Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 51 of 322
Found at i:15652189 original size:37 final size:38
Alignment explanation
Indices: 15652148--15652230 Score: 93
Period size: 37 Copynumber: 2.2 Consensus size: 38
15652138 TTTTAAATAT
* *
15652148 TAAAAATATTAAAA-TTTATATAA-ACTTATAA-AAATTA
1 TAAAAATATTAAAAGCTTATA-AATA-TAATAATAAATTA
*
15652185 TAAAAA-AATAAAAGCTTATAAATATAATAATAAATTA
1 TAAAAATATTAAAAGCTTATAAATATAATAATAAATTA
15652222 TAAAAATAT
1 TAAAAATAT
15652231 AATAAATTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
36 13 0.34
37 24 0.63
38 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (38 bp):
TAAAAATATTAAAAGCTTATAAATATAATAATAAATTA
Found at i:15652631 original size:11 final size:10
Alignment explanation
Indices: 15652606--15652667 Score: 56
Period size: 10 Copynumber: 6.3 Consensus size: 10
15652596 GACTTTTTCG
*
15652606 TAATTTTTAA
1 TAATTTTTTA
*
15652616 TATTTTTTTA
1 TAATTTTTTA
*
15652626 TAATTTATTA
1 TAATTTTTTA
* *
15652636 GAATTTATTA
1 TAATTTTTTA
15652646 T-A-TTTTTA
1 TAATTTTTTA
15652654 TAAGTTTTTTA
1 TAA-TTTTTTA
15652665 TAA
1 TAA
15652668 AAATCTAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
8 6 0.14
9 2 0.05
10 25 0.60
11 9 0.21
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:15652770 original size:9 final size:9
Alignment explanation
Indices: 15652758--15652818 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
15652748 TCTATTATTT
15652758 TTTTTATAA
1 TTTTTATAA
15652767 TTTTTATACA
1 TTTTTATA-A
*
15652777 TTTATATCAA
1 TTTTTAT-AA
* *
15652787 TTTTGA-GA
1 TTTTTATAA
*
15652795 TTTTTTTAA
1 TTTTTATAA
*
15652804 TATTTATAA
1 TTTTTATAA
15652813 TTTTTA
1 TTTTTA
15652819 ATATTTATAA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
8 5 0.13
9 21 0.54
10 12 0.31
11 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:15652818 original size:16 final size:16
Alignment explanation
Indices: 15652797--15652835 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
15652787 TTTTGAGATT
15652797 TTTTTAATATTTATAA
1 TTTTTAATATTTATAA
15652813 TTTTTAATATTTATAA
1 TTTTTAATATTTATAA
*
15652829 GTTTTAA
1 TTTTTAA
15652836 AGAATTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTTAATATTTATAA
Found at i:15652961 original size:9 final size:9
Alignment explanation
Indices: 15652917--15653028 Score: 75
Period size: 9 Copynumber: 11.8 Consensus size: 9
15652907 AATTTATTAG
15652917 ATTTTTATA
1 ATTTTTATA
*
15652926 ATATTTATA
1 ATTTTTATA
*
15652935 AGTTTTTTTTATT
1 A----TTTTTATA
*
15652948 TTTTTTATA
1 ATTTTTATA
15652957 ATTTTATATA
1 ATTTT-TATA
*
15652967 AATTTTA-A
1 ATTTTTATA
15652975 ATTTTTAATA
1 ATTTTT-ATA
15652985 ATTTTTATA
1 ATTTTTATA
15652994 A-TTTTATAA
1 ATTTTTAT-A
* *
15653003 ATGTTTCTA
1 ATTTTTATA
*
15653012 ATTGTTTATT
1 ATT-TTTATA
15653022 ATTTTTA
1 ATTTTTA
15653029 ATATTTATCG
Statistics
Matches: 80, Mismatches: 13, Indels: 20
0.71 0.12 0.18
Matches are distributed among these distances:
8 12 0.15
9 36 0.45
10 26 0.32
13 6 0.08
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:15653003 original size:28 final size:26
Alignment explanation
Indices: 15652949--15653034 Score: 91
Period size: 28 Copynumber: 3.1 Consensus size: 26
15652939 TTTTTTATTT
*
15652949 TTTTTATAATTTTATATAAATTTTAAA
1 TTTTTATAATTTT-TATAATTTTTAAA
15652976 TTTTTAATAATTTTTATAATTTTATAAA
1 TTTTT-ATAATTTTTATAATTTT-TAAA
* * *
15653004 TGTTTCTAATTGTTTATTATTTTTAATA
1 TTTTTATAATT-TTTATAATTTTTAA-A
15653032 TTT
1 TTT
15653035 ATCGAAAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
27 21 0.42
28 29 0.58
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTTTATAATTTTTATAATTTTTAAA
Found at i:15653026 original size:37 final size:36
Alignment explanation
Indices: 15652940--15653028 Score: 101
Period size: 37 Copynumber: 2.4 Consensus size: 36
15652930 TTATAAGTTT
*
15652940 TTTTTATTTTTTTTATAATTTTATATAAATTTTAAA
1 TTTTTATTATTTTTATAATTTTATATAAATTTTAAA
* *
15652976 TTTTTAATAATTTTTATAA-TTT-TATAAATGTTTCTAA
1 TTTTT-ATTATTTTTATAATTTTATATAAAT-TTT-AAA
15653013 TTGTTTATTATTTTTA
1 TT-TTTATTATTTTTA
15653029 ATATTTATCG
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
35 7 0.16
36 11 0.24
37 24 0.53
38 3 0.07
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.65
Consensus pattern (36 bp):
TTTTTATTATTTTTATAATTTTATATAAATTTTAAA
Found at i:15654747 original size:19 final size:19
Alignment explanation
Indices: 15654723--15654762 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
15654713 ATTAATTTTG
15654723 ATCAAGTAAAATT-AAATTA
1 ATCAAGT-AAATTAAAATTA
*
15654742 ATCAAGTTAATTAAAATTA
1 ATCAAGTAAATTAAAATTA
15654761 AT
1 AT
15654763 ATGGTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (19 bp):
ATCAAGTAAATTAAAATTA
Found at i:15655154 original size:17 final size:17
Alignment explanation
Indices: 15655132--15655205 Score: 50
Period size: 17 Copynumber: 4.5 Consensus size: 17
15655122 ATTTTAATAG
15655132 TTTAATATTAAATTTAA
1 TTTAATATTAAATTTAA
*
15655149 TTTAATACTT--ATCATAA
1 TTTAATA-TTAAAT-TTAA
* **
15655166 --TAGTATTTTAT-TAA
1 TTTAATATTAAATTTAA
*
15655180 TTTAATATTAAATTTAT
1 TTTAATATTAAATTTAA
15655197 TTTAATATT
1 TTTAATATT
15655206 TATCTTATGG
Statistics
Matches: 44, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
14 5 0.11
15 4 0.09
16 12 0.27
17 21 0.48
18 2 0.05
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (17 bp):
TTTAATATTAAATTTAA
Found at i:15670310 original size:40 final size:40
Alignment explanation
Indices: 15670221--15670484 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
15670211 TTGAATGATG
* *
15670221 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
15670260 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
15670300 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15670339 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15670379 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
15670419 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
15670460 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15670485 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15670502 original size:120 final size:118
Alignment explanation
Indices: 15670221--15670517 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
15670211 TTGAATGATG
* *
15670221 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
15670281 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
15670339 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
15670404 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
15670460 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
15670518 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:15675171 original size:23 final size:21
Alignment explanation
Indices: 15675137--15675183 Score: 51
Period size: 21 Copynumber: 2.1 Consensus size: 21
15675127 GGAAATTGAA
15675137 TAGAAATGAAGTATGAATTGAGT
1 TAGAAATGAAG--TGAATTGAGT
*
15675160 TAGAAA-GTAAGTGAATTTAGT
1 TAGAAATG-AAGTGAATTGAGT
15675181 TAG
1 TAG
15675184 GATTAAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 12 0.55
22 1 0.05
23 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.26, T:0.32
Consensus pattern (21 bp):
TAGAAATGAAGTGAATTGAGT
Found at i:15684265 original size:92 final size:92
Alignment explanation
Indices: 15684154--15684337 Score: 341
Period size: 92 Copynumber: 2.0 Consensus size: 92
15684144 CTGGGGTGCT
15684154 CCTGTATTGTTTGTAAAGAAGAATGATGGCTCAATGAGACTTTGCATTGATTACCGTCAGCTCAA
1 CCTGTATTGTTTGTAAAGAAGAATGATGGCTCAATGAGACTTTGCATTGATTACCGTCAGCTCAA
15684219 TAAGGTGACTATAAAGAACAAGTACCC
66 TAAGGTGACTATAAAGAACAAGTACCC
***
15684246 CCTGTATTGTTTGTAAAGAAGAATGATGGCTCAATGAGACTTTGCATTGATTTTTGTCAGCTCAA
1 CCTGTATTGTTTGTAAAGAAGAATGATGGCTCAATGAGACTTTGCATTGATTACCGTCAGCTCAA
15684311 TAAGGTGACTATAAAGAACAAGTACCC
66 TAAGGTGACTATAAAGAACAAGTACCC
15684338 GTTACTGAGG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (92 bp):
CCTGTATTGTTTGTAAAGAAGAATGATGGCTCAATGAGACTTTGCATTGATTACCGTCAGCTCAA
TAAGGTGACTATAAAGAACAAGTACCC
Found at i:15687253 original size:93 final size:93
Alignment explanation
Indices: 15687141--15687311 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
15687131 GCCCATAAGT
* *
15687141 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15687206 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
15687234 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15687299 CGAGTTCGGATGC
66 CGAGTTCGGATGC
15687312 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:15687308 original size:46 final size:46
Alignment explanation
Indices: 15687133--15687308 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
15687123 TGTAACCCGC
* * *
15687133 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
15687179 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
15687229 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
15687272 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
15687309 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:15690897 original size:43 final size:43
Alignment explanation
Indices: 15690833--15690978 Score: 229
Period size: 43 Copynumber: 3.4 Consensus size: 43
15690823 TTAAAAAAAA
15690833 AAACGCCGCTAAAGGTCGTGGCCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCGTGGCCTTTAGCGGCGCTTTTCCCAC
*
15690876 AAACGCCGCTAAAGGTTGTGGCCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCGTGGCCTTTAGCGGCGCTTTTCCCAC
