Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 49 of 206
Found at i:13991221 original size:19 final size:19
Alignment explanation
Indices: 13991199--13991235 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13991189 TGAATAAATA
13991199 AAAAATAAAAGGAAAACAG
1 AAAAATAAAAGGAAAACAG
* *
13991218 AAAAATCAAATGAAAACA
1 AAAAATAAAAGGAAAACA
13991236 ATCAGATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.73, C:0.08, G:0.11, T:0.08
Consensus pattern (19 bp):
AAAAATAAAAGGAAAACAG
Found at i:13994872 original size:14 final size:14
Alignment explanation
Indices: 13994836--13994866 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
13994826 ATTTATATAT
13994836 AAATATAAATTTTA
1 AAATATAAATTTTA
13994850 AAATTATAAATTTTA
1 AAA-TATAAATTTTA
13994865 AA
1 AA
13994867 CAATAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 3 0.19
15 13 0.81
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATATAAATTTTA
Found at i:13999547 original size:2 final size:2
Alignment explanation
Indices: 13999540--13999564 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13999530 AATTATTTGT
13999540 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 T
13999565 TAATTTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14000037 original size:22 final size:23
Alignment explanation
Indices: 14000012--14000058 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
14000002 TTTTAATAAT
* *
14000012 ATATTTTTTAATTTAATA-TTAA
1 ATATATTTTAAATTAATATTTAA
*
14000034 ATATATTTTAAATTATTATTTAA
1 ATATATTTTAAATTAATATTTAA
14000057 AT
1 AT
14000059 TTATATCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
ATATATTTTAAATTAATATTTAA
Found at i:14000308 original size:28 final size:28
Alignment explanation
Indices: 14000264--14000324 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
14000254 AGTAGAAAAG
14000264 AAAAAGAAACAATAGAAAA-AAAACGTGAA
1 AAAAAGAAACAATAGAAAATAAAA--TGAA
*
14000293 AAAAAGAAAGAA-AGAAAATAAAATGAA
1 AAAAAGAAACAATAGAAAATAAAATGAA
14000320 AAAAA
1 AAAAA
14000325 TATGGGTAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 9 0.30
28 6 0.20
29 15 0.50
ACGTcount: A:0.77, C:0.03, G:0.13, T:0.07
Consensus pattern (28 bp):
AAAAAGAAACAATAGAAAATAAAATGAA
Found at i:14000765 original size:17 final size:17
Alignment explanation
Indices: 14000731--14000763 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
14000721 AAAAAATAAC
14000731 GGTAATTTCTTTTAAAA
1 GGTAATTTCTTTTAAAA
14000748 GGTAATTT-TTTTAAAA
1 GGTAATTTCTTTTAAAA
14000764 AGCGGTTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.48
Consensus pattern (17 bp):
GGTAATTTCTTTTAAAA
Found at i:14000856 original size:19 final size:21
Alignment explanation
Indices: 14000820--14000858 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
14000810 AGATAATAAT
14000820 ATTTATTATTTTTGTAAAATA
1 ATTTATTATTTTTGTAAAATA
14000841 ATTT-TTATTTTT-TAAAAT
1 ATTTATTATTTTTGTAAAAT
14000859 TACATTGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
ATTTATTATTTTTGTAAAATA
Found at i:14006686 original size:16 final size:14
Alignment explanation
Indices: 14006665--14006698 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
14006655 TTAAGTTAAT
14006665 TTTAAAGTTTTAAAAA
1 TTTAAAG-TTT-AAAA
14006681 TTTAAAGTTTAAAA
1 TTTAAAGTTTAAAA
14006695 TTTA
1 TTTA
14006699 TTTTGTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 3 0.17
16 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (14 bp):
TTTAAAGTTTAAAA
Found at i:14007190 original size:20 final size:20
Alignment explanation
Indices: 14007165--14007204 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
14007155 CCAAAAATAA
14007165 TTTCTGGAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
*
14007185 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGACTTACT
14007205 GAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:14008997 original size:8 final size:8
Alignment explanation
Indices: 14008986--14009015 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
14008976 TAAGTTATTA
14008986 TATTATAT
1 TATTATAT
*
14008994 TATTATAA
1 TATTATAT
14009002 TATTATAT
1 TATTATAT
14009010 TATTAT
1 TATTAT
14009016 TATATACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:14009004 original size:16 final size:16
Alignment explanation
Indices: 14008980--14009020 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
14008970 AATAAGTAAG
14008980 TTATTATATTATATTA
1 TTATTATATTATATTA
*
14008996 TTATAATATTATATTA
1 TTATTATATTATATTA
14009012 TTATTATAT
1 TTATTATAT
14009021 ACATAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTATATTATATTA
Found at i:14010198 original size:25 final size:25
Alignment explanation
Indices: 14010170--14010378 Score: 256
Period size: 25 Copynumber: 8.6 Consensus size: 25
14010160 ACTTTAGCGC
14010170 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
*
14010195 GCTCTCTGATTATTAGCACGTTAAT
1 GCTCTCTGATTATTAGCACGTTAGT
*
14010220 GCTCTCTGATTATTAACACGTTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
14010245 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
* * *
14010270 GCTCTCTGACTACTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACGTTAGT
* *
14010295 GCTCTCTGATT-TTAACACGTCAGT
1 GCTCTCTGATTATTAGCACGTTAGT
*
14010319 GCTCTCTG--T-TTAGCACATCT-GT
1 GCTCTCTGATTATTAGCACGT-TAGT
*
14010341 GCTCTCTG--TA-TAGCACTTTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
14010363 GCTCTCTG-TTCATTAG
1 GCTCTCTGATT-ATTAG
14010379 TGCATACCAA
Statistics
Matches: 162, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
21 1 0.01
22 36 0.22
23 1 0.01
24 18 0.11
25 106 0.65
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTTAGT
Found at i:14011153 original size:32 final size:33
Alignment explanation
Indices: 14011105--14011167 Score: 110
Period size: 32 Copynumber: 1.9 Consensus size: 33
14011095 ATTGTCAATC
14011105 ATTTCAATATCCAACAAGCTTAAAACATAATAA
1 ATTTCAATATCCAACAAGCTTAAAACATAATAA
*
14011138 ATTT-AATATCTAACAAGCTTAAAACATAAT
1 ATTTCAATATCCAACAAGCTTAAAACATAAT
14011168 CAATATCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 25 0.86
33 4 0.14
ACGTcount: A:0.51, C:0.16, G:0.03, T:0.30
Consensus pattern (33 bp):
ATTTCAATATCCAACAAGCTTAAAACATAATAA
Found at i:14011191 original size:27 final size:27
Alignment explanation
Indices: 14011142--14011193 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
14011132 TAATAAATTT
*
14011142 AATATCTAACAAGCTTAAAACATAATC
1 AATATCTAACAAGATTAAAACATAATC
*
14011169 AATATCTAACAA-ATTCAAGACATAA
1 AATATCTAACAAGATT-AAAACATAA
14011194 AAATTTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.54, C:0.17, G:0.04, T:0.25
Consensus pattern (27 bp):
AATATCTAACAAGATTAAAACATAATC
Found at i:14011889 original size:11 final size:11
Alignment explanation
Indices: 14011873--14011898 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14011863 CATGGGGGTA
14011873 AAAGGACTGAG
1 AAAGGACTGAG
14011884 AAAGGACTGAG
1 AAAGGACTGAG
14011895 AAAG
1 AAAG
14011899 AACTCTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.35, T:0.08
Consensus pattern (11 bp):
AAAGGACTGAG
Found at i:14016227 original size:30 final size:30
Alignment explanation
Indices: 14016193--14016401 Score: 201
Period size: 30 Copynumber: 7.0 Consensus size: 30
14016183 ATTTTACATG
* *
14016193 TTATTTTATTGTCAGCTTGTGTGAGCAATC
1 TTATTATAATGTCAGCTTGTGTGAGCAATC
*
14016223 TTATTATAATGTCAGCTTGTGTGAACAATAC
1 TTATTATAATGTCAGCTTGTGTGAGCAAT-C
* * *
14016254 -TATTATAATGTCAACTTGTGTGAGTAAAAC
1 TTATTATAATGTCAGCTTGTGTGAG-CAATC
* * *
14016284 -TATTATAATATTAGCTTGTATGAGCAAT-
1 TTATTATAATGTCAGCTTGTGTGAGCAATC
* *
14016312 TCCATCATAATGTCAGCTTGTGTGAGCAAT-
1 T-TATTATAATGTCAGCTTGTGTGAGCAATC
* * * *
14016342 TCCATCATAATGTCAGCTTGTGTGAGAAACC
1 T-TATTATAATGTCAGCTTGTGTGAGCAATC
* *
14016373 TTATTATAATGTCAACTTGTCTGAGCAAT
1 TTATTATAATGTCAGCTTGTGTGAGCAAT
14016402 GTATTCACTT
Statistics
Matches: 148, Mismatches: 26, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
29 2 0.01
30 142 0.96
31 4 0.03
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (30 bp):
TTATTATAATGTCAGCTTGTGTGAGCAATC
Found at i:14016362 original size:90 final size:91
Alignment explanation
Indices: 14016204--14016401 Score: 249
Period size: 90 Copynumber: 2.2 Consensus size: 91
14016194 TATTTTATTG
* * * * *
14016204 TCAGCTTGTGTGAGCAA-TCTTATTATAATGTCAGCTTGTGTGAACAATACTATTATAATGTCAA
1 TCAGCTTGTATGAGCAATTCTCATCATAATGTCAGCTTGTGTGAACAATACCATCATAATGTCAA
14016268 CTTGTGTGAGTAAAAC-TATTATAATA
66 CTTGTGTGAG-AAAACTTATTATAATA
* * * *
14016294 TTAGCTTGTATGAGCAATTC-CATCATAATGTCAGCTTGTGTGAGCAATTCCATCATAATGTCAG
1 TCAGCTTGTATGAGCAATTCTCATCATAATGTCAGCTTGTGTGAACAATACCATCATAATGTCAA
* *
14016358 CTTGTGTGAGAAACCTTATTATAATG
66 CTTGTGTGAGAAAACTTATTATAATA
* *
14016384 TCAACTTGTCTGAGCAAT
1 TCAGCTTGTATGAGCAAT
14016402 GTATTCACTT
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
89 4 0.04
90 86 0.93
91 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (91 bp):
TCAGCTTGTATGAGCAATTCTCATCATAATGTCAGCTTGTGTGAACAATACCATCATAATGTCAA
CTTGTGTGAGAAAACTTATTATAATA
