Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 143 of 333
Found at i:46861099 original size:18 final size:18
Alignment explanation
Indices: 46861071--46861131 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
46861061 TTAGAAAAAA
*
46861071 ATATTTTTTAAAAAATAT
1 ATATTTATTAAAAAATAT
*
46861089 TTATTTATTAAAAAA-AT
1 ATATTTATTAAAAAATAT
46861106 GA-ATTTATTTAAAAAATAT
1 -ATATTTA-TTAAAAAATAT
46861125 ATATTTA
1 ATATTTA
46861132 AATTAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 7 0.19
18 22 0.61
19 7 0.19
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
ATATTTATTAAAAAATAT
Found at i:46861111 original size:17 final size:15
Alignment explanation
Indices: 46861065--46861129 Score: 58
Period size: 17 Copynumber: 4.0 Consensus size: 15
46861055 AATTAATTAG
*
46861065 AAAAAAATATTTTTT
1 AAAAAAATATTTATT
46861080 AAAAAATATTTATTTATT
1 AAAAAA-A--TATTTATT
46861098 AAAAAAATGAATTTATT
1 AAAAAAAT--ATTTATT
* *
46861115 TAAAAAATATATATT
1 AAAAAAATATTTATT
46861130 TAAATTAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
15 13 0.31
16 1 0.02
17 15 0.36
18 13 0.31
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
AAAAAAATATTTATT
Found at i:46861122 original size:36 final size:34
Alignment explanation
Indices: 46861065--46861140 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 34
46861055 AATTAATTAG
*
46861065 AAAAAAATATTTTTTAAAAAATATTTATTT-ATT
1 AAAAAAATATTTTTTAAAAAATATATATTTAATT
46861098 AAAAAAATGAATTTATTTAAAAAATATATATTTAAATT
1 AAAAAAAT--ATTT-TTTAAAAAATATATATTT-AATT
46861136 AAAAA
1 AAAAA
46861141 TTAAAAATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
33 8 0.22
35 4 0.11
36 17 0.46
38 8 0.22
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (34 bp):
AAAAAAATATTTTTTAAAAAATATATATTTAATT
Found at i:46861621 original size:20 final size:21
Alignment explanation
Indices: 46861593--46861653 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
46861583 TTTATTTTAG
46861593 TACACATTCATAAATTTATAT
1 TACACATTCATAAATTTATAT
** * * *
46861614 TTTA-ATTCTTTAATTT-TAG
1 TACACATTCATAAATTTATAT
46861633 TACACATTCATAAATTTATAT
1 TACACATTCATAAATTTATAT
46861654 ACTTAATATA
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
19 4 0.14
20 20 0.71
21 4 0.14
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (21 bp):
TACACATTCATAAATTTATAT
Found at i:46861671 original size:40 final size:40
Alignment explanation
Indices: 46861586--46861671 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 40
46861576 ATTTTTTTTT
* * *
46861586 ATTTTAGTACACATTCATAAATTTATATTTTAATTCTTTA
1 ATTTTAGTACACATTCATAAATTTATATCTTAATTATATA
46861626 ATTTTAGTACACATTCATAAATTTATATACTTAA-TATATA
1 ATTTTAGTACACATTCATAAATTTATAT-CTTAATTATATA
*
46861666 TTTTTA
1 ATTTTA
46861672 ATAGGTAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 37 0.90
41 4 0.10
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.51
Consensus pattern (40 bp):
ATTTTAGTACACATTCATAAATTTATATCTTAATTATATA
Found at i:46861807 original size:71 final size:72
Alignment explanation
Indices: 46861727--46861877 Score: 259
Period size: 71 Copynumber: 2.1 Consensus size: 72
46861717 AAAAAATTTA
*
46861727 AAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATTTCAAAATTTTAATATATTTAATAT
1 AAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATTTCAAAATTTTAATATATTCAATAT
46861792 A-TTTTT
66 ATTTTTT
* *
46861798 AAAAAATTAAATATATTAAAAAATTTTAAGTATAACCAATTTTAAAATTTTAATATATTCAATAT
1 AAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATTTCAAAATTTTAATATATTCAATAT
46861863 ATTTTTTT
66 A-TTTTTT
46861871 AAAAAAT
1 AAAAAAT
46861878 ATTTTAAAAT
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
71 63 0.84
73 12 0.16
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (72 bp):
AAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATTTCAAAATTTTAATATATTCAATAT
ATTTTTT
Found at i:46861826 original size:19 final size:19
Alignment explanation
Indices: 46861700--46861831 Score: 50
Period size: 18 Copynumber: 7.3 Consensus size: 19
46861690 AGATTTTCTT
*
46861700 AATATATT-TAAAATTTTA
1 AATATATTAAAAAATTTTA
* *
46861718 AA-AAATTTAAAAAA-ATTA
1 AATATA-TTAAAAAATTTTA
*
46861736 AATATATTAAAAAATGTT-
1 AATATATTAAAAAATTTTA
* ** *
46861754 AA-GTA-TAACCAATTTCA
1 AATATATTAAAAAATTTTA
* * *
46861771 AA-ATTTTAATATA-TTTA
1 AATATATTAAAAAATTTTA
*
46861788 ATATATTTTTAAAAAA--TTA
1 A-ATA-TATTAAAAAATTTTA
46861807 AATATATTAAAAAATTTTA
1 AATATATTAAAAAATTTTA
*
46861826 AGTATA
1 AATATA
46861832 ACCAATTTTA
Statistics
Matches: 83, Mismatches: 20, Indels: 21
0.67 0.16 0.17
Matches are distributed among these distances:
16 7 0.08
17 20 0.24
18 27 0.33
19 21 0.25
20 8 0.10
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
AATATATTAAAAAATTTTA
Found at i:46861954 original size:17 final size:17
Alignment explanation
Indices: 46861931--46862000 Score: 61
Period size: 17 Copynumber: 4.0 Consensus size: 17
46861921 AGAAAAAGAT
*
46861931 TTTTTAATATATTTAAAA
1 TTTTAAATATA-TTAAAA
*
46861949 TTTTAAA-AAACTTAAAAA
1 TTTTAAATATA-TT-AAAA
**
46861967 AATTAAATATATTAAAA
1 TTTTAAATATATTAAAA
*
46861984 TTTTAAATATGTTAAAA
1 TTTTAAATATATTAAAA
46862001 GAAAATGTTG
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
17 22 0.54
18 17 0.41
19 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
TTTTAAATATATTAAAA
Found at i:46867242 original size:12 final size:13
Alignment explanation
Indices: 46867188--46867242 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 13
46867178 AAACGTTTGA
46867188 ATATCTTTAAAATT
1 ATAT-TTTAAAATT
46867202 A-ATTTTAAAATT
1 ATATTTTAAAATT
46867214 AATAATTTATAAAAATT
1 -AT-ATTT-T-AAAATT
46867231 ATA-TTTAAAATT
1 ATATTTTAAAATT
46867243 TAAAAAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
12 15 0.42
13 4 0.11
14 3 0.08
15 5 0.14
16 3 0.08
17 6 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATTTTAAAATT
Found at i:46867256 original size:11 final size:11
Alignment explanation
Indices: 46867240--46867274 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
46867230 TATATTTAAA
46867240 ATTTAAAAAAT
1 ATTTAAAAAAT
46867251 ATTTAAAAAATAT
1 ATTT-AAAAA-AT
46867264 ATTTAAAAAAT
1 ATTTAAAAAAT
46867275 TATAAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 6 0.27
12 10 0.45
13 6 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
ATTTAAAAAAT
Found at i:46867265 original size:13 final size:13
Alignment explanation
Indices: 46867240--46867274 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
46867230 TATATTTAAA
46867240 ATTT-AAAAA-AT
1 ATTTAAAAAATAT
46867251 ATTTAAAAAATAT
1 ATTTAAAAAATAT
46867264 ATTTAAAAAAT
1 ATTTAAAAAAT
46867275 TATAAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 4 0.18
12 5 0.23
13 13 0.59
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTTAAAAAATAT
Found at i:46867274 original size:33 final size:34
Alignment explanation
Indices: 46867218--46867281 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
46867208 AAAATTAATA
46867218 ATTTATAAAAATTATATTTAAAATT-TAAAAAAT
1 ATTTATAAAAATTATATTTAAAATTATAAAAAAT
46867251 ATTTA-AAAAA-TATATTTAAAAAATTATAAAA
1 ATTTATAAAAATTATATTT--AAAATTATAAAA
46867282 CAAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
31 7 0.25
32 5 0.18
33 11 0.39
34 5 0.18
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (34 bp):
ATTTATAAAAATTATATTTAAAATTATAAAAAAT
Found at i:46867347 original size:14 final size:15
Alignment explanation
Indices: 46867330--46867362 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
46867320 TATATTTTAA
46867330 ATAATTTAAAA-ATC
1 ATAATTTAAAATATC
46867344 ATAATTTAAAATATC
1 ATAATTTAAAATATC
46867359 ATAA
1 ATAA
46867363 AATAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAATTTAAAATATC
Found at i:46867350 original size:24 final size:25
Alignment explanation
Indices: 46867309--46867356 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
46867299 AGTTCATATC
*
46867309 TTTAAAAATAATATATTTTAAATAA
1 TTTAAAAATAATATATTTAAAATAA
*
46867334 TTTAAAAATCATA-ATTTAAAATA
1 TTTAAAAATAATATATTTAAAATA
46867357 TCATAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
TTTAAAAATAATATATTTAAAATAA
Found at i:46867392 original size:29 final size:27
Alignment explanation
Indices: 46867360--46867430 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 27
46867350 TAAAATATCA
*
46867360 TAAAATAAATTTAAAAAATATT-TAATATT
1 TAAAATAAATTT--AAAATATTATAA-AAT
46867389 TAAAATATACATTTAAAATATTATAAAAT
1 TAAAATA-A-ATTTAAAATATTATAAAAT
46867418 TAATAATAAATTT
1 TAA-AATAAATTT
46867431 GAAAGGTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
28 4 0.11
29 21 0.57
30 8 0.22
31 4 0.11
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (27 bp):
TAAAATAAATTTAAAATATTATAAAAT
Found at i:46867486 original size:21 final size:21
Alignment explanation
Indices: 46867462--46867531 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 21
46867452 ATTTAAATGT
46867462 TTTATATTATTAAAAAATATA
1 TTTATATTATTAAAAAATATA
46867483 TTTA-A-TATTTAAAAAATAATA
1 TTTATATTA-TTAAAAAAT-ATA
*
46867504 TTTAAAATT-TTAAAAAATATA
1 TTT-ATATTATTAAAAAATATA
46867525 TATTATA
1 T-TTATA
46867532 AAACATTTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
19 2 0.05
20 10 0.24
21 16 0.38
22 12 0.29
23 1 0.02
24 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTATATTATTAAAAAATATA
Found at i:46867486 original size:135 final size:135
Alignment explanation
Indices: 46867248--46867510 Score: 345
Period size: 135 Copynumber: 1.9 Consensus size: 135
46867238 AAATTTAAAA
* *
46867248 AATATTTAAAAAATATATTTAAAAAATTATAAAACAAATAATAAATTTGAAAGTTCATATCTTTA
1 AATATTTAAAAAATACATTTAAAAAATTATAAAACAAATAATAAATTTGAAAGGTCATATCTTTA
* *
