Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 170 of 345
Found at i:47722916 original size:49 final size:49
Alignment explanation
Indices: 47722859--47723116 Score: 382
Period size: 49 Copynumber: 5.3 Consensus size: 49
47722849 ATGTATGAGA
47722859 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
47722908 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
47722957 TATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
47723006 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA--G
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * *
47723053 TGTATATATGTGATAGGGCCGAGTGGCCAAAGTGAT-AGATGTGGAA--G
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA-ATGTGAAAGTG
*
47723100 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
47723117 TCCCGAAGGG
Statistics
Matches: 196, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.01
47 56 0.29
49 139 0.71
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:47728051 original size:20 final size:19
Alignment explanation
Indices: 47728017--47728071 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
47728007 CATCCATTAG
* *
47728017 ATAATAGTAACTCATCCAT
1 ATAACAGTAATTCATCCAT
* *
47728036 TTAAACAGTACTTCATCCAT
1 AT-AACAGTAATTCATCCAT
47728056 ATAACAGTAATTCATC
1 ATAACAGTAATTCATC
47728072 TGAACACATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (19 bp):
ATAACAGTAATTCATCCAT
Found at i:47728063 original size:19 final size:20
Alignment explanation
Indices: 47728022--47728071 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
47728012 ATTAGATAAT
* *
47728022 AGTAACTCATCCATTTAAAC
1 AGTAATTCATCCATATAAAC
*
47728042 AGTACTTCATCCATAT-AAC
1 AGTAATTCATCCATATAAAC
47728061 AGTAATTCATC
1 AGTAATTCATC
47728072 TGAACACATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (20 bp):
AGTAATTCATCCATATAAAC
Found at i:47729449 original size:18 final size:18
Alignment explanation
Indices: 47729428--47729463 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
47729418 CGCGATTTAG
*
47729428 TCCTTTTTCTCAAACTAA
1 TCCTCTTTCTCAAACTAA
47729446 TCCTCTTTCTCAAACTAA
1 TCCTCTTTCTCAAACTAA
47729464 CCATTTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCTCTTTCTCAAACTAA
Found at i:47732007 original size:28 final size:27
Alignment explanation
Indices: 47731944--47732013 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
47731934 ATAGTGAGTC
47731944 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
47731971 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
47731999 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47732014 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:47734415 original size:124 final size:124
Alignment explanation
Indices: 47734193--47734417 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
47734183 GAATTATGTG
* * ** * * *
47734193 AAATGAAATATGGATGTATATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
47734258 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
* *
47734317 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
47734382 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
47734418 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 86 0.99
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:47734539 original size:40 final size:40
Alignment explanation
Indices: 47734412--47734541 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
47734402 ATGCTGGAAA
* *
47734412 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
47734452 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
47734492 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
47734532 TTATATCCGG
1 TTATATCCGG
47734542 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:47734540 original size:80 final size:80
Alignment explanation
Indices: 47734374--47734541 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
47734364 CAATTGAATG
* * *
47734374 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
47734439 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
47734454 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
47734518 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
47734534 ATATCCGG
1 ATATCCGG
47734542 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:47742603 original size:29 final size:29
Alignment explanation
Indices: 47742560--47742713 Score: 229
Period size: 29 Copynumber: 5.3 Consensus size: 29
47742550 GAAAGCATGT
* *
47742560 ATATGAATGTGATTTGGGCCTAATAGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
47742589 GTATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
47742618 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
47742647 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
47742676 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
47742704 ATATGCATGT
1 ATATGAATGT
47742714 ATGCAGACTT
Statistics
Matches: 115, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 23 0.20
29 92 0.80
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:47748338 original size:17 final size:18
Alignment explanation
Indices: 47748316--47748350 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
47748306 GTTTACCCGT
47748316 GTGGGGCCCACAT-ACCC
1 GTGGGGCCCACATGACCC
47748333 GTGGGGCCCACATGACCC
1 GTGGGGCCCACATGACCC
47748351 ATTTTAGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.17, C:0.40, G:0.31, T:0.11
Consensus pattern (18 bp):
GTGGGGCCCACATGACCC
Found at i:47755747 original size:21 final size:21
Alignment explanation
Indices: 47755723--47755764 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
47755713 TCCCCCACCT
*
47755723 CCCCCGATTCCTCAACCTGTA
1 CCCCCGATGCCTCAACCTGTA
*
47755744 CCCCCGATGCCTCAAGCTGTA
1 CCCCCGATGCCTCAACCTGTA
47755765 GATCTGATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.45, G:0.14, T:0.21
Consensus pattern (21 bp):
CCCCCGATGCCTCAACCTGTA
Found at i:47773681 original size:40 final size:40
Alignment explanation
Indices: 47773636--47773843 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
47773626 CGGAATACAA
*
47773636 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
47773676 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * *
47773716 CCGCATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *** * *
47773756 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAAT-GCCTTCGGGTCTTAGC
** * ** * * *
47773796 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTATC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
47773836 CCGGATAT
1 CCGGATAT
47773844 CATTCAATTG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 3 0.02
40 133 0.96
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:47780174 original size:40 final size:40
Alignment explanation
Indices: 47780100--47780241 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
47780090 CCGCACCAAG
* * * * * *
47780100 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
47780140 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * * *
47780180 GCCTTCGGGTCTTGGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
47780220 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
47780242 GTAATTTTCA
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:47786250 original size:40 final size:39
Alignment explanation
Indices: 47786205--47786412 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
47786195 CGGAATACAA
*
47786205 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
47786245 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
47786285 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
47786325 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
47786365 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
47786405 CCGGATAT
1 CCGGATAT
47786413 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:47786345 original size:80 final size:80
Alignment explanation
Indices: 47786205--47786411 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
47786195 CGGAATACAA
* * *
47786205 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
47786269 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
47786285 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
47786349 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
47786365 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
47786412 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:47793057 original size:21 final size:21
Alignment explanation
Indices: 47793022--47793069 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
47793012 AGTTGATACA
47793022 TTATTT-TTTACTTAATTTAC
1 TTATTTATTTACTTAATTTAC
47793042 TTAGTTTATTTA-TTAATTTAC
1 TTA-TTTATTTACTTAATTTAC
47793063 TTATTTA
1 TTATTTA
47793070 ACCTTGGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.27
21 15 0.58
22 4 0.15
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (21 bp):
TTATTTATTTACTTAATTTAC
Found at i:47797885 original size:47 final size:47
Alignment explanation
Indices: 47797816--47797985 Score: 313
Period size: 47 Copynumber: 3.6 Consensus size: 47
47797806 AACAGCTCGT
47797816 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
47797863 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
47797910 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
47797957 AGTGTATATATGTGGTAAAGCCGAATGGC
1 AGTGTATATATGTGATAAGGCCTAATGGC
47797986 TAATGTGAAA
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 120 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:47797992 original size:47 final size:48
Alignment explanation
Indices: 47797816--47798235 Score: 317
Period size: 48 Copynumber: 8.8 Consensus size: 48
47797806 AACAGCTCGT
* * * **
47797816 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTG-ATGA-ATGTGAA
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAT-ACATGTGAA
* * * **
47797863 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTG-ATGA-ATGTGAA
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAT-ACATGTGAA
* * * **
47797910 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTG-ATGA-ATGTGAA
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAT-ACATGTGAA
**
47797957 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTG
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTG-AATACATGTGAA
* * **
47798006 A-TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTG
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTG-AATACATGTGAA
* * * **
47798054 A-TATGTATATGTGGTAAAGCCGAATGGATAATGTGAAATACATGTGTG
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTG-AATACATGTGAA
* * * * *
47798102 A-TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTG-AATACATGTGAA
* * * * * *
47798150 A-TGTGTATATGTCGTAAAGCCGAATGGCGAATGTGAAATGCGTATGAGAT
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTG-AATAC--ATGTGAA
