Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 96 of 318
Found at i:29103439 original size:29 final size:29
Alignment explanation
Indices: 29103406--29103470 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
29103396 GTGACGAGAT
*
29103406 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
29103435 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
29103464 CGGCACT
1 TGGCACT
29103471 GGTGTGCGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:29110048 original size:25 final size:24
Alignment explanation
Indices: 29110007--29110069 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
29109997 GATTATGTAG
29110007 AAAGAATAAAGAAATGAAAAAAAAA
1 AAAGAA-AAAGAAATGAAAAAAAAA
* * *
29110032 AAAGAAAGAGAATATGAAGAAAAAC
1 AAAGAAAAAGAA-ATGAAAAAAAAA
*
29110057 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
29110070 AAAAAATGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAGAAATGAAAAAAAAA
Found at i:29111267 original size:29 final size:29
Alignment explanation
Indices: 29111234--29111298 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
29111224 GTGACGAGAT
*
29111234 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
29111263 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
29111292 CGGCACT
1 TGGCACT
29111299 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:29118944 original size:29 final size:29
Alignment explanation
Indices: 29118902--29118960 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
29118892 ATATTTGAGC
*
29118902 GTAAGGCAAGTTAAGCCCAAGGTTTATTG
1 GTAAGGCAAGTTAAGCCAAAGGTTTATTG
29118931 GTAAGGCAAGTTAAGCCAAAGGTTTATTG
1 GTAAGGCAAGTTAAGCCAAAGGTTTATTG
29118960 G
1 G
29118961 GCTTTACTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (29 bp):
GTAAGGCAAGTTAAGCCAAAGGTTTATTG
Found at i:29124162 original size:44 final size:43
Alignment explanation
Indices: 29124022--29124180 Score: 141
Period size: 42 Copynumber: 3.7 Consensus size: 43
29124012 AGCTCGTACA
* * * *
29124022 ATGCCAACGTCCCAAACGTGGCCTTACAAG-TAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAATCAAATAT-G
* *
29124065 ATGTC-AC-TGCTCAGACAG-GGTCTTACAC-AAAATCAAATATG
1 ATGCCAACGT-CCCAGAC-GTGGTCTTACACGAAAATCAAATATG
* * *
29124106 ATGCCAATGTCCCATACGTGGTCTTACACGTAAATCATAAGT-TG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAATCA-AA-TATG
*
29124150 ATGCCAACGTCCCAGACGTAGTCTTACACGA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGA
29124181 TAACATATAT
Statistics
Matches: 92, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
41 7 0.08
42 41 0.45
43 12 0.13
44 31 0.34
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAAATCAAATATG
Found at i:29126261 original size:35 final size:35
Alignment explanation
Indices: 29126222--29126292 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
29126212 ATCCGCTAGG
* *
29126222 ATTGACCATCCGTTTGTGGGTGAAAAGCAGTACTA
1 ATTGACCATCCGTTTGCGGGTAAAAAGCAGTACTA
29126257 ATTGACCATCCGTTTGCGGGTAAAAAGCAGTACTA
1 ATTGACCATCCGTTTGCGGGTAAAAAGCAGTACTA
29126292 A
1 A
29126293 AGTGCAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (35 bp):
ATTGACCATCCGTTTGCGGGTAAAAAGCAGTACTA
Found at i:29133858 original size:42 final size:42
Alignment explanation
Indices: 29133792--29133912 Score: 163
Period size: 42 Copynumber: 2.9 Consensus size: 42
29133782 AGTACTATAC
*
29133792 CAATGCCATATCCAAGATATGGTCTTACATGAA-TCTCATAT
1 CAATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATAT
* * * *
29133833 CAATGCCAATAGCCCAGCTATGGTCTTATACGAAGTCTCATAT
1 CAATGCC-ATATCCCAGATATGGTCTTACATGAAGTCTCATAT
* *
29133876 CGATGCCATATCCCAGATATGGTCTTACATGTAGTCT
1 CAATGCCATATCCCAGATATGGTCTTACATGAAGTCT
29133913 TAGTAACCCT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
41 7 0.10
42 46 0.69
43 14 0.21
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATAT
Found at i:29143143 original size:40 final size:40
Alignment explanation
Indices: 29142957--29143129 Score: 303
Period size: 40 Copynumber: 4.3 Consensus size: 40
29142947 GAACTAAGAT
29142957 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
29142997 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
29143037 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
29143077 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCCATGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTC
29143117 CCGAAGGCATTTG
1 CCGAAGGCATTTG
29143130 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
40 127 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:29146840 original size:31 final size:32
Alignment explanation
Indices: 29146783--29146844 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
29146773 ACGAAGTCAC
* *
29146783 CAAATATAGATATTGTGGCTAGGCCACCAGAA
1 CAAATATAGATATTGTGGCGAAGCCACCAGAA
*
29146815 CAAATATATATA-TGTGGCGAAGCCACCAGA
1 CAAATATAGATATTGTGGCGAAGCCACCAGA
29146845 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (32 bp):
CAAATATAGATATTGTGGCGAAGCCACCAGAA
Found at i:29146908 original size:27 final size:26
Alignment explanation
Indices: 29146860--29146911 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
29146850 GCGAGGCTGT
* *
29146860 CAGATATTGTGACGATGTCACCAGAA
1 CAGATATTGTGACGAGGCCACCAGAA
*
29146886 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAGGCCACCAGA
29146912 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:0.21, G:0.27, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGACGAGGCCACCAGAA
Found at i:29148903 original size:13 final size:13
Alignment explanation
Indices: 29148885--29148914 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
29148875 CCGTGTGAGA
29148885 GACACGAGCCAAG
1 GACACGAGCCAAG
*
29148898 GACACGGGCCAAG
1 GACACGAGCCAAG
29148911 GACA
1 GACA
29148915 TAGGCGTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.30, G:0.33, T:0.00
Consensus pattern (13 bp):
GACACGAGCCAAG
Found at i:29153625 original size:44 final size:42
Alignment explanation
Indices: 29153529--29153634 Score: 108
Period size: 44 Copynumber: 2.5 Consensus size: 42
29153519 CCACTATCCT
* * * *
29153529 AGACGGGGTCTTACACAAAATCAAATACGTTGCCAATGTCCC
1 AGACGTGGTCTTACACAAAATCAAATACGATACCAATCTCCC
*
29153571 AGA-GATGGTCTTACACATAAATCATAAGT-CGATACCAATCTCTC
1 AGACG-TGGTCTTACACA-AAATCA-AA-TACGATACCAATCTCCC
*
29153615 AGACGTGGTCTTACATAAAA
1 AGACGTGGTCTTACACAAAA
29153635 ACACATATTG
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
41 1 0.02
42 14 0.26
43 9 0.17
44 27 0.51
45 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (42 bp):
AGACGTGGTCTTACACAAAATCAAATACGATACCAATCTCCC
Found at i:29164819 original size:40 final size:39
Alignment explanation
Indices: 29164775--29164953 Score: 164
Period size: 40 Copynumber: 4.5 Consensus size: 39
29164765 GCTCGATTGT
* * *
29164775 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
* *
29164815 CTTCGGGA-ATTAGCCCAGATTTAGTAACTCGCATAAATGC
1 CTTCGGGACA-TAGCCC-GGTTTAGTAACTCGCACAAATGC
* * *
29164855 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
29164895 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
29164936 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
29164954 ATATCATTCG
Statistics
Matches: 112, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
39 3 0.03
40 81 0.72
41 26 0.23
42 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:29164887 original size:80 final size:81
Alignment explanation
Indices: 29164775--29164953 Score: 227
Period size: 80 Copynumber: 2.2 Consensus size: 81
29164765 GCTCGATTGT
* * * *
29164775 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT-AGCCCAGATTTAG
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCAGATTTAG
* * *
29164839 TAAC-TCGCATAAATGC
65 TAACTTAGCACAAAAGC
* * * *
29164855 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCAGATTTAGT
*
29164920 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
29164936 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
29164954 ATATCATTCG
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 57 0.68
81 27 0.32
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCAGATTTAGT
AACTTAGCACAAAAGC
Found at i:29164942 original size:41 final size:39
Alignment explanation
Indices: 29164803--29164955 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 39
29164793 TTATAGTGAT
* *
29164803 TCGCACAATTGCCTTCGGGAATTAGCCCAGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGAATTA-CCCGGATTTAGTAAC
* * * *
29164843 TCGCATAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
*
29164883 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* * *
29164923 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 -TCGCACAAATGCCTTCGGGAATTA-CCCGGAT
29164956 ATCATTCGAA
Statistics
Matches: 95, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
40 67 0.71
41 28 0.29
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
TCGCACAAATGCCTTCGGGAATTACCCGGATTTAGTAAC
Found at i:29165669 original size:2 final size:2
Alignment explanation
Indices: 29165662--29165689 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
29165652 ATGTGCAAAC
29165662 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29165690 GCTAGAGCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29172797 original size:40 final size:40
Alignment explanation
Indices: 29172753--29172930 Score: 166
Period size: 40 Copynumber: 4.4 Consensus size: 40
29172743 GCTCGATTGT
* * *
29172753 CTTCGGGACATAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGATT-TAGTAACTCGCACAAATGC
*
29172793 CTTCGGGA-ACTAGCCCGGATTTAGTAACTCGCATAAATGC
1 CTTCGGGACA-TAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
29172833 CTTCGGGACTTAACCC-AATTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGGA-TTTAGTAACTCGCACAAATGC
* * * *
29172873 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGGATTTAGTAAC-TCGCACAAATGC
*
29172914 CTTCGGGACTTAGCCCG
1 CTTCGGGACATAGCCCG
29172931 TATATCATTC
Statistics
Matches: 111, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
39 3 0.03
40 81 0.73
41 25 0.23
42 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:29175758 original size:12 final size:13
Alignment explanation
Indices: 29175741--29175772 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