46867313 AAAATAATATATTTTAAATAATTTAAAAATCATAATTTAAAATATCATAAAATAA-ATTTAAAAA
66 AAAATAATATATTTTAAATAATTAAAAAATCATAATTTAAAAT-TCAAAAAATAATATTTAAAAA
46867377 ATATTT
130 ATATTT
* * **
46867383 AATATTTAAAATATACATTTAAAATATTATAAAATTAATAATAAATTTGAAAGGTCATATCTTTA
1 AATATTTAAAAAATACATTTAAAAAATTATAAAACAAATAATAAATTTGAAAGGTCATATCTTTA
* * * * *
46867448 AAATATTTAA-ATGTTTTATATTATTAAAAAAT-AT-ATTTAATATTTAAAAAATAATATTTAAA
66 AAA-A--TAATATATTTTAAATAATTAAAAAATCATAATTTAAAATTCAAAAAATAATATTTAAA
46867510 A
128 A
46867511 TTTTAAAAAA
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
134 9 0.08
135 78 0.70
136 3 0.03
137 18 0.16
138 3 0.03
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (135 bp):
AATATTTAAAAAATACATTTAAAAAATTATAAAACAAATAATAAATTTGAAAGGTCATATCTTTA
AAAATAATATATTTTAAATAATTAAAAAATCATAATTTAAAATTCAAAAAATAATATTTAAAAAA
TATTT
Found at i:46867490 original size:22 final size:21
Alignment explanation
Indices: 46867465--46867525 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
46867455 TAAATGTTTT
46867465 ATATTATTAAAAAATATATTTA
1 ATATT-TTAAAAAATATATTTA
46867487 ATA-TTTAAAAAATAATATTTA
1 ATATTTTAAAAAAT-ATATTTA
*
46867508 AAATTTTAAAAAATATAT
1 ATATTTTAAAAAATATAT
46867526 ATTATAAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 9 0.25
21 14 0.39
22 13 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATATTTTAAAAAATATATTTA
Found at i:46867519 original size:23 final size:21
Alignment explanation
Indices: 46867471--46867534 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 21
46867461 TTTTATATTA
*
46867471 TTAAAAAAT-ATATTTAATAT
1 TTAAAAAATAATATTTAAAAT
46867491 TTAAAAAATAATATTTAAAATT
1 TTAAAAAATAATATTTAAAA-T
46867513 TTAAAAAATATATATTATAAAA
1 TTAAAAAATA-ATATT-TAAAA
46867535 CATTTCAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
20 9 0.23
21 9 0.23
22 11 0.28
23 5 0.13
24 5 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAAAAAATAATATTTAAAAT
Found at i:46879232 original size:12 final size:12
Alignment explanation
Indices: 46879217--46879249 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
46879207 TATTTTTTAG
46879217 TTATTTACTCAC
1 TTATTTACTCAC
*
46879229 TTATTTATTCAC
1 TTATTTACTCAC
46879241 TTATTTACT
1 TTATTTACT
46879250 TCAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTTACTCAC
Found at i:46880117 original size:19 final size:18
Alignment explanation
Indices: 46880093--46880165 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 18
46880083 TGAGATACGT
46880093 TTCGTGCTGCAGGATGTGC
1 TTCGTG-TGCAGGATGTGC
* **
46880112 TTCGTGTGCTAGAATGCAC
1 TTCGTGTGC-AGGATGTGC
*
46880131 TTCGTGTGTCAGGATGTGT
1 TTCGTGTG-CAGGATGTGC
*
46880150 TTTGTGTGCCAGGATG
1 TTCGTGTG-CAGGATG
46880166 CACGTCGTGC
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
18 3 0.07
19 39 0.91
20 1 0.02
ACGTcount: A:0.14, C:0.16, G:0.34, T:0.36
Consensus pattern (18 bp):
TTCGTGTGCAGGATGTGC
Found at i:46880135 original size:38 final size:39
Alignment explanation
Indices: 46880093--46880175 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 39
46880083 TGAGATACGT
*
46880093 TTCGTGCTG-CAGGATGTGCTTCGTGTGCTAGAATGCAC
1 TTCGTGCTGTCAGGATGTGCTTCGTGTGCCAGAATGCAC
* * *
46880131 TTCGTG-TGTCAGGATGTGTTTTGTGTGCCAGGATGCAC
1 TTCGTGCTGTCAGGATGTGCTTCGTGTGCCAGAATGCAC
*
46880169 GTCGTGC
1 TTCGTGC
46880176 ACCAATATGC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
37 2 0.05
38 36 0.95
ACGTcount: A:0.13, C:0.19, G:0.34, T:0.34
Consensus pattern (39 bp):
TTCGTGCTGTCAGGATGTGCTTCGTGTGCCAGAATGCAC
Found at i:46883320 original size:34 final size:34
Alignment explanation
Indices: 46883260--46883325 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
46883250 CAAACACCAG
* *
46883260 AAAATATTTTCCAGTAAATTATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTAC-GAAAAGT
*
46883295 AAAACATTTTCCCG-AAATCATTTTACGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACGAAAA
46883326 ATATTTTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 5 0.18
34 11 0.39
35 12 0.43
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:46888716 original size:18 final size:20
Alignment explanation
Indices: 46888694--46888735 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
46888684 CTGTGTTGCA
*
46888694 ACACAGCCTTATGTTGAGCC
1 ACACAACCTTATGTTGAGCC
46888714 ACAACAACCTTATGTTGAGCC
1 AC-ACAACCTTATGTTGAGCC
46888735 A
1 A
46888736 TATCAACCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (20 bp):
ACACAACCTTATGTTGAGCC
Found at i:46888726 original size:21 final size:21
Alignment explanation
Indices: 46888700--46888744 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
46888690 TGCAACACAG
46888700 CCTTATGTTGAGCCACAACAA
1 CCTTATGTTGAGCCACAACAA
* *
46888721 CCTTATGTTGAGCCATATCAA
1 CCTTATGTTGAGCCACAACAA
46888742 CCT
1 CCT
46888745 GTGTTTAGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (21 bp):
CCTTATGTTGAGCCACAACAA
Found at i:46894532 original size:48 final size:47
Alignment explanation
Indices: 46894469--46894748 Score: 227
Period size: 48 Copynumber: 6.0 Consensus size: 47
46894459 ATCGGCCACA
* *
46894469 TGAT-GAGAGCGAGTGTAAGACGATGTCTGGGACATGGCATCGGCCT
1 TGATAGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
* * *
46894515 TGAGACGAGACCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGG-C-
1 TGATA-GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
* * ** * *
46894559 T-ACGAGATGTGTTAGTGTAAGACCATGTTTGGGACATGGCATTGGCAC-
1 TGA-TAGA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CT
* * * * *
46894607 -GCATAGAGGTGCTAGTGTAAGACCAAGTCTGGGACATGGCGTCGGTCT
1 TG-ATAGA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
* * * * *
46894655 TGATTTCGATAGTCAGTGTAAGACCAGGTCTGGGACATGGCATC-GACT
1 TGA--TAGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
46894703 TGATAGATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 TGATAGA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
46894749 ATTATACCCT
Statistics
Matches: 187, Mismatches: 31, Indels: 30
0.75 0.12 0.12
Matches are distributed among these distances:
43 3 0.02
44 13 0.07
45 14 0.07
46 19 0.10
47 46 0.25
48 58 0.31
49 31 0.17
50 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (47 bp):
TGATAGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
Found at i:46898512 original size:34 final size:34
Alignment explanation
Indices: 46898447--46898518 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
46898437 TGAATTAGGA
*
46898447 TAAGGCTACACTGTTATTGCTAATGTAATGGG-T
1 TAAGGCTACACTGATATTGCTAATGTAATGGGCT
* *
46898480 TAAGGCCTATACTGATATTGCTACTG-ATATGGGCT
1 TAAGG-CTACACTGATATTGCTAATGTA-ATGGGCT
46898515 TAAG
1 TAAG
46898519 CCCAGACTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 6 0.18
34 22 0.67
35 5 0.15
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.35
Consensus pattern (34 bp):
TAAGGCTACACTGATATTGCTAATGTAATGGGCT
Found at i:46901273 original size:40 final size:40
Alignment explanation
Indices: 46901125--46901345 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
46901115 CATTTGAATG
* *
46901125 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGATT
* * ** *
46901165 TTATCTGGGCTAAGTCCCGAAGGCATTTACGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGATT
*
46901205 TTATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGATT
* *
46901245 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGATT
* * * * ** *
46901285 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGATT
* *
46901325 ATATCC-GGCTAAATTCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
46901346 AAACTTGGGT
Statistics
Matches: 158, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 13 0.08
40 142 0.90
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGATT
Found at i:46912686 original size:37 final size:37
Alignment explanation
Indices: 46912643--46912798 Score: 188
Period size: 37 Copynumber: 4.2 Consensus size: 37
46912633 GGCGGATGTA
* * *
46912643 TAGCTCTACGGAGCATTTGGCGTGTTATCAGTTGGAT
1 TAGCTCTTCAGAGAATTTGGCGTGTTATCAGTTGGAT
* * *
46912680 TAGCTCTTCGGAGAATTTGGCGCGTTATCGGTTGGAT
1 TAGCTCTTCAGAGAATTTGGCGTGTTATCAGTTGGAT
* *
46912717 TAGCTCTTCAGAAAATTTTGCGTGTTATCAGTTGGAT
1 TAGCTCTTCAGAGAATTTGGCGTGTTATCAGTTGGAT
* * * *
46912754 TAGCTC-TCTAGAGCACTTGGCGTGTTTTCGGTTGGAT
1 TAGCTCTTC-AGAGAATTTGGCGTGTTATCAGTTGGAT
46912791 TAGCTCTT
1 TAGCTCTT
46912799 ATGAACGTTT
Statistics
Matches: 102, Mismatches: 15, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
36 2 0.02
37 99 0.97
38 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.28, T:0.38
Consensus pattern (37 bp):
TAGCTCTTCAGAGAATTTGGCGTGTTATCAGTTGGAT
Found at i:46912816 original size:37 final size:36
Alignment explanation
Indices: 46912656--46912828 Score: 179
Period size: 37 Copynumber: 4.7 Consensus size: 36
46912646 CTCTACGGAG
* *
46912656 CATTTGGCGTGTTATCAGTTGGATTAGCTCTTCGGAGA
1 CATTTGGCGTGTTATCGGTTGGATTAGCTCTT-AGA-A
*
46912694 -ATTTGGCGCGTTATCGGTTGGATTAGCTCTTCAGAA
1 CATTTGGCGTGTTATCGGTTGGATTAGCTCTT-AGAA
* * * *
46912730 AATTTTGCGTGTTATCAGTTGGATTAGCTCTCTAGAG
1 CATTTGGCGTGTTATCGGTTGGATTAGCTCT-TAGAA
* *
46912767 CACTTGGCGTGTTTTCGGTTGGATTAGCTCTTATGAA
1 CATTTGGCGTGTTATCGGTTGGATTAGCTCTTA-GAA
* * *
46912804 CGTTTGGTGTGTT-TCGGGTGGATTA
1 CATTTGGCGTGTTATCGGTTGGATTA
46912829 CTTGGGTACT
Statistics
Matches: 115, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
36 14 0.12
37 100 0.87
38 1 0.01
ACGTcount: A:0.17, C:0.14, G:0.29, T:0.39
Consensus pattern (36 bp):
CATTTGGCGTGTTATCGGTTGGATTAGCTCTTAGAA
Found at i:46912816 original size:74 final size:74
Alignment explanation
Indices: 46912657--46912798 Score: 214
Period size: 74 Copynumber: 1.9 Consensus size: 74
46912647 TCTACGGAGC
* *
