Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 182 of 356
Found at i:58973320 original size:15 final size:17
Alignment explanation
Indices: 58973284--58973322 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
58973274 ACAAGGAATC
58973284 CAAATTAAACAATAGAA
1 CAAATTAAACAATAGAA
*
58973301 AAAATTAAAC-A-AGAA
1 CAAATTAAACAATAGAA
58973316 CAAATTA
1 CAAATTA
58973323 GAATAACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 10 0.50
16 1 0.05
17 9 0.45
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.18
Consensus pattern (17 bp):
CAAATTAAACAATAGAA
Found at i:58976065 original size:21 final size:21
Alignment explanation
Indices: 58976034--58976112 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 21
58976024 TGGAAACCCG
*
58976034 TAAGGGTTGAACTGAAGCTCA
1 TAAGAGTTGAACTGAAGCTCA
** * * *
58976055 TAAGAACTGAACGGAAACCCA
1 TAAGAGTTGAACTGAAGCTCA
* *
58976076 TAAGGGTTAAACTGAAGCTCA
1 TAAGAGTTGAACTGAAGCTCA
*
58976097 AAAGAGTTGAACTGAA
1 TAAGAGTTGAACTGAA
58976113 ACCTAGAAAG
Statistics
Matches: 42, Mismatches: 16, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (21 bp):
TAAGAGTTGAACTGAAGCTCA
Found at i:58976071 original size:42 final size:42
Alignment explanation
Indices: 58976025--58976133 Score: 128
Period size: 42 Copynumber: 2.6 Consensus size: 42
58976015 AGTGCTAAAT
* * *
58976025 GGAAACCCGTAAGGGTTGAACTGAAGCTCATAAGAACTGAAC
1 GGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAACTGAAC
**
58976067 GGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGTTGAAC
1 GGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAACTGAAC
* * * * *
58976109 TGAAACCTAGAAAGGTTAATCTGAA
1 GGAAACCCATAAGGGTTAAACTGAA
58976134 ACTCTTATGA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.18
Consensus pattern (42 bp):
GGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAACTGAAC
Found at i:58978838 original size:22 final size:22
Alignment explanation
Indices: 58978813--58978866 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
58978803 AACAAAAGAG
* *
58978813 TAACTTATAAAATATACTAATT
1 TAACTTATAAAATATAATAATA
*
58978835 TAACTTATAGAATATAATAATA
1 TAACTTATAAAATATAATAATA
*
58978857 AAACTTATAA
1 TAACTTATAA
58978867 TTAAGTAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (22 bp):
TAACTTATAAAATATAATAATA
Found at i:58982162 original size:38 final size:38
Alignment explanation
Indices: 58982120--58982201 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 38
58982110 GACATGTCGA
* *
58982120 CCACACGGGCATGTAGATTTTAGGCCAGGTCATGTGGG
1 CCACACGGGCATGTAGATTTTAGGCCAGGCCATGTAGG
** * * *
58982158 CCACACGGGTGTGTGGATTTTGGGTCAGGCCATGTAGG
1 CCACACGGGCATGTAGATTTTAGGCCAGGCCATGTAGG
58982196 CCACAC
1 CCACAC
58982202 CGACAAGGCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.20, C:0.23, G:0.34, T:0.23
Consensus pattern (38 bp):
CCACACGGGCATGTAGATTTTAGGCCAGGCCATGTAGG
Found at i:59002471 original size:16 final size:16
Alignment explanation
Indices: 59002450--59002481 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
59002440 GAGAACCAAA
59002450 CAGAGAACTGAGAAAC
1 CAGAGAACTGAGAAAC
59002466 CAGAGAACTGAGAAAC
1 CAGAGAACTGAGAAAC
59002482 ATAAAATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.25, T:0.06
Consensus pattern (16 bp):
CAGAGAACTGAGAAAC
Found at i:59006403 original size:34 final size:35
Alignment explanation
Indices: 59006363--59006428 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
59006353 CTTGTCAAAT
* * *
59006363 TAAAAATG-TTTTATTTTAAAAATAAGTTTTTTAA
1 TAAAAATGCTTTAAATTCAAAAATAAGTTTTTTAA
*
59006397 TAAAAATGCTTTAAATTCACAAATAAGTTTTT
1 TAAAAATGCTTTAAATTCAAAAATAAGTTTTT
59006429 GTTGTGCAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 8 0.30
35 19 0.70
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (35 bp):
TAAAAATGCTTTAAATTCAAAAATAAGTTTTTTAA
Found at i:59012846 original size:20 final size:20
Alignment explanation
Indices: 59012787--59012876 Score: 78
Period size: 20 Copynumber: 4.5 Consensus size: 20
59012777 GGAGCAATTC
*
59012787 TAACTTGTTTGAAAATCATTT
1 TAACTTGATT-AAAATCATTT
* *
59012808 TGA-TGTG-TTAAAATAATTT
1 TAACT-TGATTAAAATCATTT
*
59012827 TAACTTGATTGAAATCATTT
1 TAACTTGATTAAAATCATTT
*
59012847 TGAA-TTGGTTAAAATCATTT
1 T-AACTTGATTAAAATCATTT
*
59012867 TCACTTGATT
1 TAACTTGATT
59012877 TTAAAATTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
19 14 0.25
20 35 0.64
21 6 0.11
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (20 bp):
TAACTTGATTAAAATCATTT
Found at i:59012858 original size:40 final size:40
Alignment explanation
Indices: 59012782--59012876 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
59012772 GGCTTGGAGC
* *
59012782 AATTCTAACTTGTTTGAAAATCATTTTGATGTGTTAAAAT
1 AATTTTAACTTGATTGAAAATCATTTTGATGTGTTAAAAT
59012822 AATTTTAACTTGATTG-AAATCATTTTGAAT-TGGTTAAAAT
1 AATTTTAACTTGATTGAAAATCATTTTG-ATGT-GTTAAAAT
* *
59012862 CATTTTCACTTGATT
1 AATTTTAACTTGATT
59012877 TTAAAATTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
39 12 0.24
40 37 0.76
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.46
Consensus pattern (40 bp):
AATTTTAACTTGATTGAAAATCATTTTGATGTGTTAAAAT
Found at i:59015707 original size:46 final size:47
Alignment explanation
Indices: 59015647--59015889 Score: 352
Period size: 46 Copynumber: 5.3 Consensus size: 47
59015637 TTCGACATGA
* * * * * *
59015647 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGTCACGT
59015693 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGTCACGT
*
59015739 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGTCACGT
** *
59015785 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGTCACGT
*
59015831 TGCCATGGTATCTCTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGTCACGT
59015877 TGCCATGGTATCT
1 TGCCATGGTATCT
59015890 GTCGAAACCA
Statistics
Matches: 179, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
45 5 0.03
46 174 0.97
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.42
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGTCACGT
Found at i:59019128 original size:44 final size:44
Alignment explanation
Indices: 59019068--59019348 Score: 209
Period size: 44 Copynumber: 6.4 Consensus size: 44
59019058 TGTTTTTATC
* * *
59019068 CTGCTCTACTGCAACTTTAGAGAGATAAGGACTGTGACTTCGAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGACTGTGACTTCGAT
* * *
59019112 CTGTTCCACTGTAACTTCAGGGAGATAA-GATCTGCTAACTTC-AGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGA-CTG-TGACTTCGA-T
* * *
59019157 CTGCTCCACTACAACTTCAGGGAGATAAGAATTGTGACTTCGAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGACTGTGACTTCGAT
* *
59019201 CTGCTCCACTGCAACTTCA---AGGTAA-GATCTGCTAACTTC-AGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGA-CTG-TGACTTCGA-T
* * * * * **
59019243 CTGCTCCAATTCAACTTTAGGGAGATAA-GACTTGGGTAATTTTAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGAC-TGTG-ACTTCGAT
* * * *
59019288 CCTGCTCTACTGCAACTTCAGAGAGATAAGGATTGCGACTTCGAT
1 -CTGCTCCACTGCAACTTCAGGGAGATAAGGACTGTGACTTCGAT
* *
59019333 CTGTTCCATTGCAACT
1 CTGCTCCACTGCAACT
59019349 CCAGCAAGAC
Statistics
Matches: 183, Mismatches: 38, Indels: 32
0.72 0.15 0.13
Matches are distributed among these distances:
40 1 0.01
41 8 0.04
42 23 0.13
43 2 0.01
44 66 0.36
45 53 0.29
46 28 0.15
47 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGGACTGTGACTTCGAT
Found at i:59019219 original size:89 final size:88
Alignment explanation
Indices: 59019068--59019317 Score: 297
Period size: 89 Copynumber: 2.8 Consensus size: 88
59019058 TGTTTTTATC
* * * * * * *
59019068 CTGCTCTACTGCAACTTTAGAGAGATAAGGACTGTGACTTCGATCTGTTCCACTGTAACTTCAGG
1 CTGCTCCACTACAACTTTAGGGAGATAAGAATTGTGACTTCGATCTGCTCCACTGCAACTTCA-G
59019133 GAGATAAGATCTGCTAACTTCAGT
65 GAGATAAGATCTGCTAACTTCAGT
*
59019157 CTGCTCCACTACAACTTCAGGGAGATAAGAATTGTGACTTCGATCTGCTCCACTGCAACTTCA--
1 CTGCTCCACTACAACTTTAGGGAGATAAGAATTGTGACTTCGATCTGCTCCACTGCAACTTCAGG
*
59019220 AGGTAAGATCTGCTAACTTCAGT
66 AGATAAGATCTGCTAACTTCAGT
* * * * * ** *
59019243 CTGCTCCAATTCAACTTTAGGGAGATAAGACTTGGGTAATTTTATCCTGCTCTACTGCAACTTCA
1 CTGCTCCACTACAACTTTAGGGAGATAAGAATTGTG-ACTTCGAT-CTGCTCCACTGCAACTTCA
59019308 GAGAGATAAG
64 G-GAGATAAG
59019318 GATTGCGACT
Statistics
Matches: 137, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
86 53 0.39
87 5 0.04
88 18 0.13
89 55 0.40
91 6 0.04
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (88 bp):
CTGCTCCACTACAACTTTAGGGAGATAAGAATTGTGACTTCGATCTGCTCCACTGCAACTTCAGG
AGATAAGATCTGCTAACTTCAGT
Found at i:59019265 original size:86 final size:87
Alignment explanation
Indices: 59019079--59019272 Score: 282
Period size: 86 Copynumber: 2.2 Consensus size: 87
59019069 TGCTCTACTG
* * * *
59019079 CAACTTTAGAGAGATAAGGACTGTGACTTCGATCTGTTCCACTGTAACTTCAGGGAGATAAGATC
1 CAACTTTAGGGAGATAAGAACTGTGACTTCGATCTGCTCCACTGCAACTTCA--GAGATAAGATC
*
59019144 TGCTAACTTCAGTCTGCTCCACTA
64 TGCTAACTTCAGTCTGCTCCAATA
* * *
59019168 CAACTTCAGGGAGATAAGAATTGTGACTTCGATCTGCTCCACTGCAACTTCA-AGGTAAGATCTG
1 CAACTTTAGGGAGATAAGAACTGTGACTTCGATCTGCTCCACTGCAACTTCAGAGATAAGATCTG
*
59019232 CTAACTTCAGTCTGCTCCAATT
66 CTAACTTCAGTCTGCTCCAATA
59019254 CAACTTTAGGGAGATAAGA
1 CAACTTTAGGGAGATAAGA
59019273 CTTGGGTAAT
Statistics
Matches: 95, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
86 49 0.52
89 46 0.48
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (87 bp):
CAACTTTAGGGAGATAAGAACTGTGACTTCGATCTGCTCCACTGCAACTTCAGAGATAAGATCTG
CTAACTTCAGTCTGCTCCAATA
Found at i:59019316 original size:132 final size:133
Alignment explanation
Indices: 59019157--59019398 Score: 335
Period size: 132 Copynumber: 1.8 Consensus size: 133
59019147 TAACTTCAGT
* * *
59019157 CTGCTCCACTACAACTTCAGGGAGATAAGAATTGTGACTTCGATCTGCTCCACTGCAACT-TCAA
1 CTGCTCCACTACAACTTCAGAGAGATAAGAATTGCGACTTCGATCTGCTCCACTGCAACTCGCAA
**
59019221 GGTAAGATCTGCTAACTTCAGTCTGCTCCAAT-TCAACTTTAGGGAGATAAGACTTGGGTAATTT
66 GACAAGATCTGCTAACTTCAGTCTGCTCCAATGT-AACTTTAGGGAGATAAGACTTGGGTAATTT
59019285 TATC
130 TATC
* * * * *
59019289 CTGCTCTACTGCAACTTCAGAGAGATAAGGATTGCGACTTCGATCTGTTCCATTGCAACTCCAGC
1 CTGCTCCACTACAACTTCAGAGAGATAAGAATTGCGACTTCGATCTGCTCCACTGCAACT-C-GC
* *
59019354 AAGACAAGATCTGCTATCTTCAGTTTGCTCCAATGTAACTTTAGG
64 AAGACAAGATCTGCTAACTTCAGTCTGCTCCAATGTAACTTTAGG
59019399 AATATGAGAT
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
132 53 0.56
135 40 0.43
136 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (133 bp):
CTGCTCCACTACAACTTCAGAGAGATAAGAATTGCGACTTCGATCTGCTCCACTGCAACTCGCAA
GACAAGATCTGCTAACTTCAGTCTGCTCCAATGTAACTTTAGGGAGATAAGACTTGGGTAATTTT
ATC
Found at i:59031108 original size:27 final size:27
Alignment explanation
Indices: 59031076--59031281 Score: 263
Period size: 27 Copynumber: 7.6 Consensus size: 27
59031066 AAATATTTCA
