Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 210 of 325
Found at i:65112847 original size:93 final size:93
Alignment explanation
Indices: 65112688--65112859 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
65112678 GGGATATTTG
* *
65112688 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
65112753 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
65112781 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
65112846 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
65112860 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:65118991 original size:42 final size:42
Alignment explanation
Indices: 65118944--65119050 Score: 187
Period size: 42 Copynumber: 2.5 Consensus size: 42
65118934 TATTGGTCTC
65118944 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
*
65118986 GGCACTAAGTGTGCAGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
65119028 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
65119051 ATTGTACAGC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:65119115 original size:27 final size:28
Alignment explanation
Indices: 65119058--65119127 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
65119048 AAAATTGTAC
**
65119058 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
65119086 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
65119113 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
65119128 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:65123047 original size:39 final size:39
Alignment explanation
Indices: 65122968--65123120 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
65122958 TATGGTAACC
** * *
65122968 CGCACAAAGGCCTTCGGGACTTAACCCGGGTATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
65123008 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
65123047 CGCACAATTGCCTTCGGGCTTAGCCTGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
65123086 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
65123121 TCGAACATTC
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 88 0.85
40 16 0.15
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:65123051 original size:79 final size:78
Alignment explanation
Indices: 65122937--65123119 Score: 242
Period size: 78 Copynumber: 2.3 Consensus size: 78
65122927 CTCGTTCAAA
* * ** *
65122937 TGCCTTCGGGACATAGCCC-GTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGGTAT
1 TGCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGG-CTTAACCCGGATAT
65123001 CACAACTCGCACAAT
64 CACAACTCGCACAAT
* ** * *
65123016 TGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCTGGATATCA
1 TGCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGCTTAACCCGGATATCA
*
65123081 CAATTCGCACAAT
66 CAACTCGCACAAT
65123094 TGCCTTCGGGCTTAGCCCGGATATCA
1 TGCCTTCGGGCTTAGCCCGGATATCA
65123120 CTCGAACATT
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
78 58 0.63
79 34 0.37
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (78 bp):
TGCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGCTTAACCCGGATATCA
CAACTCGCACAAT
Found at i:65125437 original size:37 final size:37
Alignment explanation
Indices: 65125378--65125524 Score: 240
Period size: 37 Copynumber: 4.0 Consensus size: 37
65125368 AGCTCAGACG
* *
65125378 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGAAA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
*
65125415 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
* *
65125452 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGATA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
*
65125489 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGAA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAA
65125525 TATATTTCCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
Found at i:65125782 original size:47 final size:47
Alignment explanation
Indices: 65125730--65125923 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
65125720 CATACATATT
* * * * *
65125730 TCACATTAGCCATTCGGCTTTACCACATATATGTATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
65125777 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
65125824 TCACATTGGCCATTCGGCCTTTTCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
65125871 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
65125918 TCACAT
1 TCACAT
65125924 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:65137205 original size:40 final size:40
Alignment explanation
Indices: 65137139--65137289 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
65137129 AAATTGAATG
* * *
65137139 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
65137178 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
65137218 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
65137258 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
65137290 ACGTGATTTA
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:65145175 original size:33 final size:34
Alignment explanation
Indices: 65145138--65145254 Score: 130
Period size: 33 Copynumber: 3.3 Consensus size: 34
65145128 TGCTGGAAAT
*
65145138 TATATCCGGGTTAAGACCCGAAGGCAATTGTGC-
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCA
65145171 TATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGA
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGC-A
*
65145206 GTTATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 --TA---TATCCGGGCTAAGACCCGAAGGCAATTGTGCA
65145245 TTATATCCGG
1 -TATATCCGG
65145255 TTATATTCCG
Statistics
Matches: 73, Mismatches: 2, Indels: 16
0.80 0.02 0.18
Matches are distributed among these distances:
32 3 0.04
33 28 0.38
35 7 0.10
37 2 0.03
38 3 0.04
39 1 0.01
40 27 0.37
41 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (34 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCA
Found at i:65147655 original size:27 final size:28
Alignment explanation
Indices: 65147625--65147694 Score: 108
Period size: 27 Copynumber: 2.5 Consensus size: 28
65147615 ATAGTGAGTC
65147625 CGCACACTTAGTGCTATAAT-ATC-AACT
1 CGCACACTTAGTGCTAT-ATGATCAAACT
*
65147652 CGCACACTTAGTGCTATATGCTCAAACT
1 CGCACACTTAGTGCTATATGATCAAACT
65147680 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65147695 GTACAAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 2 0.05
27 19 0.47
28 19 0.47
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATGATCAAACT
Found at i:65152434 original size:20 final size:20
Alignment explanation
Indices: 65152409--65152450 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
65152399 TCACAATTTC
65152409 AATTATTTCAC-ACATTTACA
1 AATTATTTCACAAC-TTTACA
*
65152429 AATTATTTTACAACTTTACA
1 AATTATTTCACAACTTTACA
65152449 AA
1 AA
65152451 ATAGCACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTATTTCACAACTTTACA
Found at i:65155512 original size:40 final size:40
Alignment explanation
Indices: 65155467--65155754 Score: 353
Period size: 40 Copynumber: 7.2 Consensus size: 40
65155457 CGGAATACAA
* * *
65155467 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
*
65155507 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
*
65155547 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* *
65155587 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* * * *
65155627 CCGGATTTAACAACTTGCACGAATGCCTTAGGGTCTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
65155667 CCGGATGTAGTCG-CTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACGACTTGCACAAATGCCTTCGGGTCTTAGC
* ** * * * *
65155707 CCAGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
65155747 CCGGATAT
1 CCGGATAT
65155755 CATTCAATTG
Statistics
Matches: 216, Mismatches: 30, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
40 215 1.00
41 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:65162223 original size:27 final size:27
Alignment explanation
Indices: 65162191--65162253 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
65162181 CTCGATTTAC
**
65162191 AAAATTATTGAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* * * *
65162218 AGAATTACCGAGATACCCTTGTGGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
65162245 AAAATTACC
1 AAAATTACC
65162254 ATTTTGCCCT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTGTAGGGT
Found at i:65162899 original size:25 final size:25
Alignment explanation
Indices: 65162871--65162934 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
65162861 CATTCACATT
* * *
65162871 CTGACTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTAATA
*
65162896 CTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATA
65162921 CTGATTCTGATTCT
1 CTGATTCTGATTCT
65162935 AATTCTGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATA
Found at i:65162907 original size:6 final size:6
Alignment explanation
Indices: 65162868--65162998 Score: 81
Period size: 6 Copynumber: 21.3 Consensus size: 6
65162858 TTGCATTCAC
* * * *
65162868 ATTCTG ACTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * *
65162918 ATTCTG ATTCTG ATTCTA ATTCTG ATTCAG -TCACCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
65162967 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
65162999 AATATTTCTT
Statistics
