Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014400.1 Kokia drynarioides strain JFW-HI SEQ_129438, whole genome shotgun sequence
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: 114721
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Warning! 50 characters in sequence are not A, C, G, or T
Found at i:300 original size:13 final size:13
Alignment explanation
Indices: 284--309 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
274 AAATAAAATC
284 GAAAAAGAAAAAA
1 GAAAAAGAAAAAA
297 GAAAAAGAAAAAA
1 GAAAAAGAAAAAA
310 ATGTGTGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
GAAAAAGAAAAAA
Found at i:4039 original size:31 final size:29
Alignment explanation
Indices: 3972--4044 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
3962 AATAGTTTAT
* *
3972 ATTTGTATAATTTTTAAAAGATTAAATCGA
1 ATTT-TATCATTTTTAAAAGATTAAATAGA
*
4002 ATTTTTATCATTTTTAAAAGAGTTAAAATATA
1 A-TTTTATCATTTTTAAAAGA-TT-AAATAGA
4034 ATTTTATCATT
1 ATTTTATCATT
4045 AAAAAATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 16 0.43
31 15 0.41
32 6 0.16
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (29 bp):
ATTTTATCATTTTTAAAAGATTAAATAGA
Found at i:13893 original size:39 final size:39
Alignment explanation
Indices: 13850--14053 Score: 201
Period size: 39 Copynumber: 5.2 Consensus size: 39
13840 CCACGGAAGG
* * *
13850 GCAATATAATACCGAATTGGTAGTAACACTGTAAATACT
1 GCAATACAAGACCGAATTGGCAGTAACACTGTAAATACT
** * * * *
13889 GCAATACAAGATTGAATCGGTAGTAACACTGTAATTACC
1 GCAATACAAGACCGAATTGGCAGTAACACTGTAAATACT
* *
13928 ACAATACAATACCGAATTGGCAGTAACACTGTAAATACT
1 GCAATACAAGACCGAATTGGCAGTAACACTGTAAATACT
* * ** *
13967 GCAATAAAAGACTGAATTAACAGTAACACTGTAAATACC
1 GCAATACAAGACCGAATTGGCAGTAACACTGTAAATACT
* * * * * *
14006 GTAATACACGATCGAGTTTGCAGTAACACTATAAATACT
1 GCAATACAAGACCGAATTGGCAGTAACACTGTAAATACT
*
14045 GTAATACAA
1 GCAATACAA
14054 TACTAAGCTG
Statistics
Matches: 132, Mismatches: 33, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
39 132 1.00
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.25
Consensus pattern (39 bp):
GCAATACAAGACCGAATTGGCAGTAACACTGTAAATACT
Found at i:13946 original size:78 final size:78
Alignment explanation
Indices: 13851--14053 Score: 244
Period size: 78 Copynumber: 2.6 Consensus size: 78
13841 CACGGAAGGG
* * * ***
13851 CAATATAATACCGAATTGGTAGTAACACTGTAAATACTGCAATACAAGATTGAATCGGTAGTAAC
1 CAATACAATACCGAATTGGCAGTAACACTGTAAATACTGCAATACAAGACTGAATCAACAGTAAC
*
13916 ACTGTAATTACCA
66 ACTGTAAATACCA
* *
13929 CAATACAATACCGAATTGGCAGTAACACTGTAAATACTGCAATAAAAGACTGAATTAACAGTAAC
1 CAATACAATACCGAATTGGCAGTAACACTGTAAATACTGCAATACAAGACTGAATCAACAGTAAC
*
13994 ACTGTAAATACCG
66 ACTGTAAATACCA
* ** * * * * *
14007 TAATACACGATCGAGTTTGCAGTAACACTATAAATACTGTAATACAA
1 CAATACAATACCGAATTGGCAGTAACACTGTAAATACTGCAATACAA
14054 TACTAAGCTG
Statistics
Matches: 106, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
78 106 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (78 bp):
CAATACAATACCGAATTGGCAGTAACACTGTAAATACTGCAATACAAGACTGAATCAACAGTAAC
ACTGTAAATACCA
Found at i:14056 original size:117 final size:117
Alignment explanation
Indices: 13871--14083 Score: 257
Period size: 117 Copynumber: 1.8 Consensus size: 117
13861 CCGAATTGGT
* * * * *
13871 AGTAACACTGTAAATACTGCAATACAAGATTGAATCGGTAGTAACACTGTAATTACCACAATACA
1 AGTAACACTGTAAATACCGCAATACAAGATCGAATCGGCAGTAACACTATAAATACCACAATACA
* *
13936 ATACCGAA-TTGGCAGTAACACTGTAAATACTGCAATAAAAGACTGAATTAAC
66 ATA-CGAAGCTGGAAGTAACACTGTAAATACTGCAATAAAAGACTGAATTAAC
* * * ** ***
13988 AGTAACACTGTAAATACCGTAATACACGATCGAGTTTGCAGTAACACTATAAATACTGTAATACA
1 AGTAACACTGTAAATACCGCAATACAAGATCGAATCGGCAGTAACACTATAAATACCACAATACA
* *
14053 ATACTAAGCTGGAAGTAACATTGTAAATACT
66 ATACGAAGCTGGAAGTAACACTGTAAATACT
14084 ACAGTACAAT
Statistics
Matches: 78, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
116 3 0.04
117 75 0.96
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (117 bp):
AGTAACACTGTAAATACCGCAATACAAGATCGAATCGGCAGTAACACTATAAATACCACAATACA
ATACGAAGCTGGAAGTAACACTGTAAATACTGCAATAAAAGACTGAATTAAC
Found at i:14070 original size:78 final size:78
Alignment explanation
Indices: 13851--14092 Score: 238