**
59031076 GGGTATTTCAGTAATTTTACAAATC-AG
1 GGGTATTTTGGTAATTTTACAAA-CAAG
*
59031103 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACAAG
* *
59031130 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACAAG
*
59031157 GGGTATTTTGGTAAGTTTACAAACAAG
1 GGGTATTTTGGTAATTTTACAAACAAG
* * *
59031184 TGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACAAG
* *
59031211 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACAAG
**
59031238 GGGTATTTTGGTAATTTTGTAAACCAA-
1 GGGTATTTTGGTAATTTTACAAA-CAAG
59031265 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
59031282 GGTAAACTAA
Statistics
Matches: 157, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 154 0.98
28 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACAAG
Found at i:59031296 original size:26 final size:27
Alignment explanation
Indices: 59031186--59031297 Score: 100
Period size: 27 Copynumber: 4.2 Consensus size: 27
59031176 CAAACAAGTG
** * *
59031186 GTATTTTGGTAATTTTATAAACAAAGG
1 GTATTTTGGTAATTTGGTAAACCAAGA
* *** * *
59031213 GTATTTTAGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTGGTAAACCAAGA
* *
59031240 GTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTGGTAATTTGGTAAACCAAGA
*
59031267 GTATTTTGGTAATTTGGTAAACTAA-A
1 GTATTTTGGTAATTTGGTAAACCAAGA
59031293 GTATT
1 GTATT
59031298 CTAAATAGGG
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 5 0.07
27 69 0.93
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (27 bp):
GTATTTTGGTAATTTGGTAAACCAAGA
Found at i:59034798 original size:11 final size:11
Alignment explanation
Indices: 59034782--59034813 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
59034772 CTTTATATAC
59034782 TAATAAAATAA
1 TAATAAAATAA
59034793 TAATAAAATAA
1 TAATAAAATAA
59034804 TAATAAAATA
1 TAATAAAATA
59034814 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:59034830 original size:11 final size:11
Alignment explanation
Indices: 59034785--59034842 Score: 62
Period size: 11 Copynumber: 5.1 Consensus size: 11
59034775 TATATACTAA
*
59034785 TAAAATAATAA
1 TAAAATAATAT
*
59034796 TAAAATAATAA
1 TAAAATAATAT
*
59034807 TAAAATATTTTAT
1 TAAAATA--ATAT
*
59034820 TAAAATATTAT
1 TAAAATAATAT
59034831 TAAAATAATAT
1 TAAAATAATAT
59034842 T
1 T
59034843 TAACTAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
11 33 0.79
13 9 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TAAAATAATAT
Found at i:59034866 original size:11 final size:11
Alignment explanation
Indices: 59034784--59034867 Score: 52
Period size: 11 Copynumber: 7.7 Consensus size: 11
59034774 TTATATACTA
*
59034784 ATAAAATAATA
1 ATAAAATAATT
*
59034795 ATAAAATAATA
1 ATAAAATAATT
*
59034806 ATAAAATATTTT
1 ATAAAATA-ATT
59034818 ATTAAAAT-ATT
1 A-TAAAATAATT
59034829 ATTAAAATAA-T
1 A-TAAAATAATT
* *
59034840 ATTTAACTAA-T
1 A-TAAAATAATT
59034851 -T-AAATAATT
1 ATAAAATAATT
59034860 ATAAAATA
1 ATAAAATA
59034868 TCAAAATATC
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
8 5 0.08
9 2 0.03
10 1 0.02
11 44 0.72
12 3 0.05
13 6 0.10
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (11 bp):
ATAAAATAATT
Found at i:59059879 original size:40 final size:39
Alignment explanation
Indices: 59059799--59060018 Score: 268
Period size: 40 Copynumber: 5.6 Consensus size: 39
59059789 TTGAATGATG
* * * *
59059799 CCGGGCTAAGTCCGAAGGC-TTTGTGCTAGTGACCATAT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
59059837 CCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAAAT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAAT
*
59059877 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT-AAT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAAT
*
59059916 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAAT
*
59059956 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AAT
* *
59059996 -CGGGCTATGTCCCAAGGCATTTG
1 CCGGGCTAAGTCCGAAGGCATTTG
59060019 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
38 22 0.13
39 52 0.32
40 89 0.54
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:59059940 original size:79 final size:78
Alignment explanation
Indices: 59059799--59060025 Score: 282
Period size: 79 Copynumber: 2.9 Consensus size: 78
59059789 TTGAATGATG
* * * *
59059799 CCGGGCTAAGTCCGAAGGC-TTTGTGCTAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTG
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-ATCCGGGCTAAG-TCCCGAAGGCATTTG
59059862 TACGAGTTACTAAAT
64 TACGAGTTACTAAAT
* *
59059877 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATCCGGGCTAAGTCCCGAAGGCATTTGT
*
59059942 GCGAGTTACTAAAT
65 ACGAGTTACTAAAT
* * *
59059956 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACGGGCTATGTCCC-AAGGCATTTG
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-CCGGGCTAAGTCCCGAAGGCATTTG
*
59060019 AACGAGT
64 TACGAGT
59060026 AGCTATATCC
Statistics
Matches: 130, Mismatches: 14, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
78 28 0.22
79 89 0.68
80 13 0.10
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATCCGGGCTAAGTCCCGAAGGCATTTGTA
CGAGTTACTAAAT
Found at i:59068021 original size:40 final size:40
Alignment explanation
Indices: 59067789--59068014 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
59067779 TTGAATGATG
* * * *
59067789 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
59067829 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
59067869 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59067909 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
59067949 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
59067990 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59068015 AACGAGTAGC
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 156 0.93
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59068021 original size:120 final size:120
Alignment explanation
Indices: 59067789--59068047 Score: 278
Period size: 120 Copynumber: 2.2 Consensus size: 120
59067779 TTGAATGATG
* * *
59067789 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
59067854 GTACGAGTTACTAAATCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAA
66 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAA
* * ** *
59067909 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAATCCGGGTTAAG-TCCCGAAGGTAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
59067972 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTATA
64 TTGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCTAAA
* *
59068029 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
59068048 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
119 18 0.15
120 89 0.76
121 10 0.09
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAA
Found at i:59072495 original size:11 final size:11
Alignment explanation
Indices: 59072479--59072507 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
59072469 ATGCTAGTGC
59072479 ATTATAATTTT
1 ATTATAATTTT
59072490 ATTATAATTTT
1 ATTATAATTTT
59072501 ATTATAA
1 ATTATAA
59072508 CTTATGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTATAATTTT
Found at i:59076079 original size:19 final size:20
Alignment explanation
Indices: 59076041--59076079 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
59076031 AATAAATAGT
* *
59076041 TAATAATATATATTTTTAAA
1 TAATAATATAAATTTATAAA
59076061 TAATAA-ATAAATTTATAAA
1 TAATAATATAAATTTATAAA
59076080 AAATTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAATAATATAAATTTATAAA
Found at i:59079698 original size:18 final size:18
Alignment explanation
Indices: 59079675--59079712 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
59079665 AATATATATT
59079675 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
59079693 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
59079711 AA
1 AA
59079713 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:59079705 original size:13 final size:13
Alignment explanation
Indices: 59079689--59079713 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59079679 CAAGTACCCA
59079689 ACCCAACCCAATT
1 ACCCAACCCAATT
59079702 ACCCAACCCAAT
1 ACCCAACCCAAT
59079714 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:59079785 original size:7 final size:6
Alignment explanation
Indices: 59079738--59079784 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
59079728 ATAATTTAAT
* *
59079738 AAATAA AAATAA AAATCTAA AACTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAA
59079785 ACATATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 32 0.86
8 5 0.14
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:59087573 original size:28 final size:28
Alignment explanation
Indices: 59087537--59087593 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
59087527 TACGGGTAGA
*
59087537 CACACGGGCGTGT-GTCTTGGCCGTGTGT
1 CACACGGGCATGTGGT-TTGGCCGTGTGT
* *
59087565 CACATGGGCATGTGGTTTGGTCGTGTGT
1 CACACGGGCATGTGGTTTGGCCGTGTGT
59087593 C
1 C
59087594 CCCTGCATCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.09, C:0.21, G:0.39, T:0.32
Consensus pattern (28 bp):
CACACGGGCATGTGGTTTGGCCGTGTGT
Found at i:59091341 original size:101 final size:101
Alignment explanation
Indices: 59091210--59091423 Score: 331
Period size: 101 Copynumber: 2.1 Consensus size: 101
59091200 CCATAGCCTT
* * *
59091210 ACCATGGTCTTACAATCGTAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCC
1 ACCATGGTCTTACAATCATAGTGCCATAACCCAATTATGATCTTATCATCAAAATGCCATAGCCC
**
59091275 TGCTATGATCTTACATATAAACACTGCCATGGTCCA
66 AACTATGATCTTACATATAAACACTGCCATGGTCCA
* * *
59091311 ACCATGGTCTTAC-GTCCATAGTGCTATAACCCAATTATGATCTTATCATCAAAATGTCATAGCC
1 ACCATGGTCTTACAAT-CATAGTGCCATAACCCAATTATGATCTTATCATCAAAATGCCATAGCC
*
59091375 CAACTATGGTCTTACATATAAACACTGCCATGGTCCA
65 CAACTATGATCTTACATATAAACACTGCCATGGTCCA
59091412 ACCATGGTCTTA
1 ACCATGGTCTTA
59091424 TGTTTGAATA
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
100 1 0.01
101 102 0.99
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (101 bp):
ACCATGGTCTTACAATCATAGTGCCATAACCCAATTATGATCTTATCATCAAAATGCCATAGCCC
AACTATGATCTTACATATAAACACTGCCATGGTCCA
Found at i:59092541 original size:139 final size:139
Alignment explanation
Indices: 59092379--59092990 Score: 854
Period size: 139 Copynumber: 4.4 Consensus size: 139
59092369 ACAGTCCTTA
* *
59092379 AAACAACATATTTTTTTGCTGCATTAATACACCAAATAACAGTCCTTAAAACAACATATTTTTCT
1 AAACAACA-ATTTTTCTGCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATATTTTTCT
* *
59092444 GCTGCATTAATACACCAAACATCAGTCCTTAAAACACCATAAATATAGTCACTTAGACAACATTA
65 GCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATAAATATAGTCACTTAGACAACATTA
59092509 ATTGACATCT
130 ATTGACATCT
* *
59092519 AAACAACAATTTTTCTGCTGCATTAATACACTAAACAACAGTCCTTAAAACAACATATTTTTTTG
1 AAACAACAATTTTTCTGCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATATTTTTCTG
* * * *
59092584 CTGCATTAATACACCAAATAACAGTCCTTAAAATAGCATAAATATAGTCACTTAGGCAACATTAA
66 CTGCATTAATACACCAAACAACAGTCCTTAAAACAACATAAATATAGTCACTTAGACAACATTAA
*** *
59092649 TTGATGCCA
131 TTGACATCT
* * * * *
59092658 AAACAACAATTTTTCTTCTGCAGTAATACACCAAACAGCTGCCCTTAAAACAACATATTTTTCTG
1 AAACAACAATTTTTCTGCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATATTTTTCTG
* * * *
59092723 CTACATTAATACACCAAACAGCAGTCCTTCAAAA-AAAATAAATACAGTCACTTAGACAACATTA
66 CTGCATTAATACACCAAACAACAGTCCTT-AAAACAACATAAATATAGTCACTTAGACAACATTA
59092787 ATTGACATCT
130 ATTGACATCT
** * * * * * * **
59092797 AAACAATGATTTTTCTACTGCATTAATACATCAAAGAGCAGTCCTTAAAATAATATATTTTTCCA
1 AAACAACAATTTTTCTGCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATATTTTTCTG
*
59092862 CTGCATTAATACACCAAACAACAATCCTTAAAACAACATAAATATAGTCACTTAGACAACATTAA
66 CTGCATTAATACACCAAACAACAGTCCTTAAAACAACATAAATATAGTCACTTAGACAACATTAA
59092927 TTGACGA-CT
131 TTGAC-ATCT
*
59092936 AAAAAACAATTTTTCTGCTGCATTAATACACCAAA-AA-AGTCCTTAAAACAACATA
1 AAACAACAATTTTTCTGCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATA
59092991 AATACACCAC
Statistics
Matches: 413, Mismatches: 56, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
137 16 0.04
138 5 0.01
139 379 0.92
140 13 0.03
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.29
Consensus pattern (139 bp):
AAACAACAATTTTTCTGCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATATTTTTCTG
CTGCATTAATACACCAAACAACAGTCCTTAAAACAACATAAATATAGTCACTTAGACAACATTAA
TTGACATCT
Found at i:59092555 original size:91 final size:92
Alignment explanation
Indices: 59092304--59092576 Score: 297
Period size: 91 Copynumber: 2.9 Consensus size: 92
59092294 ATAAATTTAC
* ** * *
59092304 AGTCACTTAGATAACATTAATTGATGTCTAAACAAC-ATTTTTTTGCTGCATTAAAACACCAAAC
1 AGTCACTTAGACAACATTAATTGACATCTAAACAACAATTTTTCTGCTGCATTAATACACCAAAC
** *
59092368 AACAGTCCTTAAAACAACATATTTTTT
66 AACAGTCCTTAAAACAACATATAATAT
* * * *
59092395 TGCTGCA-TTAATACACCA--AA-TAACAGTCCTTAAAACAACATATTTTTCTGCTGCATTAATA
1 AG-T-CACTT-AGACAACATTAATTGACA-T-C-T-AAACAACA-ATTTTTCTGCTGCATTAATA
* *
59092456 CACCAAACATCAGTCCTTAAAACACCATA-AATAT
58 CACCAAACAACAGTCCTTAAAACAACATATAATAT
*
59092490 AGTCACTTAGACAACATTAATTGACATCTAAACAACAATTTTTCTGCTGCATTAATACACTAAAC
1 AGTCACTTAGACAACATTAATTGACATCTAAACAACAATTTTTCTGCTGCATTAATACACCAAAC
59092555 AACAGTCCTTAAAACAACATAT
66 AACAGTCCTTAAAACAACATAT
59092577 TTTTTTGCTG
Statistics
Matches: 147, Mismatches: 21, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
90 2 0.01
91 50 0.34
92 12 0.08
93 17 0.12
94 11 0.07
95 6 0.04
96 49 0.33
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (92 bp):
AGTCACTTAGACAACATTAATTGACATCTAAACAACAATTTTTCTGCTGCATTAATACACCAAAC
AACAGTCCTTAAAACAACATATAATAT
Found at i:59092616 original size:48 final size:48
Alignment explanation
Indices: 59092333--59092484 Score: 245
Period size: 48 Copynumber: 3.2 Consensus size: 48
59092323 ATTGATGTCT
*
59092333 AAACAAC--ATTTTTTTGCTGCATTAAAACACCAAACAACAGTCCTTA
1 AAACAACATATTTTTTTGCTGCATTAATACACCAAACAACAGTCCTTA
*
59092379 AAACAACATATTTTTTTGCTGCATTAATACACCAAATAACAGTCCTTA
1 AAACAACATATTTTTTTGCTGCATTAATACACCAAACAACAGTCCTTA
* *
59092427 AAACAACATATTTTTCTGCTGCATTAATACACCAAACATCAGTCCTTA
1 AAACAACATATTTTTTTGCTGCATTAATACACCAAACAACAGTCCTTA
*
59092475 AAACACCATA
1 AAACAACATA
59092485 AATATAGTCA
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
46 7 0.07
48 91 0.93
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.30
Consensus pattern (48 bp):
AAACAACATATTTTTTTGCTGCATTAATACACCAAACAACAGTCCTTA
Found at i:59092733 original size:48 final size:47
Alignment explanation
Indices: 59092657--59092756 Score: 103
Period size: 48 Copynumber: 2.1 Consensus size: 47
59092647 AATTGATGCC
* * * * *
59092657 AAAACAACA-ATTTTTCTTCTGCAGTAATACACCAAACAGCTGCCCTT
1 AAAACAACATATTTTT-TGCTGCATTAATACACCAAACAACAGTCCTT
* *
59092704 AAAACAACATATTTTTCTGCTACATTAATACACCAAACAGCAGTCCTT
1 AAAACAACATATTTTT-TGCTGCATTAATACACCAAACAACAGTCCTT
59092752 CAAAA
1 -AAAA
59092757 AAAATAAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 9 0.20
48 33 0.72
49 4 0.09
ACGTcount: A:0.40, C:0.26, G:0.07, T:0.27
Consensus pattern (47 bp):
AAAACAACATATTTTTTGCTGCATTAATACACCAAACAACAGTCCTT
Found at i:59100844 original size:14 final size:13
Alignment explanation
Indices: 59100818--59100902 Score: 52
Period size: 13 Copynumber: 6.5 Consensus size: 13
59100808 TATCTGATGT
59100818 TCTATTTCATATA
1 TCTATTTCATATA
59100831 TCTATTTCCATATA
1 TCTATTT-CATATA
* * *
59100845 ACCAATTCATATA
1 TCTATTTCATATA
* *
59100858 -CCATTTTCGTATA
1 TCTA-TTTCATATA
*
59100871 ACTGA-TTCATATAA
1 TCT-ATTTCATAT-A
59100885 TC-ATTTCATATA
1 TCTATTTCATATA
59100897 T-TATTT
1 TCTATTT
59100903 TTCATATAAC
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
12 10 0.18
13 33 0.58
14 13 0.23
15 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.02, T:0.47
Consensus pattern (13 bp):
TCTATTTCATATA
Found at i:59100870 original size:26 final size:27
Alignment explanation
Indices: 59100823--59100896 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 27
59100813 GATGTTCTAT
*
59100823 TTCATATATCTATTTCCATATAACCAA
1 TTCATATATCCATTTCCATATAACCAA
* * **
59100850 TTCATATA-CCATTTTCGTATAACTGA
1 TTCATATATCCATTTCCATATAACCAA
59100876 TTCATATAAT-CATTT-CATATA
1 TTCATAT-ATCCATTTCCATATA
59100897 TTATTTTTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 25 0.64
27 14 0.36
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.43
Consensus pattern (27 bp):
TTCATATATCCATTTCCATATAACCAA
Found at i:59100923 original size:40 final size:39
Alignment explanation
Indices: 59100822--59100948 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
59100812 TGATGTTCTA
* * **
59100822 TTTCATATATCTATTTCCATATAACCAATTCATATACCA-T
1 TTTCATATAACTATTT--ATATAACCATTTCATATATTATT
* * *
59100862 TTTCGTATAACTGATTCATATAATCATTTCATATATTATT
1 TTTCATATAACT-ATTTATATAACCATTTCATATATTATT
* *
59100902 TTTCATATAACCTATTTATATAACCATTACCTATATTATT
1 TTTCATATAA-CTATTTATATAACCATTTCATATATTATT
59100942 TTTCATA
1 TTTCATA
59100949 AACATTATAA
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 17 0.24
40 50 0.69
41 5 0.07
ACGTcount: A:0.34, C:0.17, G:0.02, T:0.47
Consensus pattern (39 bp):
TTTCATATAACTATTTATATAACCATTTCATATATTATT
Found at i:59101109 original size:40 final size:40
Alignment explanation
Indices: 59101044--59101148 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
59101034 CCAATGTTCT
* * *
59101044 ATTTCATTTATCTATTTTCCATATAATTGATTCATATAACC
1 ATTTCATATATC-ATTTTTCATATAACTGATTCATATAACC
*
59101085 ATTTCATATATCATTTTTCATATAACTGATTCATATAACG
1 ATTTCATATATCATTTTTCATATAACTGATTCATATAACC
* * *
59101125 ACTACCTATATCATTTTTCATATA
1 ATTTCATATATCATTTTTCATATA
59101149 CATATTTATC
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
40 46 0.81
41 11 0.19
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (40 bp):
ATTTCATATATCATTTTTCATATAACTGATTCATATAACC
Found at i:59101123 original size:13 final size:13
Alignment explanation
Indices: 59101063--59101123 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
59101053 ATCTATTTTC
*
59101063 CATATAATTGATT
1 CATATAACTGATT
*
59101076 CATATAAC-CATTT
1 CATATAACTGA-TT
* **
59101089 CATATATCATTTTT
1 CATATAAC-TGATT
59101103 CATATAACTGATT
1 CATATAACTGATT
59101116 CATATAAC
1 CATATAAC
59101124 GACTACCTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
12 1 0.03
13 27 0.73
14 9 0.24
ACGTcount: A:0.38, C:0.16, G:0.03, T:0.43
Consensus pattern (13 bp):
CATATAACTGATT
Found at i:59107721 original size:8 final size:8
Alignment explanation
Indices: 59107705--59107760 Score: 76
Period size: 8 Copynumber: 7.0 Consensus size: 8
59107695 AACTGCAAAG
59107705 GCTGAAAA
1 GCTGAAAA
*
59107713 GCCGAAAA
1 GCTGAAAA
*
59107721 GCTGAAAG
1 GCTGAAAA
59107729 GCTGAAAA
1 GCTGAAAA
* *
59107737 GCCGAAAG
1 GCTGAAAA
59107745 GCTGAAAA
1 GCTGAAAA
59107753 GCTGAAAA
1 GCTGAAAA
59107761 AGTGGGTTGA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 40 1.00
ACGTcount: A:0.46, C:0.16, G:0.29, T:0.09
Consensus pattern (8 bp):
GCTGAAAA
Found at i:59107728 original size:24 final size:24
Alignment explanation
Indices: 59107701--59107760 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
59107691 GTGAAACTGC
59107701 AAAGGCTGAAAAGCCGAAAAGCTG
1 AAAGGCTGAAAAGCCGAAAAGCTG
*
59107725 AAAGGCTGAAAAGCCGAAAGGCTG
1 AAAGGCTGAAAAGCCGAAAAGCTG
*
59107749 AAAAGCTGAAAA
1 AAAGGCTGAAAA
59107761 AGTGGGTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.48, C:0.15, G:0.28, T:0.08
Consensus pattern (24 bp):
AAAGGCTGAAAAGCCGAAAAGCTG
Found at i:59111327 original size:131 final size:131
Alignment explanation
Indices: 59110946--59111330 Score: 359
Period size: 131 Copynumber: 2.9 Consensus size: 131
59110936 CATTCATTCA
* * * * * *
59110946 AAAAATTCTTTAAAACGAAGGCGA-GATTTGATATTTGGCAATTCGCGGAATCGTGCCCTAACGT
1 AAAAATCCTTTAAAACGAAGGCGATG-TTCGATGTTTGGCTATTCG-GGAATCGAGCCCTATCGT
* * * *
59111010 GCTGGGTTGCAATTTCTCGTTTGCTT-AAAATAATCAAAAATCCCTTCAAAATTTCACTCAGGTC
64 GCTGGGTTGCGATTTCTCGTTTG-TTCAAAACAATCGAAAATCCCTTCAGAATTTCACTCAGGTC
59111074 TTCT
128 TTCT
** ** * ** *
59111078 AAAAATCCTTTAAAACGAAGGTAATACTCGGTGTTT-AATAATTCGGGAATC-ATGCCTTATCGT
1 AAAAATCCTTTAAAACGAAGGCGATGTTCGATGTTTGGCT-ATTCGGGAATCGA-GCCCTATCGT
* * * * * ** * *
59111141 ACTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTAGGTTTTCATTCATGT-T
64 GCTGGGTTGCGATTTCTCGTTTGTTCAAAACAATCGAAAATCCCTTCAGAATTTCACTCAGGTCT
*
59111205 TATT
129 T-CT
* *
59111209 AAAAA-CCTTTCAAAACGAAGGCGATGTTCGATGTTTGGCTATTTGAGAATCGAGCCCTATCGTG
1 AAAAATCCTTT-AAAACGAAGGCGATGTTCGATGTTTGGCTATTCGGGAATCGAGCCCTATCGTG
* * * *
59111273 CTGGGTTGCGCTTTTTCATTTGTTCAAAACAATCGAAGATCCCTTCAGAATTTCACTC
65 CTGGGTTGCGATTTCTCGTTTGTTCAAAACAATCGAAAATCCCTTCAGAATTTCACTC
59111331 GTATTTCCTA
Statistics
Matches: 196, Mismatches: 49, Indels: 17
0.75 0.19 0.06
Matches are distributed among these distances:
130 9 0.05
131 153 0.78
132 34 0.17
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (131 bp):
AAAAATCCTTTAAAACGAAGGCGATGTTCGATGTTTGGCTATTCGGGAATCGAGCCCTATCGTGC
TGGGTTGCGATTTCTCGTTTGTTCAAAACAATCGAAAATCCCTTCAGAATTTCACTCAGGTCTTC
T
Found at i:59115977 original size:26 final size:26
Alignment explanation
Indices: 59115948--59116003 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
59115938 TGATACAAAT
59115948 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
59115974 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59116000 TGAT
1 TGAT
59116004 GGGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:59117639 original size:27 final size:26
Alignment explanation
Indices: 59117599--59117703 Score: 129
Period size: 27 Copynumber: 3.9 Consensus size: 26