* *** * *
15690919 AAATGCCGCTAAAGGTCGCAACCCTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCGTGGCCTTTAGCGGCGCTTTTCCCAC
15690962 AAACGCCGCTAAAGGTC
1 AAACGCCGCTAAAGGTC
15690979 ATGAAATTTT
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 94 1.00
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCGTGGCCTTTAGCGGCGCTTTTCCCAC
Found at i:15695416 original size:14 final size:14
Alignment explanation
Indices: 15695396--15695440 Score: 81
Period size: 14 Copynumber: 3.2 Consensus size: 14
15695386 CACTAAAAAT
15695396 TAAACCCTAAACTA
1 TAAACCCTAAACTA
*
15695410 TACACCCTAAACTA
1 TAAACCCTAAACTA
15695424 TAAACCCTAAACTA
1 TAAACCCTAAACTA
15695438 TAA
1 TAA
15695441 TGATAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:15695577 original size:22 final size:22
Alignment explanation
Indices: 15695534--15695574 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15695524 CTATAATTAA
* *
15695534 TTTAAACCTTAAACTCCTAATC
1 TTTAAACCCTAAACTCATAATC
15695556 TTTAAACCCTAAAC-CATAA
1 TTTAAACCCTAAACTCATAA
15695575 ATCCTAAGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.32
Consensus pattern (22 bp):
TTTAAACCCTAAACTCATAATC
Found at i:15696006 original size:21 final size:21
Alignment explanation
Indices: 15695980--15696064 Score: 71
Period size: 21 Copynumber: 3.7 Consensus size: 21
15695970 ACTCTTAAAC
* *
15695980 CTTAAACCCTAAACCGTATAT
1 CTTAAACCATAAACCATATAT
*
15696001 CTTAAACCATAGTTAACTCATAAACCT
1 CTTAAACCATA---AAC-CATATA--T
*
15696028 GCTTAAACCCTAAACCATATAT
1 -CTTAAACCATAAACCATATAT
15696050 CTTAAACCATAAACC
1 CTTAAACCATAAACC
15696065 TTAAACTGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
21 24 0.47
22 1 0.02
24 8 0.16
25 7 0.14
27 1 0.02
28 10 0.20
ACGTcount: A:0.41, C:0.28, G:0.04, T:0.27
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:15696049 original size:49 final size:46
Alignment explanation
Indices: 15695964--15696060 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 46
15695954 CTTCAAATAC
* *
15695964 TAGTTAACTCTTAAACCTTAAACCCTAAACCGTATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
15696010 TAGTTAACTCATAAACCTGCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAA-C--CTTAAACCCTAAACCATATATCTTAAACCA
15696059 TA
1 TA
15696061 AACCTTAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
46 14 0.30
47 1 0.02
49 31 0.67
ACGTcount: A:0.40, C:0.26, G:0.04, T:0.30
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:15696057 original size:14 final size:14
Alignment explanation
Indices: 15696031--15696070 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
15696021 TAAACCTGCT
*
15696031 TAAACCCTAAACCA
1 TAAACCTTAAACCA
* *
15696045 TATATCTTAAACCA
1 TAAACCTTAAACCA
15696059 TAAACCTTAAAC
1 TAAACCTTAAAC
15696071 TGTAATGATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:15702016 original size:26 final size:26
Alignment explanation
Indices: 15701987--15702068 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
15701977 TGATACAAAT
15701987 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15702013 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15702039 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15702065 TGAT
1 TGAT
15702069 GGGCATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:15711676 original size:20 final size:19
Alignment explanation
Indices: 15711651--15711700 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
15711641 TAACAATATT
15711651 TTATTAATTTAATATTAAA
1 TTATTAATTTAATATTAAA
15711670 GTTATT-ATCTTAATATTAAA
1 -TTATTAAT-TTAATATTAAA
15711690 -T-TTAATTTAAT
1 TTATTAATTTAAT
15711701 GTTTAGCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 7 0.25
18 3 0.11
19 2 0.07
20 16 0.57
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
TTATTAATTTAATATTAAA
Found at i:15720282 original size:40 final size:40
Alignment explanation
Indices: 15720227--15720404 Score: 254
Period size: 40 Copynumber: 4.5 Consensus size: 40
15720217 TGGATGATAA
*
15720227 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTAGTGCGAGTTACTATAT
*
15720267 CCGGGCCAAGTCCCGAAGGCATTAGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTAGTGCGAGTTACTATAT
*
15720307 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTAGTGCGAGTTACTATAT
* *
15720347 CCGGGCTATGTCCCGAAGGCATTCA-AGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATT-AGTGCGAGTTA-CTATAT
* *
15720387 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
15720405 TACTTGGCTT
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 15 0.12
40 111 0.88
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTAGTGCGAGTTACTATAT
Found at i:15733467 original size:17 final size:17
Alignment explanation
Indices: 15733445--15733479 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15733435 ATTACAAAAT
*
15733445 CAAATCTTATCAGATTA
1 CAAATCTTATAAGATTA
*
15733462 CAAATCTTCTAAGATTA
1 CAAATCTTATAAGATTA
15733479 C
1 C
15733480 TTTCCCTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (17 bp):
CAAATCTTATAAGATTA
Found at i:15736291 original size:52 final size:52
Alignment explanation
Indices: 15736213--15736315 Score: 170
Period size: 52 Copynumber: 2.0 Consensus size: 52
15736203 ATTTTAGGCC
* *
15736213 TAGTCAGAATAGTGCTTTTAGAACCACTGACCCGAGATCAGAGAAAATATTA
1 TAGTCAGAATAGTGCTTTCAGAACCACTCACCCGAGATCAGAGAAAATATTA
* *
15736265 TAGTCAGAATAGTGGTTTCAGAACCACTCACCCGAGGTCAGAGAAAATATT
1 TAGTCAGAATAGTGCTTTCAGAACCACTCACCCGAGATCAGAGAAAATATT
15736316 TTTGATATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (52 bp):
TAGTCAGAATAGTGCTTTCAGAACCACTCACCCGAGATCAGAGAAAATATTA
Found at i:15737217 original size:30 final size:30
Alignment explanation
Indices: 15737181--15737246 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
15737171 TACGGGTAGG
**
15737181 CACACGAGCGTGTGTCTATTCCGTGTGTGA
1 CACACGAGCGTGTGTCTAGGCCGTGTGTGA
15737211 CACACGAGCGTGTGTCTAGGCCGTGTGTGA
1 CACACGAGCGTGTGTCTAGGCCGTGTGTGA
15737241 CACACG
1 CACACG
15737247 GCCAGCCCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.18, C:0.26, G:0.32, T:0.24
Consensus pattern (30 bp):
CACACGAGCGTGTGTCTAGGCCGTGTGTGA
Found at i:15747958 original size:16 final size:18
Alignment explanation
Indices: 15747937--15747969 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
15747927 CATACGAGCT
15747937 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
15747953 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
15747970 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:15748501 original size:41 final size:42
Alignment explanation
Indices: 15748444--15748547 Score: 122
Period size: 41 Copynumber: 2.5 Consensus size: 42
15748434 TCAAAACACT
* * *
15748444 GGCATTTAGCCTGCTAGGTTTTAAACCCGAGT-TCA-TTCACC
1 GGCATTTAGCCGGCTAGGCTTGAAACCCGA-TATCATTTCACC
* *
15748485 GGCATTTCGCCGGCTAGGCTTGAAGCCCGATATCATTTCACC
1 GGCATTTAGCCGGCTAGGCTTGAAACCCGATATCATTTCACC
*
15748527 GGCATTATAGCCTGCTAGGCT
1 GGCATT-TAGCCGGCTAGGCT
15748548 CGAAGGCCCG
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 1 0.02
41 28 0.53
42 12 0.23
43 12 0.23
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.29
Consensus pattern (42 bp):
GGCATTTAGCCGGCTAGGCTTGAAACCCGATATCATTTCACC
Found at i:15748574 original size:45 final size:45
Alignment explanation
Indices: 15748476--15748607 Score: 157
Period size: 45 Copynumber: 3.0 Consensus size: 45
15748466 AAACCCGAGT
* * *
15748476 TCAT-TCACCGGCATT-TCGCCGGCTAGGCTTGAA-GCCCG-ATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
*
15748517 TCATTTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
* * *
15748562 GT-ATCTCACCGGCATCATAGCCTGCTAGGTTCAAAGGCCCGAATA
1 -TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
15748607 T
1 T
15748608 TACTGTATGA
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
41 4 0.05
42 11 0.14
43 15 0.19
44 6 0.08
45 42 0.53
46 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (45 bp):
TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
Found at i:15754247 original size:14 final size:14
Alignment explanation
Indices: 15754202--15754247 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
15754192 TAAAAATTAC
15754202 AAAAATTAAATTCTT
1 AAAAATTAAATT-TT
* * *
15754217 AAAAATAAAAATAT
1 AAAAATTAAATTTT
15754231 AAAAATTAAATTTT
1 AAAAATTAAATTTT
15754245 AAA
1 AAA
15754248 TTAAAAAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAAATTAAATTTT
Found at i:15754257 original size:30 final size:29
Alignment explanation
Indices: 15754177--15754262 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 29
15754167 ACAATTAAAC
** * *
15754177 TTAAATTTTAAAATCTAAAAATTACAAAAA
1 TTAAATTTT-AAATAAAAAAAATATAAAAA
*
15754207 TTAAATTCTTAAA-AATAAAAATATAAAAA
1 TTAAATT-TTAAATAAAAAAAATATAAAAA
15754236 TTAAATTTTAAATTAAAAAAAATATAA
1 TTAAATTTTAAA-TAAAAAAAATATAA
15754263 TTAACCCTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
28 5 0.11
29 18 0.38
30 22 0.47
31 2 0.04
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (29 bp):
TTAAATTTTAAATAAAAAAAATATAAAAA
Found at i:15754814 original size:68 final size:67
Alignment explanation
Indices: 15754622--15754818 Score: 313
Period size: 67 Copynumber: 2.9 Consensus size: 67
15754612 TAAGTTAAAT
* * * *
15754622 TACTTACTAAAACATTTATTCTGAAATGCATATACTTAATTTAATAAAACTTTTCATTGTTTCAA
1 TACTTACTAAAACATTTATTCTGAAATGTATAAACTTAATTTAATAAAACATCTCATTGTTTCAA
