Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 150 of 343
Found at i:49796143 original size:26 final size:27
Alignment explanation
Indices: 49796085--49796151 Score: 91
Period size: 26 Copynumber: 2.5 Consensus size: 27
49796075 CAAACTATTT
* *
49796085 AAATTACCGAAATACCCCTAATTTGTT
1 AAATTACCGAAATACCCCTAACTTGTA
* *
49796112 AAATTACCAAAATACCCC-CACTTGTA
1 AAATTACCGAAATACCCCTAACTTGTA
49796138 AAATTACCGAAATA
1 AAATTACCGAAATA
49796152 ACCTTGTAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
26 18 0.51
27 17 0.49
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.27
Consensus pattern (27 bp):
AAATTACCGAAATACCCCTAACTTGTA
Found at i:49796192 original size:27 final size:27
Alignment explanation
Indices: 49796135--49796195 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
49796125 ACCCCCACTT
* * * *
49796135 GTAAAATTACCGAAATAACCTTGTAGT
1 GTAAAATTACCGAAAGAACCCTATAGG
* *
49796162 GTAAAATTACCGAACGACCCCTATAGG
1 GTAAAATTACCGAAAGAACCCTATAGG
49796189 GTAAAAT
1 GTAAAAT
49796196 GACTATTTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (27 bp):
GTAAAATTACCGAAAGAACCCTATAGG
Found at i:49800923 original size:27 final size:28
Alignment explanation
Indices: 49800893--49800990 Score: 96
Period size: 27 Copynumber: 3.6 Consensus size: 28
49800883 AAAATTGTTT
* *
49800893 AAATTACCGAAATACCCTTA-ATTTGTG
1 AAATTACCGAAATACCCTTACACTTGTA
*
49800920 AAATTACAGAAATAGCCC--ACACTTGTA
1 AAATTACCGAAATA-CCCTTACACTTGTA
** *
49800947 AAATTACCGAAATACCCTTGTA-GTGTA
1 AAATTACCGAAATACCCTTACACTTGTA
*
49800974 AAATTACCGAACTACCC
1 AAATTACCGAAATACCC
49800991 CTGTAGGGCA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
26 4 0.07
27 51 0.86
28 4 0.07
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (28 bp):
AAATTACCGAAATACCCTTACACTTGTA
Found at i:49800995 original size:27 final size:27
Alignment explanation
Indices: 49800943--49800996 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
49800933 AGCCCACACT
*
49800943 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCCTGTAG
*
49800970 TGTAAAATTACCGAACTACCCCTGTAG
1 TGTAAAATTACCGAAATACCCCTGTAG
49800997 GGCAAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCCTGTAG
Found at i:49801003 original size:27 final size:27
Alignment explanation
Indices: 49800946--49801004 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
49800936 CCACACTTGT
* * *
49800946 AAAATTACCGAAATACCCTTGTAGTGT
1 AAAATTACCGAAATACCCCTGTAGGGC
*
49800973 AAAATTACCGAACTACCCCTGTAGGGC
1 AAAATTACCGAAATACCCCTGTAGGGC
49801000 AAAAT
1 AAAAT
49801005 GATTATTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTGTAGGGC
Found at i:49802434 original size:93 final size:93
Alignment explanation
Indices: 49802327--49802495 Score: 275
Period size: 93 Copynumber: 1.8 Consensus size: 93
49802317 GCCCATAAGC
**
49802327 GAACTCGGACTCAACTCAACGAGCTCGGGTATTCGCATCCATAAGTGAACTCGAAATCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAAATCAACTCAA
49802392 CGAGTTCGGATACCTAGTTACATTTCAT
66 CGAGTTCGGATACCTAGTTACATTTCAT
* * * *
49802420 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAAATCAACTCAA
*
49802485 CGAGTTTGGAT
66 CGAGTTCGGAT
49802496 GTTCGCATCC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAAATCAACTCAA
CGAGTTCGGATACCTAGTTACATTTCAT
Found at i:49802542 original size:46 final size:46
Alignment explanation
Indices: 49802319--49802542 Score: 263
Period size: 46 Copynumber: 4.8 Consensus size: 46
49802309 TGTAACCCGC
* * * *
49802319 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * ** * *
49802365 CCATAAGTGAACTCGAAATCAACTCAACGAGTTCGGATACCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT-GTTCGCAT
* * *
49802411 ACATTTCA-TGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
*
49802458 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* *
49802504 CCATAAGTGAACTCGGACTCAACTCAATGAGTTTGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
49802543 CCCAAATATC
Statistics
Matches: 150, Mismatches: 23, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
45 2 0.01
46 113 0.75
47 33 0.22
48 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:49805717 original size:27 final size:27
Alignment explanation
Indices: 49805683--49805741 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
49805673 CCCGTACTTG
*
49805683 AAAATTACCGAAATACCCTTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
*
49805710 AAAATTACCGAACTACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
49805737 AAAAT
1 AAAAT
49805742 GATTGTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTGTAGGGT
Found at i:49806279 original size:39 final size:39
Alignment explanation
Indices: 49806225--49806303 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
49806215 TTTACCCATG
49806225 GCTGTGTGTCAATTATATTACCATCACTGATGGCTATGT
1 GCTGTGTGTCAATTATATTACCATCACTGATGGCTATGT
49806264 GCTGTGTGTCAATTATATTACCATCACTGATGGCTATGT
1 GCTGTGTGTCAATTATATTACCATCACTGATGGCTATGT
49806303 G
1 G
49806304 TCGAACTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (39 bp):
GCTGTGTGTCAATTATATTACCATCACTGATGGCTATGT
Found at i:49808205 original size:79 final size:82
Alignment explanation
Indices: 49808094--49808278 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
49808084 GCTACTCGTT
* * *
49808094 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
49808157 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
49808174 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
49808237 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
49808254 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49808279 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:49808278 original size:40 final size:40
Alignment explanation
Indices: 49808075--49808278 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
49808065 CGGAATTTAA
** *
49808075 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
49808115 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
49808155 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
49808194 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
49808234 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
49808274 CCGGA
1 CCGGA
49808279 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:49816254 original size:79 final size:82
Alignment explanation
Indices: 49816143--49816327 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
49816133 GCTACTCGTT
* * *
49816143 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
49816206 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
49816223 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
49816286 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
49816303 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49816328 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:49816327 original size:40 final size:40
Alignment explanation
Indices: 49816124--49816327 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
49816114 CGGAATTTAA
** *
49816124 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
49816164 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
49816204 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
49816243 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
49816283 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
49816323 CCGGA
1 CCGGA
49816328 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:49821825 original size:29 final size:28
Alignment explanation
Indices: 49821754--49821905 Score: 114
Period size: 29 Copynumber: 5.4 Consensus size: 28
49821744 ACCCCTCCAT
*
49821754 ACATGCATATGGCCCA-CTAGGCCCAATC
1 ACATTCATATGGCCCATC-AGGCCCAATC
* *
49821782 TCA-TCTATATGGCCCATCCGGCCCAATTC
1 ACATTC-ATATGGCCCATCAGGCCCAA-TC
*
49821811 ACATTCATATGGCCCATAAGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAA-TC
* * * * **
49821840 ACATTCGTATGACGCATTAGGATCAATC
1 ACATTCATATGGCCCATCAGGCCCAATC
* *
49821868 TCATTTATATGGCCCATCCA-GCCCAAATC
1 ACATTCATATGGCCCAT-CAGGCCC-AATC
49821897 ACATT-ATAT
1 ACATTCATAT
49821906 CCATGCTTAC
Statistics
Matches: 97, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
27 1 0.01
28 39 0.40
29 55 0.57
30 2 0.02
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (28 bp):
ACATTCATATGGCCCATCAGGCCCAATC
Found at i:49828226 original size:26 final size:27
Alignment explanation
Indices: 49828197--49828251 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
49828187 ATTCAACACA
* * *
49828197 TAGGGGTATTTTGGTCATTTTTC-CCT
1 TAGGGGTATTTCGATAATTTTTCTCCT
49828223 TAGGGGTATTTCGATAATTTTTCTCCT
1 TAGGGGTATTTCGATAATTTTTCTCCT
49828250 TA
1 TA
49828252 TTACGGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.16, C:0.15, G:0.20, T:0.49
Consensus pattern (27 bp):
TAGGGGTATTTCGATAATTTTTCTCCT
Found at i:49828567 original size:28 final size:28
Alignment explanation
Indices: 49828510--49828569 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
49828500 ACATACATGC
*
49828510 ATATGGCCCACTAGGCCCAATCTCATTT
1 ATATGGCCCACTAGGCCCAATATCATTT
49828538 ATATGGCCCATCT-GGCCCAA-ATCATATT
1 ATATGGCCCA-CTAGGCCCAATATCAT-TT
49828566 ATAT
1 ATAT
49828570 CCATGCTCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 4 0.14
28 23 0.79
29 2 0.07
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (28 bp):
ATATGGCCCACTAGGCCCAATATCATTT
Found at i:49836735 original size:27 final size:27
Alignment explanation
Indices: 49836696--49836748 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
49836686 ACATTAGGTG
* *
49836696 TTCTTGGAGATCTTCCCCTTCGAAACC
1 TTCTTGGAAATCTTCCCCTTCAAAACC
*
49836723 TTCTTGGAAATCTTTCCCTTCAAAAC
1 TTCTTGGAAATCTTCCCCTTCAAAAC
49836749 ATTTCCCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.30, G:0.11, T:0.36
Consensus pattern (27 bp):
TTCTTGGAAATCTTCCCCTTCAAAACC
Found at i:49851768 original size:13 final size:13
Alignment explanation
Indices: 49851750--49851788 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
49851740 CATTTTTTAT
49851750 AAAAGAAAAAGAA
1 AAAAGAAAAAGAA
*
49851763 AAAAGAAAAAAAA
1 AAAAGAAAAAGAA
49851776 AAGAAGAAAAAGA
1 AA-AAGAAAAAGA
49851789 GCTGGTAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAGAA
Found at i:49858605 original size:6 final size:6
Alignment explanation
Indices: 49858594--49858618 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
49858584 GCAATGATGT
49858594 AAAGGA AAAGGA AAAGGA AAAGGA A
1 AAAGGA AAAGGA AAAGGA AAAGGA A
49858619 TGGTTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:49862282 original size:21 final size:22
Alignment explanation
Indices: 49862233--49862282 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 22
49862223 CCTCGTCTTT
*
49862233 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTGCTTCTTTTTCTAAC
49862255 -TCATTTT-CTTCTTTCTTC-AAC
1 TTC-TTTTGCTTCTTT-TTCTAAC
49862276 TTCTTTT
1 TTCTTTT
49862283 TCAATTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.10, C:0.22, G:0.02, T:0.66
Consensus pattern (22 bp):
TTCTTTTGCTTCTTTTTCTAAC
Found at i:49867762 original size:28 final size:28
Alignment explanation
Indices: 49867718--49867825 Score: 112
Period size: 28 Copynumber: 3.9 Consensus size: 28
49867708 ACATACCTGT
* * *
49867718 ATATAGCCCATTCGGCCCAATCTCTTTC