*
47798200 A-TG-A-ATATGTGGTAAAGCCGAATGGCTAATGAGAAT
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAT
47798236 GTTGTAACCT
Statistics
Matches: 342, Mismatches: 26, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
47 128 0.37
48 199 0.58
49 8 0.02
50 7 0.02
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (48 bp):
AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAATACATGTGAA
Found at i:47798022 original size:48 final size:48
Alignment explanation
Indices: 47797963--47798230 Score: 428
Period size: 48 Copynumber: 5.6 Consensus size: 48
47797953 TGAAAGTGTA
47797963 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
47798011 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
*
47798059 TATATGTGGTAAAGCCGAATGGATAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* * * *
47798107 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATGTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* * * * * *
47798155 TATATGTCGTAAAGCCGAATGGCGAATGTGAAATGCGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
*
47798203 AATATGTGGTAAAGCCGAATGGCTAATG
1 TATATGTGGTAAAGCCGAATGGCTAATG
47798231 AGAATGTTGT
Statistics
Matches: 205, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 205 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
Found at i:47798329 original size:37 final size:37
Alignment explanation
Indices: 47798279--47798364 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 37
47798269 GGAAATATAT
*
47798279 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
47798316 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
47798353 TCCGGGTAAGAC
1 TCCGGGTAAGAC
47798365 TTCGTAATAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:47800326 original size:40 final size:40
Alignment explanation
Indices: 47800260--47800771 Score: 821
Period size: 40 Copynumber: 12.8 Consensus size: 40
47800250 AAGAATTGAG
* * *
47800260 AGTGATATATCCAGG-CTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCC-GGACTAAGTTCCGAAGAGCATTCGTGCT
*
47800300 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTTGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
47800340 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
47800380 AGTGATGTACCCGGATTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
47800420 AGTGATGTATCCGGATTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
47800460 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
47800500 AGTGATGTACCCGGATTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
47800540 AGTGATGTATCCGGATTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
47800580 AGTGATGTATCCAGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
47800620 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTC-TAGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGT-GCT
47800660 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * * *
47800700 AGTAAGGCAACCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
47800740 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
47800772 ATCATGCTGG
Statistics
Matches: 443, Mismatches: 26, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
39 3 0.01
40 439 0.99
41 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:47802929 original size:49 final size:49
Alignment explanation
Indices: 47802860--47803073 Score: 347
Period size: 49 Copynumber: 4.4 Consensus size: 49
47802850 TTTACCACAT
47802860 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
47802909 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
47802958 ATATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * * *
47803007 ATATACATACATTTTCGCATTCATCGCATCGGCCATTAGGCCTCATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
47803056 ATATATATACATTTTCAC
1 ATATATATACACTTTCAC
47803074 GAATCTTGAT
Statistics
Matches: 152, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 152 1.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:47807020 original size:79 final size:80
Alignment explanation
Indices: 47806911--47807133 Score: 360
Period size: 79 Copynumber: 2.8 Consensus size: 80
47806901 CCAGCATGAT
* * * * *
47806911 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
47806976 CATCACTAGCACGAA
66 CATCACTAGCACGAA
* *
47806991 TGCTCCTCGGAACTTAGT-CGGATACATCACTAGCACGAATGCTCCTCAGAACTTAGTCCGGATA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
47807055 CATCACTAGCACGAA
66 CATCACTAGCACGAA
*
47807070 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
47807134 TAACCACAAG
Statistics
Matches: 132, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
79 82 0.62
80 50 0.38
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
CATCACTAGCACGAA
Found at i:47807146 original size:40 final size:40
Alignment explanation
Indices: 47806911--47807133 Score: 369
Period size: 40 Copynumber: 5.6 Consensus size: 40
47806901 CCAGCATGAT
* * * *
47806911 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
47806951 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
47806991 TGCTCCTCGGAACTTAGT-CGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
47807030 TGCTCCTCAGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
47807070 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
47807110 TGCTCTTCGGAACTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
47807134 TAACCACAAG
Statistics
Matches: 174, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 45 0.26
40 129 0.74
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:47807176 original size:40 final size:40
Alignment explanation
Indices: 47807062--47807250 Score: 150
Period size: 40 Copynumber: 4.7 Consensus size: 40
47807052 ATACATCACT
* ** * * * *
47807062 AGCACGAATGCTCTTCGGAACTTAGTCCGGATA-CATCACT
1 AGCACAAATGC-CTTCGGGTCTTAGCCCGGATATAACCACA
* **
47807102 AGCACGAATGCTCTTCGGAACTTAG-CCGGATATAACCACA
1 AGCACAAATGC-CTTCGGGTCTTAGCCCGGATATAACCACA
* * * * *
47807142 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAACAACTC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCAC-A
** *
47807183 A-CACAAATGCCTTCGGGTCTTAGCCCGGATATATTCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCACA
* *
47807222 AGCATAAATGCCTTCGGGACTTAGCCCGG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGG
47807251 GTATCATTCA
Statistics
Matches: 125, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 18 0.14
40 106 0.85
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCACA
Found at i:47807197 original size:119 final size:119
Alignment explanation
Indices: 47806928--47807247 Score: 335
Period size: 119 Copynumber: 2.7 Consensus size: 119
47806918 CGGGACCTAG
* * *
47806928 CCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
1 CCCGGATACAACACTAGCACAAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
* * * * * *
47806993 CTCCTCGGAACTTAGTCGGATACATCACTAGCACGAATGCTCCTCAGAACTTAG
66 CTCTTCGGAACTTAGCCGGATAAACCACAAGCACGAATGCTCCTCAGAACTTAA
* * *
47807047 TCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
1 CCCGGATACAACACTAGCACAAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
* * **
47807112 CTCTTCGGAACTTAGCCGGATATAACCACAAGCAC-AATTGC-CTTCGGGTCTTAA
66 CTCTTCGGAACTTAGCCGGATA-AACCACAAGCACGAA-TGCTCCTCAGAACTTAA
* * ** * * **
47807166 CCCGGGTATAACAACTCA-CACAAATGC-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAA
1 CCCGGATACAAC-ACT-AGCACAAATGCTCTTCGGAACTTAGTCCGGATACA-TCACTAGCACGA
*
47807229 ATGC-CTTCGGGACTTAGCC
63 ATGCTCTTCGGAACTTAGCC
47807248 CGGGTATCAT
Statistics
Matches: 172, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
119 134 0.78
120 37 0.22
121 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (119 bp):
CCCGGATACAACACTAGCACAAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
CTCTTCGGAACTTAGCCGGATAAACCACAAGCACGAATGCTCCTCAGAACTTAA
Found at i:47809299 original size:49 final size:49
Alignment explanation
Indices: 47809230--47809443 Score: 347
Period size: 49 Copynumber: 4.4 Consensus size: 49
47809220 TTTACCACAT
47809230 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
47809279 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
47809328 ATATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * * *
47809377 ATATACATACATTTTCGCATTCATCGCATCGGCCATTAGGCCTCATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
47809426 ATATATATACATTTTCAC
1 ATATATATACACTTTCAC
47809444 GAATCTTGAT
Statistics
Matches: 152, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 152 1.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:47813519 original size:40 final size:40
Alignment explanation
Indices: 47813283--47813506 Score: 360
Period size: 40 Copynumber: 5.6 Consensus size: 40
47813273 CCAGCATGAT
* * * *
47813283 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
47813323 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
47813363 TGCTCCTCGGAACTTAGTCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
47813403 TGCTCCTCAGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
47813443 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
47813483 TGCTCTTCGGAACTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
47813507 TAACCACAAG
Statistics
Matches: 172, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 7 0.04
40 165 0.96
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:47813549 original size:40 final size:40
Alignment explanation
Indices: 47813435--47813623 Score: 150
Period size: 40 Copynumber: 4.7 Consensus size: 40
47813425 ATACATCACT
* ** * * * *
47813435 AGCACGAATGCTCTTCGGAACTTAGTCCGGATA-CATCACT
1 AGCACAAATGC-CTTCGGGTCTTAGCCCGGATATAACCACA
* **
47813475 AGCACGAATGCTCTTCGGAACTTAG-CCGGATATAACCACA
1 AGCACAAATGC-CTTCGGGTCTTAGCCCGGATATAACCACA
* * * * *
47813515 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAACAACTC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCAC-A
** *
47813556 A-CACAAATGCCTTCGGGTCTTAGCCCGGATATATTCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCACA
* *
47813595 AGCATAAATGCCTTCGGGACTTAGCCCGG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGG
47813624 GTATCATTCA
Statistics
Matches: 125, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 18 0.14
40 106 0.85
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCACA
Found at i:47813565 original size:120 final size:119
Alignment explanation
Indices: 47813300--47813620 Score: 328
Period size: 120 Copynumber: 2.7 Consensus size: 119
47813290 CGGGACCTAG
* * *
47813300 CCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCATGAATG
1 CCCGGATACAACACTAGCACAAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCATGAATG
* * * * * *
47813365 CTCCTCGGAACTTAGTCTGGATACATCACTAGCACGAATGCTCCTCAGAACTTAG
66 CTCTTCGGAACTTAG-CCGGATAAACCACAAGCACGAATGCTCCTCAGAACTTAA
* * * *
