Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 59 of 172
Found at i:16170484 original size:26 final size:26
Alignment explanation
Indices: 16170454--16170504 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
16170444 CACCAATGAA
*
16170454 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
16170480 TCGGGGAATCAGCACATAGCAACCC
1 TCGGGGAATCAGCACATAGCAACCC
16170505 TTTTTACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.24, T:0.14
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:16175203 original size:17 final size:17
Alignment explanation
Indices: 16175166--16175204 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
16175156 CACAGAATAT
16175166 TTTTTATTTTTTTCGTA
1 TTTTTATTTTTTTCGTA
16175183 -TTTTATTTTTTT-GTA
1 TTTTTATTTTTTTCGTA
16175198 CTTTTTA
1 -TTTTTA
16175205 AATCATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 3 0.15
16 12 0.60
17 5 0.25
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTTTATTTTTTTCGTA
Found at i:16185977 original size:15 final size:15
Alignment explanation
Indices: 16185942--16185983 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16185932 TTAAGAATTT
*
16185942 TATTAAATTAT-ATA
1 TATTTAATTATAATA
16185956 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
16185970 TATTTAATAATAAT
1 TATTTAATTATAAT
16185984 TATGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:16186226 original size:16 final size:16
Alignment explanation
Indices: 16186205--16186237 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
16186195 TTGATTTGCT
16186205 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
16186221 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
16186237 A
1 A
16186238 ATACAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.33, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:16189469 original size:37 final size:37
Alignment explanation
Indices: 16189428--16189537 Score: 89
Period size: 37 Copynumber: 3.2 Consensus size: 37
16189418 CAAGTTCATG
16189428 AAAAAAATTGAAGTTGATACAAGAATGAAAATTCAAT
1 AAAAAAATTGAAGTTGATACAAGAATGAAAATTCAAT
*
16189465 -AAAAAA-T--A--T-ATAC-ATAAT-ACAAA-T-ATAT
1 AAAAAAATTGAAGTTGATACAAGAATGA-AAATTCA-AT
* *
16189493 GTAAATAATTGAAGTTGATACAAGAATGAAAATTCAAT
1 -AAAAAAATTGAAGTTGATACAAGAATGAAAATTCAAT
16189531 AAAAAAA
1 AAAAAAA
16189538 ACAGGTACAT
Statistics
Matches: 54, Mismatches: 5, Indels: 28
0.62 0.06 0.32
Matches are distributed among these distances:
27 1 0.02
28 4 0.07
29 7 0.13
30 9 0.17
31 2 0.04
33 2 0.04
35 2 0.04
36 10 0.19
37 12 0.22
38 4 0.07
39 1 0.02
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.25
Consensus pattern (37 bp):
AAAAAAATTGAAGTTGATACAAGAATGAAAATTCAAT
Found at i:16189574 original size:68 final size:66
Alignment explanation
Indices: 16189433--16189733 Score: 460
Period size: 68 Copynumber: 4.5 Consensus size: 66
16189423 TCATGAAAAA
* * *
16189433 AATTGAAGTTGATACAAGAATGAAAATTCAATAAAAAATATATACATAATACAAATATATGTAAA
1 AATTGAAGTTGATACAAGAATGAAAATTCAATAAAAAAAACATACATAATGCAAATATATGTAAA
16189498 T
66 T
*
16189499 AATTGAAGTTGATACAAGAATGAAAATTCAATAAAAAAAACAGGTACATAATGCAAATATATGTG
1 AATTGAAGTTGATACAAGAATGAAAATTCAATAAAAAAAACA--TACATAATGCAAATATATGTA
16189564 AAT
64 AAT
* *
16189567 AACTGAAGTTGATACAAGAATGAAAATTCAATAAAAAAAACATATGCATAATGTAAATATATGTA
1 AATTGAAGTTGATACAAGAATGAAAATTCAATAAAAAAAACATA--CATAATGCAAATATATGTA
16189632 AAT
64 AAT
* * *
16189635 AAATGAAGTTGATACAATAATGAAAATTCAATAAAAAACAA-ATACATAATGCAAACATATGTAA
1 AATTGAAGTTGATACAAGAATGAAAATTCAATAAAAAA-AACATACATAATGCAAATATATGTAA
16189699 AT
65 AT
*
16189701 AATTGAATTTGATACAAGAATGAAAATTCAATA
1 AATTGAAGTTGATACAAGAATGAAAATTCAATA
16189734 CATAATTTAC
Statistics
Matches: 216, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
66 92 0.43
68 122 0.56
69 2 0.01
ACGTcount: A:0.55, C:0.07, G:0.11, T:0.27
Consensus pattern (66 bp):
AATTGAAGTTGATACAAGAATGAAAATTCAATAAAAAAAACATACATAATGCAAATATATGTAAA
T
Found at i:16189689 original size:134 final size:134
Alignment explanation
Indices: 16189436--16189733 Score: 458
Period size: 134 Copynumber: 2.2 Consensus size: 134
16189426 TGAAAAAAAT
*
16189436 TGAAGTTGATACAAGAATGAAAATTCAAT-AAAAAATATATACATAATACAAATATATGTAAATA
1 TGAAGTTGATACAAGAATGAAAATTCAATAAAAAAACATATACATAATACAAATATATGTAAATA
* * *
16189500 ATTGAAGTTGATACAAGAATGAAAATTCAATAAAAAAAACAGGTACATAATGCAAATATATGTGA
66 AATGAAGTTGATACAAGAATGAAAATTCAATAAAAAAAACA-GTACATAATGCAAACATATGTAA
16189565 ATAAC
130 ATAAC
* **
16189570 TGAAGTTGATACAAGAATGAAAATTCAATAAAAAAAACATATGCATAATGTAAATATATGTAAAT
1 TGAAGTTGATACAAGAATGAAAATTCAAT-AAAAAAACATATACATAATACAAATATATGTAAAT
*
16189635 AAATGAAGTTGATACAATAATGAAAATTCAATAAAAAACAA-A-TACATAATGCAAACATATGTA
65 AAATGAAGTTGATACAAGAATGAAAATTCAATAAAAAA-AACAGTACATAATGCAAACATATGTA
*
16189698 AATAAT
129 AATAAC
*
16189704 TGAATTTGATACAAGAATGAAAATTCAATA
1 TGAAGTTGATACAAGAATGAAAATTCAATA
16189734 CATAATTTAC
Statistics
Matches: 151, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
133 1 0.01
134 81 0.54
136 67 0.44
137 2 0.01
ACGTcount: A:0.55, C:0.07, G:0.11, T:0.27
Consensus pattern (134 bp):
TGAAGTTGATACAAGAATGAAAATTCAATAAAAAAACATATACATAATACAAATATATGTAAATA
AATGAAGTTGATACAAGAATGAAAATTCAATAAAAAAAACAGTACATAATGCAAACATATGTAAA
TAAC
Found at i:16191049 original size:20 final size:18
Alignment explanation
Indices: 16191002--16191050 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
16190992 ATGTTTAAAC
16191002 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
16191019 ATTAAGA-TAATTACTTTAAT
1 ATTAA-ATTAA-TA-TTTAAT
16191039 ATTAAATTAATA
1 ATTAAATTAATA
16191051 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 4 0.15
20 14 0.52
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:16196791 original size:27 final size:27
Alignment explanation
Indices: 16196758--16196984 Score: 343
Period size: 27 Copynumber: 8.5 Consensus size: 27
16196748 TTAAGCACAC
16196758 AGTCATTTTATAACATAGGGGCATAAT
1 AGTCATTTTATAACATAGGGGCATAAT
*
16196785 AGTCATTTTATAACATAGGGGCATAAC
1 AGTCATTTTATAACATAGGGGCATAAT
* *
16196812 AGTCATTTTATAACTTAGGGGCATAAC
1 AGTCATTTTATAACATAGGGGCATAAT
* * *
16196839 CGTCATTTTATAACAAAAGGGCATAACT
1 AGTCATTTTATAACATAGGGGCATAA-T
*
16196867 -GTCATTTTATAACATAGGGGCATAAC
1 AGTCATTTTATAACATAGGGGCATAAT
* *
16196893 CGTCATTTTATAACATAGGGGCCTAAT
1 AGTCATTTTATAACATAGGGGCATAAT
16196920 AGTCATTTTATAACATA-GGGCATAAT
1 AGTCATTTTATAACATAGGGGCATAAT
16196946 AGTCATTTTATAACATA-GGGCATAAT
1 AGTCATTTTATAACATAGGGGCATAAT
16196972 AGTCATTTTATAA
1 AGTCATTTTATAA
16196985 TAGTTTTGGG
Statistics
Matches: 184, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
26 47 0.26
27 137 0.74
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (27 bp):
AGTCATTTTATAACATAGGGGCATAAT
Found at i:16197990 original size:32 final size:33
Alignment explanation
Indices: 16197944--16198050 Score: 128
Period size: 33 Copynumber: 3.3 Consensus size: 33
16197934 AAAAACAATG
* * *
16197944 TTCGGCCAACACAATGAATGGGGAGAAG-AGGT-
1 TTCGGCAAAAACAATGAATGGGGAGAAGTA-ATA
*
16197976 TTCGGCAAAAACAATGAATGGAGAGAAGTAATA
1 TTCGGCAAAAACAATGAATGGGGAGAAGTAATA
* **
16198009 TTCGACAAAGTCAATGAATGGGGAGAAGTAATA
1 TTCGGCAAAAACAATGAATGGGGAGAAGTAATA
16198042 TTCGGCAAA
1 TTCGGCAAA
16198051 GGGAACAACT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
32 26 0.41
33 38 0.59
ACGTcount: A:0.41, C:0.12, G:0.28, T:0.19
Consensus pattern (33 bp):
TTCGGCAAAAACAATGAATGGGGAGAAGTAATA
Found at i:16200349 original size:25 final size:27
Alignment explanation
Indices: 16200300--16200349 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
16200290 AGTTTAAAAA
**
16200300 TTCTCTTTGAGTTTTCTTTTGAAGAAT
1 TTCTCTTTGAGTTTTCTTTAAAAGAAT
16200327 TTCT-TTTGAGTTTT-TTTAAAAGA
1 TTCTCTTTGAGTTTTCTTTAAAAGA
16200350 GTTTTAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 10 0.48
27 4 0.19
ACGTcount: A:0.22, C:0.08, G:0.14, T:0.56
Consensus pattern (27 bp):
TTCTCTTTGAGTTTTCTTTAAAAGAAT
Found at i:16200594 original size:18 final size:21
Alignment explanation
Indices: 16200542--16200587 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 21
16200532 GTTCTAATTG
16200542 TATATTTATTATTTTATTTTAAT
1 TATA-TTATTATTT-ATTTTAAT
16200565 TATATTAGTTATTTATTTTAAT
1 TATATTA-TTATTTATTTTAAT
16200587 T
1 T
16200588 TTTTTATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TATATTATTATTTATTTTAAT
Found at i:16201202 original size:18 final size:18
Alignment explanation
Indices: 16201181--16201236 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
16201171 TCCTTTGTTT
16201181 TTTACTTTTTATTATTTC
1 TTTACTTTTTATTATTTC
*** *
16201199 TTTAC-ACAT-TTGTTT-
1 TTTACTTTTTATTATTTC
16201214 TTTACTTTTTATTATTTC
1 TTTACTTTTTATTATTTC
16201232 TTTAC
1 TTTAC
16201237 GCATTCTAAC
Statistics
Matches: 27, Mismatches: 8, Indels: 6
0.66 0.20 0.15
Matches are distributed among these distances:
15 5 0.19
16 6 0.22
17 6 0.22
18 10 0.37
ACGTcount: A:0.18, C:0.12, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTACTTTTTATTATTTC
Found at i:16201216 original size:33 final size:33
Alignment explanation
Indices: 16201174--16201241 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
16201164 TAGGTTTTCC
16201174 TTTGTTTTTTACTTTTTATTATTTCTTTACACA
1 TTTGTTTTTTACTTTTTATTATTTCTTTACACA
*
16201207 TTTGTTTTTTACTTTTTATTATTTCTTTACGCA
1 TTTGTTTTTTACTTTTTATTATTTCTTTACACA
16201240 TT
1 TT
16201242 CTAACACTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.16, C:0.12, G:0.04, T:0.68
Consensus pattern (33 bp):
TTTGTTTTTTACTTTTTATTATTTCTTTACACA
Found at i:16206055 original size:20 final size:18
Alignment explanation
Indices: 16206008--16206056 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
16205998 CAAGATAAAC
16206008 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
16206025 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
16206045 ATTAAATTAATA
1 ATTAAATTAATA
16206057 AAATAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:16206065 original size:19 final size:19
Alignment explanation
Indices: 16206041--16206093 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
16206031 ATAATCACTT
16206041 TAATATTAAATTAATAAAA
1 TAATATTAAATTAATAAAA
*
16206060 TAATATTAAGA-TAA-AAAT
1 TAATATTAA-ATTAATAAAA
16206078 TAA-ATTAAATTTAATA
1 TAATATTAAA-TTAATA
16206094 TAAAACTAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
16 1 0.03
17 5 0.17
18 9 0.31
19 13 0.45
20 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
TAATATTAAATTAATAAAA
Found at i:16206098 original size:39 final size:38
Alignment explanation
Indices: 16206021--16206093 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 38
16206011 AAATTAAATT
**
16206021 TAATATTAAGATAATCACTTTAATATTAAATTAATAAAA
1 TAATATTAAGATAA-CAAATTAATATTAAATTAATAAAA
16206060 TAATATTAAGATAA-AAATTAA-ATTAAATTTAATA
1 TAATATTAAGATAACAAATTAATATTAAA-TTAATA
16206094 TAAAACTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 6 0.19
37 11 0.35
39 14 0.45
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (38 bp):
TAATATTAAGATAACAAATTAATATTAAATTAATAAAA
Found at i:16207751 original size:15 final size:15
Alignment explanation
Indices: 16207727--16207758 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16207717 TATGCATGTA
*
16207727 AAATATAAAAGACAT
1 AAATACAAAAGACAT
16207742 AAATACAAAAGACAT
1 AAATACAAAAGACAT
16207757 AA
1 AA
16207759 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:16211787 original size:27 final size:27
Alignment explanation
Indices: 16211757--16212077 Score: 312
Period size: 27 Copynumber: 12.0 Consensus size: 27
16211747 TATCTGCACC
* *
16211757 GAAATACCCCCATAGGATAAAATAACT
1 GAAATACCCCCATAGGGTAAAATGACT
* * *
16211784 GAAATA-CCCCACAGGGTAAAATAACC
1 GAAATACCCCCATAGGGTAAAATGACT
*
16211810 GAAATA-CCCCATAGGGT--AGTGACT
1 GAAATACCCCCATAGGGTAAAATGACT
* * *
16211834 GAAATACCTCTATAGGGTAAAATGACC
1 GAAATACCCCCATAGGGTAAAATGACT