1 ATATGGCCCATTAGGCCCAATCACTTTC
*
49867746 ATATGGCCCAGTAGGCCCAATCACATTT-
1 ATATGGCCCATTAGGCCCAATCAC-TTTC
* * *
49867774 ATGTGGCTCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCC-AATCACTTTC
*
49867803 ATACGG-CCATTAGGCCCAATCAC
1 ATATGGCCCATTAGGCCCAATCAC
49867826 ATTTACAATT
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
27 6 0.09
28 47 0.71
29 13 0.20
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCACTTTC
Found at i:49867923 original size:18 final size:19
Alignment explanation
Indices: 49867900--49867936 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
49867890 ATGGCCCAAC
49867900 AGCCCA-TCGGGCCCATTT
1 AGCCCATTCGGGCCCATTT
*
49867918 AGCCCATTCTGGCCCATTT
1 AGCCCATTCGGGCCCATTT
49867937 GGCCAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.16, C:0.38, G:0.19, T:0.27
Consensus pattern (19 bp):
AGCCCATTCGGGCCCATTT
Found at i:49867945 original size:19 final size:19
Alignment explanation
Indices: 49867909--49867945 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
49867899 CAGCCCATCG
*
49867909 GGCCCATTTAGCCCATTCT
1 GGCCCATTTAGCCAATTCT
*
49867928 GGCCCATTTGGCCAATTC
1 GGCCCATTTAGCCAATTC
49867946 ACAACCCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.35, G:0.19, T:0.30
Consensus pattern (19 bp):
GGCCCATTTAGCCAATTCT
Found at i:49870909 original size:141 final size:141
Alignment explanation
Indices: 49870720--49870998 Score: 513
Period size: 141 Copynumber: 2.0 Consensus size: 141
49870710 TTCATTTTGT
* *
49870720 TTATGGCCATAAGATATGTCTCATTTTGATGAAGGTTGTCAACTTACTAATTGTGCATGTCATAC
1 TTATGGCCATAAGATATGTCTCATTTTGATGAAGGTTGTAAACCTACTAATTGTGCATGTCATAC
* *
49870785 TTGAATGTTTCATGGCATGGTTAATGTGATATACCATGGATGGATATGTGTATTGTGGTTGAATC
66 TTGAATGTTTCATGACATGGTTAATATGATATACCATGGATGGATATGTGTATTGTGGTTGAATC
49870850 ACTTGGAGTGG
131 ACTTGGAGTGG
*
49870861 TTATGGCCATAAGATATGTCTCATTTTGATGAAGGTTGTAAACCTACTAATTTTGCATGTCATAC
1 TTATGGCCATAAGATATGTCTCATTTTGATGAAGGTTGTAAACCTACTAATTGTGCATGTCATAC
49870926 TTGAATGTTTCATGACATGGTTAATATGATATACCATGGATGGATATGTGTATTGTGGTTGAATC
66 TTGAATGTTTCATGACATGGTTAATATGATATACCATGGATGGATATGTGTATTGTGGTTGAATC
49870991 ACTTGGAG
131 ACTTGGAG
49870999 ATGGCTAGGA
Statistics
Matches: 133, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
141 133 1.00
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.38
Consensus pattern (141 bp):
TTATGGCCATAAGATATGTCTCATTTTGATGAAGGTTGTAAACCTACTAATTGTGCATGTCATAC
TTGAATGTTTCATGACATGGTTAATATGATATACCATGGATGGATATGTGTATTGTGGTTGAATC
ACTTGGAGTGG
Found at i:49871099 original size:30 final size:30
Alignment explanation
Indices: 49871065--49871131 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
49871055 TGACATGCAA
*
49871065 CATTGAAGTGTTTTTTGAAAACCATGTTTT
1 CATTGAAGTGTTTTTCGAAAACCATGTTTT
49871095 CATTGAAGTGTTTTTCGAAAACCATGTTTT
1 CATTGAAGTGTTTTTCGAAAACCATGTTTT
49871125 CATTGAA
1 CATTGAA
49871132 AACCCTTCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.43
Consensus pattern (30 bp):
CATTGAAGTGTTTTTCGAAAACCATGTTTT
Found at i:49871134 original size:18 final size:18
Alignment explanation
Indices: 49871079--49871135 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 18
49871069 GAAGTGTTTT
49871079 TTGAAAACCATGTTTTCA
1 TTGAAAACCATGTTTTCA
*
49871097 TTG--AA--GTGTTTT--
1 TTGAAAACCATGTTTTCA
*
49871109 TCGAAAACCATGTTTTCA
1 TTGAAAACCATGTTTTCA
49871127 TTGAAAACC
1 TTGAAAACC
49871136 CTTCTTAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
12 2 0.07
14 8 0.28
16 8 0.28
18 11 0.38
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (18 bp):
TTGAAAACCATGTTTTCA
Found at i:49872593 original size:27 final size:27
Alignment explanation
Indices: 49872563--49872661 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
49872553 TACCCTACAG
49872563 GGGTAGTTT-GGTAATTTTACAAACCGA
1 GGGTA-TTTCGGTAATTTTACAAACCGA
*
49872590 GGGTATTTCGGTAATTTTACAAACCGG
1 GGGTATTTCGGTAATTTTACAAACCGA
**
49872617 GGGTATTTCGGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTTACAAACCGA
**
49872644 -GGTATTTCTATAATTTTA
1 GGGTATTTCGGTAATTTTA
49872662 AACAGTTTGG
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
26 19 0.29
27 46 0.71
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAACCGA
Found at i:49884197 original size:81 final size:82
Alignment explanation
Indices: 49884082--49884341 Score: 258
Period size: 81 Copynumber: 3.2 Consensus size: 82
49884072 TTATTTTACC
* * * *
49884082 AAATTACCAAAATACCCTCGATTAGCAAAATTACCAAAATACCCTCGA-TTAGCAAAATTACTAG
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGAGTTAGCAAAATTACCAA
* *
49884146 AATACCCTTGGTTTATA
66 AATACCCCTGATTTATA
* * * *
49884163 AAATCACCAAAATACACCT-GGTTTGTAAAATTACCAAAATACCCT-TAGTTTGCAAAATTACCA
1 AAATTACCAAAATAC-CCTCGATTTGTAAAATTACCAAAATACCCTCGAGTTAGCAAAATTACCA
* *
49884226 AAATACCCCTGATTTGTG
65 AAATACCCCTGATTTATA
* * * * * **
49884244 AAATTACCGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTA-CAAAATTACCGT
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGAGTTAGCAAAATTACCAA
** * *
49884308 TTTACCCTTGATTTACA
66 AATACCCCTGATTTATA
**
49884325 AAATTATTAAAATACCC
1 AAATTACCAAAATACCC
49884342 CTGTAGGGTA
Statistics
Matches: 143, Mismatches: 32, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
80 4 0.03
81 133 0.93
82 6 0.04
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.28
Consensus pattern (82 bp):
AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGAGTTAGCAAAATTACCAA
AATACCCCTGATTTATA
Found at i:49884340 original size:27 final size:27
Alignment explanation
Indices: 49884076--49884341 Score: 198
Period size: 27 Copynumber: 9.9 Consensus size: 27
49884066 AATACTTTAT
* *
49884076 TTTACCAAATTACCAAAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCTTGA
*
49884103 -TTAGCAAAATTACCAAAATACCCTCGA
1 TTTA-CAAAATTACCAAAATACCCTTGA
* * *
49884130 -TTAGCAAAATTACTAGAATACCCTTGG
1 TTTA-CAAAATTACCAAAATACCCTTGA
* * *
49884157 TTTATAAAATCACCAAAATACACC-TGG
1 TTTACAAAATTACCAAAATAC-CCTTGA
**
49884184 TTTGTAAAATTACCAAAATACCCTT-A
1 TTTACAAAATTACCAAAATACCCTTGA
* *
49884210 GTTTGCAAAATTACCAAAATACCCCTGA
1 -TTTACAAAATTACCAAAATACCCTTGA
*** * *
49884238 TTTGTGAAATTACCGAAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCTTGA
* ** * **
49884265 CTTGTAAAATTACCAAAGTACCCCCGA
1 TTTACAAAATTACCAAAATACCCTTGA
****
49884292 TTTACAAAATTACCGTTTTACCCTTGA
1 TTTACAAAATTACCAAAATACCCTTGA
**
49884319 TTTACAAAATTATTAAAATACCC
1 TTTACAAAATTACCAAAATACCC
49884342 CTGTAGGGTA
Statistics
Matches: 194, Mismatches: 39, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
26 5 0.03
27 183 0.94
28 6 0.03
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTTGA
Found at i:49884364 original size:27 final size:27
Alignment explanation
Indices: 49884334--49884409 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
49884324 AAAATTATTA
** *
49884334 AAATACCCCTGTAGGGTAGAGTTACTG
1 AAATACCCCTGTAGGGTAGAAATACCG
* * *
49884361 AAATACGCTTGTAGGCTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAAATACCG
49884388 AAATACCCCTGTAGGGTA-AAAT
1 AAATACCCCTGTAGGGTAGAAAT
49884410 TACCATTTTG
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
26 4 0.10
27 36 0.90
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAAATACCG
Found at i:49884794 original size:22 final size:22
Alignment explanation
Indices: 49884761--49884819 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
49884751 CACGTTATCG
49884761 ATGGC-TCTGTGCCAACCTAAAT
1 ATGGCTTC-GTGCCAACCTAAAT
* * * *
49884783 ATGGCTTCGTGCCATCTTGACT
1 ATGGCTTCGTGCCAACCTAAAT
*
49884805 ATGGCTTAGTGCCAA
1 ATGGCTTCGTGCCAA
49884820 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 28 0.93
23 2 0.07
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGGCTTCGTGCCAACCTAAAT
Found at i:49885007 original size:27 final size:27
Alignment explanation
Indices: 49884977--49885040 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
49884967 ATTCTGTTAA
* *
49884977 GTGGCTTTGCCA-CATTATCTGATTCTG
1 GTGGCTTTGCCATAAATATCTG-TTCTG
*
49885004 GTGGCTATGCCATAAATATCTGTTCTG
1 GTGGCTTTGCCATAAATATCTGTTCTG
*
49885031 GAGGCTTTGC
1 GTGGCTTTGC
49885041 TTCAATTTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 24 0.77
28 7 0.23
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (27 bp):
GTGGCTTTGCCATAAATATCTGTTCTG
Found at i:49885222 original size:6 final size:6
Alignment explanation
Indices: 49885184--49885303 Score: 68
Period size: 6 Copynumber: 19.3 Consensus size: 6
49885174 TTGCATTCAC
* * *
49885184 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
49885234 -TTACCTA ATACTG ATTCTG ATTCTA ATTCTG -TCATCTA ATTCTG ATTTTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
49885284 ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
49885304 AATGTTTCTT
Statistics
Matches: 86, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
5 6 0.07
6 63 0.73
7 14 0.16
8 3 0.03
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:49885230 original size:31 final size:31
Alignment explanation
Indices: 49885184--49885294 Score: 141
Period size: 31 Copynumber: 3.5 Consensus size: 31
49885174 TTGCATTCAC
* *
49885184 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTAATACTG
*
49885216 ATTCTGATTTTGATTCTGTTACCTAATACTG
1 ATTCTGATTCTGATTCTGTTACCTAATACTG
* * * *
49885247 ATTCTGATTCTAATTCTGTCATCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTAATACTG
*
49885278 ATTTTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
49885295 AGTTCTGATA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 64 0.90
32 7 0.10
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTAATACTG
Found at i:49910194 original size:68 final size:64
Alignment explanation
Indices: 49909980--49910238 Score: 206
Period size: 68 Copynumber: 3.9 Consensus size: 64
49909970 ATATAGTTCG
* *
49909980 GCTCTCTTGTAC-ACATGGTGAACACTCAGTACCACCCATGTGACCTAGC-CA-ATTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGTGACCTAGCTCACATATATCTCGT
*
49910042 T
64 A
* * * * * *
49910043 GCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCT-ACATATATCCC
1 GCTCTCTTGTCTACATGGTG---TACA-CTAGTACCACCCATGTGACCTAGCTCACATATATCTC
49910107 GTA
62 GTA
* *
49910110 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATCATAATATCTT
1 GCTCTCTTGTCTACATGGTGTACAC-TAGTACCACCCATGTGACCTAGCT-CA-CAT-ATATCTC
49910175 GTA
62 GTA
* * * ** *
49910178 GCTCTCTTGTAC-ACATGATGTGCACTCAGCACCATACATGTGACATAGCT-ACATACTATCT
1 GCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGTGACCTAGCTCACATA-TATCT
49910239 GTATCATCCA
Statistics
Matches: 157, Mismatches: 24, Indels: 28
0.75 0.11 0.13
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 23 0.15
65 8 0.05
66 23 0.15
67 35 0.22
68 47 0.30
69 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.31
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACTAGTACCACCCATGTGACCTAGCTCACATATATCTCGTA
Found at i:49912120 original size:27 final size:27
Alignment explanation
Indices: 49912090--49912262 Score: 222
Period size: 27 Copynumber: 6.4 Consensus size: 27
49912080 GGGGCAAAAT
* *
49912090 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
49912117 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
49912144 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