46912657 ATTTGGCGTGTTATCAGTTGGATTAGCTCTTCGGAGAATTTGGCGCGTTATCGGTTGGATTAGCT
1 ATTTGGCGTGTTATCAGTTGGATTAGCTCTTCAGAGAACTTGGCGCGTTATCGGTTGGATTAGCT
46912722 CTTCAGAAA
66 CTTCAGAAA
* * * *
46912731 ATTTTGCGTGTTATCAGTTGGATTAGCTC-TCTAGAGCACTTGGCGTGTTTTCGGTTGGATTAGC
1 ATTTGGCGTGTTATCAGTTGGATTAGCTCTTC-AGAGAACTTGGCGCGTTATCGGTTGGATTAGC
46912795 TCTT
65 TCTT
46912799 ATGAACGTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
73 2 0.03
74 59 0.97
ACGTcount: A:0.18, C:0.15, G:0.27, T:0.39
Consensus pattern (74 bp):
ATTTGGCGTGTTATCAGTTGGATTAGCTCTTCAGAGAACTTGGCGCGTTATCGGTTGGATTAGCT
CTTCAGAAA
Found at i:46916685 original size:27 final size:27
Alignment explanation
Indices: 46916655--46916832 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
46916645 ATATTGAGCC
* *
46916655 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
46916682 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
46916709 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** * *
46916737 CGCACACTTAGTGCCGCATGATCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
46916764 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
46916791 CGCACACTTAGTGCAACATAGTCAAAC-
1 CGCACACTTAGTGCTACATAATC-AACT
46916818 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46916833 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:46916794 original size:82 final size:81
Alignment explanation
Indices: 46916675--46916831 Score: 244
Period size: 82 Copynumber: 1.9 Consensus size: 81
46916665 GTGCTATATA
*
46916675 ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAAC-CGC
46916740 ACACTTAGTGCCGCATG
65 ACACTTAGTGCCGCATG
* * **
46916757 ATCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAACCGC
1 ATCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGC
46916821 ACACTTAGTGC
65 ACACTTAGTGC
46916832 TGTACAATTT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
81 15 0.22
82 54 0.78
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (81 bp):
ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
CACTTAGTGCCGCATG
Found at i:46920061 original size:27 final size:27
Alignment explanation
Indices: 46920003--46920094 Score: 103
Period size: 27 Copynumber: 3.4 Consensus size: 27
46919993 ATTCAGATTG
* * * *
46920003 CCACAAGGGCTTCCTTTACATGGTTAT
1 CCACAAAGGCTTCATTTACATGGATAA
*
46920030 GCACAAAGGCTTCATTTACATGGATAA
1 CCACAAAGGCTTCATTTACATGGATAA
* * * *
46920057 CCACAAAGGCTTCTTTTATATGTATAG
1 CCACAAAGGCTTCATTTACATGGATAA
46920084 CCACAAAGGCT
1 CCACAAAGGCT
46920095 CTTATTACAA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (27 bp):
CCACAAAGGCTTCATTTACATGGATAA
Found at i:46920176 original size:26 final size:26
Alignment explanation
Indices: 46920111--46920208 Score: 90
Period size: 26 Copynumber: 3.8 Consensus size: 26
46920101 ACAAAGATTT
* * **
46920111 CCACAAATGCTTTCATTTCAAATACA
1 CCACAAAGGCTTCCATTTCAAATATG
* * * *
46920137 CCAAAAACGTTTCCATTTCATATATG
1 CCACAAAGGCTTCCATTTCAAATATG
**
46920163 CCACAAAGGCTTCCATTTCAGGTATG
1 CCACAAAGGCTTCCATTTCAAATATG
46920189 CCACAAAGGCTTTCC-TTTCA
1 CCACAAAGGC-TTCCATTTCA
46920209 GAGGTCTGGC
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 55 0.93
27 4 0.07
ACGTcount: A:0.32, C:0.28, G:0.10, T:0.31
Consensus pattern (26 bp):
CCACAAAGGCTTCCATTTCAAATATG
Found at i:46920209 original size:26 final size:27
Alignment explanation
Indices: 46920159--46920262 Score: 115
Period size: 28 Copynumber: 3.8 Consensus size: 27
46920149 CCATTTCATA
46920159 TATGCCACAAAGGC-TTCCATTTC-AGG
1 TATGCCACAAAGGCTTTCC-TTTCAAGG
46920185 TATGCCACAAAGGCTTTCCTTTCAGAGG
1 TATGCCACAAAGGCTTTCCTTTCA-AGG
* * *
46920213 TCTGGCACAAAAGCTTTCCTTTCAGAGG
1 TATGCCACAAAGGCTTTCCTTTCA-AGG
*
46920241 T-TCGCTACAAAGGCTTTCCTTT
1 TAT-GCCACAAAGGCTTTCCTTT
46920263 TTTGGTGTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
26 18 0.26
27 5 0.07
28 45 0.66
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (27 bp):
TATGCCACAAAGGCTTTCCTTTCAAGG
Found at i:46921392 original size:7 final size:7
Alignment explanation
Indices: 46921380--46921412 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
46921370 AATATAAACA
46921380 ATTTAAT
1 ATTTAAT
46921387 ATTTAAT
1 ATTTAAT
46921394 ATTTAAT
1 ATTTAAT
46921401 ATTTAAT
1 ATTTAAT
46921408 -TTTAA
1 ATTTAA
46921413 ACTACTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTAAT
Found at i:46921700 original size:21 final size:21
Alignment explanation
Indices: 46921676--46921717 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
46921666 TTATTATGTG
**
46921676 GTATCGATATTGTATTAAAAA
1 GTATCGATATTCAATTAAAAA
*
46921697 GTATTGATATTCAATTAAAAA
1 GTATCGATATTCAATTAAAAA
46921718 TCGATACCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (21 bp):
GTATCGATATTCAATTAAAAA
Found at i:46922759 original size:18 final size:18
Alignment explanation
Indices: 46922714--46922762 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
46922704 TCCATATCAC
* *
46922714 TTGCTATTTCAATAGCAT
1 TTGCTATTTCAAAAACAT
46922732 TT-CTATTTCAAAAACAT
1 TTGCTATTTCAAAAACAT
*
46922749 TTGCCATTTCAAAA
1 TTGCTATTTCAAAA
46922763 TCAGTCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (18 bp):
TTGCTATTTCAAAAACAT
Found at i:46927649 original size:40 final size:39
Alignment explanation
Indices: 46927590--46927696 Score: 103
Period size: 40 Copynumber: 2.7 Consensus size: 39
46927580 AGGTGAAATG
* * * *
46927590 GTTATATGGAACTAAATATATGAAATGTTGATA-AGAAT-T
1 GTTATATGAAAATAGATATATGAAATGTT-ATACA-AATCA
46927629 GATTATATGAAAA-ATGATATATGAAATAGTTATACAAATCA
1 G-TTATATGAAAATA-GATATATGAAAT-GTTATACAAATCA
*
46927670 GTTATATGGAAATAGATATATGAAATG
1 GTTATATGAAAATAGATATATGAAATG
46927697 GAACATTGGA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
39 3 0.05
40 48 0.84
41 6 0.11
ACGTcount: A:0.47, C:0.03, G:0.17, T:0.34
Consensus pattern (39 bp):
GTTATATGAAAATAGATATATGAAATGTTATACAAATCA
Found at i:46927694 original size:13 final size:13
Alignment explanation
Indices: 46927632--46927695 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
46927622 AAGAATTGAT
*
46927632 TATATGAAAAATGA
1 TATATGAAATA-GA
*
46927646 TATATGAAATAGT
1 TATATGAAATAGA
* *
46927659 TATA-CAAATCAGT
1 TATATGAAAT-AGA
46927672 TATATGGAAATAGA
1 TATAT-GAAATAGA
46927686 TATATGAAAT
1 TATATGAAAT
46927696 GGAACATTGG
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
12 4 0.10
13 17 0.40
14 17 0.40
15 4 0.10
ACGTcount: A:0.50, C:0.03, G:0.14, T:0.33
Consensus pattern (13 bp):
TATATGAAATAGA
Found at i:46944994 original size:13 final size:13
Alignment explanation
Indices: 46944976--46945000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46944966 TATGTGATAT
46944976 GTGTGAAAATTTC
1 GTGTGAAAATTTC
46944989 GTGTGAAAATTT
1 GTGTGAAAATTT
46945001 TATCGTTTAT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:46946186 original size:42 final size:42
Alignment explanation
Indices: 46946120--46946243 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 42
46946110 CGATTTGAGA
* * * *
46946120 ATTACGTGTAAGACCATGTATGGGACATTGGCATCGTATATG
1 ATTACATGTAAGACCCTATCTGGGACATTGGCATCGTATATG
* * * *
46946162 ATTTCATGTAAGACCCTATCTGGGATAGTGGCATCGATATTTG
1 ATTACATGTAAGACCCTATCTGGGACATTGGCATCG-TATATG
* * *
46946205 ATTACATATAAGA-CCTCATCTGGGACGTTGGCATTGTAT
1 ATTACATGTAAGACCCT-ATCTGGGACATTGGCATCGTAT
46946244 GAGCTTTTCG
Statistics
Matches: 66, Mismatches: 14, Indels: 4
0.79 0.17 0.05
Matches are distributed among these distances:
42 35 0.53
43 31 0.47
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (42 bp):
ATTACATGTAAGACCCTATCTGGGACATTGGCATCGTATATG
Found at i:46946237 original size:43 final size:42
Alignment explanation
Indices: 46946140--46946243 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 42
46946130 AGACCATGTA
* * *
46946140 TGGGACATTGGCATCGTATATGATTTCATGTAAGACCCTATC
1 TGGGACGTTGGCATCGTATATGATTACATATAAGACCCTATC
* *
46946182 TGGGATAG-TGGCATCGATATTTGATTACATATAAGA-CCTCATC
1 TGGGA-CGTTGGCATCG-TATATGATTACATATAAGACCCT-ATC
*
46946225 TGGGACGTTGGCATTGTAT
1 TGGGACGTTGGCATCGTAT
46946244 GAGCTTTTCG
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
42 20 0.39
43 31 0.61
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (42 bp):
TGGGACGTTGGCATCGTATATGATTACATATAAGACCCTATC
Found at i:46952355 original size:23 final size:23
Alignment explanation
Indices: 46952312--46952355 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
46952302 TTTCTTTTTG
**
46952312 TTTTATTTTTTGTTAGTTTTCTC
1 TTTTATTTTTTGCAAGTTTTCTC
46952335 TTTT-TTTTTTGCAAGTATTTC
1 TTTTATTTTTTGCAAGT-TTTC
46952356 ACTCTTTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.11, C:0.09, G:0.09, T:0.70
Consensus pattern (23 bp):
TTTTATTTTTTGCAAGTTTTCTC
Found at i:46959303 original size:40 final size:41
Alignment explanation
Indices: 46959244--46959475 Score: 312
Period size: 40 Copynumber: 5.8 Consensus size: 41
46959234 CATTTGAATG
* * *
46959244 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
46959284 TTATCCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * *
46959324 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
46959364 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
46959404 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
46959444 ATATCCGGGCTAAGACCCGAGGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
46959476 TTGTGGTTAT
Statistics
Matches: 167, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
39 2 0.01
40 160 0.96
41 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:46959458 original size:120 final size:120
Alignment explanation
Indices: 46959244--46959495 Score: 355
Period size: 120 Copynumber: 2.1 Consensus size: 120
46959234 CATTTGAATG
* * *
46959244 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTATATCCGGGCCAAGACCCGAAGGCA