15754687 AC
66 AC
*
15754689 TACTTACTAAAAGATTTATTCTGAAATGTATAAACTTAATTTAATAAAACATCTCATTGTTTCAA
1 TACTTACTAAAACATTTATTCTGAAATGTATAAACTTAATTTAATAAAACATCTCATTGTTTCAA
15754754 AC
66 AC
** *
15754756 TACTTACTAAAACATTTATTCAAAAAATGTATAAACTTAATTTAATAACACATCTCATTGTTT
1 TACTTACTAAAACATTTATTC-TGAAATGTATAAACTTAATTTAATAAAACATCTCATTGTTT
15754819 TTGTTTTTGT
Statistics
Matches: 120, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
67 82 0.68
68 38 0.32
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.40
Consensus pattern (67 bp):
TACTTACTAAAACATTTATTCTGAAATGTATAAACTTAATTTAATAAAACATCTCATTGTTTCAA
AC
Found at i:15755294 original size:67 final size:67
Alignment explanation
Indices: 15755178--15755442 Score: 363
Period size: 67 Copynumber: 4.0 Consensus size: 67
15755168 GATCCCGAAG
* *
15755178 TCAAACTACTTACTAAAACCCTTAGTT-GGAAATGTATAAA-TCTAATTTAATAAAACATCTCAT
1 TCAAACTACTTACTAAAACCTTTA-TTCTGAAATGTATAAACT-TAATTTAATAAAACATCTCAT
15755241 TATT
64 TATT
* * *
15755245 CCAAACTACTTACTAAAACCTTTATTCTGAAATGTATAAACTTATTTTAATAAATCATCTCATTA
1 TCAAACTACTTACTAAAACCTTTATTCTGAAATGTATAAACTTAATTTAATAAAACATCTCATTA
15755310 TT
66 TT
* * * * *
15755312 TTAAACTACTTACTAAAACATTTATCCTGAAATGTATAAACTTAATTTAATAAAACATCTCAGTG
1 TCAAACTACTTACTAAAACCTTTATTCTGAAATGTATAAACTTAATTTAATAAAACATCTCATTA
15755377 TT
66 TT
* * * * *
15755379 TAAAACTACTTACTAAAATCTTTATTCAGAAATGTATAAATTTAATTTAATAACACATCTCATT
1 TCAAACTACTTACTAAAACCTTTATTCTGAAATGTATAAACTTAATTTAATAAAACATCTCATT
15755443 GTTTTTGTTT
Statistics
Matches: 175, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
66 2 0.01
67 172 0.98
68 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.38
Consensus pattern (67 bp):
TCAAACTACTTACTAAAACCTTTATTCTGAAATGTATAAACTTAATTTAATAAAACATCTCATTA
TT
Found at i:15755881 original size:641 final size:625
Alignment explanation
Indices: 15754622--15756087 Score: 2116
Period size: 641 Copynumber: 2.3 Consensus size: 625
15754612 TAAGTTAAAT
* * * * *
15754622 TACTTACTAAAACATTTATTCTGAAATGCATATACTTAATTTAATAAAACTTTTCATTGTTTCAA
1 TACTTACTAAAACCTTTATTCTGAAATGTATAAACTTAATTTAATAAAACATCTCATTGTTTCAA
*
15754687 ACTACTTACTAAAAGATTTATTCTGAAATGTATAAACTTAATTTAATAAAACATCTCATTGTTTC
66 ACTACTTACTAAAACATTTATTCTGAAATGTATAAACTTAATTTAATAAAACATCTCATTGTTTC
*
15754752 AAACTACTTACTAAAACATTTATTCAAAAAATGTATAAACTTAATTTAATAACACATCTCATTGT
131 AAACTACTTACTAAAAC-TTTATTC-AAAAATGTATAAATTTAATTTAATAACACATCTCATTGT
*
15754817 TTTTGTTTTTGTGTATATGCTCATTTAGTATTGACAGCAAATCTCTTTCCACATTGCACTCAATT
194 TTTTGTTTCTGTG-ATATGCTCATTTAGTATTGACAGCAAATCTCTTTCCACATTGCACTCAATT
* * ** * *
15754882 TTCATATTTCAGGCGCTGGTTGAGTGAAAGAATCGAAAAAATTTATCTTTTTTATAGAAGTATAC
258 TTCATATTTCAAGCGCTGGTTGAGTGAAAAAAAAGAAAAAATTCATCTTTTTTAGAGAAGTATAC
15754947 CAATTGTCACCATCAAACTTATCACCTAACTGAAAGTACCATGTTCAGCTTATTACTTGAATACA
323 CAATTGTCACCATCAAACTTATCACCTAACTGAAAGTACCATGTTCAGCTTATTACTTGAATACA
* * * *
15755012 CAACAAAATATTTGCAAAGCCCTGTCAAATTATACAAAAAAGGCTTTCCTATTTCAAGATATCTT
388 CAACAAAATATTTGCAAAGCCCTATCAAATCATACAAAAAAAGCTTTCCTATTTCAAGAGATCTT
*
15755077 TCCATGCCAATATGGGTTATTCGAAAACAAATAGAGAATAGTTATTACTTTAAAAAAAACAACAT
453 TCCATGCCAATATGGGTTATTCAAAAACAAATAGAGAATAGTTATTACTTT-AAAAAAACAACAT
* * * *
15755142 ATATTGAAAAGGAAGGTAATGGAGAGGATCCCGAAGTCAAACTACTTACTAAAACCCTTAGTTGG
517 ATATTGAAAAGGAAAGTAAGGGAGAGGATCCCAAAGTCAAACTACTTACTAAAACCCATAGTTGG
*
15755207 AAATGTATAAATCTAATTTAATAAAACATCTCATTATTCCAAAC
582 AAATATATAAATCTAATTTAATAAAACATCTCATTATTCCAAAC
* * * *
15755251 TACTTACTAAAACCTTTATTCTGAAATGTATAAACTTATTTTAATAAATCATCTCATTATTTTAA
1 TACTTACTAAAACCTTTATTCTGAAATGTATAAACTTAATTTAATAAAACATCTCATTGTTTCAA
* * *
15755316 ACTACTTACTAAAACATTTATCCTGAAATGTATAAACTTAATTTAATAAAACATCTCAGTGTTTA
66 ACTACTTACTAAAACATTTATTCTGAAATGTATAAACTTAATTTAATAAAACATCTCATTGTTTC
*
15755381 AAACTACTTACTAAAATCTTTATTCAGAAATGTATAAATTTAATTTAATAACACATCTCATTGTT
131 AAACTACTTACTAAAA-CTTTATTCAAAAATGTATAAATTTAATTTAATAACACATCTCATTGTT
*
15755446 TTTGTTTCTGTG-TATGC-CTATTTAGTATTGACAGCAAATCTCTTTTCACATTGCACTCAATTT
195 TTTGTTTCTGTGATATGCTC-ATTTAGTATTGACAGCAAATCTCTTTCCACATTGCACTCAATTT
* *
15755509 TCCTATTTCAAGCGCTGGTTGAGTGAAAAAAAAAGAAAAAAGAAAATTAGCATCTTTTTTAGAGG
259 TCATATTTCAAGCGCTGGTTGAGTG-AAAAAAAAG----AA-AAAATT--CATCTTTTTTAGAGA
* * * **
15755574 GGTATACCAATTGTCACCATCAAACTTATCACCTAAACTTAAGGTACCATGTTTGGCTTATATAT
316 AGTATACCAATTGTCACCATCAAACTTATCACCT-AACTGAAAGTACCATGTTCAGC---T-TAT
* *
15755639 TACTTGGATACACAAAATAAAATATTTGCAAAGTCCC-ATCAAATCATACAAAAAAAAAAAGCTT
376 TACTTGAATACAC--AACAAAATATTTGCAAAG-CCCTATCAAATCATAC----AAAAAAAGCTT
*
15755703 TCCTATTTCAAGAGATCTTTCCATGCCAATATGGGTTATTCAAAAACAAATAGAGAATA-TTTTT
434 TCCTATTTCAAGAGATCTTTCCATGCCAATATGGGTTATTCAAAAACAAATAGAGAATAGTTATT
*
15755767 ACTTT-AAAAAA-AACATATATTGAAAAGGAAAGTAAGGGAGAGGATCTCAAAGTCAAACTACTT
499 ACTTTAAAAAAACAACATATATTGAAAAGGAAAGTAAGGGAGAGGATCCCAAAGTCAAACTACTT
* * * * *
15755830 ACTAAAACCCATATTTGGAAATATATAAATTTAATTTAATAAAATATCTCATTGTTTCAAAC
564 ACTAAAACCCATAGTTGGAAATATATAAATCTAATTTAATAAAACATCTCATTATTCCAAAC
* * * *
15755892 TATTTAGTAAAACCTTTATTCTAAAATGTATAAACTTAATTTAATAAAACATGTCATTGTTTCAA
1 TACTTACTAAAACCTTTATTCTGAAATGTATAAACTTAATTTAATAAAACATCTCATTGTTTCAA
*
15755957 ACTACTTACTAAAACTTTTATTCTGAAATGTATAAACTTAATTTAATAAAACATCTCATTGTTTC
66 ACTACTTACTAAAACATTTATTCTGAAATGTATAAACTTAATTTAATAAAACATCTCATTGTTTC
* * * * *
15756022 AAACTACTTACTAAAACCCTTATTCATAATTGTATAAATTCAATTTAATAAAACATCTCATTGTT
131 AAACTACTTACTAAAA-CTTTATTCAAAAATGTATAAATTTAATTTAATAACACATCTCATTGTT
15756087 T
195 T
15756088 CAAACTACTT
Statistics
Matches: 748, Mismatches: 67, Indels: 32
0.88 0.08 0.04
Matches are distributed among these distances:
625 1 0.00
626 71 0.09
627 6 0.01
628 49 0.07
629 140 0.19
630 1 0.00
631 2 0.00
632 6 0.01
634 45 0.06
635 18 0.02
638 1 0.00
639 15 0.02
641 308 0.41
642 9 0.01
644 9 0.01
645 67 0.09
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.36
Consensus pattern (625 bp):
TACTTACTAAAACCTTTATTCTGAAATGTATAAACTTAATTTAATAAAACATCTCATTGTTTCAA
ACTACTTACTAAAACATTTATTCTGAAATGTATAAACTTAATTTAATAAAACATCTCATTGTTTC
AAACTACTTACTAAAACTTTATTCAAAAATGTATAAATTTAATTTAATAACACATCTCATTGTTT
TTGTTTCTGTGATATGCTCATTTAGTATTGACAGCAAATCTCTTTCCACATTGCACTCAATTTTC
ATATTTCAAGCGCTGGTTGAGTGAAAAAAAAGAAAAAATTCATCTTTTTTAGAGAAGTATACCAA
TTGTCACCATCAAACTTATCACCTAACTGAAAGTACCATGTTCAGCTTATTACTTGAATACACAA
CAAAATATTTGCAAAGCCCTATCAAATCATACAAAAAAAGCTTTCCTATTTCAAGAGATCTTTCC
ATGCCAATATGGGTTATTCAAAAACAAATAGAGAATAGTTATTACTTTAAAAAAACAACATATAT
TGAAAAGGAAAGTAAGGGAGAGGATCCCAAAGTCAAACTACTTACTAAAACCCATAGTTGGAAAT
ATATAAATCTAATTTAATAAAACATCTCATTATTCCAAAC
Found at i:15755903 original size:67 final size:66
Alignment explanation
Indices: 15755819--15756162 Score: 467
Period size: 67 Copynumber: 5.1 Consensus size: 66
15755809 GATCTCAAAG
** * * *
15755819 TCAAACTACTTACTAAAACCCATATTTGGAAATATATAAATTTAATTTAATAAAATATCTCATTG
1 TCAAACTACTTACTAAAACCTTTATTT-GAAATGTATAAACTTAATTTAATAAAACATCTCATTG
15755884 TT
65 TT
* * * *
15755886 TCAAACTATTTAGTAAAACCTTTATTCTAAAATGTATAAACTTAATTTAATAAAACATGTCATTG
1 TCAAACTACTTACTAAAACCTTTATT-TGAAATGTATAAACTTAATTTAATAAAACATCTCATTG
15755951 TT
65 TT
*
15755953 TCAAACTACTTACTAAAACTTTTATTCTGAAATGTATAAACTTAATTTAATAAAACATCTCATTG
1 TCAAACTACTTACTAAAACCTTTATT-TGAAATGTATAAACTTAATTTAATAAAACATCTCATTG
15756018 TT
65 TT
* *
15756020 TCAAACTACTTACTAAAACCCTTATTCAT-AATTGTATAAA-TTCAATTTAATAAAACATCTCAT
1 TCAAACTACTTACTAAAACCTTTATT--TGAAATGTATAAACTT-AATTTAATAAAACATCTCAT
15756083 TGTT
63 TGTT
* * *
15756087 TCAAACTACTTACTAAAACCTTTATTCCGAAATGTATAAACTTAATTTAAAAAAAACATATCATT
1 TCAAACTACTTACTAAAACCTTTATT-TGAAATGTATAAACTTAATTT-AATAAAACATCTCATT
15756152 GTT
64 GTT
15756155 TCAAACTA
1 TCAAACTA
15756163 TTGATGTGGA
Statistics
Matches: 247, Mismatches: 24, Indels: 11
0.88 0.09 0.04
Matches are distributed among these distances:
66 2 0.01
67 216 0.87
68 29 0.12
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.38
Consensus pattern (66 bp):
TCAAACTACTTACTAAAACCTTTATTTGAAATGTATAAACTTAATTTAATAAAACATCTCATTGT
T
Found at i:15756356 original size:12 final size:12
Alignment explanation
Indices: 15756339--15756369 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
15756329 TAAAATTTAA
15756339 GTTAGGAATTCT
1 GTTAGGAATTCT
15756351 GTTAGGAATTCT
1 GTTAGGAATTCT
*
15756363 ATTAGGA
1 GTTAGGA
15756370 CTCTTTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.39
Consensus pattern (12 bp):
GTTAGGAATTCT
Found at i:15761338 original size:67 final size:67
Alignment explanation
Indices: 15761230--15761362 Score: 248
Period size: 67 Copynumber: 2.0 Consensus size: 67
15761220 GGTGTATAAC
*
15761230 AACTACTTACTAAAACCTTTATTCCAAAATGTATAAACTTAATTTAATAAAACATCTCATTGTTT
1 AACTACTTACTAAAACATTTATTCCAAAATGTATAAACTTAATTTAATAAAACATCTCATTGTTT
15761295 TA
66 TA
*
15761297 AACTACTTACTAAAACATTTATTCGAAAATGTATAAACTTAATTTAATAAAACATCTCATTGTTT
1 AACTACTTACTAAAACATTTATTCCAAAATGTATAAACTTAATTTAATAAAACATCTCATTGTTT
15761362 T
66 T
15761363 TTTTTTTTGG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.39
Consensus pattern (67 bp):
AACTACTTACTAAAACATTTATTCCAAAATGTATAAACTTAATTTAATAAAACATCTCATTGTTT
TA
Found at i:15761447 original size:21 final size:21
Alignment explanation
Indices: 15761421--15761463 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
15761411 CACATTGCAC
15761421 TCAATTTCTCTGTTTCAGACA
1 TCAATTTCTCTGTTTCAGACA
*
15761442 TCAATTTCTTTGTTTCAGACA