Period size: 78 Copynumber: 3.1 Consensus size: 78
13841 CACGGAAGGG
* * * * *
13851 CAATATAATACCGAATTGGTAGTAACACTGTAAATACTGCAATACAAGATTGAA-TCGGTAGTAA
1 CAATACAAGACCGAATTGGCAGTAACACTGTAAATACTGCAATACAAGACTGAACT-GGAAGTAA
*
13915 CACTGTAATTACCA
65 CACTGTAAATACCA
* * **
13929 CAATACAATACCGAATTGGCAGTAACACTGTAAATACTGCAATAAAAGACTGAA-TTAACAGTAA
1 CAATACAAGACCGAATTGGCAGTAACACTGTAAATACTGCAATACAAGACTGAACTGGA-AGTAA
*
13993 CACTGTAAATACCG
65 CACTGTAAATACCA
* * * * * * * *
14007 TAATACACGATCGAGTTTGCAGTAACACTATAAATACTGTAATACAATACT-AAGCTGGAAGTAA
1 CAATACAAGACCGAATTGGCAGTAACACTGTAAATACTGCAATACAAGACTGAA-CTGGAAGTAA
* *
14071 CATTGTAAATACTA
65 CACTGTAAATACCA
*
14085 CAGTACAA
1 CAATACAA
14093 TACTGAACTG
Statistics
Matches: 134, Mismatches: 27, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
77 2 0.01
78 130 0.97
79 2 0.01
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.25
Consensus pattern (78 bp):
CAATACAAGACCGAATTGGCAGTAACACTGTAAATACTGCAATACAAGACTGAACTGGAAGTAAC
ACTGTAAATACCA
Found at i:14113 original size:78 final size:78
Alignment explanation
Indices: 14031--14213 Score: 217
Period size: 78 Copynumber: 2.3 Consensus size: 78
14021 GTTTGCAGTA
* * *
14031 ACACTATAAATACTGTAATACAATACTAAGCTGGAAG-TAACATTGTAAATACTACAGTACAATA
1 ACACTATAAACACTGTAATACTATACTAAG-TGGAAGATAACATTGTAAATACTACAATACAATA
14095 CTGAACTGACGGCG
65 CTGAACTGACGGCG
* * ** * * *
14109 ACACTATAAACA-TCGTAATGCTATACTGAGTGGGTGATGACATTGTAAATACTGCAATATAATA
1 ACACTATAAACACT-GTAATACTATACTAAGTGGAAGATAACATTGTAAATACTACAATACAATA
* *
14173 TTGAACTGACGGTG
65 CTGAACTGACGGCG
*
14187 ACACTGTAAACACTGTAATACTATACT
1 ACACTATAAACACTGTAATACTATACT
14214 GAACGGGTGG
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
77 5 0.06
78 82 0.93
79 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.27
Consensus pattern (78 bp):
ACACTATAAACACTGTAATACTATACTAAGTGGAAGATAACATTGTAAATACTACAATACAATAC
TGAACTGACGGCG
Found at i:14214 original size:78 final size:78
Alignment explanation
Indices: 14070--14235 Score: 217
Period size: 78 Copynumber: 2.1 Consensus size: 78
14060 GCTGGAAGTA
* *
14070 ACATTGTAAATACTACAGTACAATACTGAACTGACGGCGACACTATAAACATCGTAATGCTATAC
1 ACATTGTAAATACTACAATACAATACTGAACTGACGGCGACACTATAAACATCGTAATACTATAC
**
14135 TGAGTGGGTGATG
66 TGAACGGGTGATG
* * * * *
14148 ACATTGTAAATACTGCAATATAATATTGAACTGACGGTGACACTGTAAACA-CTGTAATACTATA
1 ACATTGTAAATACTACAATACAATACTGAACTGACGGCGACACTATAAACATC-GTAATACTATA
*
14212 CTGAACGGGTGGTG
65 CTGAACGGGTGATG
*
14226 ACACTGTAAA
1 ACATTGTAAA
14236 CACCACTAGT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
77 1 0.01
78 75 0.99
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (78 bp):
ACATTGTAAATACTACAATACAATACTGAACTGACGGCGACACTATAAACATCGTAATACTATAC
TGAACGGGTGATG
Found at i:14217 original size:39 final size:39
Alignment explanation
Indices: 14092--14238 Score: 122
Period size: 39 Copynumber: 3.8 Consensus size: 39
14082 CTACAGTACA
* * *
14092 ATACTGAACTGACGGCGACACTATAAACA-TCGTAATGCT
1 ATACTGAACTGACGGTGACACTGTAAACACT-GTAATACT
* * * * *
14131 ATACTG-AGTG-GGTGATGACATTGTAAATACTGCAATA-T
1 ATACTGAACTGACG-G-TGACACTGTAAACACTGTAATACT
*
14169 AATATTGAACTGACGGTGACACTGTAAACACTGTAATACT
1 -ATACTGAACTGACGGTGACACTGTAAACACTGTAATACT
* **
14209 ATACTGAACGGGTGGTGACACTGTAAACAC
1 ATACTGAACTGACGGTGACACTGTAAACAC
14239 CACTAGTTTG
Statistics
Matches: 83, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
37 1 0.01
38 5 0.06
39 70 0.84
40 6 0.07
41 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (39 bp):
ATACTGAACTGACGGTGACACTGTAAACACTGTAATACT
Found at i:21054 original size:39 final size:39
Alignment explanation
Indices: 20966--21072 Score: 124
Period size: 39 Copynumber: 2.7 Consensus size: 39
20956 GACAATAATT
** * * * *
20966 CTGTAAATACCACAATATAAGACTAAATTGGCAGTAACA
1 CTGTAAATACTGCAATACAATACTAAACTAGCAGTAACA
* *
21005 TTGTAAATACTGCAATACAATACTCAACTAGCAGTAACA
1 CTGTAAATACTGCAATACAATACTAAACTAGCAGTAACA
* *
21044 CTGTAAATACTGCAGTATAATACTAAACT
1 CTGTAAATACTGCAATACAATACTAAACT
21073 GATGGTGACA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (39 bp):
CTGTAAATACTGCAATACAATACTAAACTAGCAGTAACA
Found at i:32216 original size:30 final size:30
Alignment explanation