47813420 TCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATG
1 CCCGGATACAACACTAGCACAAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCATGAATG
* * **
47813485 CTCTTCGGAACTTAGCCGGATATAACCACAAGCAC-AATTGC-CTTCGGGTCTTAA
66 CTCTTCGGAACTTAGCCGGATA-AACCACAAGCACGAA-TGCTCCTCAGAACTTAA
* * ** * * *
47813539 CCCGGGTATAACAACTCA-CACAAATGC-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAA
1 CCCGGATACAAC-ACT-AGCACAAATGCTCTTCGGAACTTAGTCCGGATACA-TCACTAGCATGA
*
47813602 ATGC-CTTCGGGACTTAGCC
63 ATGCTCTTCGGAACTTAGCC
47813621 CGGGTATCAT
Statistics
Matches: 171, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
119 57 0.33
120 113 0.66
121 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (119 bp):
CCCGGATACAACACTAGCACAAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCATGAATG
CTCTTCGGAACTTAGCCGGATAAACCACAAGCACGAATGCTCCTCAGAACTTAA
Found at i:47815672 original size:49 final size:49
Alignment explanation
Indices: 47815603--47815815 Score: 338
Period size: 49 Copynumber: 4.4 Consensus size: 49
47815593 TTTACCACAT
47815603 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
47815652 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
47815701 ATATATATATACTTTCACATTCATCACATCGGCCATTAGGCC-TATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * * *
47815749 ATATACATACATTTTCGCATTCATCGCATCGGCCATTAGGCCTCATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
47815798 ATATATATACATTTTCAC
1 ATATATATACACTTTCAC
47815816 GAATCTTGAT
Statistics
Matches: 150, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
48 43 0.29
49 107 0.71
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:47815797 original size:97 final size:98
Alignment explanation
Indices: 47815598--47815815 Score: 348
Period size: 97 Copynumber: 2.2 Consensus size: 98
47815588 TCGGCTTTAC
47815598 CACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACA
1 CACATATATATAT--ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACA
*
47815663 CTTTCACATTCACCACATCGGCCATTAGGCCTTAT
64 CTTTCACATTCACCACATCGGCCATTAGGCCTCAT
*
47815698 CACATATATATATACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATACATACATT
1 CACATATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACT
* * *
47815762 TTCGCATTCATCGCATCGGCCATTAGGCCTCAT
66 TTCACATTCACCACATCGGCCATTAGGCCTCAT
* *
47815795 CACATATATATACATTTTCAC
1 CACATATATATATACTTTCAC
47815816 GAATCTTGAT
Statistics
Matches: 111, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
97 66 0.59
98 32 0.29
100 13 0.12
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (98 bp):
CACATATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACT
TTCACATTCACCACATCGGCCATTAGGCCTCAT
Found at i:47821174 original size:47 final size:47
Alignment explanation
Indices: 47821105--47821274 Score: 313
Period size: 47 Copynumber: 3.6 Consensus size: 47
47821095 AATAGCTCGT
47821105 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
47821152 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
47821199 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
47821246 AGTGTATATATGTGGTAAAGCCGAATGGC
1 AGTGTATATATGTGATAAGGCCTAATGGC
47821275 TAATGTGAAA
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 120 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:47821281 original size:47 final size:48
Alignment explanation
Indices: 47821105--47821524 Score: 317
Period size: 48 Copynumber: 8.8 Consensus size: 48
47821095 AATAGCTCGT
* * * **
47821105 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTG-ATGA-ATGTGAA
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAT-ACATGTGAA
* * * **
47821152 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTG-ATGA-ATGTGAA
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAT-ACATGTGAA
* * * **
47821199 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTG-ATGA-ATGTGAA
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAT-ACATGTGAA
**
47821246 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTG
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTG-AATACATGTGAA
* * **
47821295 A-TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTG
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTG-AATACATGTGAA
* * * **
47821343 A-TATGTATATGTGGTAAAGCCGAATGGATAATGTGAAATACATGTGTG
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTG-AATACATGTGAA
* * * * *
47821391 A-TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTG-AATACATGTGAA
* * * * * *
47821439 A-TGTGTATATGTCGTAAAGCCGAATGGCGAATGTGAAATGCGTATGAGAT
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTG-AATAC--ATGTGAA
*
47821489 A-TG-A-ATATGTGGTAAAGCCGAATGGCTAATGAGAAT
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAT
47821525 GTTGTAACCT
Statistics
Matches: 342, Mismatches: 26, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
47 128 0.37
48 199 0.58
49 8 0.02
50 7 0.02
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (48 bp):
AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAATACATGTGAA
Found at i:47821311 original size:48 final size:48
Alignment explanation
Indices: 47821252--47821519 Score: 428
Period size: 48 Copynumber: 5.6 Consensus size: 48
47821242 TGAAAGTGTA
47821252 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
47821300 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
*
47821348 TATATGTGGTAAAGCCGAATGGATAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* * * *
47821396 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATGTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* * * * * *
47821444 TATATGTCGTAAAGCCGAATGGCGAATGTGAAATGCGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
*
47821492 AATATGTGGTAAAGCCGAATGGCTAATG
1 TATATGTGGTAAAGCCGAATGGCTAATG
47821520 AGAATGTTGT
Statistics
Matches: 205, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 205 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
Found at i:47821618 original size:37 final size:37
Alignment explanation
Indices: 47821568--47821653 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 37
47821558 GGAAATATAT
*
47821568 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
47821605 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
47821642 TCCGGGTAAGAC
1 TCCGGGTAAGAC
47821654 TTCGTAATAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:47823503 original size:40 final size:39
Alignment explanation
Indices: 47823377--47823521 Score: 137
Period size: 40 Copynumber: 3.6 Consensus size: 39
47823367 TGCTGGAAAT
* * * * *
47823377 TATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
* * * *
47823416 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTC-G
* *
47823457 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
* * *
47823496 TGATATCCGGGTTAAGTCCCGTAGGC
1 T-ATATCCGGGCTAAGACCCGAAGGC
47823522 CTTGGTGCGG
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.01
40 84 0.99
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
Found at i:47823546 original size:80 final size:81
Alignment explanation
Indices: 47823378--47823566 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
47823368 GCTGGAAATT
* * * *
47823378 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
47823443 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
47823459 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
47823522 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
47823538 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
47823567 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:47831622 original size:40 final size:39
Alignment explanation
Indices: 47831457--47831640 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
47831447 AAATTGAATG
* * *
47831457 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
47831497 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
47831537 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
47831577 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
47831616 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
47831641 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:47831665 original size:80 final size:81
Alignment explanation
Indices: 47831497--47831685 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
47831487 GCTGGAAATT
* * * *
47831497 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
47831562 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
47831578 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
47831641 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
47831657 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
47831686 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:47835825 original size:29 final size:29
Alignment explanation
Indices: 47835791--47835922 Score: 128
Period size: 29 Copynumber: 4.6 Consensus size: 29
47835781 TAATCGATCA
*
47835791 CGCACACTTAGTGCCAT-GTGATTT-AAGCT
1 CGCACACTTAGTGCCATACT--TTTCAAGCT
* * **
47835820 CGCACACATAGTGCCGTATA-ATTT-AAATT
1 CGCACACTTAGTGCC--ATACTTTTCAAGCT
*
47835849 CACACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
47835878 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
47835907 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
47835923 ATCTTGTCAC
Statistics
Matches: 87, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
27 3 0.03
28 3 0.03
29 79 0.91
31 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACTTTTCAAGCT
Found at i:47841029 original size:42 final size:42
Alignment explanation
Indices: 47840980--47841081 Score: 141
Period size: 42 Copynumber: 2.4 Consensus size: 42
47840970 TAGCCCAGCT
* * * *
47840980 ATGGTCTTACATGATATCTTATATCAATGCCATGTCCCAGAC
1 ATGGTCTTACAAGAAATCTAATATCAATGCCATATCCCAGAC
* *
47841022 ATGGTCTTACAAGAAATCTAATATCGATGCCATATCCCAGAT
1 ATGGTCTTACAAGAAATCTAATATCAATGCCATATCCCAGAC
*
47841064 ATGGTCTTACACGAAATC
1 ATGGTCTTACAAGAAATC
47841082 ACACATAACC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGGTCTTACAAGAAATCTAATATCAATGCCATATCCCAGAC
Found at i:47846633 original size:33 final size:33
Alignment explanation
Indices: 47846591--47846666 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
47846581 TGTATATATG
* *
47846591 TAAGACCATAGTTGGTCTATGGCATACTGATGA
1 TAAGACCATAGCTGGGCTATGGCATACTGATGA
*
47846624 TAAGACCATAGCTGGGCTATGGCATTCTGATGA
1 TAAGACCATAGCTGGGCTATGGCATACTGATGA
47846657 TAAGACCATA
1 TAAGACCATA
47846667 ACCGAGTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (33 bp):
TAAGACCATAGCTGGGCTATGGCATACTGATGA
Found at i:47846678 original size:33 final size:33
Alignment explanation
Indices: 47846607--47846680 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
47846597 CATAGTTGGT
* * *
47846607 CTATGGCATACTGATGATAAGACCATAGCTGGG
1 CTATGGCATACTGATGATAAGACCATAACCGAG
*
47846640 CTATGGCATTCTGATGATAAGACCATAACCGAG