Found at i:14017233 original size:19 final size:19
Alignment explanation
Indices: 14017209--14017248 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
14017199 TTTAAAGCTT
14017209 AATTAACTAATTTTAATTA
1 AATTAACTAATTTTAATTA
*
14017228 AATTAATTAATTTTAATTA
1 AATTAACTAATTTTAATTA
14017247 AA
1 AA
14017249 GTGAAACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTAACTAATTTTAATTA
Found at i:14020161 original size:22 final size:21
Alignment explanation
Indices: 14020136--14020207 Score: 54
Period size: 22 Copynumber: 3.3 Consensus size: 21
14020126 GAGCCATGTG
14020136 TCGAGATAATTATGTATTTGTC
1 TCGAGA-AATTATGTATTTGTC
** *
14020158 TCGAGAAAACAGTGTATGTGTC
1 TCGAGAAATTA-TGTATTTGTC
* * *
14020180 TCAAGAAAATTGTGTATTTTTC
1 TCGAG-AAATTATGTATTTGTC
*
14020202 TTGAGA
1 TCGAGA
14020208 CATATACCTT
Statistics
Matches: 37, Mismatches: 11, Indels: 5
0.70 0.21 0.09
Matches are distributed among these distances:
21 4 0.11
22 30 0.81
23 3 0.08
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (21 bp):
TCGAGAAATTATGTATTTGTC
Found at i:14030698 original size:26 final size:26
Alignment explanation
Indices: 14030668--14030725 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
14030658 TTGCTAACAA
14030668 TTTATGTATTTCATATTATGAATTAT
1 TTTATGTATTTCATATTATGAATTAT
*
14030694 TTTATGTATTTCATATTATGATTTAT
1 TTTATGTATTTCATATTATGAATTAT
14030720 TTTATG
1 TTTATG
14030726 AGTTCTGCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.28, C:0.03, G:0.09, T:0.60
Consensus pattern (26 bp):
TTTATGTATTTCATATTATGAATTAT
Found at i:14030726 original size:12 final size:13
Alignment explanation
Indices: 14030668--14030726 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 13
14030658 TTGCTAACAA
14030668 TTTATGTATTTCAT
1 TTTATG-ATTTCAT
* *
14030682 ATTATGAATT-AT
1 TTTATGATTTCAT
14030694 TTTATGTATTTCAT
1 TTTATG-ATTTCAT
*
14030708 ATTATGATTT-AT
1 TTTATGATTTCAT
14030720 TTTATGA
1 TTTATGA
14030727 GTTCTGCACA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
12 15 0.41
13 10 0.27
14 12 0.32
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.59
Consensus pattern (13 bp):
TTTATGATTTCAT
Found at i:14033210 original size:15 final size:15
Alignment explanation
Indices: 14033190--14033221 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14033180 TCCCTTAAAG
*
14033190 TTAACTCGATTTCAA
1 TTAACTCAATTTCAA
14033205 TTAACTCAATTTCAA
1 TTAACTCAATTTCAA
14033220 TT
1 TT
14033222 CAAAAAGCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.19, G:0.03, T:0.44
Consensus pattern (15 bp):
TTAACTCAATTTCAA
Found at i:14035283 original size:13 final size:13
Alignment explanation
Indices: 14035259--14035293 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
14035249 TTCCAATTAT
14035259 AATTTTTT--TTA
1 AATTTTTTGGTTA
14035270 AATTTTTTGGTTA
1 AATTTTTTGGTTA
14035283 AATTTTTTGGT
1 AATTTTTTGGT
14035294 ATGGTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 8 0.36
13 14 0.64
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (13 bp):
AATTTTTTGGTTA
Found at i:14037035 original size:126 final size:125
Alignment explanation
Indices: 14036641--14037037 Score: 575
Period size: 126 Copynumber: 3.2 Consensus size: 125
14036631 ATTTTGTTTC
* *
14036641 TTTTCTACAGTAGTT-TTAGAAAAATTAATTTTGAGAAGATGGA-TTTGAAAAGATAATGTCAAA
1 TTTTCTACAGTAGTTCTT-GAAAAA-TAATTTTGAGAAGAT-GATTTTGAAAAAATAGTGTCAAA
* * * *
14036704 AACGCTTCAAGCAGAATGCACTGTTAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGTTAT
63 AACGCTTCAAGCAGGATGCACTATTAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCT
* ***
14036767 TTTTCTACAATAGTTCCCAAAAAAATAATTTTGAGAAGATGATTTTGAAAAAATAGTGTCAAAAA
1 TTTTCTACAGTAGTT-CTTGAAAAATAATTTTGAGAAGATGATTTTGAAAAAATAGTGTCAAAAA
* *
14036832 CGCTTCAAGCAGGATGCACTATTAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTCT
65 CGCTTCAAGCAGGATGCACTATTAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCT
* *
14036893 TTTTCTAC-GATGGTTCTTGAAAAATAATTTTGAGAAGATGATTTTGAAAAAAATAGTGTAAAAA
1 TTTTCTACAG-TAGTTCTTGAAAAATAATTTTGAGAAGATGATTTTG-AAAAAATAGTGTCAAAA
*
14036957 ACGCTTCAAGCAGGATGCACTATTAGCAAAATTACTGAAAAGAGCTCCTACGTGGACGCTCT
64 ACGCTTCAAGCAGGATGCACTATTAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCT
*
14037019 TTTTCTATAGTAGTTCTTG
1 TTTTCTACAGTAGTTCTTG
14037038 CTTGGCCTTA
Statistics
Matches: 242, Mismatches: 23, Indels: 12
0.87 0.08 0.04
Matches are distributed among these distances:
125 30 0.12
126 206 0.85
127 6 0.02
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (125 bp):
TTTTCTACAGTAGTTCTTGAAAAATAATTTTGAGAAGATGATTTTGAAAAAATAGTGTCAAAAAC
GCTTCAAGCAGGATGCACTATTAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCT
Found at i:14040591 original size:18 final size:18
Alignment explanation
Indices: 14040565--14040607 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
14040555 TGACTGGAAA
* *
14040565 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
14040583 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
14040601 AGGATAC
1 AGGATAC
14040608 GCACCTGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:14042855 original size:3 final size:3
Alignment explanation
Indices: 14042847--14042886 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
14042837 ACCATATGCA
*
14042847 TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
14042887 TTAAAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:14046698 original size:22 final size:22
Alignment explanation
Indices: 14046666--14046722 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
14046656 AGGATATCCA
* *
14046666 ATATAGTTGCAGAACAGATCGG
1 ATATAGATGCAAAACAGATCGG
* **
14046688 ATATAGATGCAAAATAGATCAA
1 ATATAGATGCAAAACAGATCGG
*
14046710 ATACAGATGCAAA
1 ATATAGATGCAAA
14046723 TTCCTAACCC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.21
Consensus pattern (22 bp):
ATATAGATGCAAAACAGATCGG
Found at i:14056358 original size:49 final size:49
Alignment explanation
Indices: 14056286--14056381 Score: 156
Period size: 49 Copynumber: 2.0 Consensus size: 49
14056276 TATGCATTTC
* *
14056286 TAAACTTGGTCTTCCACTATCTACACTCTTATCACTATTTATACATTGT
1 TAAACTTAGTCTTCCACTATCTACAATCTTATCACTATTTATACATTGT
* *
14056335 TAAACTTAGTCTTCCACTGTCTACAATCTTATCACTATTTATCCATT
1 TAAACTTAGTCTTCCACTATCTACAATCTTATCACTATTTATACATT
14056382 CTTGAATGTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.27, C:0.25, G:0.05, T:0.43
Consensus pattern (49 bp):
TAAACTTAGTCTTCCACTATCTACAATCTTATCACTATTTATACATTGT
Found at i:14068266 original size:13 final size:13
Alignment explanation
Indices: 14068250--14068278 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
14068240 ATAATTTTAT
14068250 ATTTTAATAATTC
1 ATTTTAATAATTC
14068263 ATTTTAATAATTC
1 ATTTTAATAATTC
14068276 ATT
1 ATT
14068279 AATAACAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTTTAATAATTC
Found at i:14073019 original size:16 final size:16
Alignment explanation
Indices: 14072998--14073049 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
14072988 TTTGGTTCGC
*
14072998 TGTATTGGATTTGAGG
1 TGTATTGGATTAGAGG
14073014 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14073030 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14073046 TGTA
1 TGTA
14073050 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:14073114 original size:44 final size:45
Alignment explanation
Indices: 14073030--14073120 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
14073020 GGATTAGAGG
* * *
14073030 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
14073075 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
14073119 TG
1 TG
14073121 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:14073265 original size:50 final size:49
Alignment explanation
Indices: 14073211--14073424 Score: 121
Period size: 50 Copynumber: 4.2 Consensus size: 49
14073201 TTGTTATTGT
14073211 TATTTAAATTTTAATAAAATTATTATTATCAGTAATAAATATTTTAATCA
1 TATTTAAATTTTAATAAAATTATT-TTATCAGTAATAAATATTTTAATCA
* * * * * *
14073261 TATTTAAACATAATTATAATTAAATATATTTTAATTA-AAATATATAATTTAATAA
1 TATTT-AA-AT--TT-TAATAAAAT-TATTTT-ATCAGTAATAAATATTTTAATCA
* *** * * * * **
14073316 AATTCTTATAATTAGCAGAAAATTA-TTT-T-GGTAAATGATTATTGTTAATGT
1 TA-T-TTA-AATTTTAATAAAATTATTTTATCAGT-AATAAATATT-TTAATCA
*
14073367 TATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCA
1 TATTTAAATTTTAATAAAATTATT-TTATCAGTAATAAATATTTTAATCA
14073417 TATTTAAA
1 TATTTAAA
14073425 CATAATTATT
Statistics
Matches: 116, Mismatches: 31, Indels: 34
0.64 0.17 0.19
Matches are distributed among these distances:
48 11 0.09
49 5 0.04
50 27 0.23
51 20 0.17
52 6 0.05
53 5 0.04
54 3 0.03
55 25 0.22
56 11 0.09
57 3 0.03
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (49 bp):
TATTTAAATTTTAATAAAATTATTTTATCAGTAATAAATATTTTAATCA
Found at i:14073301 original size:16 final size:16
Alignment explanation
Indices: 14073264--14073318 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
14073254 TTAATCATAT
*
14073264 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
14073280 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