Matches: 94, Mismatches: 20, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
5 5 0.05
6 78 0.83
7 8 0.09
8 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.46
Consensus pattern (6 bp):
ATTCTG
Found at i:65162931 original size:37 final size:37
Alignment explanation
Indices: 65162890--65162977 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
65162880 ATTCTGTTAC
* * *
65162890 CTGATACTGATTCTGATTCTGTCACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCAGTCACCTAATTCTAATT
* *
65162927 CTGATTCTAATTCTGATTCAGTCACCTGATTCTAATT
1 CTGATTCTGATTCTGATTCAGTCACCTAATTCTAATT
65162964 CTGATTCTGATTCT
1 CTGATTCTGATTCT
65162978 CATTTTGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCAGTCACCTAATTCTAATT
Found at i:65166104 original size:29 final size:28
Alignment explanation
Indices: 65166058--65166117 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
65166048 TTTTCATTTA
*
65166058 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCACAATTTAACCCCT-AATATACACT
* * *
65166087 TTTCTCAATTTAATCCCTAATATGCACT
1 TTTCACAATTTAACCCCTAATATACACT
65166115 TTT
1 TTT
65166118 ACTAAAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.28, C:0.27, G:0.02, T:0.43
Consensus pattern (28 bp):
TTTCACAATTTAACCCCTAATATACACT
Found at i:65167736 original size:41 final size:41
Alignment explanation
Indices: 65167683--65167843 Score: 286
Period size: 41 Copynumber: 3.9 Consensus size: 41
65167673 TTTCCAAATC
65167683 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
*
65167724 AATGAAATGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
*
65167765 AATGAAATGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
**
65167806 AATGAAAAGGTTGAAAAGGATGTTATTAAAAAAGGATA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATA
65167844 AAAAATTTAA
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 116 1.00
ACGTcount: A:0.48, C:0.06, G:0.22, T:0.24
Consensus pattern (41 bp):
AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
Found at i:65169138 original size:18 final size:18
Alignment explanation
Indices: 65169111--65169153 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
65169101 CCCTGTGACC
*
65169111 TCTG-TTTTCC-AACTTT
1 TCTGTTTTTCCAAAATTT
65169127 TCATGTTTTTCCAAAATTT
1 TC-TGTTTTTCCAAAATTT
65169146 TCTGTTTT
1 TCTGTTTT
65169154 GTTTCGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 2 0.09
17 2 0.09
18 12 0.52
19 7 0.30
ACGTcount: A:0.16, C:0.19, G:0.07, T:0.58
Consensus pattern (18 bp):
TCTGTTTTTCCAAAATTT
Found at i:65172915 original size:29 final size:29
Alignment explanation
Indices: 65172873--65172969 Score: 115
Period size: 29 Copynumber: 3.4 Consensus size: 29
65172863 TAAACCACTT
*
65172873 GGCCC-AATCTCATTTATATGGCCCATCA
1 GGCCCAAATCACATTTATATGGCCCATCA
** *
65172901 GGCCCACTTCACATTCATATGGCCCATCA
1 GGCCCAAATCACATTTATATGGCCCATCA
* * *
65172930 GGCCCAAATCACCTTTATATGGCCCGTTA
1 GGCCCAAATCACATTTATATGGCCCATCA
*
65172959 CGCCCAAATCA
1 GGCCCAAATCA
65172970 TCTTATATTT
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
28 5 0.09
29 52 0.91
ACGTcount: A:0.26, C:0.35, G:0.14, T:0.25
Consensus pattern (29 bp):
GGCCCAAATCACATTTATATGGCCCATCA
Found at i:65174831 original size:24 final size:24
Alignment explanation
Indices: 65174804--65174887 Score: 98
Period size: 24 Copynumber: 3.5 Consensus size: 24
65174794 TATGACGCCT
*
65174804 TTGTGGCTTATTCTGAAAGTGTCC
1 TTGTGGCATATTCTGAAAGTGTCC
* *
65174828 TTGTAGCATATTCTGAAAGTGTCT
1 TTGTGGCATATTCTGAAAGTGTCC
* * *
65174852 TTGTTGCGTATTCTAAAAGTG-CC
1 TTGTGGCATATTCTGAAAGTGTCC
65174875 TTTGTGGCATATT
1 -TTGTGGCATATT
65174888 ATATAAATGC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 1 0.02
24 49 0.98
ACGTcount: A:0.20, C:0.14, G:0.23, T:0.43
Consensus pattern (24 bp):
TTGTGGCATATTCTGAAAGTGTCC
Found at i:65184401 original size:40 final size:40
Alignment explanation
Indices: 65184296--65184407 Score: 147
Period size: 40 Copynumber: 2.8 Consensus size: 40
65184286 GCTACTCGTT
* *
65184296 CAAATGCCTTCGGGACATAGCCCGG-TTATGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
65184336 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
65184376 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGT
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT
65184408 CACTTAGCCC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
39 3 0.05
40 58 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:65192607 original size:40 final size:40
Alignment explanation
Indices: 65192562--65192728 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
65192552 CGGAATATAA
65192562 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
65192602 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
65192642 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
65192682 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
65192721 CCGGATAT
1 CCGGATAT
65192729 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:65197310 original size:27 final size:26
Alignment explanation
Indices: 65197262--65197321 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
65197252 GCGAAGCTGC
*
65197262 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
65197289 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
65197315 CAGATAT
1 CAGATAT
65197322 ATATATGTCG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:65198075 original size:27 final size:27
Alignment explanation
Indices: 65198038--65198128 Score: 89
Period size: 27 Copynumber: 3.4 Consensus size: 27
65198028 AGGGAAAATG
* * *
65198038 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
65198065 GTAATTCTACCCTAC-AGGGTTATTTTCG
1 GTAATTCTACCCTACAAGGG-TA-TTTCA
*
65198093 GTATTTCTA-CCTACAAGGGTATTTCCA
1 GTAATTCTACCCTACAAGGGTATTT-CA
65198120 -TAATTCTAC
1 GTAATTCTAC
65198129 AACTTATCCA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
26 14 0.27
27 23 0.44
28 15 0.29
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:65200890 original size:40 final size:40
Alignment explanation
Indices: 65200845--65201011 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
65200835 CGGAATATAA
65200845 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
65200885 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
65200925 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
65200965 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
65201004 CCGGATAT
1 CCGGATAT
65201012 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:65208881 original size:40 final size:40
Alignment explanation
Indices: 65208836--65209002 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
65208826 CGGAATATAA
65208836 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
65208876 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
65208916 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
65208956 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
65208995 CCGGATAT
1 CCGGATAT
65209003 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:65217163 original size:29 final size:29
Alignment explanation
Indices: 65217128--65217197 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
65217118 GTGAGATTGG
* *
65217128 CACTAAGTGTGCAGGCTTGAAA-TGCATGA
1 CACTAAGTGTGCAAG-TTGAAAGTACATGA
* *
65217157 CACTAAGTGTGCAAGTTTAAAGTACATGG
1 CACTAAGTGTGCAAGTTGAAAGTACATGA
65217186 CACTAAGTGTGC
1 CACTAAGTGTGC
65217198 GTGGTTGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
28 5 0.14
29 31 0.86
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (29 bp):
CACTAAGTGTGCAAGTTGAAAGTACATGA
Found at i:65219004 original size:27 final size:27
Alignment explanation
Indices: 65218956--65219008 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
65218946 GCGAAGCTGC
*
65218956 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGATA
*
65218983 CAGATATTGTGGC-AAGGCCACCAGAT
1 CAGATATTGTGACGAA-GCCACCAGAT
65219009 TGCGACGAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGATA
Found at i:65219708 original size:27 final size:27
Alignment explanation
Indices: 65219661--65219738 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
65219651 GGGCAAAATG
* * *
65219661 GTAATTTTACCCCAAAAGGGTATCTCGA
1 GTAATTCTACCCTACAAGGGTAT-TCGA
* **
65219689 -TAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTCGA
*
65219715 GTATTTCTACCCTACAAGGGTATT
1 GTAATTCTACCCTACAAGGGTATT
65219739 TTGGTAATTC
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 2 0.05
27 39 0.95
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTCGA
Found at i:65219739 original size:27 final size:27
Alignment explanation
Indices: 65219689--65219750 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
65219679 GGTATCTCGA
*
65219689 TAATTCTACCCTACAGGGGTATTTTAG
1 TAATTCTACCCTACAAGGGTATTTTAG
* *
65219716 TATTTCTACCCTACAAGGGTATTTTGG
1 TAATTCTACCCTACAAGGGTATTTTAG
65219743 TAATTCTA
1 TAATTCTA
65219751 TAACTTATCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTTAG
Found at i:65220725 original size:27 final size:27
Alignment explanation
Indices: 65220668--65220725 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
65220658 ACCCTTAATC
* * ** *