Indices: 32166--32249 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 30
32156 TTTTTATAAT
* * * *
32166 AATAAAAATATATAATTTTTAAAGAATT-A
1 AATAAAATTTTATTATTTTTAAAAAATTAA
32195 AATCAAAATTTTATTATTTTTAAAAAAATTAA
1 AAT-AAAATTTTATTATTTTT-AAAAAATTAA
* *
32227 AATATAATTTTTTTATTTATTAA
1 AATAAAATTTTATTATTT-TTAA
32250 TTTAAAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
29 3 0.07
30 14 0.31
31 22 0.49
32 6 0.13
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (30 bp):
AATAAAATTTTATTATTTTTAAAAAATTAA
Found at i:32236 original size:31 final size:31
Alignment explanation
Indices: 32180--32249 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
32170 AAAATATATA
*
32180 ATTTTT-AAAGAATTAAATCAAAATTTTATT
1 ATTTTTAAAAAAATTAAATCAAAATTTTATT
* *
32210 ATTTTTAAAAAAATTAAAAT-ATAATTTTTTT
1 ATTTTTAAAAAAATT-AAATCAAAATTTTATT
32241 ATTTATTAA
1 ATTT-TTAA
32250 TTTAAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 6 0.18
31 20 0.59
32 8 0.24
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (31 bp):
ATTTTTAAAAAAATTAAATCAAAATTTTATT
Found at i:32261 original size:8 final size:8
Alignment explanation
Indices: 32250--32280 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
32240 TATTTATTAA
32250 TTTAAAAT
1 TTTAAAAT
32258 TTTAAAATT
1 TTTAAAA-T
32267 TTTAAAAT
1 TTTAAAAT
32275 TTTAAA
1 TTTAAA
32281 TAAAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTTAAAAT
Found at i:34178 original size:18 final size:19
Alignment explanation
Indices: 34157--34193 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
34147 TACTTTAATG
34157 ATAATCTATA-ATAT-TATA
1 ATAAT-TATATATATGTATA
34175 ATAATTATATATATGTATA
1 ATAATTATATATATGTATA
34194 TATAGTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 9 0.53
19 4 0.24
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (19 bp):
ATAATTATATATATGTATA
Found at i:35528 original size:73 final size:73
Alignment explanation
Indices: 35442--35826 Score: 236
Period size: 73 Copynumber: 5.3 Consensus size: 73
35432 GGGCTACCCC
* *
35442 CACGGGCGTGTGCCAGACCGTGTGAACGTACTATTTTGAGAGTATAGAAATAGTGAGTTACATGA
1 CACGAGCGTGTGCCAGACCGTGTGAACGTACTATTTTGAGAGTATAGAAATAGTGAGTTACACGA
*
35507 CTTGGAC-
66 CCTGGACA
* * * * * * * ** * *
35514 CTACGAACGTGTGCCA-AACTTGTGGATG-AGT-TGTTGATGAAAACATAAATAGTGAGTTACAC
1 C-ACGAGCGTGTGCCAGACCGTGTGAACGTACTATTTTGA-GAGTATAGAAATAGTGAGTTACAC
35576 GACCTGGACA
64 GACCTGGACA
* * * * ** * * ** * * *
35586 CATGGGCGTGTGTCAAACCGTGTGTTCATGCTATACCATG-GA--ATTGAAAACAGTAAGTTACA
1 CACGAGCGTGTGCCAGACCGTGTGAACGTACTAT--TTTGAGAGTATAG-AAATAGTGAGTTACA
*
35648 CGGCCTGGACA
63 CGACCTGGACA
* * *
35659 CACGGGCGTGGGCCAGACCGTGTGAACGTACTATTTTGAGAGTATAGAAATAGTGAGTTACATGA
1 CACGAGCGTGTGCCAGACCGTGTGAACGTACTATTTTGAGAGTATAGAAATAGTGAGTTACACGA
*
35724 CTTGGAC-
66 CCTGGACA
* * * * * ** * *
35731 CTACGAGCGTGTGCCAGA-CTTGTGGATG-AGT-TGTTGATGAAAACAGAAACAGTGAGTTACAC
1 C-ACGAGCGTGTGCCAGACCGTGTGAACGTACTATTTTGA-GAGTATAGAAATAGTGAGTTACAC
35793 GACCTGGACA
64 GACCTGGACA
*
35803 CATG-GTCGTGTGCCAGACCGTGTG
1 CACGAG-CGTGTGCCAGACCGTGTG
35827 TTCATGCTAT
Statistics
Matches: 231, Mismatches: 65, Indels: 34
0.70 0.20 0.10
Matches are distributed among these distances:
70 11 0.05
71 83 0.36
72 33 0.14
73 96 0.42
74 6 0.03
76 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (73 bp):
CACGAGCGTGTGCCAGACCGTGTGAACGTACTATTTTGAGAGTATAGAAATAGTGAGTTACACGA
CCTGGACA
Found at i:35596 original size:71 final size:71
Alignment explanation
Indices: 35487--35817 Score: 213
Period size: 71 Copynumber: 4.6 Consensus size: 71
35477 TTGAGAGTAT
* * **
35487 AGAAATAGTGAGTTACATGACTTGGAC-CTACGAACGTGTGCCAAACTTGTGGATGAGTTGTTGA
1 AGAAATAGTGAGTTACACGACCTGGACAC-ACGGGCGTGTGCCAAACTTGTGGATGAGTTGTTGA
35551 TGAAAAC
65 TGAAAAC
* * * * * * * * *
35558 ATAAATAGTGAGTTACACGACCTGGACACATGGGCGTGTGTCAAAC-CGTGTGTTCATGCTATAC
1 AGAAATAGTGAGTTACACGACCTGGACACACGGGCGTGTGCCAAACTTGTG-GATGA-GTTGT-T
* * *
35622 CATG-GAAT
63 GATGAAAAC
* * * * * * * * * * *
35630 TGAAAACAGTAAGTTACACGGCCTGGACACACGGGCGTGGGCCAGACCGTGTGAACGTACTATTT
1 AG-AAATAGTGAGTTACACGACCTGGACACACGGGCGTGTGCCA-AACTTGTGGATG-AGT-TGT
** *
35695 TGA-GAGTAT
62 TGATGAAAAC
* * * *