* * *
16211861 AAAATACCCTCATAGGGTAGAATGACT
1 GAAATACCCCCATAGGGTAAAATGACT
** * *
16211888 GAAATACCCATATAGGGTAAAATAATT
1 GAAATACCCCCATAGGGTAAAATGACT
*
16211915 GAAATACCCCCACAGGGTAAAATGA-T
1 GAAATACCCCCATAGGGTAAAATGACT
* * *
16211941 CGAAATATCCCTATAGGGTAGAATGACT
1 -GAAATACCCCCATAGGGTAAAATGACT
*
16211969 GAAATACCCCTATAGGGTAAAATGA-T
1 GAAATACCCCCATAGGGTAAAATGACT
* * *
16211995 CAAAATACTCCCATAGGGTAAAATGACC
1 -GAAATACCCCCATAGGGTAAAATGACT
* * ** *
16212023 GAAATACCCCCACAGAGTAGTATGACC
1 GAAATACCCCCATAGGGTAAAATGACT
*
16212050 GAAATACCCTCATAGGGTAAAATGACT
1 GAAATACCCCCATAGGGTAAAATGACT
16212077 G
1 G
16212078 TTATACCCGT
Statistics
Matches: 238, Mismatches: 49, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
24 10 0.04
25 9 0.04
26 35 0.15
27 183 0.77
28 1 0.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (27 bp):
GAAATACCCCCATAGGGTAAAATGACT
Found at i:16211933 original size:81 final size:80
Alignment explanation
Indices: 16211757--16212074 Score: 356
Period size: 81 Copynumber: 4.0 Consensus size: 80
16211747 TATCTGCACC
* * * * * *
16211757 GAAATACCCCCATAGGATAAAATAACTGAAATACCC-CACAGGGTAAAATAACCGAAATACCCCA
1 GAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCACAGGGTAGAATGACCGAAATACCCTA
* *
16211821 TAGGGT--AGTGACT
66 TAGGGTAAAATGATT
* * * * *
16211834 GAAATACCTCTATAGGGTAAAATGACCAAAATACCCTCATAGGGTAGAATGACTGAAATACCCAT
1 GAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCACAGGGTAGAATGACCGAAATACCC-T
*
16211899 ATAGGGTAAAATAATT
65 ATAGGGTAAAATGATT
* * * *
16211915 GAAATACCCCCACAGGGTAAAATGATCGAAATATCCCT-ATAGGGTAGAATGACTGAAATACCCC
1 GAAATACCCCCATAGGGTAAAATGACCGAAATA-CCCTCACAGGGTAGAATGACCGAAATA-CCC
*
16211979 TATAGGGTAAAATGATC
64 TATAGGGTAAAATGATT
* * * * *
16211996 AAAATACTCCCATAGGGTAAAATGACCGAAATACCCCCACAGAGTAGTATGACCGAAATACCCTC
1 GAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCACAGGGTAGAATGACCGAAATACCCT-
16212061 ATAGGGTAAAATGA
65 ATAGGGTAAAATGA
16212075 CTGTTATACC
Statistics
Matches: 203, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
77 30 0.15
78 22 0.11
79 7 0.03
80 7 0.03
81 130 0.64
82 7 0.03
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (80 bp):
GAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCACAGGGTAGAATGACCGAAATACCCTA
TAGGGTAAAATGATT
Found at i:16215663 original size:27 final size:27
Alignment explanation
Indices: 16215619--16215998 Score: 358
Period size: 27 Copynumber: 14.1 Consensus size: 27
16215609 CGATATCTGC
*
16215619 ACCGACATA-CCCTAATAGGGTAAAATG
1 ACCGAAATACCCCT-ATAGGGTAAAATG
* * *
16215646 ATCAAAATACCTCTATAGGGTAAAATG
1 ACCGAAATACCCCTATAGGGTAAAATG
* ** *
16215673 ACCGAAATACCCCCATAATGTAGAATG
1 ACCGAAATACCCCTATAGGGTAAAATG
16215700 ACCGAAATACCCCTATAGGGTAAAATG
1 ACCGAAATACCCCTATAGGGTAAAATG
* * *
16215727 ACCGAAATA-CCCTCATAAGATAGAATG
1 ACCGAAATACCCCT-ATAGGGTAAAATG
*
16215754 ACCGAAATACCCACT-TAGGGTAAAATA
1 ACCGAAATACCC-CTATAGGGTAAAATG
* * *
16215781 ACCAAAATA-CCCTCACAGCGTAAAATG
1 ACCGAAATACCCCT-ATAGGGTAAAATG
* * *
16215808 ATCGAAATACCCCCATAGGGTAGAATG
1 ACCGAAATACCCCTATAGGGTAAAATG
*
16215835 ACCGAAATACCCCTATAAGGTAAAATG
1 ACCGAAATACCCCTATAGGGTAAAATG
* *
16215862 ACTGAAATACCCCCATAGGGTAAAATG
1 ACCGAAATACCCCTATAGGGTAAAATG
** * *
16215889 ATTGAAATACCCCCATAGGGTAAAAAG
1 ACCGAAATACCCCTATAGGGTAAAATG
* *
16215916 ACTGAAATA-CCCTCATAGGGTAAAACG
1 ACCGAAATACCCCT-ATAGGGTAAAATG
* * * **
16215943 ACCAAAATACCCCTAAAGAGTAGTATG
1 ACCGAAATACCCCTATAGGGTAAAATG
* *
16215970 ACCGAAATATCGCC-AAAGGGTAAAATG
1 ACCGAAATA-CCCCTATAGGGTAAAATG
16215997 AC
1 AC
16215999 TGTTATACCC
Statistics
Matches: 287, Mismatches: 56, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
25 2 0.01
26 9 0.03
27 259 0.90
28 15 0.05
29 2 0.01
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (27 bp):
ACCGAAATACCCCTATAGGGTAAAATG
Found at i:16215754 original size:81 final size:81
Alignment explanation
Indices: 16215619--16215998 Score: 395
Period size: 81 Copynumber: 4.7 Consensus size: 81
16215609 CGATATCTGC
* * * *
16215619 ACCGACATA-CCCTAATAGGGTAAAATGATCAAAATACCTCTATAGGGTAAAATGACCGAAATAC
1 ACCGAAATACCCCT-ATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATAC
* *
16215683 CCCCATAATGTAGAATG
65 CCCCATAAGGTAAAATG
* * * * *
16215700 ACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCTCATAAGATAGAATGACCGAAATACC
1 ACCGAAATACCCCTATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACC
* * * *
16215765 CACTTAGGGTAAAATA
66 CCCATAAGGTAAAATG
* * * *
16215781 ACCAAAATA-CCCTCACAGCGTAAAATGATCGAAATACCCCCATAGGGTAGAATGACCGAAATAC
1 ACCGAAATACCCCT-ATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATAC
*
16215845 CCCTATAAGGTAAAATG
65 CCCCATAAGGTAAAATG
* * * * *
16215862 ACTGAAATACCCCCATAGGGTAAAATGATTGAAATACCCCCATAGGGTAAAAAGACTGAAATACC
1 ACCGAAATACCCCTATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACC
* * *
16215927 CTCATAGGGTAAAACG
66 CCCATAAGGTAAAATG
* * * ** * * * *
16215943 ACCAAAATACCCCTAAAGAGTAGTATGACCGAAATATCGCCAAAGGGTAAAATGAC
1 ACCGAAATACCCCTATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGAC
16215999 TGTTATACCC
Statistics
Matches: 243, Mismatches: 53, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
80 4 0.02
81 232 0.95
82 7 0.03
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (81 bp):
ACCGAAATACCCCTATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACC
CCCATAAGGTAAAATG
Found at i:16229497 original size:20 final size:20
Alignment explanation
Indices: 16229460--16229497 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16229450 TTTATGGTTT
*
16229460 TAAATAATTTTTGGGTAAAA
1 TAAATAATTTTGGGGTAAAA
16229480 TAAAT-ATTTTGGGTGTAA
1 TAAATAATTTTGGG-GTAA
16229498 TTAGAATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (20 bp):
TAAATAATTTTGGGGTAAAA
Found at i:16236231 original size:41 final size:41
Alignment explanation
Indices: 16236194--16236412 Score: 228
Period size: 41 Copynumber: 5.3 Consensus size: 41
16236184 CATGAATTGT
*
16236194 ACATATGTGCCCCTATTTGTACTTCAGTATCCCTGAATTAC
1 ACATATGTGCCCCTATTTGTACTTCAGTACCCCTGAATTAC
* * * * * *
16236235 ACATACGTGCCCCTAGTTATACTTCTGTACCCCTAAATTGC
1 ACATATGTGCCCCTATTTGTACTTCAGTACCCCTGAATTAC
* ** *
16236276 ACATATGTGCCCCTGTTTGTACTTTGGTACCCCAT-AATTGC
1 ACATATGTGCCCCTATTTGTACTTCAGTACCCC-TGAATTAC
* * *
16236317 ACATATGTGTCTCTATTTGTACTTC-GATACCCCTAAATTAC
1 ACATATGTGCCCCTATTTGTACTTCAG-TACCCCTGAATTAC
* * *
16236358 ACATACGTGCCCCTGTTTGTACTT-AGGTACCCTTGAATTAC
1 ACATATGTGCCCCTATTTGTACTTCA-GTACCCCTGAATTAC
*
16236399 ACATAAGTGCCCCT
1 ACATATGTGCCCCT
16236413 GTTTACACTC
Statistics
Matches: 148, Mismatches: 25, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
40 2 0.01
41 144 0.97
42 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.35
Consensus pattern (41 bp):
ACATATGTGCCCCTATTTGTACTTCAGTACCCCTGAATTAC
Found at i:16236340 original size:82 final size:82
Alignment explanation
Indices: 16236188--16236412 Score: 276
Period size: 82 Copynumber: 2.7 Consensus size: 82
16236178 TTATTCCATG
* * *
16236188 AATTGTACATATGTGCCCCTATTTGTACTTCA-GTATCCCTGAATTACACATACGTGCCCCTAGT
1 AATTGCACATATGTGCCCCTGTTTGTACTT-AGGTACCCCTGAATTACACATACGTGCCCCTAGT
16236252 TATACTTCTG-TACCCCTA
65 TATACTTC-GATACCCCTA
* * * * * *
16236270 AATTGCACATATGTGCCCCTGTTTGTACTTTGGTACCCCAT-AATTGCACATATGTGTCTCTATT
1 AATTGCACATATGTGCCCCTGTTTGTACTTAGGTACCCC-TGAATTACACATACGTGCCCCTAGT
*
16236334 TGTACTTCGATACCCCTA
65 TATACTTCGATACCCCTA
* * * *
16236352 AATTACACATACGTGCCCCTGTTTGTACTTAGGTACCCTTGAATTACACATAAGTGCCCCT
1 AATTGCACATATGTGCCCCTGTTTGTACTTAGGTACCCCTGAATTACACATACGTGCCCCT
16236413 GTTTACACTC
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
81 2 0.02
82 118 0.98
83 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (82 bp):
AATTGCACATATGTGCCCCTGTTTGTACTTAGGTACCCCTGAATTACACATACGTGCCCCTAGTT
ATACTTCGATACCCCTA
Found at i:16236409 original size:123 final size:124
Alignment explanation
Indices: 16236183--16236416 Score: 321
Period size: 123 Copynumber: 1.9 Consensus size: 124
16236173 GTTAATTATT
* * *
16236183 CCATGAATTGTACATATGTGCCCCTATTTGTACTTCAGTATCCCTGAATTACACATACGTGCCCC
1 CCATGAATTGCACATATGTGCCCCTATTTGTACTTCAGTACCCCTAAATTACACATACGTGCCCC
** * *
16236248 TAGTTATACTTCTGTACCCCTAAATTGCACATATGTGCCCCTGTTTGTACTTTGGTACC
66 TAGTTATACTTAGGTACCCCTAAATTACACATAAGTGCCCCTGTTTGTACTTTGGTACC
* *
16236307 CCAT-AATTGCACATATGTGTCTCTATTTGTACTTC-GATACCCCTAAATTACACATACGTGCCC
1 CCATGAATTGCACATATGTGCCCCTATTTGTACTTCAG-TACCCCTAAATTACACATACGTGCCC
* * *
16236370 CT-GTTTGTACTTAGGTACCCTTGAATTACACATAAGTGCCCCTGTTT
65 CTAG-TTATACTTAGGTACCCCTAAATTACACATAAGTGCCCCTGTTT
16236417 ACACTCTGAT
Statistics
Matches: 96, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
122 2 0.02
123 90 0.94
124 4 0.04
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (124 bp):
CCATGAATTGCACATATGTGCCCCTATTTGTACTTCAGTACCCCTAAATTACACATACGTGCCCC
TAGTTATACTTAGGTACCCCTAAATTACACATAAGTGCCCCTGTTTGTACTTTGGTACC
Found at i:16236420 original size:20 final size:20
Alignment explanation
Indices: 16236354--16236420 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
16236344 TACCCCTAAA
*
16236354 TTACACATACGTGCCCCTGT
1 TTACACATAAGTGCCCCTGT
** * * * * *
16236374 TTGTACTTAGGTACCCTTGAA
1 TTACACATAAGTGCCCCTG-T
16236395 TTACACATAAGTGCCCCTGT
1 TTACACATAAGTGCCCCTGT
16236415 TTACAC
1 TTACAC
16236421 TCTGATAACT
Statistics
Matches: 32, Mismatches: 14, Indels: 2
0.67 0.29 0.04
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (20 bp):
TTACACATAAGTGCCCCTGT
Found at i:16236435 original size:41 final size:41
Alignment explanation
Indices: 16236352--16236436 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 41
16236342 GATACCCCTA
* ** * *
16236352 AATTACACATACGTGCCCCTGTTTGTACTTAGGTACCCTTG
1 AATTACACATAAGTGCCCCTGTTTACACTTAGATAACCTTG
*
16236393 AATTACACATAAGTGCCCCTGTTTACACTCT-GATAACTTTG
1 AATTACACATAAGTGCCCCTGTTTACACT-TAGATAACCTTG
16236434 AAT
1 AAT
16236437 CGAGTAACGT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
41 36 0.97
42 1 0.03
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (41 bp):
AATTACACATAAGTGCCCCTGTTTACACTTAGATAACCTTG
Found at i:16240235 original size:13 final size:13
Alignment explanation
Indices: 16240217--16240244 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16240207 TTTAATTAAA
16240217 TTATGTGTATTTT
1 TTATGTGTATTTT
16240230 TTATGTGTATTTT
1 TTATGTGTATTTT
16240243 TT
1 TT
16240245 GTTGTTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (13 bp):
TTATGTGTATTTT
Found at i:16253994 original size:49 final size:49
Alignment explanation
Indices: 16253877--16254000 Score: 135
Period size: 50 Copynumber: 2.5 Consensus size: 49
16253867 TATCCCAGAT
** * * * *
16253877 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCACGT-CAAAAC
* *
16253927 ATGGTCTTAC-GGGAGACCTCTCATCTCGGTGCCAACGCCACGT-AAAGAC
1 ATGGTCTTACATGG-GACCTCTCATATCGGTGCCAACGCCACGTCAAA-AC
16253976 ATGGTCTTACATGGGACCTCTCATA
1 ATGGTCTTACATGGGACCTCTCATA
16254001 ACCTCAATAA
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
48 2 0.03
49 24 0.39
50 35 0.57
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (49 bp):
ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCACGTCAAAAC
Found at i:16262257 original size:26 final size:26
Alignment explanation
Indices: 16262228--16262288 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 26
16262218 TCTCATTCCT
16262228 ATTTTACTCCC-AATAAAATTTTGA-A
1 ATTTTAC-CCCTAATAAAATTTTGACA
*
16262253 GATTTTACCCCTATTAAAATTTTGACA
1 -ATTTTACCCCTAATAAAATTTTGACA
16262280 ATTTTACCC
1 ATTTTACCC
16262289 ATGGTAAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 3 0.09
26 28 0.88
27 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (26 bp):
ATTTTACCCCTAATAAAATTTTGACA
Found at i:16262300 original size:26 final size:26
Alignment explanation
Indices: 16262241--16262301 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