29175731 CTACATGATG
29175741 TTTCTTTCTCCT-
1 TTTCTTTCTCCTC
29175753 TTTC-TTCTCCTC
1 TTTCTTTCTCCTC
29175765 TTTCTTTC
1 TTTCTTTC
29175773 ATTTTTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.39
12 8 0.44
13 3 0.17
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTCTTTCTCCTC
Found at i:29178950 original size:6 final size:6
Alignment explanation
Indices: 29178932--29179019 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
29178922 AAGAAATATT
* * *
29178932 ATCAGA A-CTAGA ATCAGA ATCATA ATCAGA ATCAG- GTGACAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
29178981 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
29179020 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 51 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:29178982 original size:31 final size:31
Alignment explanation
Indices: 29178941--29179019 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
29178931 TATCAGAACT
* *
29178941 AGAATCAGAATCATAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
29178972 AGAATTAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
29179003 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
29179020 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:29179211 original size:33 final size:32
Alignment explanation
Indices: 29179160--29179223 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
29179150 ATGAAGTCAC
* *
29179160 CAGATAAAGATATTGTGGCTAGGCCACCAGAA
1 CAGATAAAGATATTGTGGCGAAGCCACCAGAA
* *
29179192 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATAAAGATAT-TGTGGCGAAGCCACCAGA
29179224 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATAAAGATATTGTGGCGAAGCCACCAGAA
Found at i:29179554 original size:27 final size:27
Alignment explanation
Indices: 29179492--29179557 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
29179482 CAGTCACTTG
*
29179492 CCCACAAGGGTAAAACAGTCATTTAAC
1 CCCACAAGGGTAAAACAGTAATTTAAC
* ** ** *
29179519 ACCTTAAGGGTAAAATGGTAATTTTAC
1 CCCACAAGGGTAAAACAGTAATTTAAC
29179546 CCCACAAGGGTA
1 CCCACAAGGGTA
29179558 TCTCGGTAAT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (27 bp):
CCCACAAGGGTAAAACAGTAATTTAAC
Found at i:29179575 original size:17 final size:17
Alignment explanation
Indices: 29179553--29179585 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
29179543 TACCCCACAA
29179553 GGGTATCTCGGTAATTG
1 GGGTATCTCGGTAATTG
29179570 GGGTATCTCGGTAATT
1 GGGTATCTCGGTAATT
29179586 CTACCCTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.33, T:0.36
Consensus pattern (17 bp):
GGGTATCTCGGTAATTG
Found at i:29179599 original size:27 final size:27
Alignment explanation
Indices: 29179570--29179666 Score: 140
Period size: 27 Copynumber: 3.6 Consensus size: 27
29179560 TCGGTAATTG
* *
29179570 GGGTATCTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAA
* *
29179597 GGGTATTTTGGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAA
* *
29179624 GGGTATTTCAGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAA
29179651 GGGTATTTCGGTAATT
1 GGGTATTTCGGTAATT
29179667 TTGTAAATCG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAA
Found at i:29179680 original size:27 final size:27
Alignment explanation
Indices: 29179650--29179739 Score: 103
Period size: 27 Copynumber: 3.3 Consensus size: 27
29179640 CTACCCTACA
29179650 AGGGTATTTCGGTAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTTGTAAATCG
***
29179677 AGGGTAAAACGGTAATTTTGTAAATC-
1 AGGGTATTTCGGTAATTTTGTAAATCG
* *
29179703 AGGGGTACTTT-GGTAATTTTATAAGTCG
1 A-GGGTA-TTTCGGTAATTTTGTAAATCG
29179731 AGGGTATTT
1 AGGGTATTT
29179740 TAATAATTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
26 4 0.08
27 47 0.90
28 1 0.02
ACGTcount: A:0.29, C:0.07, G:0.27, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTGTAAATCG
Found at i:29179934 original size:27 final size:27
Alignment explanation
Indices: 29179687--29179934 Score: 219
Period size: 27 Copynumber: 9.2 Consensus size: 27
29179677 AGGGTAAAAC
** * *
29179687 GGTAATTTTGTAAATCAGGGGTACTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
* **
29179714 GGTAATTTTATAAGTC-GAGGGTATTTT
1 GGTAATTTTACAAACCAG-GGGTATTTT
** *** *
29179741 AATAATTTTACAGGTCAAGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
* * **
29179768 AGTAATTTCACAAATTAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
* * * *
29179795 GATAATTTTACGAACTAGGAGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
* *
29179822 GGTAATTTTACAAACTAAGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
*
29179849 GGTAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
* * **
29179876 GGTAATTTTATAAACAAAAGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
*
29179903 AGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
29179930 GGTAA
1 GGTAA
29179935 CTTGGTAAAC
Statistics
Matches: 184, Mismatches: 35, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 183 0.99
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTAATTTTACAAACCAGGGGTATTTT
Found at i:29179946 original size:81 final size:80
Alignment explanation
Indices: 29179703--29179934 Score: 275
Period size: 81 Copynumber: 2.9 Consensus size: 80
29179693 TTTGTAAATC
* * * * ***
29179703 AGGGGTACTTTGGTAATTTTATAAGTCGAGGGTATTTTAATAATTTTACAGGTCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTATAA-ACAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
* *
29179768 AGTAATTTCACAAATT
65 GGTAATTTCACAAACT
* ** * * *
29179784 AGGGGTATTTTGATAATTTTACGAACTAGGAGTATTTTGGTAATTTTACAAACTAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTATAAACAAGG-GTATTTTAGTAATTTTACAAACCAAGGGTATTTT
*
29179849 GGTAATTTTACAAACT
65 GGTAATTTCACAAACT
* *
29179865 AGGGGTATTTTGGTAATTTTATAAACAAAAGGTATTTTAGTAATTTTACAAACCAGGGGTATTTT
1 AGGGGTATTTTGGTAATTTTATAAAC-AAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
29179930 GGTAA
65 GGTAA
29179935 CTTGGTAAAC
Statistics
Matches: 126, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
80 4 0.03
81 120 0.95
82 2 0.02
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (80 bp):
AGGGGTATTTTGGTAATTTTATAAACAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTG
GTAATTTCACAAACT
Found at i:29180743 original size:15 final size:15
Alignment explanation
Indices: 29180723--29180761 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
29180713 CCCATGCTCA
29180723 AGGCCCAAAACTTCT
1 AGGCCCAAAACTTCT
29180738 AGGCCCAAAACTTCT
1 AGGCCCAAAACTTCT
29180753 AGGCCCAAA
1 AGGCCCAAA
29180762 TTCAGGGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.33, G:0.15, T:0.15
Consensus pattern (15 bp):
AGGCCCAAAACTTCT
Found at i:29182878 original size:30 final size:30
Alignment explanation
Indices: 29182844--29182902 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
29182834 AAACTTGTCA
* *
29182844 AAAGCGAAGACTACAACAAACAATTCTTTT
1 AAAGCAAACACTACAACAAACAATTCTTTT
*
29182874 AAAGCAAACACTACATCAAACAATTCTTT
1 AAAGCAAACACTACAACAAACAATTCTTT
29182903 CTCTGTAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.47, C:0.22, G:0.07, T:0.24
Consensus pattern (30 bp):
AAAGCAAACACTACAACAAACAATTCTTTT
Found at i:29183940 original size:15 final size:15
Alignment explanation
Indices: 29183920--29183950 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
29183910 AATTATGAAA
29183920 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
29183935 GATATGTTTTGTATT
1 GATATGTTTTGGATT
29183950 G
1 G
29183951 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:29185983 original size:27 final size:28
Alignment explanation
Indices: 29185926--29186267 Score: 214
Period size: 27 Copynumber: 12.6 Consensus size: 28
29185916 CTTGGTTTAC
* * ** *
29185926 AAAATGACCAAAATA-CCCTCGATGAGA
1 AAAATTACCAAAATACCCCTTGATTTGT
*
29185953 AAAATTACCAAAATACCCCTAG-TTTGT
1 AAAATTACCAAAATACCCCTTGATTTGT
*
29185980 AAAATTACCAAAATACCCC-TGACTTGT
1 AAAATTACCAAAATACCCCTTGATTTGT
* * **
29186007 GAAATTA-CAAAA-ACACCTTTGACCTGT
1 AAAATTACCAAAATAC-CCCTTGATTTGT
* * *
29186034 AAAATTACCGAAATA--TCTTGACTTGT
1 AAAATTACCAAAATACCCCTTGATTTGT
* * *
29186060 AAAATTACCGAAATA-CACTTGATTTAT
1 AAAATTACCAAAATACCCCTTGATTTGT
29186087 AAAATTACCAAAATACCCC-TGATTTAG-
1 AAAATTACCAAAATACCCCTTGATTT-GT
* * *
29186114 AAAATTATCGAAATA-CCCTTGATTTGG
1 AAAATTACCAAAATACCCCTTGATTTGT
**
29186141 AAAATTA-CAGAAATACCCC-T-ACTTTAC
1 AAAATTACCA-AAATACCCCTTGA-TTTGT
* **
29186168 AAAATTACAAAAATA-CCCTTGACTTTCA
1 AAAATTACCAAAATACCCCTTGA-TTTGT
* ** *
29186196 AAAATTACAAAAATACCATTTG-TTTGC
1 AAAATTACCAAAATACCCCTTGATTTGT
* *
29186223 AAAATTACCGAAATA-CCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTTGATTTGT
* * *
29186250 AGATTTACCAAAACACCC
1 AAAATTACCAAAATACCC
29186268 TTGTAGGGTG
Statistics
Matches: 253, Mismatches: 42, Indels: 39
0.76 0.13 0.12
Matches are distributed among these distances:
25 2 0.01
26 44 0.17
27 165 0.65
28 37 0.15
29 5 0.02
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (28 bp):
AAAATTACCAAAATACCCCTTGATTTGT
Found at i:29186074 original size:80 final size:80
Alignment explanation
Indices: 29185953--29186240 Score: 228
Period size: 80 Copynumber: 3.6 Consensus size: 80
29185943 CTCGATGAGA
* * * * *
29185953 AAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTGACTTGTGAAATTACAA
1 AAAATTACCGAAATACCCTTGA-CTTGTAAAATTACCGAAATACCCCTGACTT-TAAAATTACAA
* *
29186017 AAACACCTTTGACCT-G
64 AAATACCCTTGACCTAG
* * * * *
29186033 TAAAATTACCGAAATA-TCTTGACTTGTAAAATTACCGAAATACACTTGATTTATAAAATTACCA
1 -AAAATTACCGAAATACCCTTGACTTGTAAAATTACCGAAATACCCCTGACTT-TAAAATTACAA
* **
29186097 AAATACCCCTGATTTAG
64 AAATACCCTTGACCTAG
* * * *
29186114 AAAATTATCGAAATACCCTTGATTTGGAAAATTACAGAAATACCCCT-ACTTTACAAAATTACAA
1 AAAATTACCGAAATACCCTTGACTTGTAAAATTACCGAAATACCCCTGACTTT--AAAATTACAA
*
29186178 AAATACCCTTGACTTTCA-
64 AAATACCCTTGAC-CT-AG
** * * *
29186196 AAAATTACAAAAATACCATTTG-TTTGCAAAATTACCGAAATACCC
1 AAAATTACCGAAATACC-CTTGACTTGTAAAATTACCGAAATACCC
29186241 TTGGTTTGTA
Statistics
Matches: 166, Mismatches: 33, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
79 1 0.01
80 63 0.38
81 61 0.37
82 37 0.22
83 4 0.02
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (80 bp):
AAAATTACCGAAATACCCTTGACTTGTAAAATTACCGAAATACCCCTGACTTTAAAATTACAAAA