65220668 GATAAAATGACTATTATGCCCTTGTGT
1 GATAAAATGACTATTAGGCCCCTACGA
*
65220695 GATAAAATGACTGTTAGGCCCCTACGA
1 GATAAAATGACTATTAGGCCCCTACGA
65220722 GATA
1 GATA
65220726 TATGATTATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (27 bp):
GATAAAATGACTATTAGGCCCCTACGA
Found at i:65223003 original size:23 final size:21
Alignment explanation
Indices: 65222974--65223079 Score: 95
Period size: 23 Copynumber: 4.7 Consensus size: 21
65222964 CTTACCAATT
*
65222974 TAGAGCTTACTGTTTCAGCTCA
1 TAGAGCTTACT-ATTCAGCTCA
* * *
65222996 TTGGAGCTTACTGATTCAGGTTGA
1 -TAGAGCTTACT-ATTCA-GCTCA
65223020 TAGAGCTTACTATTCAGCTCAA
1 TAGAGCTTACTATTCAGCTC-A
*
65223042 TAGAGCTTACCATTTTCAGCTCA
1 TAGAGCTTA-C-TATTCAGCTCA
65223065 GTAGAGCTTACTATT
1 -TAGAGCTTACTATT
65223080 TATTAGCTCG
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
21 2 0.03
22 18 0.26
23 28 0.41
24 21 0.30
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (21 bp):
TAGAGCTTACTATTCAGCTCA
Found at i:65223060 original size:46 final size:45
Alignment explanation
Indices: 65222974--65223079 Score: 108
Period size: 46 Copynumber: 2.3 Consensus size: 45
65222964 CTTACCAATT
* * * * *
65222974 TAGAGCTTACTGTTTCAGCTCATTGGAGCTTACTGATTCAGGT-TG
1 TAGAGCTTACT-ATTCAGCTCAATAGAGCTTACTGATTCAGCTCAG
*
65223019 ATAGAGCTTACTATTCAGCTCAATAGAGCTTACCAT-TTTCAGCTCAG
1 -TAGAGCTTACTATTCAGCTCAATAGAGCTTA-C-TGATTCAGCTCAG
65223066 TAGAGCTTACTATT
1 TAGAGCTTACTATT
65223080 TATTAGCTCG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
45 17 0.33
46 32 0.63
47 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (45 bp):
TAGAGCTTACTATTCAGCTCAATAGAGCTTACTGATTCAGCTCAG
Found at i:65223064 original size:24 final size:24
Alignment explanation
Indices: 65223019--65223080 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
65223009 ATTCAGGTTG
*
65223019 ATAGAGCTTA-C-TATTCAGCTCA
1 ATAGAGCTTACCATTTTCAGCTCA
65223041 ATAGAGCTTACCATTTTCAGCTCA
1 ATAGAGCTTACCATTTTCAGCTCA
* *
65223065 GTAGAGCTTACTATTT
1 ATAGAGCTTACCATTT
65223081 ATTAGCTCGG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 10 0.29
23 1 0.03
24 24 0.69
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (24 bp):
ATAGAGCTTACCATTTTCAGCTCA
Found at i:65224695 original size:48 final size:48
Alignment explanation
Indices: 65224632--65224724 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
65224622 GATTACGGGT
*
65224632 TAGGGGTGTTACATTTTTTTGTATCAGAGCTAGGTTTAGCCGATTCTA
1 TAGGGGTGTTACATTTTTTTGTATCAGAGCCAGGTTTAGCCGATTCTA
65224680 TAGGGGTGTTACATTTTTTTGTATCAGAGCCAGGTTTAGCCGATT
1 TAGGGGTGTTACATTTTTTTGTATCAGAGCCAGGTTTAGCCGATT
65224725 TTAGGACTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.20, C:0.13, G:0.26, T:0.41
Consensus pattern (48 bp):
TAGGGGTGTTACATTTTTTTGTATCAGAGCCAGGTTTAGCCGATTCTA
Found at i:65226720 original size:19 final size:19
Alignment explanation
Indices: 65226696--65226733 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
65226686 TGGTATTAAG
*
65226696 TTAGTATCGGGGACAACAC
1 TTAGTACCGGGGACAACAC
65226715 TTAGTACCGGGGACAACAC
1 TTAGTACCGGGGACAACAC
65226734 CAATAATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (19 bp):
TTAGTACCGGGGACAACAC
Found at i:65231215 original size:26 final size:26
Alignment explanation
Indices: 65231184--65231238 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
65231174 AATTCAGTAG
65231184 ACTCAATAGGTAAATTCTTACTAGAT
1 ACTCAATAGGTAAATTCTTACTAGAT
65231210 ACTCAATAGGTAAATTCTTACTAGAT
1 ACTCAATAGGTAAATTCTTACTAGAT
65231236 ACT
1 ACT
65231239 AAATTTGTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (26 bp):
ACTCAATAGGTAAATTCTTACTAGAT
Found at i:65233695 original size:25 final size:25
Alignment explanation
Indices: 65233667--65233721 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
65233657 TCATCAAAGT
65233667 GCCAAATC-ACAAGCCAAAACAAATG
1 GCCAAATCAACAA-CCAAAACAAATG
** *
65233692 GCCATTTCAACAACCAAAACACATG
1 GCCAAATCAACAACCAAAACAAATG
65233717 GCCAA
1 GCCAA
65233722 CACTAACCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.47, C:0.31, G:0.11, T:0.11
Consensus pattern (25 bp):
GCCAAATCAACAACCAAAACAAATG
Found at i:65234915 original size:51 final size:51
Alignment explanation
Indices: 65234836--65234959 Score: 212
Period size: 51 Copynumber: 2.4 Consensus size: 51
65234826 CTGATCACAT
* *
65234836 TTATCACTTGTCACTTGTCACTGTTCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCAACCAC
*
65234887 TTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCAACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCAACCAC
*
65234938 TTATCACTTGTCACTTATCACT
1 TTATCACTTGTCACTTGTCACT
65234960 TGTCACTTGT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCAACCAC
Found at i:65234951 original size:7 final size:7
Alignment explanation
Indices: 65234935--65234973 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
65234925 CTAAAGCAAC
*
65234935 CACTTAT
1 CACTTGT
65234942 CACTTGT
1 CACTTGT
*
65234949 CACTTAT
1 CACTTGT
65234956 CACTTGT
1 CACTTGT
65234963 CACTTGT
1 CACTTGT
65234970 CACT
1 CACT
65234974 GATAAGATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.21, C:0.31, G:0.08, T:0.41
Consensus pattern (7 bp):
CACTTGT
Found at i:65234954 original size:14 final size:14
Alignment explanation
Indices: 65234935--65234973 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
65234925 CTAAAGCAAC
65234935 CACTTATCACTTGT
1 CACTTATCACTTGT
65234949 CACTTATCACTTGT
1 CACTTATCACTTGT
*
65234963 CACTTGTCACT
1 CACTTATCACT
65234974 GATAAGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.21, C:0.31, G:0.08, T:0.41
Consensus pattern (14 bp):
CACTTATCACTTGT
Found at i:65234960 original size:65 final size:65
Alignment explanation
Indices: 65234884--65235022 Score: 217
Period size: 65 Copynumber: 2.1 Consensus size: 65
65234874 CTAAAGCTAC
*
65234884 CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAG-CAACCACTTATCACTTG
1 CACTTATCACTTATCACTTGTCACTGATAAGATAAGTGTAGCT-AAGCCAACCACTTATCACTTG
65234948 T
65 T
* * *
65234949 CACTTATCACTTGTCACTTGTCACTGATAAGATAAGTGTAGCTGAGCCTACCACTTATCACTTGT
1 CACTTATCACTTATCACTTGTCACTGATAAGATAAGTGTAGCTAAGCCAACCACTTATCACTTGT
*
65235014 CACTGATCA
1 CACTTATCA
65235023 GAAGTACTCA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
64 2 0.03
65 66 0.97
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (65 bp):
CACTTATCACTTATCACTTGTCACTGATAAGATAAGTGTAGCTAAGCCAACCACTTATCACTTGT
Found at i:65237572 original size:2 final size:2
Alignment explanation
Indices: 65237565--65237590 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
65237555 ATGCAGTCGG
65237565 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
65237591 ACATTTCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:65253932 original size:44 final size:43
Alignment explanation
Indices: 65253872--65254030 Score: 130
Period size: 44 Copynumber: 3.7 Consensus size: 43
65253862 GGTATTGATC
* *
65253872 TGAA-TTATCGTGTAAGACCGTGTCTGTGACACAGGCATCGAAT
1 TGAATTTA-CGTGTAAGACCATGTCTGGGACACAGGCATCGAAT
* *
65253915 TGAAATTTACGTGTAAGACCATGTCCGGGACATCA-GCATCGTAT
1 TG-AATTTACGTGTAAGACCATGTCTGGGACA-CAGGCATCGAAT
* * * * *
65253959 CTG-ATTT-CATATAAGACCCTGTCTGGGACAGAGGCATCGATAC
1 -TGAATTTACGTGTAAGACCATGTCTGGGACACAGGCATCGA-AT
* * *
65254002 TGAA-TTACTTGTAAGACCACGTCCGGGAC
1 TGAATTTACGTGTAAGACCATGTCTGGGAC
65254031 GTTGGCATTA
Statistics
Matches: 92, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
41 1 0.01
42 29 0.32
43 25 0.27
44 30 0.33
45 7 0.08
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (43 bp):
TGAATTTACGTGTAAGACCATGTCTGGGACACAGGCATCGAAT
Found at i:65253996 original size:42 final size:43
Alignment explanation
Indices: 65253884--65254030 Score: 113
Period size: 42 Copynumber: 3.4 Consensus size: 43
65253874 AATTATCGTG
* * * *
65253884 TAAGACCGTGTCTGTGACACAGGCATCGAATTGAAATTTACGTG
1 TAAGACCATGTCTGGGACACAGGCATCGAATTG-AATTTACATA
* *
65253928 TAAGACCATGTCCGGGACATCA-GCATCGTATCTG-ATTT-CATA
1 TAAGACCATGTCTGGGACA-CAGGCATCGAAT-TGAATTTACATA
* * * * *
65253970 TAAGACCCTGTCTGGGACAGAGGCATCGATACTGAA-TTACTTG
1 TAAGACCATGTCTGGGACACAGGCATCGA-ATTGAATTTACATA
* *
65254013 TAAGACCACGTCCGGGAC
1 TAAGACCATGTCTGGGAC
65254031 GTTGGCATTA
Statistics
Matches: 81, Mismatches: 16, Indels: 13
0.74 0.15 0.12
Matches are distributed among these distances:
41 1 0.01
42 29 0.36
43 23 0.28
44 24 0.30
45 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACACAGGCATCGAATTGAATTTACATA
Found at i:65258241 original size:11 final size:11
Alignment explanation
Indices: 65258220--65258253 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
65258210 GATAGTGTGA
65258220 TGATGCTCCAAC
1 TGAT-CTCCAAC
65258232 TGATCTCCAAC
1 TGATCTCCAAC
*
65258243 CGATCTCCAAC
1 TGATCTCCAAC
65258254 CTTCGTGAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.26, C:0.38, G:0.12, T:0.24
Consensus pattern (11 bp):
TGATCTCCAAC
Found at i:65258254 original size:11 final size:11
Alignment explanation
Indices: 65258225--65258254 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
65258215 TGTGATGATG
*
65258225 CTCCAACTGAT
1 CTCCAACCGAT
65258236 CTCCAACCGAT
1 CTCCAACCGAT
65258247 CTCCAACC