59117589 AGGAAGCGTC
*
59117599 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAA-TATCTGAT
*
59117626 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
*
59117653 CTGGTGGCTCTTCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTG-AT
* * *
59117680 CTGGTGACTCCGTCACAATATCTG
1 CTGGTGGCTCTGCCACAATATCTG
59117704 GCAGCCTCGT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
26 7 0.10
27 60 0.88
28 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:59122635 original size:26 final size:26
Alignment explanation
Indices: 59122606--59122710 Score: 183
Period size: 26 Copynumber: 4.0 Consensus size: 26
59122596 TGATACAAAT
59122606 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
59122632 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
59122658 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
59122684 TGATAATGGGTTAGGTAAAAGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59122710 T
1 T
59122711 AATGGGAATT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:59124340 original size:27 final size:27
Alignment explanation
Indices: 59124301--59124387 Score: 108
Period size: 27 Copynumber: 3.2 Consensus size: 27
59124291 AGGAAGCGTC
*
59124301 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCCATGCCACAATTATCTGAT
*
59124328 CTGGTGGCCATGCCAC-ATATATCTGTT
1 CTGGTGGCCATGCCACAAT-TATCTGAT
59124355 CTGGTGGCTC-TGCCACAA-TATCTGTAT
1 CTGGTGGC-CATGCCACAATTATCTG-AT
59124382 CTGGTG
1 CTGGTG
59124388 ACACCGTCAC
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
26 8 0.15
27 43 0.81
28 2 0.04
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.33
Consensus pattern (27 bp):
CTGGTGGCCATGCCACAATTATCTGAT
Found at i:59124398 original size:27 final size:26
Alignment explanation
Indices: 59124312--59124405 Score: 82
Period size: 27 Copynumber: 3.5 Consensus size: 26
59124302 TGGTGGCTAT
* * *
59124312 GCCACAATTATCTGATCTGGTGGC-CAT
1 GCCACAA-TATCTGTTCTGGTGACAC-C
* * *
59124339 GCCACATATATCTGTTCTGGTGGCTCT
1 GCCACA-ATATCTGTTCTGGTGACACC
59124366 GCCACAATATCTGTATCTGGTGACACC
1 GCCACAATATCTGT-TCTGGTGACACC
*
59124393 GTCACAATATCTG
1 GCCACAATATCTG
59124406 GCAGCCTCGC
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
26 8 0.14
27 49 0.83
28 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (26 bp):
GCCACAATATCTGTTCTGGTGACACC
Found at i:59125455 original size:14 final size:14
Alignment explanation
Indices: 59125436--59125465 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
59125426 AACTCTTAAT
*
59125436 CTGCTCTACTGCAA
1 CTGCTCCACTGCAA
59125450 CTGCTCCACTGCAA
1 CTGCTCCACTGCAA
59125464 CT
1 CT
59125466 TCAGGGAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.40, G:0.13, T:0.27
Consensus pattern (14 bp):
CTGCTCCACTGCAA
Found at i:59125597 original size:45 final size:45
Alignment explanation
Indices: 59125539--59125761 Score: 226
Period size: 45 Copynumber: 5.0 Consensus size: 45
59125529 GTGACTTCGA
59125539 TCTGCTCCACTGCAACTTTAGGGAGATAAGATCTGCTATCTTCAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATCTGCTATCTTCAG
* * *
59125584 TCTGCTCCACTGCAAATTTAGGGAGATAAGA-CTTGGGTAAT-TTTA-
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATC-T-GCT-ATCTTCAG
* * ** *
59125629 TCCTGCTCTACTGCAACTTTAGAGAGATAAGGAT-TG-TGGCTTCAA
1 T-CTGCTCCACTGCAACTTTAGGGAGATAA-GATCTGCTATCTTCAG
* * *
59125674 TCTGCTCCACTGCAACTTCAGGGAGATAAGGTATGCTATCTTCAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATCTGCTATCTTCAG
* *
59125719 TTTGCTCCACTGCAACTTCAGGGAGATAAGA-CTTGCTA-CTTCA
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGATC-TGCTATCTTCA
59125762 ACCCGCTCTG
Statistics
Matches: 148, Mismatches: 19, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
43 2 0.01
44 37 0.25
45 74 0.50
46 31 0.21
47 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTTAGGGAGATAAGATCTGCTATCTTCAG
Found at i:59125650 original size:46 final size:44
Alignment explanation
Indices: 59125450--59125749 Score: 173
Period size: 45 Copynumber: 6.7 Consensus size: 44
59125440 TCTACTGCAA
* * * *
59125450 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCGTATTTTTAT
1 CTGCTCCACTGCAACTTTAGGGAGATAA-GATTGGGTAATTTTAT
* * * * ** * * * **
59125495 CCTACTCTATTGCAACTTCATAGAGATACGGATTGTG-ACTTCGAT
1 -CTGCTCCACTGCAACTTTAGGGAGATA-AGATTGGGTAATTTTAT
* *
59125540 CTGCTCCACTGCAACTTTAGGGAGATAAGATCT-GCT-ATCTTCAGT
1 CTGCTCCACTGCAACTTTAGGGAGATAAGAT-TGGGTAAT-TTTA-T
*
59125585 CTGCTCCACTGCAAATTTAGGGAGATAAGACTTGGGTAATTTTAT
1 CTGCTCCACTGCAACTTTAGGGAGATAAGA-TTGGGTAATTTTAT
* * * **
59125630 CCTGCTCTACTGCAACTTTAGAGAGATAAGGATTGTGG--CTTCAAT
1 -CTGCTCCACTGCAACTTTAGGGAGATAA-GATTG-GGTAATTTTAT
* * * *
59125675 CTGCTCCACTGCAACTTCAGGGAGATAAGGTAT-GCT-ATCTTCAGT
1 CTGCTCCACTGCAACTTTAGGGAGATAAGAT-TGGGTAAT-TTTA-T
* *
59125720 TTGCTCCACTGCAACTTCAGGGAGATAAGA
1 CTGCTCCACTGCAACTTTAGGGAGATAAGA
59125750 CTTGCTACTT
Statistics
Matches: 197, Mismatches: 42, Indels: 31
0.73 0.16 0.11
Matches are distributed among these distances:
42 1 0.01
43 7 0.04
44 52 0.26
45 70 0.36
46 61 0.31
47 6 0.03
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTTAGGGAGATAAGATTGGGTAATTTTAT
Found at i:59125677 original size:135 final size:135
Alignment explanation
Indices: 59125450--59125793 Score: 458
Period size: 135 Copynumber: 2.6 Consensus size: 135
59125440 TCTACTGCAA
** * *
59125450 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCGTATTTTTATCCTACTCTATTGCAACTTCA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCGTAATTTTATCCTACTCTACTGCAACTTCA
* * * * *
59125515 TAGAGATACGGATTGTGACTTCGATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTGCTATCT
66 GAGAGATAAGGATTGTGACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATATGCTATCT
59125580 TCAGT
131 TCAGT
* * * * *
59125585 CTGCTCCACTGCAAATTTAGGGAGATAAGACTTGGGTAATTTTATCCTGCTCTACTGCAACTTTA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCGTAATTTTATCCTACTCTACTGCAACTTCA
* *
59125650 GAGAGATAAGGATTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTATGCTATCT
66 GAGAGATAAGGATTGTGACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATATGCTATCT
59125715 TCAGT
131 TCAGT
* * * * ** **
59125720 TTGCTCCACTGCAACTTCAGGGAGATAAGACTTGC-T-ACTTCAACCCGCTCTGTTGCAACTTCA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCGTAATTTTATCCTACTCTACTGCAACTTCA
59125783 GAGAGATAAGG
66 GAGAGATAAGG
59125794 TTTGCTATGA
Statistics
Matches: 182, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
133 31 0.17
134 1 0.01
135 150 0.82
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (135 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCGTAATTTTATCCTACTCTACTGCAACTTCA
GAGAGATAAGGATTGTGACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATATGCTATCT
TCAGT
Found at i:59125762 original size:89 final size:86
Alignment explanation
Indices: 59125450--59125801 Score: 253
Period size: 89 Copynumber: 3.9 Consensus size: 86
59125440 TCTACTGCAA
* * * ** * * *
59125450 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCGTATTTTTATCCTACTCTATTGCAACTTCA
1 CTGCTCCACTGCAACTTTAGGGAGATAA-GATTGC-TACTTCAAT-CTGCTCCACTGCAACTTCA
** * *
59125515 TAGAGATACGGATTG-TGACTTCGAT-
63 GGGAGATAAGG-TTGCT-ATTTC-ATC
* * *
59125540 CTGCTCCACTGCAACTTTAGGGAGATAAGATCTGCTATCTTCAGTCTGCTCCACTGCAAATTTAG
1 CTGCTCCACTGCAACTTTAGGGAGATAAGAT-TGCTA-CTTCAATCTGCTCCACTGCAACTTCAG
* * *
59125605 GGAGATAAGACTTGGGTAATTTTATC
64 GGAGATAAG-GTT-GCT-ATTTCATC
* * *
59125631 CTGCTCTACTGCAACTTTAGAGAGATAAGGATTG-TGGCTTCAATCTGCTCCACTGCAACTTCAG
1 CTGCTCCACTGCAACTTTAGGGAGATAA-GATTGCT-ACTTCAATCTGCTCCACTGCAACTTCAG
59125695 GGAGATAAGGTATGCTATCTTCAGT-
64 GGAGATAAGGT-TGCTAT-TTCA-TC
* * * * *** *
59125720 TTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTACTTCAACCCGCTCTGTTGCAACTTCAGA
1 CTGCTCCACTGCAACTTTAGGGAGATAAGA-TTGCTACTTCAATCTGCTCCACTGCAACTTCAGG
59125785 GAGATAAGGTTTGCTAT
65 GAGATAAGG-TTGCTAT
59125802 GATGACTTAA
Statistics
Matches: 210, Mismatches: 38, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
88 4 0.02
89 97 0.46
90 74 0.35
91 32 0.15
92 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (86 bp):
CTGCTCCACTGCAACTTTAGGGAGATAAGATTGCTACTTCAATCTGCTCCACTGCAACTTCAGGG
AGATAAGGTTGCTATTTCATC
Found at i:59125799 original size:44 final size:44
Alignment explanation
Indices: 59125441--59125800 Score: 249
Period size: 44 Copynumber: 8.1 Consensus size: 44
59125431 TTAATCTGCT
* *
59125441 CTACTGCAA-CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG
1 CTACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTG
* ** * * * * * *
59125484 CGTATTTTTATCCTACTCTATTGCAACTTCATAGAGATACGGATTG
1 C-TACTTCAAT-CTGCTCCACTGCAACTTCAGAGAGATAAGGTTTG
* * * * *
59125530 -TGACTTCGATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTG
1 CT-ACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTG
* * * * * *
59125574 CTATCTTCAGTCTGCTCCACTGCAAATTTAGGGAGATAAGACTTGG
1 CTA-CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAG-GTTTG
* * ** * * *
59125620 GTAATTTTATCCTGCTCTACTGCAACTTTAGAGAGATAAGGATTG
1 CTACTTCAAT-CTGCTCCACTGCAACTTCAGAGAGATAAGGTTTG
* * *
59125665 -TGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTATG
1 CT-ACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTG
* * * **
59125709 CTATCTTCAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
1 CTA-CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTG
* * ***
59125754 CTACTTCAACCCGCTCTGTTGCAACTTCAGAGAGATAAGGTTTG
1 CTACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTG
59125798 CTA
1 CTA
59125801 TGATGACTTA
Statistics
Matches: 240, Mismatches: 66, Indels: 21
0.73 0.20 0.06
Matches are distributed among these distances:
43 1 0.00
44 94 0.39
45 88 0.37
46 57 0.24
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
CTACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTG
Found at i:59128228 original size:20 final size:21
Alignment explanation
Indices: 59128205--59128246 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
59128195 GTTACATACG
*
59128205 TATATAGTATGTGTATT-TTA
1 TATATAGTATGTATATTATTA
*
59128225 TATATATTATGTATATTATTA
1 TATATAGTATGTATATTATTA
59128246 T
1 T
59128247 TTTTACTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (21 bp):
TATATAGTATGTATATTATTA
Found at i:59128325 original size:21 final size:21
Alignment explanation
Indices: 59128296--59128335 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
59128286 ATTCATGTAT
*
59128296 TTTATTATATATGTATATATC
1 TTTAATATATATGTATATATC
*
59128317 TTTAATATATATTTATATA
1 TTTAATATATATGTATATA
59128336 AGTATATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTAATATATATGTATATATC
Found at i:59128435 original size:24 final size:25
Alignment explanation