ATACCCTTGACCTAG
Found at i:29186145 original size:107 final size:107
Alignment explanation
Indices: 29185953--29186155 Score: 245
Period size: 107 Copynumber: 1.9 Consensus size: 107
29185943 CTCGATGAGA
* *
29185953 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGACTTGTGAAATTACAAA
1 AAAATTACCAAAATACACCTAGTTTATAAAATTACCAAAATACCCCTGACTTGTGAAATTACAAA
* *
29186018 AACACCTTTGACCTGTAAAATTACCGAAATATCTTGACTTGT
66 AACACCTTTGACCTGGAAAATTACAGAAATATCTTGACTTGT
* *
29186060 AAAATTACCGAAATACA-CTTGATTTATAAAATTACCAAAATACCCCTGA-TT-TAGAAAATTAT
1 AAAATTACCAAAATACACCTAG-TTTATAAAATTACCAAAATACCCCTGACTTGT-G-AAATTA-
* **
29186122 CGAAATAC-CC-TTGATTTGGAAAATTACAGAAATA
62 C-AAAAACACCTTTGACCTGGAAAATTACAGAAATA
29186156 CCCCTACTTT
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
105 1 0.01
106 6 0.07
107 67 0.82
108 3 0.04
109 5 0.06
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (107 bp):
AAAATTACCAAAATACACCTAGTTTATAAAATTACCAAAATACCCCTGACTTGTGAAATTACAAA
AACACCTTTGACCTGGAAAATTACAGAAATATCTTGACTTGT
Found at i:29186268 original size:82 final size:81
Alignment explanation
Indices: 29185908--29186270 Score: 256
Period size: 81 Copynumber: 4.5 Consensus size: 81
29185898 TAGAATTATT
* * * * * * * *
29185908 GAAATAACCTTGGTTTACAAAATGACCAAAATACCCTCGA-TGAGAAAAATTACCAAAATACCCC
1 GAAATACCCTTGATTTATAAAATTACCAAAATACCCTTGATTTAG-AAAATTATCAAAATACCCT
*
29185972 T-AGTTTGTAAAATTACC
65 TGA-TTTGCAAAATTACC
* * * * * * * * ** * * *
29185989 AAAATACCCCTGACTTGTGAAATTACAAAAACACCTTTGACCT-GTAAAATTACCGAAATA-TCT
1 GAAATACCCTTGATTTATAAAATTACCAAAATACCCTTGATTTAG-AAAATTATCAAAATACCCT
* *
29186052 TGACTTGTAAAATTACC
65 TGATTTGCAAAATTACC
* * *
29186069 GAAATACACTTGATTTATAAAATTACCAAAATACCCCTGATTTAGAAAATTATCGAAATACCCTT
1 GAAATACCCTTGATTTATAAAATTACCAAAATACCCTTGATTTAGAAAATTATCAAAATACCCTT
* *
29186134 GATTTGGAAAATTACA
66 GATTTGCAAAATTACC
* * *
29186150 GAAATACCCCT-ACTTTACAAAATTACAAAAATACCCTTGACTTTCA-AAAATTA-CAAAAATAC
1 GAAATACCCTTGA-TTTATAAAATTACCAAAATACCCTTGA-TTT-AGAAAATTATC-AAAATAC
*
29186212 CATTTG-TTTGCAAAATTACC
62 C-CTTGATTTGCAAAATTACC
* * * * *
29186232 GAAATACCCTTGGTTTGTAGATTTACCAAAACACCCTTG
1 GAAATACCCTTGATTTATAAAATTACCAAAATACCCTTG
29186271 TAGGGTGAAA
Statistics
Matches: 218, Mismatches: 54, Indels: 19
0.75 0.19 0.07
Matches are distributed among these distances:
80 61 0.28
81 94 0.43
82 59 0.27
83 4 0.02
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (81 bp):
GAAATACCCTTGATTTATAAAATTACCAAAATACCCTTGATTTAGAAAATTATCAAAATACCCTT
GATTTGCAAAATTACC
Found at i:29186552 original size:41 final size:41
Alignment explanation
Indices: 29186507--29186625 Score: 202
Period size: 41 Copynumber: 2.9 Consensus size: 41
29186497 GAGGAAGAAG
*
29186507 TTGAGGATCGCATGGTTGCTTGACGACCGTAGATCCACCGA
1 TTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGA
29186548 TTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGA
1 TTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGA
* * *
29186589 TTAAGGATCGCAAGGTTGCTTGACAACCGTGGATCCA
1 TTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCA
29186626 TCGGTGGCTT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (41 bp):
TTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGA
Found at i:29187054 original size:22 final size:22
Alignment explanation
Indices: 29187029--29187076 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
29187019 CTGGCAGTAT
*
29187029 TGCTGTGATGTTTACGGCTATG
1 TGCTGTCATGTTTACGGCTATG
*
29187051 TGCTGTCCTGTTTACGGCTATG
1 TGCTGTCATGTTTACGGCTATG
29187073 TGCT
1 TGCT
29187077 ATCCTGACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.10, C:0.19, G:0.29, T:0.42
Consensus pattern (22 bp):
TGCTGTCATGTTTACGGCTATG
Found at i:29187081 original size:22 final size:22
Alignment explanation
Indices: 29187037--29187082 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
29187027 ATTGCTGTGA
*
29187037 TGTTTACGGCTATGTGCTGTCC
1 TGTTTACGGCTATGTGCTATCC
29187059 TGTTTACGGCTATGTGCTATCC
1 TGTTTACGGCTATGTGCTATCC
29187081 TG
1 TG
29187083 ACTACGATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.11, C:0.22, G:0.26, T:0.41
Consensus pattern (22 bp):
TGTTTACGGCTATGTGCTATCC
Found at i:29187088 original size:22 final size:22
Alignment explanation
Indices: 29187041--29187088 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
29187031 CTGTGATGTT
* **
29187041 TACGGCTATGTGCTGTCCTGTT
1 TACGGCTATGTGCTATCCTGAC
29187063 TACGGCTATGTGCTATCCTGAC
1 TACGGCTATGTGCTATCCTGAC
29187085 TACG
1 TACG
29187089 ATGTTGAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.35
Consensus pattern (22 bp):
TACGGCTATGTGCTATCCTGAC
Found at i:29213862 original size:49 final size:49
Alignment explanation
Indices: 29213065--29213859 Score: 1310
Period size: 49 Copynumber: 16.3 Consensus size: 49
29213055 CCCTTTGGGA
* * * *
29213065 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATAGACACTTTCACATTCATCACGTCGGCCATTAGGC
* * *
29213112 CCTATCACATATAT--ACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATAGACACTTTCACATTCATCACGTCGGCCATTAGGC
* * * *
29213159 CTTATCACATTTATATACACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATAGACACTTTCACATTCATCACGTCGGCCATTAGGC
*
29213208 CTTATCACATATATACACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATAGACACTTTCACATTCATCACGTCGGCCATTAGGC
29213257 CTTATCACATATATAGACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATAGACACTTTCACATTCATCACGTCGGCCATTAGGC
29213306 CTTATCACATATATAGACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATAGACACTTTCACATTCATCACGTCGGCCATTAGGC
*
29213355 CTTATCACATATATAGACACTTTCACACTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATAGACACTTTCACATTCATCACGTCGGCCATTAGGC
*
29213404 CTTATCACATATATAGACACTTTCACACTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATAGACACTTTCACATTCATCACGTCGGCCATTAGGC
*
29213453 CTTATCACATATATAGACACTTTCACACTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATAGACACTTTCACATTCATCACGTCGGCCATTAGGC
*
29213502 CTTATCACATATATAGACACTTTCACACTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATAGACACTTTCACATTCATCACGTCGGCCATTAGGC
*
29213551 CTTATCACATATATAGACACTTTCACACTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATAGACACTTTCACATTCATCACGTCGGCCATTAGGC
* *
29213600 CTTATCACATATATACACACTTTCACACTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATAGACACTTTCACATTCATCACGTCGGCCATTAGGC
*
29213649 CTTATCACATATATACACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATAGACACTTTCACATTCATCACGTCGGCCATTAGGC
* * *
29213698 CTTATCACATATATATACACTTTCACACTCATCACATCGGCCATTAGGC
1 CTTATCACATATATAGACACTTTCACATTCATCACGTCGGCCATTAGGC
* * *
29213747 CTTATCACATATATATACACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATAGACACTTTCACATTCATCACGTCGGCCATTAGGC
* *
29213796 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATAGACACTTTCACATTCATCACGTCGGCCATTAGGC
29213845 CTTATCACATATATA
1 CTTATCACATATATA
29213860 TACCTCATAC
Statistics
Matches: 722, Mismatches: 22, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
47 51 0.07
48 1 0.00
49 670 0.93
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATAGACACTTTCACATTCATCACGTCGGCCATTAGGC
Found at i:29218208 original size:49 final size:49
Alignment explanation
Indices: 29218131--29218375 Score: 310
Period size: 49 Copynumber: 4.9 Consensus size: 49
29218121 TAGCCAAAGC
* * *
29218131 TATCTGGTACGCATAGTAGCCTGTACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * * *
29218180 TATCCGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
* * * *
29218230 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* * * *
29218281 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* *
29218330 AATCTGGTACACGTAGTAGCCTGCACGTAGTACTACACATGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC
29218376 TCACAATTGA
Statistics
Matches: 166, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 81 0.49
50 47 0.28
51 38 0.23
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:29218313 original size:101 final size:98
Alignment explanation
Indices: 29218144--29218375 Score: 320
Period size: 100 Copynumber: 2.3 Consensus size: 98
29218134 CTGGTACGCA
* **
29218144 TAGTAGCCTGTACTTAGTACTACACATGTGACCAATTATCCGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* *
29218209 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACC-AACAATCTGATACACG
* * * *
29218243 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
* * *
29218308 TAGTACTACACATGCGACCAATAATCTGGTACACG
64 TAGTACTACACACGCGACCAACAATCTGATACACG
*
29218343 TAGTAGCCTGCACGTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
29218376 TCACAATTGA
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
99 30 0.26
100 45 0.39
101 41 0.35
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACAATCTGATACACG
Found at i:29221742 original size:46 final size:44
Alignment explanation
Indices: 29221588--29221815 Score: 165
Period size: 46 Copynumber: 4.9 Consensus size: 44
29221578 CACTGTTGTT
* * *
29221588 ATGTGAGCCAGTGTAAGACATGTCCGGGACATGCATCGGCCAT-ATT
1 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATC-GCC-TGA-G
* * *
29221634 ATGAAAGCCAGTGTAAGACCATATCTGGGACATGGCATCGACATTGAG
1 ATGTAAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG-C-CTGAG
* * *
29221682 ACG-AGTGACAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAG
1 ATGTA-AGCCAGTGTAAGACATGTCTGGGACATGCATC-GCCT-GAG
* *
29221728 ATGTAAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCACGGATG
1 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATC-GC-CTGA-G
* *
29221775 -TGTGAGAGCCAGTGTAAGACCATATCTGGGATATGGCATCG
1 ATGT-A-AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
29221816 GCATCGATAT
Statistics
Matches: 147, Mismatches: 20, Indels: 27
0.76 0.10 0.14
Matches are distributed among these distances:
45 1 0.01
46 63 0.43
47 32 0.22
48 32 0.22
49 14 0.10
50 5 0.03
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (44 bp):
ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGCCTGAG
Found at i:29221788 original size:94 final size:94
Alignment explanation
Indices: 29221592--29221814 Score: 229
Period size: 94 Copynumber: 2.4 Consensus size: 94
29221582 GTTGTTATGT