14073295 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
14073313 -TAAAAT
1 TTAAAAT
14073319 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:14073311 original size:18 final size:18
Alignment explanation
Indices: 14073270--14073318 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
14073260 ATATTTAAAC
14073270 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
14073288 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
14073304 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
14073319 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:14073373 original size:156 final size:156
Alignment explanation
Indices: 14073179--14073492 Score: 592
Period size: 156 Copynumber: 2.0 Consensus size: 156
14073169 CCCTTAGCAT
* *
14073179 AAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAAATTATTATTATCAGT
1 AAATTATTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAAATTATTATTATCAGT
14073244 AATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAATATATAAT
66 AATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAATATATAAT
14073309 TTAATAAAATTCTTATAATTAGCAGA
131 TTAATAAAATTCTTATAATTAGCAGA
*
14073335 AAATTATTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAGT
1 AAATTATTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAAATTATTATTATCAGT
*
14073400 AATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAAT
66 AATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAATATATAAT
14073465 TTAATAAAATTCTTATAATTAGCAGA
131 TTAATAAAATTCTTATAATTAGCAGA
14073491 AA
1 AA
14073493 TTTGTTATTG
Statistics
Matches: 154, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 154 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (156 bp):
AAATTATTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAAATTATTATTATCAGT
AATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAATATATAAT
TTAATAAAATTCTTATAATTAGCAGA
Found at i:14073437 original size:67 final size:67
Alignment explanation
Indices: 14073366--14073578 Score: 168
Period size: 67 Copynumber: 3.1 Consensus size: 67
14073356 ATTGTTAATG
*
14073366 TTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAAT
14073431 TA
66 TA
* * * * * * ***
14073433 TTATTAAATATATTTTAATTAAAATATATAATT-T-AATAA-AATTCTTATAAT--TAGCAGAAA
1 TTATT---TAAATTTTAA-TAAGAT-TATTATTATCAATAATAAATATTTTAATCATA-TTTAAA
** * *
14073493 TTTGTTATTG
60 --CATAATTA
* *
14073503 TTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAAT
14073568 TA
66 TA
14073570 TTA-TTAAAT
1 TTATTTAAAT
14073579 ACATTATAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 27
0.65 0.18 0.17
Matches are distributed among these distances:
65 5 0.05
66 12 0.12
67 28 0.27
68 11 0.11
69 12 0.12
70 24 0.23
71 6 0.06
72 6 0.06
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (67 bp):
TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAAT
TA
Found at i:14073461 original size:18 final size:17
Alignment explanation
Indices: 14073440--14073474 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14073430 TTATTATTAA
*
14073440 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
14073458 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
14073475 TCTTATAATT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:14073505 original size:137 final size:138
Alignment explanation
Indices: 14073357--14073622 Score: 435
Period size: 137 Copynumber: 1.9 Consensus size: 138
14073347 TAAATGATTA
* * *
14073357 TTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
* *
14073422 AAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTT-ATAATTA
66 AAACATAATTATTATTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
14073486 GCAGAAAT
131 GCAGAAAT
*
14073494 TTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
****
14073559 AAACATAATTATTATTAAATACATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT
66 AAACATAATTATTATTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
14073623 CATATTCTTA
Statistics
Matches: 118, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
137 112 0.95
138 6 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (138 bp):
TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
AAACATAATTATTATTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
GCAGAAAT
Found at i:14073656 original size:137 final size:135
Alignment explanation
Indices: 14073378--14073656 Score: 339
Period size: 137 Copynumber: 2.0 Consensus size: 135
14073368 ATTTAAATTT
* * *
14073378 TAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
* * * *
14073443 TATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAGCAGAAATTTGTTATTGTTATT
66 CATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTA-CA-AAATTTCTTATTGTTACT
* **
14073508 TAAATTT
129 CAAATCA
14073515 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
**** *
14073580 CATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT-C-ATA-TTCTTATATGAATTT
66 CATTATAATTAAAATATATAATTTAATAAAATTCTT-ATAATTACAAAATTTCTTAT-TG---TT
14073642 ACTCAAATCA
126 ACTCAAATCA
14073652 TAATA
1 TAATA
14073657 TATGATACTA
Statistics
Matches: 122, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
133 6 0.05
134 4 0.03
136 1 0.01
137 105 0.86
138 6 0.05
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (135 bp):
TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
CATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTACAAAATTTCTTATTGTTACTCA
AATCA
Found at i:14081889 original size:20 final size:20
Alignment explanation
Indices: 14081853--14081890 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14081843 TATATATAGA
*
14081853 TATGTAAACAAATTATAAAC
1 TATGTAAACAAAATATAAAC
14081873 TATGTATAA-AAAATATAA
1 TATGTA-AACAAAATATAA
14081891 GGGTGCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (20 bp):
TATGTAAACAAAATATAAAC
Found at i:14081986 original size:37 final size:37
Alignment explanation
Indices: 14081932--14082021 Score: 117
Period size: 37 Copynumber: 2.4 Consensus size: 37
14081922 GTATCTACGT
* *
14081932 ATATATATATTATAAAAATGTATGTATATATATATAA
1 ATATATAAATTACAAAAATGTATGTATATATATATAA
* * * **
14081969 ATGTATAAATTACAAAAATGTATGTATGTATATGTGT
1 ATATATAAATTACAAAAATGTATGTATATATATATAA
14082006 ATATATAAATTACAAA
1 ATATATAAATTACAAA
14082022 GTATAAAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (37 bp):
ATATATAAATTACAAAAATGTATGTATATATATATAA
Found at i:14082158 original size:3 final size:3
Alignment explanation
Indices: 14082150--14082174 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14082140 TATATATATT
14082150 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
14082175 GATTAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:14084081 original size:42 final size:43
Alignment explanation
Indices: 14083980--14084083 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 43
14083970 TTTCGGTCTA
*
14083980 CTCCACTGCATCTTTAGGGAAATAAGACTTGTATTCTCAACCTG
1 CTCCACTGCATCTTCAGGGAAATAAGACTTGTA-TCTCAACCTG
* * * * *
14084024 CTCCACTGCAACTTCAGGGAAATAGGA-TTCGTA-GTCGATCTG
1 CTCCACTGCATCTTCAGGGAAATAAGACTT-GTATCTCAACCTG
14084066 CTCCACTGCATCTTCAGG
1 CTCCACTGCATCTTCAGG
14084084 AAGATACAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 23 0.44
43 2 0.04
44 27 0.52
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (43 bp):
CTCCACTGCATCTTCAGGGAAATAAGACTTGTATCTCAACCTG
Found at i:14094781 original size:16 final size:15
Alignment explanation
Indices: 14094756--14094786 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
14094746 ATGCATTTTA
14094756 TAATGAAATGCCATG
1 TAATGAAATGCCATG
14094771 TAATCGAAATGCCATG
1 TAAT-GAAATGCCATG
14094787 CAGCGAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (15 bp):
TAATGAAATGCCATG
Found at i:14096562 original size:20 final size:20
Alignment explanation
Indices: 14096526--14096563 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14096516 TATATATAGA
*
14096526 TATGTAAACAAATTATAAAC
1 TATGTAAACAAAATATAAAC
14096546 TATGTATAA-AAAATATAA
1 TATGTA-AACAAAATATAA
14096564 GGATGCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (20 bp):
TATGTAAACAAAATATAAAC
Found at i:14096629 original size:37 final size:37
Alignment explanation
Indices: 14096570--14096690 Score: 147
Period size: 37 Copynumber: 3.3 Consensus size: 37
14096560 ATAAGGATGC
** * * *
14096570 ATATATAAGCTATAAAAA--TATGTACGTATCTACGT
1 ATATATAAATTATAAAAATGTATGTATGTATATATGT
* *
14096605 ATATATAGATTATAAAAATGTATGTATGTATATATAT
1 ATATATAAATTATAAAAATGTATGTATGTATATATGT
* *
14096642 ATGTATAAATTACAAAAATGTATGTATGTATATATGT
1 ATATATAAATTATAAAAATGTATGTATGTATATATGT
14096679 ATATATAAATTA
1 ATATATAAATTA
14096691 CAAAGTATAA
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
35 15 0.21
37 57 0.79
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (37 bp):
ATATATAAATTATAAAAATGTATGTATGTATATATGT
Found at i:14096691 original size:37 final size:37
Alignment explanation
Indices: 14096588--14096694 Score: 151
Period size: 37 Copynumber: 2.9 Consensus size: 37
14096578 GCTATAAAAA
* * * * *
14096588 TATGTACGTATCTACGTATATATAGATTATAAAAATG