Indices: 59128408--59128458 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
59128398 ATGTGTGTAC
59128408 ATATTATGTAAATGTTTTA-ATATT
1 ATATTATGTAAATGTTTTATATATT
**
59128432 ATATTATGTGTATGTTTTATATATT
1 ATATTATGTAAATGTTTTATATATT
59128457 AT
1 AT
59128459 GAACATGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (25 bp):
ATATTATGTAAATGTTTTATATATT
Found at i:59132663 original size:4 final size:4
Alignment explanation
Indices: 59132656--59132683 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
59132646 GACATTTATG
59132656 CATT CATT CATT CATT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT
59132684 GCATATCCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
CATT
Found at i:59140070 original size:40 final size:39
Alignment explanation
Indices: 59140026--59140145 Score: 127
Period size: 39 Copynumber: 2.9 Consensus size: 39
59140016 AAATATTATG
59140026 CTTAAAAAAGGAA-ATCAAGATGAAAACCCGAAAAGGGCAT
1 CTTAAAAAA--AAGATCAAGATGAAAACCCGAAAAGGGCAT
* *
59140066 CTTAAAAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGT
1 CTTAAAAAAAAGATCAAGATGAAAACCCGAAAAGGGCAT
* *
59140105 CTTGATTAACACAAAAGATTAGGATGAAAACCCG-AAAGGGC
1 CTT-A--AA-A-AAAAGATCAAGATGAAAACCCGAAAAGGGC
59140146 GTTCTAATGA
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
38 2 0.03
39 28 0.41
40 10 0.14
42 2 0.03
43 8 0.12
44 19 0.28
ACGTcount: A:0.48, C:0.16, G:0.22, T:0.14
Consensus pattern (39 bp):
CTTAAAAAAAAGATCAAGATGAAAACCCGAAAAGGGCAT
Found at i:59141309 original size:178 final size:177
Alignment explanation
Indices: 59141099--59142022 Score: 1159
Period size: 178 Copynumber: 5.2 Consensus size: 177
59141089 TATGTTTCAA
* * *
59141099 AAAAATCAACTCATATTGCGAAAGGCGAGTTGAGCCTCAGAACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
*
59141164 AATTTCTGCTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
66 AATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
59141229 GTATTTTCAATTTCTATTCTTTCAATTTCTGTTTTAATTCATGTTTTC
131 GTATTTTCAATTTCT-TTCTTTCAATTTCTGTTTTAATTCATGTTTTC
59141277 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* ** *
59141342 TATTTCTGCTTTTCAAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTCAGGAAACGCTGAG
66 AATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
59141407 GTATTTTCAATTTCTGTTCTTTCAATTTCTGTTTTAATTCATGTTTTC
131 GTATTTTCAATTTCT-TTCTTTCAATTTCTGTTTTAATTCATGTTTTC
59141455 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
*
59141520 TATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
66 AATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
* *
59141585 GTATTTTCAATTTCTGTTCTTGCAATTTCTATTTTAATTCATGTTTTC
131 GTATTTTCAATTTCT-TTCTTTCAATTTCTGTTTTAATTCATGTTTTC
*
59141633 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* *
59141698 TGTTATTTTCCAAT-CTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
66 ----AATTT-C--TGC-----TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* * * * ** ** *
59141762 GGCACATGCCGAGGTATTTTCAAATTCTGTCTTTCAAACTCTGTTTTTAATTTTTACTTTTC
119 GG-ACACGCTGAGGTATTTTCAATTTCTTTCTTTCAATTTCTG-TTTTAATTCAT-GTTTTC
* * * * * ** *
59141824 AAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGG-CTCGC--ATGTCGAGGT-ATTT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-AATTTCAATT
* * * * * *
59141884 TCAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAACCTC-GGCTCAC-AT
64 TCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCT
**
59141947 GATGG---GGT--A----TTTC---CAATTTCTGTTTTAATTCATGTTTTC
128 GA-GGTATTTTCAATTTCTTTCTTTCAATTTCTGTTTTAATTCATGTTTTC
59141986 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
59142023 TTTAATTTCT
Statistics
Matches: 673, Mismatches: 54, Indels: 55
0.86 0.07 0.07
Matches are distributed among these distances:
161 31 0.05
162 10 0.01
163 9 0.01
164 7 0.01
167 3 0.00
171 1 0.00
173 1 0.00
175 2 0.00
176 7 0.01
177 40 0.06
178 408 0.61
181 1 0.00
182 3 0.00
183 2 0.00
184 5 0.01
185 1 0.00
188 8 0.01
189 56 0.08
190 35 0.05
191 12 0.02
192 31 0.05
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (177 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
AATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
GTATTTTCAATTTCTTTCTTTCAATTTCTGTTTTAATTCATGTTTTC
Found at i:59141384 original size:79 final size:79
Alignment explanation
Indices: 59141272--59141421 Score: 264
Period size: 79 Copynumber: 1.9 Consensus size: 79
59141262 TTAATTCATG
* *
59141272 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGAAACGCTGAGGTAATTTCA
59141337 ATTTCTATTTCTGC
66 ATTTCTATTTCTGC
* *
59141351 TTTTCAAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTCAGGAAACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGAAACGCTGAGGTAATTTCA
59141416 ATTTCT
66 ATTTCT
59141422 GTTCTTTCAA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (79 bp):
TTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGAAACGCTGAGGTAATTTCA
ATTTCTATTTCTGC
Found at i:59141431 original size:15 final size:15
Alignment explanation
Indices: 59141411--59141439 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
59141401 GCTGAGGTAT
59141411 TTTCAATTTCTGTTC
1 TTTCAATTTCTGTTC
59141426 TTTCAATTTCTGTT
1 TTTCAATTTCTGTT
59141440 TTAATTCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.17, G:0.07, T:0.62
Consensus pattern (15 bp):
TTTCAATTTCTGTTC
Found at i:59141562 original size:79 final size:79
Alignment explanation
Indices: 59141450--59141599 Score: 291
Period size: 79 Copynumber: 1.9 Consensus size: 79
59141440 TTAATTCATG
59141450 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
59141515 ATTTCTATTTCTGC
66 ATTTCTATTTCTGC
*
59141529 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
59141594 ATTTCT
66 ATTTCT
59141600 GTTCTTGCAA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 70 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (79 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
ATTTCTATTTCTGC
Found at i:59141700 original size:99 final size:95
Alignment explanation
Indices: 59141529--59141861 Score: 415
Period size: 99 Copynumber: 3.4 Consensus size: 95
59141519 CTATTTCTGC
59141529 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
59141594 ATTTCTGTTCTTGCAATTTCTATTTTAATTCAT
66 ATTTCTG-TCTT-CAATTTCTATTTTAATT-AT
59141627 GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
1 -TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
* * * *
59141692 AATTTCTG--TT-ATTTTCCAATCT-A-TAT
65 AATTTCTGTCTTCAATTTCTATTTTAATTAT
* * *
59141718 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACATGCCGAGGTATTTTC
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTATTTTC
* ** * *
59141783 AAATTCTGTCTTTCAAACTCTGTTTTTAATTTTTAC
65 AATTTCTGTC-TTCAATTTCT-ATTTTAA---TTAT
*
59141819 TTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 TTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCT
59141862 TGGCTCGCAT
Statistics
Matches: 205, Mismatches: 17, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
90 45 0.22
91 25 0.12
92 1 0.00
93 1 0.00
94 10 0.05
95 3 0.01
96 4 0.02
97 1 0.00
99 72 0.35
101 12 0.06
102 31 0.15
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (95 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
ATTTCTGTCTTCAATTTCTATTTTAATTAT
Found at i:59141942 original size:75 final size:76
Alignment explanation
Indices: 59141819--59141972 Score: 231
Period size: 75 Copynumber: 2.0 Consensus size: 76
59141809 TAATTTTTAC
* * * *
59141819 TTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCGCATG-TCGAGGTATT
1 TTTTCAAAAACTCAACTCATATTGCAAGAAGTGAGTTGAACCTCGGCTCACATGAT-GAGGTATT
*
59141883 TTCAATTTCTGT
65 TCCAATTTCTGT
*
59141895 TTTTCAAAAA-TCAACTCATATTGCAAGAAGTGAGTTGAACCTCGGCTCACATGATGGGGTATTT
1 TTTTCAAAAACTCAACTCATATTGCAAGAAGTGAGTTGAACCTCGGCTCACATGATGAGGTATTT
59141959 CCAATTTCTGT
66 CCAATTTCTGT
59141970 TTT
1 TTT
59141973 AATTCATGTT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
75 60 0.85
76 11 0.15
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (76 bp):
TTTTCAAAAACTCAACTCATATTGCAAGAAGTGAGTTGAACCTCGGCTCACATGATGAGGTATTT
CCAATTTCTGT
Found at i:59144218 original size:20 final size:21
Alignment explanation
Indices: 59144195--59144236 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
59144185 GTTATATACG
*
59144195 TATATAGTATGTGTATT-TTA
1 TATATAGTATGTATATTATTA
*
59144215 TATATATTATGTATATTATTA
1 TATATAGTATGTATATTATTA
59144236 T
1 T
59144237 TTTTACTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (21 bp):
TATATAGTATGTATATTATTA
Found at i:59144315 original size:21 final size:21
Alignment explanation
Indices: 59144286--59144325 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
59144276 ATTCATGTAT
*
59144286 TTTATTATATATGTATATATC
1 TTTAATATATATGTATATATC
*
59144307 TTTAATATATATTTATATA
1 TTTAATATATATGTATATA
59144326 AGTATATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTAATATATATGTATATATC
Found at i:59144425 original size:24 final size:25
Alignment explanation
Indices: 59144398--59144448 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
59144388 ATGTGTGTAC
59144398 ATATTATGTAAATGTTTTA-ATATT
1 ATATTATGTAAATGTTTTATATATT
**
59144422 ATATTATGTGTATGTTTTATATATT
1 ATATTATGTAAATGTTTTATATATT
59144447 AT
1 AT
59144449 GAACATGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (25 bp):
ATATTATGTAAATGTTTTATATATT
Found at i:59152634 original size:34 final size:33
Alignment explanation
Indices: 59152586--59152665 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 33
59152576 GTGTTTGCAT
* *
59152586 ACTGTACTGAAATGGGCT-AAGGTCCAGACTGCC
1 ACTGTACTGTAATGGGATCAA-GTCCAGACTGCC
**
59152619 ACTGATACTGTAATGGGATCAAGTCCAGACTGTT
1 ACTG-TACTGTAATGGGATCAAGTCCAGACTGCC
59152653 ACTGCTACTGTAA
1 ACTG-TACTGTAA
59152666 GAGGGGCTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
33 4 0.10
34 34 0.85
35 2 0.05
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (33 bp):
ACTGTACTGTAATGGGATCAAGTCCAGACTGCC
Found at i:59153563 original size:28 final size:28
Alignment explanation
Indices: 59153494--59153549 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
59153484 TTAATGTTTT
*
59153494 AAATCTTTTAATATAATTTAATATAAAA
1 AAATCTTTTAAAATAATTTAATATAAAA
59153522 AAATCTTTTAAAATAATTTAATATAAAA
1 AAATCTTTTAAAATAATTTAATATAAAA
59153550 TATTATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (28 bp):
AAATCTTTTAAAATAATTTAATATAAAA
Found at i:59153630 original size:23 final size:25
Alignment explanation
Indices: 59153578--59153636 Score: 79
Period size: 23 Copynumber: 2.4 Consensus size: 25
59153568 GAAAATATGA
*
59153578 AATAAAATATTCTAATATAATTTAT
1 AATAAAATATTCAAATATAATTTAT
59153603 AATAAAATATT-AAAT-TAATTTGAT
1 AATAAAATATTCAAATATAATTT-AT
59153627 -ATAAAATATT
1 AATAAAATATT
59153637 TGATATTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 16 0.50