* * *
29221592 GAGCCAGTGTAAGACATGTCCGGGACATGCATCGGCCATATTATGAAAGCCAGTGTAAGACCATA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATATGATGAAAGCCAGTGTAAGACCATA
**
29221657 TCTGGGACATGGCATCGACATTGAGACGA
66 TCTGGGACATGGCATCGACACGGAGACGA
* * * *
29221686 GTGACAGTGTAAGACATGTCTGGGACATGCATCAGCC-TCGA-GATGTAAGCTAGTGTAAGA-CA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ATGATGAAAGCCAGTGTAAGACCA
* * **
29221748 TGTCTGGGACAT-GCATCGGCACGGATGTGTGA
64 TATCTGGGACATGGCATCGACACGGA-G-ACGA
* *
29221780 GAGCCAGTGTAAGACCATATCTGGGATATGGCATC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
29221815 GGCATCGATA
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
92 10 0.09
93 15 0.14
94 63 0.59
95 13 0.12
96 5 0.05
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.22
Consensus pattern (94 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATATGATGAAAGCCAGTGTAAGACCATA
TCTGGGACATGGCATCGACACGGAGACGA
Found at i:29225564 original size:15 final size:15
Alignment explanation
Indices: 29225545--29225585 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
29225535 ATTTTCTTGT
29225545 TTTGGATTTCTT-TA
1 TTTGGATTTCTTATA
29225559 TGTTGGATTT-TTATA
1 T-TTGGATTTCTTATA
29225574 TTCTGGATTTCT
1 TT-TGGATTTCT
29225586 CCATTATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 4 0.17
15 18 0.78
16 1 0.04
ACGTcount: A:0.15, C:0.07, G:0.17, T:0.61
Consensus pattern (15 bp):
TTTGGATTTCTTATA
Found at i:29228209 original size:46 final size:47
Alignment explanation
Indices: 29228142--29228365 Score: 163
Period size: 47 Copynumber: 4.8 Consensus size: 47
29228132 GAGACACTAC
** * *
29228142 TATTATGTGAGCCAGTGTAAGACAGGTTTGGGACAT-GCATCAGCCT
1 TATTATGAAAGCCAGTGTAAGACATGTCTGGGACATAGCATCAGCCT
* * * *
29228188 TATTATGAAAGCCAGTGTAAGACTATGTCAGGGACATGGCAT-TGACAT
1 TATTATGAAAGCCAGTGTAAGAC-ATGTCTGGGACATAGCATCAG-CCT
* ** ** *
29228236 TGA-GATGAGTGCCAGTGTAAGACATGTCTGGGACAT-GCATCAATCA
1 T-ATTATGAAAGCCAGTGTAAGACATGTCTGGGACATAGCATCAGCCT
* * *
29228282 TATTATGAAAGCAAGTGTAACACCATGTCTGGGACATAGCATC-GACAT
1 TATTATGAAAGCCAGTGTAAGA-CATGTCTGGGACATAGCATCAG-CCT
* * **
29228330 TGA-GACGAGTGCCAGTGTAAGACATGTCTGGGACAT
1 T-ATTATGAAAGCCAGTGTAAGACATGTCTGGGACAT
29228366 GCAACGGCAC
Statistics
Matches: 137, Mismatches: 31, Indels: 19
0.73 0.17 0.10
Matches are distributed among these distances:
45 1 0.01
46 40 0.29
47 51 0.37
48 43 0.31
49 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (47 bp):
TATTATGAAAGCCAGTGTAAGACATGTCTGGGACATAGCATCAGCCT
Found at i:29228263 original size:47 final size:47
Alignment explanation
Indices: 29228198--29228366 Score: 191
Period size: 47 Copynumber: 3.6 Consensus size: 47
29228188 TATTATGAAA
* *
29228198 GCCAGTGTAAGACTATGTCAGGGACATGGCATTGACATTGAGATGAGT
1 GCCAGTGTAAGAC-ATGTCTGGGACATGGCATCGACATTGAGATGAGT
* * **
29228246 GCCAGTGTAAGACATGTCTGGGACAT-GCATCAATCA-T-ATTATGAAA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGA-CATTGA-GATGAGT
* * * *
29228292 GCAAGTGTAACACCATGTCTGGGACATAGCATCGACATTGAGACGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGACATTGAGATGAGT
29228340 GCCAGTGTAAGACATGTCTGGGACATG
1 GCCAGTGTAAGACATGTCTGGGACATG
29228367 CAACGGCACG
Statistics
Matches: 99, Mismatches: 16, Indels: 13
0.77 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 20 0.20
47 44 0.44
48 33 0.33
49 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGACATTGAGATGAGT
Found at i:29228316 original size:94 final size:94
Alignment explanation
Indices: 29228152--29228368 Score: 326
Period size: 94 Copynumber: 2.3 Consensus size: 94
29228142 TATTATGTGA
* * * * * * *
29228152 GCCAGTGTAAGACAGGTTTGGGACATGCATCAGCCTTATTATGAAAGCCAGTGTAAGACTATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAACCATATTATGAAAGCAAGTGTAACACCATGTC
* * *
29228217 AGGGACATGGCATTGACATTGAGATGAGT
66 AGGGACATAGCATCGACATTGAGACGAGT
*
29228246 GCCAGTGTAAGACATGTCTGGGACATGCATCAATCATATTATGAAAGCAAGTGTAACACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAACCATATTATGAAAGCAAGTGTAACACCATGTC
*
29228311 TGGGACATAGCATCGACATTGAGACGAGT
66 AGGGACATAGCATCGACATTGAGACGAGT
29228340 GCCAGTGTAAGACATGTCTGGGACATGCA
1 GCCAGTGTAAGACATGTCTGGGACATGCA
29228369 ACGGCACGGA
Statistics
Matches: 111, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
94 111 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (94 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAACCATATTATGAAAGCAAGTGTAACACCATGTC
AGGGACATAGCATCGACATTGAGACGAGT
Found at i:29233841 original size:28 final size:28
Alignment explanation
Indices: 29233776--29233874 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
29233766 CATGAGATTG
* * *
29233776 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
29233805 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
29233833 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
29233861 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
29233875 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:29241860 original size:28 final size:28
Alignment explanation
Indices: 29241795--29241893 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
29241785 CATGAGATTG
* * *
29241795 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
29241824 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
29241852 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
29241880 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
29241894 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:29246071 original size:21 final size:21
Alignment explanation
Indices: 29246047--29246090 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
29246037 GAATCTTTAG
*
29246047 TATTTATTGTATCATTT-TATT
1 TATTTAAT-TATCATTTCTATT
*
29246068 TATTTAATTATCCTTTCTATT
1 TATTTAATTATCATTTCTATT
29246089 TA
1 TA
29246091 ATTAGGTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTAATTATCATTTCTATT
Found at i:29257035 original size:39 final size:39
Alignment explanation
Indices: 29256981--29257056 Score: 104
Period size: 39 Copynumber: 1.9 Consensus size: 39
29256971 TACTGTAGGA
29256981 AATTTCAGTCTGGGCC-TAGGCCCATT-TCAGTAACAGTTT
1 AATTTCAGTCTGGGCCTTA-GCCCATTAT-AGTAACAGTTT
29257020 AATTTCAGT-TAGGGCCTTAGCCCATTATAGTAACAGT
1 AATTTCAGTCT-GGGCCTTAGCCCATTATAGTAACAGT
29257057 ATTAGTGTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
38 1 0.03
39 30 0.88
40 3 0.09
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (39 bp):
AATTTCAGTCTGGGCCTTAGCCCATTATAGTAACAGTTT
Found at i:29259060 original size:46 final size:46
Alignment explanation
Indices: 29259004--29259175 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
29258994 TGGGCATCCA
*
29259004 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCCG
* * *
29259050 AACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGGCATCCG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATG-GATGTAA--ATG--TCCG
* * *
29259097 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG-CCTG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCC-G
* *
29259143 AGCTCATTGAGTTGAGTCTGAGTTCACTTATGG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATGG
29259176 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
42 1 0.01
43 7 0.07
44 1 0.01
45 4 0.04
46 55 0.52
47 27 0.25
48 2 0.02
49 1 0.01
50 7 0.07
51 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (46 bp):
AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCCG
Found at i:29259155 original size:93 final size:93
Alignment explanation
Indices: 29258996--29259167 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
29258986 AGGATATTTG
*
29258996 GGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCATTGAG
29259061 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * ** *
29259089 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG-CCTGAGCTCATTGA
1 GGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC-GAACTCATTGA
*
29259153 GTTGAGTCTGAGTTC
65 GTTGAGTCCGAGTTC
29259168 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:29261613 original size:12 final size:13
Alignment explanation
Indices: 29261598--29261631 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
29261588 CCTTGATCAA
29261598 CTCCTC-AAATCT
1 CTCCTCTAAATCT
29261610 CTCC-CTAAATCT
1 CTCCTCTAAATCT
29261622 CTCCTCTAAA
1 CTCCTCTAAA
29261632 CTTTACATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 1 0.05
12 14 0.70
13 5 0.25
ACGTcount: A:0.26, C:0.41, G:0.00, T:0.32
Consensus pattern (13 bp):
CTCCTCTAAATCT
Found at i:29263392 original size:33 final size:33
Alignment explanation
Indices: 29263332--29263397 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
29263322 GCATGTAGTA
*
29263332 ACAGTCTGGGCCTGAGCCCTACTCAGTATCAGT
1 ACAGTCTGGGCCTGAGCCCTACTCAGTAACAGT
* * *
29263365 ACAGTTTGGGCCTTAGCCTTA-TACAGTAACAGT
1 ACAGTCTGGGCCTGAGCCCTACT-CAGTAACAGT
29263398 GTGGGCCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (33 bp):
ACAGTCTGGGCCTGAGCCCTACTCAGTAACAGT
Found at i:29266468 original size:25 final size:25
Alignment explanation
Indices: 29266439--29266486 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
29266429 TTATAATATG
* * *
29266439 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
29266464 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
29266487 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:29266555 original size:20 final size:20
Alignment explanation
Indices: 29266530--29266588 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
29266520 TAAATATGGT
29266530 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
29266550 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
29266570 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
29266589 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:29266570 original size:11 final size:11
Alignment explanation
Indices: 29266534--29266588 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
29266524 TATGGTATGT
29266534 ATGATATGCAC
1 ATGATATGCAC
* *
29266545 ATGAAATG--T
1 ATGATATGCAC
29266554 ATGATATGCAC
1 ATGATATGCAC
*
29266565 ATGATATG--T
1 ATGATATGCAC
29266574 ATGATATGCAC
1 ATGATATGCAC
29266585 ATGA
1 ATGA
29266589 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:29266669 original size:23 final size:23