1 TATGTATGTATATATGTATATATAAATTACAAAAATG
* *
14096625 TATGTATGTATATATATATGTATAAATTACAAAAATG
1 TATGTATGTATATATGTATATATAAATTACAAAAATG
14096662 TATGTATGTATATATGTATATATAAATTACAAA
1 TATGTATGTATATATGTATATATAAATTACAAA
14096695 GTATAAAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (37 bp):
TATGTATGTATATATGTATATATAAATTACAAAAATG
Found at i:14096812 original size:3 final size:3
Alignment explanation
Indices: 14096806--14096860 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
14096796 GATGATGATG
14096806 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14096854 ATA ATA A
1 ATA ATA A
14096861 GATTAAAAGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14103789 original size:15 final size:15
Alignment explanation
Indices: 14103766--14103801 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
14103756 ATATATCTCC
*
14103766 AAACTATTAAACTAT
1 AAACAATTAAACTAT
14103781 AAACAATTAAACTAT
1 AAACAATTAAACTAT
14103796 AAACAA
1 AAACAA
14103802 GGCCTTAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.61, C:0.14, G:0.00, T:0.25
Consensus pattern (15 bp):
AAACAATTAAACTAT
Found at i:14113277 original size:20 final size:20
Alignment explanation
Indices: 14113243--14113284 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
14113233 AACTATTTAA
** *
14113243 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
14113263 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
14113283 AT
1 AT
14113285 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:14122166 original size:17 final size:18
Alignment explanation
Indices: 14122134--14122168 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14122124 TTATGATGTT
14122134 CGCCCGTGTGGGCCCACA
1 CGCCCGTGTGGGCCCACA
14122152 CGCCCGTGT-GGCCCACA
1 CGCCCGTGTGGGCCCACA
14122169 TGACCCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.11, C:0.46, G:0.31, T:0.11
Consensus pattern (18 bp):
CGCCCGTGTGGGCCCACA
Found at i:14126885 original size:28 final size:27
Alignment explanation
Indices: 14126845--14126907 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 27
14126835 ATTGCAATAT
14126845 GGAAGTCCGTCA-GAATAATCTTAATGTG
1 GGAAGTCCGTCAGGAAT-ATCTTAA-GTG
* *
14126873 GGAAGTCTGTCAGGACTATCTTAAGTG
1 GGAAGTCCGTCAGGAATATCTTAAGTG
14126900 GGAAGTCC
1 GGAAGTCC
14126908 CTTAGGACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.32
28 18 0.58
29 3 0.10
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (27 bp):
GGAAGTCCGTCAGGAATATCTTAAGTG
Found at i:14127086 original size:27 final size:27
Alignment explanation
Indices: 14126818--14127095 Score: 235
Period size: 27 Copynumber: 10.3 Consensus size: 27
14126808 CATGCACGTA
* * *
14126818 GGAAGTCCGTTAGGACAAT-TGCAATAT
1 GGAAGTCCGTCAGGACAATCT-TAATGT
* *
14126845 GGAAGTCCGTCAGAATAATCTTAATGT
1 GGAAGTCCGTCAGGACAATCTTAATGT
* *
14126872 GGGAAGTCTGTCAGGACTATCTTAA-GT
1 -GGAAGTCCGTCAGGACAATCTTAATGT
* * *
14126899 GGGAAGTCCCTTAGGACAATCGTAATGT
1 -GGAAGTCCGTCAGGACAATCTTAATGT
* *
14126927 GGAAGTCCG-CTAGAACAATCATAATGT
1 GGAAGTCCGTC-AGGACAATCTTAATGT
* ** * *
14126954 GAAAGTTTGCCAAGACAAT-TATAATGT
1 GGAAGTCCGTCAGGACAATCT-TAATGT
* *
14126981 GGAAGTCTG-CTAGGA-AATTTGTAATGT
1 GGAAGTCCGTC-AGGACAATCT-TAATGT
* *
14127008 GGAAGTCCGTTAGGACAATCTAAATGT
1 GGAAGTCCGTCAGGACAATCTTAATGT
*
14127035 GGCAGTCCGTCAGGACAATCTTAATGT
1 GGAAGTCCGTCAGGACAATCTTAATGT
*
14127062 GGCAGTCCGTCAGGACAATCTTAATGT
1 GGAAGTCCGTCAGGACAATCTTAATGT
*
14127089 AGAAGTC
1 GGAAGTC
14127096 TGCTAGGACG
Statistics
Matches: 204, Mismatches: 37, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
26 4 0.02
27 172 0.84
28 28 0.14
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (27 bp):
GGAAGTCCGTCAGGACAATCTTAATGT
Found at i:14127111 original size:108 final size:108
Alignment explanation
Indices: 14126818--14127111 Score: 289
Period size: 108 Copynumber: 2.7 Consensus size: 108
14126808 CATGCACGTA
* * * * *
14126818 GGAAGTCCGTTAGGACAAT-TGCAATATGGAAGTCCGTCAGAATAATCTTAATGTGGGAAGTCTG
1 GGAAGTCCGTCAGGACAATCT-TAATGTGGAAGTCCGTCAGGACAATCTTAATGT-GGAAGTCTG
*
14126882 -TCAGGACTATCT-TAAGTGGGAAGTCCCTTAGGACAATCGTAATGT
64 CT-AGGACAAT-TGTAAGTGGGAAGTCCCTTAGGACAATCGTAATGT
* * * ** * *
14126927 GGAAGTCCG-CTAGAACAATCATAATGTGAAAGTTTGCCAAGACAAT-TATAATGTGGAAGTCTG
1 GGAAGTCCGTC-AGGACAATCTTAATGTGGAAGTCCGTCAGGACAATCT-TAATGTGGAAGTCTG
*
14126990 CTAGGA-AATTTGTAA-TGTGGAAGTCCGTTAGGACAATC-TAAATGT
64 CTAGGACAA-TTGTAAGTG-GGAAGTCCCTTAGGACAATCGT-AATGT
* * *
14127035 GGCAGTCCGTCAGGACAATCTTAATGTGGCAGTCCGTCAGGACAATCTTAATGTAGAAGTCTGCT
1 GGAAGTCCGTCAGGACAATCTTAATGTGGAAGTCCGTCAGGACAATCTTAATGTGGAAGTCTGCT
*
14127100 AGGACGATTGTA
66 AGGACAATTGTA
14127112 TTTGTGAAGT
Statistics
Matches: 149, Mismatches: 25, Indels: 23
0.76 0.13 0.12
Matches are distributed among these distances:
107 5 0.03
108 102 0.68
109 42 0.28
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (108 bp):
GGAAGTCCGTCAGGACAATCTTAATGTGGAAGTCCGTCAGGACAATCTTAATGTGGAAGTCTGCT
AGGACAATTGTAAGTGGGAAGTCCCTTAGGACAATCGTAATGT
Found at i:14128226 original size:9 final size:9
Alignment explanation
Indices: 14128210--14128266 Score: 87
Period size: 9 Copynumber: 6.3 Consensus size: 9
14128200 AATTCAAGTG
14128210 ATTCGGTTA
1 ATTCGGTTA
*
14128219 ATTTGGTTA
1 ATTCGGTTA
*
14128228 ATTCGGGTA
1 ATTCGGTTA
14128237 ATTCGGTTA
1 ATTCGGTTA
14128246 ATTCGGTTA
1 ATTCGGTTA
*
14128255 ATTCAGTTA
1 ATTCGGTTA
14128264 ATT
1 ATT
14128267 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.25, C:0.09, G:0.21, T:0.46
Consensus pattern (9 bp):
ATTCGGTTA
Found at i:14128265 original size:27 final size:27
Alignment explanation
Indices: 14128191--14128266 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
14128181 GTAGTGATTC
* * *
14128191 AATTCAGTTAATTCAAGTGATTCGGTT
1 AATTCGGTTAATTCAGGTAATTCGGTT
* *
14128218 AATTTGGTTAATTCGGGTAATTCGGTT
1 AATTCGGTTAATTCAGGTAATTCGGTT
*
14128245 AATTCGGTTAATTCAGTTAATT
1 AATTCGGTTAATTCAGGTAATT
14128267 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (27 bp):
AATTCGGTTAATTCAGGTAATTCGGTT
Found at i:14128384 original size:27 final size:28
Alignment explanation
Indices: 14128329--14128387 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
14128319 GAATTAACTG
***
14128329 AAAAAATTTCGGTTCGGTTAATTTTTTA
1 AAAAAATTTCGGTTCGGTTAATCGATTA
14128357 AAAAAATTTCGGTTCGGTTAA-CGATTA
1 AAAAAATTTCGGTTCGGTTAATCGATTA
14128384 AAAA
1 AAAA
14128388 TTTTGAAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.37
Consensus pattern (28 bp):
AAAAAATTTCGGTTCGGTTAATCGATTA
Found at i:14129001 original size:16 final size:16
Alignment explanation
Indices: 14128980--14129032 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
14128970 TTGGTTCGCT
14128980 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
* *
14128996 GTAATGGAATGGATGC
1 GTAATGGAATAGAGGC
*
14129012 GTAATGGAATCGAGGC
1 GTAATGGAATAGAGGC
14129028 GTAAT
1 GTAAT
14129033 AGGTAATTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.34, C:0.08, G:0.36, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:14129101 original size:44 final size:46
Alignment explanation
Indices: 14129012--14129109 Score: 155
Period size: 44 Copynumber: 2.2 Consensus size: 46
14129002 GAATGGATGC
* *
14129012 GTAATGGAATCGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
14129058 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
*
14129102 GGAATGGA
1 GTAATGGA
14129110 GGTGTAATAG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
44 26 0.53
45 3 0.06
46 20 0.41
ACGTcount: A:0.27, C:0.05, G:0.32, T:0.37
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:14129103 original size:39 final size:44
Alignment explanation
Indices: 14129012--14129119 Score: 127
Period size: 46 Copynumber: 2.5 Consensus size: 44
14129002 GAATGGATGC
* *
14129012 GTAATGGAATCGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
14129058 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
* *
14129098 G-AATGGAATGGAGGTGTAATAG
1 GTAATGGAATAGAGGCGTAATAG
14129120 CATAAGGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
39 17 0.30
40 3 0.05
43 1 0.02
44 13 0.23
45 3 0.05
46 20 0.35
ACGTcount: A:0.27, C:0.05, G:0.32, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:14129379 original size:122 final size:110
Alignment explanation
Indices: 14129247--14129498 Score: 279
Period size: 122 Copynumber: 2.2 Consensus size: 110
14129237 TTAATCATAT
* * * * *
14129247 TTTAACATAATTGTTATAAAATATAATTTAATAAAAATTTATAATTTAATAAAATGATTAATAAA
1 TTTAAAATAATTATAATAAAATATAATTTAATAAAAATATAGAATTTAAT-AAA--ATT-AT---
*
14129312 TATTCTTAAATATGAATTTACTAATAAAATCATAATATATAACACTATAAAATATAA
59 TATTCTT--ATATGAATTTAC---TAAAATCATAATATATAACAATATAAAATATAA
* * *
14129369 TTTAAAATAATTATAATTAAATATAATTTAATAATAATATAGAATTTAATAAAATTCTTATTCTT
1 TTTAAAATAATTATAATAAAATATAATTTAATAAAAATATAGAATTTAATAAAATTATTATTCTT
*
14129434 ATATGAATTTACTAAAATCATAATATATAATAATATAAAATATAA
66 ATATGAATTTACTAAAATCATAATATATAACAATATAAAATATAA
14129479 TTTAAATTATAATTTATAAT
1 TTTAAA--ATAA-TTATAAT
14129499 CTACTTTATT
Statistics