*
46959309 TTTGTGCGAGTTGCTATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
66 TTTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
46959364 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAG-TGATTATATCCGGGCCAAGACCCGAAGGC
* * * * * *
46959428 ATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAGGGCATTTGTGCTTGTGGTT
65 ATTTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
46959484 ATATCC-GGCTAA
1 ATATCCGGGCTAA
46959496 ATTCCGAAGA
Statistics
Matches: 116, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
119 6 0.05
120 107 0.92
121 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTATATCCGGGCCAAGACCCGAAGGCA
TTTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:46959491 original size:80 final size:80
Alignment explanation
Indices: 46959244--46959475 Score: 367
Period size: 80 Copynumber: 2.9 Consensus size: 80
46959234 CATTTGAATG
*
46959244 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
46959309 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
* * *
46959324 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
46959389 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGAT
* * * *
46959404 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAGGGC
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGC
46959468 ATTTGTGC
65 ATTTGTGC
46959476 TTGTGGTTAT
Statistics
Matches: 139, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
80 136 0.98
81 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:46964085 original size:27 final size:26
Alignment explanation
Indices: 46964054--46964230 Score: 185
Period size: 27 Copynumber: 6.6 Consensus size: 26
46964044 TAAATTGTAC
46964054 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
46964081 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
46964107 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
46964135 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
46964162 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
46964189 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
46964216 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
46964231 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 125 0.98
28 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:46964115 original size:54 final size:54
Alignment explanation
Indices: 46964054--46964230 Score: 207
Period size: 54 Copynumber: 3.3 Consensus size: 54
46964044 TAAATTGTAC
* **
46964054 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* ** *
46964109 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * *
46964162 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
46964216 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
46964231 GGCTCAATAT
Statistics
Matches: 105, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
53 2 0.02
54 100 0.95
55 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:46964194 original size:81 final size:81
Alignment explanation
Indices: 46964055--46964209 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 81
46964045 AAATTGTACA
* *
46964055 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
46964120 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
46964136 GCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
46964199 GTGCGAGTTGA
64 GTGCGAATTGA
46964210 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 1 0.02
81 63 0.95
82 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:46964221 original size:81 final size:81
Alignment explanation
Indices: 46964051--46964230 Score: 220
Period size: 81 Copynumber: 2.2 Consensus size: 81
46964041 GATTAAATTG
* *
46964051 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
46964116 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
46964132 TGCGGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
46964195 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
46964213 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
46964231 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 1 0.01
81 80 0.96
82 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:46964241 original size:27 final size:27
Alignment explanation
Indices: 46964136--46964241 Score: 77
Period size: 27 Copynumber: 3.9 Consensus size: 27
46964126 TGACCATGCG
* * * *
46964136 GCACTAAGTGTGCGAGTTGACTATGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
** * * **
46964163 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
46964190 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
46964217 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
46964242 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:46972098 original size:27 final size:26
Alignment explanation
Indices: 46972067--46972244 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
46972057 TAAATTGTAC
46972067 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
46972094 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
46972120 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
46972148 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
46972176 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
46972203 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
**
46972230 AGCACTGGGTGTGCG
1 AGCACTAAGTGTGCG
46972245 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:46972183 original size:82 final size:81
Alignment explanation
Indices: 46972068--46972223 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
46972058 AAATTGTACA
* *
46972068 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
46972132 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
46972149 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
46972214 TGCGAGTTGA
65 TGCGAATTGA
46972224 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:46988574 original size:40 final size:40
Alignment explanation
Indices: 46988515--46988766 Score: 289
Period size: 40 Copynumber: 6.3 Consensus size: 40
46988505 CATTTGAATG
* * *
46988515 ATATCCGGGCTAAGTCCCGATGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * *
46988555 TTATCCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
46988595 ATA-CTCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATC-CGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
46988635 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
46988675 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
46988715 ATATCCGGGCTAAGACCCGAGGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
46988755 ATATCC-GGCTAA
1 ATATCCGGGCTAA
46988767 ATTCCGAAGA
Statistics
Matches: 181, Mismatches: 25, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
39 11 0.06
40 164 0.91
41 6 0.03
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:46988729 original size:120 final size:120
Alignment explanation
Indices: 46988515--46988766 Score: 330
Period size: 120 Copynumber: 2.1 Consensus size: 120
46988505 CATTTGAATG
* * * *
46988515 ATATCCGGGCTAAGTCCCGATGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTATATCCGGGCCAAGACCCGAAGGCA
* *
46988580 TTTGTGCGAGTTGCTATACTCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
66 TTTGTGCAAGTTGATATACTCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
46988635 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAG-TGATTATATCCGGGCCAAGACCCGAAGGC
* * * * *
46988699 ATTTGTGCAAGTTGATATA-TCCGGGCTAAGACCCGAGGGCATTTGTGCTTGTGGTT
65 ATTTGTGCAAGTTGATATACT-CGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
46988755 ATATCC-GGCTAA
1 ATATCCGGGCTAA
46988767 ATTCCGAAGA
Statistics
Matches: 114, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
119 7 0.06
120 104 0.91
121 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTATATCCGGGCCAAGACCCGAAGGCA
TTTGTGCAAGTTGATATACTCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:46988762 original size:80 final size:80
Alignment explanation
Indices: 46988515--46988746 Score: 351
Period size: 80 Copynumber: 2.9 Consensus size: 80
46988505 CATTTGAATG
* *
46988515 ATATCCGGGCTAAGTCCCGATGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
46988580 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
* *
46988595 ATA-CTCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGC
1 ATATC-CGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGC
46988659 ATTTGTGCGAGTTGAT
65 ATTTGTGCGAGTTGAT
* * * *
46988675 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGA-TATATCCGGGCTAAGACCCGAGGGC
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGC
46988739 ATTTGTGC
65 ATTTGTGC
46988747 TTGTGGTTAT
Statistics
Matches: 138, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
79 1 0.01
80 133 0.96
81 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:46990424 original size:60 final size:59
Alignment explanation
Indices: 46990342--46990453 Score: 134
Period size: 59 Copynumber: 1.9 Consensus size: 59
46990332 GTATTGAACA
*
46990342 AAAAGGATGTCTTCATGGCAAAACTCCAGAAAGGAAAACCTTTATGGCGAGTACTAAATG
1 AAAAGGATGCCTTCATGGCAAAAC-CCAGAAAGGAAAACCTTTATGGCGAGTACTAAATG
** * * * * * *
46990402 AAAAGGATGCCTTTGTGTCAAAACCCTGTAAGGAAAGCCTTTGTGGTGAGTA
1 AAAAGGATGCCTTCATGGCAAAACCCAGAAAGGAAAACCTTTATGGCGAGTA
46990454 TTGGATGAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
59 23 0.53
60 20 0.47
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (59 bp):
AAAAGGATGCCTTCATGGCAAAACCCAGAAAGGAAAACCTTTATGGCGAGTACTAAATG
Found at i:46996907 original size:19 final size:19
Alignment explanation
Indices: 46996885--46996923 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
46996875 CCACTTACTA
46996885 CAATTCAAT-ACTTTCAATT
1 CAATT-AATAACTTTCAATT
*