1 CTCCAACC
65258255 TTCGTGAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.27, C:0.47, G:0.07, T:0.20
Consensus pattern (11 bp):
CTCCAACCGAT
Found at i:65259192 original size:17 final size:18
Alignment explanation
Indices: 65259172--65259209 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
65259162 ATAAATCAAA
*
65259172 CAAA-AATATACCACATT
1 CAAATAATATACAACATT
*
65259189 CAAATCATATACAACATT
1 CAAATAATATACAACATT
65259207 CAA
1 CAA
65259210 TCGAAACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.24
Consensus pattern (18 bp):
CAAATAATATACAACATT
Found at i:65260357 original size:35 final size:36
Alignment explanation
Indices: 65260318--65260387 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 36
65260308 CATTATAATC
* *
65260318 ACTGTCATATGGTAAGAA-AACATACCCACATATTT
1 ACTGTCACATGGCAAGAATAACATACCCACATATTT
* *
65260353 ACTGTCACATGGCAATAATAACATACCCATATATT
1 ACTGTCACATGGCAAGAATAACATACCCACATATT
65260388 CTCTTTCACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 15 0.50
36 15 0.50
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (36 bp):
ACTGTCACATGGCAAGAATAACATACCCACATATTT
Found at i:65262404 original size:29 final size:29
Alignment explanation
Indices: 65262370--65262541 Score: 208
Period size: 29 Copynumber: 6.0 Consensus size: 29
65262360 CGACGCCCAC
65262370 CGAATATGAAAAGGGATGGTTTCGACCAT
1 CGAATATGAAAAGGGATGGTTTCGACCAT
*
65262399 CGAATATGAAAAGGGATGGTGAT-GACCAT
1 CGAATATGAAAAGGGATGGT-TTCGACCAT
** * *
65262428 TAAATATAAAAAAGGATGGTTTCG---AT
1 CGAATATGAAAAGGGATGGTTTCGACCAT
* *
65262454 CGAATATGCAAAGGGATGGTTTTGACCAT
1 CGAATATGAAAAGGGATGGTTTCGACCAT
* ** *
65262483 TGAATATGAAAAGGGATGGTGACAACCAT
1 CGAATATGAAAAGGGATGGTTTCGACCAT
65262512 CGAATATGAAAAGGGATGGTTTCGACCAT
1 CGAATATGAAAAGGGATGGTTTCGACCAT
65262541 C
1 C
65262542 ATTTAGCACA
Statistics
Matches: 116, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
26 20 0.17
28 1 0.01
29 94 0.81
30 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (29 bp):
CGAATATGAAAAGGGATGGTTTCGACCAT
Found at i:65262469 original size:55 final size:56
Alignment explanation
Indices: 65262372--65262531 Score: 196
Period size: 55 Copynumber: 2.8 Consensus size: 56
65262362 ACGCCCACCG
65262372 AATATGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGATGACCATTA
1 AATATGAAAAGGGATGGTTTCG--CATCGAATATGAAAAGGGATGGTGATGACCATTA
* * * ** *
65262430 AATATAAAAAAGGATGGTTTCG-ATCGAATATGCAAAGGGATGGTTTTGACCATTG
1 AATATGAAAAGGGATGGTTTCGCATCGAATATGAAAAGGGATGGTGATGACCATTA
** *
65262485 AATATGAAAAGGGATGGTGACAACCATCGAATATGAAAAGGGATGGT
1 AATATGAAAAGGGATGGTTTC--GCATCGAATATGAAAAGGGATGGT
65262532 TTCGACCATC
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
55 46 0.53
58 41 0.47
ACGTcount: A:0.39, C:0.09, G:0.28, T:0.24
Consensus pattern (56 bp):
AATATGAAAAGGGATGGTTTCGCATCGAATATGAAAAGGGATGGTGATGACCATTA
Found at i:65262511 original size:84 final size:84
Alignment explanation
Indices: 65262370--65262536 Score: 253
Period size: 84 Copynumber: 2.0 Consensus size: 84
65262360 CGACGCCCAC
** *
65262370 CGAATATGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGATGACCATTAAATAT
1 CGAATATGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGACAACCATCAAATAT
65262435 AAAAAAGGATGGTTTCGAT
66 AAAAAAGGATGGTTTCGAT
* * * *
65262454 CGAATATGCAAAGGGATGGTTTTGACCATTGAATATGAAAAGGGATGGTGACAACCATCGAATAT
1 CGAATATGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGACAACCATCAAATAT
* *
65262519 GAAAAGGGATGGTTTCGA
66 AAAAAAGGATGGTTTCGA
65262537 CCATCATTTA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 74 1.00
ACGTcount: A:0.38, C:0.10, G:0.28, T:0.25
Consensus pattern (84 bp):
CGAATATGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGACAACCATCAAATAT
AAAAAAGGATGGTTTCGAT
Found at i:65272525 original size:20 final size:20
Alignment explanation
Indices: 65272500--65272540 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
65272490 TAACCAAGAT
65272500 AGATGAGCCATATTTTCCAC
1 AGATGAGCCATATTTTCCAC
65272520 AGATGAGCCATATTTTCCAC
1 AGATGAGCCATATTTTCCAC
65272540 A
1 A
65272541 TGCTAATCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (20 bp):
AGATGAGCCATATTTTCCAC
Found at i:65278868 original size:12 final size:11
Alignment explanation
Indices: 65278842--65278867 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
65278832 AGAAGAGAAT
65278842 AAAATACAAAA
1 AAAATACAAAA
65278853 AAAATACAAAA
1 AAAATACAAAA
65278864 AAAA
1 AAAA
65278868 AAACACAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAATACAAAA
Found at i:65282613 original size:31 final size:28
Alignment explanation
Indices: 65282537--65282614 Score: 70
Period size: 29 Copynumber: 2.7 Consensus size: 28
65282527 TTTGAAGTAT
*
65282537 AATCAAAGTTTCAATGTATAATTACATCA
1 AATCAAAGCTTC-ATGTATAATTACATCA
* *
65282566 AATTAAAGCTT-GTGTATCAAATTACAGGTCA
1 AATCAAAGCTTCATGTAT--AATTACA--TCA
65282597 AATCAAAG-TTCATGTATA
1 AATCAAAGCTTCATGTATA
65282615 GTTTTAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
27 5 0.13
29 17 0.44
30 2 0.05
31 15 0.38
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (28 bp):
AATCAAAGCTTCATGTATAATTACATCA
Found at i:65284483 original size:8 final size:8
Alignment explanation
Indices: 65284461--65284505 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
65284451 ATATTTAATT
*
65284461 TTAAAAAA
1 TTAAATAA
*
65284469 TTGAATAA
1 TTAAATAA
65284477 TTAAATAA
1 TTAAATAA
**
65284485 AAAAATAA
1 TTAAATAA
65284493 TTAAATAA
1 TTAAATAA
65284501 TTAAA
1 TTAAA
65284506 ATAGAAAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (8 bp):
TTAAATAA
Found at i:65284499 original size:24 final size:25
Alignment explanation
Indices: 65284463--65284516 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
65284453 ATTTAATTTT
*
65284463 AAAAAATTGAATAATT-AAATA-AA
1 AAAAAATTAAATAATTAAAATAGAA
65284486 AAAATAATTAAATAATTAAAATAGAA
1 AAAA-AATTAAATAATTAAAATAGAA
65284512 AAAAA
1 AAAAA
65284517 TGCATAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 4 0.15
24 11 0.41
25 6 0.22
26 6 0.22
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (25 bp):
AAAAAATTAAATAATTAAAATAGAA
Found at i:65293728 original size:19 final size:18
Alignment explanation
Indices: 65293704--65293747 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
65293694 AATATGAATA
65293704 AAATTTATCTACCTAAAT
1 AAATTTATCTACCTAAAT
*
65293722 AAGATTTATCTACTTAAAT
1 AA-ATTTATCTACCTAAAT
65293741 AAATTTA
1 AAATTTA
65293748 AAATATATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:65296115 original size:22 final size:22
Alignment explanation
Indices: 65296090--65296134 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
65296080 TATTCTTTTG
65296090 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
65296112 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
65296134 T
1 T
65296135 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:65299923 original size:22 final size:22
Alignment explanation
Indices: 65299895--65299939 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
65299885 AGGGGGAGTG
65299895 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
65299917 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
65299939 T
1 T
65299940 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:65314338 original size:40 final size:40
Alignment explanation
Indices: 65314184--65314368 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
65314174 TATTCGAATG
* * *
65314184 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGTTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACT
* * *
65314225 ATATCCGGACTAAGAT-CCGAAGGCATTTATGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
* ** * * *
65314265 ATATCCGGGCCAAAACCTGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
65314305 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGA-T
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* * *
65314344 CATAACTGGGCTAAGACCCGAAGGC
1 -ATATCCGGGCTAAGTCCCGAAGGC
65314369 CTTGTGCGAG
Statistics
Matches: 117, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.76
41 26 0.22
42 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
Found at i:65314367 original size:80 final size:81
Alignment explanation
Indices: 65314188--65314368 Score: 215
Period size: 80 Copynumber: 2.2 Consensus size: 81
65314178 CGAATGATAT
* * * *
65314188 CCGGGCTAAGTCCCGAAGGCTTTTGTGTTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGCATTT
* *
65314253 ATGCGAGTTACTATAT
66 ATGCGAGTGACTATAA
* * * *
65314269 CCGGGCCAAAACCTGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGAT-CCGAAGGCATT
*
65314332 TATGCTAGTGA-TCATAA
65 TATGCGAGTGACT-ATAA
*
65314349 CTGGGCTAAGACCCGAAGGC
1 CCGGGCTAAGACCCGAAGGC
65314369 CTTGTGCGAG
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
79 2 0.02
80 58 0.70
81 23 0.28
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGCATTT
ATGCGAGTGACTATAA
Found at i:65318345 original size:40 final size:39
Alignment explanation
Indices: 65318180--65318363 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
65318170 AAATTGAATG
* * *
65318180 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