16262231 TTACTCCCAA
* *
16262241 TAAAATTTTGAAGATTTTACCCCTAT
1 TAAAATTTTGAAGATTTTACCCATAG
*
16262267 TAAAATTTTGACA-ATTTTACCCATGG
1 TAAAATTTTGA-AGATTTTACCCATAG
*
16262293 TAAGATTTT
1 TAAAATTTT
16262302 AAAAAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 29 0.97
27 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (26 bp):
TAAAATTTTGAAGATTTTACCCATAG
Found at i:16272908 original size:23 final size:23
Alignment explanation
Indices: 16272878--16272926 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
16272868 AAACAGTAAT
*
16272878 TATTTTAAAAATTCATCTTCTTC
1 TATTTTAAAAATTCATCTTCTCC
*
16272901 TATTTTAAAAATTCGTCTTCTCC
1 TATTTTAAAAATTCATCTTCTCC
16272924 TAT
1 TAT
16272927 CTAGCAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.18, G:0.02, T:0.51
Consensus pattern (23 bp):
TATTTTAAAAATTCATCTTCTCC
Found at i:16273394 original size:26 final size:26
Alignment explanation
Indices: 16273355--16273409 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
16273345 AACACACCAA
* *
16273355 TATCATAGCAAAGCTACCAGTAATAG
1 TATCACAGCAAAGCTACCAGTAACAG
* *
16273381 TATCACAGCGAAGCTGCCAGTAACAG
1 TATCACAGCAAAGCTACCAGTAACAG
16273407 TAT
1 TAT
16273410 ATGTGGCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (26 bp):
TATCACAGCAAAGCTACCAGTAACAG
Found at i:16273630 original size:27 final size:27
Alignment explanation
Indices: 16273600--16273704 Score: 151
Period size: 27 Copynumber: 4.0 Consensus size: 27
16273590 AGGTATAACA
16273600 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
16273627 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
16273654 AT-AATTTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
16273679 GTTACTTTACCCTATGGGGGTTTTTC
1 GTCATTTTACCCTATGGGGGTATTTC
16273705 AGTAATTTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
25 12 0.17
26 22 0.31
27 37 0.52
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:16273688 original size:52 final size:53
Alignment explanation
Indices: 16273605--16273713 Score: 168
Period size: 52 Copynumber: 2.1 Consensus size: 53
16273595 TAACAGTCAT
*
16273605 TTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTC-GATAA
1 TTTACCCTATGGGGGTATTTCGGTCACTTTACCCTATGGGGGTATTTCAG-TAA
* *
16273658 TTTACCCTAT-GGGGTATTTCGGTTACTTTACCCTATGGGGGTTTTTCAGTAA
1 TTTACCCTATGGGGGTATTTCGGTCACTTTACCCTATGGGGGTATTTCAGTAA
16273710 TTTA
1 TTTA
16273714 TTGACCTTCG
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
52 41 0.79
53 11 0.21
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.42
Consensus pattern (53 bp):
TTTACCCTATGGGGGTATTTCGGTCACTTTACCCTATGGGGGTATTTCAGTAA
Found at i:16274258 original size:56 final size:56
Alignment explanation
Indices: 16274153--16274264 Score: 181
Period size: 56 Copynumber: 2.0 Consensus size: 56
16274143 CAGATTCCTT
* *
16274153 TCGATCCGAACACTCTTATTCTGCAAATCAATGATCTATCACACTCTTGGTTCCCA
1 TCGATCCGAACACTCTTATTCCGCAAATCAATGATCTATCACACCCTTGGTTCCCA
*
16274209 TCGATCCGAACACCTCTTATTCCGCAAATCAATGATC-ATCGCACCCTTGGTTCCCA
1 TCGATCCGAACA-CTCTTATTCCGCAAATCAATGATCTATCACACCCTTGGTTCCCA
16274265 AGCAATGTGC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
56 29 0.56
57 23 0.44
ACGTcount: A:0.26, C:0.33, G:0.12, T:0.29
Consensus pattern (56 bp):
TCGATCCGAACACTCTTATTCCGCAAATCAATGATCTATCACACCCTTGGTTCCCA
Found at i:16279016 original size:34 final size:32
Alignment explanation
Indices: 16278973--16279042 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
16278963 AATAAATCTC
*
16278973 TAGATGCATATATATAGTATATATAACAGAACCA
1 TAGAGGCATATATAT-GT-TATATAACAGAACCA
* * *
16279007 TAGAGGCATATATCTGTTATATAATAGGACCA
1 TAGAGGCATATATATGTTATATAACAGAACCA
16279039 TAGA
1 TAGA
16279043 TGTATGTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 17 0.53
33 2 0.06
34 13 0.41
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (32 bp):
TAGAGGCATATATATGTTATATAACAGAACCA
Found at i:16280811 original size:30 final size:29
Alignment explanation
Indices: 16280746--16280812 Score: 71
Period size: 30 Copynumber: 2.3 Consensus size: 29
16280736 AGTTTAATTT
* *
16280746 CCAAACTTTGGGGCAAAAACATAATTATG
1 CCAAAGTTTGGGGCAAAAACATAATTATC
** * *
16280775 TAAAAGTTTAGGGGCAAAATCATAATTTTC
1 CCAAAGTTT-GGGGCAAAAACATAATTATC
16280805 CCAAAGTT
1 CCAAAGTT
16280813 GGAGTCGAGG
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
29 6 0.21
30 23 0.79
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.28
Consensus pattern (29 bp):
CCAAAGTTTGGGGCAAAAACATAATTATC
Found at i:16281232 original size:50 final size:50
Alignment explanation
Indices: 16281152--16281391 Score: 318
Period size: 50 Copynumber: 4.8 Consensus size: 50
16281142 TGGGTAAAGG
* * *
16281152 GGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCAAGGTGAGA
1 GGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGA
* *
16281202 GGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGA
1 GGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGA
* * *
16281252 GGTCCCATGTAAGAACATGTCTAGGACATGGCGTTGGCACCGAGATGAGA
1 GGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGA
** * * *
16281302 GGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATCGATATGAGAA
1 GGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG-A
** * *
16281353 CATCCCATGTAATACCATGTCTGGGACATGGCTTTGGCA
1 GGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
16281392 TGCTATTATT
Statistics
Matches: 166, Mismatches: 23, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 133 0.80
51 33 0.20
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (50 bp):
GGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGA
Found at i:16299222 original size:43 final size:43
Alignment explanation
Indices: 16299130--16299232 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
16299120 TTATGTGAAA
* * *
16299130 AAAAACACCACTAAAAAACATGACCTTTAGCGACGCTTTCCCC
1 AAAAACGCCACTAAAGAACATGACCTTTAGCGACGCTTTCACC
* * * * *
16299173 ACAAACGCCGCTAAAGAACATGACTTTTAGCGGCGCTTTTACC
1 AAAAACGCCACTAAAGAACATGACCTTTAGCGACGCTTTCACC
*
16299216 AAAAACGCTACTAAAGA
1 AAAAACGCCACTAAAGA
16299233 TAGTAAAAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.39, C:0.28, G:0.14, T:0.19
Consensus pattern (43 bp):
AAAAACGCCACTAAAGAACATGACCTTTAGCGACGCTTTCACC
Found at i:16301908 original size:11 final size:11
Alignment explanation
Indices: 16301892--16301916 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16301882 TGAAACACTT
16301892 AAAAAAAAAAG
1 AAAAAAAAAAG
16301903 AAAAAAAAAAG
1 AAAAAAAAAAG
16301914 AAA
1 AAA
16301917 TATATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:16302038 original size:12 final size:12
Alignment explanation
Indices: 16302021--16302048 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
16302011 ATGATTAAGG
16302021 ACATTAATAGTA
1 ACATTAATAGTA
16302033 ACATTAATAGTA
1 ACATTAATAGTA
16302045 ACAT
1 ACAT
16302049 CATAAATAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.32
Consensus pattern (12 bp):
ACATTAATAGTA
Found at i:16302805 original size:14 final size:14
Alignment explanation
Indices: 16302786--16302812 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16302776 GCTGCTTTGT
16302786 GTTGGATTTTCATC
1 GTTGGATTTTCATC
16302800 GTTGGATTTTCAT
1 GTTGGATTTTCAT
16302813 ATTACGAGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.11, G:0.22, T:0.52
Consensus pattern (14 bp):
GTTGGATTTTCATC
Found at i:16303051 original size:22 final size:22
Alignment explanation
Indices: 16303015--16303060 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
16303005 AATAATAGTT
**
16303015 TAATTTTTTTCATTTAAATAAA
1 TAATTTTTTAAATTTAAATAAA
* *
16303037 TAATTTTTTAAATTTTAATTAA
1 TAATTTTTTAAATTTAAATAAA
16303059 TA
1 TA
16303061 TTTAAAAGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TAATTTTTTAAATTTAAATAAA
Found at i:16303098 original size:16 final size:16
Alignment explanation
Indices: 16303080--16303137 Score: 71
Period size: 16 Copynumber: 3.4 Consensus size: 16
16303070 ATTAGATAAA
16303080 ATTTAAAATCTTGAAAATT
1 ATTTAAAAT-TTG-AAA-T
16303099 ATTTAAAATTTGAAAT
1 ATTTAAAATTTGAAAT
*
16303115 CTTTAAAATTTGAAATT
1 ATTTAAAATTTGAAA-T
16303132 ATTTAA
1 ATTTAA
16303138 TATATAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
16 15 0.42
17 9 0.25
18 3 0.08
19 9 0.25
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (16 bp):
ATTTAAAATTTGAAAT
Found at i:16303098 original size:26 final size:26
Alignment explanation
Indices: 16303069--16303124 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
16303059 TATTTAAAAG
16303069 AATTAGATAAAATTTAAAATCTTGAA
1 AATTAGATAAAATTTAAAATCTTGAA
** * *
16303095 AATTATTTAAAATTTGAAATCTTTAA
1 AATTAGATAAAATTTAAAATCTTGAA
16303121 AATT
1 AATT
16303125 TGAAATTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (26 bp):
AATTAGATAAAATTTAAAATCTTGAA
Found at i:16304364 original size:15 final size:15
Alignment explanation
Indices: 16304341--16304380 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
16304331 TAAACTCCAA
*
16304341 CCCTTAACCTATAAT
1 CCCTAAACCTATAAT
*
16304356 CCCTAAACCCATAAT
1 CCCTAAACCTATAAT
*
16304371 CCATAAACCT
1 CCCTAAACCT
16304381 TAAAATAGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (15 bp):
CCCTAAACCTATAAT
Found at i:16304424 original size:13 final size:14
Alignment explanation
Indices: 16304396--16304441 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
16304386 TAGTAACTCT
* *
16304396 TAAACCTTAAACCC
1 TAAACCATATACCC
16304410 TAAACCA-ATACCC
1 TAAACCATATACCC
16304423 TAAACCATATACCC
1 TAAACCATATACCC
16304437 TAAAC
1 TAAAC
16304442 TGTAATGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 12 0.41
14 17 0.59
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCATATACCC
Found at i:16304503 original size:14 final size:14
Alignment explanation
Indices: 16304458--16304505 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
16304448 GATAATTAAT
16304458 TTAATATTTTAAAA
1 TTAATATTTTAAAA
* * *
16304472 TTAGTA-CTT-AAT
1 TTAATATTTTAAAA
16304484 TTAATATTTTAAAA
1 TTAATATTTTAAAA
16304498 TTAATATT
1 TTAATATT
16304506 ATATCTTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
12 7 0.27
13 4 0.15
14 15 0.58
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (14 bp):
TTAATATTTTAAAA
Found at i:16304640 original size:18 final size:18
Alignment explanation
Indices: 16304619--16304655 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
16304609 AGTTGAAACA
16304619 GATAAAATATTTTTTGCG
1 GATAAAATATTTTTTGCG
16304637 GATAAAATATTTTTTGCG
1 GATAAAATATTTTTTGCG
16304655 G
1 G
16304656 CGTTTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.43
Consensus pattern (18 bp):
GATAAAATATTTTTTGCG
Found at i:16304937 original size:154 final size:154
Alignment explanation
Indices: 16304652--16304970 Score: 387
Period size: 154 Copynumber: 2.1 Consensus size: 154
16304642 AATATTTTTT
* ** * *
16304652 GCGGCG-TTTTTCAAAAAGCACCACTAATGCCACTAAAGCTCAACATAAAACGACAGCGTTGTGT
1 GCGGCGTTTTTTGAAAAA-CACTGCTAATGCCACTAAAGCTCAACATAAAACGACAGCGTTATGC
*
16304716 TTAATTTTTTGCGGCGTTTTTAAAAAATCGTCGCTAATGATCGACCTATAGCAGCGATTTCAAAA
65 TTAATTTTTTGCAGCGTTTTTAAAAAATCGTCGCTAATGATCGACCTATAGCAGCGATTTCAAAA
* * *
16304781 AAGCGCCGCTAAAGCTCGATCTATA
130 AAGCGCCACTAAAGATCGACCTATA
* * * *
16304806 GCGGTGTTTTTTGAAAAACACTGCTAATGCCATTAAATCTCAACATAAAACGAC-GGGTTATGCT
1 GCGGCGTTTTTTGAAAAACACTGCTAATGCCACTAAAGCTCAACATAAAACGACAGCGTTATGCT
* * * *
16304870 TAATTTTTTTGCAGCGTTTTTCAAAAAGTGGT-GCTAATGGTCGACCTATAGCGGC-ATTTTTC-
66 TAA-TTTTTTGCAGCGTTTTT-AAAAAATCGTCGCTAATGATCGACCTATAGCAGCGA--TTTCA
*
16304932 AAAAAGCTCCACTAAAGATCGACCTATA
127 AAAAAGCGCCACTAAAGATCGACCTATA
*
16304960 GTGGCGTTTTT
1 GCGGCGTTTTT
16304971 AAAAAGTGCC
Statistics
Matches: 140, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
153 11 0.08
154 107 0.76
155 22 0.16
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (154 bp):