35704 AGAAATAGTGAGTTACATGACTTGGAC-CTACGAGCGTGTGCCAGACTTGTGGATGAGTTGTTGA
1 AGAAATAGTGAGTTACACGACCTGGACAC-ACGGGCGTGTGCCAAACTTGTGGATGAGTTGTTGA
35768 TGAAAAC
65 TGAAAAC
* * *
35775 AGAAACAGTGAGTTACACGACCTGGACACATGGTCGTGTGCCA
1 AGAAATAGTGAGTTACACGACCTGGACACACGGGCGTGTGCCA
35818 GACCGTGTGT
Statistics
Matches: 187, Mismatches: 60, Indels: 26
0.68 0.22 0.10
Matches are distributed among these distances:
70 8 0.04
71 80 0.43
72 15 0.08
73 71 0.38
74 7 0.04
75 6 0.03
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (71 bp):
AGAAATAGTGAGTTACACGACCTGGACACACGGGCGTGTGCCAAACTTGTGGATGAGTTGTTGAT
GAAAAC
Found at i:35825 original size:217 final size:217
Alignment explanation
Indices: 35442--35900 Score: 837
Period size: 217 Copynumber: 2.1 Consensus size: 217
35432 GGGCTACCCC
*
35442 CACGGGCGTGTGCCAGACCGTGTGAACGTACTATTTTGAGAGTATAGAAATAGTGAGTTACATGA
1 CACGGGCGTGGGCCAGACCGTGTGAACGTACTATTTTGAGAGTATAGAAATAGTGAGTTACATGA
* *
35507 CTTGGACCTACGAACGTGTGCCAAACTTGTGGATGAGTTGTTGATGAAAACATAAATAGTGAGTT
66 CTTGGACCTACGAACGTGTGCCAAACTTGTGGATGAGTTGTTGATGAAAACAGAAACAGTGAGTT
*
35572 ACACGACCTGGACACATGGGCGTGTGTCAAACCGTGTGTTCATGCTATACCATGGAATTGAAAAC
131 ACACGACCTGGACACATGGGCGTGTGCCAAACCGTGTGTTCATGCTATACCATGGAATTGAAAAC
35637 AGTAAGTTACACGGCCTGGACA
196 AGTAAGTTACACGGCCTGGACA
35659 CACGGGCGTGGGCCAGACCGTGTGAACGTACTATTTTGAGAGTATAGAAATAGTGAGTTACATGA
1 CACGGGCGTGGGCCAGACCGTGTGAACGTACTATTTTGAGAGTATAGAAATAGTGAGTTACATGA
* *
35724 CTTGGACCTACGAGCGTGTGCCAGACTTGTGGATGAGTTGTTGATGAAAACAGAAACAGTGAGTT
66 CTTGGACCTACGAACGTGTGCCAAACTTGTGGATGAGTTGTTGATGAAAACAGAAACAGTGAGTT
* *
35789 ACACGACCTGGACACATGGTCGTGTGCCAGACCGTGTGTTCATGCTATACCATGGAATTGAAAAC
131 ACACGACCTGGACACATGGGCGTGTGCCAAACCGTGTGTTCATGCTATACCATGGAATTGAAAAC
35854 AGTAAGTTACACGGCCTGGACA
196 AGTAAGTTACACGGCCTGGACA
*
35876 CACGGGCGTGGGCTAGACCGTGTGA
1 CACGGGCGTGGGCCAGACCGTGTGA
35901 CACCCACGGG
Statistics
Matches: 233, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
217 233 1.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (217 bp):
CACGGGCGTGGGCCAGACCGTGTGAACGTACTATTTTGAGAGTATAGAAATAGTGAGTTACATGA
CTTGGACCTACGAACGTGTGCCAAACTTGTGGATGAGTTGTTGATGAAAACAGAAACAGTGAGTT
ACACGACCTGGACACATGGGCGTGTGCCAAACCGTGTGTTCATGCTATACCATGGAATTGAAAAC
AGTAAGTTACACGGCCTGGACA
Found at i:35872 original size:73 final size:73
Alignment explanation
Indices: 35568--35900 Score: 259
Period size: 73 Copynumber: 4.6 Consensus size: 73
35558 ATAAATAGTG
* * * *
35568 AGTTACACGACCTGGACACATGGGCGTGTGTCAAACCGTGTGTTCATGCTATACCATGGAATTGA
1 AGTTACACGACCTGGACACACGGGCGTGTGCCAGACCGTGTGATCATGCTAT-CCATGGAATTGA
35633 -AAACAGTA
65 GAAACAGTA
* * * * * ** *
35641 AGTTACACGGCCTGGACACACGGGCGTGGGCCAGACCGTGTGAACGTACTAT-TTTGAGAGTAT-
1 AGTTACACGACCTGGACACACGGGCGTGTGCCAGACCGTGTGATCATGCTATCCATG-GAAT-TG
* *
35704 AGAAATAGTG
64 AGAAACAGTA
* * * * * * * ** ***
35714 AGTTACATGACTTGGAC-CTACGAGCGTGTGCCAGA-CTTGTGGATGA-GTTGTTGAT-GAAAAC
1 AGTTACACGACCTGGACAC-ACGGGCGTGTGCCAGACCGTGT-GATCATGCTATCCATGGAATTG
*
35775 AGAAACAGTG
64 AGAAACAGTA
* * *
35785 AGTTACACGACCTGGACACATGGTCGTGTGCCAGACCGTGTGTTCATGCTATACCATGGAATTGA
1 AGTTACACGACCTGGACACACGGGCGTGTGCCAGACCGTGTGATCATGCTAT-CCATGGAATTGA
35850 -AAACAGTA
65 GAAACAGTA
* * *
35858 AGTTACACGGCCTGGACACACGGGCGTGGGCTAGACCGTGTGA
1 AGTTACACGACCTGGACACACGGGCGTGTGCCAGACCGTGTGA
35901 CACCCACGGG
Statistics
Matches: 194, Mismatches: 54, Indels: 24
0.71 0.20 0.09
Matches are distributed among these distances:
71 44 0.23
72 19 0.10
73 127 0.65
74 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (73 bp):
AGTTACACGACCTGGACACACGGGCGTGTGCCAGACCGTGTGATCATGCTATCCATGGAATTGAG
AAACAGTA
Found at i:36047 original size:38 final size:39
Alignment explanation
Indices: 36005--36096 Score: 116
Period size: 39 Copynumber: 2.4 Consensus size: 39
35995 ATTGGCAGTG
*
36005 ACACTGTAAACA-CTGCAATGTAA-ACTAAATTGACGGTA
1 ACACTGTAAACATC-GCAATGCAATACTAAATTGACGGTA
* *
36043 ACACTGTAAATATCGTAATGCAATACTAAATTGACGGTA
1 ACACTGTAAACATCGCAATGCAATACTAAATTGACGGTA
* *
36082 ACACAGTAAATATCG
1 ACACTGTAAACATCG
36097 TAAAATAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
38 18 0.38
39 30 0.62
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.25
Consensus pattern (39 bp):