Alignment explanation
Indices: 29266639--29266802 Score: 226
Period size: 23 Copynumber: 7.0 Consensus size: 23
29266629 GAGGAAGTGA
29266639 AAAAGGGCTTATG-CCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
29266661 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
29266685 CAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
29266708 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
29266731 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
* *
29266754 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
29266778 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
29266802 A
1 A
29266803 TGATAAAGCA
Statistics
Matches: 130, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
22 21 0.16
23 58 0.45
24 41 0.32
25 10 0.08
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:29267028 original size:31 final size:31
Alignment explanation
Indices: 29266993--29267056 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
29266983 CGTTTACAGT
29266993 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
29267024 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
29267055 AA
1 AA
29267057 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:29273221 original size:25 final size:25
Alignment explanation
Indices: 29273192--29273239 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
29273182 TTATAATATG
* * *
29273192 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
29273217 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
29273240 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:29273308 original size:20 final size:20
Alignment explanation
Indices: 29273283--29273341 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
29273273 TAAATATGGT
29273283 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
29273303 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
29273323 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
29273342 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:29273323 original size:11 final size:11
Alignment explanation
Indices: 29273287--29273341 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
29273277 TATGGTATGT
29273287 ATGATATGCAC
1 ATGATATGCAC
* *
29273298 ATGAAATG--T
1 ATGATATGCAC
29273307 ATGATATGCAC
1 ATGATATGCAC
*
29273318 ATGATATG--T
1 ATGATATGCAC
29273327 ATGATATGCAC
1 ATGATATGCAC
29273338 ATGA
1 ATGA
29273342 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:29273472 original size:23 final size:23
Alignment explanation
Indices: 29273392--29273558 Score: 219
Period size: 24 Copynumber: 7.0 Consensus size: 23
29273382 GAGGAAGTGA
29273392 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
29273415 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
29273439 CATAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
29273463 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
29273486 AAAAGGGTTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
* * *
29273510 GAAAGGGTTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
29273534 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
29273558 A
1 A
29273559 TGATAAAGCA
Statistics
Matches: 131, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
23 43 0.33
24 79 0.60
25 9 0.07
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:29273483 original size:47 final size:46
Alignment explanation
Indices: 29273392--29273558 Score: 219
Period size: 47 Copynumber: 3.5 Consensus size: 46
29273382 GAGGAAGTGA
29273392 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTAT
*
29273439 CATAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
* * * *
29273486 AAAAGGGTTTATGCCCCAGTTATTGAAAGGGTTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAGGGCTTATGCCCCAGTTA-T
*
29273534 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
29273559 TGATAAAGCA
Statistics
Matches: 106, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
46 20 0.19
47 43 0.41
48 34 0.32
49 9 0.08
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
Found at i:29273784 original size:31 final size:31
Alignment explanation
Indices: 29273749--29273812 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
29273739 CGTTTACAGT
29273749 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
29273780 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
29273811 AA
1 AA
29273813 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:29279450 original size:23 final size:21
Alignment explanation
Indices: 29279399--29279450 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 21
29279389 TTTTAGCTCG
*
29279399 TCAA-AGCTTACTGTTTCAGC
1 TCAAGAGCTTACTGTATCAGC
29279419 TCAATAGAGCTTACTGTCCATCAGC
1 TC-A-AGAGCTTACTGT--ATCAGC
29279444 TCAAGAG
1 TCAAGAG
29279451 AAGCTTGCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 2 0.08
21 1 0.04
22 1 0.04
23 14 0.54
24 1 0.04
25 7 0.27
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (21 bp):
TCAAGAGCTTACTGTATCAGC
Found at i:29281090 original size:18 final size:18
Alignment explanation
Indices: 29281029--29281094 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 18
29281019 CTTGGCCCAT
*
29281029 TGCAGTAACAGTAAACAG
1 TGCAGTAACAGTAATCAG
* * *
29281047 AGCAGTAACATTAATCCG
1 TGCAGTAACAGTAATCAG
* * *
29281065 TACGGTAATAGTAATCAG
1 TGCAGTAACAGTAATCAG
29281083 TGCAGTAACAGT
1 TGCAGTAACAGT
29281095 TTAAACAGTA
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (18 bp):
TGCAGTAACAGTAATCAG
Found at i:29281517 original size:27 final size:27
Alignment explanation
Indices: 29281451--29281548 Score: 110
Period size: 27 Copynumber: 3.6 Consensus size: 27
29281441 CCTCACATAG
* * *
29281451 GGGCAAAATAGTCAATTTACCATGTAG
1 GGGCAAAATAGTCATTTTACCATATAA
**
29281478 GGGC-ATTTCAGTCATTTTACCATATAA
1 GGGCAAAAT-AGTCATTTTACCATATAA
29281505 GGGCAAAATAGTCATTTTACC-TCATAA
1 GGGCAAAATAGTCATTTTACCAT-ATAA
*
29281532 GCGCAAAATAGTCATTT
1 GGGCAAAATAGTCATTT
29281549 CATCAAATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
26 3 0.05
27 55 0.92
28 2 0.03
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (27 bp):
GGGCAAAATAGTCATTTTACCATATAA
Found at i:29284412 original size:43 final size:43
Alignment explanation
Indices: 29284364--29284521 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
29284354 AGCTCGTACA
* * * * *
29284364 ATGCCAACGTCCCAGACGTGGTCTTATATTTAATCAAATATCG
1 ATGCCGACGTCCCAGACATGGTCTTACACTAAATCAAATATCG
* * ** * *
29284407 ATGCC-ACTATCCCTGACAAAGTCTTACACAAAATCAAATA-CC
1 ATGCCGAC-GTCCCAGACATGGTCTTACACTAAATCAAATATCG
*
29284449 ATGCCGACGTCCCAGACATGGTCTTACACGTAAATCATAA-GTCG
1 ATGCCGACGTCCCAGACATGGTCTTACAC-TAAATCA-AATATCG
*
29284493 ATGCCGACGTCCCAGACGTGGTCTTACAC
1 ATGCCGACGTCCCAGACATGGTCTTACAC
29284522 GAGAACACAT
Statistics
Matches: 92, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 25 0.27
43 36 0.39
44 31 0.34
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCGACGTCCCAGACATGGTCTTACACTAAATCAAATATCG
Found at i:29286878 original size:56 final size:56
Alignment explanation
Indices: 29286772--29287081 Score: 442
Period size: 56 Copynumber: 5.5 Consensus size: 56
29286762 TACATGTAAT
* *
29286772 CACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT-AATCTTACTCGCA
1 CACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGA-CTTACTCGCA
* * * * *
29286828 CTCATATATCAGAGTCACATATCGATGCCAATGTATGAAATGTGGACTTACTCGCA
1 CACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCGCA
* *
29286884 CACATATATCAGAATCACATATCGGTGCCAACGTGTTAAACGTGGACTTACTCGCA
1 CACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCGCA
* * * *
29286940 CACATATATCATAGTCACATATCGATGCCAACATATGAAACGTGGACTTACTCGCA
1 CACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCGCA
* * *
29286996 CACATATATCGGAATCACATATCGATGGCAACGTATTAAACGTGGACTTACTTGCA
1 CACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCGCA
* *
29287052 CAAATATATCGGAATCACATATCGATGCCA
1 CACATATATCAGAATCACATATCGATGCCA
29287082 CATATACTTC
Statistics
Matches: 224, Mismatches: 29, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
56 223 1.00
57 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.26
Consensus pattern (56 bp):
CACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCGCA
Found at i:29291408 original size:24 final size:24
Alignment explanation
Indices: 29291381--29291492 Score: 172
Period size: 24 Copynumber: 4.7 Consensus size: 24
29291371 CGGATTTGAG
*
29291381 TGGCACTATGTGTGCATAATTGTA
1 TGGCACTATGTGTGCGTAATTGTA
*
29291405 TGGCACTATGTGTGCGTATTTGTA
1 TGGCACTATGTGTGCGTAATTGTA
29291429 TGGCACTATGTGTGCGT-ATATGTA
1 TGGCACTATGTGTGCGTAAT-TGTA
* *
29291453 TGGCACTATGTGTGCGTAATTATT
1 TGGCACTATGTGTGCGTAATTGTA
29291477 TGGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
29291493 GAGTTAAATC
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
23 1 0.01
24 78 0.96
25 2 0.02
ACGTcount: A:0.20, C:0.13, G:0.29, T:0.38
Consensus pattern (24 bp):
TGGCACTATGTGTGCGTAATTGTA
Found at i:29301608 original size:71 final size:71
Alignment explanation
Indices: 29301485--29301630 Score: 265
Period size: 71 Copynumber: 2.1 Consensus size: 71
29301475 GTGTTATTTT
* * *
29301485 TCTATGCTTTATAGTAAATCAAGCTAGCTCGGATCCGGGAGTTGTTGGGAACATCATCGCACTAT
1 TCTATGCTTTATAGTAAATCAAGCTAGCTCAGATCCGGGAGTTGTCGAGAACATCATCGCACTAT
29301550 CAAACA
66 CAAACA
29301556 TCTATGCTTTATAGTAAATCAAGCTAGCTCAGATCCGGGAGTTGTCGAGAACATCATCGCACTAT
1 TCTATGCTTTATAGTAAATCAAGCTAGCTCAGATCCGGGAGTTGTCGAGAACATCATCGCACTAT
29301621 CAAACA
66 CAAACA
29301627 TCTA
1 TCTA
29301631 GGTTGGTACT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (71 bp):
TCTATGCTTTATAGTAAATCAAGCTAGCTCAGATCCGGGAGTTGTCGAGAACATCATCGCACTAT
CAAACA
Found at i:29305764 original size:38 final size:37
Alignment explanation
Indices: 29305721--29305962 Score: 236
Period size: 38 Copynumber: 6.4 Consensus size: 37
29305711 GCAGGCTATA
**
29305721 TGCTGGAATTATATTCGGGTTAAATCCCGTAGGCTTCG
1 TGCTGGAA-TATATTCGGGTTAAATCCCACAGGCTTCG
*
29305759 TGCTGGTAATATA-TCTGGGTTAAATCCCGCAGGCTTCG
1 TGCTGG-AATATATTC-GGGTTAAATCCCACAGGCTTCG
*
29305797 TGCTGGTAATATA-TCTGGGTTAAATCCCGCAGGCTTCG
1 TGCTGG-AATATATTC-GGGTTAAATCCCACAGGCTTCG