65318220 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
65318260 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
65318300 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
65318339 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
65318364 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:65318388 original size:80 final size:81
Alignment explanation
Indices: 65318220--65318408 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
65318210 GCTGGAAATT
* * * *
65318220 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
65318285 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
65318301 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
65318364 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
65318380 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
65318409 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:65322523 original size:70 final size:71
Alignment explanation
Indices: 65322440--65322602 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
65322430 CGATTTGTCT
65322440 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
65322504 CTTTCA
66 CTTTCA
65322510 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
65322575 CTTTCA
66 CTTTCA
65322581 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
65322603 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 52 0.57
71 40 0.43
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:65322640 original size:71 final size:70
Alignment explanation
Indices: 65322440--65322636 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
65322430 CGATTTGTCT
* * * *
65322440 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
65322504 CTTTCA
65 CTTTCA
* * * *
65322510 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
65322575 CTTTCA
65 CTTTCA
* *
65322581 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
65322637 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 53 0.45
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:65330063 original size:71 final size:71
Alignment explanation
Indices: 65329979--65330142 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
65329969 CGATTTGTCT
65329979 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
65330044 CTTTCA
66 CTTTCA
* *
65330050 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
65330115 CTTTCA
66 CTTTCA
65330121 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
65330143 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:65330180 original size:71 final size:70
Alignment explanation
Indices: 65329979--65330176 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
65329969 CGATTTGTCT
* * * * *
65329979 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
65330044 CTTTCA
65 CTTTCA
* * * *
65330050 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
65330115 CTTTCA
65 CTTTCA
* *
65330121 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
65330177 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:65336077 original size:14 final size:14
Alignment explanation
Indices: 65336058--65336095 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
65336048 CAATTCAAAA
65336058 ACATACCAAAAACC
1 ACATACCAAAAACC
65336072 ACATACCAAAAACC
1 ACATACCAAAAACC
*
65336086 ACATAGCAAA
1 ACATACCAAA
65336096 CTCATTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.58, C:0.32, G:0.03, T:0.08
Consensus pattern (14 bp):
ACATACCAAAAACC
Found at i:65338905 original size:16 final size:17
Alignment explanation
Indices: 65338884--65338921 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
65338874 ATGAATCGGC
65338884 AAAAGCCA-AAATGCCG
1 AAAAGCCAGAAATGCCG
65338900 AAAAG-CAGAAATGCCG
1 AAAAGCCAGAAATGCCG
65338916 AAAAGC
1 AAAAGC
65338922 TGAAAGTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.53, C:0.21, G:0.21, T:0.05
Consensus pattern (17 bp):
AAAAGCCAGAAATGCCG
Found at i:65338926 original size:16 final size:16
Alignment explanation
Indices: 65338892--65338926 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
65338882 GCAAAAGCCA
65338892 AAATGCCGAAAAGCAG
1 AAATGCCGAAAAGCAG
*
65338908 AAATGCCGAAAAGCTG
1 AAATGCCGAAAAGCAG
65338924 AAA
1 AAA
65338927 GTTTGGCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.51, C:0.17, G:0.23, T:0.09
Consensus pattern (16 bp):
AAATGCCGAAAAGCAG
Found at i:65339194 original size:29 final size:29
Alignment explanation
Indices: 65339149--65339288 Score: 158
Period size: 29 Copynumber: 4.9 Consensus size: 29
65339139 TGAATATGAC
* * * * *
65339149 TGGGCCTGACGGGCCATACAAATGTGATT
1 TGGGCCTAATGGGCCATATACAGGTGATT
*
65339178 TGTGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATACAGGTGATT
65339207 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATACAGGTGATT
** *
65339236 TGGGCCTAATGGGCCATATGA-ATATGA-A
1 TGGGCCTAATGGGCCATAT-ACAGGTGATT
* *
65339264 TGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAATGGGCCATATACAGGT
65339289 ATGTGAATTT
Statistics
Matches: 95, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
27 1 0.01
28 19 0.20
29 74 0.78
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATACAGGTGATT
Found at i:65342643 original size:27 final size:28
Alignment explanation
Indices: 65342596--65342664 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
65342586 AAATTTGTAC
65342596 AGCA-TAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
65342623 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
65342650 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
65342665 GACTCACTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 28 0.70
28 12 0.30
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:65342675 original size:27 final size:27
Alignment explanation
Indices: 65342619--65342676 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
65342609 GAGTTTGATC
* * *
65342619 ATATAGCACTAAGTGTGCGAGTTGATT
1 ATATAGCACTAAGTGTGCGAGCTCACT
65342646 ATATAGCACTAAGTGTGCG-GACTCACT
1 ATATAGCACTAAGTGTGCGAG-CTCACT
65342673 ATAT
1 ATAT
65342677 GCTTTTGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (27 bp):
ATATAGCACTAAGTGTGCGAGCTCACT
Found at i:65350460 original size:27 final size:28
Alignment explanation
Indices: 65350404--65350473 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
65350394 AAATTTGTAC
65350404 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
65350432 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
65350459 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
65350474 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:65350484 original size:27 final size:27
Alignment explanation
Indices: 65350404--65350485 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
65350394 AAATTTGTAC
* *
65350404 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
65350432 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
65350459 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
65350486 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:65354611 original size:30 final size:30
Alignment explanation
Indices: 65354571--65354628 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
65354561 CATGACCATG
* *
65354571 ACACATGGGCGTGTGGCTTGCCCGTGTGTC
1 ACACACGGGCGTGTGGCTTACCCGTGTGTC
*
65354601 ACACACGGGCGTGTGGTTTACCCGTGTG
1 ACACACGGGCGTGTGGCTTACCCGTGTG
65354629 AAAATGCCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.12, C:0.26, G:0.36, T:0.26
Consensus pattern (30 bp):
ACACACGGGCGTGTGGCTTACCCGTGTGTC
Found at i:65356478 original size:18 final size:18
Alignment explanation
Indices: 65356457--65356511 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 18
65356447 ATAAGTCTTC
*
65356457 AAAAATAAAGA-AAAAAT
1 AAAAATAAAAATAAAAAT
65356474 AAAAATAAAAATAAAAAT
1 AAAAATAAAAATAAAAAT
**
65356492 AGTAAT-AAAAT-AAAAT
1 AAAAATAAAAATAAAAAT
65356508 AAAA
1 AAAA
65356512 GGACTCAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
16 7 0.22
17 15 0.47
18 10 0.31
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (18 bp):
AAAAATAAAAATAAAAAT
Found at i:65356479 original size:6 final size:6
Alignment explanation
Indices: 65356457--65356511 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
65356447 ATAAGTCTTC
* **
65356457 AAAAAT AAAGA- AAAAAT AAAAAT AAAAAT AAAAAT AGTAAT -AAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
65356503 -AAAAT AAAA
1 AAAAAT AAAA
65356512 GGACTCAAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 12 0.29
6 29 0.71
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:65356483 original size:12 final size:12
Alignment explanation
Indices: 65356457--65356511 Score: 62
Period size: 11 Copynumber: 4.8 Consensus size: 12
65356447 ATAAGTCTTC
*
65356457 AAAAATAAAGA-
1 AAAAATAAAAAT
65356468 AAAAATAAAAAT
1 AAAAATAAAAAT
65356480 AAAAATAAAAAT
1 AAAAATAAAAAT
**
65356492 AGTAAT-AAAAT
1 AAAAATAAAAAT
65356503 -AAAATAAAA
1 AAAAATAAAA
65356512 GGACTCAAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 3 0.08
11 18 0.49
12 16 0.43
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:65361532 original size:40 final size:39
Alignment explanation
