*
112505622 AAACGACGCTAAATGTCATGGCCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAATGTCATGGCCTTTAGCGGCGCTTTTCCCAC
* *
112505665 AAACGACGCTAAAAGTCATGGCCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAATGTCATGGCCTTTAGCGGCGCTTTTCCCAC
*
112505708 AAACGCCGCTAAATGTCATGGCCTTTAGCGGCGCTTTTCCTAC
1 AAACGCCGCTAAATGTCATGGCCTTTAGCGGCGCTTTTCCCAC
*
112505751 AAACGCCGCTAAA-GATCATGTCCTTTAGCGGCGCTTTTCCCA
1 AAACGCCGCTAAATG-TCATGGCCTTTAGCGGCGCTTTTCCCA
112505793 ATGTCATAAA
Statistics
Matches: 200, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
42 1 0.00
43 199 1.00
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAATGTCATGGCCTTTAGCGGCGCTTTTCCCAC
Found at i:112505691 original size:129 final size:129
Alignment explanation
Indices: 112505536--112505792 Score: 462
Period size: 129 Copynumber: 2.0 Consensus size: 129
112505526 TTATTTTAAA
* *
112505536 AAACGACGCTAAAGGTCATGGCCTTTAGCGGCGCTTTTCCCACAAATGCCGCTAAATGTCATGGC
1 AAACGACGCTAAAAGTCATGGCCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAATGTCATGGC
112505601 CTTTAGCGGCGCTTTTCCTACAAACGACGCTAAATG-TCATGGCCTTTAGCGGCGCTTTTCCCAC
66 CTTTAGCGGCGCTTTTCCTACAAACGACGCTAAA-GATCATGGCCTTTAGCGGCGCTTTTCCCAC
112505665 AAACGACGCTAAAAGTCATGGCCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAATGTCATGGC
1 AAACGACGCTAAAAGTCATGGCCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAATGTCATGGC
* *
112505730 CTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGATCATGTCCTTTAGCGGCGCTTTTCCCA
66 CTTTAGCGGCGCTTTTCCTACAAACGACGCTAAAGATCATGGCCTTTAGCGGCGCTTTTCCCA
112505793 ATGTCATAAA
Statistics
Matches: 123, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
128 1 0.01
129 122 0.99
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (129 bp):
AAACGACGCTAAAAGTCATGGCCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAATGTCATGGC
CTTTAGCGGCGCTTTTCCTACAAACGACGCTAAAGATCATGGCCTTTAGCGGCGCTTTTCCCAC
Found at i:112506095 original size:18 final size:19
Alignment explanation
Indices: 112506058--112506097 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
112506048 ATTTAGAATC
112506058 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
112506077 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
112506095 AAA
1 AAA
112506098 TATCAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:112511387 original size:21 final size:21
Alignment explanation
Indices: 112511346--112511389 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
112511336 ATAAACATTA
* *
112511346 AACCCTAAACCTTTAACCCTT
1 AACCCCAAACCCTTAACCCTT
112511367 AACCCCAAACCCTT-ACACCTT
1 AACCCCAAACCCTTAAC-CCTT
112511388 AA
1 AA
112511390 ACTCCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.36, C:0.41, G:0.00, T:0.23
Consensus pattern (21 bp):
AACCCCAAACCCTTAACCCTT
Found at i:112511480 original size:7 final size:7
Alignment explanation
Indices: 112511470--112511564 Score: 55
Period size: 7 Copynumber: 13.0 Consensus size: 7
112511460 CTAGTTAACT
112511470 CTTAAAC
1 CTTAAAC
112511477 CTTAAAC
1 CTTAAAC
*
112511484 CCTAAAC
1 CTTAAAC
* * *
112511491 CATATAT
1 CTTAAAC
112511498 CTTAAAC
1 CTTAAAC
*
112511505 CATAGTTAAC
1 C-T--TAAAC
*
112511515 TCATAAAC
1 -CTTAAAC
112511523 CTTAAAC
1 CTTAAAC
*
112511530 CCTAAAC
1 CTTAAAC
* * *
112511537 CATATAT
1 CTTAAAC
112511544 CTTAAAC
1 CTTAAAC
*
112511551 CATAAAC
1 CTTAAAC
112511558 CTTAAAC
1 CTTAAAC
112511565 TGTAATGAAA
Statistics
Matches: 64, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
7 54 0.84
8 5 0.08
10 4 0.06
11 1 0.02
ACGTcount: A:0.44, C:0.27, G:0.01, T:0.27
Consensus pattern (7 bp):
CTTAAAC
Found at i:112511503 original size:21 final size:21
Alignment explanation
Indices: 112511477--112511558 Score: 92
Period size: 21 Copynumber: 3.7 Consensus size: 21
112511467 ACTCTTAAAC
*
112511477 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* *
112511498 CTTAAACCATAGTTAACTCATAAAC
1 CTTAAACCATA---AAC-CATATAT
*
112511523 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
112511544 CTTAAACCATAAACC
1 CTTAAACCATAAACC
112511559 TTAAACTGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