46996904 CAATTAATAATTTTCAATT
1 CAATTAATAACTTTCAATT
46996923 C
1 C
46996924 TCAAACAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (19 bp):
CAATTAATAACTTTCAATT
Found at i:46997094 original size:22 final size:22
Alignment explanation
Indices: 46997066--46997111 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
46997056 ACCTAAAATG
46997066 TAAAATTTCCCTATAATTAGCT
1 TAAAATTTCCCTATAATTAGCT
46997088 TAAAATTTCCCTATAATTAGCT
1 TAAAATTTCCCTATAATTAGCT
46997110 TA
1 TA
46997112 CATTTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.17, G:0.04, T:0.41
Consensus pattern (22 bp):
TAAAATTTCCCTATAATTAGCT
Found at i:47008395 original size:32 final size:32
Alignment explanation
Indices: 47008354--47008417 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
47008344 GCTTCACATG
47008354 TCAGTTTGGGGTGTGTATTAATGTAGGATGGT
1 TCAGTTTGGGGTGTGTATTAATGTAGGATGGT
47008386 TCAGTTTGGGGTGTGTATTAATGTAGGATGGT
1 TCAGTTTGGGGTGTGTATTAATGTAGGATGGT
47008418 AAGGTGGTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.19, C:0.03, G:0.38, T:0.41
Consensus pattern (32 bp):
TCAGTTTGGGGTGTGTATTAATGTAGGATGGT
Found at i:47010485 original size:48 final size:48
Alignment explanation
Indices: 47010003--47010484 Score: 696
Period size: 48 Copynumber: 10.0 Consensus size: 48
47009993 TACATGAATC
*
47010003 CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* * * ** *
47010051 CACATAACATCGTCGATGCCATGTCCCAGACATAGTCTTACATTGACA
1 CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* * *
47010099 CACATATCATCGCCGATGTCGTGTCCCAGACATGATCTTACACAGGCA
1 CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
*
47010147 CATATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
1 CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* * *
47010195 CATATATCATCGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* * *
47010243 CACATATCATCACCGATGCCATGGCCCA-AGCATGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCCAGA-CATGGTCTTACACAGGCA
* *
47010291 CACATATCATCGCCGATGCCATGTCTCAAACATGGTCTTACACAGGCA
1 CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* *
47010339 CACATATCATCGCCGATGCCATGTCCCAGACGTGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* * *
47010387 CACATATCATCACCGATGCCAAGTCCTAGACATGGTCTTACACAGGCA
1 CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* * **
47010435 CATATATCATCACCGATGCCATGTCCCAGACATGGTAGTACACAGGCA
1 CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
47010483 CA
1 CA
47010485 TTTTGCACGG
Statistics
Matches: 390, Mismatches: 42, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
47 1 0.00
48 388 0.99
49 1 0.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (48 bp):
CACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
Found at i:47017992 original size:48 final size:48
Alignment explanation
Indices: 47017914--47018086 Score: 253
Period size: 48 Copynumber: 3.7 Consensus size: 48
47017904 AGTACCAATT
47017914 CCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGTCGATG
1 CCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGTCGATG
* * **
47017962 CCATGTCCCAGACATGGTCTTATACTGGCACACATATCATCACCGATG
1 CCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGTCGATG
** * *
47018010 CCATGTCCCAGACATGGTCTTACACAGG---TTATACCATCGTCAATG
1 CCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGTCGATG
47018055 CCATGTCCCAGACATGGTCTTACACAGGCACA
1 CCATGTCCCAGACATGGTCTTACACAGGCACA
47018087 TTTAGTACGG
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
45 39 0.36
48 70 0.64
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGTCGATG
Found at i:47018076 original size:93 final size:94
Alignment explanation
Indices: 47017914--47018086 Score: 267
Period size: 93 Copynumber: 1.8 Consensus size: 94
47017904 AGTACCAATT
* *
47017914 CCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGTCGATGCCATGTCCCAGACATGG
1 CCATGTCCCAGACATGGTCTTACACAGG--CACATACCATCGTCAATGCCATGTCCCAGACATGG
* *
47017979 TCTTATACTGGCACACATATCATCACCGATG
64 TCTTACACAGGCACACATATCATCACCGATG
**
47018010 CCATGTCCCAGACATGGTCTTACACAGG-TTATACCATCGTCAATGCCATGTCCCAGACATGGTC
1 CCATGTCCCAGACATGGTCTTACACAGGCACATACCATCGTCAATGCCATGTCCCAGACATGGTC
47018074 TTACACAGGCACA
66 TTACACAGGCACA
47018087 TTTAGTACGG
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
93 43 0.61
96 28 0.39
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (94 bp):
CCATGTCCCAGACATGGTCTTACACAGGCACATACCATCGTCAATGCCATGTCCCAGACATGGTC
TTACACAGGCACACATATCATCACCGATG
Found at i:47020188 original size:55 final size:54
Alignment explanation
Indices: 47020129--47020288 Score: 200
Period size: 55 Copynumber: 3.0 Consensus size: 54
47020119 TAAGGTTTCT
47020129 AAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-ACTAG
1 AAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCA-T-G
* * * * *
47020184 AAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATG
1 AAGGC-AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATG
* * *
47020238 -AGGCAAGGATACCATGTAAGACCATGTCGAGACATGGCAATGATAATTTCA
1 AAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCA
47020289 AAAGGATACC
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
52 4 0.04
53 38 0.43
54 1 0.01
55 41 0.46
56 5 0.06
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (54 bp):
AAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATG
Found at i:47020282 original size:108 final size:110
Alignment explanation
Indices: 47020086--47020283 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
47020076 TTTAAGAATA
47020086 CCATGTAAAAACATGCCAAGGCATGGTAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGTAAAAACATGCCAAGGCATGGTAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
47020151 CCATGTCAAGACATGGCATTGATAAGTTACTAGAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTAGAAGGCAAAGGTC
* * * * *
47020196 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATGAGGCAAGGATACCATGTAAG
1 CCATGTAAAAACATGCCAAGGCATGGTAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
*
47020258 ACCATGTCGAGACATGGCAATGATAA
65 ACCATGTCAAGACATGGCAATGATAA
47020284 TTTCAAAAGG
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.57
109 7 0.09
110 24 0.30
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAAAACATGCCAAGGCATGGTAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTAGAAGGCAAAGGTC
Found at i:47020546 original size:16 final size:16
Alignment explanation
Indices: 47020525--47020555 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47020515 ATAAATTTGA
47020525 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
47020541 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
47020556 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:47024633 original size:23 final size:23
Alignment explanation
Indices: 47024595--47024653 Score: 95
Period size: 23 Copynumber: 2.6 Consensus size: 23
47024585 TGGGGTTTTG
47024595 GGCC-AGGCC-ATGTGATCCATAC
1 GGCCAAGGCCAAT-TGATCCATAC
47024617 GGCCAAGGCCAATTGATCCATAC
1 GGCCAAGGCCAATTGATCCATAC
47024640 GGCCAAGGCCAATT
1 GGCCAAGGCCAATT
47024654 TGGGCCGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
22 4 0.11
23 29 0.83
24 2 0.06
ACGTcount: A:0.27, C:0.31, G:0.25, T:0.17
Consensus pattern (23 bp):
GGCCAAGGCCAATTGATCCATAC
Found at i:47027543 original size:39 final size:40
Alignment explanation
Indices: 47027479--47027586 Score: 148
Period size: 39 Copynumber: 2.7 Consensus size: 40
47027469 TATTCGGATG
* * *
47027479 ATAATCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
47027519 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
47027558 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
47027587 AGCAAGTAGC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
39 34 0.58
40 25 0.42
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:47027608 original size:39 final size:40
Alignment explanation
Indices: 47027484--47027609 Score: 145
Period size: 39 Copynumber: 3.2 Consensus size: 40
47027474 GGATGATAAT
* *
47027484 CGGGCTAAGTCTCGAAGGCATTTGTGCTAGT-GACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATA-TC
* *
47027524 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATC
*
47027563 CGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATC
47027603 C-GGCTAA
1 CGGGCTAA
47027610 ATTCTGAAGG
Statistics
Matches: 75, Mismatches: 6, Indels: 11
0.82 0.07 0.12
Matches are distributed among these distances:
39 39 0.52
40 36 0.48
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATC
Found at i:47034718 original size:79 final size:80
Alignment explanation
Indices: 47034587--47034734 Score: 237
Period size: 79 Copynumber: 1.9 Consensus size: 80
47034577 TATTCGGATG
* * *
47034587 ATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAG-CCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCA
47034651 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
*
47034666 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGTCCCGAAGGC
47034730 ATTTG
65 ATTTG
47034735 AGCAAGTAGC
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
78 2 0.03
79 47 0.75
80 14 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:47034748 original size:40 final size:40
Alignment explanation
Indices: 47034587--47034734 Score: 237
Period size: 40 Copynumber: 3.7 Consensus size: 40
47034577 TATTCGGATG
* * *
47034587 ATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
47034627 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
47034666 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
47034706 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
47034735 AGCAAGTAGC
Statistics
Matches: 100, Mismatches: 5, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
39 35 0.35