1 TCAATTTCTCTGTTTCAGACA
15761463 T
1 T
15761464 TGGTTGGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.47
Consensus pattern (21 bp):
TCAATTTCTCTGTTTCAGACA
Found at i:15761630 original size:3 final size:3
Alignment explanation
Indices: 15761622--15761646 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15761612 CTGTCAAATT
15761622 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
15761647 ACCTTTCCTA
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:15780697 original size:17 final size:17
Alignment explanation
Indices: 15780675--15780710 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
15780665 AAGATCCATG
15780675 ATGTGTTCCACGTATCT
1 ATGTGTTCCACGTATCT
15780692 ATGTGTTCCACGTATCT
1 ATGTGTTCCACGTATCT
15780709 AT
1 AT
15780711 ATCACGTCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (17 bp):
ATGTGTTCCACGTATCT
Found at i:15781812 original size:30 final size:30
Alignment explanation
Indices: 15781776--15781835 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
15781766 TTCCCGAGAC
15781776 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
15781806 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
15781836 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:15786604 original size:31 final size:32
Alignment explanation
Indices: 15786561--15786635 Score: 109
Period size: 31 Copynumber: 2.4 Consensus size: 32
15786551 AAATTACATC
* *
15786561 AAAAATCACTCAATTTTGATCTTAATGACAAA
1 AAAAATCACTCAAATTTGATCTCAATGACAAA
15786593 AAAAATC-CTCAAATTTGATCTCAATGAC-AA
1 AAAAATCACTCAAATTTGATCTCAATGACAAA
*
15786623 AACAATCACTCAA
1 AAAAATCACTCAA
15786636 CTTTCAATTC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 8 0.21
31 24 0.62
32 7 0.18
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.27
Consensus pattern (32 bp):
AAAAATCACTCAAATTTGATCTCAATGACAAA
Found at i:15787687 original size:30 final size:32
Alignment explanation
Indices: 15787618--15787689 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
15787608 AAAATGTTAA
*
15787618 TGAGTGACTGATTTGTAATTTTTCGATAACGT
1 TGAGTGACTAATTTGTAATTTTTCGATAACGT
* *
15787650 T-AGTGACTAATTTGTTATTTTTTGA-AA-GT
1 TGAGTGACTAATTTGTAATTTTTCGATAACGT
15787679 TGAGTGACTAA
1 TGAGTGACTAA
15787690 ATTGCAACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 3 0.08
30 11 0.31
31 21 0.58
32 1 0.03
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (32 bp):
TGAGTGACTAATTTGTAATTTTTCGATAACGT
Found at i:15791805 original size:21 final size:21
Alignment explanation
Indices: 15791779--15791859 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 21
15791769 AACGGAAGCA
* *
15791779 CATAAGTGCTAAACAGAAACC
1 CATAAGGGTTAAACAGAAACC
* * *
15791800 CATAAGGGTTGAACGGAAACT
1 CATAAGGGTTAAACAGAAACC
* * *
15791821 CATAAGTGTTGAACGGAAACC
1 CATAAGGGTTAAACAGAAACC
15791842 CATAAGGGTTAAACAGAA
1 CATAAGGGTTAAACAGAA
15791860 CCTCAAAAGA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.17
Consensus pattern (21 bp):
CATAAGGGTTAAACAGAAACC
Found at i:15791814 original size:42 final size:42
Alignment explanation
Indices: 15791767--15791851 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
15791757 GCTCGAAGGC
*
15791767 TGAACGGAAGCACATAAGTGCTAAACAGAAACCCATAAGGGT
1 TGAACGGAAACACATAAGTGCTAAACAGAAACCCATAAGGGT
* * * *
15791809 TGAACGGAAACTCATAAGTGTTGAACGGAAACCCATAAGGGT
1 TGAACGGAAACACATAAGTGCTAAACAGAAACCCATAAGGGT
15791851 T
1 T
15791852 AAACAGAACC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.18
Consensus pattern (42 bp):
TGAACGGAAACACATAAGTGCTAAACAGAAACCCATAAGGGT
Found at i:15791876 original size:42 final size:42
Alignment explanation
Indices: 15791794--15791898 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 42
15791784 GTGCTAAACA
* * * * *
15791794 GAAACCCATAAGGGTTGAACGGAAACTCATAAGTGTTGAACG
1 GAAACCCATAAGGGTTAAACAGAAACTCAAAAGAGCTGAACG
*
15791836 GAAACCCATAAGGGTTAAACAGAACCTCAAAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACAGAAACTCAAAAGAGCTGAACG
* * *
15791878 GAAACTCATATGAGTTAAACA
1 GAAACCCATAAGGGTTAAACA
15791899 AAAGCTCGTG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACAGAAACTCAAAAGAGCTGAACG
Found at i:15791876 original size:63 final size:63
Alignment explanation
Indices: 15791767--15791887 Score: 163
Period size: 63 Copynumber: 1.9 Consensus size: 63
15791757 GCTCGAAGGC
* * * * *
15791767 TGAACGGAAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTGAACGGAAACTCATAAGTGT
1 TGAACGGAAACACATAAGGGCTAAACAGAAACCCAAAAGAGCTGAACGGAAACTCATAAGTGT
* *
15791830 TGAACGGAAACCCATAAGGGTTAAACAG-AACCTCAAAAGAGCTGAACGGAAACTCATA
1 TGAACGGAAACACATAAGGGCTAAACAGAAACC-CAAAAGAGCTGAACGGAAACTCATA
15791888 TGAGTTAAAC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
62 4 0.08
63 46 0.92
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (63 bp):
TGAACGGAAACACATAAGGGCTAAACAGAAACCCAAAAGAGCTGAACGGAAACTCATAAGTGT
Found at i:15797351 original size:24 final size:24
Alignment explanation
Indices: 15797294--15797345 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
15797284 GTGGCTGGCT
* *
15797294 GCTGCTGCTGAGGCTGGGATTGTG
1 GCTGCTGCTGAGGCTGAGACTGTG
15797318 GCTGCTGCTGAGGCTGAGACTGTG
1 GCTGCTGCTGAGGCTGAGACTGTG
15797342 GCTG
1 GCTG
15797346 TGGCTGCTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.10, C:0.19, G:0.44, T:0.27
Consensus pattern (24 bp):
GCTGCTGCTGAGGCTGAGACTGTG
Found at i:15800501 original size:29 final size:29
Alignment explanation
Indices: 15800444--15800503 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
15800434 ATAAAATATG
* * *
15800444 GAACTCGTCGAAGGAAGCTCCTAAACTTA
1 GAACTCGTCAAAGGAAGCACCGAAACTTA
* *
15800473 GAACTCGTCAAAGGGAGCACCGAATCTTA
1 GAACTCGTCAAAGGAAGCACCGAAACTTA
15800502 GA
1 GA
15800504 CTTGAAAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (29 bp):
GAACTCGTCAAAGGAAGCACCGAAACTTA
Found at i:15806813 original size:80 final size:80
Alignment explanation
Indices: 15806678--15806836 Score: 300
Period size: 80 Copynumber: 2.0 Consensus size: 80
15806668 CAACACAGTT
15806678 GATTTTCAGAAACACAATACACCAAGACTCCAGTCCTAACCACCACAATACCTAGGTAGGCAAAA
1 GATTTTCAGAAACACAATACACCAAGACTCCAGTCCTAACCACCACAATACCTAGGTAGGCAAAA
*
15806743 CTTCCATAGTTCTCA
66 CTTCCACAGTTCTCA
*
15806758 GATTTTCAGAAACACAATACACCAAGACTCCAGTCCTAACCACCACAATATCTAGGTAGGCAAAA
1 GATTTTCAGAAACACAATACACCAAGACTCCAGTCCTAACCACCACAATACCTAGGTAGGCAAAA
15806823 CTTCCACAGTTCTC
66 CTTCCACAGTTCTC
15806837 CCATTGATAT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.37, C:0.30, G:0.11, T:0.21
Consensus pattern (80 bp):
GATTTTCAGAAACACAATACACCAAGACTCCAGTCCTAACCACCACAATACCTAGGTAGGCAAAA
CTTCCACAGTTCTCA
Found at i:15806934 original size:195 final size:197
Alignment explanation
Indices: 15806594--15806950 Score: 549
Period size: 195 Copynumber: 1.8 Consensus size: 197
15806584 ACTTCCAGCA
* * * * * *
15806594 CTAACCACCACAATACCAAAGTAGGGAAAATTTCGACTGTTCTTCCATTGAATATTTTAATGTGT
1 CTAACCACCACAATACCAAAGTAGGCAAAACTTCCACAGTTCTCCCATTGAATATCTTAATGTGT
* *
15806659 CCCAACTCCCAACACAGTTGATTTTCAGAAACACAATACACCAAGACTCCAGTCCTAACCACCAC
66 CCCAACT--CAACACAATTGATTTTCAGAAACACAATACACCAAGACTCCAGTCCTAACAACCAC
15806724 AATACCTAGGTAGGCAAAACTTCCATAGTTCTCAGATTTTCAGAAACACAATACACCAAGACTCC
129 AATACCTAGGTAGGCAAAACTTCCATAGTTCTCAGATTTTCAGAAACACAATACACCAAGACTCC
15806789 AGTC
194 AGTC
* * *
15806793 CTAACCACCACAATATCTAGGTAGGCAAAACTTCCACAGTTCTCCCATTG-ATATCTTAATGTGT
1 CTAACCACCACAATACCAAAGTAGGCAAAACTTCCACAGTTCTCCCATTGAATATCTTAATGTGT
*
15806857 CCCAACT-AACACAATTGATTTTCCGAAACACAATACACCAAGACTCCAGTCCTAACAACCACAA
66 CCCAACTCAACACAATTGATTTTCAGAAACACAATACACCAAGACTCCAGTCCTAACAACCACAA
*
15806921 TACCTCA-GTAGGCAAAACTTCCATATTTCT
131 TACCT-AGGTAGGCAAAACTTCCATAGTTCT
15806951 TCCATTGAAT
Statistics
Matches: 144, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
195 81 0.56
196 1 0.01
198 20 0.14
199 42 0.29
ACGTcount: A:0.36, C:0.29, G:0.11, T:0.25
Consensus pattern (197 bp):
CTAACCACCACAATACCAAAGTAGGCAAAACTTCCACAGTTCTCCCATTGAATATCTTAATGTGT
CCCAACTCAACACAATTGATTTTCAGAAACACAATACACCAAGACTCCAGTCCTAACAACCACAA
TACCTAGGTAGGCAAAACTTCCATAGTTCTCAGATTTTCAGAAACACAATACACCAAGACTCCAG
TC
Found at i:15807567 original size:21 final size:21
Alignment explanation
Indices: 15807543--15807582 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
15807533 TTCAATTCCA
15807543 CTTCTACTTATTTTCTTAGAG
1 CTTCTACTTATTTTCTTAGAG
15807564 CTTCTACTTATTTTCTTAG
1 CTTCTACTTATTTTCTTAG
15807583 CAGCCAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.07, T:0.55
Consensus pattern (21 bp):
CTTCTACTTATTTTCTTAGAG
Found at i:15807954 original size:22 final size:22
Alignment explanation
Indices: 15807928--15807970 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15807918 GACTCTAATA
* *
15807928 TTTAATTTGATATTTGAATTTT
1 TTTAATTTAATATTTAAATTTT
15807950 TTTAATTTAATATTTAAATTT
1 TTTAATTTAATATTTAAATTT
15807971 AACTTTAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (22 bp):
TTTAATTTAATATTTAAATTTT
Found at i:15807979 original size:19 final size:18
Alignment explanation
Indices: 15807950--15807988 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
15807940 TTTGAATTTT
15807950 TTTAATTTAAT-ATTTAAA
1 TTTAATTTAATGA-TTAAA
15807968 TTTAACTTTAATGATTAAA
1 TTTAA-TTTAATGATTAAA
15807987 TT
1 TT
15807989 AGAATCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 13 0.68
20 1 0.05