1 CTATGGCATACTGATGATAAGACCATAACCGAG
*
47846673 TTATGGCA
1 CTATGGCA
47846681 CTATGAACGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (33 bp):
CTATGGCATACTGATGATAAGACCATAACCGAG
Found at i:47847045 original size:194 final size:194
Alignment explanation
Indices: 47846716--47847106 Score: 640
Period size: 194 Copynumber: 2.0 Consensus size: 194
47846706 CCATGGCTAT
* * *
47846716 GCACATGTAAGACCATAGTTGGACTATGGAACAATATGAATCATGTTCCAGGATTTCAATTGTCT
1 GCACATGTAAGACCAAAGTTGGACTATGGAACAATATGAATCAGGTTCCAGGATTTCAATCGTCT
* *
47846781 TTCCAGTATGCGTCAGATGGAAATACATAATGGTCTAAACACAATGTGTGAGACAGTAAACGGTT
66 TTCCAGTATGCGTCAGATGGAAATACATAAGGGTCTAAACACAACGTGTGAGACAGTAAACGGTT
*
47846846 CGTAATAGTATATATTTGTAAAGGTGATAAACATTGTATTATCATTATATGTTAAAGAGATTAC
131 CGTAATAGTATATATTTGCAAAGGTGATAAACATTGTATTATCATTATATGTTAAAGAGATTAC
*
47846910 GCACATGTAAGACCAAAGTTGGACTATGGAACAATATGAATCAGGTAT-TAGGATTTCAATCGTC
1 GCACATGTAAGACCAAAGTTGGACTATGGAACAATATGAATCAGGT-TCCAGGATTTCAATCGTC
* * **
47846974 TTTTCAGTATGCGTCAGATGGAAATACATAAGGGTCTAAATACAACGTGTGAGATGGTAAACGGT
65 TTTCCAGTATGCGTCAGATGGAAATACATAAGGGTCTAAACACAACGTGTGAGACAGTAAACGGT
* **
47847039 TCGTAATAGTATATATTTGCAAAGGTGGTAAATGTTGTATTATCATTATATGTTAAAGAGATTAC
130 TCGTAATAGTATATATTTGCAAAGGTGATAAACATTGTATTATCATTATATGTTAAAGAGATTAC
47847104 GCA
1 GCA
47847107 TTGTGATAGT
Statistics
Matches: 182, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
194 181 0.99
195 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.31
Consensus pattern (194 bp):
GCACATGTAAGACCAAAGTTGGACTATGGAACAATATGAATCAGGTTCCAGGATTTCAATCGTCT
TTCCAGTATGCGTCAGATGGAAATACATAAGGGTCTAAACACAACGTGTGAGACAGTAAACGGTT
CGTAATAGTATATATTTGCAAAGGTGATAAACATTGTATTATCATTATATGTTAAAGAGATTAC
Found at i:47851863 original size:42 final size:43
Alignment explanation
Indices: 47851817--47851936 Score: 127
Period size: 44 Copynumber: 2.8 Consensus size: 43
47851807 AATGCCTCTA
* * *
47851817 TCCCAGACAGGGTCTTACACG-AAA-TCAGATACGATGCCAATG
1 TCCCAGACACGGTCTTACACGTAAACTCAAAT-CGAGGCCAATG
* * **
47851859 TCCCAGACATGGTCTTACAGGTAAATCTCAAATCGAGGCCTGTG
1 TCCCAGACACGGTCTTACACGTAAA-CTCAAATCGAGGCCAATG
*
47851903 TCCCAGACACGGTCTTACACATAAATCTCAAATC
1 TCCCAGACACGGTCTTACACGTAAA-CTCAAATC
47851937 AATATCAACA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 19 0.29
43 3 0.05
44 39 0.59
45 5 0.08
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
TCCCAGACACGGTCTTACACGTAAACTCAAATCGAGGCCAATG
Found at i:47859512 original size:28 final size:27
Alignment explanation
Indices: 47859449--47859518 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
47859439 ATAGTGAGTC
47859449 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
47859476 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
47859504 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47859519 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:47866338 original size:40 final size:39
Alignment explanation
Indices: 47866217--47866340 Score: 185
Period size: 39 Copynumber: 3.2 Consensus size: 39
47866207 TGTGTATGAA
47866217 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
47866256 GGTGCGAGCTATGATATCTGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
47866295 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
47866335 TGTGCG
1 TGTGCG
47866341 GGTTACCATA
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 57 0.77
40 17 0.23
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:47866356 original size:40 final size:40
Alignment explanation
Indices: 47866234--47866376 Score: 119
Period size: 40 Copynumber: 3.6 Consensus size: 40
47866224 GTTGTGATAT
* * * ** *
47866234 CCGGGCTAAG-CCCGAAGGCAATGGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * *** *
47866273 CTGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
47866312 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * *
47866352 CCGGGCTATGTCCTGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
47866377 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 43 0.49
40 44 0.51
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:47870695 original size:28 final size:27
Alignment explanation
Indices: 47870632--47870701 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
47870622 ATAGTGAGTC
47870632 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
47870659 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
47870687 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47870702 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:47872438 original size:24 final size:24
Alignment explanation
Indices: 47872411--47872472 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 24
47872401 GTGATATTTA
47872411 TGCAAATGATGTTTTATGTTGGAC
1 TGCAAATGATGTTTTATGTTGGAC
47872435 TGC--ATGA----TTATGTTGGAC
1 TGCAAATGATGTTTTATGTTGGAC
47872453 TGCAAATGATGTTTTATGTT
1 TGCAAATGATGTTTTATGTT
47872473 TTATGTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
18 14 0.44
20 4 0.12
22 4 0.12
24 10 0.31
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (24 bp):
TGCAAATGATGTTTTATGTTGGAC
Found at i:47877734 original size:45 final size:45
Alignment explanation
Indices: 47877683--47877774 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
47877673 CTGTTACAAG
47877683 TACAAGTTGTCCTTCCGTATTATGATCCAACCACGTAATAACACT
1 TACAAGTTGTCCTTCCGTATTATGATCCAACCACGTAATAACACT
47877728 TACAAGTTGTCCTTCCGTATTATGATCCAACCACGTAATAACACT
1 TACAAGTTGTCCTTCCGTATTATGATCCAACCACGTAATAACACT
47877773 TA
1 TA
47877775 GTATTATTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (45 bp):
TACAAGTTGTCCTTCCGTATTATGATCCAACCACGTAATAACACT
Found at i:47879413 original size:26 final size:27
Alignment explanation
Indices: 47879344--47879417 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 27
47879334 TATTTTCTTG
*
47879344 AAATTTTACTAGAGGTAAAATTATCAA
1 AAATTTTACTAGAGGTAAAATCATCAA
* * ** *
47879371 AAAATTTACAACTGGTAAAATCGTC-A
1 AAATTTTACTAGAGGTAAAATCATCAA
*
47879397 AAATTTTACTAGGGGTAAAAT
1 AAATTTTACTAGAGGTAAAAT
47879418 AGGGATGAGA
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
26 18 0.49
27 19 0.51
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (27 bp):
AAATTTTACTAGAGGTAAAATCATCAA
Found at i:47884348 original size:257 final size:253
Alignment explanation
Indices: 47883882--47884568 Score: 738
Period size: 257 Copynumber: 2.6 Consensus size: 253
47883872 AATAGAGAAC
*
47883882 AAAGATAAAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATT
1 AAAGATAAAATTAATACATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATT
*
47883947 TATTAATATAAATAGATATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTATTATT
66 TATTAATATAAATAGATATATTAATTAATTT-AGTCAAAATATAAAAGACAAGGAAATTATTATT
* ***
47884012 CTTTTGGAAATAATATAATTAATATATGAATTTGATTCATACATTTTACTGAATTTATTAATATA
130 CTTTTGGAAAAAATATAATTAATATATGAATTTGATTCATACAAAATACTGAATTTATTAATATA
47884077 AAAAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAACTAATTTTTTGG
195 AAAAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAACTAATTTTTTGG
* *
47884136 AAAGAATATAATTAATACATGAATTTGATTCATATAAAATATTAATTGTATATAAATTTTA-CAG
1 AAAG-ATAAAATTAATACATGAATTTGATTCATACAAAATATTAATTGTATAT--ATTTTATC-G
* *
47884200 AATTTATTAATATAAATAGTTATATTATTTAAGTTT-GTTCAAAATATAAAAGACAAGGAAATTG
62 AATTTATTAATATAAATAGATATATTAATTAA-TTTAG-TCAAAATATAAAAGACAAGGAAATT-
*
47884264 A-TATTCTTTT-GAAAGAAATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTAT
124 ATTATTCTTTTGGAAA-AAATATAATTAATATATGAATTTGATTCATAC-AAA-A-T-ACTG---
**
47884327 ATATTTTATCTAATTTATTAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGGT
181 A-A-TTTAT-T-A---A-T-ATA-AAA-AATTATATTAATTAATTTCGGTCAAAATATAAAAGAC
* * *
47884392 ATAGAAATTAATATTCGTTTAG
235 ATGGAAACTAAT-TT--TTTGG
* * * * *
47884414 AAAGAATATAATTAATGTATAT-AGATTTGATTCATACAAAATATTAATTGTTTATATTTTACCA
1 AAAG-ATAAAATTAA--TACATGA-ATTTGATTCATACAAAATATTAATTGTATATATTTTATCG
* * * * *
47884478 AATTAATTAATATAATAAACAATTATATTAATTAATTTCAGTCAAAATATAAGAGACATGGAAAT
62 AATTTATTAATATAA-ATA-GA-TATATTAATTAATTT-AGTCAAAATATAAAAGACAAGGAAAT
* *
47884543 TAATATT-TTTTGGAAAGAATATAATT
123 TATTATTCTTTTGGAAAAAATATAATT
47884569 CATTTTTCTA
Statistics
Matches: 365, Mismatches: 28, Indels: 54
0.82 0.06 0.12
Matches are distributed among these distances:
254 4 0.01
255 45 0.12
256 6 0.02
257 101 0.28
258 5 0.01
260 1 0.00
261 3 0.01
264 1 0.00
265 1 0.00
266 5 0.01
267 1 0.00
268 1 0.00
271 1 0.00
272 1 0.00
273 3 0.01
274 3 0.01
275 45 0.12
276 2 0.01
278 39 0.11
279 4 0.01
280 50 0.14
281 42 0.12
282 1 0.00
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (253 bp):
AAAGATAAAATTAATACATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATT
TATTAATATAAATAGATATATTAATTAATTTAGTCAAAATATAAAAGACAAGGAAATTATTATTC
TTTTGGAAAAAATATAATTAATATATGAATTTGATTCATACAAAATACTGAATTTATTAATATAA
AAAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAACTAATTTTTTGG
Found at i:47884406 original size:138 final size:135
Alignment explanation
Indices: 47884054--47884568 Score: 642
Period size: 140 Copynumber: 3.7 Consensus size: 135
47884044 TGATTCATAC
*
47884054 ATTTTACTGAATTTATTAATATAAAAAATTATATTAATTAATTTCGGTCAAAATATAAAAGACAT
1 ATTTTACT-AATTTATTAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACAT
* * * * *
47884119 GGAAACTAAT-TTTTTGGAAAGAATATAATTAATACATGAATTTGATTCATATAAAATATTAATT
65 AGAAATTAATATTTTTTGAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATT
47884183 GTATAT
130 GTATAT
* * * * *
47884189 AAATTTTACAGAATTTATTAATATAAATAGTTATATTATTTAAGTTT-GTTCAAAATATAAAAGA
1 --ATTTTAC-TAATTTATTAATATAAACAATTATATTAATTAA-TTTCGGTCAAAATATAAAAGA
*
47884253 CA-AGGAAATTGATATTCTTTTGAAAGAAATATAATTAATATATGAATTTGATTCATACAAAATA
62 CATA-GAAATTAATATT-TTTTGAAAG-AATATAATTAATATATGAATTTGATTCATACAAAATA
47884317 TTAATTGTATAT
124 TTAATTGTATAT
**
47884329 ATTTTATCTAATTTATTAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGGTAT
1 ATTTTA-CTAATTTATTAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACAT
*
47884394 AGAAATTAATATTCGTTTAGAAAGAATATAATTAATGTATAT-AGATTTGATTCATACAAAATAT
65 AGAAATTAATATT--TTTTGAAAGAATATAATTAA--TATATGA-ATTTGATTCATACAAAATAT
*
47884458 TAATTGTTTAT
125 TAATTGTATAT
* * * *
47884469 ATTTTACCAAATTAATTAATATAATAAACAATTATATTAATTAATTTCAGTCAAAATATAAGAGA
1 ATTTTA-CTAATTTATT-A-AT-ATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGA
*
47884534 CATGGAAATTAATATTTTTTGGAAAGAATATAATT
62 CATAGAAATTAATATTTTTT-GAAAGAATATAATT
47884569 CATTTTTCTA
Statistics
Matches: 330, Mismatches: 31, Indels: 29
0.85 0.08 0.07
Matches are distributed among these distances:
137 64 0.19
138 78 0.24
139 19 0.06
140 96 0.29
141 4 0.01
142 16 0.05
143 53 0.16
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (135 bp):
ATTTTACTAATTTATTAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATA
GAAATTAATATTTTTTGAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATTG
TATAT
Found at i:47884607 original size:17 final size:16
Alignment explanation
Indices: 47884563--47884612 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
47884553 TGGAAAGAAT
47884563 ATAATTCATTTTTCTA
1 ATAATTCATTTTTCTA
47884579 ATAATTCATTTTTCTA
1 ATAATTCATTTTTCTA
*
47884595 ATAATTCCTTTTTTCTA
1 ATAATT-CATTTTTCTA
47884612 A
1 A
47884613 CTTTTCATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 22 0.69
17 10 0.31
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.56
Consensus pattern (16 bp):
ATAATTCATTTTTCTA
Found at i:47886955 original size:10 final size:9
Alignment explanation
Indices: 47886940--47887136 Score: 56
Period size: 10 Copynumber: 20.3 Consensus size: 9
47886930 ATAAAAACCA
*
47886940 ATAAAAGTT
1 ATAAAAATT
47886949 ATAAAAATT
1 ATAAAAATT
**
47886958 ATTAAATTTT
1 A-TAAAAATT
*
47886968 AATAAAAAAT
1 -ATAAAAATT
*
47886978 ATAAAAAAAT
1 AT-AAAAATT
47886988 ACTTAAAAATT
1 A--TAAAAATT
** *
47886999 GGAAAATTTT
1 ATAAAA-ATT
*
47887009 ATAAAAATC
1 ATAAAAATT
47887018 ATAAAAATT
1 ATAAAAATT
47887027 AT-AAAATAT
1 ATAAAAAT-T
*
47887036 ATAGAAATAT
1 ATAAAAAT-T
*
47887046 AGAAAAAATT
1 A-TAAAAATT
*
47887056 AT-TAAATT
1 ATAAAAATT
* * *
47887064 TTATAAAGTC
1 ATA-AAAATT
47887074 ATAAGAAAATT
1 AT-A-AAAATT
47887085 ATAAAAATT
1 ATAAAAATT
* *
47887094 GTAAAGAAAT
1 ATAAA-AATT
* *
47887104 ATAAGATTCGT
1 ATAAAAAT--T
*
47887115 AAAATAAATT
1 ATAA-AAATT
47887125 ATAAAAATT
1 ATAAAAATT
47887134 ATA
1 ATA
47887137 GTTCCAAGAG
Statistics
Matches: 134, Mismatches: 38, Indels: 32
0.66 0.19 0.16
Matches are distributed among these distances:
8 11 0.08
9 48 0.36
10 49 0.37
11 23 0.17
12 3 0.02
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:47887005 original size:28 final size:27
Alignment explanation
Indices: 47886973--47887036 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
47886963 ATTTTAATAA
* *
47886973 AAAATATAAAAAAATACTTAAAAATTGG
1 AAAATATAAAAAAAT-CATAAAAATTAG
* * *
47887001 AAAATTTTATAAAAATCATAAAAATTAT
1 AAAA-TATAAAAAAATCATAAAAATTAG
47887029 AAAATATA
1 AAAATATA
47887037 TAGAAATATA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
27 3 0.10
28 17 0.59
29 9 0.31
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (27 bp):
AAAATATAAAAAAATCATAAAAATTAG
Found at i:47887100 original size:21 final size:22
Alignment explanation
Indices: 47887076--47887133 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 22
47887066 ATAAAGTCAT
47887076 AAGAAAATTATAAAAATT-GTA
1 AAGAAAATTATAAAAATTCGTA
*
47887097 AAG-AAA-TAT-AAGATTCGTA
1 AAGAAAATTATAAAAATTCGTA
47887116 AA-ATAAATTATAAAAATT
1 AAGA-AAATTATAAAAATT
47887134 ATAGTTCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
18 5 0.17
19 8 0.27
20 6 0.20
21 6 0.20
22 5 0.17
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (22 bp):
AAGAAAATTATAAAAATTCGTA
Found at i:47887438 original size:18 final size:16
Alignment explanation
Indices: 47887352--47887436 Score: 61
Period size: 17 Copynumber: 5.3 Consensus size: 16
47887342 AATTTTATAG
47887352 TTTTT-TTTTTTACAAT
1 TTTTTATTTTTTA-AAT
*
47887368 TATTTTAATTTTTAATAT
1 T-TTTTATTTTTTAA-AT
*
47887386 TTTTTA---TTAAAAT
1 TTTTTATTTTTTAAAT
** *
47887399 TTAATAATTTTTAAAT
1 TTTTTATTTTTTAAAT
47887415 TTTTTATTTTTTATAAT
1 TTTTTATTTTTTA-AAT
47887432 TTTTT
1 TTTTT
47887437 TACCATATGT
Statistics
Matches: 54, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
13 6 0.11
14 4 0.07
16 17 0.31
17 18 0.33
18 9 0.17
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTATTTTTTAAAT
Found at i:47894097 original size:40 final size:39
Alignment explanation
Indices: 47893932--47894115 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
47893922 AAATTGAATG
* * *
47893932 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
47893972 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
47894012 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
47894052 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
47894091 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
47894116 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:47894140 original size:80 final size:81
Alignment explanation
Indices: 47893972--47894160 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
47893962 GCTGGAAATT
* * * *
47893972 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
47894037 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
47894053 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
47894116 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
47894132 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
47894161 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:47899674 original size:40 final size:40
Alignment explanation
Indices: 47899573--47899797 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
47899563 TATTCGAATG
* *
47899573 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * * * *
47899614 ATAACCGGACTAAGATCCGAAGGCATTCGTACGAGTTG-CC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* *
47899654 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
47899694 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * * * *
47899734 ATATCCAGGCTAAGTCCCAAAGGCATCTGTTCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
47899774 ATATTCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
47899798 CTTGTGCAAG
Statistics
Matches: 150, Mismatches: 32, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
39 1 0.01
40 121 0.81
41 28 0.19
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:47899787 original size:120 final size:121
Alignment explanation
Indices: 47899573--47899797 Score: 298
Period size: 120 Copynumber: 1.9 Consensus size: 121
47899563 TATTCGAATG
* * * *
47899573 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCAAAGGC
47899638 ATTCGTACGAGTTGCCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
66 ATTCGTACGAGTTGCCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
* *
47899694 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCAGG-CTAAG-TCCCAAAG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACC-GGACTAAGAT-CCAAAG
* * *
47899756 GCA-TCTGTTCTAG-TGACCATATTCGGGCTAAGACCCGAAGGC
64 GCATTC-GTACGAGTTG-CCATATCCGGGCTAAGACCCGAAGGC
47899798 CTTGTGCAAG
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
119 5 0.05
120 53 0.58
121 33 0.36
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (121 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCAAAGGC
ATTCGTACGAGTTGCCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
Found at i:47904609 original size:24 final size:25
Alignment explanation
Indices: 47904582--47904643 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 25
47904572 GGATTCCTAA
*
47904582 GGCACTATGTGTGCCGG-TTAGCAT
1 GGCACTATGTGTGCCGGATTAGAAT
* * *
47904606 GGCACTAAGTGT-ACGGATTTGAAT
1 GGCACTATGTGTGCCGGATTAGAAT
*
47904630 AGCACTATGTGTGC
1 GGCACTATGTGTGC
47904644 GAAATCGATT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (25 bp):
GGCACTATGTGTGCCGGATTAGAAT
Found at i:47911939 original size:24 final size:24
Alignment explanation
Indices: 47911912--47911973 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
47911902 GGATTTCTAA
* *
47911912 GGCACTATGTGTGCGGGTTAGCAT
1 GGCACTATGTGTGCGGATTAGAAT
* *
47911936 GGCACTAAGTGTGCGGATTTGAAT
1 GGCACTATGTGTGCGGATTAGAAT
*
47911960 AGCACTATGTGTGC
1 GGCACTATGTGTGC
47911974 AAATCGATTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.21, C:0.16, G:0.34, T:0.29
Consensus pattern (24 bp):
GGCACTATGTGTGCGGATTAGAAT
Found at i:47913298 original size:14 final size:14
Alignment explanation
Indices: 47913275--47913307 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
47913265 AGGAGAGAAT
47913275 GATGAATGATGAGG
1 GATGAATGATGAGG
*
47913289 GATGAGTGATGAGG
1 GATGAATGATGAGG
47913303 GATGA
1 GATGA
47913308 TTAGAAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.45, T:0.21
Consensus pattern (14 bp):
GATGAATGATGAGG
Found at i:47920920 original size:29 final size:29
Alignment explanation
Indices: 47920878--47920936 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
47920868 AATCAACAAG
47920878 TTAGTCCAATAACAATACGCCATGTAATT
1 TTAGTCCAATAACAATACGCCATGTAATT
*
47920907 TTAGTCCCATAACAATACGCCATGTAATT
1 TTAGTCCAATAACAATACGCCATGTAATT
47920936 T
1 T
47920937 GTCTCAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (29 bp):
TTAGTCCAATAACAATACGCCATGTAATT
Found at i:47923617 original size:49 final size:49
Alignment explanation
Indices: 47923559--47923826 Score: 491
Period size: 49 Copynumber: 5.5 Consensus size: 49
47923549 ATGAGATATA
*
47923559 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
1 TATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
*
47923608 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
1 TATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
* *
47923657 TATATGTGATAAGGCCTAACGGCCGAGGTGGTGAATGTGAAAGTGTATG
1 TATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
47923706 TATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 TATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
*
47923755 TATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
47923804 TATATGTGATAAGGCCTAATGGC
1 TATATGTGATAAGGCCTAATGGC
47923827 TAATGTAAAA
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 213 1.00
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (49 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
Found at i:47923978 original size:37 final size:37
Alignment explanation
Indices: 47923928--47924012 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
47923918 GGAATATGTT
* *
47923928 CCGGGTGAGACCCGATGACTGCGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
47923965 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
47924002 CCGGGTAAGAC
1 CCGGGTAAGAC
47924013 TTCGTAATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.24, C:0.20, G:0.35, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:47932416 original size:37 final size:37
Alignment explanation
Indices: 47932363--47932484 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
47932353 TATAAAAGAA
*
47932363 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
47932400 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
47932437 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
47932474 GTCTCACCCGG
1 GTCTTACCCGG
47932485 AACATATTCC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:47932641 original size:49 final size:49
Alignment explanation
Indices: 47932586--47932861 Score: 372
Period size: 49 Copynumber: 5.4 Consensus size: 49
47932576 TTTTACATTA
47932586 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