GCGGCGTTTTTTGAAAAACACTGCTAATGCCACTAAAGCTCAACATAAAACGACAGCGTTATGCT
TAATTTTTTGCAGCGTTTTTAAAAAATCGTCGCTAATGATCGACCTATAGCAGCGATTTCAAAAA
AGCGCCACTAAAGATCGACCTATA
Found at i:16304998 original size:39 final size:40
Alignment explanation
Indices: 16304883--16305049 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
16304873 TTTTTTTGCA
* ** * * *
16304883 GCGTTTTTCAAAAAGTGGTGCTAATGGTCGACCTATAGCG
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGTG
* * * * * *
16304923 GCATTTTTCAAAAAGCTCCACTAAAGATCGACCTATAGTG
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGTG
* *
16304963 GCGTTTTT-AAAAAGTGCCGCTAATGCGT-GATCTATAGCG
1 GCGTTTTTCAAAAAGCGCCGCTAATGC-TCGATCTATAGTG
* *
16305002 ACGTTTTTCAAAAAGCGTCGCTAATGCTCGATCTATAGTG
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGTG
16305042 GCGTTTTT
1 GCGTTTTT
16305050 TATCCAAACA
Statistics
Matches: 102, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
39 30 0.29
40 72 0.71
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (40 bp):
GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGTG
Found at i:16305038 original size:79 final size:80
Alignment explanation
Indices: 16304883--16305049 Score: 214
Period size: 79 Copynumber: 2.1 Consensus size: 80
16304873 TTTTTTTGCA
** *
16304883 GCGTTTTTCAAAAAGTGGTGCTAATGGTCGACCTATAGCGGCATTTTTCAAAAAGCTCCACTAAA
1 GCGTTTTTCAAAAAGTGCCGCTAATGGTCGACCTATAGCGACATTTTTCAAAAAGCTCCACTAAA
16304948 GATCGACCTATAGTG
66 GATCGACCTATAGTG
* * *
16304963 GCGTTTTT-AAAAAGTGCCGCTAATGCGT-GATCTATAGCGACGTTTTTCAAAAAGCGT-CGCTA
1 GCGTTTTTCAAAAAGTGCCGCTAATG-GTCGACCTATAGCGACATTTTTCAAAAAGC-TCCACTA
* * *
16305025 ATGCTCGATCTATAGTG
64 AAGATCGACCTATAGTG
16305042 GCGTTTTT
1 GCGTTTTT
16305050 TATCCAAACA
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
79 65 0.86
80 11 0.14
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (80 bp):
GCGTTTTTCAAAAAGTGCCGCTAATGGTCGACCTATAGCGACATTTTTCAAAAAGCTCCACTAAA
GATCGACCTATAGTG
Found at i:16311608 original size:15 final size:15
Alignment explanation
Indices: 16311588--16311619 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16311578 GATTTCACTA
*
16311588 TTATGTCTTTTTTAT
1 TTATGTCTTTTATAT
16311603 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
16311618 TT
1 TT
16311620 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.06, T:0.72
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:16319803 original size:25 final size:25
Alignment explanation
Indices: 16319733--16319819 Score: 102
Period size: 25 Copynumber: 3.5 Consensus size: 25
16319723 ATCTCGTAAA
* *
16319733 AGCATACCGATTTATAGCTCATGAA
1 AGCATACCGATTTATAGCTCGTGAG
* *
16319758 AGCAAACTGATTTATAGCTCGTGAG
1 AGCATACCGATTTATAGCTCGTGAG
* * * *
16319783 AGCATACCAATCTATAGCTCGAGTG
1 AGCATACCGATTTATAGCTCGTGAG
16319808 AGCATACCGATT
1 AGCATACCGATT
16319820 CTTGGCTCGT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (25 bp):
AGCATACCGATTTATAGCTCGTGAG
Found at i:16319827 original size:25 final size:25
Alignment explanation
Indices: 16319770--16319837 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
16319760 CAAACTGATT
16319770 TATAGCTCGTGA-GAGCATACCAATC
1 TATAGCTCGT-ATGAGCATACCAATC
*
16319795 TATAGCTCG-AGTGAGCATACCGATTC
1 TATAGCTCGTA-TGAGCATACC-AATC
*
16319821 T-TGGCTCGTATGAGCAT
1 TATAGCTCGTATGAGCAT
16319838 TTATGTACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
23 1 0.03
25 31 0.84
26 5 0.14
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (25 bp):
TATAGCTCGTATGAGCATACCAATC
Found at i:16322503 original size:78 final size:81
Alignment explanation
Indices: 16322368--16322551 Score: 252
Period size: 78 Copynumber: 2.3 Consensus size: 81
16322358 TTGAATGATG
*
16322368 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
16322432 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
16322447 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
16322509 TTGTGCGAGTTACTATA
65 TTGTGCGAGTTACTATA
* *
16322526 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16322552 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
77 1 0.01
78 50 0.54
79 28 0.30
80 14 0.15
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:16322565 original size:40 final size:39
Alignment explanation
Indices: 16322369--16322551 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 39
16322359 TGAATGATGT
* * * *
16322369 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
16322409 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
16322448 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
16322486 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
16322527 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
16322552 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
38 26 0.20
39 20 0.16
40 72 0.56
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:16322570 original size:80 final size:77
Alignment explanation
Indices: 16322421--16322584 Score: 222
Period size: 79 Copynumber: 2.1 Consensus size: 77
16322411 GGACTAAGAT
* **
16322421 CCGAAGGCATTTGTGCGAGTTACTAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGAAGGCATTTGTGCGAGTTACTAAACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
*
16322486 TCCGGGTTAAGTC
66 TCC-GGTTAAATC
*
16322499 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CT
* *
16322563 ATATCCGGTTAAATT
63 AAATCCGGTTAAATC
16322578 CCGAAGG
1 CCGAAGG
16322585 TACGTGATTT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
78 25 0.33
79 26 0.34
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCGAGTTACTAAACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
TCCGGTTAAATC
Found at i:16330485 original size:21 final size:21
Alignment explanation
Indices: 16330459--16330502 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
16330449 ATCCGGACTA
16330459 AGATCCGAAGGCATTTGTGCG
1 AGATCCGAAGGCATTTGTGCG
16330480 AGATCCGAAGGCATTTGTGCG
1 AGATCCGAAGGCATTTGTGCG
16330501 AG
1 AG
16330503 TTACTAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.23
Consensus pattern (21 bp):
AGATCCGAAGGCATTTGTGCG
Found at i:16330623 original size:80 final size:79
Alignment explanation
Indices: 16330484--16330649 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 79
16330474 TGTGCGAGAT
* **
16330484 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
16330548 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
16330564 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
16330628 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
16330643 CCGAAGG
1 CCGAAGG
16330650 TACGTGATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.21
80 59 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:16330630 original size:40 final size:40
Alignment explanation
Indices: 16330484--16330616 Score: 232
Period size: 40 Copynumber: 3.3 Consensus size: 40
16330474 TGTGCGAGAT
16330484 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
16330524 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
* *
16330564 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTC
16330604 CCGAAGGCATTTG
1 CCGAAGGCATTTG
16330617 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
40 88 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:16338740 original size:25 final size:25
Alignment explanation
Indices: 16338712--16338780 Score: 129
Period size: 25 Copynumber: 2.8 Consensus size: 25
16338702 TAATCTACAA
16338712 CTCATGAGAGCATACCGATTTATAG
1 CTCATGAGAGCATACCGATTTATAG
16338737 CTCATGAGAGCATACCGATTTATAG
1 CTCATGAGAGCATACCGATTTATAG
*
16338762 CTCGTGAGAGCATACCGAT
1 CTCATGAGAGCATACCGAT
16338781 CTACAATTCG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (25 bp):
CTCATGAGAGCATACCGATTTATAG
Found at i:16342470 original size:138 final size:138
Alignment explanation
Indices: 16342212--16342488 Score: 385
Period size: 138 Copynumber: 2.0 Consensus size: 138
16342202 AGCTATTAAA
* * * *
16342212 TGGGCCTGCTCACACAAGCTGTCGGTCGAAATGTAAGCTACACGATGCTGCTCACACAAGCTGTT
1 TGGGCCTGCGCACACAAGCTGTCGGTCGAAATGCAAGCTACACGATGCTGCTCACACAAGCTATC
* * * *
16342277 GAGTATCCGCAACTAATGCAGGACCTCAGCCATCAGTAGGACATTCAAGACCAGCATCCGAA-AC
66 GAGTATCCGCAACTAATGCACGAACTCAGCCACCAGTAGGACATTCAAGACCAGCA-CCCAAGAC
16342341 ATGGTAACC
130 ATGGTAACC
* * *
16342350 TGGGTCTGCGCACACAAGCTGTCGGTCGAAATGCAAGCTACACGATGTTGCTCACACATGCTATC
1 TGGGCCTGCGCACACAAGCTGTCGGTCGAAATGCAAGCTACACGATGCTGCTCACACAAGCTATC
* * * * * *
16342415 GAGTATCCGCAACTAATGCCCGAATTCAGCCACCGGTAGGACATTTAGGGCCAGCACCCAAGACA
66 GAGTATCCGCAACTAATGCACGAACTCAGCCACCAGTAGGACATTCAAGACCAGCACCCAAGACA
16342480 TGGTAACC
131 TGGTAACC
16342488 T
1 T
16342489 TAATGACATG
Statistics
Matches: 121, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
137 4 0.03
138 117 0.97
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (138 bp):
TGGGCCTGCGCACACAAGCTGTCGGTCGAAATGCAAGCTACACGATGCTGCTCACACAAGCTATC
GAGTATCCGCAACTAATGCACGAACTCAGCCACCAGTAGGACATTCAAGACCAGCACCCAAGACA
TGGTAACC
Found at i:16346919 original size:55 final size:54
Alignment explanation
Indices: 16346858--16346967 Score: 125
Period size: 55 Copynumber: 2.0 Consensus size: 54
16346848 TTGCTCACAT
* * * *
16346858 GGCCAAGCCATATG-CTCGTGTGCCAGGTCGTGTAGCCTTCGA-AATAACCTTACAC
1 GGCCAAGCCACATGCCT-GTGTGCCAAGTCATGTA-CC-CCGATAATAACCTTACAC
* *
16346913 GGCCAAGCTACATGCCTGTGTGCCAAGTCATGTACCCCTATAATAACCTTACAC
1 GGCCAAGCCACATGCCTGTGTGCCAAGTCATGTACCCCGATAATAACCTTACAC
16346967 G
1 G
16346968 TCCTTGTGCC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
53 2 0.04
54 16 0.34
55 27 0.57
56 2 0.04
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (54 bp):
GGCCAAGCCACATGCCTGTGTGCCAAGTCATGTACCCCGATAATAACCTTACAC
Found at i:16349383 original size:20 final size:20
Alignment explanation
Indices: 16349339--16349383 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
16349329 CCTGTATGAT
16349339 CTTTAATTAACCTTTAAAAA
1 CTTTAATTAACCTTTAAAAA
16349359 C-TTAATTAACCTTTAAAAA
1 CTTTAATTAACCTTTAAAAA
16349378 CTTTAA
1 CTTTAA
16349384 AAATTACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (20 bp):
CTTTAATTAACCTTTAAAAA
Found at i:16350266 original size:206 final size:206
Alignment explanation
Indices: 16349912--16350321 Score: 784
Period size: 206 Copynumber: 2.0 Consensus size: 206
16349902 AGACTAAATC
16349912 TCGACATGTCGAGGAGATAACATGTGAAGGGTCAGATCGGTAACATCGTAACATAGACACATGAA
1 TCGACATGTCGAGGAGATAACATGTGAAGGGTCAGATCGGTAACATCGTAACATAGACACATGAA
*
16349977 AGACATTATGAATCTTTTCGAATTCTGATAGTAAAGCTAACCAATACGCAACAAGGCCGATTCTT
66 AAACATTATGAATCTTTTCGAATTCTGATAGTAAAGCTAACCAATACGCAACAAGGCCGATTCTT
*
16350042 TCAGTAATCTCTTACAGCCCGATAAATCATGGACTTAACTTTCCTTTGTGACAGAACTGAATAAC
131 TCAGTAATCTCTTACAGCCCGATAAATCATGGACTTAACTTTCCTTTGTGACAGAACTGAAGAAC
16350107 TTTCTTCCATT
196 TTTCTTCCATT
* *
16350118 TCGACATGTCGGGGAGATAACATGTGAAGGGTCAGATCGGTAACATTGTAACATAGACACATGAA
1 TCGACATGTCGAGGAGATAACATGTGAAGGGTCAGATCGGTAACATCGTAACATAGACACATGAA
16350183 AAACATTATGAATCTTTTCGAATTCTGATAGTAAAGCTAACCAATACGCAACAAGGCCGATTCTT
66 AAACATTATGAATCTTTTCGAATTCTGATAGTAAAGCTAACCAATACGCAACAAGGCCGATTCTT
16350248 TCAGTAATCTCTTACAGCCCGATAAATCATGGACTTAACTTTCCTTTGTGACAGAACTGAAGAAC
131 TCAGTAATCTCTTACAGCCCGATAAATCATGGACTTAACTTTCCTTTGTGACAGAACTGAAGAAC
16350313 TTTCTTCCA
196 TTTCTTCCA
16350322 GGGTGATACT
Statistics
Matches: 200, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
206 200 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (206 bp):
TCGACATGTCGAGGAGATAACATGTGAAGGGTCAGATCGGTAACATCGTAACATAGACACATGAA
AAACATTATGAATCTTTTCGAATTCTGATAGTAAAGCTAACCAATACGCAACAAGGCCGATTCTT
TCAGTAATCTCTTACAGCCCGATAAATCATGGACTTAACTTTCCTTTGTGACAGAACTGAAGAAC
TTTCTTCCATT
Found at i:16355521 original size:32 final size:32
Alignment explanation
Indices: 16355466--16355668 Score: 266
Period size: 32 Copynumber: 6.4 Consensus size: 32
16355456 GAATGGCTAC
* *