49912171 GGCAATTCTATCCTAC-AGTGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
* *
49912198 GGTAAGTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
49912225 GATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
49912252 GGTAATTCTAC
1 GGTAATTCTAC
49912263 AACTTATCCA
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.02
27 123 0.98
28 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:49912162 original size:54 final size:54
Alignment explanation
Indices: 49912090--49912262 Score: 258
Period size: 54 Copynumber: 3.2 Consensus size: 54
49912080 GGGGCAAAAT
* *
49912090 GGTAATTTTACCCTACAAGGGTATCTCGGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTC
* * *
49912144 GGTATTTCTACCCTACAAGGGTATTTCGGCAATTCTATCC-TACAGTGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTA-CCTTACAGGGGTATTTC
* * *
49912198 GGTAAGTCTACCCTACAGGGGTATTTCGATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTC
49912252 GGTAATTCTAC
1 GGTAATTCTAC
49912263 AACTTATCCA
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 2 0.02
54 101 0.96
55 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTC
Found at i:49918899 original size:27 final size:26
Alignment explanation
Indices: 49918851--49918910 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
49918841 GCGACGCTGC
*
49918851 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
49918878 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
49918904 CAGATAT
1 CAGATAT
49918911 ATATATGTGG
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:49918997 original size:27 final size:26
Alignment explanation
Indices: 49918949--49919000 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
49918939 GCAAGGCTGC
*
49918949 CAGATATTGTGGCGAAGTCACCAGAA
1 CAGATATTGTGGCGAAGCCACCAGAA
* *
49918975 CAGATATATGTGGTGAGGCCACCAGA
1 CAGATAT-TGTGGCGAAGCCACCAGA
49919001 TTGCAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCGAAGCCACCAGAA
Found at i:49919013 original size:67 final size:68
Alignment explanation
Indices: 49918878--49919019 Score: 187
Period size: 67 Copynumber: 2.1 Consensus size: 68
49918868 TCACCAGATA
* *
49918878 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCAA
1 CAGATATTGTGGCGAAGCCACCAGAACAG--A-ATATATGTGGCGAAGCCACCAGATTGCAGCAA
49918943 GGCTGC
63 GGCTGC
* * * **
49918949 CAGATATTGTGGCGAAGTCACCAGAACAG-ATATATGTGGTGAGGCCACCAGATTGCAGTGAGGC
1 CAGATATTGTGGCGAAGCCACCAGAACAGAATATATGTGGCGAAGCCACCAGATTGCAGCAAGGC
49919013 TGC
66 TGC
49919016 CAGA
1 CAGA
49919020 ACGCTTCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
67 38 0.59
71 26 0.41
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.20
Consensus pattern (68 bp):
CAGATATTGTGGCGAAGCCACCAGAACAGAATATATGTGGCGAAGCCACCAGATTGCAGCAAGGC
TGC
Found at i:49919684 original size:27 final size:27
Alignment explanation
Indices: 49919654--49919822 Score: 117
Period size: 27 Copynumber: 6.3 Consensus size: 27
49919644 GGGGAAAAAT
*
49919654 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATCTC
* * * *
49919681 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATCTC
* *
49919708 GGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATCTC
* * * * *
49919735 GGT-ATTTCTATCCTATAGGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATCTC
* * * *
49919762 GGTAATTCTACACTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATCTC
* * * *
49919789 AGTAATTTTACCTTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATCTC
*
49919816 GATAATT
1 GGTAATT
49919823 CTACAACTTA
Statistics
Matches: 117, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 3 0.03
27 111 0.95
28 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATCTC
Found at i:49919720 original size:54 final size:54
Alignment explanation
Indices: 49919654--49919826 Score: 213
Period size: 54 Copynumber: 3.2 Consensus size: 54
49919644 GGGGAAAAAT
* * *
49919654 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTC
* * * * *
49919708 GGTATTTCTACCCTACAAGGGTATTTTGGTATTTCTATCC-TATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTA-CCTTACAGGGGTATTTC
* * * *
49919762 GGTAATTCTACACTACAGGGGTATTTCAGTAATTTTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTC
*
49919816 GATAATTCTAC
1 GGTAATTCTAC
49919827 AACTTATCCA
Statistics
Matches: 99, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
53 2 0.02
54 95 0.96
55 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTC
Found at i:49919825 original size:81 final size:81
Alignment explanation
Indices: 49919672--49919825 Score: 204
Period size: 81 Copynumber: 1.9 Consensus size: 81
49919662 TACCCCACAA
* * *
49919672 GGGTATCTCGGTAATTCTACCTTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTGG
1 GGGTATCTCGGTAATTCTACCTTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGA
*
49919737 TATTTCTATCCTATAG
66 TAATTCTATCCTATAG
* * * *
49919753 GGGTATTTTGGTAATTCTACAC-TACAGGGGTATTTCAGTAATTT-TACCTTACAGGGGTATTTC
1 GGGTATCTCGGTAATTCTAC-CTTACAGGGGTATTTCAGT-ATTTCTACCCTACAAGGGTATTTC
49919816 GATAATTCTA
64 GATAATTCTA
49919826 CAACTTATCC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
81 58 0.92
82 5 0.08
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATCTCGGTAATTCTACCTTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGA
TAATTCTATCCTATAG
Found at i:49921322 original size:27 final size:27
Alignment explanation
Indices: 49921254--49921426 Score: 183
Period size: 27 Copynumber: 6.3 Consensus size: 27
49921244 TTAGTTTACC
* *
49921254 AAATTACTGAAATACCC-CCAGTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
49921280 AAATTAC-CAAAGTACCC-CTGGTTTATA
1 AAATTACTGAAA-TACCCTC-GATTTGTA
49921307 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
49921334 AAATTACCGAAATACCGTCGA-TTATA
1 AAATTACTGAAATACCCTCGATTTGTA
49921360 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
49921387 AAATTACTACGAAAAATACCCCTCGATTTGTA
1 AAATTACT--G--AAATA-CCCTCGATTTGTA
49921419 AAATTACT
1 AAATTACT
49921427 TGACTTGTAA
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
25 3 0.02
26 36 0.29
27 53 0.43
28 4 0.03
29 1 0.01
31 5 0.04
32 21 0.17
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:49921359 original size:53 final size:54
Alignment explanation
Indices: 49921254--49921426 Score: 208
Period size: 53 Copynumber: 3.1 Consensus size: 54
49921244 TTAGTTTACC
* * * *
49921254 AAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCTGGTTTATA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCCTCGATTATA
*
49921307 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAA-TA-CCGTCGATTATA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACC-AAAGTACCCCTCGATTATA
* *
49921360 AAATTACTGAAATACCCTCGATTTGTAAAATTACTACGAAAAATACCCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTAC--C--AAAGTACCCCTCGA-TTATA
49921419 AAATTACT
1 AAATTACT
49921427 TGACTTGTAA
Statistics
Matches: 104, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
53 60 0.58
54 17 0.16
55 4 0.04
56 3 0.03
57 2 0.02
58 6 0.06
59 12 0.12
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (54 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCCTCGATTATA
Found at i:49921521 original size:27 final size:27
Alignment explanation
Indices: 49921499--49921849 Score: 443
Period size: 27 Copynumber: 13.0 Consensus size: 27
49921489 AAAATTATTA
*
49921499 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
49921526 AAATACCCTTGTAGGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
49921553 AAATACCCCTATAGGGTATAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
49921580 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
49921607 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
49921634 AAATACCCCATATAAGGTAGAATTACCG
1 AAATACCCC-TGTAGGGTAGAATTACCG
* * * * *
49921662 AAACATCCTTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
49921689 AAATGCCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
49921716 AAATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
49921743 AAATACCCTTGTAGGGTAGAATTACAA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
49921770 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
49921797 AAATACCCCTATAGGGTAGAATTACC-
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
49921823 AAGATACCCTTGTGGGGTAAAATTACC
1 AA-ATACCCCTGTAGGGTAGAATTACC
49921850 ATTTTGCCCC
Statistics
Matches: 280, Mismatches: 42, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 2 0.01
27 257 0.92
28 21 0.08
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:49922267 original size:22 final size:22
Alignment explanation
Indices: 49922215--49922279 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
49922205 TGTGCGCCTT
* * *
49922215 CTGATTATGGTTTTGCGCCAAC
1 CTGATTATGGCTATGTGCCAAC
* *
49922237 CT-ACATATGGCTGTGTGCCAAC
1 CTGA-TTATGGCTATGTGCCAAC
*
49922259 CTGATTATGGCTATTTGCCAA
1 CTGATTATGGCTATGTGCCAA
49922280 ACATATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTATGTGCCAAC
Found at i:49922468 original size:27 final size:27
Alignment explanation
Indices: 49922438--49922568 Score: 165
Period size: 27 Copynumber: 4.9 Consensus size: 27
49922428 ATTCTATTAA
* *
49922438 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
49922465 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
49922492 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* * *
49922519 GTGACTCTGTCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
49922546 GTGACTCTGTCACAATATCTGTT
1 GTGGCTCTGCCACAATATCTGTT
49922569 GTGTGTAGCG
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
26 8 0.08
27 80 0.84
28 7 0.07
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:49922672 original size:6 final size:6
Alignment explanation
Indices: 49922663--49922729 Score: 73
Period size: 6 Copynumber: 10.8 Consensus size: 6
49922653 TTGCATTCAC
* * *
49922663 ATTCTG ATTCTG ATTCTG TTATCTG ATACTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG AT-TCTG ATTCTG ATTCTG ATTCTG AT--TCTG
49922713 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
49922730 CATTTTGGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
5 1 0.02
6 41 0.80
7 8 0.16
8 1 0.02
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:49922694 original size:25 final size:25
Alignment explanation
Indices: 49922666--49922729 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
49922656 CATTCACATT
* *
49922666 CTGATTCTGATTCTGTTATCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
*
49922691 CTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGTCACCTGATA
49922716 CTGATTCTGATTCT
1 CTGATTCTGATTCT
49922730 CATTTTGGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Found at i:49923502 original size:21 final size:20
Alignment explanation
Indices: 49923474--49923512 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
49923464 CAAAACTTGT
49923474 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
49923494 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
49923513 CAAAATAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:49931422 original size:27 final size:27
Alignment explanation
Indices: 49931361--49931426 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