40 65 0.65
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:47039884 original size:33 final size:33
Alignment explanation
Indices: 47039842--47039906 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
47039832 TGTTTCTGAG
47039842 ATTGTATCTGAATGGGCTAAGGCCCAAATTGAT
1 ATTGTATCTGAATGGGCTAAGGCCCAAATTGAT
47039875 ATTGTATCTGAATGGGCTAAGGCCCAAATTGA
1 ATTGTATCTGAATGGGCTAAGGCCCAAATTGA
47039907 CTCTGTAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (33 bp):
ATTGTATCTGAATGGGCTAAGGCCCAAATTGAT
Found at i:47041432 original size:24 final size:25
Alignment explanation
Indices: 47041383--47041432 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
47041373 ACCCTTCTCA
*
47041383 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCTCTCTCATTGTTC
*
47041408 TCTCTTCA-TTCATTTC-CATTGTTC
1 TCTCTTCACTTC-TCTCTCATTGTTC
47041432 T
1 T
47041433 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.10, C:0.32, G:0.02, T:0.56
Consensus pattern (25 bp):
TCTCTTCACTTCTCTCTCATTGTTC
Found at i:47050101 original size:6 final size:6
Alignment explanation
Indices: 47050085--47050127 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
47050075 CCCAAAAGAA
* *
47050085 AATTTT CATTTT AATTTT AATTTT -ATTTCC AATTTT AATTTT A
1 AATTTT AATTTT AATTTT AATTTT AATTT-T AATTTT AATTTT A
47050128 TTATTTTGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
5 4 0.13
6 23 0.74
7 4 0.13
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (6 bp):
AATTTT
Found at i:47051580 original size:19 final size:19
Alignment explanation
Indices: 47051558--47051597 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
47051548 ATCTTATCTC
47051558 ATTCA-TTCCATTTAGATTA
1 ATTCATTTCCATTTAG-TTA
*
47051577 ATTCATTTGCATTTAGTTA
1 ATTCATTTCCATTTAGTTA
47051596 AT
1 AT
47051598 AATAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.50
Consensus pattern (19 bp):
ATTCATTTCCATTTAGTTA
Found at i:47055742 original size:23 final size:23
Alignment explanation
Indices: 47055711--47055754 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
47055701 AGTTTAATTA
*
47055711 ATTTTGGGTTAGGGTTTTTTAGG
1 ATTTAGGGTTAGGGTTTTTTAGG
*
47055734 ATTTAGGGTTATGGTTTTTTA
1 ATTTAGGGTTAGGGTTTTTTA
47055755 ATGTTAAGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.55
Consensus pattern (23 bp):
ATTTAGGGTTAGGGTTTTTTAGG
Found at i:47055918 original size:19 final size:19
Alignment explanation
Indices: 47055868--47055957 Score: 114
Period size: 19 Copynumber: 4.8 Consensus size: 19
47055858 AGTTTAGGGT
47055868 ATTAAGGTTAATTGATTAA
1 ATTAAGGTTAATTGATTAA
*
47055887 ATT-AGG--GATTGATTAA
1 ATTAAGGTTAATTGATTAA
*
47055903 ATTAAGGCTAATTGATTAA
1 ATTAAGGTTAATTGATTAA
47055922 ATTTAAGGTTAATTGATTAA
1 A-TTAAGGTTAATTGATTAA
* *
47055942 TTTAGGGTTAATTGAT
1 ATTAAGGTTAATTGAT
47055958 ACATAATGGT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
16 12 0.19
17 3 0.05
18 3 0.05
19 27 0.44
20 17 0.27
ACGTcount: A:0.38, C:0.01, G:0.19, T:0.42
Consensus pattern (19 bp):
ATTAAGGTTAATTGATTAA
Found at i:47055954 original size:39 final size:35
Alignment explanation
Indices: 47055868--47055957 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 35
47055858 AGTTTAGGGT
*
47055868 ATTAAGGTTAATTGATTAAATTAGGGATTGATTAA
1 ATTAAGGTTAATTGATTAAATTAGGAATTGATTAA
*
47055903 ATTAAGGCTAATTGATTAAATTTAAGGTTAATTGATTAA
1 ATTAAGGTTAATTGATTAAA-TT-AGG--AATTGATTAA
* *
47055942 TTTAGGGTTAATTGAT
1 ATTAAGGTTAATTGAT
47055958 ACATAATGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
35 19 0.41
36 2 0.04
37 3 0.07
39 22 0.48
ACGTcount: A:0.38, C:0.01, G:0.19, T:0.42
Consensus pattern (35 bp):
ATTAAGGTTAATTGATTAAATTAGGAATTGATTAA
Found at i:47056716 original size:126 final size:126
Alignment explanation
Indices: 47056491--47056745 Score: 402
Period size: 126 Copynumber: 2.0 Consensus size: 126
47056481 TTTCTACAAG
* *
47056491 AATAATTTTGAGTAGACGTTTCAGAATAAATAGTGTCGAAAACGCTTCAAACAGGATGCACTATC
1 AATAATTCTGAGTAGACGTTTCAGAACAAATAGTGTCGAAAACGCTTCAAACAGGATGCACTATC
* *
47056556 AGCAAAATTTCTAAAAAAAGCTCCCACGTAGACGCTCTTTTACTACAGTAGTTCGTAGAAA
66 AACAAAATTTCTAAAAAAAGCTCCCACATAGACGCTCTTTTACTACAGTAGTTCGTAGAAA
* * * *
47056617 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTGGAAAACGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCAGAACAAATAGTGTCGAAAACGCTTCAAACAGGATGCACTATC
* * * *
47056682 AACAAAATTTCTGAAAAAAGCTCCCACATTGACGCTCTTTTGCTACAGTGGTTCGTAGAAA
66 AACAAAATTTCTAAAAAAAGCTCCCACATAGACGCTCTTTTACTACAGTAGTTCGTAGAAA
47056743 AAT
1 AAT
47056746 GAGGCTATAA
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 117 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCAGAACAAATAGTGTCGAAAACGCTTCAAACAGGATGCACTATC
AACAAAATTTCTAAAAAAAGCTCCCACATAGACGCTCTTTTACTACAGTAGTTCGTAGAAA
Found at i:47059794 original size:17 final size:17
Alignment explanation
Indices: 47059772--47059806 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
47059762 AGGAAAAGGA
*
47059772 AACATATAAGGGTTAGG
1 AACATATAAGGGCTAGG
47059789 AACATATAAGGGCTAGG
1 AACATATAAGGGCTAGG
47059806 A
1 A
47059807 TACGCACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.09, G:0.29, T:0.20
Consensus pattern (17 bp):
AACATATAAGGGCTAGG
Found at i:47061526 original size:49 final size:47
Alignment explanation
Indices: 47061388--47061521 Score: 139
Period size: 48 Copynumber: 2.8 Consensus size: 47
47061378 ATGAAAACAT
* **
47061388 CATAAATGAA-AAAAAATCAAGCAGTATTGAAATTTTAATTATAATTG
1 CATAAATGAATAAAATATCAAATAGTATTGAAA-TTTAATTATAATTG
*
47061435 CATAAATGAATAAAATATCAAATAGTGTTTGCAAATTTAATTA-AATTTG
1 CATAAATGAATAAAATATCAAATAGT-ATTG-AAATTTAATTATAA-TTG
* **
47061484 CATAAATTAA-AAAATATTGAATAGTATTGAAAATTTAA
1 CATAAATGAATAAAATATCAAATAGTATTG-AAATTTAA
47061522 AATTATCACT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
47 21 0.28
48 27 0.36
49 23 0.31
50 3 0.04
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.34
Consensus pattern (47 bp):
CATAAATGAATAAAATATCAAATAGTATTGAAATTTAATTATAATTG
Found at i:47061671 original size:11 final size:11
Alignment explanation
Indices: 47061655--47061741 Score: 77
Period size: 11 Copynumber: 7.9 Consensus size: 11
47061645 ATTTAAACAA
47061655 AGAATTTTGAT
1 AGAATTTTGAT
47061666 AGAATTTTGAT
1 AGAATTTTGAT
*
47061677 AGAATTTTGAG
1 AGAATTTTGAT
* **
47061688 AAAATTTCAAT
1 AGAATTTTGAT
47061699 -GAATTTTGAT
1 AGAATTTTGAT
* *
47061709 AGATTTTTGAAG
1 AGAATTTTG-AT
* *
47061721 AGAATATTGAA
1 AGAATTTTGAT
*
47061732 AGAATATTGA
1 AGAATTTTGA
47061742 GAATTATGAG
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
10 7 0.11
11 46 0.75
12 8 0.13
ACGTcount: A:0.41, C:0.01, G:0.18, T:0.39
Consensus pattern (11 bp):
AGAATTTTGAT
Found at i:47063331 original size:30 final size:32
Alignment explanation
Indices: 47063262--47063327 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 32
47063252 AAGGTTATAA
*
47063262 TAAAATTTAAATTTTGTTATTTTCTGTATATT
1 TAAAATTTAAATTTTGTTATTTTATGTATATT
* *
47063294 TAGAATTT-AATTTT-TTATTTTATTTA-ATT
1 TAAAATTTAAATTTTGTTATTTTATGTATATT
47063323 TAAAA
1 TAAAA
47063328 ATTTCAGTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 7 0.23
30 10 0.33
31 6 0.20
32 7 0.23
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.59
Consensus pattern (32 bp):
TAAAATTTAAATTTTGTTATTTTATGTATATT
Found at i:47070069 original size:8 final size:8
Alignment explanation
Indices: 47070036--47070077 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
47070026 AAATTTATTA
47070036 AAAATTATT
1 AAAATT-TT
47070045 AAAAATTTT
1 -AAAATTTT
*
47070054 -AGATTTT
1 AAAATTTT
47070061 AAAATTTT
1 AAAATTTT
47070069 AAAATTTT
1 AAAATTTT
47070077 A
1 A
47070078 TATAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 6 0.21
8 15 0.52
9 2 0.07
10 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (8 bp):
AAAATTTT
Found at i:47071025 original size:36 final size:35
Alignment explanation
Indices: 47070985--47071082 Score: 107
Period size: 30 Copynumber: 2.9 Consensus size: 35
47070975 GAATCTTCCG
* *
47070985 AAGCTCCTGAATGAGATATCAAGTTTTCTCAATCCC
1 AAGCTCCTGAACGAGATATCGAG-TTTCTCAATCCC
* *
47071021 AAGCTCCTAAACGCGATATCGAG--TCT---TCCC
1 AAGCTCCTGAACGAGATATCGAGTTTCTCAATCCC
47071051 AAGCTCCTGAACGAGATATCGAGTCTTCTCAA
1 AAGCTCCTGAACGAGATATCGAGT-TTCTCAA
47071083 GTTCTTGAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
30 25 0.50
33 6 0.12
36 19 0.38
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (35 bp):
AAGCTCCTGAACGAGATATCGAGTTTCTCAATCCC
Found at i:47071053 original size:30 final size:30
Alignment explanation
Indices: 47071017--47071103 Score: 129
Period size: 30 Copynumber: 2.9 Consensus size: 30
47071007 GTTTTCTCAA
* *
47071017 TCCCAAGCTCCTAAACGCGATATCGAGTCT
1 TCCCAAGCTCCTGAACGAGATATCGAGTCT
47071047 TCCCAAGCTCCTGAACGAGATATCGAGTCT
1 TCCCAAGCTCCTGAACGAGATATCGAGTCT
* * *
47071077 TCTCAAGTTCTTGAACGAGATATCGAG
1 TCCCAAGCTCCTGAACGAGATATCGAG
47071104 AATTATAATG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (30 bp):
TCCCAAGCTCCTGAACGAGATATCGAGTCT
Found at i:47074669 original size:6 final size:6
Alignment explanation
Indices: 47074658--47074687 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
47074648 TTCAACCTTT
47074658 ATTTTA ATTTTA ATTTTA ATTTTA TATTTT
1 ATTTTA ATTTTA ATTTTA ATTTTA -ATTTT
47074688 TTAGTTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
ATTTTA
Found at i:47074834 original size:35 final size:35
Alignment explanation
Indices: 47074782--47074861 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 35
47074772 GAAAAAAAAT
* *
47074782 TTGCCTTAAATGTGTCTATCCCAA-CCTTTTGAAGG
1 TTGCCTTAGATGGGTCTATCCCAACCCTTTT-AAGG
* *
47074817 TTGCCTTAGATGGGTCTATTCTAACCCTTTTAAGG
1 TTGCCTTAGATGGGTCTATCCCAACCCTTTTAAGG