16355466 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * * *
16355497 AAGCCATTAGTAGCAGTGATATGATCGGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
16355529 CAA-CCATCAGTAACGGTAATATAATCGACACA
1 -AAGCCATCAGTAACAGTAATATGATCGGCACA
16355561 AAGCCATCAGTAACAGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
16355593 AAGGCATCAGTAACAGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
16355625 AAGCCATCAGTAACGGTAATATGATCAGCTCA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
16355657 AAGCCATCAGTA
1 AAGCCATCAGTA
16355669 GCATCGCAGC
Statistics
Matches: 149, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
31 12 0.08
32 135 0.91
33 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:16355845 original size:24 final size:24
Alignment explanation
Indices: 16355812--16355894 Score: 114
Period size: 24 Copynumber: 3.5 Consensus size: 24
16355802 GCCATGCTCA
* *
16355812 AAATCAGTCAT-TCAAATCACATAC
1 AAATCAGTCATACCAAA-CACAGAC
*
16355836 AAATCGGTCATACCAAACACAGAC
1 AAATCAGTCATACCAAACACAGAC
*
16355860 AAATCAGTCATACCAAACATAGAC
1 AAATCAGTCATACCAAACACAGAC
16355884 AAATCAGTCAT
1 AAATCAGTCAT
16355895 TTAACCACAG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
24 49 0.92
25 4 0.08
ACGTcount: A:0.47, C:0.25, G:0.08, T:0.19
Consensus pattern (24 bp):
AAATCAGTCATACCAAACACAGAC
Found at i:16355998 original size:27 final size:27
Alignment explanation
Indices: 16355968--16356330 Score: 150
Period size: 27 Copynumber: 13.6 Consensus size: 27
16355958 CATTACAGTG
* *
16355968 ATTTTACCATACAGGAGTATTCCGTTC
1 ATTTTACCATACAGGAGTATTACGATC
* * * *
16355995 ATTTTACCCTATAGGGGTATTATGATC
1 ATTTTACCATACAGGAGTATTACGATC
* * * * *
16356022 ATTTTACCCTA-TGCG-GTATAATGGTC
1 ATTTTACCATACAG-GAGTATTACGATC
* * *
16356048 A-TTTACCTTCCAAGGA-TATTACGATT
1 ATTTTACCATAC-AGGAGTATTACGATC
*** * *
16356074 ATTTTACCATGTGGGGGTATTACGGTC
1 ATTTTACCATACAGGAGTATTACGATC
* **
16356101 ATTTTACC-TGATAGTG-GTATTACGGCC
1 ATTTTACCAT-ACAG-GAGTATTACGATC
* * *
16356128 ATTTTACCCTACAAGG-GCATTACGATA
1 ATTTTACCATAC-AGGAGTATTACGATC
* * * *
16356155 ATTTT-CCCTATAGGGGCATTACGATC
1 ATTTTACCATACAGGAGTATTACGATC
* * * * *
16356181 ATTTTACCCTTCAGGGGTTTTACGGTC
1 ATTTTACCATACAGGAGTATTACGATC
* * * * *
16356208 ATTTTACCCTACAGGGGCATTATGATA
1 ATTTTACCATACAGGAGTATTACGATC
* * * *
16356235 ATTTTACCCTACAGGGGCATTACGGTC
1 ATTTTACCATACAGGAGTATTACGATC
* * * *
16356262 ATTTTACCTTACAGGGGCATTACGGTC
1 ATTTTACCATACAGGAGTATTACGATC
* * *
16356289 ATTTTACCCTACAAGG-GCATTATGATC
1 ATTTTACCATAC-AGGAGTATTACGATC
*
16356316 ATTTTACCCTACAGG
1 ATTTTACCATACAGG
16356331 GTTATTTCCA
Statistics
Matches: 272, Mismatches: 51, Indels: 27
0.78 0.15 0.08
Matches are distributed among these distances:
25 10 0.04
26 45 0.17
27 210 0.77
28 7 0.03
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
ATTTTACCATACAGGAGTATTACGATC
Found at i:16356026 original size:54 final size:53
Alignment explanation
Indices: 16355944--16356457 Score: 312
Period size: 54 Copynumber: 9.6 Consensus size: 53
16355934 AAATGGTCAC
* * * * *
16355944 TTACCCTACAGGGGCATTAC-AGTGATTTTACCATACAGGAGTATTCCGTTCATT
1 TTACCCTACAGGGGTATTACGA-TCATTTTACCCTACAGG-GTATTACGGTCATT
* * * * *
16355998 TTACCCTATAGGGGTATTATGATCATTTTACCCTA-TGCGGTATAATGGTCA-T
1 TTACCCTACAGGGGTATTACGATCATTTTACCCTACAG-GGTATTACGGTCATT
* * * * * * ***
16356050 TTACCTTCCAAGGATATTACGATTATTTTACCATGTGGGGGTATTACGGTCATT
1 TTACCCTACAGGGGTATTACGATCATTTTACCCT-ACAGGGTATTACGGTCATT
* * ** * * *
16356104 TTA-CCTGATAGTGGTATTACGGCCATTTTACCCTACAAGGGCATTACGATAATT
1 TTACCCT-ACAGGGGTATTACGATCATTTTACCCTAC-AGGGTATTACGGTCATT
* * * *
16356158 TT-CCCTATAGGGGCATTACGATCATTTTACCCTTCAGGGGTTTTACGGTCATT
1 TTACCCTACAGGGGTATTACGATCATTTTACCCTACA-GGGTATTACGGTCATT
* * * *
16356211 TTACCCTACAGGGGCATTATGATAATTTTACCCTACAGGGGCATTACGGTCATT
1 TTACCCTACAGGGGTATTACGATCATTTTACCCTACA-GGGTATTACGGTCATT
* * * * * *
16356265 TTACCTTACAGGGGCATTACGGTCATTTTACCCTACAAGGGCATTATGATCATT
1 TTACCCTACAGGGGTATTACGATCATTTTACCCTAC-AGGGTATTACGGTCATT
* * * * * *
16356319 TTACCCTACAGGGTTATTTCCA-CATTTTACCCTACGGCGGTAATT-CAGTTATT
1 TTACCCTACAGGGGTATTACGATCATTTTACCCTACAG-GGT-ATTACGGTCATT
* * * * * *
16356372 TTACCTTTC-GGGAGTATTTC-AGT-ATTCTACCCTTCGAGGGTATTTCGGTCATT
1 TTACCCTACAGGG-GTATTACGA-TCATTTTACCCTAC-AGGGTATTACGGTCATT
* * * *
16356425 TTATCCTATAGTGGTATTTC-AGTCATTTTACCC
1 TTACCCTACAGGGGTATTACGA-TCATTTTACCC
16356458 GTTAGGGGCA
Statistics
Matches: 355, Mismatches: 85, Indels: 40
0.74 0.18 0.08
Matches are distributed among these distances:
52 36 0.10
53 126 0.35
54 191 0.54
55 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.37
Consensus pattern (53 bp):
TTACCCTACAGGGGTATTACGATCATTTTACCCTACAGGGTATTACGGTCATT
Found at i:16356049 original size:26 final size:27
Alignment explanation
Indices: 16355993--16356051 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
16355983 AGTATTCCGT
* *
16355993 TCATTTTACCCTATAGGGGTATTATGA
1 TCATTTTACCCTATAGCGGTATAATGA
*
16356020 TCATTTTACCCTAT-GCGGTATAATGG
1 TCATTTTACCCTATAGCGGTATAATGA
16356046 TCATTT
1 TCATTT
16356052 ACCTTCCAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATAGCGGTATAATGA
Found at i:16356207 original size:107 final size:108
Alignment explanation
Indices: 16356065--16356353 Score: 289
Period size: 107 Copynumber: 2.7 Consensus size: 108
16356055 TTCCAAGGAT
* * * * * * * *
16356065 ATTACGATTATTTTACCATGTGGGGGTATTACGGTCATTTTA-CCTGATAGTGGTATTACGGCCA
1 ATTACGATCATTTTACCCTGTAGGGGTATTACGGTCATTTTACCCT-ACAGGGGCATTACGACAA
*
16356129 TTTTACCCTACAAGGGCATTACGATAATTTT-CCCTATAGGGGC
65 TTTTACCCTACAAGGGCATTACGATAATTTTACCCTACAGGGGC
* * *
16356172 ATTACGATCATTTTACCCT-TCAGGGGTTTTACGGTCATTTTACCCTACAGGGGCATTATGATAA
1 ATTACGATCATTTTACCCTGT-AGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGACAA
* * * *
16356236 TTTTACCCTACAGGGGCATTACGGTCATTTTACCTTACAGGGGC
65 TTTTACCCTACAAGGGCATTACGATAATTTTACCCTACAGGGGC
* ** * * * * ** * *
16356280 ATTACGGTCATTTTACCCTACAAGGGCATTATGATCATTTTACCCTACAGGGTTATTTCCAC-AT
1 ATTACGATCATTTTACCCTGTAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGACAAT
16356344 TTTACCCTAC
66 TTTACCCTAC
16356354 GGCGGTAATT
Statistics
Matches: 149, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
106 1 0.01
107 87 0.58
108 61 0.41
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (108 bp):
ATTACGATCATTTTACCCTGTAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGACAAT
TTTACCCTACAAGGGCATTACGATAATTTTACCCTACAGGGGC
Found at i:16356285 original size:81 final size:81
Alignment explanation
Indices: 16356087--16356331 Score: 359
Period size: 81 Copynumber: 3.0 Consensus size: 81
16356077 TTACCATGTG
* * * * * *
16356087 GGGGTATTACGGTCATTTTACCTGATAGTGGTATTACGGCCATTTTACCCTACAAGGGCATTACG
1 GGGGCATTACGGTCATTTTACCTTACAGGGGTATTACGGTCATTTTACCCTACAAGGGCATTATG
*
16356152 ATAATTTT-CCCTATA
66 ATAATTTTACCCTACA
* * *
16356167 GGGGCATTACGATCATTTTACCCTT-CAGGGGTTTTACGGTCATTTTACCCTACAGGGGCATTAT
1 GGGGCATTACGGTCATTTTA-CCTTACAGGGGTATTACGGTCATTTTACCCTACAAGGGCATTAT
16356231 GATAATTTTACCCTACA
65 GATAATTTTACCCTACA
*
16356248 GGGGCATTACGGTCATTTTACCTTACAGGGGCATTACGGTCATTTTACCCTACAAGGGCATTATG
1 GGGGCATTACGGTCATTTTACCTTACAGGGGTATTACGGTCATTTTACCCTACAAGGGCATTATG
*
16356313 ATCATTTTACCCTACA
66 ATAATTTTACCCTACA
16356329 GGG
1 GGG
16356332 TTATTTCCAC
Statistics
Matches: 147, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
80 64 0.44
81 83 0.56
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (81 bp):
GGGGCATTACGGTCATTTTACCTTACAGGGGTATTACGGTCATTTTACCCTACAAGGGCATTATG
ATAATTTTACCCTACA
Found at i:16356407 original size:26 final size:27
Alignment explanation
Indices: 16356357--16356417 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
16356347 ACCCTACGGC
* * *
16356357 GGTAATTCAGTTATTTTACCTTTCG-G
1 GGTATTTCAGTTATTCTACCCTTCGAG
16356383 GAGTATTTCAG-TATTCTACCCTTCGAG
1 G-GTATTTCAGTTATTCTACCCTTCGAG
16356410 GGTATTTC
1 GGTATTTC
16356418 GGTCATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.43
Consensus pattern (27 bp):
GGTATTTCAGTTATTCTACCCTTCGAG
Found at i:16356470 original size:27 final size:26
Alignment explanation
Indices: 16356179--16356471 Score: 125
Period size: 27 Copynumber: 10.9 Consensus size: 26
16356169 GGCATTACGA
*
16356179 TCATTTTACCCTTCAGGGGT-TTTACGG
1 TCATTTTACCCTT-AGGGGTATTT-CAG
* * *
16356206 TCATTTTACCCTACAGGGGCATTATGA-
1 TCATTTTACCCT-TAGGGGTATT-TCAG
* * * * *
16356233 TAATTTTACCCTACAGGGGCATTACGG
1 TCATTTTACCCT-TAGGGGTATTTCAG
* * *
16356260 TCATTTTA-CCTTACAGGGGCATTACGG
1 TCATTTTACCCTT--AGGGGTATTTCAG
* * * *
16356287 TCATTTTACCCTACAAGGGCATTATGA-
1 TCATTTTACCCT-TAGGGGTATT-TCAG
* *
16356314 TCATTTTACCCTACAGGGTTATTTCCA-
1 TCATTTTACCCT-TAGGGGTATTT-CAG
*
16356341 -CATTTTACCC-TACGGCGGTAATTCAG
1 TCATTTTACCCTTA-GG-GGTATTTCAG
* * *
16356367 TTATTTTACCTTTCGGGAGTATTTCAG
1 TCATTTTACCCTTAGGG-GTATTTCAG
* * *
16356394 T-ATTCTACCCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTAG-GGGTATTTCAG
* *
16356420 TCATTTTATCCTATAGTGGTATTTCAG
1 TCATTTTACCCT-TAGGGGTATTTCAG
*
16356447 TCATTTTACCCGTTAGGGGCATTTC
1 TCATTTTACCC-TTAGGGGTATTTC
16356472 GGTGCAGATA
Statistics
Matches: 209, Mismatches: 37, Indels: 40
0.73 0.13 0.14
Matches are distributed among these distances:
24 1 0.00
25 4 0.02
26 40 0.19
27 154 0.74
28 9 0.04
29 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (26 bp):
TCATTTTACCCTTAGGGGTATTTCAG
Found at i:16360840 original size:13 final size:13
Alignment explanation
Indices: 16360819--16360869 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
16360809 ACACTTAAGT
16360819 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
16360832 TTCTCAAAAGAAC
1 TTTTCAAAAGCAC
* *
16360845 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
16360858 TTTTCAAAAGCA
1 TTTTCAAAAGCA
16360870 ATGAAGAACT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.29
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:16370694 original size:275 final size:274
Alignment explanation
Indices: 16369721--16371228 Score: 1955
Period size: 275 Copynumber: 5.5 Consensus size: 274
16369711 AAAAAAAGAT
* * * *
16369721 TTATATTCTTTTCAAAATAATATTAATTT-CATGTCTTTTATACTTTGA-TCGAAAGTAATTAAT
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACT-GAAATTAATTAAT
* * *
16369784 AAAACTATTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATTAAATTC
65 ATAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
* * * *
16369849 ATATATTAATTATATTCTTTCCAAAGGACA-ATTAATTTCCATGTCTTTTATAGTTTGAACTAAA
130 ATATATTAATTATATTCTTTCCAAAGGA-ATATTAATTTTCATGTCTTTTATATTTTGACCAAAA
*
16369913 TTAATTAATATAATTTTTTATATTAAGT-AATTCGGTAAAATATATACAATTAATATTTTGTATG
194 TTAATTAATATAATTGTTTATATTAA-TAAATTCGGT--AATATATACAATTAATATTTTGTATG
*
16369977 AATCAAATTCATTTATTAA
256 AATCAAATTCATATATTAA
* * * *
16369996 TTATATTCTTTCCAAAAGAATAGTAATTTTCATGCCTTTTATATTTTGA-TAGAAAATAATTAAT
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACT-GAAATTAATTAAT
* * * *
16370060 ATAATTGTTTATATTAACT-AATTCCGTAAAATATATATAATTAATATTTTGTATGAATCAATTT
65 ATAACTGTTTATATTAA-TAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
* * * * * *
16370124 GATAAATTAATTATATTGTTTCCAAGAGG-ATATTAATTTTAATATCTTTTATATTTTGGCCAAA
129 CATATATTAATTATATTCTTTCCAA-AGGAATATTAATTTTCATGTCTTTTATATTTTGACCAAA
* *
16370188 ATTAATTAATATAATTG----T-TTAATAAATTCGGTAAAACATATACAATTAATATTTTATATG
193 ATTAATTAATATAATTGTTTATATTAATAAATTCGGT--AATATATACAATTAATATTTTGTATG
*
16370248 AATCAAATCCATATATTAA
256 AATCAAATTCATATATTAA
* * *
16370267 TTATATTCTTTCC-AAAG-A-A-T--TTTCCATCTCTTTTATA-TTTGACCGAAATTAGTTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAATA
* * ** * *
16370325 TAACTTTTTATATTAATAAAATGGGTAAAATGTATATAATTAATATTTTGTATGAATCAAATTCA
66 TAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
*
16370390 TATATTAATTATATTCTTTCGAAAGGAATATTAATTTTCATGTCTTTTATATTTTGACCAAAATT
131 TATATTAATTATATTCTTTCCAAAGGAATATTAATTTTCATGTCTTTTATATTTTGACCAAAATT