47932635 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
47932684 GCCATTAGGCCTCATCACATATATTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGG------C-C-----TTATCACATATACATACACTTTCACATTCACCACATCG
* * *
47932745 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
47932794 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
47932843 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
47932862 CATATATGTA
Statistics
Matches: 205, Mismatches: 10, Indels: 24
0.86 0.04 0.10
Matches are distributed among these distances:
49 155 0.76
54 1 0.00
55 2 0.01
56 1 0.00
61 46 0.22
ACGTcount: A:0.30, C:0.33, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:47932720 original size:61 final size:61
Alignment explanation
Indices: 47932648--47932767 Score: 240
Period size: 61 Copynumber: 2.0 Consensus size: 61
47932638 ATTAGGCCTC
47932648 ATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATATT
1 ATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATATT
47932709 ATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATA
1 ATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATA
47932768 CATCCACTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.33, C:0.32, G:0.07, T:0.28
Consensus pattern (61 bp):
ATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATATT
Found at i:47932723 original size:110 final size:110
Alignment explanation
Indices: 47932597--47932816 Score: 413
Period size: 110 Copynumber: 2.0 Consensus size: 110
47932587 CCATTAGGCC
47932597 TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATA
1 TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATA
47932662 CACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATA
66 CACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATA
*
47932707 TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATC
1 TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATA
* *
47932772 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
66 CACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATA
47932817 CATACACTTT
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.31, C:0.32, G:0.07, T:0.29
Consensus pattern (110 bp):
TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATA
CACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATA
Found at i:47937437 original size:5 final size:5
Alignment explanation
Indices: 47937427--47937479 Score: 74
Period size: 5 Copynumber: 10.6 Consensus size: 5
47937417 ACATTTGGTT
47937427 ATATA ATATAA TATATA ATATA ATATA ATATA ATAT- A-ATA ATATA ATATA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
47937477 ATA
1 ATA
47937480 ACAATTTCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 34 0.77
6 2 0.05
7 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:47958915 original size:21 final size:22
Alignment explanation
Indices: 47958868--47958916 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
47958858 GTTGTTGAGA
47958868 AGGAAGTTGATGCTACAGAAGC
1 AGGAAGTTGATGCTACAGAAGC
*
47958890 A-GAAGTTGTTGCTGA-AGAAG-
1 AGGAAGTTGATGCT-ACAGAAGC
47958910 AGGAAGT
1 AGGAAGT
47958917 CGCTGAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 21 0.88
22 2 0.08
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.20
Consensus pattern (22 bp):
AGGAAGTTGATGCTACAGAAGC
Found at i:47963731 original size:19 final size:19
Alignment explanation
Indices: 47963707--47963750 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
47963697 TCGACCCTGA
47963707 GCCAGCGTCTAACTTTGAC
1 GCCAGCGTCTAACTTTGAC
47963726 GCCAGCGTCTAACTTTGAC
1 GCCAGCGTCTAACTTTGAC
47963745 GCCAGC
1 GCCAGC
47963751 ACCCACGACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.20, C:0.34, G:0.23, T:0.23
Consensus pattern (19 bp):
GCCAGCGTCTAACTTTGAC
Found at i:47974381 original size:28 final size:29
Alignment explanation
Indices: 47974314--47974414 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
47974304 ATAGTGAATC
*
47974314 CGCACACTTAGTGCTATATATATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
47974343 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
47974371 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
47974401 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47974415 CACTCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:47976651 original size:39 final size:39
Alignment explanation
Indices: 47976605--47976757 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
47976595 AATGTGCAAA
*
47976605 TTGTGATATCCGGGCTAAGCTCGAAGGCAATTGTGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
*
47976644 TTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
* *
47976683 CTATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
* * *
47976722 TTGTGATATCCAGGTTAAGTCCCGAAGGCATTTGTG
1 TTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTG
47976758 TGGGTTACCA
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 88 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
Found at i:47979505 original size:91 final size:94
Alignment explanation
Indices: 47979350--47979534 Score: 268
Period size: 91 Copynumber: 2.0 Consensus size: 94
47979340 TGAATTCCAT
* * * *
47979350 TAAGAGCGTGTTGGGCTAAGTAACCGGGGTGGGGTGTTTGGGTTGTCATCCCTCTTCGCATCAAA
1 TAAGAGCGTGTTCGGCTAAGTAACCGAGGTGGGGTGCTTGGGTTCTCATCCCTCTTCGCATCAAA
* *
47979415 AGGTTCGATACATT-C-TTAAAAA-AAAA
66 AAGTTCAATACATTCCATTAAAAAGAAAA
* * *
47979441 TAAGAGTGTGTTCGGCTGAGTAACCGAGGTGGGGTGCTTGGGTTCTCATCCCTCTTCGCGTCAAA
1 TAAGAGCGTGTTCGGCTAAGTAACCGAGGTGGGGTGCTTGGGTTCTCATCCCTCTTCGCATCAAA
47979506 AAGTTCAATACATTCCATTAAAAAGAAAA
66 AAGTTCAATACATTCCATTAAAAAGAAAA
47979535 AAAAACAAAC
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
91 70 0.85
92 1 0.01
93 7 0.09
94 4 0.05
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (94 bp):
TAAGAGCGTGTTCGGCTAAGTAACCGAGGTGGGGTGCTTGGGTTCTCATCCCTCTTCGCATCAAA
AAGTTCAATACATTCCATTAAAAAGAAAA
Found at i:47984206 original size:19 final size:20
Alignment explanation
Indices: 47984184--47984221 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
47984174 TTACTTTTTC
47984184 TTTTCCCCTAAAA-TTTTAT
1 TTTTCCCCTAAAAGTTTTAT
*
47984203 TTTTCCCTTAAAAGTTTTA
1 TTTTCCCCTAAAAGTTTTA
47984222 CTTCCTCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.26, C:0.18, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTTCCCCTAAAAGTTTTAT
Found at i:47984278 original size:55 final size:55
Alignment explanation
Indices: 47984197--47984310 Score: 140
Period size: 55 Copynumber: 2.1 Consensus size: 55
47984187 TCCCCTAAAA
* * * * * *
47984197 TTTTATTTTTCCCTTAAAAGTTTTACTTCCTC-CTAAGCCTCCAAAACTTTTTTCC
1 TTTTACTTTACCCTGAAAACTTTTACTT-CTCGCAAACCCTCCAAAACTTTTTTCC
* *
47984252 TTTTACTTTACCCTGAAAACTTTTACTTCTCGCAAACCCTCCAAAATTTTTTTTC
1 TTTTACTTTACCCTGAAAACTTTTACTTCTCGCAAACCCTCCAAAACTTTTTTCC
47984307 TTTT
1 TTTT
47984311 CCCCAAAACT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
54 3 0.06
55 47 0.94
ACGTcount: A:0.23, C:0.26, G:0.04, T:0.47
Consensus pattern (55 bp):
TTTTACTTTACCCTGAAAACTTTTACTTCTCGCAAACCCTCCAAAACTTTTTTCC
Found at i:47984593 original size:20 final size:20
Alignment explanation
Indices: 47984549--47984596 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
47984539 TTTTATTAAA
47984549 AAAATCATATTTTTTACATTT
1 AAAAT-ATATTTTTTACATTT
47984570 --AATATATTTTTTA-ATTT
1 AAAATATATTTTTTACATTT
47984587 CAAAATATAT
1 -AAAATATAT
47984597 GGTGACAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 4 0.17
18 10 0.42
19 3 0.12
20 7 0.29
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (20 bp):
AAAATATATTTTTTACATTT
Found at i:47992367 original size:12 final size:12
Alignment explanation
Indices: 47992350--47992390 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
47992340 GGAGATAGGA
47992350 AAAACAGGTTCC
1 AAAACAGGTTCC
*
47992362 AAAACAGG---A
1 AAAACAGGTTCC
47992371 AAAACAGGTTCC
1 AAAACAGGTTCC
47992383 AAAACAGG
1 AAAACAGG
47992391 AAAAGCAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
9 8 0.33
12 16 0.67
ACGTcount: A:0.51, C:0.20, G:0.20, T:0.10
Consensus pattern (12 bp):
AAAACAGGTTCC
Found at i:47992371 original size:21 final size:21
Alignment explanation
Indices: 47992346--47992394 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
47992336 CAGTGGAGAT
47992346 AGGAAAAACAGGTTCCAAAAC
1 AGGAAAAACAGGTTCCAAAAC
47992367 AGGAAAAACAGGTTCCAAAAC
1 AGGAAAAACAGGTTCCAAAAC
47992388 AGGAAAA
1 AGGAAAA
47992395 GCAATGGCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.55, C:0.16, G:0.20, T:0.08
Consensus pattern (21 bp):
AGGAAAAACAGGTTCCAAAAC
Found at i:47996915 original size:82 final size:82
Alignment explanation
Indices: 47996770--47996926 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 82
47996760 ATTTGAATGT
* * * **
47996770 TTTCTTTTTGTGCATTTTCCGGTAATGATATTTCCAATGGTGGAATAAATAGACAGTTGAGTTGC
1 TTTCTTTTTGTGCATTTTCCGGTAATAATATGTCCAATGGTGGAATAAATAGACAATCAAGTTGC
47996835 TTCGTGATCACTAGTGA
66 TTCGTGATCACTAGTGA
* * *
47996852 TTTCTTTTTGTGTATTTTTCGGTAATAATATGTCCAATGGTGTAATAAATAGACAATCAAGTTGC
1 TTTCTTTTTGTGCATTTTCCGGTAATAATATGTCCAATGGTGGAATAAATAGACAATCAAGTTGC
47996917 TTCGTGATCA
66 TTCGTGATCA
47996927 TTGGCGGAGA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 67 1.00
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (82 bp):
TTTCTTTTTGTGCATTTTCCGGTAATAATATGTCCAATGGTGGAATAAATAGACAATCAAGTTGC
TTCGTGATCACTAGTGA
Found at i:48013086 original size:117 final size:117
Alignment explanation
Indices: 48012880--48013114 Score: 425
Period size: 117 Copynumber: 2.0 Consensus size: 117
48012870 AGGAGCTATG
*
48012880 GAGTCCCCCAAACATTGGTATTATTAATATAAATTTTGACACATCTTTTCAAAGTGACTCTAGAA
1 GAGTCCCCCAAACATTGGTATTATTAAGATAAATTTTGACACATCTTTTCAAAGTGACTCTAGAA
*
48012945 ACTCTATTACACCAGTTTTAGCTAGAAATTTTGAAAGTGAAATCGTAGGGGC
66 ACTCTATTACACCAGTTTTAGCTAGAAATTTAGAAAGTGAAATCGTAGGGGC
*
48012997 GAGTCCCCCAAACATTGGTATTATTAAGATAAATTTTGACGCATCTTTTCAAAGTGACTCTAGAA
1 GAGTCCCCCAAACATTGGTATTATTAAGATAAATTTTGACACATCTTTTCAAAGTGACTCTAGAA
* *
48013062 ACTTTATTACATCAGTTTTAGCTAGAAATTTAGAAAGTGAAATCGTAGGGGC
66 ACTCTATTACACCAGTTTTAGCTAGAAATTTAGAAAGTGAAATCGTAGGGGC
48013114 G
1 G
48013115 TGTACTTACC
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 113 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Consensus pattern (117 bp):
GAGTCCCCCAAACATTGGTATTATTAAGATAAATTTTGACACATCTTTTCAAAGTGACTCTAGAA
ACTCTATTACACCAGTTTTAGCTAGAAATTTAGAAAGTGAAATCGTAGGGGC
Found at i:48017406 original size:37 final size:37
Alignment explanation
Indices: 48017353--48017443 Score: 146
Period size: 37 Copynumber: 2.4 Consensus size: 37
48017343 TATAAAAGAA
48017353 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
* *
48017390 GTCTTACCCGGTCATAATCTCCGCACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