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTAATTTAATGATTAAA
Found at i:15808466 original size:17 final size:16
Alignment explanation
Indices: 15808423--15808476 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 16
15808413 AGTTTTAAAG
*
15808423 TTTTT-TTTTAAAATA
1 TTTTTGTTTTAAAAAA
* *
15808438 TGTTTG--TTAAAAAG
1 TTTTTGTTTTAAAAAA
15808452 TTTTATGTTTTAAAAAA
1 TTTT-TGTTTTAAAAAA
15808469 TTTTTGTT
1 TTTTTGTT
15808477 AGAAATATGT
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
14 9 0.30
15 6 0.20
16 4 0.13
17 11 0.37
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
TTTTTGTTTTAAAAAA
Found at i:15808466 original size:31 final size:29
Alignment explanation
Indices: 15808419--15808477 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
15808409 ACAAAGTTTT
*
15808419 AAAGTTTTTTTTTAAAATATGTTTGTTAA
1 AAAGTTTTTTTTTAAAAAATGTTTGTTAA
*
15808448 AAAGTTTTATGTTTTAAAAAATTTTTGTTA
1 AAAGTTTT-T-TTTTAAAAAATGTTTGTTA
15808478 GAAATATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 1 0.04
31 17 0.65
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (29 bp):
AAAGTTTTTTTTTAAAAAATGTTTGTTAA
Found at i:15809778 original size:19 final size:19
Alignment explanation
Indices: 15809717--15809778 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
15809707 TATGCGCCAA
* *
15809717 GATGCACTTTGTACGTCAA
1 GATGCACTTTGTACGTTAG
*
15809736 GATGCACTTCATGT--GCTAG
1 GATGCACTT--TGTACGTTAG
*
15809755 TATGCACTTTGTACGTTAG
1 GATGCACTTTGTACGTTAG
15809774 GATGC
1 GATGC
15809779 GTTTCGAGCA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 3 0.09
19 27 0.82
21 3 0.09
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (19 bp):
GATGCACTTTGTACGTTAG
Found at i:15811435 original size:10 final size:10
Alignment explanation
Indices: 15811422--15811487 Score: 55
Period size: 10 Copynumber: 6.8 Consensus size: 10
15811412 AAATATGTAT
15811422 ATATATATAC
1 ATATATATAC
*
15811432 ATATACATAC
1 ATATATATAC
* *
15811442 ATATACATAT
1 ATATATATAC
* *
15811452 GTATGTATAC
1 ATATATATAC
*
15811462 ATATATGT--
1 ATATATATAC
*
15811470 ATATGTATAC
1 ATATATATAC
15811480 ATATATAT
1 ATATATAT
15811488 GTCTAAATAA
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
8 6 0.14
10 36 0.86
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (10 bp):
ATATATATAC
Found at i:15812142 original size:3 final size:3
Alignment explanation
Indices: 15812109--15812183 Score: 50
Period size: 3 Copynumber: 25.7 Consensus size: 3
15812099 AAATTATATA
* * * **
15812109 TAT TA- TAT TA- TAT AAT TGAT TAT TAT AAT TAT TAAT TGT TAT GGT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT TAT TAT
*
15812154 T-T TA- TAT TAT TAT TAT TAT TAC TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
15812184 AATAAATTAA
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
2 8 0.15
3 41 0.75
4 6 0.11
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:15812469 original size:33 final size:33
Alignment explanation
Indices: 15812432--15812501 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
15812422 TATTTATACA
* *
15812432 ATTATAATATT-TTATTTAAATT-AGAATATATTT
1 ATTAT-ATATTATTATTAAAATTAAG-AGATATTT
*
15812465 ATTATTTATTATTATTAAAATTAAGAGATATTT
1 ATTATATATTATTATTAAAATTAAGAGATATTT
15812498 ATTA
1 ATTA
15812502 ATTAAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 4 0.12
33 26 0.81
34 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (33 bp):
ATTATATATTATTATTAAAATTAAGAGATATTT
Found at i:15812523 original size:33 final size:33
Alignment explanation
Indices: 15812459--15812523 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
15812449 AAATTAGAAT
* *
15812459 ATATTTATTATTTATTATTATTAAAATTAAGAG
1 ATATTTATTATTAATAATTATTAAAATTAAGAG
15812492 ATATTTATTAATTAAATAATTA-TAAAA-TAAGA
1 ATATTTATT-ATT-AATAATTATTAAAATTAAGA
15812524 TTTTTATGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 14 0.50
34 8 0.29
35 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (33 bp):
ATATTTATTATTAATAATTATTAAAATTAAGAG
Found at i:15812675 original size:6 final size:5
Alignment explanation
Indices: 15812646--15812710 Score: 53
Period size: 5 Copynumber: 12.4 Consensus size: 5
15812636 TTTATTAATT
*
15812646 AAATA TAATA TAAATA AAATA AAATA AAA-A GAAATA AAGCATA AAAT-
1 AAATA AAATA -AAATA AAATA AAATA AAATA -AAATA AA--ATA AAATA
*
15812693 AAATA GAAACA AAATA AA
1 AAATA -AAATA AAATA AA
15812711 CAGAAAAGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
4 5 0.10
5 30 0.61
6 9 0.18
7 5 0.10
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:15812692 original size:22 final size:20
Alignment explanation
Indices: 15812657--15812710 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 20
15812647 AATATAATAT
15812657 AAATAAAATAAAATAAAAAG
1 AAATAAAATAAAATAAAAAG
*
15812677 AAATAAAGCATAAAATAAATAG
1 AAATAAA--ATAAAATAAAAAG
*
15812699 AAACAAAATAAA
1 AAATAAAATAAA
15812711 CAGAAAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 12 0.40
22 18 0.60
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.15
Consensus pattern (20 bp):
AAATAAAATAAAATAAAAAG
Found at i:15813787 original size:6 final size:6
Alignment explanation
Indices: 15813776--15813804 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
15813766 TGCCGACTAT
15813776 TGTTAC TGTTAC TGTTAC -GTTAC TGTTAC
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC
15813805 CGATTCGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (6 bp):
TGTTAC
Found at i:15813799 original size:11 final size:12
Alignment explanation
Indices: 15813776--15813804 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
15813766 TGCCGACTAT
15813776 TGTTACTGTTAC
1 TGTTACTGTTAC
15813788 TGTTAC-GTTAC
1 TGTTACTGTTAC
15813799 TGTTAC
1 TGTTAC
15813805 CGATTCGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (12 bp):
TGTTACTGTTAC
Found at i:15813849 original size:45 final size:45
Alignment explanation
Indices: 15813796--15813896 Score: 132
Period size: 45 Copynumber: 2.2 Consensus size: 45
15813786 ACTGTTACGT
*
15813796 TACTGTTACCGATTC-GACACTTTGTGTGTCGAATACTGTTACCAC
1 TACTGTTACAGATTCAG-CACTTTGTGTGTCGAATACTGTTACCAC
* * ***
15813841 TACTGTTACAGATTCAGCATTTTGTGTGTTGAATACTGTTACTGT
1 TACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGTTACCAC
15813886 TACTGTTACAG
1 TACTGTTACAG
15813897 CTACAGCTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
45 48 0.98
46 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (45 bp):
TACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGTTACCAC
Found at i:15820238 original size:17 final size:17
Alignment explanation
Indices: 15820216--15820254 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
15820206 TCTTGATCGT
15820216 GGTGCAT-GCAAGGCAAG
1 GGTGCATGGCAA-GCAAG
*
15820233 GGTGCATGGCTAGCAAG
1 GGTGCATGGCAAGCAAG
15820250 GGTGC
1 GGTGC
15820255 GCACGGGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.18, G:0.44, T:0.15
Consensus pattern (17 bp):
GGTGCATGGCAAGCAAG
Found at i:15830312 original size:2 final size:2
Alignment explanation
Indices: 15830305--15830330 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15830295 TTAAATTGAA
15830305 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
15830331 GTTATGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15830514 original size:25 final size:25
Alignment explanation
Indices: 15830486--15830533 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
15830476 CAGATACTCC
15830486 ATAGCCTGTAAGAGCATACCGATTT
1 ATAGCCTGTAAGAGCATACCGATTT
* *
15830511 ATAGCTTGTGAGAGCATACCGAT
1 ATAGCCTGTAAGAGCATACCGAT
15830534 CCATATCTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (25 bp):
ATAGCCTGTAAGAGCATACCGATTT
Found at i:15830568 original size:25 final size:25
Alignment explanation
Indices: 15830522--15830579 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
15830512 TAGCTTGTGA
* * *
15830522 GAGCATACCGATCCATATCTCGAGT
1 GAGCATACCGATCCACAACTCGACT
* *
15830547 GAGCATACCGATTCACAACTCGTCT
1 GAGCATACCGATCCACAACTCGACT
15830572 GAGCATAC
1 GAGCATAC
15830580 ATGTACATGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (25 bp):
GAGCATACCGATCCACAACTCGACT
Found at i:15830791 original size:30 final size:31
Alignment explanation
Indices: 15830733--15830791 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
15830723 TACACATGAA
*
15830733 ATATATGGAAATGATGTTACATGATATATAG
1 ATATATGGAAATGATGATACATGATATATAG
15830764 ATATAT-GAAATGGATGATACATG-TATAT
1 ATATATGGAAAT-GATGATACATGATATAT
15830792 GGAACTTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.36
Consensus pattern (31 bp):
ATATATGGAAATGATGATACATGATATATAG
Found at i:15840009 original size:18 final size:18
Alignment explanation
Indices: 15839969--15840011 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
15839959 TATGTTGTAA
15839969 GCGAACCCATGTTATTAT
1 GCGAACCCATGTTATTAT
* * *
15839987 ACGAACCCATGTTTTTGT
1 GCGAACCCATGTTATTAT
15840005 GCGAACC
1 GCGAACC
15840012 TTAATATTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (18 bp):
GCGAACCCATGTTATTAT
Found at i:15841727 original size:31 final size:31
Alignment explanation
Indices: 15841692--15841796 Score: 108
Period size: 31 Copynumber: 3.4 Consensus size: 31
15841682 AATATTAAAT
15841692 TTAATTTAATATTTATCTTGATAGTATTTTA
1 TTAATTTAATATTTATCTTGATAGTATTTTA
* * * * **
15841723 TTAATTTAATACTAAT-GTGAGA-TATTAAA
1 TTAATTTAATATTTATCTTGATAGTATTTTA