* * * * *
29305835 TGCTGTAATAAATCCAGGTTAAATCCCACAGGCTTTG
1 TGCTGGAATATATTCGGGTTAAATCCCACAGGCTTCG
* * * *
29305872 TGCTAGTAATATATCCGGGTTAAATCCCACGGGCTTTG
1 TGCT-GGAATATATTCGGGTTAAATCCCACAGGCTTCG
* * * *
29305910 TGCTAGTAATATATCCGGGTTAAATCCCACAGGCCTAG
1 TGCT-GGAATATATTCGGGTTAAATCCCACAGGCTTCG
*
29305948 TGCTGGTATTATATT
1 TGCTGG-AATATATT
29305963 TGGGCCTTCG
Statistics
Matches: 183, Mismatches: 16, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
37 31 0.17
38 150 0.82
39 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (37 bp):
TGCTGGAATATATTCGGGTTAAATCCCACAGGCTTCG
Found at i:29305802 original size:76 final size:73
Alignment explanation
Indices: 29305712--29305962 Score: 279
Period size: 76 Copynumber: 3.3 Consensus size: 73
29305702 TAAAGACCCG
* * *
29305712 CAGGCTATATGCTGGAATTATATTCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAATATATCTGG
1 CAGGCT-TGTGCTGGAA-TATATTCGGGTTAAATCCCGCAGGCTTCGTGCT-GTAATATATCCGG
*
29305777 GTTAAATCCCG
63 GTTAAATCCCA
* *
29305788 CAGGCTTCGTGCTGGTAATATA-TCTGGGTTAAATCCCGCAGGCTTCGTGCTGTAATAAATCCAG
1 CAGGCTT-GTGCTGG-AATATATTC-GGGTTAAATCCCGCAGGCTTCGTGCTGTAATATATCCGG
29305852 GTTAAATCCCA
63 GTTAAATCCCA
* * * * *
29305863 CAGGCTTTGTGCTAGTAATATATCCGGGTTAAATCCCACGGGCTTTGTGCTAGTAATATATCCGG
1 CAGGC-TTGTGCT-GGAATATATTCGGGTTAAATCCCGCAGGCTTCGTGCT-GTAATATATCCGG
29305928 GTTAAATCCCA
63 GTTAAATCCCA
* *
29305939 CAGGCCTAGTGCTGGTATTATATT
1 CAGG-CTTGTGCTGG-AATATATT
29305963 TGGGCCTTCG
Statistics
Matches: 149, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
75 63 0.42
76 83 0.56
77 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (73 bp):
CAGGCTTGTGCTGGAATATATTCGGGTTAAATCCCGCAGGCTTCGTGCTGTAATATATCCGGGTT
AAATCCCA
Found at i:29305868 original size:113 final size:113
Alignment explanation
Indices: 29305738--29305952 Score: 313
Period size: 113 Copynumber: 1.9 Consensus size: 113
29305728 ATTATATTCG
** * * * *
29305738 GGTTAAATCCCGTAGGCTTCGTGCTGGTAATATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 GGTTAAATCCCACAGGCTTCGTGCTAGTAATATATCCGGGTTAAATCCCACAGGCTTCGTGCTAG
* * * *
29305803 TAATATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGTAATAAATCCA
66 TAATATATCCGGGTTAAATCCCACAGGCCTAGTGCTGTAATAAATCCA
* * *
29305851 GGTTAAATCCCACAGGCTTTGTGCTAGTAATATATCCGGGTTAAATCCCACGGGCTTTGTGCTAG
1 GGTTAAATCCCACAGGCTTCGTGCTAGTAATATATCCGGGTTAAATCCCACAGGCTTCGTGCTAG
29305916 TAATATATCCGGGTTAAATCCCACAGGCCTAGTGCTG
66 TAATATATCCGGGTTAAATCCCACAGGCCTAGTGCTG
29305953 GTATTATATT
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
113 89 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (113 bp):
GGTTAAATCCCACAGGCTTCGTGCTAGTAATATATCCGGGTTAAATCCCACAGGCTTCGTGCTAG
TAATATATCCGGGTTAAATCCCACAGGCCTAGTGCTGTAATAAATCCA
Found at i:29306012 original size:43 final size:43
Alignment explanation
Indices: 29305959--29306113 Score: 265
Period size: 43 Copynumber: 3.6 Consensus size: 43
29305949 GCTGGTATTA
*
29305959 TATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
29306002 TATTCGGGCCTTCTTGCCTAGCAGGCTTCGTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
29306045 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
29306088 TATTCGGGCCTTCGTGCTTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
29306114 GTAATGCCGG
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 105 1.00
ACGTcount: A:0.11, C:0.25, G:0.32, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:29331537 original size:27 final size:27
Alignment explanation
Indices: 29331507--29331674 Score: 212
Period size: 27 Copynumber: 6.3 Consensus size: 27
29331497 CCTAGACCTT
* *
29331507 TTATGTGGTAAAATGACTATTTTTCCC
1 TTATGTGGTAAAATGACTGTTTTGCCC
* *
29331534 TTATGTGGTACAATGACTATTTTGCCC
1 TTATGTGGTAAAATGACTGTTTTGCCC
*
29331561 TTATGTGGTAAAATGATTGTTTTGCCC
1 TTATGTGGTAAAATGACTGTTTTGCCC
*
29331588 TTATGTGGTCAAATGACTGTTTTGCCC
1 TTATGTGGTAAAATGACTGTTTTGCCC
** * *
29331615 TTATGACGTGAAATGACTGCTTTGCCC
1 TTATGTGGTAAAATGACTGTTTTGCCC
* * *
29331642 TTATATGGTAAGATGACTGTTTTTCCC
1 TTATGTGGTAAAATGACTGTTTTGCCC
29331669 -TATGTG
1 TTATGTG
29331675 ATGTATATAT
Statistics
Matches: 122, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 5 0.04
27 117 0.96
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (27 bp):
TTATGTGGTAAAATGACTGTTTTGCCC
Found at i:29334433 original size:11 final size:11
Alignment explanation
Indices: 29334417--29334442 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
29334407 ATATTATCCC
29334417 ATGTCTATGGA
1 ATGTCTATGGA
29334428 ATGTCTATGGA
1 ATGTCTATGGA
29334439 ATGT
1 ATGT
29334443 TAGTAGGGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.38
Consensus pattern (11 bp):
ATGTCTATGGA
Found at i:29336501 original size:42 final size:41
Alignment explanation
Indices: 29336450--29336571 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 41
29336440 GGACTATTTT
* * * *
29336450 GAGAATTACATAGCCTGGAACACAGCTGTGTGACCCTACTCA
1 GAGAGTTACATGGGCTGGGACACAG-TGTGTGACCCTACTCA
* * *
29336492 GAGAGTTACACGGGCTGGGACACTGTCGCT-TGACCCTACTTA
1 GAGAGTTACATGGGCTGGGACACAGT-G-TGTGACCCTACTCA
* *
29336534 GAGAGTTACATGGGCTGGGACATAGTTGTGTGTCCCTA
1 GAGAGTTACATGGGCTGGGACACAG-TGTGTGACCCTA
29336572 GTTTGAAGGT
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
41 2 0.03
42 61 0.94
43 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
GAGAGTTACATGGGCTGGGACACAGTGTGTGACCCTACTCA
Found at i:29344465 original size:39 final size:39
Alignment explanation
Indices: 29344369--29344449 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
29344359 TGTGAATATA
*
29344369 TATATGCGAGAATTATATCAGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCAGGACTTCAGGTCCGCAGGC
* *
29344408 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCAGGACTTCAGGTCCGCAGGC
29344447 TAT
1 TAT
29344450 GTGCTGGACA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (39 bp):
TATATGCGAGAATTATATCAGGACTTCAGGTCCGCAGGC
Found at i:29347885 original size:42 final size:42
Alignment explanation
Indices: 29347783--29347885 Score: 161
Period size: 42 Copynumber: 2.4 Consensus size: 42
29347773 CTATAGATGG
*
29347783 CGCCGCTAAAAGTCATGGCCTTTAGCGGCGCTTTTACCACAAA
1 CGCCGCTAAAAGTCAT-GACTTTAGCGGCGCTTTTACCACAAA
* * *
29347826 CGCCGCTAAAGGCCATGACTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGTCATGACTTTAGCGGCGCTTTTACCACAAA
29347868 CGCCGCTAAAAGTCATGA
1 CGCCGCTAAAAGTCATGA
29347886 AATTTAAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
42 40 0.74
43 14 0.26
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.21
Consensus pattern (42 bp):
CGCCGCTAAAAGTCATGACTTTAGCGGCGCTTTTACCACAAA
Found at i:29352498 original size:7 final size:7
Alignment explanation
Indices: 29352486--29352614 Score: 68
Period size: 7 Copynumber: 18.1 Consensus size: 7
29352476 ACTAATTAAT
29352486 CTAAACC
1 CTAAACC
29352493 CTAAACC
1 CTAAACC
*
29352500 TCTTAACCC
1 -C-TAAACC
*
29352509 CT-ATCC
1 CTAAACC
*
29352515 CATAAACA
1 C-TAAACC
*
29352523 CTAAACT
1 CTAAACC
29352530 CTAAACC
1 CTAAACC
*
29352537 CTTAACC
1 CTAAACC
*
29352544 CTTAACC
1 CTAAACC
*
29352551 CCAAACC
1 CTAAACC
*
29352558 CTTACACC
1 C-TAAACC
*
29352566 TTAAACTC
1 CTAAAC-C
29352574 C--AACC
1 CTAAACC
29352579 CT-AACC
1 CTAAACC
29352585 CTTAAACC
1 C-TAAACC
*
29352593 CTAAATC
1 CTAAACC
* *
29352600 ATAATCC
1 CTAAACC
29352607 CTAAACC
1 CTAAACC
29352614 C
1 C
29352615 ATAATTCATC
Statistics
Matches: 93, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
5 2 0.02
6 12 0.13
7 59 0.63
8 15 0.16
9 5 0.05
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:29352669 original size:14 final size:14
Alignment explanation
Indices: 29352652--29352749 Score: 61
Period size: 14 Copynumber: 6.7 Consensus size: 14
29352642 AGTTAACTCC
*
29352652 TAAACCTTAAACCT
1 TAAACCATAAACCT
* *
29352666 TAAACCATATATCT
1 TAAACCATAAACCT
* *
29352680 TAAACTATAGTTAACTCA
1 TAAACCATA---AAC-CT
* *
29352698 TAAACCTTAAACCC
1 TAAACCATAAACCT
* *
29352712 TAAACCATATATCT
1 TAAACCATAAACCT
*
29352726 TAAACCATAAACCA
1 TAAACCATAAACCT
*
29352740 TAAACTATAA
1 TAAACCATAA
29352750 TGATAATTAA
Statistics
Matches: 62, Mismatches: 18, Indels: 8
0.70 0.20 0.09
Matches are distributed among these distances:
14 50 0.81
15 3 0.05
17 1 0.02
18 8 0.13
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (14 bp):
TAAACCATAAACCT
Found at i:29352681 original size:21 final size:21
Alignment explanation
Indices: 29352657--29352741 Score: 82
Period size: 21 Copynumber: 3.9 Consensus size: 21
29352647 ACTCCTAAAC
29352657 CTTAAACCTTAAACCATATAT
1 CTTAAACCTTAAACCATATAT
* *
29352678 CTTAAA-CTATAGTTAACTCATAAAC
1 CTTAAACCT-TA---AAC-CATATAT
*
29352703 CTTAAACCCTAAACCATATAT
1 CTTAAACCTTAAACCATATAT
*
29352724 CTTAAACCATAAACCATA
1 CTTAAACCTTAAACCATA
29352742 AACTATAATG
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
20 2 0.04
21 30 0.58
22 3 0.06
24 3 0.06
25 13 0.25
26 1 0.02
ACGTcount: A:0.45, C:0.25, G:0.01, T:0.29
Consensus pattern (21 bp):
CTTAAACCTTAAACCATATAT
Found at i:29352694 original size:46 final size:46
Alignment explanation
Indices: 29352641--29352730 Score: 162
Period size: 46 Copynumber: 2.0 Consensus size: 46
29352631 CTTCAAATAC
* *
29352641 TAGTTAACTCCTAAACCTTAAACCTTAAACCATATATCTTAAACTA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
29352687 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
29352731 CATAAACCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.42, C:0.24, G:0.02, T:0.31
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
Found at i:29352749 original size:7 final size:7
Alignment explanation
Indices: 29352696--29352749 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
29352686 ATAGTTAACT
29352696 CATAAAC
1 CATAAAC
*
29352703 CTTAAAC
1 CATAAAC
*
29352710 CCTAAAC
1 CATAAAC
* *
29352717 CATATAT
1 CATAAAC
*
29352724 CTTAAAC
1 CATAAAC
29352731 CATAAAC
1 CATAAAC
29352738 CATAAAC
1 CATAAAC
*
29352745 TATAA
1 CATAA
29352750 TGATAATTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (7 bp):
CATAAAC
Found at i:29353030 original size:40 final size:40
Alignment explanation
Indices: 29352906--29353082 Score: 187
Period size: 40 Copynumber: 4.4 Consensus size: 40