47074852 TTGCCTTAGA
1 TTGCCTTAGA
47074862 ACCTATCTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 34 0.85
36 6 0.15
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (35 bp):
TTGCCTTAGATGGGTCTATCCCAACCCTTTTAAGG
Found at i:47074881 original size:35 final size:35
Alignment explanation
Indices: 47074796--47074882 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 35
47074786 CTTAAATGTG
** *
47074796 TCTATCCCAACCTTTTGAAGGTTGCCTTAGATGGG
1 TCTATCCCAACCTTTTGAAGGTTGCCTTAGACCGA
* * *
47074831 TCTATTCTAACCCTTTT-AAGGTTGCCTTAGAACCTA
1 TCTATCCCAA-CCTTTTGAAGGTTGCCTTAG-ACCGA
47074867 TCTATCCCAACCTTTT
1 TCTATCCCAACCTTTT
47074883 TAACGTCACA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
35 27 0.64
36 15 0.36
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (35 bp):
TCTATCCCAACCTTTTGAAGGTTGCCTTAGACCGA
Found at i:47076421 original size:18 final size:18
Alignment explanation
Indices: 47076389--47076438 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
47076379 TTCTTTTACA
*
47076389 ATTTTTATGATTTTTTAAT
1 ATTTTTAT-ATTTTTCAAT
*
47076408 ATTTTTACTATTTTTCATT
1 ATTTTTA-TATTTTTCAAT
47076427 ATTTTTATATTT
1 ATTTTTATATTT
47076439 AAAAAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 5 0.18
19 22 0.79
20 1 0.04
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (18 bp):
ATTTTTATATTTTTCAAT
Found at i:47076433 original size:28 final size:27
Alignment explanation
Indices: 47076332--47076438 Score: 76
Period size: 28 Copynumber: 3.8 Consensus size: 27
47076322 TTATAATTCA
* *
47076332 ATTTTTAT-ATTTTTATATGTTTATATATT
1 ATTTTTATAATTTTTA-ATATTT-T-TACT
* *
47076361 ATTTTTAATAATTTATAAT-TCTTTTACA
1 ATTTTT-ATAATTTTTAATAT-TTTTACT
*
47076389 ATTTTTATGATTTTTTAATATTTTTACT
1 ATTTTTAT-AATTTTTAATATTTTTACT
*
47076417 ATTTTTCATTATTTTT-ATATTT
1 ATTTTT-ATAATTTTTAATATTT
47076439 AAAAAATATT
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
27 8 0.12
28 33 0.52
29 11 0.17
30 6 0.09
31 6 0.09
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (27 bp):
ATTTTTATAATTTTTAATATTTTTACT
Found at i:47083785 original size:3 final size:3
Alignment explanation
Indices: 47083779--47083813 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
47083769 AATAATAATA
47083779 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
47083814 ATTTTCATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:47084768 original size:116 final size:116
Alignment explanation
Indices: 47084631--47085063 Score: 449
Period size: 116 Copynumber: 3.8 Consensus size: 116
47084621 GTTCTGTTCA
* *
47084631 TGTTTTCTGTTTCCAGTTCATTGTACATTTTGCATTTTCCATCCATTGAATGGACTGATGTTTTC
1 TGTTTTCTGTTTCCATTTCATTGTACATTTTGCATTTTCCATCCATTGAATGGAGTGA-GTTTTC
*
47084696 GGG-TTTCCATTTCATTTCTTTCAAGTGTCTGGTCTTTATAATG-TCCGATCG
65 GGGTTTTCCATTTCATTGCTTTCAAGTGTCTGGTCTTTATAATGTTCCG-TCG
* * * ** * *** *
47084747 TATCTTCTGTTTCCATTTCATTTTACGCTTTGTATTTTCCATGGGTTGAATGGAGTGACTTTTCC
1 TGTTTTCTGTTTCCATTTCATTGTACATTTTGCATTTTCCATCCATTGAATGGAGTGAGTTTT-C
* * *
47084812 GGG-TTTCCATTTCACTGCTTTCAAGTGTCTGGCCTTTATAA-GTTCCGTTG
65 GGGTTTTCCATTTCATTGCTTTCAAGTGTCTGGTCTTTATAATGTTCCGTCG
* * *
47084862 TTGTTTTCTGTTT-C----CATT-T-CATTTTGCATTTTTCATCCACTAAATGGAGTGAGTTTTT
1 -TGTTTTCTGTTTCCATTTCATTGTACATTTTGCATTTTCCATCCATTGAATGGAGTGAG-TTTT
* * * * * * *
47084920 TGGGTTTTCTAGTTCATTGCTTTCAAATGTCTGCTCTTTGT-ATGTTCTGTTCG
64 CGGGTTTTCCATTTCATTGCTTTCAAGTGTCTGGTCTTTATAATGTTCCG-TCG
* * * *
47084973 TGTTTTCTGATTCCATTTCATTGTACATTTTGCATTTTCTATTCATTGAATGGAGTGAGTTTTTG
1 TGTTTTCTGTTTCCATTTCATTGTACATTTTGCATTTTCCATCCATTGAATGGAGTGAGTTTTCG
*
47085038 GGTTTTCCAATTCATTGCTTTCAAGT
66 GGTTTTCCATTTCATTGCTTTCAAGT
47085064 ACTCTTCATA
Statistics
Matches: 256, Mismatches: 47, Indels: 28
0.77 0.14 0.08
Matches are distributed among these distances:
109 28 0.11
110 50 0.20
111 7 0.03
115 12 0.05
116 130 0.51
117 29 0.11
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.49
Consensus pattern (116 bp):
TGTTTTCTGTTTCCATTTCATTGTACATTTTGCATTTTCCATCCATTGAATGGAGTGAGTTTTCG
GGTTTTCCATTTCATTGCTTTCAAGTGTCTGGTCTTTATAATGTTCCGTCG
Found at i:47084977 original size:110 final size:114
Alignment explanation
Indices: 47084795--47085061 Score: 282
Period size: 110 Copynumber: 2.4 Consensus size: 114
47084785 CCATGGGTTG
* ** * * *
47084795 AATGGAGTGACTTTTCCGGG-TTTCCATTTCACTGCTTTCAAGTGTCTGGCCTTTATAAGTTCCG
1 AATGGAGTGAGTTTTTTGGGTTTTCCAATTCATTGCTTTCAAATGTCTGGCCTTTATAAGTTCCG
47084859 TTGTTGTTTTCTG-T-TTCCATT-T-CATTTTGCATTTT-TCATCCACTA
66 TTGTTGTTTTCTGATCTTCCATTGTACATTTTGCATTTTCT-ATCCACTA
* * * * *
47084904 AATGGAGTGAGTTTTTTGGGTTTTCTAGTTCATTGCTTTCAAATGTCT-GCTCTTTGTATGTTCT
1 AATGGAGTGAGTTTTTTGGGTTTTCCAATTCATTGCTTTCAAATGTCTGGC-CTTTATAAGTTCC
* * * *
47084968 GTTCG-TGTTTTCTGATTCCATTTCATTGTACATTTTGCATTTTCTATTCATTG
65 GTT-GTTGTTTTCTGA-T-C-TTCCATTGTACATTTTGCATTTTCTATCCACTA
47085021 AATGGAGTGAG-TTTTTGGGTTTTCCAATTCATTGCTTTCAA
1 AATGGAGTGAGTTTTTTGGGTTTTCCAATTCATTGCTTTCAA
47085062 GTACTCTTCA
Statistics
Matches: 131, Mismatches: 16, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
109 19 0.15
110 45 0.34
111 1 0.01
112 1 0.01
115 6 0.05
116 29 0.22
117 29 0.22
118 1 0.01
ACGTcount: A:0.16, C:0.17, G:0.18, T:0.49
Consensus pattern (114 bp):
AATGGAGTGAGTTTTTTGGGTTTTCCAATTCATTGCTTTCAAATGTCTGGCCTTTATAAGTTCCG
TTGTTGTTTTCTGATCTTCCATTGTACATTTTGCATTTTCTATCCACTA
Found at i:47085024 original size:226 final size:225
Alignment explanation
Indices: 47084656--47085063 Score: 507
Period size: 226 Copynumber: 1.8 Consensus size: 225
47084646 GTTCATTGTA
* * * * *
47084656 CATTTTGCATTTTCCATCCATTGAATGGACTGATGTTTTCGGGTTTCCATTTCATTTCTTTCAAG
1 CATTTTGCATTTTCCATCCACTAAATGGACTGATGTTTTCGGGTTTCCAGTTCATTGCTTTCAAA
* * * * *
47084721 TGTCTGGTCTTTATAATGTCCGATCGTATCTTCTGTTTCCATTTCATTTTACGCTTTGTATTTTC
66 TGTCTGCTCTTTATAATGTCCGATCGTATCTTCTGATTCCATTTCATTGTACACTTTGCATTTTC
** *
47084786 CATGGGTTGAATGGAGTGACTTTTCCGGG-TTTCCATTTCACTGCTTTCAAGTGTCTGGCCTTTA
131 CATGCATTGAATGGAGTGACTTTT-CGGGTTTTCCAATTCACTGCTTTCAAGTGTCTGGCCTTTA
47084850 TAAGTTCCGTTGTTGTTTTCTGTTTCCATTT
195 TAAGTTCCGTTGTTGTTTTCTGTTTCCATTT
* * * *
47084881 CATTTTGCATTTTTCATCCACTAAATGGAGTGA-GTTTTTTGGGTTTTCTAGTTCATTGCTTTCA
1 CATTTTGCATTTTCCATCCACTAAATGGACTGATG-TTTTCGGG-TTTCCAGTTCATTGCTTTCA
* * * * * *
47084945 AATGTCTGCTCTTTGT-ATGTTCTGTTCGTGTTTTCTGATTCCATTTCATTGTACATTTTGCATT
64 AATGTCTGCTCTTTATAATG-TCCGATCGTATCTTCTGATTCCATTTCATTGTACACTTTGCATT
* * * * *
47085009 TTCTATTCATTGAATGGAGTGAGTTTTTGGGTTTTCCAATTCATTGCTTTCAAGT
128 TTCCATGCATTGAATGGAGTGACTTTTCGGGTTTTCCAATTCACTGCTTTCAAGT
47085064 ACTCTTCATA
Statistics
Matches: 151, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
224 1 0.01
225 42 0.28
226 108 0.72
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.49
Consensus pattern (225 bp):
CATTTTGCATTTTCCATCCACTAAATGGACTGATGTTTTCGGGTTTCCAGTTCATTGCTTTCAAA
TGTCTGCTCTTTATAATGTCCGATCGTATCTTCTGATTCCATTTCATTGTACACTTTGCATTTTC
CATGCATTGAATGGAGTGACTTTTCGGGTTTTCCAATTCACTGCTTTCAAGTGTCTGGCCTTTAT
AAGTTCCGTTGTTGTTTTCTGTTTCCATTT
Found at i:47091020 original size:21 final size:20
Alignment explanation
Indices: 47090982--47091025 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
47090972 ATTTACCTTG
** *
47090982 TTCAGATTGTTGAGGTTCTGT
1 TTCAGATTGCCGAAGTTCT-T
47091003 TTCAGATTGCCGAAGTTCTT
1 TTCAGATTGCCGAAGTTCTT
47091023 TTC
1 TTC
47091026 CAGGATCCTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.45
Consensus pattern (20 bp):
TTCAGATTGCCGAAGTTCTT
Found at i:47094407 original size:21 final size:21
Alignment explanation
Indices: 47094383--47094424 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
47094373 ATGAATTAAA
*
47094383 TTTATTCGTATAGATCCTGTC
1 TTTATTCGTATAGATCATGTC
47094404 TTTATTCGTATAGATCATGTC
1 TTTATTCGTATAGATCATGTC
47094425 AGACCTCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (21 bp):
TTTATTCGTATAGATCATGTC
Found at i:47094728 original size:25 final size:24
Alignment explanation
Indices: 47094676--47094763 Score: 72
Period size: 25 Copynumber: 3.6 Consensus size: 24
47094666 TTACCGATTG
* * * *
47094676 CAGCTCTTATAAGCTTACCGTTACT
1 CAGCTCGTATGAGCTTACTGTT-TT
47094701 CAGCTCGTATGAGCTTACTGTTGTT
1 CAGCTCGTATGAGCTTACTGTT-TT
* *
47094726 CAGCTTAG-AGGAGCTTACTGTTTAT
1 CAGC-TCGTATGAGCTTACTGTTT-T
47094751 C-GCTCGTATGAGC
1 CAGCTCGTATGAGC
47094764 ATACATGTAC
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
23 2 0.04
24 8 0.16
25 39 0.76
26 2 0.04
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (24 bp):
CAGCTCGTATGAGCTTACTGTTTT
Found at i:47101132 original size:13 final size:14
Alignment explanation
Indices: 47101099--47101133 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
47101089 ATAATTAAAC
47101099 ATAAAATAAATGAA
1 ATAAAATAAATGAA
*
47101113 ATGAAATAAA-GAA
1 ATAAAATAAATGAA
47101126 ATAAAATA
1 ATAAAATA
47101134 GAAAAAGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (14 bp):
ATAAAATAAATGAA
Found at i:47105655 original size:35 final size:35
Alignment explanation
Indices: 47105609--47105775 Score: 255
Period size: 35 Copynumber: 4.8 Consensus size: 35
47105599 GATTTTCCTC
47105609 ATGGAAAATACCATACCTACGTTTCACAACTCAGT
1 ATGGAAAATACCATACCTACGTTTCACAACTCAGT
*
47105644 ATGGAAAATACCATACCTACGTTTCACAACTCGGT
1 ATGGAAAATACCATACCTACGTTTCACAACTCAGT
* * *
47105679 ATGGAAAATACCATACCTACGTATCATAGCTCAGT
1 ATGGAAAATACCATACCTACGTTTCACAACTCAGT
* * * *
47105714 ATGGAAAATACCATACCTACGTATCATAGCTCAAT
1 ATGGAAAATACCATACCTACGTTTCACAACTCAGT
47105749 ATGG-AAATACCATACCTACGTTTCACA
1 ATGGAAAATACCATACCTACGTTTCACA
47105776 TTTTTCCATG
Statistics
Matches: 124, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
34 21 0.17
35 103 0.83
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.26