* * *
16370455 AATTAATATAATTGTTTATATTAATAAATTTGGT-ATATATACAATGAATATTTTGTATAAATCA
196 AATTAATATAATTGTTTATATTAATAAATTCGGTAATATATACAATTAATATTTTGTATGAATCA
16370519 AATTCATATATTAA
261 AATTCATATATTAA
*
16370533 TTATATTCTTTCCAAAAGAATATTAATTCCCATGTCTTTTATATTTTGACTGAAATTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAATA
* *
16370598 TAATTGTTTATATTAATAAATTCGGTAATATATATATACAATTAATATTTTGTATGAATCAAATT
66 TAACTGTTTATATTAATAAATTCAGTAA-A-ATATATACAATTAATATTTTGTATGAATCAAATT
* * * * * * ***
16370663 TATATATTAATTATATTCTTTCGAGAGGAATATTAATTTTCATATCTTTTTTATTTTCACTGCAA
129 CATATATTAATTATATTCTTTCCAAAGGAATATTAATTTTCATGTCTTTTATATTTTGACCAAAA
* * * * *
16370728 TTAATTAATATAGTTGTTTATATTATTAAATTTGGTAAAATATATACATTTAATATTTTGTAGGA
194 TTAATTAATATAATTGTTTATATTAATAAATTCGGT--AATATATACAATTAATATTTTGTATGA
16370793 ATCAAATTCATATATTAA
257 ATCAAATTCATATATTAA
* *
16370811 TTATATTC-TTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAGTTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAATA
* * * *
16370875 TAACAGTTTATACTAATAAATTCAGTAAAATATATACAATTAATATTTTGTAGGAATCAAGTTCA
66 TAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
* * * *
16370940 TATATTAATTATATTC-TTCCAAAAGAATATTAATTTTCATGTATTTTATATTTTGATCGAAATT
131 TATATTAATTATATTCTTTCCAAAGGAATATTAATTTTCATGTCTTTTATATTTTGACCAAAATT
* ** *
16371004 AGTTAATATAACAGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAAT
196 AATTAATATAATTGTTTATATTAATAAATTCGGT--AATATATACAATTAATATTTTGTATGAAT
*
16371069 CAATTTCATATATTAA
259 CAAATTCATATATTAA
* * *
16371085 TTATATTATTTCCAAAATAATATTAATTTTCATGTCTTTTATATTTTGAAC-GAAATTAATTAAT
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTG-ACTGAAATTAATTAAT
* * * * *
16371149 GTAACTATTTATATTAATAAATTCAGTAAAATATATACATTTAATATTTTGTATGAATCAATTTT
65 ATAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
16371214 ATATATTAATTATAT
130 ATATATTAATTATAT
16371229 CTATGTTCTT
Statistics
Matches: 1085, Mismatches: 121, Indels: 54
0.86 0.10 0.04
Matches are distributed among these distances:
263 4 0.00
264 141 0.13
265 14 0.01
266 52 0.05
267 5 0.00
268 3 0.00
269 15 0.01
270 6 0.01
271 68 0.06
272 16 0.01
273 43 0.04
274 117 0.11
275 320 0.29
276 152 0.14
277 81 0.07
278 48 0.04
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.46
Consensus pattern (274 bp):
TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAATA
TAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
TATATTAATTATATTCTTTCCAAAGGAATATTAATTTTCATGTCTTTTATATTTTGACCAAAATT
AATTAATATAATTGTTTATATTAATAAATTCGGTAATATATACAATTAATATTTTGTATGAATCA
AATTCATATATTAA
Found at i:16370876 original size:70 final size:68
Alignment explanation
Indices: 16370802--16371013 Score: 150
Period size: 70 Copynumber: 3.1 Consensus size: 68
16370792 AATCAAATTC
16370802 ATATATTAATTATATTCTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATT
1 ATATATTAATTATATTCTTCCAAAAGAATATTAATTT-CATGTCTTTTATATTTTGA-CGAAATT
16370867 AGTTA
64 AGTTA
** * * * * ** * * * *
16370872 ATATAACAGTT-TATAC-T--AATAA-ATTCAGTAAAAT-ATATACAATTAATATTTTGTA-GGA
1 ATATATTAATTATATTCTTCCAA-AAGAAT-ATTAATTTCATGT-C-TTTTATATTTTG-ACGAA
* *
16370930 ATCAAGTTC
61 AT-TAGTTA
*
16370939 ATATATTAATTATATTCTTCCAAAAGAATATTAATTTTCATGTATTTTATATTTTGATCGAAATT
1 ATATATTAATTATATTCTTCCAAAAGAATATTAA-TTTCATGTCTTTTATATTTTGA-CGAAATT
16371004 AGTTA
64 AGTTA
16371009 ATATA
1 ATATA
16371014 ACAGTTTATA
Statistics
Matches: 98, Mismatches: 29, Indels: 30
0.62 0.18 0.19
Matches are distributed among these distances:
65 3 0.03
66 9 0.09
67 29 0.30
68 6 0.06
69 6 0.06
70 33 0.34
71 9 0.09
72 3 0.03
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.44
Consensus pattern (68 bp):
ATATATTAATTATATTCTTCCAAAAGAATATTAATTTCATGTCTTTTATATTTTGACGAAATTAG
TTA
Found at i:16370884 original size:137 final size:138
Alignment explanation
Indices: 16369721--16371228 Score: 1969
Period size: 138 Copynumber: 11.0 Consensus size: 138
16369711 AAAAAAAGAT
* * * * *
16369721 TTATATTCTTTTCAAAATAATATTAA-TTTCATGTCTTTTATACTTTGATCGAAAGTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
* * * *
16369785 AAACTATTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATTAAATTCA
66 TAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
16369850 TATATTAA
131 TATATTAA
* * * * *
16369858 TTATATTCTTTCCAAAGGACA-ATTAATTTCCATGTCTTTTATAGTTTGAACTAAATTAATTAAT
1 TTATATTCTTTCCAAAAGA-ATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAAT
* *
16369922 ATAATTTTTTATATTAAGT-AATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
65 ATAACTGTTTATATTAA-TAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
16369986 CATTTATTAA
129 CATATATTAA
* * ** *
16369996 TTATATTCTTTCCAAAAGAATAGTAATTTTCATGCCTTTTATATTTTGATAGAAAATAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
* * * * *
16370061 TAATTGTTTATATTAACT-AATTCCGTAAAATATATATAATTAATATTTTGTATGAATCAATTTG
66 TAACTGTTTATATTAA-TAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
*
16370125 ATAAATTAA
130 ATATATTAA
* * * * * * *
16370134 TTATATTGTTTCCAAGAGGATATTAATTTTAATATCTTTTATATTTTGGCCAAAATTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
* * * *
16370199 TAA----TTGT-TTAATAAATTCGGTAAAACATATACAATTAATATTTTATATGAATCAAATCCA
66 TAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
16370259 TATATTAA
131 TATATTAA
* * *
16370267 TTATATTCTTTCC-AAAG-A-A-T--TTTCCATCTCTTTTATA-TTTGACCGAAATTAGTTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
* * * * *
16370325 TAACTTTTTATATTAATAAAATGGGTAAAATGTATATAATTAATATTTTGTATGAATCAAATTCA
66 TAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
16370390 TATATTAA
131 TATATTAA
* * *
16370398 TTATATTCTTTCGAAAGGAATATTAATTTTCATGTCTTTTATATTTTGACCAAAATTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
* * * *
16370463 TAATTGTTTATATTAATAAATTTGGT---ATATATACAATGAATATTTTGTATAAATCAAATTCA
66 TAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
16370525 TATATTAA
131 TATATTAA
** *
16370533 TTATATTCTTTCCAAAAGAATATTAATTCCCATGTCTTTTATATTTTGACTGAAATTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
*
16370598 TAATTGTTTATATTAATAAATTCGGTAATATATATATACAATTAATATTTTGTATGAATCAAATT
66 TAACTGTTTATATTAATAAATTCGGTAA-A-ATATATACAATTAATATTTTGTATGAATCAAATT
*
16370663 TATATATTAA
129 CATATATTAA
* * * * * * * *
16370673 TTATATTCTTTCGAGAGGAATATTAATTTTCATATCTTTTTTATTTTCACTGCAATTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
** * * * *
16370738 TAGTTGTTTATATTATTAAATTTGGTAAAATATATACATTTAATATTTTGTAGGAATCAAATTCA
66 TAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
16370803 TATATTAA
131 TATATTAA
* *
16370811 TTATATTC-TTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAGTTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
* * * * *
16370875 TAACAGTTTATACTAATAAATTCAGTAAAATATATACAATTAATATTTTGTAGGAATCAAGTTCA
66 TAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
16370940 TATATTAA
131 TATATTAA
* * *
16370948 TTATATTC-TTCCAAAAGAATATTAATTTTCATGTATTTTATATTTTGATCGAAATTAGTTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
* * *
16371012 TAACAGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAATTTCA
66 TAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
16371077 TATATTAA
131 TATATTAA
* * * *
16371085 TTATATTATTTCCAAAATAATATTAATTTTCATGTCTTTTATATTTTGAACGAAATTAATTAATG
1 TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
* * * * *
16371150 TAACTATTTATATTAATAAATTCAGTAAAATATATACATTTAATATTTTGTATGAATCAATTTTA
66 TAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
16371215 TATATTAA
131 TATATTAA
16371223 TTATAT
1 TTATAT
16371229 CTATGTTCTT
Statistics
Matches: 1206, Mismatches: 142, Indels: 45
0.87 0.10 0.03
Matches are distributed among these distances:
126 21 0.02
127 14 0.01
129 1 0.00
130 4 0.00
131 67 0.06
132 7 0.01
133 64 0.05
134 4 0.00
135 125 0.10
137 285 0.24
138 490 0.41
139 2 0.00
140 122 0.10
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.46
Consensus pattern (138 bp):
TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
TAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
TATATTAA
Found at i:16370943 original size:67 final size:67
Alignment explanation
Indices: 16370867--16371080 Score: 157
Period size: 67 Copynumber: 3.1 Consensus size: 67
16370857 GACCGAAATT
16370867 AGTTAATATAACAGTTTATACTAATAAATTCAGTAAAATATATACAATTAATATTTTGTAGGAAT
1 AGTTAATATAACAGTTTATACTAATAAATTCAGTAAAATATATACAATTAATATTTTGTAGGAAT
16370932 CA
66 CA
* ** * * * * * * ** * *
16370934 AGTTCATATATTAATTATATTCTTCCAA-AAGAAT-A-TTAATTTTCATGTATTTTATATTTTGA
1 AGTTAATATAACAGTT-TATAC-T--AATAA-ATTCAGTAAAATAT-ATACAATTAATATTTTG-
* * *
16370996 TCGAAAT-T
59 TAGGAATCA
* *
16371004 AGTTAATATAACAGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAAT
1 AGTTAATATAACAGTTTATACTAATAAATTCAGTAAAATATATACAATTAATATTTTGTAGGAAT
16371069 CA
66 CA
* *
16371071 ATTTCATATA
1 AGTTAATATA
16371081 TTAATTATAT
Statistics
Matches: 100, Mismatches: 36, Indels: 22
0.63 0.23 0.14
Matches are distributed among these distances:
66 8 0.08
67 36 0.36
68 10 0.10
69 9 0.09
70 28 0.28
71 9 0.09
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (67 bp):
AGTTAATATAACAGTTTATACTAATAAATTCAGTAAAATATATACAATTAATATTTTGTAGGAAT
CA
Found at i:16376190 original size:26 final size:27
Alignment explanation
Indices: 16376154--16376415 Score: 267
Period size: 26 Copynumber: 10.0 Consensus size: 27
16376144 CATTATGGGT
16376154 CTCAATGGGTAAATTA-CAGAAATACC
1 CTCAATGGGTAAATTATCAGAAATACC
*
16376180 CTCAATGGGTAAATTA-CAGAAATATC
1 CTCAATGGGTAAATTATCAGAAATACC
* * *
16376206 CTCAGTGGGTAAATTAT-TGAAATAAC
1 CTCAATGGGTAAATTATCAGAAATACC
*
16376232 CTCAATGGGTAAATTACCA-AAATACC
1 CTCAATGGGTAAATTATCAGAAATACC
* *
16376258 CTCAATGGGTAAATTA-CTGAAATACT
1 CTCAATGGGTAAATTATCAGAAATACC
*
16376284 CTCGATGGGTAAATTATCA-AAATACC
1 CTCAATGGGTAAATTATCAGAAATACC
** *
16376310 CTTGATAGGTAAATTATCA-AAATACC
1 CTCAATGGGTAAATTATCAGAAATACC
* * *
16376336 CTCAAAGGGTAAATTACCA-ACATACC
1 CTCAATGGGTAAATTATCAGAAATACC
* *
16376362 CTCAATGGGAAAACTATC-GAAATACCC
1 CTCAATGGGTAAATTATCAGAAATA-CC
* *
16376389 CTGAA-GGGTAGAATTA-CTGAAATACC
1 CTCAATGGGTA-AATTATCAGAAATACC
16376415 C
1 C
16376416 CTGAAGGGTA
Statistics
Matches: 199, Mismatches: 29, Indels: 16
0.82 0.12 0.07
Matches are distributed among these distances:
25 1 0.01
26 181 0.91
27 17 0.09
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.25
Consensus pattern (27 bp):
CTCAATGGGTAAATTATCAGAAATACC
Found at i:16376410 original size:27 final size:27
Alignment explanation
Indices: 16376380--16376471 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
16376370 GAAAACTATC
16376380 GAAATACCCCTGAAGGGTAGAATTACT
1 GAAATACCCCTGAAGGGTAGAATTACT
*
16376407 GAAATACCCCTGAAGGGTAGAACTACT
1 GAAATACCCCTGAAGGGTAGAATTACT
* * *
16376434 AAAATACACCC-GAAGGATAGAATGACT
1 GAAATAC-CCCTGAAGGGTAGAATTACT
**
16376461 GTTATACCCCT
1 GAAATACCCCT
16376472 AGGGGATGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.05
27 49 0.89
28 3 0.05
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (27 bp):
GAAATACCCCTGAAGGGTAGAATTACT
Found at i:16377231 original size:17 final size:18
Alignment explanation
Indices: 16377209--16377249 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
16377199 CTTAACGAAC
16377209 ACAAATA-AGTTTTCACA
1 ACAAATACAGTTTTCACA
*
16377226 ACAAATACTATTTTTCACA
1 ACAAATAC-AGTTTTCACA
16377245 ACAAA
1 ACAAA
16377250 CATGTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
19 14 0.67
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (18 bp):
ACAAATACAGTTTTCACA
Found at i:16389039 original size:26 final size:26
Alignment explanation
Indices: 16388999--16389186 Score: 193
Period size: 26 Copynumber: 7.2 Consensus size: 26
16388989 TATGAGTCTT
* *
16388999 AATGGGTAAACTACCGAAATACACTC
1 AATGGGTAAATTACCGAAATACCCTC
16389025 AATGGGTAAATTACCGAAATACCCTC
1 AATGGGTAAATTACCGAAATACCCTC
* * ** *