48017427 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
48017444 TTCCAAGTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 45 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:48017593 original size:18 final size:18
Alignment explanation
Indices: 48017572--48017609 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
48017562 CATACACTTT
48017572 CACATTCACCACATCGGC
1 CACATTCACCACATCGGC
48017590 CACATTCACCACATCGGC
1 CACATTCACCACATCGGC
48017608 CA
1 CA
48017610 TTAGGCCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.45, G:0.11, T:0.16
Consensus pattern (18 bp):
CACATTCACCACATCGGC
Found at i:48017658 original size:48 final size:49
Alignment explanation
Indices: 48017590--48017770 Score: 301
Period size: 49 Copynumber: 3.7 Consensus size: 49
48017580 CCACATCGGC
48017590 CACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTTT
1 CACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTTT
48017639 CACATTC-CCACATCGGCCATTAGGCCTCATCACATATACATACACTTT
1 CACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTTT
*
48017687 CACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTT
1 CACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTTT
* * * * *
48017736 CACATTCATCGCATTGGCCATTCGGCCTTATCACA
1 CACATTCACCACATCGGCCATTAGGCCTCATCACA
48017771 CATATATGTA
Statistics
Matches: 126, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
48 48 0.38
49 78 0.62
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.28
Consensus pattern (49 bp):
CACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTTT
Found at i:48017692 original size:97 final size:98
Alignment explanation
Indices: 48017590--48017770 Score: 301
Period size: 97 Copynumber: 1.9 Consensus size: 98
48017580 CCACATCGGC
48017590 CACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTC-CCACATCG
1 CACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
48017654 GCCATTAGGCCTCATCACATATACATACACTTT
66 GCCATTAGGCCTCATCACATATACATACACTTT
* * * *
48017687 CACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 CACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* *
48017752 GCCATTCGGCCTTATCACA
66 GCCATTAGGCCTCATCACA
48017771 CATATATGTA
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
97 55 0.71
98 22 0.29
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.28
Consensus pattern (98 bp):
CACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
GCCATTAGGCCTCATCACATATACATACACTTT
Found at i:48021389 original size:40 final size:40
Alignment explanation
Indices: 48021287--48021470 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
48021277 AAATTGAATG
* * * * *
48021287 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
48021327 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
48021367 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
48021407 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
48021447 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
48021471 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:48023595 original size:23 final size:24
Alignment explanation
Indices: 48023569--48023614 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
48023559 ATATCCCCAC
*
48023569 ATGGAGTGCAG-GGTTGGATGGAG
1 ATGGAGTGCAGAGGCTGGATGGAG
*
48023592 ATGGAGTGTAGAGGCTGGATGGA
1 ATGGAGTGCAGAGGCTGGATGGA
48023615 TAGGATTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.24, C:0.04, G:0.50, T:0.22
Consensus pattern (24 bp):
ATGGAGTGCAGAGGCTGGATGGAG
Found at i:48025122 original size:40 final size:40
Alignment explanation
Indices: 48025014--48025223 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
48025004 CGGGATTTAA
* * * * *
48025014 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
48025054 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
48025094 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
48025134 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
48025174 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
48025214 CCGGATATAT
1 CCGGATATAT
48025224 TTCAATGTTC
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:48032343 original size:40 final size:40
Alignment explanation
Indices: 48032235--48032444 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
48032225 CGGGATTTAA
* * * * *
48032235 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
48032275 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
48032315 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
48032355 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
48032395 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
48032435 CCGGATATAT
1 CCGGATATAT
48032445 TTCAATGTTC
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:48034203 original size:40 final size:40
Alignment explanation
Indices: 48034159--48034234 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
48034149 ACACACGGCC
* *
48034159 GTGTCTCTGTCCGTATGTTTACTACCATGCATACTGTCGT
1 GTGTCTCAGCCCGTATGTTTACTACCATGCATACTGTCGT
48034199 GTGTCTCAGCCCGTATGTTTACTACCATGCATACTG
1 GTGTCTCAGCCCGTATGTTTACTACCATGCATACTG
48034235 ACTTGTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.37
Consensus pattern (40 bp):
GTGTCTCAGCCCGTATGTTTACTACCATGCATACTGTCGT
Found at i:48035563 original size:48 final size:46
Alignment explanation
Indices: 48035402--48035612 Score: 134
Period size: 46 Copynumber: 4.5 Consensus size: 46
48035392 ATGTCAATTC
* *
48035402 CATGCCCCATACATGGTCTTACACT-G-ACT-ATCATCTCGTAGCTGATG
1 CATGTCCCATACAT-GTCTTACACTAGCACTCATCA--T-GTGGCTGATG
* * *
48035449 CATGTCCCAGACATGTCTTACAC-AGGCTTACGTC-TCA--CGGCCGATG
1 CATGTCCCATACATGTCTTACACTA-GC--AC-TCATCATGTGGCTGATG
* * * * *
48035495 TATGCCCCAAACATGTCTTACACTAGCACTCGTCTTGAT-GCTGATG
1 CATGTCCCATACATGTCTTACACTAGCACTCATCATG-TGGCTGATG
* * *
48035541 CCATGTCCCATACATGGTCTTACACTGGCTCTCATGATGTGGCTGATG
1 -CATGTCCCATACAT-GTCTTACACTAGCACTCATCATGTGGCTGATG
48035589 CATGTCCCAGT-CATGTCTTACACT
1 CATGTCCCA-TACATGTCTTACACT
48035613 GGCTCACAAT
Statistics
Matches: 129, Mismatches: 19, Indels: 33
0.71 0.10 0.18
Matches are distributed among these distances:
43 2 0.02
44 4 0.03
46 53 0.41
47 38 0.29
48 26 0.20
50 2 0.02
51 4 0.03
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCATACATGTCTTACACTAGCACTCATCATGTGGCTGATG
Found at i:48037310 original size:48 final size:47
Alignment explanation
Indices: 48036945--48037313 Score: 233
Period size: 45 Copynumber: 7.8 Consensus size: 47
48036935 TATAATGCCA
** *
48036945 ATGCCATGTCCCAGACATTATCTTACACTGGCTCATCCAT-T-AAG-TCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CATCTCATGCT-G
* * * * * * * ** *
48036992 ATACCATGTCCCAAATATTGTCTTACATTGACTATCGAAATCAAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATCTC-ATGCTG
* * * * * *
48037041 ACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATCT-CATGCTG
* * * *
48037091 ATGCCATGTCCTAGACATGGTCTTACACTGATAGCTCT-AT-ACGTACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTG---GCTCTCATCTCATGCTG
* * * *
48037139 ATACCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCATAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAT-GCTG
* *
48037185 ATG-TATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATCTC-ATGCTG
*
48037231 ATG-CATGT-CCAGACAT-GTCTTACACTAGCTCTCATCTCAATGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTC-ATGCTG
*
48037276 ATGCCATATCCCAGACATGGTCTTACACTGGCTCTCAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
48037314 AATGTGGCCG
Statistics
Matches: 252, Mismatches: 48, Indels: 43
0.73 0.14 0.13
Matches are distributed among these distances:
43 1 0.00
44 13 0.05
45 52 0.21
46 27 0.11
47 37 0.15
48 51 0.20
49 29 0.12
50 35 0.14
51 2 0.01
53 5 0.02
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCATGCTG
Found at i:48037327 original size:48 final size:47
Alignment explanation
Indices: 48036940--48037340 Score: 192
Period size: 48 Copynumber: 8.5 Consensus size: 47
48036930 TAGGGTATAA
* **
48036940 TGCCAATGCCATGTCCCAGACATTATCTTACACTGGCTCATCCATTAA-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CA-TAATG
* * * * * * *
48036989 T--CGATACCATGTCCCAAATATTGTCTTACATTGACTATCGA-AATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATAAT---G
* * * *
48037037 -GCTGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--G
* * *
48037086 TACCGATGCCATGTCCTAGACATGGTCTTACACTGATAGCTCT-AT-ACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTG---GCTCTCATAATG
* * * * * *
48037134 TACTGATACCATGTCCCAGACATGGTCTTACACTGACACATC-TCAT-
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATG
* * *
48037180 AGCCGATG-TATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-G
* * *
48037225 AGGCTGATG-CATGT-CCAGACAT-GTCTTACACTAGCTCTCATCTCAA--
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA--T-AATG
* *
48037271 TGCTGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
*
48037318 TGGCCGATG-CATGTCCTAGACAT
1 T-GCCGATGCCATGTCCCAGACAT
48037341 ATCTGACACT
Statistics
Matches: 268, Mismatches: 52, Indels: 66
0.69 0.13 0.17
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 15 0.06
45 48 0.18
46 24 0.09
47 51 0.19
48 58 0.22
49 31 0.12
50 32 0.12
52 1 0.00
53 5 0.02
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
Found at i:48037327 original size:93 final size:93
Alignment explanation
Indices: 48037036--48037353 Score: 278
Period size: 93 Copynumber: 3.4 Consensus size: 93
48037026 TCGAAATCAA
* * * *
48037036 GGCTGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTACCGATGCCATGTC
1 GGCTGATG-CATGTCCCAGACATGGTCTTACACTAGCTCT--CATCT-CATGCCGATGCCATGTC
* *
48037101 CTAGACATGGTCTTACACTGATAGCTCT-ATACGT
62 CCAGACATGGTCTTACACTG---GCTCTCATATGT
* * * * *
48037135 -ACTGATACCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCATAGCCGATG-TATGTCCC
1 GGCTGAT-GCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAT-GCCGATGCCATGTCCC
* *
48037196 AGACAT-GTCTTACACTGGCT-TACATCTCGA
64 AGACATGGTCTTACACTGGCTCT-CATAT-GT
* *
48037226 GGCTGATGCATGT-CCAGACAT-GTCTTACACTAGCTCTCATCTCAATGCTGATGCCATATCCCA
1 GGCTGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC-ATGCCGATGCCATGTCCCA
48037289 GACATGGTCTTACACTGGCTCTCATAATGT
65 GACATGGTCTTACACTGGCTCTCAT-ATGT
* * * *
48037319 GGCCGATGCATGTCCTAGACAT-ATCTGACACTAGC
1 GGCTGATGCATGTCCCAGACATGGTCTTACACTAGC
48037354 ACACAAATAG
Statistics
Matches: 179, Mismatches: 26, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
88 1 0.01
89 13 0.07
90 11 0.06
91 19 0.11
92 30 0.17
93 44 0.25
94 30 0.17
96 1 0.01
97 1 0.01
98 29 0.16
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (93 bp):
GGCTGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCATGCCGATGCCATGTCCCAG
ACATGGTCTTACACTGGCTCTCATATGT
Found at i:48054118 original size:28 final size:28