24 5 0.16
25 11 0.34
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
AATAAAATATTCAAATATAATTTAT
Found at i:59153657 original size:21 final size:21
Alignment explanation
Indices: 59153633--59153688 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
59153623 TGATATAAAA
*
59153633 TATTTGATATTTAAATATTAT
1 TATTTGATATTAAAATATTAT
**
59153654 TATTTTGATAGAAAAATATTAT
1 TA-TTTGATATTAAAATATTAT
* *
59153676 TCTTTAATATTAA
1 TATTTGATATTAA
59153689 CTTGACGTGG
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (21 bp):
TATTTGATATTAAAATATTAT
Found at i:59157107 original size:29 final size:27
Alignment explanation
Indices: 59157071--59157129 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 27
59157061 GCTCTTTTTT
*
59157071 ATTTTTTTGAATTTTTATAATTTTATAA
1 ATTTTTTTGAATTTTTATAAATTT-TAA
*
59157099 ATTTCTTTTGTATTTTTATAAATTTTAA
1 ATTT-TTTTGAATTTTTATAAATTTTAA
59157127 ATT
1 ATT
59157130 ATTTATCGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 10 0.36
29 18 0.64
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (27 bp):
ATTTTTTTGAATTTTTATAAATTTTAA
Found at i:59157586 original size:31 final size:34
Alignment explanation
Indices: 59157551--59157614 Score: 98
Period size: 31 Copynumber: 2.0 Consensus size: 34
59157541 TAACATTATA
*
59157551 AAAATATAGAGA-TAAAT-TTATA-TTAAAAATT
1 AAAATATAGAGATTAAATCTTAAATTTAAAAATT
59157582 AAAATATAGAGATTAAATCTTAAATTTAAAAAT
1 AAAATATAGAGATTAAATCTTAAATTTAAAAAT
59157615 AATAGAAGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 12 0.41
32 5 0.17
33 4 0.14
34 8 0.28
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (34 bp):
AAAATATAGAGATTAAATCTTAAATTTAAAAATT
Found at i:59170236 original size:12 final size:11
Alignment explanation
Indices: 59170215--59170241 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
59170205 AAAAATATCA
59170215 AAAATATTTTT
1 AAAATATTTTT
59170226 AAAATATTTTT
1 AAAATATTTTT
59170237 AAAAT
1 AAAAT
59170242 TTAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:59170272 original size:19 final size:19
Alignment explanation
Indices: 59170226--59170274 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
59170216 AAATATTTTT
* * *
59170226 AAAATATTTTTAAAATTTA
1 AAAATAATTATAAAAATTA
59170245 AAAATAATTATAAAAATTA
1 AAAATAATTATAAAAATTA
59170264 TAAAA-AATTAT
1 -AAAATAATTAT
59170275 TTTAATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATAATTATAAAAATTA
Found at i:59175475 original size:26 final size:26
Alignment explanation
Indices: 59175446--59175553 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
59175436 TGGTACAAAT
59175446 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
59175472 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59175498 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
59175524 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59175550 TGAT
1 TGAT
59175554 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:59184315 original size:46 final size:47
Alignment explanation
Indices: 59184166--59184377 Score: 197
Period size: 46 Copynumber: 4.6 Consensus size: 47
59184156 TTATTTGTGT
*
59184166 GCCAGTGTAAGACATGTCTGGGACATGCATCAACCACATA-ATG-AGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAACCTCA-AGATGTAGA
* * * ** **
59184212 GCCAGTGTAAGACTATGTCTTGGACATGGCATCGACATTGAGA-CAAGA
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCAACCTCAAGATGTAGA
* **
59184260 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAACCTCAAGATGTAGA
* *
59184306 GCCAGTGTAAGACATGTCTGGGACATGCAT-TAGCTACAAGATGT---
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAACCT-CAAGATGTAGA
*
59184350 GTCAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
59184378 GCATTGACAC
Statistics
Matches: 139, Mismatches: 20, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
44 11 0.08
45 17 0.12
46 62 0.45
47 26 0.19
48 23 0.17
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAACCTCAAGATGTAGA
Found at i:59184382 original size:46 final size:47
Alignment explanation
Indices: 59184263--59184529 Score: 178
Period size: 46 Copynumber: 5.6 Consensus size: 47
59184253 GACAAGAGCT
** *
59184263 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCT-CAAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTAG-CTACAAGATGT-AGTC
59184309 AGTGTAAGA-CATGTCTGGGACAT-GCATTAGCTACAAGATGT-GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATTAGCTACAAGATGTAGTC
* **
59184353 AGTGTAAGACCATGTCTGGGACATGGCATT-G--ACACGTATAAAGGTGC
1 AGTGTAAGACCATGTCTGGGACATGGCATTAGCTACAAG-ATGTA-GT-C
* * * * * *
59184400 TAATGTAAGACCATGTCTGGGACATGACATCAG-TACGGATATGTGAGAGC
1 -AGTGTAAGACCATGTCTGGGACATGGCATTAGCTAC-AAGATGT-AG-TC
* * * ** *
59184450 TAGTGTAAGACCATGTCTGGGACATGTCGTTAGCCT-CGATTTCGATAGTT
1 -AGTGTAAGACCATGTCTGGGACATGGCATTAG-CTACAAGAT-G-TAGTC
59184500 AGTGTAAGACCATGTCTGGGACATGGCATT
1 AGTGTAAGACCATGTCTGGGACATGGCATT
59184530 GACTTGATGG
Statistics
Matches: 180, Mismatches: 24, Indels: 31
0.77 0.10 0.13
Matches are distributed among these distances:
43 4 0.02
44 13 0.07
45 17 0.09
46 43 0.24
47 1 0.01
48 27 0.15
49 29 0.16
50 39 0.22
51 5 0.03
52 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATTAGCTACAAGATGTAGTC
Found at i:59194168 original size:41 final size:40
Alignment explanation
Indices: 59194033--59194177 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
59194023 CTCGCACAAG
* * * * *
59194033 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
59194073 GCCTTCGGGACTTAGCCCGAATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
59194113 GCCTTC-GAATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
59194154 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
59194178 CATTCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 57 0.65
41 27 0.31
42 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:59195406 original size:38 final size:38
Alignment explanation
Indices: 59195364--59195439 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
59195354 CAAGAACTCC
59195364 TTCCTCCTTCCTTAGAATTTTCGACCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGACCAAAAGAAATGAA
*
59195402 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGACCAAAAGAAATGAA
59195440 AAGGATGAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGACCAAAAGAAATGAA
Found at i:59202055 original size:39 final size:39
Alignment explanation
Indices: 59202010--59202177 Score: 156
Period size: 40 Copynumber: 4.2 Consensus size: 39
59202000 CGGGGTTTAG
** * *
59202010 CCGGATATAACCACTCGCACAAGGCCTTCGGGTCTTAAC
1 CCGGATATAGTCACTAGCACAATGCCTTCGGGTCTTAAC
* * * *
59202049 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCA-CAATGCCTTCGGGTCTTAAC
* **
59202089 CCGGATATAGTCGCTAGCACAAATGCCTTCGGGTCTTAGT
1 CCGGATATAGTCACTAGCAC-AATGCCTTCGGGTCTTAAC
* * * * *
59202129 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTCAC-TAGCAC-AATGCCTTCGGGTCTTAAC
59202170 CCGGATAT
1 CCGGATAT
59202178 CATTCGAATA
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 15 0.14
40 63 0.58
41 30 0.28
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAGTCACTAGCACAATGCCTTCGGGTCTTAAC
Found at i:59202160 original size:41 final size:40
Alignment explanation
Indices: 59202033--59202177 Score: 200
Period size: 40 Copynumber: 3.6 Consensus size: 40
59202023 CTCGCACAAG
* * * * *
59202033 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
59202073 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
59202113 GCCTTCGGGTCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
59202154 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
59202178 CATTCGAATA
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 62 0.67
41 30 0.33
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:59203407 original size:38 final size:38
Alignment explanation
Indices: 59203365--59203440 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
59203355 CAAGAACTCC
59203365 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
59203403 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
59203441 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:59205503 original size:30 final size:32
Alignment explanation
Indices: 59205469--59205541 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 32
59205459 TATTAAACTA
*
59205469 ATATAATATAATATAATAA-TA-ATATTTTAT
1 ATATAATATAATATAATAAGTATATATTTAAT
* *
59205499 ATATACT-TAA-ATATTAAGTATATATTTAAT
1 ATATAATATAATATAATAAGTATATATTTAAT
59205529 ATA-AATA-AATATA
1 ATATAATATAATATA
59205542 TATATATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
28 6 0.17
29 9 0.26
30 20 0.57
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (32 bp):
ATATAATATAATATAATAAGTATATATTTAAT
Found at i:59205678 original size:23 final size:23
Alignment explanation
Indices: 59205651--59205697 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
59205641 AACTTTCATC
59205651 CTTTATTCGATTTAATCCTTATA
1 CTTTATTCGATTTAATCCTTATA
59205674 CTTTATTCGATTTAATCCTTATA
1 CTTTATTCGATTTAATCCTTATA
59205697 C
1 C
59205698 CTAATTAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.19, G:0.04, T:0.51
Consensus pattern (23 bp):
CTTTATTCGATTTAATCCTTATA
Found at i:59206229 original size:58 final size:58
Alignment explanation
Indices: 59206165--59206293 Score: 150
Period size: 58 Copynumber: 2.2 Consensus size: 58
59206155 CTTCACGAAT
* * * **
59206165 CCTTTGGGCTCTTAACAAAGTTGAGGTATATCTTCATTATTCAAGCCCCTCTGTGAAC
1 CCTTTGGGCTCTCAACAAAGATGAGGCATATCTTCAACATTCAAGCCCCTCTGTGAAC
* ** * ** *
59206223 CTTTTGGGCTCTCAGTAGAGATGAGGCATATCTTCAACATTGGAGCCCCTTTGTGAAC
1 CCTTTGGGCTCTCAACAAAGATGAGGCATATCTTCAACATTCAAGCCCCTCTGTGAAC
59206281 CCTTTGGGCTCTC
1 CCTTTGGGCTCTC
59206294 GGTAGAGGTA
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (58 bp):
CCTTTGGGCTCTCAACAAAGATGAGGCATATCTTCAACATTCAAGCCCCTCTGTGAAC
Found at i:59208420 original size:59 final size:59
Alignment explanation
Indices: 59208349--59208530 Score: 188
Period size: 67 Copynumber: 2.9 Consensus size: 59
59208339 GTTGCAACTA
*
59208349 TATTCTGAAATTAAAAAAAAATTGATAATTAAACTAAATTTAAGAAATAATTAGGCCGC
1 TATTCTGAAATTAAAAAAAAATTGATAATTAAATTAAATTTAAGAAATAATTAGGCCGC
* * *
59208408 TATTCTGAAATTAAAAAATATATATTGTATTGATAACTAAATTAAATTTAATAAATAATTAGGCG
1 TATTCTGAAATT-AAAAA-A-A-A----ATTGATAATTAAATTAAATTTAAGAAATAATTAGGCC
59208473 GC
58 GC
* * * *
59208475 TATTCTAAAACT-AAAAAAAGTTGTCATAATTAAATTAAATTTAAG-AATAACTAGGC
1 TATTCTGAAATTAAAAAAAAATTG--ATAATTAAATTAAATTTAAGAAATAATTAGGC
59208531 GGGATTTTTT
Statistics
Matches: 103, Mismatches: 10, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
58 3 0.03
59 22 0.21
60 23 0.22
61 1 0.01
62 2 0.02
63 2 0.02
64 1 0.01
65 4 0.04
67 45 0.44
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.34