Matches: 117, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
110 37 0.32
112 4 0.03
113 19 0.16
115 7 0.06
118 1 0.01
119 3 0.03
121 3 0.03
122 43 0.37
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (110 bp):
TTTAAAATAATTATAATAAAATATAATTTAATAAAAATATAGAATTTAATAAAATTATTATTCTT
ATATGAATTTACTAAAATCATAATATATAACAATATAAAATATAA
Found at i:14129385 original size:16 final size:17
Alignment explanation
Indices: 14129364--14129400 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
14129354 CACTATAAAA
14129364 TATAATTTAAA-ATAAT
1 TATAATTTAAATATAAT
14129380 TATAA-TTAAATATAAT
1 TATAATTTAAATATAAT
14129396 T-TAAT
1 TATAAT
14129401 AATAATATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TATAATTTAAATATAAT
Found at i:14129391 original size:26 final size:28
Alignment explanation
Indices: 14129361--14129424 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
14129351 TAACACTATA
*
14129361 AAATATAATTTAA-AATAAT-TATAATT
1 AAATATAATTTAATAATAATATAGAATT
14129387 AAATATAATTTAATAATAATATAGAATT
1 AAATATAATTTAATAATAATATAGAATT
* *
14129415 TAATAAAATT
1 AAATATAATT
14129425 CTTATTCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.39
27 6 0.18
28 14 0.42
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (28 bp):
AAATATAATTTAATAATAATATAGAATT
Found at i:14130899 original size:49 final size:49
Alignment explanation
Indices: 14130827--14130930 Score: 147
Period size: 49 Copynumber: 2.1 Consensus size: 49
14130817 GAAAAAAAAC
* * * *
14130827 AAATTAAAATTAAGTTTAATATCATGAATCA-AAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCACAAA-CTCAACACTATATA
*
14130876 AAATTAAAATTGAGTTCAATATCATGAATCACAAACTCAACACTATATA
1 AAATTAAAATTAAGTTCAATATCATGAATCACAAACTCAACACTATATA
14130925 AAATTA
1 AAATTA
14130931 TAACACATGA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
49 46 0.94
50 3 0.06
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.31
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCACAAACTCAACACTATATA
Found at i:14132352 original size:24 final size:25
Alignment explanation
Indices: 14132324--14132384 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
14132314 ATTCAAACCA
*
14132324 GAATTACAACTATAAAA-ACCTCTT
1 GAATTGCAACTATAAAATACCTCTT
14132348 GAATTGCAACTATAAAATACCTCTT
1 GAATTGCAACTATAAAATACCTCTT
*
14132373 AAATTGCAACTA
1 GAATTGCAACTA
14132385 AAGCTTCAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
24 16 0.47
25 18 0.53
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.30
Consensus pattern (25 bp):
GAATTGCAACTATAAAATACCTCTT
Found at i:14140422 original size:47 final size:47
Alignment explanation
Indices: 14140346--14140441 Score: 117
Period size: 47 Copynumber: 2.0 Consensus size: 47
14140336 AATCTAATCT
* * *
14140346 AATAATACATAAAAACTTATGATGTTAATAATAT-ATTGTAATTTAAA
1 AATAATACATAAAAACTTATAATGCTAAT-ATATGATTGTAATATAAA
14140393 AATAATACATAATGAAA-TTA-AATGCTAATATATGATTGTAATATAAA
1 AATAATACATAA--AAACTTATAATGCTAATATATGATTGTAATATAAA
14140440 AA
1 AA
14140442 AAATTAAAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
46 4 0.09
47 33 0.77
48 3 0.07
49 3 0.07
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.35
Consensus pattern (47 bp):
AATAATACATAAAAACTTATAATGCTAATATATGATTGTAATATAAA
Found at i:14142125 original size:44 final size:44
Alignment explanation
Indices: 14141988--14142109 Score: 129
Period size: 44 Copynumber: 2.8 Consensus size: 44
14141978 ACTTGACGCG
* * * * * * *
14141988 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTAT-TACTTTA
1 ATCTGCTCCACTACAACCTCAGGGAGATAAGAT-TATCGAATTCA
* * * *
14142032 ATCCGCTCCACTACAACTTCAGGGGGATAGGATTATCGAATTCA
1 ATCTGCTCCACTACAACCTCAGGGAGATAAGATTATCGAATTCA
14142076 ATCTGCTCCACTACAACCTCAGGGAGATAAGATT
1 ATCTGCTCCACTACAACCTCAGGGAGATAAGATT
14142110 TGCTTCTTCA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 3 0.05
44 61 0.95
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (44 bp):
ATCTGCTCCACTACAACCTCAGGGAGATAAGATTATCGAATTCA
Found at i:14142183 original size:44 final size:44
Alignment explanation
Indices: 14142072--14142197 Score: 114
Period size: 44 Copynumber: 2.9 Consensus size: 44
14142062 GATTATCGAA
* * * *
14142072 TTCAATCTGCTCCACTACAACCTC-AGGGAGATAAGATTTGCTTC
1 TTCAGTCTGCTCCACTGCAACTTCAAGGG-GATAAGACTTGCTTC
* ** *
14142116 TTCAGTCTGCCCCACTGTGACTTCAAGGGGATAAGACTTGTTTTC
1 TTCAGTCTGCTCCACTGCAACTTCAAGGGGATAAGACTTG-CTTC
* *
14142161 TT-AGTCTGCTCCGCTGCAACTTCATA-GAGATAAGACT
1 TTCAGTCTGCTCCACTGCAACTTCA-AGGGGATAAGACT
14142198 CGATGCGATC
Statistics
Matches: 66, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
44 56 0.85
45 10 0.15
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (44 bp):
TTCAGTCTGCTCCACTGCAACTTCAAGGGGATAAGACTTGCTTC
Found at i:14142443 original size:87 final size:87
Alignment explanation
Indices: 14142290--14142555 Score: 399
Period size: 87 Copynumber: 3.1 Consensus size: 87
14142280 ACCTGTAATC
* ** * * * * *
14142290 TTCGATCTGCCTCACTGTCGACGCAGGAGGGCAAGATCTGTTATCTTTAACTAGCTCCATTGCAA
1 TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
14142355 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
*
14142377 TTCGATCTGCTTCACTGTTAACGTAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
14142442 CCGATGGAGGTAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * * *
14142464 TTCGATCTGCTTCGCTGTTAATGCAGGAATGCAAGATCTGCTATCTTTAATCAGCTCCACTACAA
1 TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
14142529 CCGATGGAGGCAA-GCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
14142550 TTCGAT
1 TTCGAT
14142556 TTTCACTGAT
Statistics
Matches: 163, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
86 14 0.09
87 149 0.91
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (87 bp):
TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:14144246 original size:25 final size:25
Alignment explanation
Indices: 14144210--14144268 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
14144200 TTGACTTTGA
14144210 TTGATTTCTCTTTT-TTTCTTTTGACT
1 TTGATTT-TCTTTTCTTT-TTTTGACT
**
14144236 TTGATTTTCTTTTCTTTTTTTGTTT
1 TTGATTTTCTTTTCTTTTTTTGACT
14144261 TTGATTTT
1 TTGATTTT
14144269 GAGTTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 20 0.67
26 10 0.33
ACGTcount: A:0.07, C:0.10, G:0.08, T:0.75
Consensus pattern (25 bp):
TTGATTTTCTTTTCTTTTTTTGACT
Found at i:14144252 original size:30 final size:30
Alignment explanation
Indices: 14144183--14144280 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
14144173 TCTTTTTTCG
* *
14144183 CTTTTCATATTTTTATTTTGACTTTGATTGAT
1 CTTTTC-TTTTTTTATTTTGACTTTGATT-TT
* *
14144215 -TTCTCTTTTTTTCTTTTGACTTTGATTTT
1 CTTTTCTTTTTTTATTTTGACTTTGATTTT
* *
14144244 CTTTTCTTTTTTTGTTTTTGATTTTGAGTTTT
1 CTTTTCTTTTTTT-ATTTTGACTTTGA-TTTT
*
14144276 TTTTT
1 CTTTT
14144281 ACTGAACCCT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
29 1 0.02
30 31 0.56
31 15 0.27
32 8 0.15
ACGTcount: A:0.10, C:0.09, G:0.09, T:0.71
Consensus pattern (30 bp):
CTTTTCTTTTTTTATTTTGACTTTGATTTT
Found at i:14145431 original size:13 final size:13
Alignment explanation
Indices: 14145413--14145438 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14145403 CCCGCATGAT
14145413 ATTCGCATTGTGC
1 ATTCGCATTGTGC
14145426 ATTCGCATTGTGC
1 ATTCGCATTGTGC
14145439 CATTTGGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (13 bp):
ATTCGCATTGTGC
Found at i:14146790 original size:20 final size:21
Alignment explanation
Indices: 14146748--14146791 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
14146738 TCCTTTTGCA
14146748 TTTGCTCTAGTTTCTCTAATC
1 TTTGCTCTAGTTTCTCTAATC
* * *
14146769 TTTGGTCTA-TTTCTTTAGTC
1 TTTGCTCTAGTTTCTCTAATC
14146789 TTT
1 TTT
14146792 CGATGAGTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.11, C:0.18, G:0.11, T:0.59
Consensus pattern (21 bp):
TTTGCTCTAGTTTCTCTAATC
Found at i:14154293 original size:118 final size:118
Alignment explanation
Indices: 14154085--14154321 Score: 474
Period size: 118 Copynumber: 2.0 Consensus size: 118
14154075 TCAATACACA
14154085 TGTCTAATGGTATTTTGGTAATTTTACCAAAATATCCTCACTCGAGAAATGACTATTTTGACCTT
1 TGTCTAATGGTATTTTGGTAATTTTACCAAAATATCCTCACTCGAGAAATGACTATTTTGACCTT
14154150 GCTAGTTTTGACATTTACATTTGACCCATTCTCGCTTTTGATAAAATTACAAC
66 GCTAGTTTTGACATTTACATTTGACCCATTCTCGCTTTTGATAAAATTACAAC
14154203 TGTCTAATGGTATTTTGGTAATTTTACCAAAATATCCTCACTCGAGAAATGACTATTTTGACCTT
1 TGTCTAATGGTATTTTGGTAATTTTACCAAAATATCCTCACTCGAGAAATGACTATTTTGACCTT
14154268 GCTAGTTTTGACATTTACATTTGACCCATTCTCGCTTTTGATAAAATTACAAC
66 GCTAGTTTTGACATTTACATTTGACCCATTCTCGCTTTTGATAAAATTACAAC
14154321 T
1 T
14154322 TTGTTTCTTC
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 119 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (118 bp):
TGTCTAATGGTATTTTGGTAATTTTACCAAAATATCCTCACTCGAGAAATGACTATTTTGACCTT
GCTAGTTTTGACATTTACATTTGACCCATTCTCGCTTTTGATAAAATTACAAC
Found at i:14160317 original size:23 final size:25
Alignment explanation
Indices: 14160287--14160338 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 25
14160277 TATCAGATTT
*
14160287 TATAAAATAT-ATTTGT-CCAAATA