*
15841752 TTTGATTTAATATTTATCTTGAT-GATATTTTA
1 -TTAATTTAATATTTATCTTGATAG-TATTTTA
15841784 TTAATTTAATATT
1 TTAATTTAATATT
15841797 AATATAAGTA
Statistics
Matches: 56, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
29 5 0.09
30 17 0.30
31 29 0.52
32 5 0.09
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (31 bp):
TTAATTTAATATTTATCTTGATAGTATTTTA
Found at i:15841760 original size:61 final size:61
Alignment explanation
Indices: 15841683--15841799 Score: 200
Period size: 61 Copynumber: 1.9 Consensus size: 61
15841673 GATAATTTTA
15841683 ATATTAAATTTAATTTAATATTTATCTTGAT-AGTATTTTATTAATTTAATACTAATGTGAG
1 ATATTAAATTTAATTTAATATTTATCTTGATGA-TATTTTATTAATTTAATACTAATGTGAG
* *
15841744 ATATTAAATTTGATTTAATATTTATCTTGATGATATTTTATTAATTTAATATTAAT
1 ATATTAAATTTAATTTAATATTTATCTTGATGATATTTTATTAATTTAATACTAAT
15841800 ATAAGTAATT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
61 52 0.98
62 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (61 bp):
ATATTAAATTTAATTTAATATTTATCTTGATGATATTTTATTAATTTAATACTAATGTGAG
Found at i:15846074 original size:26 final size:26
Alignment explanation
Indices: 15846027--15846076 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
15846017 AAGGTATTCC
* *
15846027 ATTTCCAATTCATTATATACAATTGA
1 ATTTACAATTCAATATATACAATTGA
15846053 ATTTACAATTCAATA-ATCACAATT
1 ATTTACAATTCAATATAT-ACAATT
15846077 AAATCGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.40
Consensus pattern (26 bp):
ATTTACAATTCAATATATACAATTGA
Found at i:15848160 original size:28 final size:29
Alignment explanation
Indices: 15848125--15848182 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
15848115 TGTTATGCCA
15848125 TGATATGTATAAACCTATTT-ATTCCATT
1 TGATATGTATAAACCTATTTGATTCCATT
*
15848153 TGATATGTATGAACCTATTTGATTCCATT
1 TGATATGTATAAACCTATTTGATTCCATT
15848182 T
1 T
15848183 TTTCAACTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (29 bp):
TGATATGTATAAACCTATTTGATTCCATT
Found at i:15854573 original size:27 final size:27
Alignment explanation
Indices: 15854543--15854720 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
15854533 ATATTGAGTC
* * * *
15854543 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
15854570 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
15854597 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
15854625 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
15854652 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
15854679 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
15854706 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15854721 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:15854682 original size:82 final size:81
Alignment explanation
Indices: 15854564--15854719 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
15854554 TGCTATATAA
* *
15854564 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
15854629 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
15854646 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
15854710 CACTTAGTGC
65 CACTTAGTGC
15854720 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:15868083 original size:42 final size:42
Alignment explanation
Indices: 15867972--15868083 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 42
15867962 TACTATACCA
** *
15867972 ATGCCATATCCCAGATATGGTCTTACATGGGATCTTAATTCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCAATTCG
* * *
15868014 ATACCAATAGCCCAGCTATGGTCTTACATGAAATCTC-ATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAATCTCAAT-TCG
15868057 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
15868084 CGTAGACTCA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 26 0.44
43 33 0.56
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCAATTCG
Found at i:15872543 original size:14 final size:14
Alignment explanation
Indices: 15872524--15872553 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15872514 TATCTGATAA
15872524 ATATGCGTGAATCT
1 ATATGCGTGAATCT
*
15872538 ATATGCGTTAATCT
1 ATATGCGTGAATCT
15872552 AT
1 AT
15872554 CTTGAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (14 bp):
ATATGCGTGAATCT
Found at i:15880418 original size:14 final size:14
Alignment explanation
Indices: 15880399--15880428 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15880389 TATCTTATAA
15880399 ATATGCGTGAATCT
1 ATATGCGTGAATCT
*
15880413 ATATGCGTTAATCT
1 ATATGCGTGAATCT
15880427 AT
1 AT
15880429 CTTGAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (14 bp):
ATATGCGTGAATCT
Found at i:15883852 original size:17 final size:17
Alignment explanation
Indices: 15883830--15883862 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15883820 CATTTTTGTT
15883830 CTCTTGATGCC-ATTTCC
1 CTCTTG-TGCCGATTTCC
15883847 CTCTTGTGCCGATTTC
1 CTCTTGTGCCGATTTC
15883863 TTTTGGTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.09, C:0.33, G:0.15, T:0.42
Consensus pattern (17 bp):
CTCTTGTGCCGATTTCC
Found at i:15891619 original size:17 final size:17
Alignment explanation
Indices: 15891597--15891629 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15891587 CATTTTTGTT
15891597 CTCTTGATGCC-ATTTCC
1 CTCTTG-TGCCGATTTCC
15891614 CTCTTGTGCCGATTTC
1 CTCTTGTGCCGATTTC
15891630 TTTTGGTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.09, C:0.33, G:0.15, T:0.42
Consensus pattern (17 bp):
CTCTTGTGCCGATTTCC
Found at i:15898269 original size:24 final size:25
Alignment explanation
Indices: 15898233--15898294 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 25
15898223 AAAACCTAAT
*
15898233 AAAAATAAGCTTAAAGA-AAAATAA
1 AAAAATAAGCTTAAACATAAAATAA
15898257 AAAAAT-AGTCTTAAACATAAAATAA
1 AAAAATAAG-CTTAAACATAAAATAA
15898282 TAAATAA-AAGCTT
1 -AAA-AATAAGCTT
15898295 TTAAACATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
23 2 0.06
24 13 0.41
25 7 0.22
26 6 0.19
27 4 0.12
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (25 bp):
AAAAATAAGCTTAAACATAAAATAA
Found at i:15903071 original size:19 final size:19
Alignment explanation
Indices: 15903034--15903071 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15903024 ACCTGTCAGA
*
15903034 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
15903053 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
15903072 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:15910508 original size:5 final size:5
Alignment explanation
Indices: 15910498--15910577 Score: 60
Period size: 5 Copynumber: 15.8 Consensus size: 5
15910488 AATTTCTCCT
*
15910498 TTTTC TTTTC TTTTC TTTTC TTCTT- TCTTTC -TTTC TATTTC GTTTC
1 TTTTC TTTTC TTTTC TTTTC TT-TTC T-TTTC TTTTC T-TTTC TTTTC
* *
15910544 TTCTC TGTTTC TTTTTC TTGT- TTTTC -TTTC TTTT
1 TTTTC T-TTTC -TTTTC TTTTC TTTTC TTTTC TTTT
15910578 ATTTGTTCTT
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
4 11 0.18
5 34 0.57
6 14 0.23
7 1 0.02
ACGTcount: A:0.01, C:0.20, G:0.04, T:0.75
Consensus pattern (5 bp):
TTTTC
Found at i:15910528 original size:26 final size:26
Alignment explanation
Indices: 15910499--15910576 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
15910489 ATTTCTCCTT
15910499 TTTCTTTTCTTTTCTTTTCTTCTTTC
1 TTTCTTTTCTTTTCTTTTCTTCTTTC
* * *
15910525 TTTC-TTTCTATTTCGTTTCTTCTCTG
1 TTTCTTTTCT-TTTCTTTTCTTCTTTC
*
15910551 TTTCTTTTTCTTGT-TTTTCTTTCTTT
1 TTTC-TTTTCTTTTCTTTTC-TTCTTT
15910577 TATTTGTTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
25 5 0.12
26 25 0.60
27 7 0.17
28 5 0.12
ACGTcount: A:0.01, C:0.21, G:0.04, T:0.74
Consensus pattern (26 bp):
TTTCTTTTCTTTTCTTTTCTTCTTTC
Found at i:15910599 original size:21 final size:19
Alignment explanation
Indices: 15910551--15910602 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 19
15910541 TTCTTCTCTG
*
15910551 TTTCTTTT-TCTTGTTTTTC
1 TTTCTTTTAT-TTGTTTTTA
15910570 TTTCTTTTATTTGTTCTTTA
1 TTTCTTTTATTTGTT-TTTA
15910590 TTTCATTTTATTT
1 TTTC-TTTTATTT
15910603 CTTTCATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 13 0.45
20 8 0.28
21 8 0.28
ACGTcount: A:0.08, C:0.12, G:0.04, T:0.77
Consensus pattern (19 bp):
TTTCTTTTATTTGTTTTTA
Found at i:15910753 original size:3 final size:3
Alignment explanation
Indices: 15910745--15910772 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
15910735 TTGATAAAAT
15910745 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15910773 GTAAATATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:15914025 original size:42 final size:41
Alignment explanation
Indices: 15913912--15914025 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 41
15913902 TACCATACCA
* *
15913912 ATGCCATATCCCAGATATGGTCTTACACCGGATCTCAATTTG
1 ATGCCATATCCCAGATATGGTCTTACA-CGAATCTCAATTCG
* * *
15913954 ATGCCAATAGCCGAGCTATGGTCTTACACGAAATCTC-ATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACG-AATCTCAAT-TCG
15913997 ATGCCATATCCCAGATATGGTCTTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
15914026 TAGACTCAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 30 0.49
43 31 0.51
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAATCTCAATTCG
Found at i:15915863 original size:16 final size:16
Alignment explanation
Indices: 15915842--15915872 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15915832 TATGATATAG
15915842 AAATATGACATGAAAA
1 AAATATGACATGAAAA
*
15915858 AAATATTACATGAAA
1 AAATATGACATGAAA