ACACTGTAAACATCGCAATGCAATACTAAATTGACGGTA
Found at i:36107 original size:39 final size:39
Alignment explanation
Indices: 36028--36115 Score: 131
Period size: 39 Copynumber: 2.3 Consensus size: 39
36018 TGCAATGTAA
* **
36028 ACTAAATTGACGGTAACACTGTAAATATCGTAATGCAAT
1 ACTAAATTGACGGTAACACAGTAAATATCGTAAAACAAT
*
36067 ACTAAATTGACGGTAACACAGTAAATATCGTAAAATAAT
1 ACTAAATTGACGGTAACACAGTAAATATCGTAAAACAAT
*
36106 ACTGAATTGA
1 ACTAAATTGA
36116 AGGTGATATT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (39 bp):
ACTAAATTGACGGTAACACAGTAAATATCGTAAAACAAT
Found at i:42900 original size:39 final size:39
Alignment explanation
Indices: 42852--42951 Score: 130
Period size: 39 Copynumber: 2.6 Consensus size: 39
42842 AATTGACAGA
* *
42852 AACACTGTAAATACCGTAATGCAATATTGAA-CTAACGGT
1 AACACTGTAAATACCGTAAAGCAATACTGAATC-AACGGT
*
42891 AACACTGTAAATACCGTAAAGCAATACTGAATCGACGGT
1 AACACTGTAAATACCGTAAAGCAATACTGAATCAACGGT
* * *
42930 GACACTGTAAACACCGTGAAGC
1 AACACTGTAAATACCGTAAAGC
42952 TAGGTAGTGA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 53 0.98
40 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (39 bp):
AACACTGTAAATACCGTAAAGCAATACTGAATCAACGGT
Found at i:44258 original size:9 final size:9
Alignment explanation
Indices: 44079--44280 Score: 69
Period size: 9 Copynumber: 21.8 Consensus size: 9
44069 TTATGATTTT
*
44079 TTTTTAGAA
1 TTTTTATAA
*
44088 TTTTCATAA
1 TTTTTATAA
*
44097 GTTTATATAAA
1 -TTTTTAT-AA
44108 TTTTTA-AA
1 TTTTTATAA
44116 TTTTT-T-A
1 TTTTTATAA
44123 TTTTTATAAA
1 TTTTTAT-AA
* *
44133 ATTTCA-AA
1 TTTTTATAA
44141 TATTTTA-AA
1 T-TTTTATAA
44150 TATGTTGTATTAA
1 T-T-TT-TA-TAA
*
44163 -GTTTATAA
1 TTTTTATAA
* *
44171 ATTTTATAT
1 TTTTTATAA
* *
44180 TTTATTAGAG
1 TTT-TTATAA
44190 TTTTTAT-A
1 TTTTTATAA
44198 TTCTTTATAA
1 TT-TTTATAA
**
44208 GATTTATAA
1 TTTTTATAA
44217 TTTTTATAA
1 TTTTTATAA
**
44226 GTTGATATCAA
1 -TTTTTAT-AA
* *
44237 TTTTCATAT
1 TTTTTATAA
44246 TTTTTATAA
1 TTTTTATAA
*
44255 TTTTTTCTAA
1 -TTTTTATAA
44265 TTTTT-TAA
1 TTTTTATAA
44273 TATTTTAT
1 T-TTTTAT
44281 GGGAAAATAT
Statistics
Matches: 143, Mismatches: 30, Indels: 39
0.67 0.14 0.18
Matches are distributed among these distances:
7 6 0.04
8 19 0.13
9 65 0.45
10 45 0.31
11 6 0.04
13 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:57731 original size:265 final size:265
Alignment explanation
Indices: 56786--57844 Score: 1507
Period size: 265 Copynumber: 4.0 Consensus size: 265
56776 TAAAATAATT
56786 TCAAAATAGTCCCTTAACGCTTTCACAAAGTCATTCCAACCCCTCCACTTTTTAAGCC-TTCAAT
1 TCAAAATAGTCCCTTAACGCTTTCACAAAGTCATTCCAACCCCTCCACTTTTTAAGCCTTTC-AT
* * * * * **
56850 TTATGGCAACAAGCCATATTTAGCGAAGTCATCCCAACTACTCTTCCCACAATCAAGGGCTAACC
65 TTATGGCACCAAGCCATATTTAGCAAAGTCATCCCAACCACTCTTCCTACTATCAAGGGCCGACC
* * *
56915 ATGGGAGGAGAGAATCAAGGCTCTCCCATGTTATTTTTATCCTCCTCAAAATAGTTTAAATAACC
130 ATGGGAGGAGAGAATCAAGGCTCTCCCATGCTATTTTTAGCCTCCTCAAAATAGTGTAAATAACC
* * *
56980 ACCTTTATTCCCTTTTATATCATCATTCATTCACTCACCATTCATCCTTCCTTCTCTTCCATATT
195 ACCTTTATTCCCTTTCATATCATCATTCATTCACTCACTATTCATCCTTCCTTCTCTTCCATCTT
57045 TTCCTA
260 TTCCTA
* * * *
57051 TTAAAATAGTCCCTTAACGCTTTCATAGAGTCGA-TCCAACCTCTCCACTTTTTAAGCCTTTCAT
1 TCAAAATAGTCCCTTAACGCTTTCACAAAGTC-ATTCCAACCCCTCCACTTTTTAAGCCTTTCAT
* * * * * * * *
57115 TTGTGGCATCAAGTCATATTTAGCATATTCATCCCAATCACTCTTCCTACTACCAAGGGCTGACC
65 TTATGGCACCAAGCCATATTTAGCAAAGTCATCCCAACCACTCTTCCTACTATCAAGGGCCGACC
* * *
57180 ATGGGAAGAGAGAATCAAGGCTCTCCCATGCTATATTTAGCCTCTTCAAAATAGTGTAAATAACC
130 ATGGGAGGAGAGAATCAAGGCTCTCCCATGCTATTTTTAGCCTCCTCAAAATAGTGTAAATAACC
* * * *
57245 ATCTTTGTT-CTTTTCATATCATCATTCATTCACTCACTATTCATCCTTCCTTCTCTTCTATCTT
195 ACCTTTATTCCCTTTCATATCATCATTCATTCACTCACTATTCATCCTTCCTTCTCTTCCATCTT
*
57309 TTCGTA
260 TTCCTA
* * *
57315 TCAAAATAGTCCCTTAACGCTTTAACAAAGTCATTCAAACCCCTCCAC-TTTTAAGCCTTCCATT
1 TCAAAATAGTCCCTTAACGCTTTCACAAAGTCATTCCAACCCCTCCACTTTTTAAGCCTTTCATT
* *
57379 TATGGCACCAAGCCATATTTAGCAAAATCATCCCAACCACTCTTCCTACTATCAAGGGTCGACCA
66 TATGGCACCAAGCCATATTTAGCAAAGTCATCCCAACCACTCTTCCTACTATCAAGGGCCGACCA
* * * * *
57444 TGGGAGGAGCGAATCAAGGCTCTCCCATGCTATTTTTAGCGTTCTCAAAATAGTGTAAATAGCCT
131 TGGGAGGAGAGAATCAAGGCTCTCCCATGCTATTTTTAGCCTCCTCAAAATAGTGTAAATAACCA