29352896 GTTATATGAC
* * * *
29352906 TTTTAGCGGTGTTTTACCAAAAGCGTCGCTAATGCTCTGG
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGT
* *
29352946 TTTTAGCGGTGTTTTTCCAAAAGCACCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCT-GT
* *
29352987 TTTTAG-GGCGTTTTTCAAAAAGCGCCGCTAATGCTCTAT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGT
* * * * *
29353026 TTTTTGTGGCGTTTTTTACTAAAA-TGCCGCTATTGCTCTGT
1 TTTTAGCGGCG-TTTTT-CCAAAAGCGCCGCTAATGCTCTGT
*
29353067 TTTTAGTGGCGTTTTT
1 TTTTAGCGGCGTTTTT
29353083 GGTAAAACGC
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
39 6 0.05
40 72 0.61
41 36 0.30
42 5 0.04
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.41
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGT
Found at i:29353089 original size:40 final size:39
Alignment explanation
Indices: 29352932--29353112 Score: 175
Period size: 40 Copynumber: 4.5 Consensus size: 39
29352922 CCAAAAGCGT
* * * * *
29352932 CGCTAATGCTCTGGTTTTAGCGGTGTTTTTCCAAAAGCAC
1 CGCTAATGCTCTGTTTTTAGTGGCGTTTTTCTAAAA-CGC
*
29352972 CGCTAATGCTCTGGTTTTTAG-GGCGTTTTTCAAAAAGCGC
1 CGCTAATGCTCT-GTTTTTAGTGGCGTTTTTCTAAAA-CGC
* * *
29353012 CGCTAATGCTCTATTTTTTGTGGCGTTTTTTACTAAAATGC
1 CGCTAATGCTCTGTTTTTAGTGGCG-TTTTT-CTAAAACGC
* *
29353053 CGCTATTGCTCTGTTTTTAGTGGCGTTTTTGGTAAAACGC
1 CGCTAATGCTCTGTTTTTAGTGGCGTTTTT-CTAAAACGC
* *
29353093 CGCTATTGCTATGTGTTTTA
1 CGCTAATGCTCTGT-TTTTA
29353113 CAATTTTTGC
Statistics
Matches: 121, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
39 6 0.05
40 69 0.57
41 41 0.34
42 5 0.04
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.41
Consensus pattern (39 bp):
CGCTAATGCTCTGTTTTTAGTGGCGTTTTTCTAAAACGC
Found at i:29353150 original size:12 final size:12
Alignment explanation
Indices: 29353135--29353160 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29353125 CGTTTTTGAT
29353135 AAAACGCCGTTA
1 AAAACGCCGTTA
29353147 AAAACGCCGTTA
1 AAAACGCCGTTA
29353159 AA
1 AA
29353161 GCCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (12 bp):
AAAACGCCGTTA
Found at i:29355393 original size:80 final size:80
Alignment explanation
Indices: 29355309--29355457 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
29355299 TATGGTAACC
* * * *
29355309 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
29355373 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
29355389 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
29355454 CCGG
66 CCGG
29355458 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:29355399 original size:40 final size:38
Alignment explanation
Indices: 29355350--29355457 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
29355340 ATCACGATTT
*
29355350 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
29355390 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
29355430 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
29355458 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:29363510 original size:80 final size:80
Alignment explanation
Indices: 29363426--29363574 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
29363416 TATGGTAACC
* * * *
29363426 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
29363490 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
29363506 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
29363571 CCGG
66 CCGG
29363575 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:29363516 original size:40 final size:38
Alignment explanation
Indices: 29363467--29363574 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
29363457 ATCACGATTT
*
29363467 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
29363507 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
29363547 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
29363575 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:29367199 original size:39 final size:39
Alignment explanation
Indices: 29367103--29367183 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
29367093 TGTGAATATA
*
29367103 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
29367142 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
29367181 TAT
1 TAT
29367184 GTTCTGGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:29370650 original size:42 final size:42
Alignment explanation
Indices: 29370545--29370650 Score: 167
Period size: 42 Copynumber: 2.5 Consensus size: 42
29370535 TATTTGAAAA
*
29370545 AAACGCCGCTAAAAGTCATGGCCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAAGTCAT-GACTTTAGCGGCGCTTTTACCAC
* * *
29370588 AAACGCCGCTAAAGGCCATGACTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAAGTCATGACTTTAGCGGCGCTTTTACCAC
29370630 AAACGCCGCTAAAAGTCATGA
1 AAACGCCGCTAAAAGTCATGA
29370651 AATTTAAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 40 0.70
43 17 0.30
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (42 bp):
AAACGCCGCTAAAAGTCATGACTTTAGCGGCGCTTTTACCAC
Found at i:29375262 original size:7 final size:7
Alignment explanation
Indices: 29375250--29375378 Score: 68
Period size: 7 Copynumber: 18.1 Consensus size: 7
29375240 ACTAATTAAT
29375250 CTAAACC
1 CTAAACC
29375257 CTAAACC
1 CTAAACC
*
29375264 TCTTAACCC
1 -C-TAAACC
*
29375273 CT-ATCC
1 CTAAACC
*
29375279 CATAAACA
1 C-TAAACC
*
29375287 CTAAACT
1 CTAAACC
29375294 CTAAACC
1 CTAAACC
*
29375301 CTTAACC
1 CTAAACC
*
29375308 CTTAACC
1 CTAAACC
*
29375315 CCAAACC
1 CTAAACC
*
29375322 CTTACACC
1 C-TAAACC
*
29375330 TTAAACTC
1 CTAAAC-C
29375338 C--AACC
1 CTAAACC
29375343 CT-AACC
1 CTAAACC
29375349 CTTAAACC
1 C-TAAACC
*
29375357 CTAAATC
1 CTAAACC
* *
29375364 ATAATCC
1 CTAAACC
29375371 CTAAACC
1 CTAAACC
29375378 C
1 C
29375379 ATAATTCATC
Statistics
Matches: 93, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
5 2 0.02
6 12 0.13
7 59 0.63
8 15 0.16
9 5 0.05
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:29375433 original size:14 final size:14
Alignment explanation
Indices: 29375416--29375513 Score: 61
Period size: 14 Copynumber: 6.7 Consensus size: 14
29375406 AGTTAACTCC
*
29375416 TAAACCTTAAACCT
1 TAAACCATAAACCT
* *
29375430 TAAACCATATATCT
1 TAAACCATAAACCT
* *
29375444 TAAACTATAGTTAACTCA
1 TAAACCATA---AAC-CT
* *
29375462 TAAACCTTAAACCC
1 TAAACCATAAACCT
* *
29375476 TAAACCATATATCT
1 TAAACCATAAACCT
*
29375490 TAAACCATAAACCA
1 TAAACCATAAACCT
*
29375504 TAAACTATAA
1 TAAACCATAA
29375514 TGATAATTAA
Statistics
Matches: 62, Mismatches: 18, Indels: 8
0.70 0.20 0.09
Matches are distributed among these distances:
14 50 0.81
15 3 0.05
17 1 0.02
18 8 0.13
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (14 bp):
TAAACCATAAACCT
Found at i:29375445 original size:21 final size:21
Alignment explanation
Indices: 29375421--29375505 Score: 82
Period size: 21 Copynumber: 3.9 Consensus size: 21
29375411 ACTCCTAAAC
29375421 CTTAAACCTTAAACCATATAT
1 CTTAAACCTTAAACCATATAT
* *
29375442 CTTAAA-CTATAGTTAACTCATAAAC
1 CTTAAACCT-TA---AAC-CATATAT
*
29375467 CTTAAACCCTAAACCATATAT
1 CTTAAACCTTAAACCATATAT
*
29375488 CTTAAACCATAAACCATA
1 CTTAAACCTTAAACCATA
29375506 AACTATAATG
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
20 2 0.04
21 30 0.58
22 3 0.06
24 3 0.06
25 13 0.25
26 1 0.02
ACGTcount: A:0.45, C:0.25, G:0.01, T:0.29
Consensus pattern (21 bp):
CTTAAACCTTAAACCATATAT
Found at i:29375458 original size:46 final size:46
Alignment explanation
Indices: 29375405--29375494 Score: 162
Period size: 46 Copynumber: 2.0 Consensus size: 46
29375395 CTTCAAATAC
* *
29375405 TAGTTAACTCCTAAACCTTAAACCTTAAACCATATATCTTAAACTA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
29375451 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
29375495 CATAAACCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.42, C:0.24, G:0.02, T:0.31
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
Found at i:29375513 original size:7 final size:7
Alignment explanation
Indices: 29375460--29375513 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
29375450 ATAGTTAACT
29375460 CATAAAC
1 CATAAAC
*
29375467 CTTAAAC
1 CATAAAC
*
29375474 CCTAAAC
1 CATAAAC
* *
29375481 CATATAT
1 CATAAAC
*
29375488 CTTAAAC
1 CATAAAC
29375495 CATAAAC
1 CATAAAC
29375502 CATAAAC
1 CATAAAC
*
29375509 TATAA
1 CATAA
29375514 TGATAATTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (7 bp):
CATAAAC
Found at i:29375776 original size:40 final size:40
Alignment explanation
Indices: 29375670--29375847 Score: 198
Period size: 41 Copynumber: 4.4 Consensus size: 40
29375660 GTTATATGAC
* * *
29375670 TTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCT-GT
*
29375711 TTTTAGCGGTGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCT-GT
* *
29375752 TTTTAG-GGCGTTTTTCAAAAAGCGCCGCTAATGCTCTAT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGT
* * * * *
29375791 TTTTTGTGGCGTTTTTTACTAAAA-TGCCGCTATTGCTCTGT
1 TTTTAGCGGCG-TTTTT-CCAAAAGCGCCGCTAATGCTCTGT
*
29375832 TTTTAGTGGCGTTTTT
1 TTTTAGCGGCGTTTTT
29375848 GGTAAAACGC
Statistics
Matches: 123, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 6 0.05
40 38 0.31
41 74 0.60
42 5 0.04
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.40
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGT
Found at i:29375877 original size:41 final size:40
Alignment explanation
Indices: 29375670--29375877 Score: 197
Period size: 41 Copynumber: 5.1 Consensus size: 40
29375660 GTTATATGAC
* * * * *
29375670 TTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGTGGCGTTTTTCTAAAAGCGCCGCTAATGCTCT-GT
* * *
29375711 TTTTAGCGGTGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGTGGCGTTTTTCTAAAAGCGCCGCTAATGCTCT-GT
* *
29375752 TTTTAG-GGCGTTTTTCAAAAAGCGCCGCTAATGCTCTAT
1 TTTTAGTGGCGTTTTTCTAAAAGCGCCGCTAATGCTCTGT
* * *
29375791 TTTTTGTGGCGTTTTTTACTAAAA-TGCCGCTATTGCTCTGT
1 TTTTAGTGGCG-TTTTT-CTAAAAGCGCCGCTAATGCTCTGT
* * *
29375832 TTTTAGTGGCGTTTTTGGTAAAA-CGCCGCTATTGCTATGT
1 TTTTAGTGGCGTTTTT-CTAAAAGCGCCGCTAATGCTCTGT
29375872 GTTTTA
1 -TTTTA
29375878 CAATTTTTGC
Statistics
Matches: 148, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
39 6 0.04
40 58 0.39
41 79 0.53
42 5 0.03
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40
Consensus pattern (40 bp):