1 TATAAAATATAATTTATACCAAATA
*
14160310 TATAAAATATAATTTATATCAAATA
1 TATAAAATATAATTTATACCAAATA
14160335 TATA
1 TATA
14160339 GAAAGGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 10 0.40
24 5 0.20
25 10 0.40
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (25 bp):
TATAAAATATAATTTATACCAAATA
Found at i:14162852 original size:22 final size:22
Alignment explanation
Indices: 14162824--14162865 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14162814 ATATACATTC
14162824 TTAATGATCTAAGAAAGGTTGT
1 TTAATGATCTAAGAAAGGTTGT
* *
14162846 TTAATGATGTAAGAAGGGTT
1 TTAATGATCTAAGAAAGGTT
14162866 ACTAGAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (22 bp):
TTAATGATCTAAGAAAGGTTGT
Found at i:14164811 original size:24 final size:24
Alignment explanation
Indices: 14164784--14164832 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
14164774 AACCGAAAGA
14164784 ATTGTTATATTAGAAAATATATTT
1 ATTGTTATATTAGAAAATATATTT
14164808 ATTGTTATATTAGAAAATATATTT
1 ATTGTTATATTAGAAAATATATTT
14164832 A
1 A
14164833 GTTCTTAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (24 bp):
ATTGTTATATTAGAAAATATATTT
Found at i:14165507 original size:113 final size:113
Alignment explanation
Indices: 14165376--14165590 Score: 324
Period size: 113 Copynumber: 1.9 Consensus size: 113
14165366 ATTTTTCAGA
* * *
14165376 TCATTTTTATTTTGGAGAAAACCACATTCATTTCCAAATGATTCCATTTCTCCATTTTCGTTTTC
1 TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCATTTCTCCA-TTTCATTTTC
*
14165441 ATTTTGGAGAAAACCGTAATAATTTCCAAATG-TTTCCACTTGTCCATT
65 ATTTTGGAGAAAACCATAATAATTTCCAAATGATTTCCACTTGTCCATT
* *
14165489 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCATTTCTCCATTTCATTTTCA
1 TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCATTTCTCCATTTCATTTTCA
* * * *
14165554 TTTTGTAGAAAATCATAATCATTTCTAAATGATTTCC
66 TTTTGGAGAAAACCATAATAATTTCCAAATGATTTCC
14165591 TATTTCTCCA
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
112 36 0.40
113 55 0.60
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (113 bp):
TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCATTTCTCCATTTCATTTTCA
TTTTGGAGAAAACCATAATAATTTCCAAATGATTTCCACTTGTCCATT
Found at i:14165522 original size:56 final size:56
Alignment explanation
Indices: 14165376--14165603 Score: 321
Period size: 56 Copynumber: 4.0 Consensus size: 56
14165366 ATTTTTCAGA
* * * *
14165376 TCATTTTTATTTTGGAGAAAACCACATTCATTTCCAAATGATTCCATTTCTCCATTT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCATTTCTCCA-TT
* * * * *
14165433 TCGTTTTCATTTTGGAGAAAACCGTAATAATTTCCAAATGTTTCCACTTGTCCATT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCATTTCTCCATT
14165489 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCATTTCTCCATT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCATTTCTCCATT
* * *
14165545 TCATTTTCATTTTGTAGAAAATCATAATCATTTCTAAATGATTTCCTATTTCTCCATT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATG-TTTCC-ATTTCTCCATT
14165603 T
1 T
14165604 TCACCAATTC
Statistics
Matches: 152, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
56 90 0.59
57 50 0.33
58 12 0.08
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (56 bp):
TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCATTTCTCCATT
Found at i:14167090 original size:102 final size:102
Alignment explanation
Indices: 14166963--14167167 Score: 356
Period size: 102 Copynumber: 2.0 Consensus size: 102
14166953 TTAGTTACTA
* * * *
14166963 AATCTCTTTAGTTGTTTGAAAGTTAGTTTCTAATGATAATAGCAAAAAAACTAGCATACATTGGA
1 AATCTCTCTAGTTGTTTGAAAGTTAGTTCCTAATGACAATAGCAAAAAAACTAGCATACATTGAA
*
14167028 TCTGAAGAAGAGGCTCGGAGACTACCTTTTTCTAGCC
66 TCTGAAGAAGAGGCTCAGAGACTACCTTTTTCTAGCC
*
14167065 AATCTCTCTAGTTGTTTGAAAGTTAGTTCCTAATGGCAATAGCAAAAAAACTAGCATACATTGAA
1 AATCTCTCTAGTTGTTTGAAAGTTAGTTCCTAATGACAATAGCAAAAAAACTAGCATACATTGAA
14167130 TCTGAAGAAGAGGCTCAGAGACTACCTTTTTCTAGCC
66 TCTGAAGAAGAGGCTCAGAGACTACCTTTTTCTAGCC
14167167 A
1 A
14167168 GGTTGGATGT
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 97 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (102 bp):
AATCTCTCTAGTTGTTTGAAAGTTAGTTCCTAATGACAATAGCAAAAAAACTAGCATACATTGAA
TCTGAAGAAGAGGCTCAGAGACTACCTTTTTCTAGCC
Found at i:14170241 original size:23 final size:23
Alignment explanation
Indices: 14170215--14170258 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
14170205 AACACGAGGT
14170215 AGTCCA-TCAGGACACTAAACACG
1 AGTCCACT-AGGACACTAAACACG
* *
14170238 AGTCTACTAGGACATTAAACA
1 AGTCCACTAGGACACTAAACA
14170259 TGGGGATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.41, C:0.25, G:0.16, T:0.18
Consensus pattern (23 bp):
AGTCCACTAGGACACTAAACACG
Found at i:14179565 original size:6 final size:6
Alignment explanation
Indices: 14179554--14179588 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
14179544 CATAATATAA
14179554 TTAATT TTAATT TTAATT TTAATT TTAATT TTAAT
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTAAT
14179589 CCAATTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTAATT
Found at i:14188915 original size:6 final size:6
Alignment explanation
Indices: 14188904--14188937 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
14188894 ATAATATAAC
14188904 TAATTT TAATTT TAATTT TAATTT TAATTT TAAT
1 TAATTT TAATTT TAATTT TAATTT TAATTT TAAT
14188938 CCAATTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TAATTT
Found at i:14193381 original size:12 final size:12
Alignment explanation
Indices: 14193364--14193414 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
14193354 ATAAACACCA
14193364 AAAAATTATTTT
1 AAAAATTATTTT
* *
14193376 AAAAATTAAAATTA
1 AAAAATT--ATTTT
*
14193390 AAAAAGTATTTT
1 AAAAATTATTTT
14193402 AAAAA-TATTTT
1 AAAAATTATTTT
14193413 AA
1 AA
14193415 TTAAATAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
11 8 0.25
12 15 0.47
14 9 0.28
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (12 bp):
AAAAATTATTTT
Found at i:14193952 original size:17 final size:17
Alignment explanation
Indices: 14193926--14193966 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
14193916 ATTATGTGAA
14193926 TTTAAA-ATTTAT-ATAT
1 TTTAAATATTTATAAT-T
*
14193942 TTTAAATATTTTTAATT
1 TTTAAATATTTATAATT
14193959 TTTAAATA
1 TTTAAATA
14193967 CAAGTTGAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
17 14 0.64
18 2 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTAAATATTTATAATT
Found at i:14194566 original size:5 final size:6
Alignment explanation
Indices: 14194535--14194563 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
14194525 GGGGAAACTT
14194535 GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
14194564 GAAGAACATT
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:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:14197998 original size:23 final size:24
Alignment explanation
Indices: 14197946--14198003 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
14197936 ATATTATAAA
14197946 AATATTAT-TTAATTAAAGCATTAT
1 AATATTATATTAATTAAAG-ATTAT
14197970 AA-ATTATATTAATTAAAG-TTA-
1 AATATTATATTAATTAAAGATTAT
14197991 AGATATTATATTA
1 A-ATATTATATTA
14198004 TATGAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.03
22 4 0.13
23 14 0.45
24 12 0.39
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (24 bp):
AATATTATATTAATTAAAGATTAT
Found at i:14198629 original size:42 final size:40
Alignment explanation
Indices: 14198552--14198630 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 40
14198542 AAAAGTTATG
* * *
14198552 TTTTTAGCGGCGTTTGTGAAAAAGCGTCGCTAAAAGTCAA
1 TTTTTAGCGGCATTTGTGAAAAAGCGCCACTAAAAGTCAA
14198592 TTTTATAGCGGCATTTGT-AATATAAGCGCCACTAAAAGT
1 TTTT-TAGCGGCATTTGTGAA-A-AAGCGCCACTAAAAGT
14198631 TATGACCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 6 0.18
41 13 0.39
42 14 0.42
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (40 bp):
TTTTTAGCGGCATTTGTGAAAAAGCGCCACTAAAAGTCAA
Found at i:14198705 original size:86 final size:85
Alignment explanation
Indices: 14198615--14198860 Score: 307
Period size: 86 Copynumber: 2.9 Consensus size: 85
14198605 TTTGTAATAT
* * ** * *
14198615 AAGCGCCACTAAAAGTTATGACCTATAGTGGCGTTTGT-GGTAGAAGCACCGCTAAAGGTCATGG
1 AAGCGCCACTAAAGGTCATGGTCTTTAGTGGCGTTTGTAGG-A-AAGCGCCGCTAAAGGTCATGG
*
14198679 TATTTAGCGGCGTTTGTGGGAA
64 TCTTTAGCGGCGTTTGTGGGAA
* * *
14198701 AAGCGCCGA-TAAAGGTCATGGTCTTTAGCCGGTGTTTGTCGGAAAGCGCCGCTAAAGGTCATGG
1 AAGCGCC-ACTAAAGGTCATGGTCTTTAG-TGGCGTTTGTAGGAAAGCGCCGCTAAAGGTCATGG
*
14198765 TCTTTAGTGGCGTTTGTGGGAA
64 TCTTTAGCGGCGTTTGTGGGAA
* * * *
14198787 AAGCGCCACTAAAGGTCATGGTCTTTAATGGCATTTGTAGGAATGCGCCGTTAAAGGTCATGGTC
1 AAGCGCCACTAAAGGTCATGGTCTTTAGTGGCGTTTGTAGGAAAGCGCCGCTAAAGGTCATGGTC
14198852 TTTAGCGGC
66 TTTAGCGGC
14198861 ACTTTTTCCA
Statistics
Matches: 138, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
85 40 0.29
86 86 0.62
87 10 0.07
88 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (85 bp):
AAGCGCCACTAAAGGTCATGGTCTTTAGTGGCGTTTGTAGGAAAGCGCCGCTAAAGGTCATGGTC
TTTAGCGGCGTTTGTGGGAA
Found at i:14198848 original size:42 final size:43