Alignment explanation
Indices: 48054053--48054151 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
48054043 CATGAGATTG
* * *
48054053 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
48054082 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
48054110 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
48054138 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48054152 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:48062118 original size:28 final size:28
Alignment explanation
Indices: 48062053--48062151 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
48062043 CATGAGATTG
* * *
48062053 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
48062082 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
48062110 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
48062138 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48062152 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:48069653 original size:29 final size:29
Alignment explanation
Indices: 48069620--48069684 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
48069610 GTGACGAGAT
48069620 TGGCACTAAGTGTGCATGATGGAAATATA
1 TGGCACTAAGTGTGCATGATGGAAATATA
*
48069649 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGATGGAAATATA
*
48069678 CGGCACT
1 TGGCACT
48069685 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGATGGAAATATA
Found at i:48069790 original size:2 final size:2
Alignment explanation
Indices: 48069785--48069815 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
48069775 GTGCGTACTC
48069785 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48069816 CTCCGATCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48077474 original size:50 final size:49
Alignment explanation
Indices: 48077399--48077570 Score: 229
Period size: 50 Copynumber: 3.5 Consensus size: 49
48077389 TGAATACACG
* *
48077399 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTTAGGTCACA
* * * *
48077449 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GTTAGGTCACA
* * *
48077499 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTTAGGTCACA
48077548 TGTGTAGTACTAAGTGCAGGCTA
1 TGTGTAGTACTAAGTGCAGGCTA
48077571 TTATGCGTAT
Statistics
Matches: 106, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
49 28 0.26
50 77 0.73
51 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTTAGGTCACA
Found at i:48077703 original size:27 final size:26
Alignment explanation
Indices: 48077673--48077724 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
48077663 GGGAAAATCG
48077673 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
48077700 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
48077725 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:48078877 original size:43 final size:42
Alignment explanation
Indices: 48078790--48078870 Score: 99
Period size: 43 Copynumber: 1.9 Consensus size: 42
48078780 GTTACATCGA
* * ** *
48078790 CATCGTATTTGATTTCGTGTAAGACCTTGTCTGGGACAGTGG
1 CATCGTATTTGATTACATGTAAGACCACGTCTAGGACAGTGG
*
48078832 CATCGATATTTGGTTACATGTAAGACCACGTCTAGGACA
1 CATCG-TATTTGATTACATGTAAGACCACGTCTAGGACA
48078871 TGGGCATTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 5 0.16
43 27 0.84
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (42 bp):
CATCGTATTTGATTACATGTAAGACCACGTCTAGGACAGTGG
Found at i:48085322 original size:27 final size:27
Alignment explanation
Indices: 48085285--48085360 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
48085275 ATAAATACCT
* *
48085285 CACATAGGGGCAAAACGGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATCTTAC
* *
48085312 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATCTTAC
* *
48085339 CACGTAAGGACAAAACAGTCAT
1 CACATAAGGGCAAAACAGTCAT
48085361 TTTGTCAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.20
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATCTTAC
Found at i:48092354 original size:30 final size:30
Alignment explanation
Indices: 48092299--48092429 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
48092289 ATAGTGAATC
*
48092299 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
48092328 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
48092358 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
48092386 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
48092416 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48092430 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:48092409 original size:58 final size:58
Alignment explanation
Indices: 48092298--48092429 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
48092288 TATAGTGAAT
* * * * *
48092298 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
48092357 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
48092415 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
48092430 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:48096014 original size:39 final size:39
Alignment explanation
Indices: 48095893--48096015 Score: 203
Period size: 39 Copynumber: 3.2 Consensus size: 39
48095883 TATGATAACC
* *
48095893 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
48095933 CGCA-AATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
48095971 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
48096010 CGCACA
1 CGCACA
48096016 TTCATACACA
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
38 24 0.30
39 51 0.65
40 4 0.05
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.22
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:48103051 original size:30 final size:30
Alignment explanation
Indices: 48102996--48103126 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
48102986 ATAGTGAATC
*
48102996 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
48103025 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
48103055 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
48103083 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
48103113 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48103127 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:48103106 original size:58 final size:58
Alignment explanation
Indices: 48102995--48103126 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
48102985 TATAGTGAAT
* * * * *
48102995 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
48103054 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
48103112 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
48103127 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:48107093 original size:55 final size:55
Alignment explanation
Indices: 48107033--48107142 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
48107023 ACAAAGTGTT
48107033 TTTGAAACTCTCACCGTGGAAGAAAGTAATTTGATTTGGCAGAAAAGGCAAGCTG
1 TTTGAAACTCTCACCGTGGAAGAAAGTAATTTGATTTGGCAGAAAAGGCAAGCTG
*
48107088 TTTGAAATTCTCACCGTGGAAGAAAGTAATTTGATTTGGCAGAAAAGGCAAGCTG
1 TTTGAAACTCTCACCGTGGAAGAAAGTAATTTGATTTGGCAGAAAAGGCAAGCTG
48107143 AGTCCGAGGT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (55 bp):
TTTGAAACTCTCACCGTGGAAGAAAGTAATTTGATTTGGCAGAAAAGGCAAGCTG
Found at i:48118989 original size:16 final size:16
Alignment explanation
Indices: 48118968--48118999 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
48118958 TGTGTAACAC
48118968 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
48118984 CCCAAAAATCCTGAAA
1 CCCAAAAATCCCGAAA
48119000 ACTTAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:48120705 original size:46 final size:46
Alignment explanation
Indices: 48120655--48120822 Score: 175
Period size: 46 Copynumber: 3.6 Consensus size: 46
48120645 GCATCCGAAG
*
48120655 TCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTC-GAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGATCTGAAC
* * *
48120701 TCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGGCATCTGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G-ATCTGAAC
* * *
48120748 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CACCTGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGATCTGAAC
*
48120794 TCGTTGAGTTGAGTCCGAGTTCACATAGG
1 TCGTTGAGTTGAGTCCGAGTTCACTTAGG
48120823 GGCAGGTTAC
Statistics
Matches: 102, Mismatches: 11, Indels: 19
0.77 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 56 0.55
47 26 0.25
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATGATCTGAAC
Found at i:48120804 original size:93 final size:93
Alignment explanation
Indices: 48120645--48120815 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
48120635 GGATGGTTGA
* ***
48120645 GCATCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAAACCTCGAACTCGTTGAGT
48120710 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
48120738 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCT-GAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAA-ACCTCGAACTCGTTGAG
48120802 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
48120816 ACATAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 69 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAAACCTCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:48122568 original size:8 final size:8
Alignment explanation
Indices: 48122551--48122592 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
48122541 GTAGATCGAC
48122551 AAAAGCCG
1 AAAAGCCG
*
48122559 AAATGCCG
1 AAAAGCCG
48122567 AAAAGCC-
1 AAAAGCCG
48122574 AAAATGCC-
1 AAAA-GCCG
48122582 AAAAGCCG
1 AAAAGCCG
48122590 AAA
1 AAA
48122593 GTTTGGCTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 7 0.23
8 23 0.77
ACGTcount: A:0.52, C:0.24, G:0.19, T:0.05
Consensus pattern (8 bp):
AAAAGCCG
Found at i:48122572 original size:16 final size:15
Alignment explanation
Indices: 48122550--48122592 Score: 68
Period size: 16 Copynumber: 2.8 Consensus size: 15
48122540 AGTAGATCGA
48122550 CAAAAGCCGAAATGC
1 CAAAAGCCGAAATGC
*
48122565 CGAAAAGCCAAAATGC
1 C-AAAAGCCGAAATGC
48122581 CAAAAGCCGAAA
1 CAAAAGCCGAAA
48122593 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.51, C:0.26, G:0.19, T:0.05
Consensus pattern (15 bp):
CAAAAGCCGAAATGC
Found at i:48122835 original size:28 final size:29
Alignment explanation
Indices: 48122816--48122920 Score: 137
Period size: 28 Copynumber: 3.7 Consensus size: 29
48122806 ATAATGTGAT
48122816 TTGGGCC-AGATGGGCCATATAAATGAGA
1 TTGGGCCTAGATGGGCCATATAAATGAGA
* * * *
48122844 CTGGGCCTA-ACGGGCCATATGAATGCGAA
1 TTGGGCCTAGATGGGCCATATAAATGAG-A
48122873 TTGGGCCT-GATGGGCCATATAAATGAGA
1 TTGGGCCTAGATGGGCCATATAAATGAGA
48122901 TTGGGCCTAG-TGGGCCATAT
1 TTGGGCCTAGATGGGCCATAT
48122921 GCATGTATGT
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
28 40 0.62
29 25 0.38
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (29 bp):
TTGGGCCTAGATGGGCCATATAAATGAGA
Done.