Indices: 65361488--65361668 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
65361478 GTTCAAAACA
* * ** * *
65361488 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
65361528 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
65361568 CCTTCGGGCTTAGCCCGG-TATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
65361606 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
65361645 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
65361669 CTTCGAACAT
Statistics
Matches: 129, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 36 0.28
39 53 0.41
40 40 0.31
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:65361638 original size:77 final size:79
Alignment explanation
Indices: 65361518--65361668 Score: 252
Period size: 77 Copynumber: 1.9 Consensus size: 79
65361508 TATGGTAACC
65361518 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
65361583 CGG-TATCATAGCT
66 CGGATATCATAGCT
* * * *
65361596 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
65361660 CGGATATCA
66 CGGATATCA
65361669 CTTCGAACAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
77 46 0.68
78 22 0.32
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.24
Consensus pattern (79 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
CGGATATCATAGCT
Found at i:65361640 original size:39 final size:39
Alignment explanation
Indices: 65361518--65361668 Score: 250
Period size: 39 Copynumber: 3.9 Consensus size: 39
65361508 TATGGTAACC
* * * *
65361518 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
65361558 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
65361596 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
65361635 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
65361669 CTTCGAACAT
Statistics
Matches: 106, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
38 36 0.34
39 53 0.50
40 17 0.16
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:65369507 original size:40 final size:39
Alignment explanation
Indices: 65369463--65369643 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
65369453 GTTCAAAACA
* * ** * *
65369463 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
65369503 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
65369543 CCTTCGGGCTTAGCCCGG-TATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
65369581 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
65369620 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
65369644 CTCGAACATT
Statistics
Matches: 129, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 36 0.28
39 53 0.41
40 40 0.31
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:65369613 original size:77 final size:79
Alignment explanation
Indices: 65369493--65369643 Score: 252
Period size: 77 Copynumber: 1.9 Consensus size: 79
65369483 TATGGTAACC
65369493 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
65369558 CGG-TATCATAGCT
66 CGGATATCATAGCT
* * * *
65369571 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
65369635 CGGATATCA
66 CGGATATCA
65369644 CTCGAACATT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
77 46 0.68
78 22 0.32
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.24
Consensus pattern (79 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
CGGATATCATAGCT
Found at i:65369615 original size:39 final size:39
Alignment explanation
Indices: 65369493--65369643 Score: 250
Period size: 39 Copynumber: 3.9 Consensus size: 39
65369483 TATGGTAACC
* * * *
65369493 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
65369533 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
65369571 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
65369610 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
65369644 CTCGAACATT
Statistics
Matches: 106, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
38 36 0.34
39 53 0.50
40 17 0.16
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:65383564 original size:15 final size:15
Alignment explanation
Indices: 65383544--65383589 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
65383534 ATTTACATAA
65383544 CATATATCACATTTT
1 CATATATCACATTTT
*
65383559 CATATATCAC-TTGT
1 CATATATCACATTTT
*
65383573 CATGTATCATCATTTT
1 CATATATCA-CATTTT
65383589 C
1 C
65383590 TTGCATTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 11 0.42
15 11 0.42
16 4 0.15
ACGTcount: A:0.28, C:0.22, G:0.04, T:0.46
Consensus pattern (15 bp):
CATATATCACATTTT
Found at i:65385911 original size:20 final size:20
Alignment explanation
Indices: 65385888--65385941 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
65385878 CGTAACATAA
65385888 GCACCAAAGTGCAAACAAAG
1 GCACCAAAGTGCAAACAAAG
* *
65385908 GCACCAGAGTGCAAACAGAG
1 GCACCAAAGTGCAAACAAAG
65385928 GCACCAAAGTGCAA
1 GCACCAAAGTGCAA
65385942 TCCCATACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.44, C:0.26, G:0.24, T:0.06
Consensus pattern (20 bp):
GCACCAAAGTGCAAACAAAG
Found at i:65387426 original size:27 final size:27
Alignment explanation
Indices: 65387396--65387500 Score: 129
Period size: 27 Copynumber: 3.9 Consensus size: 27
65387386 CTCATATCTG
* *
65387396 TAGGCTAGTATTACTGAAATACCCCTA
1 TAGGGTAGAATTACTGAAATACCCCTA
* *
65387423 TAGGGTAGAATTACTAAAATGCCCCTA
1 TAGGGTAGAATTACTGAAATACCCCTA
* * * *
65387450 TAGGATAGAATTATTGAAATGCCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTA
*
65387477 TAGGGTAAAATTACTGAAATACCC
1 TAGGGTAGAATTACTGAAATACCC
65387501 TTATTTTACA
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (27 bp):
TAGGGTAGAATTACTGAAATACCCCTA
Found at i:65387513 original size:27 final size:26
Alignment explanation
Indices: 65387483--65387745 Score: 140
Period size: 27 Copynumber: 9.8 Consensus size: 26
65387473 CCTGTAGGGT
65387483 AAAATTACTGAAATACCCTTATTTTA
1 AAAATTACTGAAATACCCTTATTTTA
* **
65387509 CAAAATTACTG-AATACCTTTGGTTTA
1 -AAAATTACTGAAATACCCTTATTTTA
** **
65387535 CAAAATTACCAAAATACCCTTGATTAGA
1 -AAAATTACTGAAATACCCTT-ATTTTA
** *
65387563 AAAATTACCAAAATACCCCTGATTTGT-
1 AAAATTACTGAAATA-CCCTTATTT-TA
* *
65387590 GAAATTACTGAAATACCCTCGATTTGT-
1 AAAATTACTGAAATACCCT-TATTT-TA
** * **
65387617 AAAATTACCAAAATACCTCTGATTTGG
1 AAAATTACTGAAATACC-CTTATTTTA
**
65387644 AAAATTA-TCGAAATACCCTTGATTTGG
1 AAAATTACT-GAAATACCCTT-ATTTTA
* *
65387671 AAAATTA-TAGAAATACCCCTAATTTAA
1 AAAATTACT-GAAATA-CCCTTATTTTA
*** *
65387698 AAAATTAAAAAAATACCATTGACTTTTA
1 AAAATTACTGAAATACCCTT-A-TTTTA
65387726 AAAATTACTGAAATACCCTT
1 AAAATTACTGAAATACCCTT
65387746 GGTTTATAGA
Statistics
Matches: 187, Mismatches: 36, Indels: 25
0.75 0.15 0.10
Matches are distributed among these distances:
26 30 0.16
27 125 0.67
28 32 0.17
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (26 bp):
AAAATTACTGAAATACCCTTATTTTA
Found at i:65387604 original size:54 final size:54
Alignment explanation
Indices: 65387483--65387743 Score: 208
Period size: 54 Copynumber: 4.8 Consensus size: 54
65387473 CCTGTAGGGT
* ** ** * **
65387483 AAAATTACTGAAATACCCTT-ATTTTACAAAATTA-CTGAATACCTTTGGTTTAC
1 AAAATTACTGAAATACCCTTGATTTGA-AAAATTACCAAAATACCCCTGATTTGG
** *
65387536 AAAATTACCAAAATACCCTTGATTAGAAAAATTACCAAAATACCCCTGATTTGTG
1 AAAATTACTGAAATACCCTTGATTTGAAAAATTACCAAAATACCCCTGATTTG-G
* * *
65387591 -AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCTCTGATTTGG
1 AAAATTACTGAAATACCCTTGATTTGAAAAATTACCAAAATACCCCTGATTTGG
* * * **
65387644 AAAATTA-TCGAAATACCCTTGATTTGGAAAATTA-TAGAAATACCCCTAATTTAA
1 AAAATTACT-GAAATACCCTTGATTTGAAAAATTACCA-AAATACCCCTGATTTGG
*** * * **
65387698 AAAATTAAAAAAATACCATTGACTTTTAAAAATTACTGAAATACCC
1 AAAATTACTGAAATACCCTTGA-TTTGAAAAATTACCAAAATACCC
65387744 TTGGTTTATA
Statistics
Matches: 169, Mismatches: 30, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
53 28 0.17
54 122 0.72
55 18 0.11
56 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.31
Consensus pattern (54 bp):
AAAATTACTGAAATACCCTTGATTTGAAAAATTACCAAAATACCCCTGATTTGG
Found at i:65387702 original size:81 final size:80
Alignment explanation
Indices: 65387483--65387746 Score: 220
Period size: 81 Copynumber: 3.2 Consensus size: 80
65387473 CCTGTAGGGT
* * *** *
65387483 AAAATTACTGAAATACCCTT-ATTT-TACAAAATTACTG-AATACCTTTGGTTTACAAAATTACC
1 AAAATTAC-GAAATACCCTTGATTTGT--GAAATTACTGAAATACCCTCAATTTAAAAAATTACC
*
65387545 AAAATACC-CTTGATTAGA
63 AAAATACCTC-TGATTTGA
* * * **
65387563 AAAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCTCGATTTGTAAAATTACCAA
1 AAAATTA-CGAAATACCCTTGATTTGTGAAATTACTGAAATACCCTCAATTTAAAAAATTACCAA
*
65387628 AATACCTCTGATTTGG
65 AATACCTCTGATTTGA
*
65387644 AAAATTATCGAAATACCCTTGATTTG-GAAAATTA-TAGAAATACCC-CTAATTTAAAAAATTAA
1 AAAATTA-CGAAATACCCTTGATTTGTG-AAATTACT-GAAATACCCTC-AATTTAAAAAATTAC
* *
65387706 AAAAATACCAT-TGACTTTTA
62 CAAAATACC-TCTGA-TTTGA
65387726 AAAATTACTGAAATACCCTTG
1 AAAATTAC-GAAATACCCTTG
65387747 GTTTATAGAT
Statistics
Matches: 153, Mismatches: 20, Indels: 20
0.79 0.10 0.10
Matches are distributed among these distances:
80 28 0.18
81 100 0.65
82 25 0.16
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (80 bp):
AAAATTACGAAATACCCTTGATTTGTGAAATTACTGAAATACCCTCAATTTAAAAAATTACCAAA
ATACCTCTGATTTGA