21 29 0.58
22 3 0.06
24 3 0.06
25 15 0.30
ACGTcount: A:0.44, C:0.28, G:0.01, T:0.27
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:112511513 original size:46 final size:46
Alignment explanation
Indices: 112511461--112511554 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
112511451 CTTCAAATAC
*
112511461 TAGTTAACTCTTAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
112511507 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
112511553 TA
1 TA
112511555 AACCTTAAAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.30
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:112511789 original size:41 final size:41
Alignment explanation
Indices: 112511727--112511929 Score: 250
Period size: 41 Copynumber: 4.9 Consensus size: 41
112511717 TTATATGACT
* *
112511727 TTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTATGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
*
112511768 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* *
112511809 TTTAGTGGCGTTTTACCAAAAGCGACGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* * *
112511850 TTTAGCGGCGTTTTTTTA-TAAAAACGCCGCTATTGCTCT-GT-
1 TTTAGCGGCG---TTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* * *
112511891 TTTAAGCAGCGTTTTACCAAAAACGCCGCTATTGCTCTG
1 TTT-AGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTG
112511930 TATTTTACAA
Statistics
Matches: 143, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
39 5 0.03
40 20 0.14
41 88 0.62
42 8 0.06
43 17 0.12
44 5 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (41 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
Found at i:112516133 original size:11 final size:11
Alignment explanation
Indices: 112516113--112516146 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
112516103 CAACATTGTG
112516113 AAAA-AAAATA
1 AAAATAAAATA
112516123 AAAATAAAATA
1 AAAATAAAATA
*
112516134 AAATTAAAATA
1 AAAATAAAATA
112516145 AA
1 AA
112516147 GAACATACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:112520556 original size:11 final size:11
Alignment explanation
Indices: 112520540--112520569 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
112520530 AATTTGTGAA
112520540 AAAATAAAAAT
1 AAAATAAAAAT
112520551 AAAATAAAAAT
1 AAAATAAAAAT
112520562 AAAATAAA
1 AAAATAAA
112520570 TAACACACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:112520907 original size:18 final size:18
Alignment explanation
Indices: 112520886--112520920 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
112520876 TCTAACAAAC
* *
112520886 ATATTAAATTTTTATTCA
1 ATATCAAATTTTAATTCA
112520904 ATATCAAATTTTAATTC
1 ATATCAAATTTTAATTC
112520921 GGTTGAATTT
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:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATCAAATTTTAATTCA
Found at i:112522026 original size:20 final size:20
Alignment explanation
Indices: 112522003--112522061 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
112521993 AACTCTTTAA
112522003 AAAATAATTTAACTTGATTG
1 AAAATAATTTAACTTGATTG
*
112522023 AAAA-AATTCTAACATGATTG
1 AAAATAATT-TAACTTGATTG
*
112522043 -AAATCATTTTAACTTGATT
1 AAAAT-AATTTAACTTGATT
112522062 TGGAAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 7 0.21
20 23 0.70
21 3 0.09
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (20 bp):
AAAATAATTTAACTTGATTG
Found at i:112527202 original size:22 final size:22
Alignment explanation
Indices: 112527174--112527218 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
112527164 GGGTAAGGGG
112527174 TGTTACATTATCATCTAACACC
1 TGTTACATTATCATCTAACACC
112527196 TGTTACATTATCATCTAACACC
1 TGTTACATTATCATCTAACACC
112527218 T
1 T
112527219 AACATGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (22 bp):
TGTTACATTATCATCTAACACC
Found at i:112527228 original size:22 final size:21
Alignment explanation
Indices: 112527178--112527223 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
112527168 AAGGGGTGTT
*
112527178 ACATTATCATCTAACACCTGTT
1 ACATTATCATCTAACACC-GTA
112527200 ACATTATCATCTAACACC-TA
1 ACATTATCATCTAACACCGTA
112527220 ACAT
1 ACAT