*
57509 CCTTTATTCCCTTTCATATCATCATTCATTCACTCACTATTCATCATTCCTTCTCTTCCATCTTT
196 CCTTTATTCCCTTTCATATCATCATTCATTCACTCACTATTCATCCTTCCTTCTCTTCCATCTTT
57574 TCCTA
261 TCCTA
** * ** * *
57579 TCAAAATAGTCTTTTAACGCTTTCATAAAGTTGTTCGAACTCCTCCACTTTTTAAGCCTTTCATT
1 TCAAAATAGTCCCTTAACGCTTTCACAAAGTCATTCCAACCCCTCCACTTTTTAAGCCTTTCATT
* *
57644 TATGGCACCAAGCCACA-TTAGGCAAAGTCATCCCAACCGCTCTTCCTACTATCAAGGGCCGACC
66 TATGGCACCAAGCCATATTTA-GCAAAGTCATCCCAACCACTCTTCCTACTATCAAGGGCCGACC
* * * * **
57708 ATGGGAGGAGAGAATCAAGGCTCTCCCATTCTATTTTTTGCCTCCTCAAATTATTGTAAATAGTC
130 ATGGGAGGAGAGAATCAAGGCTCTCCCATGCTATTTTTAGCCTCCTCAAAATAGTGTAAATAACC
* *
57773 ACCTTTATTCCCTTTCATATCATCATTCATTCACTCCCGATTCATCCTTCCTTCTCTTCCATCTT
195 ACCTTTATTCCCTTTCATATCATCATTCATTCACTCACTATTCATCCTTCCTTCTCTTCCATCTT
57838 TTCCTA
260 TTCCTA
57844 T
1 T
57845 TTGCCCTCCC
Statistics
Matches: 703, Mismatches: 85, Indels: 12
0.88 0.11 0.01
Matches are distributed among these distances:
263 135 0.19
264 195 0.28
265 369 0.52
266 4 0.01
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (265 bp):
TCAAAATAGTCCCTTAACGCTTTCACAAAGTCATTCCAACCCCTCCACTTTTTAAGCCTTTCATT
TATGGCACCAAGCCATATTTAGCAAAGTCATCCCAACCACTCTTCCTACTATCAAGGGCCGACCA
TGGGAGGAGAGAATCAAGGCTCTCCCATGCTATTTTTAGCCTCCTCAAAATAGTGTAAATAACCA
CCTTTATTCCCTTTCATATCATCATTCATTCACTCACTATTCATCCTTCCTTCTCTTCCATCTTT
TCCTA
Found at i:59528 original size:23 final size:22
Alignment explanation
Indices: 59492--59545 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
59482 TTCTATCATC
*
59492 GAAAACATGTTCGAAAATATGTAG
1 GAAAA-ATTTTCGAAAAT-TGTAG
* * *
59516 GAAAAATTTTCGATAATTTTTG
1 GAAAAATTTTCGAAAATTGTAG
59538 GAAAAATT
1 GAAAAATT
59546 ACAGAGAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 11 0.42
23 10 0.38
24 5 0.19
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (22 bp):
GAAAAATTTTCGAAAATTGTAG
Found at i:66715 original size:7 final size:7
Alignment explanation
Indices: 66693--66739 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
66683 AATTTTCCAT
66693 CCTTTCTC
1 CCTTT-TC
66701 CC-TTTC
1 CCTTTTC
66707 CCTTTTC
1 CCTTTTC
*
66714 CCATTTC
1 CCTTTTC
*
66721 CCTTCTC
1 CCTTTTC
*
66728 CCTTTCC
1 CCTTTTC
66735 CCTTT
1 CCTTT
66740 GAGAGACTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
6 4 0.12
7 27 0.82
8 2 0.06
ACGTcount: A:0.02, C:0.49, G:0.00, T:0.49
Consensus pattern (7 bp):
CCTTTTC
Found at i:66720 original size:14 final size:13
Alignment explanation
Indices: 66693--66735 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
66683 AATTTTCCAT
66693 CCTTTCTCCCTTTC
1 CCTTT-TCCCTTTC
66707 CCTTTTCCCATTTC
1 CCTTTTCCC-TTTC
*
66721 CCTTCTCCCTTTC
1 CCTTTTCCCTTTC
66734 CC
1 CC
66736 CTTTGAGAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 10 0.37
14 17 0.63
ACGTcount: A:0.02, C:0.51, G:0.00, T:0.47
Consensus pattern (13 bp):
CCTTTTCCCTTTC
Found at i:66738 original size:14 final size:13
Alignment explanation
Indices: 66696--66735 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
66686 TTTCCATCCT
66696 TTCTCCCTTTCCC
1 TTCTCCCTTTCCC
*
66709 TTTTCCCATTTCCC
1 TTCTCCC-TTTCCC
66723 TTCTCCCTTTCCC
1 TTCTCCCTTTCCC
66736 CTTTGAGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.03, C:0.50, G:0.00, T:0.47
Consensus pattern (13 bp):
TTCTCCCTTTCCC
Found at i:72648 original size:29 final size:29
Alignment explanation
Indices: 72615--72672 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
72605 CAATTTTATG
*
72615 TAATTATAAAAGTCTATAGAATTCCAATT
1 TAATTATAAAAGTCTATAAAATTCCAATT
* *
72644 TAATTATTAAAGTCTATAAAATTCGAATT
1 TAATTATAAAAGTCTATAAAATTCCAATT
72673 ATATAATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.40
Consensus pattern (29 bp):
TAATTATAAAAGTCTATAAAATTCCAATT
Found at i:72681 original size:29 final size:29
Alignment explanation
Indices: 72623--72682 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
72613 TGTAATTATA
* *
72623 AAAGTCTATAGAATTCCAATTTAATTATT
1 AAAGTCTATAAAATTCCAATTTAATAATT
*
72652 AAAGTCTATAAAATTCGAA-TTATATAATT
1 AAAGTCTATAAAATTCCAATTTA-ATAATT
72681 AA
1 AA
72683 CAATGATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 3 0.11
29 24 0.89