Found at i:65391084 original size:27 final size:27
Alignment explanation
Indices: 65391066--65391134 Score: 129
Period size: 27 Copynumber: 2.6 Consensus size: 27
65391056 GTAAGCTAGT
65391066 ATTACTGAAATGCCCCTGTAGGATAGA
1 ATTACTGAAATGCCCCTGTAGGATAGA
*
65391093 ATTACTGAAATGCCCCTGTAGGGTAGA
1 ATTACTGAAATGCCCCTGTAGGATAGA
65391120 ATTACTGAAATGCCC
1 ATTACTGAAATGCCC
65391135 TTAGTTTACA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (27 bp):
ATTACTGAAATGCCCCTGTAGGATAGA
Found at i:65391149 original size:27 final size:26
Alignment explanation
Indices: 65391119--65391177 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
65391109 TGTAGGGTAG
*
65391119 AATTACTGAAATGCCCTTAGTTTACAA
1 AATTACTG-AATACCCTTAGTTTACAA
* * *
65391146 AATTATTGAATACCTTTGGTTTACAA
1 AATTACTGAATACCCTTAGTTTACAA
65391172 AATTAC
1 AATTAC
65391178 AAAAATACCC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (26 bp):
AATTACTGAATACCCTTAGTTTACAA
Found at i:65391200 original size:27 final size:27
Alignment explanation
Indices: 65391170--65391348 Score: 159
Period size: 27 Copynumber: 6.6 Consensus size: 27
65391160 TTTGGTTTAC
* *
65391170 AAAATTACAAAAATACCCTCAATTAGA
1 AAAATTACAAAAATACCCTCAATTTGT
*
65391197 AAAATTACCAAAATACCC-CTAATTTGT
1 AAAATTACAAAAATACCCTC-AATTTGT
*
65391224 AAAATTACCAAAATACCC-CTAATTTGT
1 AAAATTACAAAAATACCCTC-AATTTGT
* * *
65391251 GAAATTACCAAAATACCCTTAATTTGT
1 AAAATTACAAAAATACCCTCAATTTGT
* * *
65391278 GAAATTATC-GAAATACCCTTAATTTGT
1 AAAATTA-CAAAAATACCCTCAATTTGT
* * **
65391305 AAAATTACAGAAATACCC-CTGATTTAC
1 AAAATTACAAAAATACCCTC-AATTTGT
*
65391332 AAAATTACAGAAATACC
1 AAAATTACAAAAATACC
65391349 ATTGACTTTC
Statistics
Matches: 136, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
26 2 0.01
27 133 0.98
28 1 0.01
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.28
Consensus pattern (27 bp):
AAAATTACAAAAATACCCTCAATTTGT
Found at i:65391230 original size:54 final size:54
Alignment explanation
Indices: 65391170--65391348 Score: 202
Period size: 54 Copynumber: 3.3 Consensus size: 54
65391160 TTTGGTTTAC
* *
65391170 AAAATTACAAAAATACCCTCAATTAGAAAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACAAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTGT
* * *
65391224 AAAATTACCAAAATACCC-CTAATTTGTGAAATTACCAAAATACCCTTAATTTGT
1 AAAATTACAAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTAATTTGT
* * * * **
65391278 GAAATTATC-GAAATACCCTTAATTTGTAAAATTA-CAGAAATACCCCTGATTTAC
1 AAAATTA-CAAAAATACCCTCAATTTGTAAAATTACCA-AAATACCCCTAATTTGT
*
65391332 AAAATTACAGAAATACC
1 AAAATTACAAAAATACC
65391349 ATTGACTTTC
Statistics
Matches: 106, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
53 4 0.04
54 101 0.95
55 1 0.01
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.28
Consensus pattern (54 bp):
AAAATTACAAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTGT
Found at i:65391258 original size:81 final size:81
Alignment explanation
Indices: 65391165--65391348 Score: 235
Period size: 81 Copynumber: 2.3 Consensus size: 81
65391155 ATACCTTTGG
65391165 TTTACAAAATTACAAAAATACCCTCAATTAGAAAAATTACCAAAATACCCCTAATTTGTAAAATT
1 TTTACAAAATTACAAAAATACCCTCAATTAGAAAAATTACCAAAATACCCCTAATTTGTAAAATT
65391230 ACCA-AAATACCCCTAA
66 A-CAGAAATACCCCTAA
*** * * * ** * * *
65391246 TTTGTGAAATTACCAAAATACCCTTAATTTGTGAAATTATCGAAATACCCTTAATTTGTAAAATT
1 TTTACAAAATTACAAAAATACCCTCAATTAGAAAAATTACCAAAATACCCCTAATTTGTAAAATT
*
65391311 ACAGAAATACCCCTGA
66 ACAGAAATACCCCTAA
*
65391327 TTTACAAAATTACAGAAATACC
1 TTTACAAAATTACAAAAATACC
65391349 ATTGACTTTC
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 2 0.02
81 83 0.98
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (81 bp):
TTTACAAAATTACAAAAATACCCTCAATTAGAAAAATTACCAAAATACCCCTAATTTGTAAAATT
ACAGAAATACCCCTAA
Found at i:65391361 original size:27 final size:27
Alignment explanation
Indices: 65391305--65391362 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
65391295 CTTAATTTGT
*
65391305 AAAATTACAGAAATACCCCTGATTTAC
1 AAAATTACAGAAATACCACTGATTTAC
*
65391332 AAAATTACAGAAATACCATTGACTTT-C
1 AAAATTACAGAAATACCACTGA-TTTAC
65391359 AAAA
1 AAAA
65391363 ATTATTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.48, C:0.19, G:0.07, T:0.26
Consensus pattern (27 bp):
AAAATTACAGAAATACCACTGATTTAC
Found at i:65393023 original size:49 final size:49
Alignment explanation
Indices: 65392951--65393134 Score: 260
Period size: 49 Copynumber: 3.7 Consensus size: 49
65392941 TGAGGTCACG
* *
65392951 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCA
* * * *
65393000 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-T-TGGTCGCA
* * * *
65393051 TGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCA
65393100 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
65393135 AATAGCTTCG
Statistics
Matches: 117, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 75 0.64
50 2 0.02
51 40 0.34
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCA
Found at i:65393124 original size:100 final size:100
Alignment explanation
Indices: 65392946--65393133 Score: 331
Period size: 100 Copynumber: 1.9 Consensus size: 100
65392936 TATTGTGAGG
* * * *
65392946 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
65393011 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
*
65393046 TCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
65393111 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
65393134 AAATAGCTTC
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:65394509 original size:25 final size:25
Alignment explanation
Indices: 65394473--65394673 Score: 208
Period size: 25 Copynumber: 8.0 Consensus size: 25
65394463 ATATGATATT
65394473 GATGGCTATGTGCCGATCTGTTATC
1 GATGGCTATGTGCCGATCTGTTATC
* * * * *
65394498 GATGGCTTTGTGCTGATATGATATT
1 GATGGCTATGTGCCGATCTGTTATC
65394523 GATGGCTATGTGCCGATCTGTTATC
1 GATGGCTATGTGCCGATCTGTTATC
* * * * *
65394548 GATGGCTTTGTACCGATATGATATT
1 GATGGCTATGTGCCGATCTGTTATC
*
65394573 GATGGCTATGTGCCGATCTATTATC
1 GATGGCTATGTGCCGATCTGTTATC
* * * *
65394598 GATGGCTTTGTACTGATATGATT-T-
1 GATGGCTATGTGCCGATCTG-TTATC
*
65394622 GATGGCTATGTGTCGATCTGTTATC
1 GATGGCTATGTGCCGATCTGTTATC
* *
65394647 GATGGCTTTGTGCCGATCGTATTATC
1 GATGGCTATGTGCCGATC-TGTTATC
65394673 G
1 G
65394674 TAATAATGGC
Statistics
Matches: 138, Mismatches: 34, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
23 2 0.01
24 16 0.12
25 111 0.80
26 9 0.07
ACGTcount: A:0.18, C:0.15, G:0.27, T:0.39
Consensus pattern (25 bp):
GATGGCTATGTGCCGATCTGTTATC
Found at i:65394536 original size:50 final size:50
Alignment explanation
Indices: 65394462--65394657 Score: 349
Period size: 50 Copynumber: 3.9 Consensus size: 50
65394452 AGGTGTTACA
*
65394462 GATATGATATTGATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTGCT
1 GATATGATATTGATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTACT
*
65394512 GATATGATATTGATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTACC
1 GATATGATATTGATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTACT
*
65394562 GATATGATATTGATGGCTATGTGCCGATCTATTATCGATGGCTTTGTACT
1 GATATGATATTGATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTACT
*
65394612 GATATGAT-TTGATGGCTATGTGTCGATCTGTTATCGATGGCTTTGT
1 GATATGATATTGATGGCTATGTGCCGATCTGTTATCGATGGCTTTGT
65394658 GCCGATCGTA
Statistics
Matches: 140, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
49 36 0.26
50 104 0.74
ACGTcount: A:0.19, C:0.14, G:0.27, T:0.40
Consensus pattern (50 bp):
GATATGATATTGATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTACT
Found at i:65400867 original size:296 final size:297
Alignment explanation
Indices: 65400332--65400925 Score: 1037
Period size: 296 Copynumber: 2.0 Consensus size: 297
65400322 CCAAATACTT
*
65400332 ATAAATAATCAATTTAATGCATATGACTTCTATATTGACATTTTCTACAATTACCCTAAACTTTT
1 ATAAATAATCAATTTAATGCATATGACTTCTATATTGACATTTTCCACAATTACCCTAAACTTTT
* * *
65400397 TCATTTTATTCAATTTAGTCCCTAAAATCAAAATAAGCTTAATTTCACAATTAATCCCTAATCCA
66 TCACTTTATTCAATTTAGTCCCTAAAATCAAAACAAGCTTAATTTCAAAATTAATCCCTAATCCA
* * *
65400462 TATTGTTGAATTTATTTTCATCAAAATCATCCCTTAAATTCTAAAATTTCGCAAGAAAACCAATC
131 TATTGCTGAATTTATTTACATCAAAATCATCCATTAAATTCTAAAATTTCGCAAGAAAACCAATC
*
65400527 AAATTTCAACATTTTATCTATTTAGTCCCTAAACTCAAAATTATTCAAAATTACTTTACAAAATA
196 AAATTTCAACATTTTATCTATTTAGTCCCTAAACTCAAAATTATTCAAAAGTACTTTACAAAATA
*
65400592 GTTCAAATCCATCATCAAGCTTCAAGCTCAAATATAA
261 GTTCAAATACATCATCAAGCTTCAAGCTCAAATATAA
* * *
65400629 ATAAATAATCAATTTAATGCTTATGACTTCTTTATTGACATTTTCCATAATTACCCTAAACTTTT
1 ATAAATAATCAATTTAATGCATATGACTTCTATATTGACATTTTCCACAATTACCCTAAACTTTT
*
65400694 TCACTTTATTCAATTTAGTCCCTAAAATCGAAACAAGCTTAATTTCAAAATT-ATCCCTAATCCA
66 TCACTTTATTCAATTTAGTCCCTAAAATCAAAACAAGCTTAATTTCAAAATTAATCCCTAATCCA
** *
65400758 TATTGCTGAATTTATTTACATCCTAATCATCCATTAAATTCTAAAATTTTGCAAGAAAACCAATC
131 TATTGCTGAATTTATTTACATCAAAATCATCCATTAAATTCTAAAATTTCGCAAGAAAACCAATC
65400823 AAATTTCAACATTTTATCTATTTAGTCCCTAAACTCAAAATTATTCAAAAGTACTTTACAAAATA
196 AAATTTCAACATTTTATCTATTTAGTCCCTAAACTCAAAATTATTCAAAAGTACTTTACAAAATA
65400888 GTTCAAATACATCATCAAGCTTCAAGCTCAAATATAA