112527224 GTTATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.22
22 18 0.78
ACGTcount: A:0.37, C:0.28, G:0.02, T:0.33
Consensus pattern (21 bp):
ACATTATCATCTAACACCGTA
Found at i:112529780 original size:21 final size:23
Alignment explanation
Indices: 112529733--112529786 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
112529723 CATTCATGAT
**
112529733 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
112529756 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
112529777 AAAAT-ATATA
1 AAAATAATATA
112529787 ATGTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:112530014 original size:15 final size:15
Alignment explanation
Indices: 112529990--112530035 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
112529980 ATATAAATAG
*
112529990 AAATAAAAATATAAT
1 AAATAGAAATATAAT
112530005 AAATAGAAATATAAT
1 AAATAGAAATATAAT
112530020 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
112530036 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:112530023 original size:23 final size:23
Alignment explanation
Indices: 112529957--112530023 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
112529947 TATAAGAAAA
*
112529957 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
112529977 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
112530000 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
112530023 A
1 A
112530024 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:112530038 original size:44 final size:44
Alignment explanation
Indices: 112529984--112530070 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
112529974 ATTAGTATAT
112529984 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
112530028 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
112530071 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:112530055 original size:15 final size:14
Alignment explanation
Indices: 112529982--112530068 Score: 61
Period size: 15 Copynumber: 6.0 Consensus size: 14
112529972 ATATTAGTAT
*
112529982 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
112529995 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
112530011 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
112530025 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
112530040 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
112530055 ATAAATAATAATAG
1 ATAAATAAAAATAG
112530069 TATTAGAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
13 3 0.05
14 20 0.33
15 34 0.57
16 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:112530858 original size:13 final size:13
Alignment explanation
Indices: 112530840--112530864 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112530830 AAAATTAGCC
112530840 TATTACAGCTGCT
1 TATTACAGCTGCT
112530853 TATTACAGCTGC
1 TATTACAGCTGC
112530865 CTCTCTTTGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (13 bp):
TATTACAGCTGCT
Found at i:112531255 original size:44 final size:42
Alignment explanation
Indices: 112531205--112531350 Score: 118
Period size: 44 Copynumber: 3.3 Consensus size: 42
112531195 TTCCCTATTG
*
112531205 CTTAGGGGGATAAGTCTCACTGTCTTCGATCTGCTCCACTACTA
1 CTTAGGGAGATAAGTCTCACTGT-TTC-ATCTGCTCCACTACTA
* *
112531249 CTTAGGGAGATAAGATCTGTCA-T-TTTCAGCCTGTTTCC-CTACTA
1 CTTAGGGAGATAAG-TC--TCACTGTTTCA-TCTG-CTCCACTACTA
* * * *
112531293 CTTAGGGGGATAAGGCTCACCGTTTTCAATCTGCTCCACTACTG
1 CTTAGGGAGATAAGTCTCACTG-TTTC-ATCTGCTCCACTACTA
*
112531337 CTTAAGGAGATAAG
1 CTTAGGGAGATAAG
112531351 ATGTGTAATT
Statistics
Matches: 81, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
41 3 0.04
43 5 0.06
44 62 0.77
45 7 0.09
46 1 0.01
47 3 0.04
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (42 bp):
CTTAGGGAGATAAGTCTCACTGTTTCATCTGCTCCACTACTA
Found at i:112531346 original size:88 final size:88
Alignment explanation
Indices: 112531139--112531487 Score: 441
Period size: 88 Copynumber: 4.0 Consensus size: 88
112531129 AAGATTCGTT
* * *
112531139 GTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAAATCTGTAATTTTCAGCC-ATTTCCCTAT
1 GTCTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTTCCCTAC
* * *
112531203 TGCTTAGGGGGATAAGTCTCACT