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (29 bp):
AAAGTCTATAAAATTCCAATTTAATAATT
Found at i:75189 original size:19 final size:19
Alignment explanation
Indices: 75162--75200 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
75152 CGTAAGATAA
75162 AAATAAAAAAATAAA-AATT
1 AAAT-AAAAAATAAATAATT
*
75181 AAATGAAAAATAAATAATT
1 AAATAAAAAATAAATAATT
75200 A
1 A
75201 TTTTTAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (19 bp):
AAATAAAAAATAAATAATT
Found at i:75604 original size:29 final size:29
Alignment explanation
Indices: 75547--75617 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
75537 CCTATTATAG
* *
75547 TTTTTA-ATTTTTAAACTTTTTAAACTTT
1 TTTTTATATTTTTAAAATTTTGAAACTTT
*
75575 TTTTTATATTTTTAAAATTTGTGATA-TTT
1 TTTTTATATTTTTAAAATTT-TGAAACTTT
75604 TTTTCTAT-TTTTTA
1 TTTT-TATATTTTTA
75618 TTTTCCATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 6 0.16
29 25 0.68
30 6 0.16
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (29 bp):
TTTTTATATTTTTAAAATTTTGAAACTTT
Found at i:77194 original size:28 final size:29
Alignment explanation
Indices: 77121--77201 Score: 82
Period size: 28 Copynumber: 2.9 Consensus size: 29
77111 AAAAAAATTT
*
77121 AAAAACAATTATAAAAATATATAAAAGTG
1 AAAAAAAATTATAAAAATATATAAAAGTG
*
77150 -CAAAAAA-TATAAAAA-ATATTATAAA-TG
1 AAAAAAAATTATAAAAATATA-TA-AAAGTG
*
77177 AAAAAAAATTATATAAAT-TATAAAA
1 AAAAAAAATTATAAAAATATATAAAA
77202 TTATTTAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
26 3 0.07
27 15 0.35
28 16 0.37
29 9 0.21
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (29 bp):
AAAAAAAATTATAAAAATATATAAAAGTG
Found at i:77201 original size:19 final size:19
Alignment explanation
Indices: 77157--77201 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
77147 GTGCAAAAAA
77157 TATAAAAAATATTATAAAT
1 TATAAAAAATATTATAAAT
* *
77176 GAAAAAAAAT-TATATAAAT
1 TATAAAAAATAT-TATAAAT
77195 TATAAAA
1 TATAAAA
77202 TTATTTAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
TATAAAAAATATTATAAAT
Found at i:77379 original size:18 final size:18
Alignment explanation
Indices: 77346--77389 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
77336 TTACTAAAAT
* *
77346 ATATAAAATTAGAAAAGA
1 ATATAAAATAAAAAAAGA
**
77364 ATATAAAATAAAAAAATT
1 ATATAAAATAAAAAAAGA
77382 ATATAAAA
1 ATATAAAA
77390 ATGATAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (18 bp):
ATATAAAATAAAAAAAGA
Found at i:77622 original size:21 final size:20
Alignment explanation
Indices: 77593--77641 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
77583 AAAAAATGGT
77593 TCTTATAATTTTGTTTCATATA
1 TCTT-TAATTTTGTTTCATA-A
*
77615 TCTTTAA-TTTGTTTTATAA
1 TCTTTAATTTTGTTTCATAA
*
77634 TTTTTAAT
1 TCTTTAAT
77642 ACGTAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 7 0.29
20 10 0.42
21 3 0.12
22 4 0.17
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (20 bp):
TCTTTAATTTTGTTTCATAA
Found at i:77785 original size:17 final size:18
Alignment explanation
Indices: 77746--77794 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
77736 AAATTTTTTT
*
77746 ATTTAATAATTTTTAATT
1 ATTTAATAATTTTTAATA
* *
77764 TTTTAA-AATTTTTAGTA
1 ATTTAATAATTTTTAATA
77781 ATTTATATAATTTT
1 ATTTA-ATAATTTT
77795 CTATACCTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 13 0.52
18 6 0.24
19 6 0.24
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
ATTTAATAATTTTTAATA
Found at i:77799 original size:10 final size:9
Alignment explanation
Indices: 77751--77862 Score: 54
Period size: 9 Copynumber: 12.4 Consensus size: 9
77741 TTTTTATTTA
77751 ATAATTTTT
1 ATAATTTTT
*
77760 A-ATTTTTT
1 ATAATTTTT
*
77768 AAAATTTTT
1 ATAATTTTT
*
77777 AGTAATTTAT
1 A-TAATTTTT
77787 ATAATTTTCT
1 ATAATTTT-T
**
77797 ATACCTTTT
1 ATAATTTTT
77806 AT-ATTTTT
1 ATAATTTTT
* *
77814 GTACTTTTCT
1 ATAATTTT-T
77824 AT-A-TTTT
1 ATAATTTTT
*
77831 ATATTTTTTT
1 ATA-ATTTTT
* *
77841 GTAAATTTT
1 ATAATTTTT
77850 A-AATATTTT
1 ATAAT-TTTT
77859 ATAA
1 ATAA
77863 AATACTTATG
Statistics
Matches: 74, Mismatches: 19, Indels: 19
0.66 0.17 0.17
Matches are distributed among these distances:
7 3 0.04
8 17 0.23
9 30 0.41
10 24 0.32
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:77811 original size:27 final size:25