Alignment explanation
Indices: 14198644--14198903 Score: 276
Period size: 43 Copynumber: 6.1 Consensus size: 43
14198634 GACCTATAGT
* * * *
14198644 GGCGTTTGTGGTAGAAGCACCGCTAAAGGTCATGGTATTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
*
14198687 GGCGTTTGTGGGAAAAGCGCCGATAAAGGTCATGGTCTTTAGCC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAG-C
* * *
14198731 GGTGTTTGTCGG-AAAGCGCCGCTAAAGGTCATGGTCTTTAGT
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
* **
14198773 GGCGTTTGTGGGAAAAGCGCCACTAAAGGTCATGGTCTTTAAT
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
* * * *
14198816 GGCATTTGTAGG-AATGCGCCGTTAAAGGTCATGGTCTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
* *** * *
14198858 GGCACTTT-TTCCACAAA-CGCTGCTAAAGGTCATGATCTTTAGC
1 GGC-GTTTGTGGGA-AAAGCGCCGCTAAAGGTCATGGTCTTTAGC
14198901 GGC
1 GGC
14198904 ATTTATTTCT
Statistics
Matches: 184, Mismatches: 28, Indels: 10
0.83 0.13 0.05
Matches are distributed among these distances:
42 39 0.21
43 132 0.72
44 13 0.07
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (43 bp):
GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
Found at i:14199873 original size:3 final size:3
Alignment explanation
Indices: 14199865--14199936 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
14199855 TTAATTTATG
14199865 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14199913 TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
14199937 AGATGAGTGG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14207727 original size:3 final size:3
Alignment explanation
Indices: 14207719--14207774 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
14207709 ATGAGGTAAG
14207719 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14207767 TAT TAT TA
1 TAT TAT TA
14207775 NNNNNNNNNN
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:14208283 original size:37 final size:39
Alignment explanation
Indices: 14208224--14208319 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
14208214 CGGATAGATT
* * * *
14208224 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTCTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
14208261 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
14208300 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
14208320 TACTGGAGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.26
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:14209005 original size:22 final size:22
Alignment explanation
Indices: 14208977--14209054 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
14208967 GTTTTTATTA
14208977 CTTAGTACGTTAGCCATGAGAG
1 CTTAGTACGTTAGCCATGAGAG
*
14208999 CTTAGTACGTTAGCCATGAGGG
1 CTTAGTACGTTAGCCATGAGAG
* * **
14209021 TTTAGTTCGTTAAACATGAGAG
1 CTTAGTACGTTAGCCATGAGAG
14209043 CTTAGTACGTTA
1 CTTAGTACGTTA
14209055 AACATTGGTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (22 bp):
CTTAGTACGTTAGCCATGAGAG
Found at i:14212043 original size:30 final size:29
Alignment explanation
Indices: 14211999--14212056 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
14211989 TTATTTTTAA
14211999 AAAATTAAAGTTAGTGG-TAAATTTAATT
1 AAAATTAAAGTTAGTGGCTAAATTTAATT
*
14212027 AAAATTCAAAGTTTAGTGGCTAAGTTTAAT
1 AAAATT-AAAG-TTAGTGGCTAAATTTAAT
14212057 CACATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 6 0.23
29 4 0.15
30 7 0.27
31 9 0.35
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (29 bp):
AAAATTAAAGTTAGTGGCTAAATTTAATT
Found at i:14212824 original size:9 final size:9
Alignment explanation
Indices: 14212794--14212840 Score: 69
Period size: 9 Copynumber: 5.2 Consensus size: 9
14212784 AAACCCTTTT
14212794 AAAATT-TA
1 AAAATTATA
*
14212802 ACAATTATTA
1 AAAATTA-TA
14212812 AAAATTATA
1 AAAATTATA
14212821 AAAATTATA
1 AAAATTATA
14212830 AAAATTATA
1 AAAATTATA
14212839 AA
1 AA
14212841 CTAAATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
8 5 0.14
9 22 0.63
10 8 0.23
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAATTATA
Found at i:14212858 original size:12 final size:11
Alignment explanation
Indices: 14212811--14212865 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 11
14212801 AACAATTATT
14212811 AAAAATTAT--
1 AAAAATTATAA
14212820 AAAAATTAT--
1 AAAAATTATAA
14212829 AAAAATTATAA
1 AAAAATTATAA
*
14212840 ACTAAATTTATAA
1 A--AAAATTATAA
14212853 AAAAATTATAA
1 AAAAATTATAA
14212864 AA
1 AA
14212866 TTTTTATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
9 18 0.45
11 12 0.30
13 10 0.25
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:14220916 original size:43 final size:43
Alignment explanation
Indices: 14220855--14220945 Score: 164
Period size: 43 Copynumber: 2.1 Consensus size: 43
14220845 TGCAGGGGTC
*
14220855 ACACGCTCGTGTGGTCAAGCCGTGTGGCTCGCACGACCACGGG
1 ACACGCTCGTATGGTCAAGCCGTGTGGCTCGCACGACCACGGG
*
14220898 ACACGCTCGTATGGTCAAGCCGTGTGGCTCGCACGGCCACGGG
1 ACACGCTCGTATGGTCAAGCCGTGTGGCTCGCACGACCACGGG
14220941 ACACG
1 ACACG
14220946 TGTAACTCTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.18, C:0.33, G:0.34, T:0.15
Consensus pattern (43 bp):
ACACGCTCGTATGGTCAAGCCGTGTGGCTCGCACGACCACGGG
Found at i:14222312 original size:26 final size:26
Alignment explanation
Indices: 14222283--14222388 Score: 99
Period size: 26 Copynumber: 4.1 Consensus size: 26
14222273 ATCTTCTTTC
14222283 GAGCCATATAACAGGAAGCTCACAAA
1 GAGCCATATAACAGGAAGCTCACAAA
*
14222309 GAGCCAT-TAATCGGGAAGCTCACAAA
1 GAGCCATATAA-CAGGAAGCTCACAAA
* ** * *
14222335 GAGGCTATATAATGGGAAGCTAACACA
1 GA-GCCATATAACAGGAAGCTCACAAA
* * *
14222362 GAGCCATA-ATCAGGAAGTTCATAAA
1 GAGCCATATAACAGGAAGCTCACAAA
14222387 GA
1 GA
14222389 ACTTTTAATC
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
25 15 0.23
26 28 0.44
27 18 0.28
28 3 0.05
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (26 bp):
GAGCCATATAACAGGAAGCTCACAAA
Found at i:14222397 original size:78 final size:77
Alignment explanation
Indices: 14222283--14222458 Score: 178
Period size: 78 Copynumber: 2.3 Consensus size: 77
14222273 ATCTTCTTTC
* * * *
14222283 GAGCCATATAACAGGAAGCTCACAAAGAGCCATTAATCGGGAAGCTCACAAAGAGG-CTATATAA
1 GAGCCATA-ATCAGGAAGCTCACAAAGAACCATTAATCAGGAAGATCACAAAG-GGCCTATA-AA
14222347 TGGGAAGCTAAC-ACA
63 TGGGAAGCTAACGA-A
* * ** * *
14222362 GAGCCATAATCAGGAAGTTCATAAAGAACTTTTAATCAGGAAGATCACGAAGGGCCTTTAAATGG
1 GAGCCATAATCAGGAAGCTCACAAAGAACCATTAATCAGGAAGATCACAAAGGGCCTATAAATGG
*
14222427 GAAGCTCACGAA
66 GAAGCTAACGAA
*
14222439 AAGCCATTAATCAGG-AGCTC
1 GAGCCA-TAATCAGGAAGCTC
14222459 CGGATAGCCA
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
77 25 0.31
78 48 0.59
79 8 0.10
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.18
Consensus pattern (77 bp):
GAGCCATAATCAGGAAGCTCACAAAGAACCATTAATCAGGAAGATCACAAAGGGCCTATAAATGG
GAAGCTAACGAA
Found at i:14222421 original size:26 final size:26
Alignment explanation
Indices: 14222392--14222454 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
14222382 ATAAAGAACT
**
14222392 TTTAATCAGGAAGATCACGAAGGGCC
1 TTTAATCAGGAAGATCACGAAAAGCC
* *
14222418 TTTAAAT-GGGAAGCTCACGAAAAGCC
1 TTT-AATCAGGAAGATCACGAAAAGCC
*
14222444 ATTAATCAGGA
1 TTTAATCAGGA
14222455 GCTCCGGATA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
25 3 0.10
26 23 0.79
27 3 0.10
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (26 bp):
TTTAATCAGGAAGATCACGAAAAGCC
Found at i:14222711 original size:65 final size:65
Alignment explanation
Indices: 14222498--14222711 Score: 270
Period size: 65 Copynumber: 3.3 Consensus size: 65
14222488 GAGCCATATC
* * * *
14222498 AGGACACTCACAAAGAGCTACGTTTATG-CCTACAACATATGCAGGATCACAACTGATCATAAAA
1 AGGACGCTCACAAAGAGCTGCGTTTATGTCC-ACAATATATGCAGGATCACAACTGATCATATAA
14222562 T
65 T
* * * * * *
14222563 AGGACGCTCAAAAAGACCTGGGTTTCTGTCCGCAATATATGCAGGATCATAA-TAGATCATATAA
1 AGGACGCTCACAAAGAGCTGCGTTTATGTCCACAATATATGCAGGATCACAACT-GATCATATAA
14222627 T
65 T
* * * *
14222628 AGGACGCTCACAAGGAGCTGTGTTTGTGTCCACAATATATACAGGATCACAACTGATCATATAAT
1 AGGACGCTCACAAAGAGCTGCGTTTATGTCCACAATATATGCAGGATCACAACTGATCATATAAT
14222693 AGGACGCTCACAAAGAGCT
1 AGGACGCTCACAAAGAGCT
14222712 ACGGTAGTCC
Statistics
Matches: 127, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
64 1 0.01
65 123 0.97
66 3 0.02
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.23
Consensus pattern (65 bp):
AGGACGCTCACAAAGAGCTGCGTTTATGTCCACAATATATGCAGGATCACAACTGATCATATAAT
Found at i:14235481 original size:17 final size:17
Alignment explanation
Indices: 14235459--14235495 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
14235449 CTTTGAAGTA
*
14235459 CAAACTGTCATTAGAAC
1 CAAACTGTCATCAGAAC
14235476 CAAACTGTCATCAGAAC
1 CAAACTGTCATCAGAAC
14235493 CAA
1 CAA
14235496 CATAAAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.43, C:0.27, G:0.11, T:0.19
Consensus pattern (17 bp):
CAAACTGTCATCAGAAC
Found at i:14242671 original size:27 final size:27
Alignment explanation
Indices: 14242594--14242772 Score: 141
Period size: 27 Copynumber: 6.7 Consensus size: 27
14242584 CCTAGGGGTA
*
14242594 TTACCTTATGGGGGTATTT-TAGTCATT
1 TTACCTTATGGGGGTATTTCGA-TCATT