66 TACTTAGGGGGATAAGGCTCACC
* * *
112531226 GTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTCATTTTCAGCCTGTTTCCCTAC
1 GTCTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTTCCCTAC
112531291 TACTTAGGGGGATAAGGCTCACC
66 TACTTAGGGGGATAAGGCTCACC
* * * *
112531314 GTTTTCAATCTGCTCCACTACTGCTTAAGGAGATAAGATGTGTAATTTTCAGCCTATTTCCCTAC
1 GTCTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTTCCCTAC
* *
112531379 TGCTTAGAGGGATAAGGCTCACC
66 TACTTAGGGGGATAAGGCTCACC
* * * * * * * * *
112531402 ATCTTCAACCTACTCCACTACTACTTAGGGAGATAGGGTGGTCTGTCATTTTTAGCCT-GTTCCT
1 GTCTTCAATCTGCTCCACTACTACTTAGGGAGATA---AGATCTGTAATTTTCAGCCTATTTCCC
112531466 TACTACTTAGGGGGATAAGGCT
63 TACTACTTAGGGGGATAAGGCT
112531488 AGTGGCTTAA
Statistics
Matches: 227, Mismatches: 31, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
87 52 0.23
88 136 0.60
90 24 0.11
91 15 0.07
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (88 bp):
GTCTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTTCCCTAC
TACTTAGGGGGATAAGGCTCACC
Found at i:112531423 original size:44 final size:44
Alignment explanation
Indices: 112531287--112531429 Score: 116
Period size: 44 Copynumber: 3.2 Consensus size: 44
112531277 GCCTGTTTCC
* * * *
112531287 CTACTACTTAGGGGGATAAGGCTCACCGTTTTCAATCTGCTCCA
1 CTACTACTTAGAGGGATAAGGCTCACCATTTTCAACCTACTCCA
* * * *
112531331 CTACTGCTTA-AGGAGATAAGATG-TGTA--ATTTTCAGCCTATTTCC-
1 CTACTACTTAGAGG-GATAAG--GCT-CACCATTTTCAACCTA-CTCCA
* *
112531375 CTACTGCTTAGAGGGATAAGGCTCACCATCTTCAACCTACTCCA
1 CTACTACTTAGAGGGATAAGGCTCACCATTTTCAACCTACTCCA
112531419 CTACTACTTAG
1 CTACTACTTAG
112531430 GGAGATAGGG
Statistics
Matches: 76, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
42 2 0.03
43 6 0.08
44 59 0.78
45 7 0.09
46 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (44 bp):
CTACTACTTAGAGGGATAAGGCTCACCATTTTCAACCTACTCCA
Found at i:112531433 original size:176 final size:175
Alignment explanation
Indices: 112531146--112531487 Score: 497
Period size: 176 Copynumber: 1.9 Consensus size: 175
112531136 GTTGTCTTCG
* * *
112531146 ATCTGCTCCACTACTACTTAGGGAGATAAAATCTGTAATTTTCAGCCATTTCCCTATTGCTTAGG
1 ATCTGCTCCACTACTACTTAAGGAGATAAAATCTGTAATTTTCAGCCATTTCCCTACTGCTTAGA
* ** * * *
112531211 GGGATAAGTCTCACTGTCTTCGATCTGCTCCACTACTACTTAGGGAGATA-AGATCTGTCATTTT
66 GGGATAAGGCTCACCATCTTCAACCTACTCCACTACTACTTAGGGAGATAGAGATCTGTCATTTT
112531275 CAGCCTGTTTCCCTACTACTTAGGGGGATAAGGCTCACCGTTTTCA
131 CAGCCTG-TTCCCTACTACTTAGGGGGATAAGGCTCACCGTTTTCA
* * *
112531321 ATCTGCTCCACTACTGCTTAAGGAGATAAGATGTGTAATTTTCAGCCTATTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTACTTAAGGAGATAAAATCTGTAATTTTCAGCC-ATTTCCCTACTGCTTAG
* *
112531386 AGGGATAAGGCTCACCATCTTCAACCTACTCCACTACTACTTAGGGAGATAGGGTGGTCTGTCAT
65 AGGGATAAGGCTCACCATCTTCAACCTACTCCACTACTACTTAGGGAGATA--GAGATCTGTCAT
* *
112531451 TTTTAGCCTGTTCCTTACTACTTAGGGGGATAAGGCT
128 TTTCAGCCTGTTCCCTACTACTTAGGGGGATAAGGCT
112531488 AGTGGCTTAA
Statistics
Matches: 147, Mismatches: 16, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
175 43 0.29
176 60 0.41
178 26 0.18
179 18 0.12
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (175 bp):
ATCTGCTCCACTACTACTTAAGGAGATAAAATCTGTAATTTTCAGCCATTTCCCTACTGCTTAGA
GGGATAAGGCTCACCATCTTCAACCTACTCCACTACTACTTAGGGAGATAGAGATCTGTCATTTT
CAGCCTGTTCCCTACTACTTAGGGGGATAAGGCTCACCGTTTTCA
Found at i:112538374 original size:21 final size:23
Alignment explanation
Indices: 112538327--112538380 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
112538317 CATTCAAGAT
**
112538327 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
112538350 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
112538371 AAAAT-ATATA
1 AAAATAATATA
112538381 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:112538381 original size:25 final size:22
Alignment explanation
Indices: 112538329--112538500 Score: 78
Period size: 24 Copynumber: 7.1 Consensus size: 22
112538319 TTCAAGATAA
* *
112538329 AATAATATATAAAACTCTTTAAA-
1 AATAATATATAAAA--ATTAAAAT
112538352 AATAATATATAAACAATTCAAAAT
1 AATAATATATAAA-AATT-AAAAT
* *
112538376 ATATAATGTGTAAAAAAGTTAGAAAT