49931351 TGAATCAGAA
* *
49931361 TGCTCACACGAGTTGTGAAAATGGGCT
1 TGCTCACACGAGTTGTAAAAATGGCCT
* *
49931388 TGCACACATGAGTTGTAAAAATAGGCCT
1 TGCTCACACGAGTTGTAAAAAT-GGCCT
49931416 T-CTCACACGAG
1 TGCTCACACGAG
49931427 CTGTGGGTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 27 0.84
28 5 0.16
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (27 bp):
TGCTCACACGAGTTGTAAAAATGGCCT
Found at i:49955694 original size:27 final size:27
Alignment explanation
Indices: 49955664--49955841 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
49955654 ATATTGAGTC
* * * *
49955664 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
49955691 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49955718 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
49955746 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
49955773 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
49955800 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49955827 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49955842 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:49955803 original size:82 final size:81
Alignment explanation
Indices: 49955685--49955840 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49955675 TGCTATATAA
* *
49955685 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
49955750 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
49955767 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
49955831 CACTTAGTGC
65 CACTTAGTGC
49955841 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49966227 original size:40 final size:40
Alignment explanation
Indices: 49966180--49966383 Score: 208
Period size: 40 Copynumber: 5.3 Consensus size: 40
49966170 GGATTAAGAT
* * *
49966180 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
*
49966220 CCAAAGGC-TTC-TGCGAGATT--TAAATCCGGGTT-AGTC
1 CCGAAGGCATTCGTGCGAG-TTACTAAATCCGGGTTAAGTC
* *
49966256 CCGAAGGCATTCGTGCGAGTTA-TTAATCCGGGTTAACTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * ** *
49966295 CCGAAGGCAGTCATGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
49966335 CCGAAGGCATTAGTGTGAGTTACTAAA-CCGGGCTATGT-
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
49966373 CCGAAGGCATT
1 CCGAAGGCATT
49966384 TGAACGAGGA
Statistics
Matches: 139, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
36 11 0.08
37 17 0.12
38 34 0.24
39 35 0.25
40 42 0.30
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:49966312 original size:39 final size:37
Alignment explanation
Indices: 49966205--49966345 Score: 169
Period size: 39 Copynumber: 3.7 Consensus size: 37
49966195 CGAGATACTA
* *
49966205 AATCCGGGTTAAGTCCCAAAGGC-TTCTGCGAGATTTA
1 AATCCGGGTTAAGTCCCGAAGGCATTCTGCGAG-TTTT
49966242 AATCCGGGTT-AGTCCCGAAGGCATTCGTGCGAGTTATT
1 AATCCGGGTTAAGTCCCGAAGGCATTC-TGCGAGTT-TT
* *
49966280 AATCCGGGTTAACTCCCGAAGGCAGTCATGCGAGTTGTT
1 AATCCGGGTTAAGTCCCGAAGGCATTC-TGCGAGTT-TT
*
49966319 AAATCCGGGTTATGTCCCGAAGGCATT
1 -AATCCGGGTTAAGTCCCGAAGGCATT
49966346 AGTGTGAGTT
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
36 11 0.12
37 15 0.17
38 17 0.19
39 24 0.27
40 23 0.26
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (37 bp):
AATCCGGGTTAAGTCCCGAAGGCATTCTGCGAGTTTT
Found at i:49966355 original size:79 final size:75
Alignment explanation
Indices: 49966180--49966366 Score: 230
Period size: 79 Copynumber: 2.4 Consensus size: 75
49966170 GGATTAAGAT
* * * * *
49966180 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCAAAGGCTTCTGCGAGATTTAAAT
1 CCGAAGGCATTAGTGCGAGTTACT-AATCCGGGTTAACTCCCAAAGGCGTCTGCGAGATTTAAAT
49966245 CCGGGTTAGTC
65 CCGGGTTAGTC
* * * *
49966256 CCGAAGGCATTCGTGCGAGTTATTAATCCGGGTTAACTCCCGAAGGCAGTCATGCGAGTTGTTAA
1 CCGAAGGCATTAGTGCGAGTTACTAATCCGGGTTAACTCCCAAAGGC-GTC-TGCGAGAT-TTAA
49966321 ATCCGGGTTATGTC
63 ATCCGGGTTA-GTC
* *
49966335 CCGAAGGCATTAGTGTGAGTTACTAAACCGGG
1 CCGAAGGCATTAGTGCGAGTTACTAATCCGGG
49966367 CTATGTCCGA
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
75 21 0.22
76 22 0.23
77 7 0.07
78 14 0.15
79 31 0.33
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (75 bp):
CCGAAGGCATTAGTGCGAGTTACTAATCCGGGTTAACTCCCAAAGGCGTCTGCGAGATTTAAATC
CGGGTTAGTC
Found at i:49973806 original size:77 final size:77
Alignment explanation
Indices: 49973691--49973833 Score: 189
Period size: 77 Copynumber: 1.9 Consensus size: 77
49973681 GTACTTATAC
* ** ** * *
49973691 CATGGCCCGAAGCCAAATCAAGATAGCTTATATTTGAAGTACTGATATCATGGCCCAAATCCAAA
1 CATGGCCCGAAGCCAAATCAAGATAACGCATACCTGAAGTACTAATATCATGGCCCAAAGCCAAA
49973756 TAAACCGATATT
66 TAAACCGATATT
* *
49973768 CATGGCCCGAAGCCAAATC-AGTATAACGCATACCTGAAGTGCTAATATCATGGCCCGAAGCCAA
1 CATGGCCCGAAGCCAAATCAAG-ATAACGCATACCTGAAGTACTAATATCATGGCCCAAAGCCAA
49973832 AT
65 AT
49973834 TAATGTTCCC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
76 2 0.04
77 54 0.96
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.22
Consensus pattern (77 bp):
CATGGCCCGAAGCCAAATCAAGATAACGCATACCTGAAGTACTAATATCATGGCCCAAAGCCAAA
TAAACCGATATT
Found at i:49976596 original size:27 final size:27
Alignment explanation
Indices: 49976561--49976820 Score: 183
Period size: 27 Copynumber: 9.6 Consensus size: 27
49976551 TTATTTTACC
49976561 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTAGCA
49976588 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTAGCA
* * * * *
49976615 AAATTACTAGAATACCCTTGGTTTA-TA
1 AAATTACCAAAATACCC-TCGATTAGCA
* * * * *
49976642 AAATCATCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTAGCA
* *
49976669 AAATTACCAAAATACCCT-TAGTTTGCA
1 AAATTACCAAAATACCCTCGA-TTAGCA
* **
49976696 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTAGCA
* *
49976723 AAATTACCGAAATACCCTCGACTT-GTA
1 AAATTACCAAAATACCCTCGA-TTAGCA
* *
49976750 AAATTACCAAAGTACCCCCGATTTA-CA
1 AAATTACCAAAATACCCTCGA-TTAGCA
*** *
49976777 AAATTACCATTTTACCCTTGATTTA-CA
1 AAATTACCAAAATACCCTCGA-TTAGCA
**
49976804 AAATTATTAAAATACCC
1 AAATTACCAAAATACCC
49976821 CTGTAGGGTA
Statistics
Matches: 186, Mismatches: 37, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
26 3 0.02
27 174 0.94
28 9 0.05
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTAGCA
Found at i:49976629 original size:54 final size:55
Alignment explanation
Indices: 49976561--49976823 Score: 207
Period size: 54 Copynumber: 4.9 Consensus size: 55
49976551 TTATTTTACC
49976561 AAATTACCAAAATACCCTCGA-TTAGCAAAATTACCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGACTTAGCAAAATTACCAAAATACCCCT-GATTAGCA
* * * ** * * * * * *
49976615 AAATTACTAGAATACCCTTGGTTTA-TAAAATCATCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTCGACTTAGCAAAATTACCAAAATACCCCTGATTAGCA
* * * * **
49976669 AAATTACCAAAATACCCT-TAGTTTGCAAAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTCGACTTAGCAAAATTACCAAAATACCCCTGATTAGCA
* * * *
49976723 AAATTACCGAAATACCCTCGACTT-GTAAAATTACCAAAGTACCCCCGATTTA-CA
1 AAATTACCAAAATACCCTCGACTTAGCAAAATTACCAAAATACCCCTGA-TTAGCA
*** * * **
49976777 AAATTACCATTTTACCCTTGATTTA-CAAAATTATTAAAATACCCCTG
1 AAATTACCAAAATACCCTCGACTTAGCAAAATTACCAAAATACCCCTG
49976824 TAGGGTAGAG
Statistics
Matches: 162, Mismatches: 41, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
53 2 0.01
54 148 0.91
55 12 0.07
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (55 bp):
AAATTACCAAAATACCCTCGACTTAGCAAAATTACCAAAATACCCCTGATTAGCA
Found at i:49976676 original size:81 final size:82
Alignment explanation
Indices: 49976561--49976823 Score: 250
Period size: 81 Copynumber: 3.2 Consensus size: 82
49976551 TTATTTTACC
* * *
49976561 AAATTACCAAAATA-CCCTCGA-TTAGCAAAATTACCAAAATACCCTCGA-TTAGCAAAATTACT
1 AAATTATCAAAATACCCCT-GACTT-GTAAAATTACCAAAATACCCTCGAGTTAGCAAAATTACC
* *
49976623 AGAATACCCTTGGTTTATA
64 AAAATACCCTTGATTTATA
* ** * *
49976642 AAATCATCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCT-TAGTTTGCAAAATTACCAA
1 AAATTATCAAAATACCCCTGACTTGTAAAATTACCAAAATACCCTCGAGTTAGCAAAATTACCAA
* * *
49976706 AATACCCCTGATTTGTG
66 AATACCCTTGATTTATA
* * * * *
49976723 AAATTACCGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTA-CAAAATTACCA
1 AAATTATCAAAATACCCCT-GACTTGTAAAATTACCAAAATACCCTCGAGTTAGCAAAATTACCA
*** *
49976786 TTTTACCCTTGATTTACA
65 AAATACCCTTGATTTATA
*
49976804 AAATTATTAAAATACCCCTG
1 AAATTATCAAAATACCCCTG
49976824 TAGGGTAGAG
Statistics
Matches: 144, Mismatches: 32, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
80 5 0.03
81 126 0.88
82 13 0.09
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (82 bp):
AAATTATCAAAATACCCCTGACTTGTAAAATTACCAAAATACCCTCGAGTTAGCAAAATTACCAA
AATACCCTTGATTTATA
Found at i:49976843 original size:27 final size:27
Alignment explanation
Indices: 49976813--49976919 Score: 124
Period size: 27 Copynumber: 4.0 Consensus size: 27
49976803 AAAATTATTA
* *
49976813 AAATACCCCTGTAGGGTAGAGTTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * * *
49976840 AAATACGCTTGTAGGCTAGAAATACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
49976867 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
49976894 AGATACCCTTGTAGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
49976920 ATTTTGCCCC
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:49976920 original size:54 final size:54
Alignment explanation
Indices: 49976803--49976920 Score: 157
Period size: 54 Copynumber: 2.2 Consensus size: 54
49976793 CTTGATTTAC
** * * *
49976803 AAAATTATTAAAATACCCCTGTAGGGTAGAGTTACTGAAATACGCTTGTAGGCT
1 AAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGCT
* *
49976857 AGAAA-TACCAAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTAGGGT
1 A-AAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGCT
49976911 AAAATTACCA
1 AAAATTACCA
49976921 TTTTGCCCCT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
53 3 0.05
54 49 0.89
55 3 0.05
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGCT
Found at i:49977300 original size:22 final size:22
Alignment explanation
Indices: 49977267--49977325 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
49977257 CACGTTATCG
49977267 ATGGC-TCTGTGCCAACCTAAAT
1 ATGGCTTC-GTGCCAACCTAAAT
* * * *
49977289 ATGGCTTCGTGCCATCTTGACT
1 ATGGCTTCGTGCCAACCTAAAT
49977311 ATGGCTTCGTGCCAA
1 ATGGCTTCGTGCCAA
49977326 ACGTATTTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 29 0.94
23 2 0.06
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGGCTTCGTGCCAACCTAAAT
Found at i:49977513 original size:27 final size:27
Alignment explanation
Indices: 49977483--49977546 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
49977473 ATTCTGTTAA
*
49977483 GTGGCTTTGCCAC-ATTATCTGATTCTG
1 GTGGCTTTGCCACAAATATCTG-TTCTG
*
49977510 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTTTGCCACAAATATCTGTTCTG
*
49977537 GAGGCTTTGC
1 GTGGCTTTGC
49977547 TTCAATTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 25 0.78
28 7 0.22
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (27 bp):
GTGGCTTTGCCACAAATATCTGTTCTG
Found at i:49977728 original size:6 final size:6
Alignment explanation
Indices: 49977690--49977809 Score: 77
Period size: 6 Copynumber: 19.3 Consensus size: 6
49977680 TTGCATTCAC
* * *
49977690 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