Consensus pattern (59 bp):
TATTCTGAAATTAAAAAAAAATTGATAATTAAATTAAATTTAAGAAATAATTAGGCCGC
Found at i:59209966 original size:103 final size:104
Alignment explanation
Indices: 59209836--59210040 Score: 265
Period size: 103 Copynumber: 2.0 Consensus size: 104
59209826 ATTTTGGCCT
* *
59209836 TTATTATATGCTTTTTCCTAAGGGAGCTATCATTTTGGTTAAAA-TAATTTAAACTCAATGGTCT
1 TTATTATATGCTTTTTCATAAGGGAGCTACCATTTTGGTTAAAATTAATTT-AACTCAATGGTCT
* *
59209900 C-TCTTTGCTTTTGGCAACA-CATAGTGATAGCTTTAGCCA
65 CTTCTTTGCTTTTGGCAA-AGCATAATGATAACTTTAGCCA
* ** *
59209939 TTATTATATGCTTTTTCAT-GGGTGAGCTACCATTTTGGTTAAAATTGCTTTAACTTAATGGTCT
1 TTATTATATGCTTTTTCATAAGG-GAGCTACCATTTTGGTTAAAATTAATTTAACTCAATGGTCT
59210003 CTTATCTTTGCTTTTGGCAAAGCATAATGATAACTTTA
65 C-T-TCTTTGCTTTTGGCAAAGCATAATGATAACTTTA
59210041 ACTGAGGCCA
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
102 2 0.02
103 51 0.58
104 4 0.05
105 1 0.01
106 30 0.34
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (104 bp):
TTATTATATGCTTTTTCATAAGGGAGCTACCATTTTGGTTAAAATTAATTTAACTCAATGGTCTC
TTCTTTGCTTTTGGCAAAGCATAATGATAACTTTAGCCA
Found at i:59212474 original size:22 final size:22
Alignment explanation
Indices: 59212449--59212492 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
59212439 TAGTTATATA
59212449 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
59212471 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
59212493 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:59212528 original size:13 final size:14
Alignment explanation
Indices: 59212512--59212553 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
59212502 TTTCAATTTT
59212512 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
59212525 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
59212540 ATTTTAAATAATAT
1 ATTTT-AATAATAT
59212554 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:59212538 original size:16 final size:16
Alignment explanation
Indices: 59212516--59212552 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
59212506 AATTTTATTT
59212516 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
59212533 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
59212548 TAATA
1 TAATA
59212553 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:59213140 original size:14 final size:14
Alignment explanation
Indices: 59213102--59213140 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
59213092 CCAGAAAAAT
*
59213102 AAATCATTTTCCAG
1 AAATCATTTTTCAG
59213116 AAATCATTTTTC-G
1 AAATCATTTTTCAG
59213129 AAAGTCATTTTT
1 AAA-TCATTTTT
59213141 AGTGAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:59213490 original size:59 final size:59
Alignment explanation
Indices: 59213375--59213492 Score: 134
Period size: 59 Copynumber: 2.0 Consensus size: 59
59213365 TTTTAATAGG
* ****
59213375 ATTATTATTAAATATAATTTAATAAAAATAAAAAATAATTTAATAATATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAAAAAATAATATAATAATAAAAATAATATA
*
59213434 ATTATTATTAAAATATGAA-TTAATAAAAAT-AAAAAT-ATATAATATTAGAAAATAATATA
1 ATTATTATT-AAATAT-AATTTAATAAAAATAAAAAATAATATAATAATA-AAAATAATATA
59213493 TAACCTACTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
58 9 0.18
59 22 0.44
60 17 0.34
61 2 0.04
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAAAAAATAATATAATAATAAAAATAATATA
Found at i:59221900 original size:46 final size:46
Alignment explanation
Indices: 59221790--59221960 Score: 129
Period size: 46 Copynumber: 3.7 Consensus size: 46
59221780 ACATTATGAG
* * *
59221790 AGCCAGTGTAAGACCATGTCCGGGACATGGCATCGGCATTAAGACGA
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCAACGGCATGAAGACGA
* * *
59221837 AGGCTAGTGTAAGACATGTCTGGGACAT-TCAACGGCCTCGAA-ACGTA
1 A-GCCAGTGTAAGACATGTCTGGGACATGGCAACGGCAT-GAAGACG-A
* * *
59221884 AGCCAGTGTAAGACATGTCTAGGA-AT-GCATCGG-AT-ACGAGATGA
1 AGCCAGTGTAAGACATGTCTGGGACATGGCAACGGCATGA--AGACGA
* *
59221928 TTGTCAGTGTAAGACCATGTCTGGGACATGGCA
1 -AGCCAGTGTAAGA-CATGTCTGGGACATGGCA
59221961 TCGACTTGAG
Statistics
Matches: 99, Mismatches: 15, Indels: 19
0.74 0.11 0.14
Matches are distributed among these distances:
42 1 0.01
44 3 0.03
45 20 0.20
46 41 0.41
47 20 0.20
48 14 0.14
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGGCAACGGCATGAAGACGA
Found at i:59226593 original size:14 final size:14
Alignment explanation
Indices: 59226576--59226604 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
59226566 CGAATCAATT
59226576 GTTTAGAATAGGAA
1 GTTTAGAATAGGAA
59226590 GTTTAGAATAGGAA
1 GTTTAGAATAGGAA
59226604 G
1 G
59226605 AATCTAAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (14 bp):
GTTTAGAATAGGAA
Found at i:59228155 original size:20 final size:21
Alignment explanation
Indices: 59228122--59228160 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
59228112 GAAGAACCAA
59228122 AAAAAAAAGGAAAA-AAAACC
1 AAAAAAAAGGAAAAGAAAACC
* *
59228142 AAAAAATAGTAAAAGAAAA
1 AAAAAAAAGGAAAAGAAAA
59228161 TTAAATTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.79, C:0.05, G:0.10, T:0.05
Consensus pattern (21 bp):
AAAAAAAAGGAAAAGAAAACC
Found at i:59231434 original size:24 final size:24
Alignment explanation
Indices: 59231403--59231451 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
59231393 AAATATTGAT
59231403 TTTACTAGATTATCAACTCTATAA
1 TTTACTAGATTATCAACTCTATAA
*
59231427 TTTACTAGATTATTAACTCTATAA
1 TTTACTAGATTATCAACTCTATAA
59231451 T
1 T
59231452 GTGATGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.14, G:0.04, T:0.45
Consensus pattern (24 bp):
TTTACTAGATTATCAACTCTATAA
Found at i:59239408 original size:13 final size:13
Alignment explanation
Indices: 59239386--59239419 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
59239376 CTACATTAAA
*
59239386 AGTTTTATGCATC
1 AGTTTCATGCATC
*
59239399 AGTTTCATGCATT
1 AGTTTCATGCATC
59239412 AGTTTCAT
1 AGTTTCAT
59239420 ATTTATTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47
Consensus pattern (13 bp):
AGTTTCATGCATC
Found at i:59242393 original size:35 final size:34
Alignment explanation
Indices: 59242354--59242419 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
59242344 TATTGTTTGT
*
59242354 ATGATATTTTATAATAGTTTT-TTATATTTAAAAAA
1 ATGATATTTTAT-ATA-TTTTATTAGATTTAAAAAA
*
59242389 ATGATTTTTTATATATTTTATTAGATTTAAA
1 ATGATATTTTATATATTTTATTAGATTTAAA
59242420 TTTTAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.14
34 13 0.46
35 11 0.39
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (34 bp):
ATGATATTTTATATATTTTATTAGATTTAAAAAA
Found at i:59242578 original size:113 final size:113
Alignment explanation
Indices: 59242461--59242670 Score: 271
Period size: 113 Copynumber: 1.9 Consensus size: 113
59242451 TATATCAATT
* * * * *
59242461 TTTTTCGTATTTAAGGGGAAGGATA-TTTTT-TTGTTGTGTTTTTTTAGTTTTAGGTTTGTATTG
1 TTTTTCGTATTTAAGGGAAAGGATATTTTTTATTGTTGTGTTTTATTAGCTTTAAGTTAGTATT-
59242524 AAAGTATAATTAATTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAG
65 AAAGTATAATTAATTT-TTTTATTAATGTTTTTGTGGTATCTTATATTAG
*** * * *
59242574 TTTTTCGTATTTACTTGAAATGTTATTTTTTATTGTTGTGTTTTATTAGCTTTAAGTTAGTATTT
1 TTTTTCGTATTTAAGGGAAAGGATATTTTTTATTGTTGTGTTTTATTAGCTTTAAGTTAGTATTA
* *
59242639 AGGTTTAATTAATTTTTTTATTAATGTTTTTG
66 AAGTATAATTAATTTTTTTATTAATGTTTTTG
59242671 AAGAATGTTA
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
113 36 0.44
114 18 0.22
115 28 0.34
ACGTcount: A:0.22, C:0.02, G:0.17, T:0.59
Consensus pattern (113 bp):
TTTTTCGTATTTAAGGGAAAGGATATTTTTTATTGTTGTGTTTTATTAGCTTTAAGTTAGTATTA
AAGTATAATTAATTTTTTTATTAATGTTTTTGTGGTATCTTATATTAG
Found at i:59242939 original size:137 final size:137
Alignment explanation
Indices: 59242692--59243130 Score: 652
Period size: 137 Copynumber: 3.2 Consensus size: 137
59242682 ATTCCACAAT
*
59242692 ATTTTTTGTATTTAAGGTATGAACATATTTTTTTATAATTGGTTATTTGAGTTTATTTAATATTT
1 ATTTTTTGTATTTAAGGTATGAACATA-TTTTTTATAATTGGTTATTTGAGTTTATTTAATGTTT
* *
59242757 G-GGAAACTT-TGTTTATTAATATAATTGATATGTTCTATTAATTTATTTATTATTTCGTATTCA
65 GAGG-AA-TTGTGTTTATTAATATAATTGATATGTTATATTAATTTATTTATTATTTCGTATTTA
59242820 AGTTATATTG
128 AGTTATATTG
* * *
59242830 ATTTTTCT-TATTTAAGATATGAGCGTATTTTTTATAATTGGTTATTTGAGTTTATTTAATGTTT
1 ATTTTT-TGTATTTAAGGTATGAACATATTTTTTATAATTGGTTATTTGAGTTTATTTAATGTTT
* *
59242894 GAGGAATTGTATTTATTAATATAATTGATATGTTATACTAATTTATTTATTATTTCGTATTTAAG
65 GAGGAATTGTGTTTATTAATATAATTGATATGTTATATTAATTTATTTATTATTTCGTATTTAAG
*
59242959 TTATATCG
130 TTATATTG
* *
59242967 ATTTTTTGTATTTAAGGTATGAACATATATTTTATAATTGGTTATTTGAGTTTTTTTAATGTTT-
1 ATTTTTTGTATTTAAGGTATGAACATATTTTTTATAATTGGTTATTTGAGTTTATTTAATGTTTG
59243031 AGGGAATTGTGTTTATTAATATAATTGATATGTTATATTAATTTATTAATTTATTATTTCGTATT
66 A-GGAATTGTGTTTATTAATATAATTGATATGTTATATTAA--T-TT-ATTTATTATTTCGTATT
59243096 TAAGTTATATTAG
126 TAAGTTATATT-G
*
59243109 TTTTTTTGTATTTAAGGTATGA
1 ATTTTTTGTATTTAAGGTATGA
59243131 GTACACTTAT
Statistics
Matches: 273, Mismatches: 18, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
136 4 0.01
137 192 0.70
138 24 0.09
139 2 0.01
140 2 0.01
141 27 0.10
142 22 0.08
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.55
Consensus pattern (137 bp):
ATTTTTTGTATTTAAGGTATGAACATATTTTTTATAATTGGTTATTTGAGTTTATTTAATGTTTG
AGGAATTGTGTTTATTAATATAATTGATATGTTATATTAATTTATTTATTATTTCGTATTTAAGT
TATATTG
Found at i:59243077 original size:65 final size:65
Alignment explanation
Indices: 59242871--59243077 Score: 140
Period size: 65 Copynumber: 3.1 Consensus size: 65
59242861 TTATAATTGG
* *
59242871 TTATTTGAGTTTATTTAATGTTT-GAGGAATTGTATTTATTAATATAATTGATATGTTATACTAA
1 TTATTTGAGTTTTTTTAATGTTTAG-GGAATTGTATTTATTAATATAATTGATATGTTATATTAA
59242935 T
65 T
* ** * *
59242936 TTATTT-ATTATTTCGTATTTAA-GTTATATCG-ATT-TTTTGTATTTAAGGTATGAACAT-ATA
1 TTATTTGA--GTTT--T-TTTAATGTT-TAGGGAATTGTATT-TA-TTAA--TAT-AA-TTGATA
* **
59242996 TTTTATAATT-GG
54 TGTTAT-ATTAAT
*
59243008 TTATTTGAGTTTTTTTAATGTTTAGGGAATTGTGTTTATTAATATAATTGATATGTTATATTAAT
1 TTATTTGAGTTTTTTTAATGTTTAGGGAATTGTATTTATTAATATAATTGATATGTTATATTAAT
59243073 TTATT
1 TTATT
59243078 AATTTATTAT
Statistics
Matches: 104, Mismatches: 18, Indels: 40
0.64 0.11 0.25
Matches are distributed among these distances:
64 5 0.05
65 21 0.20
66 6 0.06
67 3 0.03
68 20 0.19
69 20 0.19
70 3 0.03
71 6 0.06
72 16 0.15
73 4 0.04
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.55
Consensus pattern (65 bp):
TTATTTGAGTTTTTTTAATGTTTAGGGAATTGTATTTATTAATATAATTGATATGTTATATTAAT
Found at i:59246414 original size:42 final size:42
Alignment explanation
Indices: 59246351--59246507 Score: 140
Period size: 42 Copynumber: 3.7 Consensus size: 42
59246341 CTTCGTTTTC
** * * *
59246351 TCGATGCCATAGTTCAACTATGGTCTTACATATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
* *