16389051 AATAGCTAAATTATTGAAATACCTTC
1 AATGGGTAAATTACCGAAATACCCTC
* *
16389077 AACGGGTAAAGTACCGAAATACCCTC
1 AATGGGTAAATTACCGAAATACCCTC
* *
16389103 GATGGGTAAATTACTGAAATACCCT-
1 AATGGGTAAATTACCGAAATACCCTC
* * *
16389128 ATATGGTTAAATTATCAAAATACCCTC
1 A-ATGGGTAAATTACCGAAATACCCTC
*
16389155 GAA-AGGTAAATTACC-AGAATACCCTC
1 -AATGGGTAAATTACCGA-AATACCCTC
16389181 AATGGG
1 AATGGG
16389187 AAAACTATCG
Statistics
Matches: 130, Mismatches: 27, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
25 3 0.02
26 125 0.96
27 1 0.01
28 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.24
Consensus pattern (26 bp):
AATGGGTAAATTACCGAAATACCCTC
Found at i:16389139 original size:78 final size:78
Alignment explanation
Indices: 16389002--16389186 Score: 223
Period size: 78 Copynumber: 2.4 Consensus size: 78
16388992 GAGTCTTAAT
* **
16389002 GGGTAAACTACCGAAATACACTCAATGGGTAAATTACCGAAATACCCTCAATAGCTAAATTATTG
1 GGGTAAACTACCGAAATACCCTCAATGGGTAAATTACCGAAATACCCTCAATAGCTAAATTATCA
*
16389067 AAATACCTTC-AA
66 AAATACCCTCGAA
* * * * *
16389079 CGGGTAAAGTACCGAAATACCCTCGATGGGTAAATTACTGAAATACCCT-ATATGGTTAAATTAT
1 -GGGTAAACTACCGAAATACCCTCAATGGGTAAATTACCGAAATACCCTCA-ATAGCTAAATTAT
16389143 CAAAATACCCTCGAA
64 CAAAATACCCTCGAA
* *
16389158 AGGTAAATTACC-AGAATACCCTCAATGGG
1 GGGTAAACTACCGA-AATACCCTCAATGGG
16389187 AAAACTATCG
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
77 2 0.02
78 88 0.96
79 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (78 bp):
GGGTAAACTACCGAAATACCCTCAATGGGTAAATTACCGAAATACCCTCAATAGCTAAATTATCA
AAATACCCTCGAA
Found at i:16389468 original size:27 final size:26
Alignment explanation
Indices: 16389411--16389475 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 26
16389401 ATGGAGGAAG
*
16389411 TACTGCTACTGGTGGCTATGCCAGAAT
1 TACTG-TACTGGTGGCTATGCCACAAT
*
16389438 TACTGTTACTGGTGGCTTTGCCAC-AT
1 TACTG-TACTGGTGGCTATGCCACAAT
16389464 ATACTGTACTGG
1 -TACTGTACTGG
16389476 AAGCTCAGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.24
27 26 0.76
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.34
Consensus pattern (26 bp):
TACTGTACTGGTGGCTATGCCACAAT
Found at i:16396512 original size:26 final size:26
Alignment explanation
Indices: 16396476--16396738 Score: 224
Period size: 26 Copynumber: 10.0 Consensus size: 26
16396466 CCGTTATGGT
* * *
16396476 CTCAATGGGTAAATTACCAAAATACA
1 CTCAACGGGTAAATTACCGAAATACC
* *
16396502 CTCAACAGGTAAATTACTGAAATACC
1 CTCAACGGGTAAATTACCGAAATACC
* * ** *
16396528 CTGAATGGGTAAATTACTAAAATGCC
1 CTCAACGGGTAAATTACCGAAATACC
*
16396554 TTCAACGGGTAAATTACCGAAATACC
1 CTCAACGGGTAAATTACCGAAATACC
* * *
16396580 CTTAATGGGTAAATTATCGAAATACC
1 CTCAACGGGTAAATTACCGAAATACC
* * *
16396606 TTCAACAGGTAAATTACTGAAATACC
1 CTCAACGGGTAAATTACCGAAATACC
*
16396632 CTCAATGGGTAAATTACCGAAATACC
1 CTCAACGGGTAAATTACCGAAATACC
* * * * **
16396658 CTTAATGGGAAAACTATTGAAATACC
1 CTCAACGGGTAAATTACCGAAATACC
* *
16396684 TCTGAA-GGGTAGAATTACTGAAATACCC
1 -CTCAACGGGTA-AATTACCGAAATA-CC
* *
16396712 CTGAA-GGGTAGAATTACAGAAATACC
1 CTCAACGGGTA-AATTACCGAAATACC
16396738 C
1 C
16396739 CTAAAGGGTA
Statistics
Matches: 194, Mismatches: 40, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
26 154 0.79
27 38 0.20
28 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (26 bp):
CTCAACGGGTAAATTACCGAAATACC
Found at i:16396559 original size:52 final size:52
Alignment explanation
Indices: 16396476--16396710 Score: 253
Period size: 52 Copynumber: 4.5 Consensus size: 52
16396466 CCGTTATGGT
*
16396476 CTCAATGGGTAAATTACCAAAATACAC-TCAACAGGTAAATTACTGAAATACC
1 CTCAATGGGTAAATTACTAAAATAC-CTTCAACAGGTAAATTACTGAAATACC
* * * *
16396528 CTGAATGGGTAAATTACTAAAATGCCTTCAACGGGTAAATTACCGAAATACC
1 CTCAATGGGTAAATTACTAAAATACCTTCAACAGGTAAATTACTGAAATACC
* *
16396580 CTTAATGGGTAAATTA-TCGAAATACCTTCAACAGGTAAATTACTGAAATACC
1 CTCAATGGGTAAATTACT-AAAATACCTTCAACAGGTAAATTACTGAAATACC
** ** * * *
16396632 CTCAATGGGTAAATTACCGAAATACCCTT-AATGGGAAAACTATTGAAATACC
1 CTCAATGGGTAAATTACTAAAATA-CCTTCAACAGGTAAATTACTGAAATACC
* *
16396684 TCTGAA-GGGTAGAATTACTGAAATACC
1 -CTCAATGGGTA-AATTACTAAAATACC
16396711 CCTGAAGGGT
Statistics
Matches: 158, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
51 2 0.01
52 136 0.86
53 20 0.13
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (52 bp):
CTCAATGGGTAAATTACTAAAATACCTTCAACAGGTAAATTACTGAAATACC
Found at i:16396617 original size:78 final size:78
Alignment explanation
Indices: 16396476--16396748 Score: 273
Period size: 78 Copynumber: 3.5 Consensus size: 78
16396466 CCGTTATGGT
* * * ** * * **
16396476 CTCAATGGGTAAATTACCAAAATACACTCAACAGGTAAATTA-CTGAAATACCCTGAATGGGTAA
1 CTCAATGGGTAAATTACCGAAATACCCTTAATGGGTAAATTATC-GAAATACCTTCAACAGGTAA
*
16396540 ATTACTAAAATGCC
65 ATTACTAAAATACC
* *
16396554 TTCAACGGGTAAATTACCGAAATACCCTTAATGGGTAAATTATCGAAATACCTTCAACAGGTAAA
1 CTCAATGGGTAAATTACCGAAATACCCTTAATGGGTAAATTATCGAAATACCTTCAACAGGTAAA
*
16396619 TTACTGAAATACC
66 TTACTAAAATACC
* * * * *
16396632 CTCAATGGGTAAATTACCGAAATACCCTTAATGGGAAAACTATTGAAATACCTCTGAA-GGGTAG
1 CTCAATGGGTAAATTACCGAAATACCCTTAATGGGTAAATTATCGAAATACCT-TCAACAGGTA-
*
16396696 AATTACTGAAATACCC
64 AATTACTAAAATA-CC
* * * *
16396712 CTGAA-GGGTAGAATTACAGAAATACCCCTAAAGGGTA
1 CTCAATGGGTA-AATTACCGAAATACCCTTAATGGGTA
16396749 GAATGACCGT
Statistics
Matches: 165, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
78 115 0.70
79 22 0.13
80 28 0.17
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (78 bp):
CTCAATGGGTAAATTACCGAAATACCCTTAATGGGTAAATTATCGAAATACCTTCAACAGGTAAA
TTACTAAAATACC
Found at i:16396921 original size:26 final size:26
Alignment explanation
Indices: 16396872--16396921 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
16396862 ACATATACTG
***
16396872 TACTGGCAGCTATGCTGTGTTATTAT
1 TACTGGCAGCTATGCTGCAATATTAT
16396898 TACTGGCAGCTATGCTGCAATATT
1 TACTGGCAGCTATGCTGCAATATT
16396922 TGGTCTGTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (26 bp):
TACTGGCAGCTATGCTGCAATATTAT
Found at i:16401045 original size:25 final size:24
Alignment explanation
Indices: 16401011--16401093 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 24
16401001 TTATTTACAC
16401011 GTATGCTCATACGAGCTATGCATCG
1 GTATGCTCATACGAGCTATG-ATCG
** * * *
16401036 GTATGCTCATTTGAGTTGTAGATTG
1 GTATGCTCATACGAGCTAT-GATCG
*
16401061 GTATGCTC-TCACGAGCTATAAATCG
1 GTATGCTCAT-ACGAGCTAT-GATCG
16401086 GTATGCTC
1 GTATGCTC
16401094 TCATGAGCTG
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
24 1 0.02
25 43 0.96
26 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (24 bp):
GTATGCTCATACGAGCTATGATCG
Found at i:16414709 original size:50 final size:50
Alignment explanation
Indices: 16414585--16414825 Score: 272
Period size: 50 Copynumber: 4.8 Consensus size: 50
16414575 GATAATAACA
* * * ** * * *
16414585 TGCCAAAGCCTTGTCCCCGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * ** *
16414634 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
16414684 TGCCTATGCCATGTCCCAGACATGGTCTTACA-GAGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG-GGACCTCTCATCTCGG
* * *
16414734 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTTATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
16414784 TGCCAATGCTATGTCCCAGAAATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
16414826 TTACCCAAAT
Statistics
Matches: 165, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
48 1 0.01
49 38 0.23
50 125 0.76
51 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:16417473 original size:32 final size:32
Alignment explanation
Indices: 16417432--16417497 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
16417422 ATTTGAGGTC
16417432 AAAAAATTTATTTTATTATTATTTTATTACCT
1 AAAAAATTTATTTTATTATTATTTTATTACCT
16417464 AAAAAATTTATTTTATTATTATTTTATTACCT
1 AAAAAATTTATTTTATTATTATTTTATTACCT
16417496 AA
1 AA
16417498 GTATGATAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (32 bp):
AAAAAATTTATTTTATTATTATTTTATTACCT
Found at i:16418457 original size:17 final size:17
Alignment explanation
Indices: 16418435--16418469 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
16418425 TTAAATTATG
16418435 TAATTATATACTTTAAT
1 TAATTATATACTTTAAT
16418452 TAATTATATACTTTAAT
1 TAATTATATACTTTAAT
16418469 T
1 T
16418470 GAGTTATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (17 bp):
TAATTATATACTTTAAT
Found at i:16426500 original size:25 final size:25
Alignment explanation
Indices: 16426472--16426524 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
16426462 ATTCTCATTT
* *
16426472 GAGCTGTAGATTGGTATGCTCTCAC
1 GAGCTATAAATTGGTATGCTCTCAC
16426497 GAGCTATAAATTGGTATGCTCTCAC
1 GAGCTATAAATTGGTATGCTCTCAC
16426522 GAG
1 GAG
16426525 TTGTGCAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (25 bp):
GAGCTATAAATTGGTATGCTCTCAC
Found at i:16428968 original size:27 final size:27
Alignment explanation
Indices: 16428575--16428969 Score: 459
Period size: 27 Copynumber: 14.7 Consensus size: 27
16428565 GTACCATCGA
* * *
16428575 AGGGTAAAATGATCGAAATGCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
16428602 AGGGTAAAATGACTGTGATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
16428629 TGGGTAAAATAACCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * * *
16428656 AAGGTAAAATGATCGTAACGCCCGTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
16428683 AGGGTAAAATGACCATCATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * *
16428710 AGGGTAAAGTGATCGTAATGCCCTTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
16428737 AGGGT-AAATGACCGTAATTCCCTTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
16428763 AGGGTAAAATGTCCGTAATGCCCTTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
** *
16428790 AGGGTAAAATGACTTTAATGCTCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
16428817 AGGGTAAAATGATCGTAATGCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * *
16428844 AGGGTAAAATCACCGTAATGCCCATCT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
16428871 AGGGTTAAATGATCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* ** *
16428898 AGGGTAAAATAATTGTAATGCCCTTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
*
16428925 AGGGTAAAATGATCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
*
16428952 AGGGTAAAATAACCGTAA
1 AGGGTAAAATGACCGTAA
16428970 GTAGGGTAAA
Statistics
Matches: 308, Mismatches: 59, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 23 0.07
27 285 0.93
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAATGCCCCTGT
Found at i:16428975 original size:20 final size:20
Alignment explanation
Indices: 16428950--16428989 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
16428940 TAATGCCCCT
16428950 GTAGGGTAAAATAACCGTAA
1 GTAGGGTAAAATAACCGTAA
16428970 GTAGGGTAAAATAACCGTAA
1 GTAGGGTAAAATAACCGTAA
16428990 TGCTCTAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.25, T:0.20
Consensus pattern (20 bp):
GTAGGGTAAAATAACCGTAA
Found at i:16429114 original size:24 final size:23
Alignment explanation
Indices: 16429030--16429092 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
16429020 TCTCGAGGTC
* *
16429030 AAATGATTGTTTTGTCTATGGTT
1 AAATGACTGATTTGTCTATGGTT
16429053 AAATGACTGATTTGTCTATGGTT
1 AAATGACTGATTTGTCTATGGTT
16429076 AAATGACTGATTTGTCT
1 AAATGACTGATTTGTCT
16429093 CTGTTTGGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.46
Consensus pattern (23 bp):
AAATGACTGATTTGTCTATGGTT
Found at i:16429352 original size:32 final size:33
Alignment explanation
Indices: 16429307--16429404 Score: 112
Period size: 32 Copynumber: 3.1 Consensus size: 33
16429297 GCTGCAATGC
* *
16429307 TACTGA-TGCCTTTGTGTCGCTCATAGTACCAT
1 TACTGATTGCCTTTGTGCCGATCATAGTACCAT
*
16429339 TACTGATTG-CTTTGTGCCGATCATAGTACCGT
1 TACTGATTGCCTTTGTGCCGATCATAGTACCAT
** * *
16429371 TACTGA-TGATTTTGTGCCGATCATATTACTAT
1 TACTGATTGCCTTTGTGCCGATCATAGTACCAT
16429403 TA
1 TA