49977740 -TTACCTA ATACTG ATTCTG ATTCTG ATTCTG -TCATCTA ATTCTG ATTTTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
49977790 ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
49977810 AATGTTTCTT
Statistics
Matches: 88, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
5 6 0.07
6 65 0.74
7 14 0.16
8 3 0.03
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:49977736 original size:31 final size:31
Alignment explanation
Indices: 49977690--49977800 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
49977680 TTGCATTCAC
* *
49977690 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTAATACTG
*
49977722 ATTCTGATTTTGATTCTGTTACCTAATACTG
1 ATTCTGATTCTGATTCTGTTACCTAATACTG
* * *
49977753 ATTCTGATTCTGATTCTGTCATCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTAATACTG
*
49977784 ATTTTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
49977801 AGTTCTGATA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
31 66 0.90
32 7 0.10
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTAATACTG
Found at i:49997520 original size:26 final size:27
Alignment explanation
Indices: 49997489--49997542 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
49997479 TCACACACTT
*
49997489 AGTGCC-CACTGACCGATCTCGCACAC
1 AGTGCCTCAATGACCGATCTCGCACAC
* *
49997515 AGTGCCTCAATTACCGATCTCGTACAC
1 AGTGCCTCAATGACCGATCTCGCACAC
49997542 A
1 A
49997543 TAGTGCTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (27 bp):
AGTGCCTCAATGACCGATCTCGCACAC
Found at i:49997801 original size:43 final size:42
Alignment explanation
Indices: 49997746--49997997 Score: 342
Period size: 43 Copynumber: 5.9 Consensus size: 42
49997736 CACCAGAATT
* *
49997746 AAGCCTGTTAGGCACAAAGACCCGAATACACTTCACCGGCACG
1 AAGCCTGCTAGGCACAAAG-CCCGAATACACATCACCGGCACG
* *
49997789 AAGCCTGCTAGGCACAATGGCCCGAATACACATCACTGGCACG
1 AAGCCTGCTAGGCACAA-AGCCCGAATACACATCACCGGCACG
49997832 AAGCCTGCTAGGCACGAAAGCCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCAC-AAAGCCCGAATACACATCACCGGCACG
*
49997875 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCAC-AAAGCCCGAATACACATCACCGGCACG
* * *
49997918 AAGCCTGCTAGGCACGAAGGCCGAATACACATCACCGGCACA
1 AAGCCTGCTAGGCACAAAGCCCGAATACACATCACCGGCACG
* * * * *
49997960 AAGCCTACTAGGCATGAAGGCTCAAATACACATCACCG
1 AAGCCTGCTAGGCA-CAAAGCCCGAATACACATCACCG
49997998 AGTTTCATGC
Statistics
Matches: 188, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
42 36 0.19
43 149 0.79
44 3 0.02
ACGTcount: A:0.33, C:0.33, G:0.23, T:0.12
Consensus pattern (42 bp):
AAGCCTGCTAGGCACAAAGCCCGAATACACATCACCGGCACG
Found at i:50008054 original size:68 final size:64
Alignment explanation
Indices: 50007840--50008098 Score: 206
Period size: 68 Copynumber: 3.9 Consensus size: 64
50007830 ATATAGTTCG
* *
50007840 GCTCTCTTGTAC-ACATGGTGAACACTCAGTACCACCCATGTGACCTAGC-CA-ATTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGTGACCTAGCTCACATATATCTCGT
*
50007902 T
64 A
* * * * * *
50007903 GCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCT-ACATATATCCC
1 GCTCTCTTGTCTACATGGTG---TACA-CTAGTACCACCCATGTGACCTAGCTCACATATATCTC
50007967 GTA
62 GTA
* *
50007970 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATCATAATATCTT
1 GCTCTCTTGTCTACATGGTGTACAC-TAGTACCACCCATGTGACCTAGCT-CA-CAT-ATATCTC
50008035 GTA
62 GTA
* * * ** *
50008038 GCTCTCTTGTAC-ACATGATGTGCACTCAGCACCATACATGTGACATAGCT-ACATACTATCT
1 GCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGTGACCTAGCTCACATA-TATCT
50008099 GTATCATCCA
Statistics
Matches: 157, Mismatches: 24, Indels: 28
0.75 0.11 0.13
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 23 0.15
65 8 0.05
66 23 0.15
67 35 0.22
68 47 0.30
69 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.31
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACTAGTACCACCCATGTGACCTAGCTCACATATATCTCGTA
Found at i:50017583 original size:27 final size:27
Alignment explanation
Indices: 50017553--50017730 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
50017543 ATATTAAGTC
* * *
50017553 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
50017580 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
50017608 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
50017635 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
50017662 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
50017689 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
50017716 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50017731 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:50017637 original size:55 final size:54
Alignment explanation
Indices: 50017553--50017730 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
50017543 ATATTAAGTC
* * *
50017553 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAA-T
* * * *
50017608 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* ** *
50017662 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
50017716 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50017731 GTACAATTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:50017719 original size:81 final size:82
Alignment explanation
Indices: 50017574--50017729 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
50017564 TGCTATATAA
* *
50017574 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
50017639 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
50017656 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
50017719 ACACTTAGTGC
65 ACACTTAGTGC
50017730 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 43 0.64
82 24 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:50021714 original size:37 final size:37
Alignment explanation
Indices: 50021672--50021742 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
50021662 GTAAAGAATT
*
50021672 ACACTTCTCGCCGTATAAATGATGTCGCCGAATTATG
1 ACACTTCCCGCCGTATAAATGATGTCGCCGAATTATG
50021709 ACACTTCCCGCCGTATAAATGATGTCGCCGAATT
1 ACACTTCCCGCCGTATAAATGATGTCGCCGAATT
50021743 TTCAATGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (37 bp):
ACACTTCCCGCCGTATAAATGATGTCGCCGAATTATG
Found at i:50026455 original size:95 final size:96
Alignment explanation
Indices: 50026337--50026561 Score: 301
Period size: 96 Copynumber: 2.4 Consensus size: 96
50026327 AGGTGCCAAC
* * * *
50026337 ATCATGGCCTAAAGCCAAATCAATAGAGCTCGTACCCGAAGTGAC-AATATTATGGCCC-AAGCC
1 ATCATGGCCTAAAGCCAAATCAATATAACTCGTACCCGAAGTG-CTAATATCATGGCCCAAACCC
* * *
50026400 AAATCAATGTAACTCGCACCTGAAGTGCTAAT
65 AAATCAATGTAACTCACACCCGAAGTACTAAT
* * *
50026432 ATCATGGCCTTAAGCCAAATCAATATAACTCGCACCCGAAGTGCTACTATCATGGCCCAAACCCA
1 ATCATGGCCTAAAGCCAAATCAATATAACTCGTACCCGAAGTGCTAATATCATGGCCCAAACCCA
* *
50026497 AATCAGTGTAACTTACACCCGAAGTACTAAT
66 AATCAATGTAACTCACACCCGAAGTACTAAT
**
50026528 ATCATGGCCCGAAGCCAAATCAATATAACTCGTA
1 ATCATGGCCTAAAGCCAAATCAATATAACTCGTA
50026562 ATGTCACGTC
Statistics
Matches: 113, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
94 1 0.01
95 50 0.44
96 62 0.55
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.21
Consensus pattern (96 bp):
ATCATGGCCTAAAGCCAAATCAATATAACTCGTACCCGAAGTGCTAATATCATGGCCCAAACCCA
AATCAATGTAACTCACACCCGAAGTACTAAT
Found at i:50026461 original size:48 final size:48
Alignment explanation
Indices: 50026318--50026559 Score: 272
Period size: 48 Copynumber: 5.1 Consensus size: 48
50026308 CTCAGGACTT
* * * * * * *
50026318 TCGCACCCTAGGTGCCAACATCATGGCCTAAAGCCAAATCAATAGAGC
1 TCGCACCCGAAGTGCTAATATCATGGCCCAAAGCCAAATCAATATAAC
* * *
50026366 TCGTACCCGAAGTGAC-AATATTATGGCCC-AAGCCAAATCAATGTAAC
1 TCGCACCCGAAGTG-CTAATATCATGGCCCAAAGCCAAATCAATATAAC
* **
50026413 TCGCACCTGAAGTGCTAATATCATGGCCTTAAGCCAAATCAATATAAC
1 TCGCACCCGAAGTGCTAATATCATGGCCCAAAGCCAAATCAATATAAC
* * * *
50026461 TCGCACCCGAAGTGCTACTATCATGGCCCAAACCCAAATCAGTGTAAC
1 TCGCACCCGAAGTGCTAATATCATGGCCCAAAGCCAAATCAATATAAC
** * *
50026509 TTACACCCGAAGTACTAATATCATGGCCCGAAGCCAAATCAATATAAC
1 TCGCACCCGAAGTGCTAATATCATGGCCCAAAGCCAAATCAATATAAC
50026557 TCG
1 TCG
50026560 TAATGTCACG
Statistics
Matches: 160, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
46 1 0.01
47 38 0.24
48 120 0.75
49 1 0.01
ACGTcount: A:0.35, C:0.29, G:0.16, T:0.21
Consensus pattern (48 bp):
TCGCACCCGAAGTGCTAATATCATGGCCCAAAGCCAAATCAATATAAC
Found at i:50027789 original size:27 final size:27
Alignment explanation
Indices: 50027754--50028013 Score: 267
Period size: 27 Copynumber: 9.6 Consensus size: 27
50027744 TTAGCATACC
* *
50027754 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
50027781 AAATTACCAAAATACCATTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
50027808 AAATTACCTAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
50027835 AAATTAGCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
50027862 AAATTACCAAAAATACCC-CTGGTTTGTA
1 AAATTACC-AAAATACCCTC-GATTTGTA
* *
50027890 AAATTAACAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
50027917 AAATTACCGAAATACCCTCGATTTGCA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
50027944 AAATTACTAAAATACCTTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
** *
50027971 AAATTACTGAAATACCC-CAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
50027997 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
50028014 CTGTAGGGTA
Statistics
Matches: 204, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
26 24 0.12
27 153 0.75
28 27 0.13
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:50027956 original size:109 final size:108
Alignment explanation
Indices: 50027754--50028016 Score: 293
Period size: 109 Copynumber: 2.4 Consensus size: 108
50027744 TTAGCATACC
* * * ** * *
50027754 AAATTACCAAAATA-CCCTCGATTAGCAAAATTACCAAAATACCATTGGTTTGTAAAATTACCTA
1 AAATTACCAAAATACCCCT-GATTTGTAAAATTAACAAAATACCCCTGATTTGTAAAATTACCGA
* * * *
50027818 AATACCCTTGGTTTGTAAAATTAGCAAAATACCC-CTGGTTTGTA
65 AATACCCTCGATTTGCAAAATTAGCAAAATACCCTC-GATTTGTA
* *
50027862 AAATTACCAAAAATACCCCTGGTTTGTAAAATTAACAAAATACCCCTGATTTGTGAAATTACCGA
1 AAATTACC-AAAATACCCCTGATTTGTAAAATTAACAAAATACCCCTGATTTGTAAAATTACCGA
*
50027927 AATACCCTCGATTTGCAAAATTA-CTAAAATACCTTCGATTTGTA
65 AATACCCTCGATTTGCAAAATTAGC-AAAATACCCTCGATTTGTA
** *
50027971 AAATTACTGAAATACCCC-AATTTGTAAAATT-ACTAAAATACCCCTG
1 AAATTACCAAAATACCCCTGATTTGTAAAATTAAC-AAAATACCCCTG
50028017 TAGGGTAGAA
Statistics
Matches: 132, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
106 2 0.02
107 23 0.17
108 18 0.14
109 84 0.64
110 5 0.04
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (108 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTAACAAAATACCCCTGATTTGTAAAATTACCGAA
ATACCCTCGATTTGCAAAATTAGCAAAATACCCTCGATTTGTA
Found at i:50028040 original size:27 final size:27
Alignment explanation
Indices: 50028001--50028431 Score: 372
Period size: 27 Copynumber: 16.0 Consensus size: 27
50027991 TTTGTAAAAT
*
50028001 TACTAAAATACCCCTGTAGGGTAGAAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
* ** *
50028028 TACCGAAATACCCCTGTAATGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
* * *
50028055 TACTGAAATA-CCCTATAAGGTAAAAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
**
50028081 TACCAAAATACCCCTGTAGGGTA-AAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
* *
50028107 TTACTGAAATACCCCTGTAAGGTAAAAA
1 -TACTGAAATACCCCTGTAGGGTAGAAA
*