Consensus pattern (35 bp):
ATGGAAAATACCATACCTACGTTTCACAACTCAGT
Found at i:47107312 original size:16 final size:16
Alignment explanation
Indices: 47107288--47107322 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
47107278 TGAATTACTG
*
47107288 ATTATAGCTCTATTCC
1 ATTACAGCTCTATTCC
47107304 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
47107320 ATT
1 ATT
47107323 CACCCCAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.43
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:47110360 original size:21 final size:21
Alignment explanation
Indices: 47110334--47110377 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
47110324 CATAACATTA
47110334 CCTTTTAAATGTGTACAATAT
1 CCTTTTAAATGTGTACAATAT
47110355 CCTTTTAAATGTGTACAATAT
1 CCTTTTAAATGTGTACAATAT
47110376 CC
1 CC
47110378 GACCCAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (21 bp):
CCTTTTAAATGTGTACAATAT
Found at i:47117144 original size:24 final size:24
Alignment explanation
Indices: 47117116--47117173 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
47117106 GTAAATAGAA
47117116 GAAAGAAAAATGGGAAAGTTGAAG
1 GAAAGAAAAATGGGAAAGTTGAAG
47117140 GAAAGAAAAATGGGAAAGTTGAAG
1 GAAAGAAAAATGGGAAAGTTGAAG
*
47117164 GAAAAAAAAA
1 GAAAGAAAAA
47117174 AGAAGCACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.60, C:0.00, G:0.29, T:0.10
Consensus pattern (24 bp):
GAAAGAAAAATGGGAAAGTTGAAG
Found at i:47134232 original size:20 final size:20
Alignment explanation
Indices: 47134200--47134241 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
47134190 AGATTGTAAG
47134200 AAAGAAAAGATTAATA-TTAA
1 AAAGAAAAGATT-ATAGTTAA
47134220 AAAGAATAA-ATTATAGTTAA
1 AAAGAA-AAGATTATAGTTAA
47134240 AA
1 AA
47134242 GATAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 3 0.15
20 15 0.75
21 2 0.10
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (20 bp):
AAAGAAAAGATTATAGTTAA
Found at i:47136548 original size:22 final size:22
Alignment explanation
Indices: 47136523--47136564 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
47136513 CACAATTTTT
47136523 TATTTCATTA-TAATAAAAATTA
1 TATTT-ATTATTAATAAAAATTA
*
47136545 TATTTTTTATTAATAAAAAT
1 TATTTATTATTAATAAAAAT
47136565 ATAAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTTATTATTAATAAAAATTA
Found at i:47137516 original size:117 final size:119
Alignment explanation
Indices: 47137304--47137548 Score: 361
Period size: 117 Copynumber: 2.1 Consensus size: 119
47137294 TTTGGAAACA
* * * * *
47137304 AGGGTCACACGGCTGTATGGTCAGGCTGTGTGACATAGCCCAAACCTTGTGAGCATTCAAAGTAT
1 AGGGTCACACGGCTATATGGCCAGCCTGTGTGACATAGCCCAAACCATGTGAGCATTCAAAGCAT
*
47137369 GGGACACACGGCTGTGTTGCAGCTCGTGTGTCTGCCAATGTGGGTATTCAAAAT
66 GGGACACACAGCTGTGTTGCAGCTCGTGTGTCTGCCAATGTGGGTATTCAAAAT
* *
47137423 TGGGTCACACGGCTATAT-GCCAAGCCT-TGTGACATAGCCCAAACCATGTGAGCATTCGAAGCA
1 AGGGTCACACGGCTATATGGCC-AGCCTGTGTGACATAGCCCAAACCATGTGAGCATTCAAAGCA
* * *
47137486 T-GGACACACAGCTGTGTTGCAGCTCGTGTGTCTGCTAGTGTGGGTATTCGAAAT
65 TGGGACACACAGCTGTGTTGCAGCTCGTGTGTCTGCCAATGTGGGTATTCAAAAT
47137540 AGGGTCACA
1 AGGGTCACA
47137549 TGGTCGTGTC
Statistics
Matches: 113, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
117 57 0.50
118 36 0.32
119 20 0.18
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (119 bp):
AGGGTCACACGGCTATATGGCCAGCCTGTGTGACATAGCCCAAACCATGTGAGCATTCAAAGCAT
GGGACACACAGCTGTGTTGCAGCTCGTGTGTCTGCCAATGTGGGTATTCAAAAT
Found at i:47138210 original size:22 final size:22
Alignment explanation
Indices: 47138155--47138210 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 22
47138145 GTTTTGGACT
* * *
47138155 TAATTTTTATTATATATGAGCTC
1 TAATTATT-TTATTTATCAGCTC
*
47138178 -AA-TATTGTATTTATCAGCTC
1 TAATTATTTTATTTATCAGCTC
47138198 TAATTATTTTATT
1 TAATTATTTTATT
47138211 ATTTTATTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
20 11 0.42
21 5 0.19
22 10 0.38
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.54
Consensus pattern (22 bp):
TAATTATTTTATTTATCAGCTC
Found at i:47149720 original size:28 final size:28
Alignment explanation
Indices: 47149667--47149724 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
47149657 AAGACAGAAA
*
47149667 AATAATAAGAATAAATAGTAATATAATG
1 AATAATAAGAATAAATAATAATATAATG
*
47149695 AATAATAAGAA-CAATAAT-AT-TAAT-
1 AATAATAAGAATAAATAATAATATAATG
47149719 AATAAT
1 AATAAT
47149725 GTAATAACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 6 0.21
25 4 0.14
26 2 0.07
27 5 0.18
28 11 0.39
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (28 bp):
AATAATAAGAATAAATAATAATATAATG
Found at i:47153992 original size:14 final size:14
Alignment explanation
Indices: 47153973--47154011 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
47153963 TTAAAGCAAG
*
47153973 AATTAAGAATACAT
1 AATTAAGAACACAT
47153987 AATTAAGAACACAT
1 AATTAAGAACACAT
47154001 AATTAAGAACA
1 AATTAAGAACA
47154012 AGTCAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.59, C:0.10, G:0.08, T:0.23
Consensus pattern (14 bp):
AATTAAGAACACAT
Found at i:47157288 original size:29 final size:29
Alignment explanation
Indices: 47157226--47157288 Score: 67
Period size: 29 Copynumber: 2.1 Consensus size: 29
47157216 TCCCTTCTTT
47157226 TTTTTAATTAAAATTAAAAACTCCAATAG-
1 TTTTTAATTAAAATTAAAAAC-CCAATAGA
* *
47157255 TTTTTTATTAATAATTTAAAA-CCAATCAGA
1 TTTTTAATTAA-AATTAAAAACCCAAT-AGA
47157285 TTTT
1 TTTT
47157289 ACTAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
28 5 0.17
29 12 0.41
30 12 0.41
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (29 bp):
TTTTTAATTAAAATTAAAAACCCAATAGA
Found at i:47159350 original size:46 final size:49
Alignment explanation
Indices: 47159244--47159365 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 49
47159234 TGTCTTCGAC
** * *
47159244 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATATAAT
* * *
47159294 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGTC-ATATA-A-CTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATATAAT
*
47159340 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
47159366 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 28 0.44
47 1 0.02
48 5 0.08
50 29 0.46
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (49 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATATAAT
Found at i:47181039 original size:6 final size:6
Alignment explanation
Indices: 47181028--47181058 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
47181018 TTATTGACCT
47181028 GTTGTG GTTGTG GTTGTG GTTGTG GTTGTG G
1 GTTGTG GTTGTG GTTGTG GTTGTG GTTGTG G
47181059 GATAATAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (6 bp):
GTTGTG
Found at i:47183297 original size:26 final size:26
Alignment explanation
Indices: 47183268--47183319 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
47183258 CTTTGGTAAG
*
47183268 TTGCATTCACTCCTCTGGTCTTGGCC
1 TTGCATTCACTCCTCTGGTCGTGGCC
47183294 TTGCATTCACTCCTCTGGTCGTGGCC
1 TTGCATTCACTCCTCTGGTCGTGGCC
47183320 CAGTGTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.08, C:0.35, G:0.21, T:0.37
Consensus pattern (26 bp):
TTGCATTCACTCCTCTGGTCGTGGCC
Found at i:47184966 original size:15 final size:14
Alignment explanation
Indices: 47184930--47184957 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47184920 CGTAAAATTA
47184930 GAAAAATATTTTCC
1 GAAAAATATTTTCC
47184944 GAAAAATATTTTCC
1 GAAAAATATTTTCC
47184958 TGGTAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
GAAAAATATTTTCC
Found at i:47185282 original size:15 final size:17
Alignment explanation
Indices: 47185253--47185290 Score: 62
Period size: 15 Copynumber: 2.4 Consensus size: 17
47185243 AAAAAAAATA
47185253 TAAAAAAATTAATATTT
1 TAAAAAAATTAATATTT
47185270 TAAAAAAA-T-ATATTT
1 TAAAAAAATTAATATTT
47185285 TAAAAA
1 TAAAAA
47185291 TTTAAGACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 12 0.57
16 1 0.05
17 8 0.38
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAAAAATTAATATTT
Found at i:47185661 original size:21 final size:21
Alignment explanation
Indices: 47185635--47185695 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
47185625 AAAAAAATCA
47185635 TTATATGATTTTTATAAAATT
1 TTATATGATTTTTATAAAATT
* * *
47185656 TTATATG-TTTTTGTATCATTT
1 TTATATGATTTTTATA-AAATT
*
47185677 TTATAATTATTTTTATAAA
1 TTAT-ATGATTTTTATAAA
47185696 TATTATCAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 7 0.23
21 14 0.45
22 3 0.10
23 7 0.23
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.61
Consensus pattern (21 bp):
TTATATGATTTTTATAAAATT
Found at i:47188001 original size:25 final size:25
Alignment explanation
Indices: 47187973--47188034 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
47187963 TAAGCTATTC
*
47187973 CAAGCTAAATAACAGAAAGCTCATG
1 CAAGCTAAATAACAGAAAACTCATG
** *
47187998 CAAGCTGTATAACGGAAAACTCATG
1 CAAGCTAAATAACAGAAAACTCATG
*
47188023 CGAGCTAAATAA
1 CAAGCTAAATAA
47188035 TGAGAAGATC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.45, C:0.19, G:0.18, T:0.18
Consensus pattern (25 bp):
CAAGCTAAATAACAGAAAACTCATG
Found at i:47190138 original size:18 final size:17
Alignment explanation
Indices: 47190065--47190146 Score: 69
Period size: 18 Copynumber: 4.6 Consensus size: 17
47190055 ATTTAAAAAA
47190065 TTTA-AATTTTT-ATATT
1 TTTATAATTTTTAAT-TT
*
47190081 TTTATAATAATTTTATTTT
1 TTTATAAT--TTTTAATTT
* *
47190100 ATTTATAAATTTTTGACTT
1 -TTTAT-AATTTTTAATTT
47190119 TTTATAATTTTTAAATTT
1 TTTATAATTTTT-AATTT
47190137 TTTATAATTT
1 TTTATAATTT
47190147 CAAAAAAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
16 4 0.08
17 10 0.19
18 18 0.34
19 12 0.23
20 6 0.11
21 3 0.06
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (17 bp):
TTTATAATTTTTAATTT
Done.