261 GTTCAAATACATCATCAAGCTTCAAGCTCAAATATAA
65400925 A
1 A
65400926 CTTCAAGAAA
Statistics
Matches: 281, Mismatches: 16, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
296 172 0.61
297 109 0.39
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (297 bp):
ATAAATAATCAATTTAATGCATATGACTTCTATATTGACATTTTCCACAATTACCCTAAACTTTT
TCACTTTATTCAATTTAGTCCCTAAAATCAAAACAAGCTTAATTTCAAAATTAATCCCTAATCCA
TATTGCTGAATTTATTTACATCAAAATCATCCATTAAATTCTAAAATTTCGCAAGAAAACCAATC
AAATTTCAACATTTTATCTATTTAGTCCCTAAACTCAAAATTATTCAAAAGTACTTTACAAAATA
GTTCAAATACATCATCAAGCTTCAAGCTCAAATATAA
Found at i:65404424 original size:28 final size:28
Alignment explanation
Indices: 65404331--65404457 Score: 111
Period size: 28 Copynumber: 4.7 Consensus size: 28
65404321 GAATTTTCCA
* * *
65404331 AAAGGCATCCTTTTAACAAAGATAGCCAC
1 AAAGGCTTCC-TTTAACAGAGATTGCCAC
* * *
65404360 AAAGGATTCCTTTAAC--AGA---CTAG
1 AAAGGCTTCCTTTAACAGAGATTGCCAC
*
65404383 AAAGGCTTCCTTTAATAGAGATTGCCAC
1 AAAGGCTTCCTTTAACAGAGATTGCCAC
* * *
65404411 AAAGGCTTCATTTAACATAGATTGCCAT
1 AAAGGCTTCCTTTAACAGAGATTGCCAC
*
65404439 AAAGGTTTCCTTTAACAGA
1 AAAGGCTTCCTTTAACAGA
65404458 TATCACCACA
Statistics
Matches: 78, Mismatches: 15, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
23 16 0.21
25 3 0.04
26 3 0.04
28 48 0.62
29 8 0.10
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.28
Consensus pattern (28 bp):
AAAGGCTTCCTTTAACAGAGATTGCCAC
Found at i:65406352 original size:45 final size:47
Alignment explanation
Indices: 65406303--65406394 Score: 116
Period size: 45 Copynumber: 2.0 Consensus size: 47
65406293 TGTGTTCTTG
*
65406303 TGTAAGACCACATCTGGGACGTTGGCA-T-CGATATATGTGATTACA
1 TGTAAGACCACACCTGGGACGTTGGCATTACGATATATGTGATTACA
** *
65406348 TGTAAGACCATGCCTGGGATGTTGGCATTGTACGATATATGTGATTA
1 TGTAAGACCACACCTGGGACGTTGGCA-T-TACGATATATGTGATTA
65406395 TTCGAGTATC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 23 0.59
48 1 0.03
49 15 0.38
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (47 bp):
TGTAAGACCACACCTGGGACGTTGGCATTACGATATATGTGATTACA
Found at i:65412666 original size:29 final size:29
Alignment explanation
Indices: 65412634--65412740 Score: 108
Period size: 29 Copynumber: 3.7 Consensus size: 29
65412624 ATACCCTCCG
** *
65412634 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* *
65412663 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* * *
65412692 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACATAGTGCCATATTTTTCC
* *
65412721 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACATAGTGCCA
65412741 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACATAGTGCCATATTTTTCC
Found at i:65413933 original size:19 final size:17
Alignment explanation
Indices: 65413897--65413953 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 17
65413887 AGAATGAACA
*
65413897 CTTTTTTTT-TTCTTTT
1 CTTTTTTTTCTTCATTT
65413913 CTTTGTTTTTCTTCATATT
1 CTTT-TTTTTCTTCAT-TT
*
65413932 CTCTTTTTTTTTTCATTT
1 CT-TTTTTTTCTTCATTT
65413950 CTTT
1 CTTT
65413954 ATTCTTCCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
16 4 0.11
17 7 0.20
18 8 0.23
19 14 0.40
20 2 0.06
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (17 bp):
CTTTTTTTTCTTCATTT
Found at i:65413936 original size:21 final size:18
Alignment explanation
Indices: 65413897--65413951 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
65413887 AGAATGAACA
65413897 CTTTTTTTTTTC-TTT-T
1 CTTTTTTTTTTCATTTCT
65413913 CTTTGTTTTTCTTCATATTCT
1 CTTT-TTTTT-TTCAT-TTCT
65413934 CTTTTTTTTTTCATTTCT
1 CTTTTTTTTTTCATTTCT
65413952 TTATTCTTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.12
17 5 0.15
18 7 0.21
19 6 0.18
20 7 0.21
21 5 0.15
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.76
Consensus pattern (18 bp):
CTTTTTTTTTTCATTTCT
Found at i:65420578 original size:29 final size:29
Alignment explanation
Indices: 65420546--65420652 Score: 108
Period size: 29 Copynumber: 3.7 Consensus size: 29
65420536 ATACCCTCCG
** *
65420546 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* *
65420575 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* * *
65420604 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACATAGTGCCATATTTTTCC
* *
65420633 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACATAGTGCCA
65420653 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACATAGTGCCATATTTTTCC
Found at i:65421847 original size:21 final size:20
Alignment explanation
Indices: 65421808--65421864 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
65421798 AGAATGAACA
65421808 CTTT-TTTTT-TTC-TTT-T
1 CTTTGTTTTTCTTCATTTCT
65421824 CTTTGTTTTTCTTCATATTCT
1 CTTTGTTTTTCTTCAT-TTCT
* *
65421845 CTTTTTTTTTTTTCATTTCT
1 CTTTGTTTTTCTTCATTTCT
65421865 TTATTCTTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 4 0.12
17 5 0.15
18 3 0.09
19 1 0.03
20 6 0.18
21 15 0.44
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (20 bp):
CTTTGTTTTTCTTCATTTCT
Found at i:65425675 original size:29 final size:29
Alignment explanation
Indices: 65425642--65425715 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
65425632 GTGACGAGAT
65425642 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
65425671 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
65425700 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
65425716 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:65425731 original size:29 final size:28
Alignment explanation
Indices: 65425699--65425773 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
65425689 CTGGAAATAT
* *
65425699 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
65425728 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
65425756 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
65425774 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:65425742 original size:58 final size:57
Alignment explanation
Indices: 65425642--65425773 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
65425632 GTGACGAGAT
* * * * * *
65425642 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
65425700 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
65425757 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
65425774 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:65431742 original size:29 final size:29
Alignment explanation
Indices: 65431709--65431782 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
65431699 GTGACGAGAT
65431709 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
65431738 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
65431767 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
65431783 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:65431836 original size:28 final size:29
Alignment explanation
Indices: 65431766--65431840 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 29
65431756 CTGGAAATAT
* *
65431766 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** *
65431795 ATGGCACTGTGTGTGCG-GC-CTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTC-AAAGCGC
65431823 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
65431841 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
27 1 0.03
28 21 0.57
29 15 0.41
ACGTcount: A:0.23, C:0.21, G:0.35, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:65435501 original size:16 final size:16
Alignment explanation
Indices: 65435476--65435507 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
65435466 AAATTTTCAC
*
65435476 ATATATTCACTGCACA
1 ATATAATCACTGCACA
65435492 ATATAATCACTGCACA
1 ATATAATCACTGCACA
65435508 CACGTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (16 bp):
ATATAATCACTGCACA
Found at i:65444130 original size:24 final size:24
Alignment explanation
Indices: 65444097--65444150 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
65444087 AAGGCTATCA
65444097 GGAGAAGATTTAGCAGCTGATAAG
1 GGAGAAGATTTAGCAGCTGATAAG
* * *
65444121 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAAGATTTAGCAGCTGATAAG
65444145 GGAGAA
1 GGAGAA
65444151 TGGTGTTGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.06, G:0.39, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGCAGCTGATAAG
Found at i:65445562 original size:27 final size:26
Alignment explanation
Indices: 65445522--65445632 Score: 159
Period size: 27 Copynumber: 4.2 Consensus size: 26
65445512 AGGAAGCGTC
* *
65445522 CTGGTGGCTATGCCACAATTATCTGCT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
65445549 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
65445576 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
65445603 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
65445629 CTGG
1 CTGG
65445633 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
26 16 0.21
27 60 0.77
28 2 0.03
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:65448652 original size:13 final size:13
Alignment explanation
Indices: 65448634--65448659 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65448624 ATATTATAAT
65448634 TATTTTATGTTAA
1 TATTTTATGTTAA
65448647 TATTTTATGTTAA
1 TATTTTATGTTAA
65448660 AAATAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Done.