50028135 TA-TCGAAATACCCCTGTAGGGTAGAAT
1 TACT-GAAATACCCCTGTAGGGTAGAAA
* * * *
50028162 TACTAAAATACCCATGTAAGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
* *
50028189 TA-TCGAAATACCCCTGTATGGTAGAAT
1 TACT-GAAATACCCCTGTAGGGTAGAAA
* * * *
50028216 TATTGAAATACCCCTATAAGGTAAAAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
* **
50028243 TACTAAAATACCCCTGTAACGTAG-AA
1 TACTGAAATACCCCTGTAGGGTAGAAA
* * *
50028269 TAACTGAAATACCCCTATAAGGTAGAAT
1 T-ACTGAAATACCCCTGTAGGGTAGAAA
* * * *
50028297 TACCGAAATACTCTTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
* *
50028324 TACTGAAATTCCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
* *
50028351 TA-TCGAAATACCCTTGTAGGGTAAAAA
1 TACT-GAAATACCCCTGTAGGGTAGAAA
* * *
50028378 TACTGAAAAACCCCTGTAGGATAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
* * * *
50028405 TACCGAGATACCCTTGTGGGGTA-AAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
50028431 T
1 T
50028432 TACCATTTTG
Statistics
Matches: 329, Mismatches: 64, Indels: 23
0.79 0.15 0.06
Matches are distributed among these distances:
26 32 0.10
27 289 0.88
28 8 0.02
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.25
Consensus pattern (27 bp):
TACTGAAATACCCCTGTAGGGTAGAAA
Found at i:50028056 original size:107 final size:107
Alignment explanation
Indices: 50027945--50028390 Score: 342
Period size: 108 Copynumber: 4.1 Consensus size: 107
50027935 CGATTTGCAA
** * ** **
50027945 AATTACTAAAATACCTTCGAT-TTGTAAAATTACTGAAATACCCCAAT-TTGTAAAATTACTAAA
1 AATTACTAAAATACC--CGATAAGGTAAAAATACCAAAATACCCCAATAGGGTAAAATTACTAAA
* * *
50028008 ATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAATGTAG
64 ATACCCCTGTAAGGTAAAAATACCGAAATACCCCTGTAAGGTAG
* * ** *
50028052 AATTACTGAAATACCCTATAAGGTAAAAATACCAAAATACCCCTGTAGGGTAAAATTACTGAAAT
1 AATTACTAAAATACCCGATAAGGTAAAAATACCAAAATACCCCAATAGGGTAAAATTACTAAAAT
* *
50028117 ACCCCTGTAAGGTAAAAATATCGAAATACCCCTGTAGGGTAG
66 ACCCCTGTAAGGTAAAAATACCGAAATACCCCTGTAAGGTAG
* * * * ** * * * *
50028159 AATTACTAAAATACCC-ATGTAAGGTAGAATTATCGAAATACCCCTGTATGGTAGAATTATTGAA
1 AATTACTAAAATACCCGA--TAAGGTAAAAATACCAAAATACCCCAATAGGGTAAAATTACTAAA
* ** *
50028223 ATACCCCTATAAGGTAAAAATACTAAAATACCCCTGTAACGTAG
64 ATACCCCTGTAAGGTAAAAATACCGAAATACCCCTGTAAGGTAG
* * * * * * * *** * *
50028267 AATAACTGAAATACCCCTATAAGGTAGAATTACCGAAATACTCTTGTAGGGTAGAATTACTGAAA
1 AATTACTAAAATA-CCCGATAAGGTAAAAATACCAAAATACCCCAATAGGGTAAAATTACTAAAA
* * * * * * * *
50028332 TTCCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAA
65 TACCCCTGTAAGGTAAAAATACCGAAATACCCCTGTAAGGTAG
*
50028375 AAATACTGAAAA-ACCC
1 AATTACT-AAAATACCC
50028391 CTGTAGGATA
Statistics
Matches: 279, Mismatches: 53, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
105 3 0.01
106 20 0.07
107 84 0.30
108 165 0.59
109 6 0.02
110 1 0.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (107 bp):
AATTACTAAAATACCCGATAAGGTAAAAATACCAAAATACCCCAATAGGGTAAAATTACTAAAAT
ACCCCTGTAAGGTAAAAATACCGAAATACCCCTGTAAGGTAG
Found at i:50028065 original size:54 final size:54
Alignment explanation
Indices: 50027998--50028434 Score: 491
Period size: 54 Copynumber: 8.1 Consensus size: 54
50027988 CAATTTGTAA
* * **
50027998 AATTACTAAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAATGTAG
1 AATTACTGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * * *
50028052 AATTACTGAAATA-CCCTATAAGGTAAAAATACCAAAATACCCCTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* *
50028105 AATTACTGAAATACCCCTGTAAGGTAAAAATATCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * * * *
50028159 AATTACTAAAATACCCATGTAAGGTAGAATTATCGAAATACCCCTGTATGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * * ** **
50028213 AATTATTGAAATACCCCTATAAGGTAAAAATACTAAAATACCCCTGTAACGTAG
1 AATTACTGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * * * *
50028267 AATAACTGAAATACCCCTATAAGGTAGAATTACCGAAATACTCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * * * * *
50028321 AATTACTGAAATTCCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * * * * * *
50028375 AAATACTGAAAAACCCCTGT-AGGATAGAATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAAGG-TAGAAATACCGAAATACCCCTGTAGGGTAG
50028429 AATTAC
1 AATTAC
50028435 CATTTTGCCC
Statistics
Matches: 328, Mismatches: 53, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
53 48 0.15
54 280 0.85
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (54 bp):
AATTACTGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTGTAGGGTAG
Found at i:50028427 original size:81 final size:80
Alignment explanation
Indices: 50027972--50028407 Score: 448
Period size: 81 Copynumber: 5.4 Consensus size: 80
50027962 CGATTTGTAA
** ** * * *
50027972 AATTACTGAAATACCCCAATTTGTAAAATTACTAAAATACCCCTGTAGGGTAGAAATACCGAAAT
1 AATTACTGAAATACCCCTGTAGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTATCGAAAT
*
50028037 ACCCCTGTAATGTAG
66 ACCCCTGTAAGGTAG
* * * * *
50028052 AATTACTGAAATA-CCCTATAAGGTAAAAATACCAAAATACCCCTGTAGGGTAAAATTA-CTGAA
1 AATTACTGAAATACCCCTGT-AGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTATC-GAA
*
50028115 ATACCCCTGTAAGGTAA
64 ATACCCCTGTAAGGTAG
* * *
50028132 AAATA-TCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCATGTAAGGTAGAATTATCGAA
1 AATTACT-GAAATACCCCTGTA-GGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTATCGAA
*
50028196 ATACCCCTGTATGGTAG
64 ATACCCCTGTAAGGTAG
* * * * ** *
50028213 AATTATTGAAATACCCCTATAAGGTAAAAATACTAAAATACCCCTGTAACGTAGAA-TAACTGAA
1 AATTACTGAAATACCCCTGT-AGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTATC-GAA
*
50028277 ATACCCCTATAAGGTAG
64 ATACCCCTGTAAGGTAG
* * * * *
50028294 AATTACCGAAATACTCTTGTAGGGTAGAATTACTGAAATTCCCCTGTAGGGTAGAATTATCGAAA
1 AATTACTGAAATACCCCTGTA-GGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTATCGAAA
* * *
50028359 TACCCTTGTAGGGTAA
65 TACCCCTGTAAGGTAG
* *
50028375 AAATACTGAAAAACCCCTGTAGGATAGAATTAC
1 AATTACTGAAATACCCCTGTAGG-TAGAATTAC
50028408 CGAGATACCC
Statistics
Matches: 295, Mismatches: 49, Indels: 23
0.80 0.13 0.06
Matches are distributed among these distances:
79 7 0.02
80 80 0.27
81 202 0.68
82 6 0.02
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (80 bp):
AATTACTGAAATACCCCTGTAGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTATCGAAAT
ACCCCTGTAAGGTAG
Found at i:50028573 original size:11 final size:11
Alignment explanation
Indices: 50028557--50028599 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
50028547 ACATGAGAGG
50028557 ACATGATATGC
1 ACATGATATGC
50028568 ACATGATATG-
1 ACATGATATGC
** *
50028578 TTATGATAGGC
1 ACATGATATGC
50028589 ACATGATATGC
1 ACATGATATGC
50028600 TATGATATAC
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
10 7 0.28
11 18 0.72
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (11 bp):
ACATGATATGC
Found at i:50028583 original size:21 final size:21
Alignment explanation
Indices: 50028559--50028607 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
50028549 ATGAGAGGAC
*
50028559 ATGATATGCACATGATATGTT
1 ATGATATGCACATGATATGCT
*
50028580 ATGATAGGCACATGATATGCT
1 ATGATATGCACATGATATGCT
50028601 ATGATAT
1 ATGATAT
50028608 ACTCATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (21 bp):
ATGATATGCACATGATATGCT
Found at i:50028738 original size:24 final size:25
Alignment explanation
Indices: 50028656--50028725 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
50028646 AGGAAGTGCT
* *
50028656 AAAAGGGCTTTGCCCTAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
50028681 AAAAGGGTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
50028706 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
50028726 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:50032243 original size:40 final size:40
Alignment explanation
Indices: 50032197--50032354 Score: 210
Period size: 40 Copynumber: 4.0 Consensus size: 40
50032187 GGGATTTAGT
50032197 CGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCC
1 CGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCC
* *
50032237 CGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 CGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCC
* * * *
50032277 CGGATATAATC-ACTAGCATAAATGCCTTTGGGACATAGCC
1 CGGATATAA-CAACTAGCACAAATGCCTTCGGGTCTTAGCC
* * * *
50032317 CGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAG
1 CGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAG
50032355 TCCAGTTATC
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 98 0.98
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCC
Found at i:50032330 original size:80 final size:80
Alignment explanation
Indices: 50032197--50032354 Score: 246
Period size: 80 Copynumber: 2.0 Consensus size: 80
50032187 GGGATTTAGT
* *
50032197 CGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
*
50032262 CTTCGGGTCTTAGCC
66 CTTCGGATCTTAGCC
* * *
50032277 CGGATATAATC-ACTAGCATAAATGCCTTTGGGACATAGCCCGGATATAGCAACTCGCACGAATG
1 CGGATATAA-CAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATG
50032341 CCTTCGGATCTTAG
65 CCTTCGGATCTTAG
50032355 TCCAGTTATC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
80 70 0.99
81 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (80 bp):
CGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
CTTCGGATCTTAGCC
Found at i:50034799 original size:27 final size:27
Alignment explanation
Indices: 50034769--50034937 Score: 195
Period size: 27 Copynumber: 6.4 Consensus size: 27
50034759 GGGGCAAAAT
* *
50034769 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
50034796 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
50034823 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
50034850 GGCAATTCTATCCTA-AAGTGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
* *
50034877 GGTAAGTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
50034904 GATAATTCTA-CCT--TAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
50034928 -GTAATTCTAC
1 GGTAATTCTAC
50034938 AACTTATCCA
Statistics
Matches: 120, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
23 8 0.07
24 9 0.08
26 6 0.05
27 95 0.79
28 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:50034841 original size:54 final size:53
Alignment explanation
Indices: 50034769--50034937 Score: 218
Period size: 54 Copynumber: 3.2 Consensus size: 53
50034759 GGGGCAAAAT
* *
50034769 GGTAATTTTACCCTACAAGGGTATCTCGGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTA-AGGGGTATTTC
* * * *
50034823 GGTATTTCTACCCTACAAGGGTATTTCGGCAATTCTATCCTAAAGTGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTA-CCTTAAGGGGTATTTC
* * *
50034877 GGTAAGTCTACCCTACAGGGGTATTTCGATAATTCTACCTT-A-GGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTAAGGGGTATTTC
50034928 -GTAATTCTAC
1 GGTAATTCTAC
50034938 AACTTATCCA
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
50 9 0.09
51 8 0.08
52 1 0.01
53 3 0.03
54 75 0.75
55 4 0.04
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (53 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTAAGGGGTATTTC
Found at i:50039264 original size:16 final size:16
Alignment explanation
Indices: 50039243--50039276 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
50039233 AACATGTCCT
50039243 CCAGAATCTGAATAAC
1 CCAGAATCTGAATAAC