59246394 T-GATGCCATAGCCCAGCTATGGTCATACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
* *
59246435 TCGATACCATAGCCTAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
* *
59246476 TCTCACGATGCCATATCCCAGATATGGTCTTA
1 --T--CGATGCCATAGCCCAGCTATGGTCTTA
59246508 TATAGTAGCA
Statistics
Matches: 93, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 8 0.09
42 59 0.63
43 3 0.03
45 23 0.25
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:59246614 original size:31 final size:31
Alignment explanation
Indices: 59246579--59246758 Score: 272
Period size: 31 Copynumber: 5.8 Consensus size: 31
59246569 GTCATCACTT
*
59246579 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
59246610 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
59246641 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
59246672 GTAGTCGGAA-CTACCACTTTTCACTGATCAG
1 GTAG-CCGAAGCTACCACTTTTCACTGATCAG
*
59246703 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
59246734 GTAGCTAAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
59246759 TGTCATTTGT
Statistics
Matches: 138, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
30 4 0.03
31 131 0.95
32 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:59246897 original size:50 final size:51
Alignment explanation
Indices: 59246741--59246963 Score: 346
Period size: 50 Copynumber: 4.4 Consensus size: 51
59246731 CAGGTAGCTA
* *
59246741 AAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCG
1 AAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCG
* *
59246792 AAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCG
1 AAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCG
*
59246843 AAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGTGTAGCCG
1 AAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGTGTAGCCG
*
59246893 AAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGTGTAGCCG
1 AAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGTGTAGCCG
59246943 AAGCTATCACTTATCACTTGT
1 AAGCTATCACTTATCACTTGT
59246964 TACCATGGTC
Statistics
Matches: 167, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
50 95 0.57
51 72 0.43
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (51 bp):
AAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCG
Found at i:59253646 original size:62 final size:62
Alignment explanation
Indices: 59253580--59253705 Score: 234
Period size: 62 Copynumber: 2.0 Consensus size: 62
59253570 GATTCTAGAA
*
59253580 AAGGAAAAAGAAAAGTATGTTGTCTGATATGCACAAATACTTTTTCTTACAAGTTTATATAT
1 AAGGAAAAAGAAAAGTATGTTGTCTGATATGCACAAATACTTTTTCTTACAAGTCTATATAT
*
59253642 AAGGAAAATGAAAAGTATGTTGTCTGATATGCACAAATACTTTTTCTTACAAGTCTATATAT
1 AAGGAAAAAGAAAAGTATGTTGTCTGATATGCACAAATACTTTTTCTTACAAGTCTATATAT
59253704 AA
1 AA
59253706 TTATATCTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.35
Consensus pattern (62 bp):
AAGGAAAAAGAAAAGTATGTTGTCTGATATGCACAAATACTTTTTCTTACAAGTCTATATAT
Found at i:59253973 original size:23 final size:23
Alignment explanation
Indices: 59253947--59253991 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
59253937 GACATGAAAT
* *
59253947 ATATCAATTTAAATTATAATAAA
1 ATATAAATATAAATTATAATAAA
* *
59253970 ATATAAATATAATTTATTATAA
1 ATATAAATATAAATTATAATAA
59253992 CTCATTATTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATATAAATATAAATTATAATAAA
Found at i:59254239 original size:18 final size:18
Alignment explanation
Indices: 59254213--59254253 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
59254203 GATCACGAAG
*
59254213 CATTATCGAACAAAAACA
1 CATTTTCGAACAAAAACA
**
59254231 CATTTTCGAACAACCACA
1 CATTTTCGAACAAAAACA
59254249 CATTT
1 CATTT
59254254 ATACAAGTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.27, G:0.05, T:0.24
Consensus pattern (18 bp):
CATTTTCGAACAAAAACA
Found at i:59255906 original size:56 final size:56
Alignment explanation
Indices: 59255815--59255926 Score: 163
Period size: 56 Copynumber: 2.0 Consensus size: 56
59255805 TTTTACATGT
* *
59255815 AATCACAAATCGATGCCACTGTCCCAAACAGGGTCTTACTCGCACACATATATCGA
1 AATCACAAATCGATGCCAATGTACCAAACAGGGTCTTACTCGCACACATATATCGA
* **
59255871 AATCACATATCGATGCCAATGTATTAAAC-GTGGTCTTACTCGCACACATATATCGA
1 AATCACAAATCGATGCCAATGTACCAAACAG-GGTCTTACTCGCACACATATATCGA
59255927 TGCCATGGTC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
55 1 0.02
56 49 0.98
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (56 bp):
AATCACAAATCGATGCCAATGTACCAAACAGGGTCTTACTCGCACACATATATCGA
Found at i:59260866 original size:69 final size:70
Alignment explanation
Indices: 59260786--59260949 Score: 204
Period size: 69 Copynumber: 2.4 Consensus size: 70
59260776 TCCTCATTGA
* * * * **
59260786 AATACCATACCTAAATTTTACAACTCAGTATGGGAAATGCTATTCCTACGTTTCTTAACTCAGTA
1 AATACCATACCTAAATTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
59260851 T-GAT
66 TGGAT
** **
59260855 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCAGTA
1 AATACCATACCTAAATTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
59260920 TGGAT
66 TGGAT
* **
59260925 GATACCATACCTACGTTTCACAACT
1 AATACCATACCTAAATTTCACAACT
59260950 TTGCAATGGA
Statistics
Matches: 83, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
69 56 0.67
70 27 0.33
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (70 bp):
AATACCATACCTAAATTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
TGGAT
Found at i:59260967 original size:35 final size:35
Alignment explanation
Indices: 59260786--59260949 Score: 215
Period size: 35 Copynumber: 4.7 Consensus size: 35
59260776 TCCTCATTGA
** *
59260786 AATACCATACCTAAATTTTACAACTCAGTATGGGA-
1 AATACCATACCTACGTTTCACAACTCAGTAT-GGAT
* * * **
59260821 AATGCTATTCCTACGTTTCTTAACTCAGTAT-GAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
59260855 AATACCATACCTACGTTTCACAACTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
59260890 AATACCATACCTACGTTTCACAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
59260925 GATACCATACCTACGTTTCACAACT
1 AATACCATACCTACGTTTCACAACT
59260950 TTGCAATGGA
Statistics
Matches: 111, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
33 2 0.02
34 26 0.23
35 83 0.75
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:59262045 original size:21 final size:21
Alignment explanation
Indices: 59262021--59262062 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
59262011 TTTTTTATTT
59262021 AATTGACT-AACCAAACGTTAA
1 AATT-ACTCAACCAAACGTTAA
* *
59262042 AATTTCTCAACCAAACTTTAA
1 AATTACTCAACCAAACGTTAA
59262063 TACTAACTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (21 bp):
AATTACTCAACCAAACGTTAA
Found at i:59262196 original size:8 final size:8
Alignment explanation
Indices: 59262174--59262203 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
59262164 AAATTCTTTT
59262174 AATTCACC
1 AATTCACC
59262182 AAATTCACC
1 -AATTCACC
59262191 AATTCACC
1 AATTCACC
59262199 AATTC
1 AATTC
59262204 TTTTAAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (8 bp):
AATTCACC
Found at i:59263839 original size:30 final size:31
Alignment explanation
Indices: 59263803--59263869 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
59263793 AAACCAAATT
* *
59263803 CATATATTCAACAT-GATA-TTTATATACTTA
1 CATATATTCAA-ATCGATACATCATATACTTA
59263833 CATATA-TCAAATCGATACATCATATACTTA
1 CATATATTCAAATCGATACATCATATACTTA
*
59263863 GATATAT
1 CATATAT
59263870 AAGTGCAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 2 0.06
29 8 0.26
30 21 0.68
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.39
Consensus pattern (31 bp):
CATATATTCAAATCGATACATCATATACTTA
Found at i:59267047 original size:3 final size:3
Alignment explanation
Indices: 59267039--59267063 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
59267029 AGTAAAGTAT
59267039 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
59267064 GTGGAGACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:59271642 original size:23 final size:24
Alignment explanation
Indices: 59271586--59271643 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 24
59271576 AATTTGTTAG
* *
59271586 ATATTTATAAATATTTTTATATAC
1 ATATTAATAAATATTTTTATATAA
*
59271610 ATA-TATTAAATATTTTTCA-A-AA
1 ATATTAATAAATATTTTT-ATATAA
59271632 ATATTAATAAAT
1 ATATTAATAAAT
59271644 TTGAAAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
22 4 0.14
23 20 0.71
24 4 0.14
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (24 bp):
ATATTAATAAATATTTTTATATAA
Found at i:59274022 original size:96 final size:95
Alignment explanation
Indices: 59273846--59274040 Score: 300
Period size: 96 Copynumber: 2.0 Consensus size: 95
59273836 AAGGCCCAAA
59273846 CTCTAAAAAATCCAAAAATTAGAACTTTACCCTAGACCCAAAACTGAAAACAAGCCTTCAGAACA
1 CTCTAAAAAATCCAAAAATTAGAACTTTACCCTAGACCCAAAACTGAAAACAAGCCTTCAGAACA
** * * *
59273911 CAAGTTTTATTAATAGCTTTCTTCATCACT
66 CAAGCATTATCAATAGCTTACATCATCACT
* *
59273941 CTCTAAAAAAATTCAAAAATTAGAACTTTACCCTAGACCCAAAACTGAAAACAAGCGTTCAGAAC
1 CTCT-AAAAAATCCAAAAATTAGAACTTTACCCTAGACCCAAAACTGAAAACAAGCCTTCAGAAC
* *
59274006 ACAGGCATTATCAATAGCTTACATCATCATT
65 ACAAGCATTATCAATAGCTTACATCATCACT
59274037 CTCT
1 CTCT
59274041 TCCATTTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
95 4 0.04
96 86 0.96
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (95 bp):
CTCTAAAAAATCCAAAAATTAGAACTTTACCCTAGACCCAAAACTGAAAACAAGCCTTCAGAACA
CAAGCATTATCAATAGCTTACATCATCACT
Found at i:59283458 original size:21 final size:21
Alignment explanation
Indices: 59283434--59283478 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
59283424 TATATTATAT
59283434 TTAT-ATTAATTATATTAACTA
1 TTATGATTAATT-TATTAACTA
* *
59283455 TTATGGTTAATTTATTAATTA
1 TTATGATTAATTTATTAACTA
59283476 TTA
1 TTA
59283479 AGAAAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (21 bp):
TTATGATTAATTTATTAACTA
Found at i:59291874 original size:18 final size:18
Alignment explanation
Indices: 59291853--59291890 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
59291843 TATTTTAAAA
59291853 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAG-ATTTT
59291871 TATAAATATTTAGATTTT
1 TATAAATATTTAGATTTT
59291889 TA
1 TA
59291891 AAAAAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
TATAAATATTTAGATTTT
Found at i:59295592 original size:39 final size:39
Alignment explanation
Indices: 59295537--59295652 Score: 169
Period size: 39 Copynumber: 3.0 Consensus size: 39
59295527 TTCAGTGATG
59295537 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * *
59295576 TATATCCGGACCTAAGGTCCACAGGCTATGTGCTAGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * * *
59295615 TATAACCGGACTTAAGGTCTGTAGGCTACGTGCTGGAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
59295653 ATATGTCTGG
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Done.