16429405 TCGATGGCTG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
31 2 0.04
32 53 0.93
33 2 0.04
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.40
Consensus pattern (33 bp):
TACTGATTGCCTTTGTGCCGATCATAGTACCAT
Found at i:16429526 original size:22 final size:21
Alignment explanation
Indices: 16429501--16429564 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
16429491 ATTACTGTAC
16429501 TTATGGCTTGTAGCCATTCTAT
1 TTATGGCTT-TAGCCATTCTAT
* * * *
16429523 TTATAGCTTATAGCTATCCTGT
1 TTATGGCTT-TAGCCATTCTAT
16429545 TTATGGCTCTTAGCCATTCT
1 TTATGGCT-TTAGCCATTCT
16429565 GACTACTTGT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.45
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTAT
Found at i:16429675 original size:22 final size:23
Alignment explanation
Indices: 16429627--16429675 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
16429617 TTGTCCTTAC
*
16429627 ATGGTGTGTTGGGTTGGTATGGG
1 ATGGTGTGTTGGGCTGGTATGGG
16429650 -TGGTGTGTT-GGCTGG-ATTGGG
1 ATGGTGTGTTGGGCTGGTA-TGGG
16429671 ATGGT
1 ATGGT
16429676 TTTGCATACT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 9 0.39
22 13 0.57
ACGTcount: A:0.08, C:0.02, G:0.51, T:0.39
Consensus pattern (23 bp):
ATGGTGTGTTGGGCTGGTATGGG
Found at i:16430131 original size:30 final size:31
Alignment explanation
Indices: 16430097--16430154 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
16430087 TTCAAACGCT
16430097 ACGTTTTCGC-AACACATTT-TTTTAAATATC
1 ACGTTTTCGCAAAC-CATTTGTTTTAAATATC
*
16430127 ACGTTTTCGTAAACCATTTGTTTTAAAT
1 ACGTTTTCGCAAACCATTTGTTTTAAAT
16430155 TAAGCTTCCG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.29, C:0.17, G:0.09, T:0.45
Consensus pattern (31 bp):
ACGTTTTCGCAAACCATTTGTTTTAAATATC
Found at i:16434287 original size:29 final size:28
Alignment explanation
Indices: 16434255--16434310 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
16434245 ATTTAGATAT
*
16434255 GTTATTTTATGTTAATTAAATTTCATTAA
1 GTTATTTTAGGTTAATT-AATTTCATTAA
*
16434284 GTTATTTTAGGTTAATTAATTTTATTA
1 GTTATTTTAGGTTAATTAATTTCATTA
16434311 TTTTAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (28 bp):
GTTATTTTAGGTTAATTAATTTCATTAA
Found at i:16434331 original size:18 final size:18
Alignment explanation
Indices: 16434295--16434332 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
16434285 TTATTTTAGG
*
16434295 TTAATTAATTTTATTATT
1 TTAATTAATTTTATAATT
16434313 TTAATTAATATTT-TAATT
1 TTAATTAAT-TTTATAATT
16434331 TT
1 TT
16434333 GCATCAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTAATTAATTTTATAATT
Found at i:16436142 original size:21 final size:21
Alignment explanation
Indices: 16436093--16436142 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
16436083 TGTTACTACT
*
16436093 TAGGTAATTTGAAGTTTGGTC
1 TAGGTAATTTCAAGTTTGGTC
**
16436114 T-GAAAATTTCAATGTTTGG-C
1 TAGGTAATTTCAA-GTTTGGTC
16436134 TAGGTAATT
1 TAGGTAATT
16436143 AAGGAAAAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 4
0.71 0.16 0.13
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.42
Consensus pattern (21 bp):
TAGGTAATTTCAAGTTTGGTC
Found at i:16438683 original size:27 final size:27
Alignment explanation
Indices: 16438652--16438829 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
16438642 TAAATTGTAC
*
16438652 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
16438679 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
16438705 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
16438733 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
16438760 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
16438788 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
16438815 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16438830 GACTTAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:16438713 original size:54 final size:55
Alignment explanation
Indices: 16438652--16438829 Score: 236
Period size: 54 Copynumber: 3.3 Consensus size: 55
16438642 TAAATTGTAC
* **
16438652 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* * * *
16438707 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* *
16438760 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
*
16438815 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16438830 GACTTAATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:16446944 original size:27 final size:27
Alignment explanation
Indices: 16446913--16447090 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
16446903 TAAATTGTAC
*
16446913 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
16446940 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
16446966 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
16446994 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
16447021 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
16447049 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
16447076 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16447091 GACTTAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:16446974 original size:54 final size:55
Alignment explanation
Indices: 16446913--16447090 Score: 236
Period size: 54 Copynumber: 3.3 Consensus size: 55
16446903 TAAATTGTAC
* **
16446913 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* * * *
16446968 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* *
16447021 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
*
16447076 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16447091 GACTTAATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:16453482 original size:25 final size:25
Alignment explanation
Indices: 16453448--16453519 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
16453438 TCCTGTACAT
* *
16453448 GTATGCTCACACGAGTTGTGAATCG
1 GTATGCTCACACGAGCTGTAAATCG
*
16453473 GTATGCTCACATGAGCTGTAAATCG
1 GTATGCTCACACGAGCTGTAAATCG
*
16453498 GTATGCTCACATGAGCTGTAAA
1 GTATGCTCACACGAGCTGTAAA
16453520 AATGGGCCTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAAATCG
Found at i:16453531 original size:27 final size:25
Alignment explanation
Indices: 16453450--16453539 Score: 99
Period size: 25 Copynumber: 3.5 Consensus size: 25
16453440 CTGTACATGT
* * * *
16453450 ATGCTCACACGAGTTGTGAATCGGT
1 ATGCTCACATGAGCTGTAAATCGGC
*
16453475 ATGCTCACATGAGCTGTAAATCGGT
1 ATGCTCACATGAGCTGTAAATCGGC
*
16453500 ATGCTCACATGAGCTGTAAAAATGGGC
1 ATGCTCACATGAGCTGT--AAATCGGC
*
16453527 CTGCTCACATGAG
1 ATGCTCACATGAG
16453540 ATGTGGGTCG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
25 39 0.68
27 18 0.32
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (25 bp):
ATGCTCACATGAGCTGTAAATCGGC
Found at i:16460194 original size:40 final size:41
Alignment explanation
Indices: 16460119--16460199 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 41
16460109 TGATATTGCT
* *
16460119 ATAGTAATAATAAGTATATAAATAAATAAGGTAATATAATA
1 ATAGCAATAATAAGTATATAAATAAATAAGGTAATAAAATA
* **
16460160 ATAGCAATAAT-AGT-TTTAAATTAAATAATTTAATAAAATA
1 ATAGCAATAATAAGTATATAAA-TAAATAAGGTAATAAAATA
16460200 GCCAAAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
39 5 0.15
40 19 0.56
41 10 0.29
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.35
Consensus pattern (41 bp):
ATAGCAATAATAAGTATATAAATAAATAAGGTAATAAAATA
Found at i:16461854 original size:51 final size:51
Alignment explanation
Indices: 16461779--16461962 Score: 157
Period size: 51 Copynumber: 3.7 Consensus size: 51
16461769 TAACTTTAAC
* * * *
16461779 GCCAGGGAGATAAGATTCGCTGCCTACAGCTTTAATTTGCTTCGCTGCAAT
1 GCCAAGGAAATAAGATTCGATGCCTTCAGCTTTAATTTGCTTCGCTGCAAT
* * *
16461830 GCCAAGGAAATAAGATTTGATGCCTTGAACTTTAA--T-CTAT---TGCAAT
1 GCCAAGGAAATAAGATTCGATGCCTTCAGCTTTAATTTGCT-TCGCTGCAAT
* * * *
16461876 GCCAGGGAAACAAGATTCGTTGCCTTCAGCTTTAATTTG-TTCGACTGCAAC
1 GCCAAGGAAATAAGATTCGATGCCTTCAGCTTTAATTTGCTTCG-CTGCAAT
** * * *
16461927 GCCAAGGAAATGGGATTCGCTGCCTTTACCTTTAAT
1 GCCAAGGAAATAAGATTCGATGCCTTCAGCTTTAAT
16461963 CTATTGCAAT
Statistics
Matches: 104, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
46 35 0.34
47 1 0.01
48 4 0.04
49 2 0.02
51 62 0.60
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (51 bp):
GCCAAGGAAATAAGATTCGATGCCTTCAGCTTTAATTTGCTTCGCTGCAAT
Found at i:16461891 original size:46 final size:46
Alignment explanation
Indices: 16461824--16462010 Score: 133
Period size: 46 Copynumber: 4.0 Consensus size: 46
16461814 TTTGCTTCGC
* * *
16461824 TGCAATGCCAAGGAAATAAGATTTGATGCCTTGAACTTTAATCTAT
1 TGCAATGCCAAGGAAACAAGATTCGATGCCTTCAACTTTAATCTAT
* * * * *
16461870 TGCAATGCCAGGGAAACAAGATTCGTTGCCTTCAGCTTTAATTTGTTCGAC
1 TGCAATGCCAAGGAAACAAGATTCGATGCCTTCAACTTTAA-----TCTAT
* *** * * *
16461921 TGCAACGCCAAGGAAATGGGATTCGCTGCCTTTACCTTTAATCTAT
1 TGCAATGCCAAGGAAACAAGATTCGATGCCTTCAACTTTAATCTAT
* * * * *
16461967 TGCAATTCTAGGGAAACAAGATTC-ACCGCCTTCAGCTTTAATCT
1 TGCAATGCCAAGGAAACAAGATTCGA-TGCCTTCAACTTTAATCT
16462011 GATCCACTAC
Statistics
Matches: 106, Mismatches: 29, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
46 70 0.66
51 36 0.34
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (46 bp):
TGCAATGCCAAGGAAACAAGATTCGATGCCTTCAACTTTAATCTAT
Found at i:16461951 original size:97 final size:97
Alignment explanation
Indices: 16461779--16462008 Score: 309
Period size: 97 Copynumber: 2.4 Consensus size: 97
16461769 TAACTTTAAC
* * * *
16461779 GCCAGGGAGATAAGATTCGCTGCCTACAGCTTTAATTTGCTTCGCTGCAATGCCAAGGAAATAAG
1 GCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATTTGCTTCGCTGCAACGCCAAGGAAATAAG
*
16461844 ATTTGATGCCTTGAACTTTAATCTATTGCAAT
66 ATTCGATGCCTTGAACTTTAATCTATTGCAAT
* **
16461876 GCCAGGGAAACAAGATTCGTTGCCTTCAGCTTTAATTTG-TTCGACTGCAACGCCAAGGAAATGG
1 GCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATTTGCTTCG-CTGCAACGCCAAGGAAATAA
* * *
16461940 GATTCGCTGCCTTTACCTTTAATCTATTGCAAT
65 GATTCGATGCCTTGAACTTTAATCTATTGCAAT
* * * *
16461973 TCTAGGGAAACAAGATTCACCGCCTTCAGCTTTAAT
1 GCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAAT
16462009 CTGATCCACT
Statistics
Matches: 116, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
96 4 0.03
97 112 0.97
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (97 bp):
GCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATTTGCTTCGCTGCAACGCCAAGGAAATAAG
ATTCGATGCCTTGAACTTTAATCTATTGCAAT
Found at i:16470507 original size:18 final size:18
Alignment explanation
Indices: 16470484--16470525 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
16470474 AATTCCATTT
16470484 ACAAAA-CTTTACCATAAA
1 ACAAAATCTTTA-CATAAA
16470502 ACAAAATTCTTTACATAAA
1 ACAAAA-TCTTTACATAAA
16470521 ACAAA
1 ACAAA
16470526 TTACATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.27
19 11 0.50
20 5 0.23
ACGTcount: A:0.57, C:0.19, G:0.00, T:0.24
Consensus pattern (18 bp):
ACAAAATCTTTACATAAA
Found at i:16478264 original size:26 final size:26
Alignment explanation
Indices: 16478245--16478295 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
16478235 AAAAAGGAAA
16478245 AGAAA-AAATCAAAGTCAAAAAAAAG
1 AGAAATAAATCAAAGTCAAAAAAAAG
*
16478270 AGAAATCAATCAAAGTCAAAATAAAA
1 AGAAATAAATCAAAGTCAAAA-AAAA
16478296 TATGAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.22
26 14 0.61
27 4 0.17
ACGTcount: A:0.69, C:0.10, G:0.10, T:0.12
Consensus pattern (26 bp):
AGAAATAAATCAAAGTCAAAAAAAAG
Found at i:16478693 original size:14 final size:13
Alignment explanation
Indices: 16478672--16478729 Score: 80
Period size: 13 Copynumber: 4.3 Consensus size: 13
16478662 AGTTCCAAAA
16478672 AAAATGAAAAAATG
1 AAAATG-AAAAATG
*
16478686 AGAATGAAAAATG
1 AAAATGAAAAATG
16478699 AAAAATGAAAAATG
1 -AAAATGAAAAATG
*
16478713 AAAATGGAAAATG
1 AAAATGAAAAATG
16478726 AAAA
1 AAAA
16478730 ATGGAGAGGC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
13 23 0.57
14 17 0.43
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (13 bp):
AAAATGAAAAATG
Done.