50039259 CCAGAATCTGAATAAC
1 CCAGAATCTGAATAAC
50039275 CC
1 CC
50039277 TTTTGACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.29, G:0.12, T:0.18
Consensus pattern (16 bp):
CCAGAATCTGAATAAC
Found at i:50044458 original size:27 final size:26
Alignment explanation
Indices: 50044380--50044492 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 26
50044370 CAGCATGGCT
* * *
50044380 ACCAGAATAGATTATGTGACAGAGTC
1 ACCAGAATAGATAATGTGGCAGAGCC
* * *
50044406 ACCAGATACAGATAATCATGGTAGAGCC
1 ACCAGA-ATAGATAAT-GTGGCAGAGCC
50044434 ACCAGAATAGATATATGTGGCAGAGCC
1 ACCAGAATAGATA-ATGTGGCAGAGCC
*
50044461 ACCA-AATTAGATAATTGTGGCATAGCC
1 ACCAGAA-TAGATAA-TGTGGCAGAGCC
50044488 ACCAG
1 ACCAG
50044493 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
26 9 0.13
27 47 0.66
28 15 0.21
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.20
Consensus pattern (26 bp):
ACCAGAATAGATAATGTGGCAGAGCC
Found at i:50044488 original size:54 final size:54
Alignment explanation
Indices: 50044380--50044492 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 54
50044370 CAGCATGGCT
* * *
50044380 ACCAGAATAGATTATGTGACAGAGTCACCAGATACAGATAATCATGGTAGAGCC
1 ACCAGAATAGATTATGTGACAGAGCCACCAAATACAGATAATCATGGCAGAGCC
* * ** *
50044434 ACCAGAATAGATATATGTGGCAGAGCCACCAAAT-TAGATAATTGTGGCATAGCC
1 ACCAGAATAGAT-TATGTGACAGAGCCACCAAATACAGATAATCATGGCAGAGCC
50044488 ACCAG
1 ACCAG
50044493 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.20
Consensus pattern (54 bp):
ACCAGAATAGATTATGTGACAGAGCCACCAAATACAGATAATCATGGCAGAGCC
Found at i:50053332 original size:6 final size:6
Alignment explanation
Indices: 50053321--50053492 Score: 129
Period size: 6 Copynumber: 27.8 Consensus size: 6
50053311 TATCATAACT
* * *
50053321 AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGAATC AAAATC AGAACC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * *
50053370 AGAATC AGAATT AGGTAAT- AGAATC AGAATC AGTATC AGGTAA-C AAAATC
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
* * * *
50053420 AGAATC AGAACC AGAATC AGAATT AGGTAAT- AGAATC AGAATT AGTATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
50053469 AGGTAA-C AGAATC AGAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
50053493 ATGAATGCAA
Statistics
Matches: 133, Mismatches: 18, Indels: 30
0.73 0.10 0.17
Matches are distributed among these distances:
5 11 0.08
6 100 0.75
7 13 0.10
8 9 0.07
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:50053354 original size:25 final size:24
Alignment explanation
Indices: 50053321--50053492 Score: 129
Period size: 25 Copynumber: 7.0 Consensus size: 24
50053311 TATCATAACT
50053321 AGAATCAGAATCAGAATCAGAATC
1 AGAATCAGAATCAGAATCAGAATC
* * *
50053345 AG-GTGACAGAATCAAAATCAGAACC
1 AGAAT--CAGAATCAGAATCAGAATC
*
50053370 AGAATCAGAATTAGGTAAT-AGAATC
1 AGAATCAGAATCA-G-AATCAGAATC
* *
50053395 AGAATCAGTATCAGGTAA-CAAAATC
1 AGAATCAGAATCA-G-AATCAGAATC
* *
50053420 AGAATCAGAACCAGAATCAGAATT
1 AGAATCAGAATCAGAATCAGAATC
* *
50053444 AGGTAAT-AGAATCAGAATTAGTATC
1 A-G-AATCAGAATCAGAATCAGAATC
50053469 AGGTAA-CAGAATCAGAATCAGAAT
1 A-G-AATCAGAATCAGAATCAGAAT
50053493 ATGAATGCAA
Statistics
Matches: 118, Mismatches: 20, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
23 3 0.03
24 16 0.14
25 92 0.78
26 7 0.06
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGAATC
Found at i:50053356 original size:19 final size:19
Alignment explanation
Indices: 50053332--50053489 Score: 99
Period size: 19 Copynumber: 7.8 Consensus size: 19
50053322 GAATCAGAAT
*
50053332 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGTAA
*
50053351 CAGAATCAAAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
*
50053368 CCAGAATCAGAATTAGGTAATAGAA
1 -CAGAATCAGAATCAGG---T--AA
*
50053393 TCAGAATCAGTATCAGGTAA
1 -CAGAATCAGAATCAGGTAA
*
50053413 CAAAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
*
50053430 CCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGGTAA
*
50053450 TAGAATCAGAATTAGTATCAGGTAA
1 CAGAATCAG----A--ATCAGGTAA
50053475 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
50053490 AATATGAATG
Statistics
Matches: 108, Mismatches: 14, Indels: 34
0.69 0.09 0.22
Matches are distributed among these distances:
17 3 0.03
18 26 0.24
19 40 0.37
20 4 0.04
21 1 0.01
22 1 0.01
23 1 0.01
25 32 0.30
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTAA
Found at i:50053364 original size:37 final size:37
Alignment explanation
Indices: 50053323--50053408 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
50053313 TCATAACTAG
*
50053323 AATCAGAATCAGAATCAGAATCAGGTGACAGAATCAA
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
* * * *
50053360 AATCAGAACCAGAATCAGAATTAGGTAATAGAATCAG
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
*
50053397 AATCAGTATCAG
1 AATCAGAATCAG
50053409 GTAACAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
Found at i:50053402 original size:62 final size:62
Alignment explanation
Indices: 50053327--50053491 Score: 285
Period size: 62 Copynumber: 2.7 Consensus size: 62
50053317 AACTAGAATC
* * *
50053327 AGAATCAGAATCAGAATCAGGTGACAGAATCAAAATCAGAACCAGAATCAGAATTAGGTAAT
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAAT
*
50053389 AGAATCAGAATCAGTATCAGGTAACAAAATCAGAATCAGAACCAGAATCAGAATTAGGTAAT
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAAT
*
50053451 AGAATCAGAATTAGTATCAGGTAACAGAATCAGAATCAGAA
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAA
50053492 TATGAATGCA
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 97 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (62 bp):
AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAAT
Found at i:50053435 original size:37 final size:37
Alignment explanation
Indices: 50053389--50053461 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
50053379 ATTAGGTAAT
* *
50053389 AGAATCAGAATCAGTATCAGGTAACAAAATCAGAATC
1 AGAACCAGAATCAGAATCAGGTAACAAAATCAGAATC
* * *
50053426 AGAACCAGAATCAGAATTAGGTAATAGAATCAGAAT
1 AGAACCAGAATCAGAATCAGGTAACAAAATCAGAAT
50053462 TAGTATCAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (37 bp):
AGAACCAGAATCAGAATCAGGTAACAAAATCAGAATC
Found at i:50053647 original size:27 final size:26
Alignment explanation
Indices: 50053610--50053675 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
50053600 AGCATGGCTG
*
50053610 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
50053636 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
50053663 CCAGAATCAGATA
1 CCAGAA-CAGATA
50053676 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:50053680 original size:27 final size:27
Alignment explanation
Indices: 50053610--50053683 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
50053600 AGCATGGCTG
* *
50053610 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
50053636 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
50053663 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
50053684 AACCTACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:50053864 original size:27 final size:27
Alignment explanation
Indices: 50053813--50053864 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
50053803 AGTCGTCAAC
*
50053813 AAATATGTTAGGCACATAGCTATAGGT
1 AAATATGTTAGGCACATAGCCATAGGT
*
50053840 AAATATGTTTGGCACGA-AGCCATAG
1 AAATATGTTAGGCAC-ATAGCCATAG
50053865 TCAAGATGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (27 bp):
AAATATGTTAGGCACATAGCCATAGGT
Found at i:50053896 original size:22 final size:22
Alignment explanation
Indices: 50053848--50053906 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
50053838 GTAAATATGT
*
50053848 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
50053870 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
50053892 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
50053907 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:50054074 original size:27 final size:26
Alignment explanation
Indices: 50053994--50054076 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
50053984 TCGATCGGTC
* *
50053994 AACAGATATTGTGACAGAGCCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
*
50054020 ATACAGATATTGTGGCAGAGCCATCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
50054047 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
50054074 AAC
1 AAC
50054077 GCTTCCTCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.16
27 42 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:50054305 original size:27 final size:27
Alignment explanation
Indices: 50054275--50054470 Score: 178
Period size: 27 Copynumber: 7.3 Consensus size: 27
50054265 GGGGCAAAAT
* * *
50054275 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
50054302 GGTAATTCTACCCTATAAGGGTTTTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
50054329 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
50054356 AATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
50054383 GGTAACTCTATCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
50054410 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
50054437 AGAAATTCTACCCTAC-AGGGCTATTAC
1 GGTAATTCTACCCTACAAGGG-TATTTC
*
50054464 AGTAATT
1 GGTAATT
50054471 TCACAATCAA
Statistics
Matches: 137, Mismatches: 31, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
26 3 0.02
27 134 0.98
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:50054419 original size:81 final size:82
Alignment explanation
Indices: 50054277--50054461 Score: 223
Period size: 81 Copynumber: 2.3 Consensus size: 82
50054267 GGCAAAATGG
* * * * * ** *
50054277 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAAGGGTTTTTCGGTATTTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAACTCTACCCTATAAGGGTTTTTCAATAATTCTACCC
50054342 TACAAGGGTATTTCA-A
66 TACAAGGGTATTTCAGA
* *
50054358 TAATTCTACCCTACAGGGGTATTTTGGTAACTCTATCCTATAAGGGTATTTT-AATAATTCTACC
1 TAATTCTACCCTACAGGGGTATTTCGGTAACTCTACCCTATAAGGGT-TTTTCAATAATTCTACC
* *
50054422 CTATAGGGGTATTTCAGA
65 CTACAAGGGTATTTCAGA
*
50054440 -AATTCTACCCTACAGGGCTATT
1 TAATTCTACCCTACAGGGGTATT
50054462 ACAGTAATTT
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
81 84 0.94
82 5 0.06
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (82 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAACTCTACCCTATAAGGGTTTTTCAATAATTCTACCC
TACAAGGGTATTTCAGA
Found at i:50054576 original size:81 final size:80
Alignment explanation
Indices: 50054475--50054721 Score: 320
Period size: 81 Copynumber: 3.0 Consensus size: 80
50054465 GTAATTTCAC
* * *
50054475 AATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTTTAAA-CTAAGGGT
1 AATCAAGGGTAAAACGGTAATTTTA-AAATCGAGGGTAAAACGGTAATTTTGTAAATC-AAGGGT
*
50054539 AAACCAGTAATTCTGTA
64 AAAACAGTAATTCTGTA
*
50054556 AATCAAGGGTAAAACGGTAATTTTACAAAGCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTA
1 AATCAAGGGTAAAACGGTAATTTTA-AAATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTA
* *
50054621 AAATAGTAATTCTATA
65 AAACAGTAATTCTGTA
* * * *
50054637 AA-CTGAGGGTAAAACGGTAATTTTAACAATCTAGGGTAAAACGGTAATTCTGTAAATCGAGGGT
1 AATC-AAGGGTAAAACGGTAATTTTAA-AATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGT
50054701 AAAAC-GATAATTCTGTA
64 AAAACAG-TAATTCTGTA
50054718 AATC