15915873 TATAAGAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.06, G:0.10, T:0.23
Consensus pattern (16 bp):
AAATATGACATGAAAA
Found at i:15928916 original size:73 final size:74
Alignment explanation
Indices: 15928819--15928960 Score: 261
Period size: 73 Copynumber: 1.9 Consensus size: 74
15928809 GTCTGACTTG
15928819 TTTTTTTTTAAATACAATACATACATATATATTAATAGTAATTCGTCATTTTTGAGCTTAAAGTG
1 TTTTTTTTTAAATACAATACATACATATATATTAATAGTAATTCGTCATTTTTGAGCTTAAAGTG
15928884 TTAAGTTGT
66 TTAAGTTGT
15928893 TTTTTTTTTAAA-A-AATACAATACATATATATTAATAGTAATTCGTCATTTTTGAGCTTAAAGT
1 TTTTTTTTTAAATACAATAC-ATACATATATATTAATAGTAATTCGTCATTTTTGAGCTTAAAGT
15928956 GTTAA
65 GTTAA
15928961 TTCCATATTT
Statistics
Matches: 67, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
72 5 0.07
73 50 0.75
74 12 0.18
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (74 bp):
TTTTTTTTTAAATACAATACATACATATATATTAATAGTAATTCGTCATTTTTGAGCTTAAAGTG
TTAAGTTGT
Found at i:15938501 original size:46 final size:49
Alignment explanation
Indices: 15938450--15938588 Score: 184
Period size: 46 Copynumber: 2.9 Consensus size: 49
15938440 ATGGTTGAGC
15938450 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTAG
* * *
15938497 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTAG
15938541 ACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 --ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
15938589 GCCCGAGCTC
Statistics
Matches: 77, Mismatches: 6, Indels: 14
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.03
43 5 0.06
44 1 0.01
45 2 0.03
46 29 0.38
47 29 0.38
48 2 0.03
50 4 0.05
51 3 0.04
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (49 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTAG
Found at i:15950042 original size:46 final size:44
Alignment explanation
Indices: 15949948--15950167 Score: 174
Period size: 46 Copynumber: 4.8 Consensus size: 44
15949938 GTAAGTTGCT
* * * * *
15949948 GATGCCATATCCCAGACATGGTCTTACACTGACACATTTCATAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATCTCATGGCC
**
15949994 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGGGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-T-CATCTCATGGCC
* * *
15950040 GATGCATGTCCCAGACATGTCTTACATTAGCGCTCGTCTCAAT-GCT
1 GATGCATGTCCCAGACATGTCTTACACT-G-GCTCATCTC-ATGGCC
* * *
15950086 GATGCCATGTCCCAGATATGGTCTTGCACTGGCTC-TCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATC-TCA--TGGCC
* * *
15950134 AATGCATGTCCTAGACATGTCTTACACTAGCTCA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCA
15950168 CACAAATGAC
Statistics
Matches: 140, Mismatches: 22, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
44 12 0.09
45 16 0.11
46 68 0.49
47 29 0.21
48 15 0.11
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCATCTCATGGCC
Found at i:15950117 original size:94 final size:92
Alignment explanation
Indices: 15949994--15950164 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 92
15949984 TTTCATAGCC
* *
15949994 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACAT-CTCGGGGCCGATGCATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAAT-GGGGCCAATGCATGTCCCAGACA
*
15950057 TGTCTTACATTAGCGCTCGTCTCAATGCT
64 TGTCTTACACTAGCGCTCGTCTCAATGCT
* * * *
15950086 GATGCCATGTCCCAGATATGGTCTTGCACTGGCTCTCATAATGTGGCCAATGCATGTCCTAGACA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGGGGCCAATGCATGTCCCAGACA
15950151 TGTCTTACACTAGC
64 TGTCTTACACTAGC
15950165 TCACACAAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 4 0.06
93 13 0.19
94 49 0.72
95 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGGGGCCAATGCATGTCCCAGACATG
TCTTACACTAGCGCTCGTCTCAATGCT
Found at i:15961287 original size:31 final size:31
Alignment explanation
Indices: 15961219--15961280 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
15961209 GTCTAGGTGG
* **
15961219 ATTTTTCCTTAAGTATTGTCTTAAGTCAATC
1 ATTTTCCCTTAAGTATTGTCTTAACCCAATC
*
15961250 GATTTTCCCTTAGGTATTGTCTTAACCCAAT
1 -ATTTTCCCTTAAGTATTGTCTTAACCCAAT
15961281 TCTTTTCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.24, C:0.19, G:0.11, T:0.45
Consensus pattern (31 bp):
ATTTTCCCTTAAGTATTGTCTTAACCCAATC
Found at i:15975426 original size:12 final size:12
Alignment explanation
Indices: 15975394--15975428 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
15975384 TTGGTTGATA
* *
15975394 GAGAGATTAGAG
1 GAGAGATTTGGG
15975406 GAGAGATTTGGG
1 GAGAGATTTGGG
15975418 GAGAGATTTGG
1 GAGAGATTTGG
15975429 AGAGTGGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.46, T:0.23
Consensus pattern (12 bp):
GAGAGATTTGGG
Found at i:15979182 original size:22 final size:22
Alignment explanation
Indices: 15979137--15979182 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
15979127 ACAAGTTATC
*
15979137 TTAATTTAAAACAAATATTTAA
1 TTAATTTAAAACAAATATTCAA
*
15979159 TTAATTTATAAACATATA-TCAA
1 TTAATTTA-AAACAAATATTCAA
15979181 TT
1 TT
15979183 CATAGAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (22 bp):
TTAATTTAAAACAAATATTCAA
Found at i:15983465 original size:28 final size:28
Alignment explanation
Indices: 15983433--15983487 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
15983423 ATTGGTTAAG
15983433 TTGGATGTCTTCAAAATTGTTATAAAAA
1 TTGGATGTCTTCAAAATTGTTATAAAAA
*
15983461 TTGGATGTCTTTAAAATTGTTATAAAA
1 TTGGATGTCTTCAAAATTGTTATAAAA
15983488 GTTGAGTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (28 bp):
TTGGATGTCTTCAAAATTGTTATAAAAA
Found at i:15983931 original size:52 final size:51
Alignment explanation
Indices: 15983821--15983997 Score: 225
Period size: 52 Copynumber: 3.5 Consensus size: 51
15983811 ACTAGTGACT
* * * *
15983821 CAAGTGTGGTACTATATGAAGACCACTTTGAGAAG-GGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
*
15983870 CAAGTGTGGTACTGTGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCA
* * *
15983922 CAATTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTC-A
* *
15983973 CAAGGGTGGTACTATGTGCAGGCCA
1 CAAGTGTGGTACTATGTGAAGGCCA
15983998 TCGGGTATCC
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
49 31 0.28
50 2 0.02
51 39 0.35
52 40 0.36
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
Found at i:15983986 original size:51 final size:51
Alignment explanation
Indices: 15983816--15983997 Score: 203
Period size: 51 Copynumber: 3.6 Consensus size: 51
15983806 TTGTCACTAG
* * *
15983816 TGACT-CAAGTGTGGTACTATATGAAGACCACTTTGAGAAG--GGATAGCTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGG-TAGCTT
* * * *
15983865 GGTC-ACAAGTGTGGTACTGTGTGAAGGCCACTTTGTGAAGAAAGATAGCTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCTT
* *
15983916 TG-GTCACAATTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTT
1 TGACT-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTT
* *
15983967 TGACTACAAGGGTGGTACTATGTGCAGGCCA
1 TGACTACAAGTGTGGTACTATGTGAAGGCCA
15983998 TCGGGTATCC
Statistics
Matches: 110, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
49 33 0.30
51 41 0.37
52 36 0.33
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (51 bp):
TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTT
Found at i:15989867 original size:40 final size:40
Alignment explanation
Indices: 15989823--15989908 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
15989813 AAAGACATCG
*
15989823 AAGTGTTTAAAAGGGCAAATTTGTGCAAATAGGGACACCA
1 AAGTGTTTAAAAGGGCAAAGTTGTGCAAATAGGGACACCA
** *
15989863 AAGTGTTTGTAAGGGCACAGTTGTGCAAATAGGGACACCA
1 AAGTGTTTAAAAGGGCAAAGTTGTGCAAATAGGGACACCA
15989903 AAGTGT
1 AAGTGT
15989909 ATATAGGGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (40 bp):
AAGTGTTTAAAAGGGCAAAGTTGTGCAAATAGGGACACCA
Found at i:15989928 original size:40 final size:40
Alignment explanation
Indices: 15989844--15989930 Score: 120
Period size: 40 Copynumber: 2.2 Consensus size: 40
15989834 AGGGCAAATT
* * *
15989844 TGTGCAAATAGGGACACCAAAGTGTTTGTAAGGGCACAGT
1 TGTGCAAATAGGGACACCAAAGTGTATATAAGGGCACAGA
* * *
15989884 TGTGCAAATAGGGACACCAAAGTGTATATAGGGGTACTGA
1 TGTGCAAATAGGGACACCAAAGTGTATATAAGGGCACAGA
15989924 TGTGCAA
1 TGTGCAA
15989931 TTAAGGCACT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (40 bp):
TGTGCAAATAGGGACACCAAAGTGTATATAAGGGCACAGA
Found at i:15995103 original size:40 final size:40
Alignment explanation
Indices: 15995058--15995405 Score: 687
Period size: 40 Copynumber: 8.7 Consensus size: 40
15995048 GCAAACACAT
*
15995058 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
15995098 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
15995138 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
15995178 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
15995218 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
15995258 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
15995298 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
15995338 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
15995378 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
15995406 TCCAATGCTC
Statistics
Matches: 307, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 307 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:16006515 original size:40 final size:40
Alignment explanation
Indices: 16006466--16006545 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
16006456 TCATAAAAGA
* * *
16006466 AACCGTTACTTACACGAAATGGAATAGCAAACAAATCAAT
1 AACCATTACTTACACAAAATGGAATAGCAAAAAAATCAAT