* ** *
14242621 TTACC--ATGAGCTTATTTCGGTCATT
1 TTACCTTATGGGGGTATTTCGATCATT
*
14242646 CTACCTTATGGGGGTATTTCGATCATT
1 TTACCTTATGGGGGTATTTCGATCATT
* *
14242673 CTA-CTCTATAGGGGTATTTCGATCATT
1 TTACCT-TATGGGGGTATTTCGATCATT
* * *
14242700 TTACCCTATGAGGGTATATCGATCATT
1 TTACCTTATGGGGGTATTTCGATCATT
** * * * *
14242727 TTACCCAATAGAGGTATTTTGGTCATT
1 TTACCTTATGGGGGTATTTCGATCATT
* *
14242754 TTACCTTACGGAGGTATTT
1 TTACCTTATGGGGGTATTT
14242773 TAGTCAATTT
Statistics
Matches: 120, Mismatches: 27, Indels: 10
0.76 0.17 0.06
Matches are distributed among these distances:
25 18 0.15
26 2 0.02
27 99 0.82
28 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.42
Consensus pattern (27 bp):
TTACCTTATGGGGGTATTTCGATCATT
Found at i:14242715 original size:54 final size:54
Alignment explanation
Indices: 14242633--14242758 Score: 162
Period size: 54 Copynumber: 2.3 Consensus size: 54
14242623 ACCATGAGCT
* * * * * * *
14242633 TATTTCGGTCATTCTACCTTATGGGGGTATTTCGATCATTCTACTCTATAGGGG
1 TATTTCGGTCATTTTACCCTATGAGGGTATATCGATCATTCTACCCAATAGAGG
* *
14242687 TATTTCGATCATTTTACCCTATGAGGGTATATCGATCATTTTACCCAATAGAGG
1 TATTTCGGTCATTTTACCCTATGAGGGTATATCGATCATTCTACCCAATAGAGG
*
14242741 TATTTTGGTCATTTTACC
1 TATTTCGGTCATTTTACC
14242759 TTACGGAGGT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.41
Consensus pattern (54 bp):
TATTTCGGTCATTTTACCCTATGAGGGTATATCGATCATTCTACCCAATAGAGG
Found at i:14244074 original size:11 final size:11
Alignment explanation
Indices: 14244058--14244093 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
14244048 CCCAACAACA
14244058 CCATTCAAATT
1 CCATTCAAATT
14244069 CCATTCAAATT
1 CCATTCAAATT
14244080 CCATTCAAACTT
1 CCATTCAAA-TT
14244092 CC
1 CC
14244094 CTTAGCTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (11 bp):
CCATTCAAATT
Found at i:14252518 original size:19 final size:20
Alignment explanation
Indices: 14252486--14252524 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
14252476 TCTTTTCTAG
*
14252486 GAATTTTAATATTT-TTATT
1 GAATTTTAACATTTCTTATT
*
14252505 GAATTTTCACATTTCTTATT
1 GAATTTTAACATTTCTTATT
14252525 TTAAGATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (20 bp):
GAATTTTAACATTTCTTATT
Found at i:14255112 original size:13 final size:13
Alignment explanation
Indices: 14255094--14255118 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14255084 CAAAATGGGT
14255094 AATTGAACTTGAA
1 AATTGAACTTGAA
14255107 AATTGAACTTGA
1 AATTGAACTTGA
14255119 GATCGAAAAT
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:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (13 bp):
AATTGAACTTGAA
Found at i:14259477 original size:16 final size:16
Alignment explanation
Indices: 14259456--14259486 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
14259446 TTAAGTGATT
14259456 TAGCTTGTTAGTAACC
1 TAGCTTGTTAGTAACC
14259472 TAGCTTGTTAGTAAC
1 TAGCTTGTTAGTAAC
14259487 TAAGTAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (16 bp):
TAGCTTGTTAGTAACC
Found at i:14262906 original size:14 final size:14
Alignment explanation
Indices: 14262889--14262915 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14262879 AGTCACATAG
14262889 GAGCCTATACATGT
1 GAGCCTATACATGT
14262903 GAGCCTATACATG
1 GAGCCTATACATG
14262916 CCATATAATT
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:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (14 bp):
GAGCCTATACATGT
Found at i:14265855 original size:15 final size:15
Alignment explanation
Indices: 14265837--14265866 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14265827 CTGAGAATAG
*
14265837 CTATGTTTAGAACAT
1 CTATGTTCAGAACAT
14265852 CTATGTTCAGAACAT
1 CTATGTTCAGAACAT
14265867 GATTTCAGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (15 bp):
CTATGTTCAGAACAT
Found at i:14266414 original size:22 final size:22
Alignment explanation
Indices: 14266386--14266429 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
14266376 TTAAGTGTTT
14266386 CTCCCTTTTAGAAACATAATGA
1 CTCCCTTTTAGAAACATAATGA
14266408 CTCCCTTTTAGAAACATAATGA
1 CTCCCTTTTAGAAACATAATGA
14266430 GTTCTTCTTC
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:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (22 bp):
CTCCCTTTTAGAAACATAATGA
Found at i:14269856 original size:12 final size:12
Alignment explanation
Indices: 14269839--14269868 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14269829 GACTAATACA
*
14269839 ATTATGCATGTT
1 ATTATGCATGAT
14269851 ATTATGCATGAT
1 ATTATGCATGAT
14269863 ATTATG
1 ATTATG
14269869 TTTTATCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.47
Consensus pattern (12 bp):
ATTATGCATGAT
Found at i:14274163 original size:17 final size:17
Alignment explanation
Indices: 14274130--14274163 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14274120 TTGTGTTTTG
*
14274130 TGCAAAAAGGGCTAAAT
1 TGCAAAAAGGGCAAAAT
*
14274147 TGCAAAAAGTGCAAAAT
1 TGCAAAAAGGGCAAAAT
14274164 GTTAGGGGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.18
Consensus pattern (17 bp):
TGCAAAAAGGGCAAAAT
Found at i:14274991 original size:41 final size:41
Alignment explanation
Indices: 14274929--14275037 Score: 146
Period size: 41 Copynumber: 2.7 Consensus size: 41
14274919 TGATCGAATG
* *
14274929 TAATACAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAA
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
*
14274970 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGATA
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
* * * * *
14275011 CATTTCGGACTATAGGTCTAGCAGGCT
1 TAATTCAGACTTTACGTCTAGCAGGCT
14275038 AAAAGTCGGT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (41 bp):
TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
Found at i:14278509 original size:41 final size:41
Alignment explanation
Indices: 14278447--14278566 Score: 150
Period size: 41 Copynumber: 2.9 Consensus size: 41
14278437 TGATCGAATG
* *
14278447 TAATACAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAA
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
*
14278488 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGATA
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
* * * * * * *
14278529 CATTTCGGACTATAGGTCTAGCAGGCTAAAAGCCGGTG
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTG
14278567 TACTGAATCA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
Found at i:14293503 original size:44 final size:44
Alignment explanation
Indices: 14293453--14293668 Score: 220
Period size: 44 Copynumber: 4.9 Consensus size: 44
14293443 GAATTTGTTG
* * *
14293453 CTTCAATCTACTCCACTGCAACTTCAAGGAGATGAGGTTTGCAA
1 CTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGCGA
* * * * *
14293497 CTTCAATCTACTCTATTGCAACTTTAAAGAGATAAGATTTGTGA
1 CTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGCGA
* * * * * *
14293541 CTTTAATATGCTCTACTGCAACTT-TAGAGAGATAAGATTTGC-T
1 CTTCAATCTACTCCACTGCAACTTCAAG-GAGATAAGATTTGCGA
* * * *
14293584 CTTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGA
1 C--TTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGCGA
*
14293630 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
1 CTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATT
14293669 CACCACAGTG
Statistics
Matches: 143, Mismatches: 24, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
43 2 0.01
44 105 0.73
45 34 0.24
46 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGCGA
Found at i:14296604 original size:16 final size:16
Alignment explanation
Indices: 14296583--14296615 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
14296573 GTTTATCTGG
14296583 ACTAGGTGGCATCAGC
1 ACTAGGTGGCATCAGC
14296599 ACTAGGTGGCATCAGC
1 ACTAGGTGGCATCAGC
14296615 A
1 A
14296616 ATGGGCATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.30, T:0.18
Consensus pattern (16 bp):
ACTAGGTGGCATCAGC
Found at i:14300604 original size:25 final size:25
Alignment explanation
Indices: 14300576--14300638 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
14300566 GCAAACATGT
*
14300576 AAACGGGAAGCTC-TTTCGAGCCATA
1 AAACGGGAAGCTCATGT-GAGCCATA
*
14300601 AAACGGGAAGCTCATGTGAGCCATC
1 AAACGGGAAGCTCATGTGAGCCATA
*
14300626 TAACGGGAAGCTC
1 AAACGGGAAGCTC
14300639 CATAAAACCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 32 0.94
26 2 0.06
ACGTcount: A:0.32, C:0.24, G:0.27, T:0.17
Consensus pattern (25 bp):
AAACGGGAAGCTCATGTGAGCCATA
Found at i:14302870 original size:40 final size:41
Alignment explanation
Indices: 14302826--14302934 Score: 177
Period size: 40 Copynumber: 2.7 Consensus size: 41
14302816 CATTGAATGT
*
14302826 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATC-AA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAA
14302866 AAGGGGTTGCTAAGTGCAGATTCCCC-AATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAA
*
14302906 AAGGGGGTTGCCAAGTGCAGATTCCCCGA
1 AA-GGGGTTGCTAAGTGCAGATTCCCCGA
14302935 GGGGTTACTA
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
39 10 0.16
40 30 0.47
41 23 0.36
42 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAA
Done.