1 AATC
50054722 GAGAGTATTT
Statistics
Matches: 146, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
80 3 0.02
81 141 0.97
82 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.28
Consensus pattern (80 bp):
AATCAAGGGTAAAACGGTAATTTTAAAATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAA
AACAGTAATTCTGTA
Found at i:50054722 original size:27 final size:27
Alignment explanation
Indices: 50054475--50054724 Score: 256
Period size: 27 Copynumber: 9.3 Consensus size: 27
50054465 GTAATTTCAC
* *
50054475 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
50054502 AATCGAGGGTAAAACGATAATTTTTTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
50054529 AA-CTAAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
50054556 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
50054583 AAGCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* ** *
50054610 AATCAAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
50054637 AA-CTGAGGGTAAAACGGTAATT-T-TAA
1 AATC-GAGGGTAAAACGGTAATTCTGT-A
*
50054663 CAATCTAGGGTAAAACGGTAATTCTGTA
1 -AATCGAGGGTAAAACGGTAATTCTGTA
*
50054691 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
50054718 AATCGAG
1 AATCGAG
50054725 AGTATTTTGG
Statistics
Matches: 184, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
25 1 0.01
26 4 0.02
27 174 0.95
28 4 0.02
29 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:50056758 original size:17 final size:17
Alignment explanation
Indices: 50056734--50056872 Score: 118
Period size: 17 Copynumber: 8.3 Consensus size: 17
50056724 TAGAACCATG
50056734 AGAATCAGAA-AGAATC
1 AGAATCAGAATAGAATC
50056750 AGTAATCAGAATTAGAA-C
1 AG-AATCAGAA-TAGAATC
50056768 AGAATCAG-A-AGAAT-
1 AGAATCAGAATAGAATC
*
50056782 AGAATCAGAATCAGTATC
1 AGAATCAGAAT-AGAATC
50056800 AGTAATCAGAATCAG-ATC
1 AG-AATCAGAAT-AGAATC
50056818 AGAATCAGAATTAGAAT-
1 AGAATCAGAA-TAGAATC
*
50056835 AGAATCAGAATTAGTA-C
1 AGAATCAGAA-TAGAATC
50056852 AGAA--AGAATCAGAATC
1 AGAATCAGAAT-AGAATC
50056868 AGAAT
1 AGAAT
50056873 GTGAATGCAA
Statistics
Matches: 105, Mismatches: 3, Indels: 29
0.77 0.02 0.21
Matches are distributed among these distances:
14 13 0.12
15 8 0.08
16 8 0.08
17 47 0.45
18 13 0.12
19 16 0.15
ACGTcount: A:0.51, C:0.12, G:0.18, T:0.19
Consensus pattern (17 bp):
AGAATCAGAATAGAATC
Found at i:50056776 original size:6 final size:6
Alignment explanation
Indices: 50056734--50056872 Score: 131
Period size: 6 Copynumber: 24.8 Consensus size: 6
50056724 TAGAACCATG
*
50056734 AGAATC AGAA-- AGAATC AGTAATC AGAATT AGAA-C AGAATC AG-A--
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
*
50056777 AGAAT- AGAATC AGAATC AGTATC AGTAATC AGAATC AG-ATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* * *
50056824 AGAATT AGAAT- AGAATC AGAATT AGTA-C AGAA-- AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
50056868 AGAAT
1 AGAAT
50056873 GTGAATGCAA
Statistics
Matches: 112, Mismatches: 9, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
3 2 0.02
4 9 0.08
5 23 0.21
6 67 0.60
7 11 0.10
ACGTcount: A:0.51, C:0.12, G:0.18, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:50056808 original size:13 final size:12
Alignment explanation
Indices: 50056734--50056872 Score: 131
Period size: 11 Copynumber: 12.4 Consensus size: 12
50056724 TAGAACCATG
50056734 AGAATCAGAA--
1 AGAATCAGAATC
50056744 AGAATCAGTAATC
1 AGAATCAG-AATC
*
50056757 AGAATTAGAA-C
1 AGAATCAGAATC
50056768 AGAATCAG-A--
1 AGAATCAGAATC
50056777 AGAAT-AGAATC
1 AGAATCAGAATC
*
50056788 AGAATCAGTATC
1 AGAATCAGAATC
50056800 AGTAATCAGAATC
1 AG-AATCAGAATC
50056813 AG-ATCAGAATC
1 AGAATCAGAATC
*
50056824 AGAATTAGAAT-
1 AGAATCAGAATC
*
50056835 AGAATCAGAATT
1 AGAATCAGAATC
*
50056847 AGTA-CAGAA--
1 AGAATCAGAATC
50056856 AGAATCAGAATC
1 AGAATCAGAATC
50056868 AGAAT
1 AGAAT
50056873 GTGAATGCAA
Statistics
Matches: 108, Mismatches: 8, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
8 2 0.02
9 9 0.08
10 14 0.13
11 41 0.38
12 24 0.22
13 18 0.17
ACGTcount: A:0.51, C:0.12, G:0.18, T:0.19
Consensus pattern (12 bp):
AGAATCAGAATC
Found at i:50056821 original size:50 final size:49
Alignment explanation
Indices: 50056717--50056872 Score: 162
Period size: 50 Copynumber: 3.2 Consensus size: 49
50056707 AAGAAACATT
** * *
50056717 ATCAGAAT-AGAACCATGAGAATCAGAA-AGAATCAGTAATCAGAATTAG
1 ATCAGAATCAGAAGAAT-AGAATCAGAATAGTATCAGTAATCAGAATCAG
*
50056765 AACAGAATCAGAAGAATAGAATCAGAATCAGTATCAGTAATCAGAATCAG
1 ATCAGAATCAGAAGAATAGAATCAGAAT-AGTATCAGTAATCAGAATCAG
50056815 ATCAGAATCAGAATTAGAATAGAATCAGAATTAGTA-CAG-AA--AGAATCAG
1 ATCAGAATCAG-A--AGAATAGAATCAGAA-TAGTATCAGTAATCAGAATCAG
50056864 AATCAGAAT
1 -ATCAGAAT
50056873 GTGAATGCAA
Statistics
Matches: 94, Mismatches: 6, Indels: 14
0.82 0.05 0.12
Matches are distributed among these distances:
48 17 0.18
49 14 0.15
50 37 0.39
51 3 0.03
52 3 0.03
53 19 0.20
54 1 0.01
ACGTcount: A:0.51, C:0.12, G:0.18, T:0.19
Consensus pattern (49 bp):
ATCAGAATCAGAAGAATAGAATCAGAATAGTATCAGTAATCAGAATCAG
Found at i:50057024 original size:27 final size:26
Alignment explanation
Indices: 50056987--50057052 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
50056977 AGCATGGCTG
*
50056987 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
50057013 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
50057040 CCAGAATCAGATA
1 CCAGAA-CAGATA
50057053 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:50057057 original size:27 final size:27
Alignment explanation
Indices: 50056987--50057060 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
50056977 AGCATGGCTG
* *
50056987 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
50057013 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
50057040 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
50057061 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:50057067 original size:27 final size:27
Alignment explanation
Indices: 50057011--50057068 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
50057001 GTGACAGAGT
* * *
50057011 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
50057038 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
50057065 CACC
1 CACC
50057069 TAACAGAATA
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:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:50057273 original size:22 final size:22
Alignment explanation
Indices: 50057225--50057283 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
50057215 GTAAATACGT
*
50057225 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
50057247 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
50057269 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
50057284 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:50057450 original size:27 final size:26
Alignment explanation
Indices: 50057371--50057453 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
50057361 TCGATCGGTC
* * *
50057371 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
50057397 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
50057424 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
50057451 AAC
1 AAC
50057454 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:50057737 original size:27 final size:27
Alignment explanation
Indices: 50057651--50057841 Score: 203
Period size: 26 Copynumber: 7.3 Consensus size: 27
50057641 GGGGCAAAAT
* *
50057651 GGTAATTTTACCC-ACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
50057677 GGTAATTCTACCCTA-TA-GGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
50057702 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
50057729 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
50057756 GGTAATTCTATCCTATAAGGGTATTT-
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
50057782 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
50057809 -AAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
50057835 AGTAATT
1 GGTAATT
50057842 TCACAATCAG
Statistics
Matches: 139, Mismatches: 21, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
25 21 0.15
26 60 0.43
27 58 0.42
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:50057763 original size:79 final size:79
Alignment explanation
Indices: 50057653--50057841 Score: 240
Period size: 79 Copynumber: 2.4 Consensus size: 79
50057643 GGCAAAATGG
* * * * *
50057653 TAATTTTACCC-ACAAGGGTATCTCGGTAATTCTACCCTAT-A-GGTATTTCGGTATTTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAAGGGTATTT-AGTAATTCTACCC
50057715 TACAAGGGTATTTCGA
65 TACAAGGGTATTTC-A
* *
50057731 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTAGTAATTCTACCCT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAAGGGTATTTAGTAATTCTACCCT
* *
50057796 ATAGGGGTATTTCA
66 ACAAGGGTATTTCA
* *
50057810 AAATTCTACCCTACAGGGGTATTTCAGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATT
50057842 TCACAATCAG
Statistics
Matches: 96, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
78 10 0.10
79 55 0.57
80 24 0.25
81 7 0.07
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (79 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAAGGGTATTTAGTAATTCTACCCT
ACAAGGGTATTTCA
Found at i:50057776 original size:54 final size:53
Alignment explanation
Indices: 50057651--50057841 Score: 228
Period size: 52 Copynumber: 3.6 Consensus size: 53
50057641 GGGGCAAAAT
* *
50057651 GGTAATTTTACCC-ACAAGGGTATCTCGGTAATTCTACCCTATA--GGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC-GTAATTCTACCCTATAGGGGTATTTC
* * *
50057702 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCG-TAATTCTACCCTATAGGGGTATTTC
* * *
50057756 GGTAATTCTATCCTATAAGGGTATTTAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGTAATTCTACCCTATAGGGGTATTTC
** *
50057809 -AAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTC-GTAATT
50057842 TCACAATCAG
Statistics
Matches: 118, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
51 12 0.10
52 46 0.39
53 29 0.25
54 31 0.26
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (53 bp):
GGTAATTCTACCCTACAAGGGTATTTCGTAATTCTACCCTATAGGGGTATTTC
Found at i:50057882 original size:27 final size:27
Alignment explanation
Indices: 50057846--50058086 Score: 306
Period size: 27 Copynumber: 9.2 Consensus size: 27
50057836 GTAATTTCAC
*
50057846 AATC-AGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
50057872 AATCGAGGGTAAAACGATAATT-TTTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
50057898 AA-CTGAGGGT-AAACAGTAATTCT-TA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
50057923 AATCAAGGGTAAAACGGTAATT-T-TA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
50057948 CAAACGAGGGTAAAACGGTAATTCTGTA
1 -AATCGAGGGTAAAACGGTAATTCTGTA
*
50057976 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
50058003 AA-CTGAGGGTAAAACGGTAATT-T-TAA
1 AATC-GAGGGTAAAACGGTAATTCTGT-A
50058029 AATC-AGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
50058055 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
50058082 AATCG
1 AATCG
50058087 GAGTATTTGG
Statistics
Matches: 190, Mismatches: 11, Indels: 27
0.83 0.05 0.12
Matches are distributed among these distances:
25 40 0.21
26 58 0.31
27 90 0.47
28 2 0.01
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Done.