1 A-ATAATATAT-AAAAA-TTA-AAAT
112538402 ACATAATATATGAAAATATTAAAAT
1 A-ATAATATAT-AAAA-ATTAAAAT
*
112538427 AACTAATGTATAAAAATTTAAAAT
1 AA-TAATATATAAAAA-TTAAAAT
****
112538451 GAGCGTTATATAAAAAGTTAAAAT
1 -AATAATATATAAAAA-TTAAAAT
*
112538475 AGATAATA-ACAAAAAGTGTAAAAT
1 A-ATAATATATAAAAA-T-TAAAAT
112538499 AA
1 AA
112538501 ATAAATAAAT
Statistics
Matches: 116, Mismatches: 20, Indels: 26
0.72 0.12 0.16
Matches are distributed among these distances:
22 2 0.02
23 27 0.23
24 39 0.34
25 23 0.20
26 24 0.21
27 1 0.01
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.30
Consensus pattern (22 bp):
AATAATATATAAAAATTAAAAT
Found at i:112538612 original size:15 final size:15
Alignment explanation
Indices: 112538588--112538633 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
112538578 ATATAAATAG
*
112538588 AAATAAAAATATAAT
1 AAATAGAAATATAAT
112538603 AAATAGAAATATAAT
1 AAATAGAAATATAAT
112538618 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
112538634 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:112538621 original size:23 final size:23
Alignment explanation
Indices: 112538555--112538621 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
112538545 TATAAGAAAA
*
112538555 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
112538575 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
112538598 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
112538621 A
1 A
112538622 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:112538653 original size:15 final size:14
Alignment explanation
Indices: 112538580--112538660 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
112538570 ATATTAGTAT
*
112538580 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
112538593 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
112538609 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
112538623 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
112538638 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
112538653 ATAAATAA
1 ATAAATAA
112538661 TAATGGTATT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
13 3 0.05
14 17 0.31
15 32 0.58
16 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:112543194 original size:9 final size:9
Alignment explanation
Indices: 112543180--112543221 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
112543170 TCTTATATTT
112543180 TTTTTTTAC
1 TTTTTTTAC
112543189 TTTTTTTAC
1 TTTTTTTAC
*
112543198 TTTTTTAAC
1 TTTTTTTAC
112543207 -TTTTTTAC
1 TTTTTTTAC
112543215 TTTTTTT
1 TTTTTTT
112543222 CTTATATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 7 0.23
9 23 0.77
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:112543203 original size:17 final size:18
Alignment explanation
Indices: 112543180--112543221 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
112543170 TCTTATATTT
112543180 TTTTTTTACTTTTTTTAC
1 TTTTTTTACTTTTTTTAC
*
112543198 TTTTTTAAC-TTTTTTAC
1 TTTTTTTACTTTTTTTAC
112543215 TTTTTTT
1 TTTTTTT
112543222 CTTATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTTACTTTTTTTAC
Found at i:112543306 original size:36 final size:36
Alignment explanation
Indices: 112543237--112543310 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
112543227 ATTTTGCCTC
*
112543237 TTTCTTAGATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAG-TTTATATTAT
112543274 TTTCTTA-ATTTATTTTACTTATTTAA-TTTATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTATATTAT
112543310 T
1 T
112543311 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 15 0.44
37 11 0.32
38 8 0.24
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (36 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTATATTAT
Found at i:112543315 original size:18 final size:17
Alignment explanation
Indices: 112543264--112543311 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
112543254 TTTTTTAAGT
*
112543264 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
*
112543282 TTTATTTTACTTATTTAA
1 TTTATATTA-TTATTTAA
112543300 TTTATATTATTA
1 TTTATATTATTA
112543312 ATTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Done.