*
16006506 AACCATTACTTACACAAAATGGAGTAGCAAAAAAATCAAT
1 AACCATTACTTACACAAAATGGAATAGCAAAAAAATCAAT
16006546 CATCAAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.50, C:0.19, G:0.11, T:0.20
Consensus pattern (40 bp):
AACCATTACTTACACAAAATGGAATAGCAAAAAAATCAAT
Found at i:16007868 original size:19 final size:19
Alignment explanation
Indices: 16007844--16007883 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
16007834 ATACCTCACT
16007844 ATAGCTATTAATGAAATAA
1 ATAGCTATTAATGAAATAA
*
16007863 ATAGCTATTATTGAAATAA
1 ATAGCTATTAATGAAATAA
16007882 AT
1 AT
16007884 TCATGTATGT
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:0.05, G:0.10, T:0.35
Consensus pattern (19 bp):
ATAGCTATTAATGAAATAA
Found at i:16013457 original size:8 final size:9
Alignment explanation
Indices: 16013439--16013465 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
16013429 TTGTGTGTTC
16013439 TTTATTTTT
1 TTTATTTTT
16013448 TTTATTTTT
1 TTTATTTTT
16013457 TTTATTTTT
1 TTTATTTTT
16013466 CACAGGAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTATTTTT
Found at i:16016650 original size:40 final size:40
Alignment explanation
Indices: 16016547--16016692 Score: 179
Period size: 40 Copynumber: 3.7 Consensus size: 40
16016537 TGAGGAATTG
* * * *
16016547 TATCCGAGCTTAAAGACCCACAAGCTATATACTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
*
16016587 TATCTGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
* * * *
16016627 TATCCGGGCTTAAAGACCTGCAGGCT-TCGTGCTAGAATGC
1 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATGT
*
16016667 TATCCGGGC-TAGAGACCCGCAGGCTA
1 TATCCGGGCTTAAAGACCCGCAGGCTA
16016693 CGAGCTGGTA
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 15 0.16
40 77 0.84
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
Found at i:16019635 original size:26 final size:26
Alignment explanation
Indices: 16019599--16019648 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
16019589 CAATGGCTAG
16019599 TTTGAACAACTGATTCTATTAACTAA
1 TTTGAACAACTGATTCTATTAACTAA
* *
16019625 TTTGACCAACTGATTTTATTAACT
1 TTTGAACAACTGATTCTATTAACT
16019649 GTTTATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (26 bp):
TTTGAACAACTGATTCTATTAACTAA
Found at i:16026565 original size:42 final size:42
Alignment explanation
Indices: 16026506--16026669 Score: 233
Period size: 42 Copynumber: 3.9 Consensus size: 42
16026496 TTAGGGTTAC
*
16026506 TGAGATTATGTGTAAGACCATATCTGGGATATGGCATCTATA
1 TGAGATTATGTGTAAGACCATATCTGGGATATGGCATCGATA
*
16026548 TGAGATT-TCGTGTAAGACCATATTTGGGATATGGCATCGATA
1 TGAGATTAT-GTGTAAGACCATATCTGGGATATGGCATCGATA
* *
16026590 TGAGACTT-TGTGTAAGACCATAACTGGGCTATTGGCATCGATA
1 TGAGA-TTATGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* *
16026633 CGAGATTATATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTATGTGTAAGACCATATCTGGGATATGGCAT
16026670 TGGTACGGTA
Statistics
Matches: 109, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
41 1 0.01
42 70 0.64
43 38 0.35
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (42 bp):
TGAGATTATGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:16026653 original size:85 final size:84
Alignment explanation
Indices: 16026506--16026669 Score: 233
Period size: 85 Copynumber: 1.9 Consensus size: 84
16026496 TTAGGGTTAC
* * * *
16026506 TGAGATTATGTGTAAGACCATATCTGGGATATGGCATCTATATGAGATTTCGTGTAAGACCATAT
1 TGAGATTATGTGTAAGACCATAACTGGGATATGGCATCGATACGAGATTTCATGTAAGACCATAT
*
16026571 TTGGGATATGGCATCGATA
66 CTGGGATATGGCATCGATA
*
16026590 TGAGACTT-TGTGTAAGACCATAACTGGGCTATTGGCATCGATACGAGATTAT-ATGTAAGACCA
1 TGAGA-TTATGTGTAAGACCATAACTGGGATA-TGGCATCGATACGAGATT-TCATGTAAGACCA
16026653 TATCTGGGATATGGCAT
63 TATCTGGGATATGGCAT
16026670 TGGTACGGTA
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
84 26 0.37
85 44 0.62
86 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (84 bp):
TGAGATTATGTGTAAGACCATAACTGGGATATGGCATCGATACGAGATTTCATGTAAGACCATAT
CTGGGATATGGCATCGATA
Found at i:16027169 original size:15 final size:15
Alignment explanation
Indices: 16027149--16027182 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
16027139 AACAGAGAGT
16027149 TACATGGGTTAGGGA
1 TACATGGGTTAGGGA
16027164 TACATGGGTTAGGGA
1 TACATGGGTTAGGGA
16027179 TACA
1 TACA
16027183 GGCGTGTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.09, G:0.35, T:0.26
Consensus pattern (15 bp):
TACATGGGTTAGGGA
Found at i:16030771 original size:25 final size:25
Alignment explanation
Indices: 16030737--16030786 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
16030727 CGACACAGAA
16030737 AAATTTATTTTTATTACATTTTTAT
1 AAATTTATTTTTATTACATTTTTAT
16030762 AAATTTATTTTTATTACATTTTTAT
1 AAATTTATTTTTATTACATTTTTAT
16030787 GGTCTACTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (25 bp):
AAATTTATTTTTATTACATTTTTAT
Found at i:16035246 original size:42 final size:42
Alignment explanation
Indices: 16035183--16035288 Score: 149
Period size: 42 Copynumber: 2.5 Consensus size: 42
16035173 TTAGGGTTAC
* * ** *
16035183 TGAGATTACGTGTAAGGCCATATCTGGGATATGGCATCTATA
1 TGAGATTTCGTGTAAGACCATATCTGGGATATGAAATCAATA
*
16035225 TGAGATTTCGTGTAAGACCATATTTGGGATATGAAATCAATA
1 TGAGATTTCGTGTAAGACCATATCTGGGATATGAAATCAATA
*
16035267 TGAGACTTCGTGTAAGACCATA
1 TGAGATTTCGTGTAAGACCATA
16035289 GCTGAGCTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (42 bp):
TGAGATTTCGTGTAAGACCATATCTGGGATATGAAATCAATA
Found at i:16044168 original size:40 final size:40
Alignment explanation
Indices: 16044113--16044425 Score: 500
Period size: 40 Copynumber: 7.8 Consensus size: 40
16044103 GAGCATTGGA
16044113 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
16044153 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
16044193 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * * *
16044233 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
16044273 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
16044313 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
16044353 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
16044393 ATATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATG
16044426 TTTGCGGCTG
Statistics
Matches: 261, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 261 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:16048295 original size:41 final size:43
Alignment explanation
Indices: 16048221--16048419 Score: 137
Period size: 45 Copynumber: 4.6 Consensus size: 43
16048211 TTTATCAAAT
* ** *
16048221 CACCGGCATT-TAGCCTGCTAGGTTTTAAACCTGAAT-TCA-TC
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGCCTG-ATCTCATTC
* *
16048262 CACCGGTATT-TCA-CCTGCTAGGCTCGAAGCCTGATCTCATTT
1 CACCGGCATTAT-AGCCTGCTAGGCTCGAAGCCTGATCTCATTC
* *
16048304 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGA-AT-AGTATC
1 CACCGGCATTATAGCCTGCTAGGCTCGAA-GCCTGATCTCA-T-TC
* ** *
16048348 TCACCGGCATTATAGCCTGCTCGGCTTAAAGGCCCGAATACT-A-TC
1 -CACCGGCATTATAGCCTGCTAGGCTCGAA-GCCTG-AT-CTCATTC
16048393 TCACCGGCATTATAGCCTGCTAGGCTC
1 -CACCGGCATTATAGCCTGCTAGGCTC
16048420 AAAGGCCCAA
Statistics
Matches: 130, Mismatches: 16, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
40 2 0.02
41 29 0.22
42 13 0.10
43 18 0.14
44 6 0.05
45 59 0.45
46 1 0.01
48 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (43 bp):
CACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATCTCATTC
Found at i:16048363 original size:45 final size:45
Alignment explanation
Indices: 16048303--16048476 Score: 285
Period size: 45 Copynumber: 3.9 Consensus size: 45
16048293 TGATCTCATT
*
16048303 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * *
16048348 TCACCGGCATTATAGCCTGCTCGGCTTAAAGGCCCGAATACTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
16048393 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
16048438 TCACCAGCATCATAGCCTGCTAGGCTCAAAGGCCCGAAT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAAT
16048477 TGTAACACTC
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 118 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.22
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:16050074 original size:39 final size:39
Alignment explanation
Indices: 16049819--16050052 Score: 373
Period size: 39 Copynumber: 6.0 Consensus size: 39
16049809 AGAAAGCATG
* *
16049819 CGGGACTTTAAGCCCGGATATAATACCAGCATAAA-GCCTG
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACAAATGCCTT
*
16049859 CGGGACTTTAGCCCGGATATAATACCAGCATAAATGCCTT
1 CGGGAC-TTAGCCCGGATATAATACCAGCACAAATGCCTT
*
16049899 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACAAATGCCTT
*
16049938 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACAAATGCCTT
16049977 CGGGACTTAGCCCGGATATAATACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACAAATGCCTT
*
16050016 CGGGACTTAGCCCGGATATAATACCAGCATAAA-GCCT
1 CGGGACTTAGCCCGGATATAATACCAGCACAAATGCCT
16050053 GCGGACCTCA
Statistics
Matches: 188, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
38 4 0.02
39 165 0.88
40 19 0.10
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACAAATGCCTT
Found at i:16051904 original size:3 final size:3
Alignment explanation
Indices: 16051896--16051920 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16051886 CCCAAAGATT
16051896 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
16051921 AGTTACGGTA
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Done.