TTTTAGTGGCGTTTTTCTAAAAGCGCCGCTAATGCTCTGT
Found at i:29378497 original size:33 final size:33
Alignment explanation
Indices: 29378455--29378521 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
29378445 ATATATGCGA
* *
29378455 GAATTATATCCGGACTTCATGTCCGCAGGCTAT
1 GAATTATATCCAGACTTCAGGTCCGCAGGCTAT
*
29378488 GAATTATATCCAGACTTTAGGTCCGCAGGCTAT
1 GAATTATATCCAGACTTCAGGTCCGCAGGCTAT
29378521 G
1 G
29378522 TGCTGGACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (33 bp):
GAATTATATCCAGACTTCAGGTCCGCAGGCTAT
Found at i:29387171 original size:24 final size:24
Alignment explanation
Indices: 29387139--29387307 Score: 320
Period size: 24 Copynumber: 7.0 Consensus size: 24
29387129 GGGTAGAAAG
29387139 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
*
29387163 TTTATTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
29387187 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
29387211 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
29387235 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
29387259 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
*
29387283 TTTACTATGGCACTATGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
29387307 T
1 T
29387308 CATAATAAGC
Statistics
Matches: 142, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 142 1.00
ACGTcount: A:0.17, C:0.16, G:0.28, T:0.38
Consensus pattern (24 bp):
TTTACTATGGCACTGTGTGTGCGA
Found at i:29390849 original size:40 final size:40
Alignment explanation
Indices: 29390783--29390949 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
29390773 AAATTGAATG
* * *
29390783 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
29390822 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
29390862 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
29390902 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
29390942 ATATCCGG
1 ATATCCGG
29390950 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:29398646 original size:24 final size:24
Alignment explanation
Indices: 29398614--29398758 Score: 272
Period size: 24 Copynumber: 6.0 Consensus size: 24
29398604 GGGTAGAAAG
29398614 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
*
29398638 TTTATTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
29398662 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
29398686 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
29398710 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
*
29398734 TTTACTATGGCACTATGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
29398758 T
1 T
29398759 CATAATAAGC
Statistics
Matches: 118, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 118 1.00
ACGTcount: A:0.17, C:0.16, G:0.28, T:0.39
Consensus pattern (24 bp):
TTTACTATGGCACTGTGTGTGCGA
Found at i:29398771 original size:72 final size:72
Alignment explanation
Indices: 29398623--29398779 Score: 244
Period size: 72 Copynumber: 2.2 Consensus size: 72
29398613 GTTTACTATG
* * *
29398623 GCACTGTGTGTGCGATTTATTATGGCACTGTGTGTGCGATTTACTATGGCACTGTGTGTGCGATT
1 GCACTGTGTGTGCGATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATA
* *
29398688 TACTATG
66 TAATATA
29398695 GCACTGTGTGTGCGATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATC
1 GCACTGTGTGTGCGATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGAT-
29398760 ATAATA-A
65 ATAATATA
*
29398767 GCACTATGTGTGC
1 GCACTGTGTGTGC
29398780 CACATTCGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
72 74 0.95
73 4 0.05
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.36
Consensus pattern (72 bp):
GCACTGTGTGTGCGATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATA
TAATATA
Found at i:29402342 original size:40 final size:40
Alignment explanation
Indices: 29402285--29402448 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
29402275 TGAATGATAC
* * * *
29402285 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
29402325 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
29402365 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTCACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
29402405 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
29402445 CCGG
1 CCGG
29402449 TTAAATCCCG
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 96 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:29406286 original size:40 final size:39
Alignment explanation
Indices: 29406231--29406347 Score: 132
Period size: 38 Copynumber: 3.0 Consensus size: 39
29406221 TCTAGTTACT
* * * *
29406231 AGCACAAAGCCTGCGGGACTTTAGGCCCGGATACAT-TTCC
1 AGCACATAGCCTGCGGGACCTCAAGCCCGGAT--ATGTTCC
*
29406271 AGCACATAGCCTGC-GGACCTCAAGTCCGGATATGTTCC
1 AGCACATAGCCTGCGGGACCTCAAGCCCGGATATGTTCC
* *
29406309 AGCACGTAGCCTGC-GGACCTCAAGTCCGGATATGTTCC
1 AGCACATAGCCTGCGGGACCTCAAGCCCGGATATGTTCC
29406347 A
1 A
29406348 AATACCATGC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
37 2 0.03
38 42 0.60
39 13 0.19
40 13 0.19
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.21
Consensus pattern (39 bp):
AGCACATAGCCTGCGGGACCTCAAGCCCGGATATGTTCC
Found at i:29406319 original size:38 final size:38
Alignment explanation
Indices: 29406267--29406347 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
29406257 CCGGATACAT
29406267 TTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATG
1 TTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATG
*
29406305 TTCCAGCACGTAGCCTGCGGACCTCAAGTCCGGATATG
1 TTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATG
29406343 TTCCA
1 TTCCA
29406348 AATACCATGC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.22
Consensus pattern (38 bp):
TTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATG
Found at i:29412399 original size:15 final size:15
Alignment explanation
Indices: 29412379--29412407 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
29412369 CATAAGAATA
29412379 AGTAAAACCAGGATT
1 AGTAAAACCAGGATT
29412394 AGTAAAACCAGGAT
1 AGTAAAACCAGGAT
29412408 CAATCAATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.17
Consensus pattern (15 bp):
AGTAAAACCAGGATT
Found at i:29416399 original size:27 final size:28
Alignment explanation
Indices: 29416343--29416412 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
29416333 AAATTTGTAC
29416343 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
29416371 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
29416398 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
29416413 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:29416423 original size:27 final size:27
Alignment explanation
Indices: 29416343--29416424 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
29416333 AAATTTGTAC
* *
29416343 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
29416371 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
29416398 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
29416425 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:29424219 original size:27 final size:28
Alignment explanation
Indices: 29424163--29424232 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
29424153 AAATTTGTAC
29424163 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
29424191 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
29424218 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
29424233 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:29424243 original size:27 final size:27
Alignment explanation
Indices: 29424163--29424244 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
29424153 AAATTTGTAC
* *
29424163 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
29424191 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
29424218 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
29424245 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:29425742 original size:40 final size:40
Alignment explanation
Indices: 29425683--29425899 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
29425673 CGGATGATAA
* * *
29425683 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
29425723 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
29425763 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
29425803 CCGGGCTAAGTCCCGAAAGCATTTGTGCGATTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
29425843 CCGGGCTAAGT-CCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
29425882 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
29425900 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
38 9 0.06
39 30 0.19
40 121 0.75
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:29428073 original size:40 final size:40
Alignment explanation
Indices: 29428018--29428235 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
29428008 CGGATGATAA
* *
29428018 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
29428058 CCGGGCTAAGCCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
29428098 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
29428138 CCGGGCAAAGTCCCGAAGGCATTTATGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
29428178 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
29428218 CC-GGCTAAATCCTGAAGG
1 CCGGGCTAAGTCCCGAAGG
29428236 TACTTGGTTT
Statistics
Matches: 158, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 16 0.10
40 141 0.89
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:29428717 original size:15 final size:15
Alignment explanation
Indices: 29428697--29428731 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
29428687 GTTGTTGGTC
29428697 ATGTACCTTTCGGTA
1 ATGTACCTTTCGGTA
29428712 ATGTACCTTTCGGTA
1 ATGTACCTTTCGGTA
29428727 ATGTA
1 ATGTA
29428732 TATATTTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (15 bp):
ATGTACCTTTCGGTA
Found at i:29443094 original size:27 final size:27
Alignment explanation
Indices: 29443064--29443118 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
29443054 ATAATTATAG
*
29443064 TTAAGTACGTCTATTTTCTTATAAACT
1 TTAAGTACGTCTATTTGCTTATAAACT
*
29443091 TTAAGTATGTCTATTTGCTTATAAACT
1 TTAAGTACGTCTATTTGCTTATAAACT
29443118 T
1 T
29443119 ACCTCGGACG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (27 bp):
TTAAGTACGTCTATTTGCTTATAAACT
Done.