Alignment explanation
Indices: 77781--77836 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
77771 ATTTTTAGTA
77781 ATTTATATAATTTTCTATACCTTTTAT
1 ATTTATATAATTTTCTATA--TTTTAT
* * *
77808 ATTTTTGTACTTTTCTATATTTTAT
1 ATTTATATAATTTTCTATATTTTAT
77833 ATTT
1 ATTT
77837 TTTTGTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 10 0.38
27 16 0.62
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (25 bp):
ATTTATATAATTTTCTATATTTTAT
Found at i:77839 original size:27 final size:26
Alignment explanation
Indices: 77789--77861 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
77779 TAATTTATAT
77789 AATTTTCTATACCTTTTATATTTTTGT-
1 AATTTTCTATA--TTTTATATTTTTGTA
*
77816 ACTTTTCTATATTTTATATTTTTTTGTA
1 AATTTTCTATATTTTATA--TTTTTGTA
**
77844 AATTTTAAATATTTTATA
1 AATTTTCTATATTTTATA
77862 AAATACTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
25 7 0.18
27 17 0.44
28 15 0.38
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.63
Consensus pattern (26 bp):
AATTTTCTATATTTTATATTTTTGTA
Found at i:78546 original size:32 final size:33
Alignment explanation
Indices: 78505--78571 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 33
78495 ATCAACATTA
*
78505 ATTTTTAAAAATTCA-AAAAAATTA-TAAGAAAT
1 ATTTTTAAAAATT-ATAAAAAATTATTAAAAAAT
*
78537 ATTTTTAAAAATTATATAAAATTATTAAAAAAT
1 ATTTTTAAAAATTATAAAAAATTATTAAAAAAT
78570 AT
1 AT
78572 AATAAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 1 0.03
32 21 0.68
33 9 0.29
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (33 bp):
ATTTTTAAAAATTATAAAAAATTATTAAAAAAT
Found at i:78549 original size:22 final size:22
Alignment explanation
Indices: 78521--78599 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 22
78511 AAAAATTCAA
*
78521 AAAAATTATAAGAAATATTTTT
1 AAAAATTATAAAAAATATTTTT
* *
78543 AAAAATTAT-ATAAA-ATTATT
1 AAAAATTATAAAAAATATTTTT
*
78563 AAAAAATATAATAAAATATATTTT
1 AAAAATTATAA-AAAATAT-TTTT
**
78587 TTAAATTATAAAA
1 AAAAATTATAAAA
78600 TTAATTAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
20 13 0.29
21 5 0.11
22 12 0.27
23 4 0.09
24 11 0.24
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (22 bp):
AAAAATTATAAAAAATATTTTT
Found at i:78566 original size:20 final size:21
Alignment explanation
Indices: 78521--78584 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
78511 AAAAATTCAA
* *
78521 AAAAATTATAAGAAATATTTTT
1 AAAAATTATAATAAA-ATTATT
78543 AAAAATTAT-ATAAAATTATT
1 AAAAATTATAATAAAATTATT
*
78563 AAAAAATATAATAAAATATATT
1 AAAAATTATAATAAAAT-TATT
78585 TTTTAAATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 13 0.35
21 11 0.30
22 13 0.35
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
AAAAATTATAATAAAATTATT
Found at i:78573 original size:42 final size:44
Alignment explanation
Indices: 78520--78608 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 44
78510 TAAAAATTCA
*
78520 AAAAAATTATAA-GAAATAT-TTTTAAAAATTATATAAAATT-ATT
1 AAAAAATTATAATAAAATATATTTTAAAAA-T-TATAAAATTAATT
**
78563 AAAAAA-TATAATAAAATATATTTTTTAAATTATAAAATTAATT
1 AAAAAATTATAATAAAATATATTTTAAAAATTATAAAATTAATT
78606 AAA
1 AAA
78609 TGATATGTCC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
42 14 0.35
43 19 0.47
44 7 0.17
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (44 bp):
AAAAAATTATAATAAAATATATTTTAAAAATTATAAAATTAATT
Found at i:78902 original size:28 final size:32
Alignment explanation
Indices: 78851--78913 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 32
78841 AATCATATAT
*
78851 ATATATTTCAAATATAAAATTTTAAACCAAAA
1 ATATATTTCAAATATAAAATTTTAAAACAAAA
78883 ATATA-TTCAAA-A-AAAA-TTTAAAACAAAA
1 ATATATTTCAAATATAAAATTTTAAAACAAAA
78911 ATA
1 ATA
78914 AAATAAGTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 14 0.47
29 4 0.13
30 1 0.03
31 6 0.20
32 5 0.17
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (32 bp):
ATATATTTCAAATATAAAATTTTAAAACAAAA
Found at i:82497 original size:60 final size:58
Alignment explanation
Indices: 82430--82752 Score: 273
Period size: 59 Copynumber: 5.4 Consensus size: 58
82420 CGGAGAATAC
* *
82430 GGGGTTAAAACATGATTTTAGAAAAAGTTTAGGAGTAAAAATGTAATTTTGGAAATGTTT
1 GGGGTTAAAATATGATTTTAGAAAAAGTTTAGG-GTTAAAATGTAATTTTGGAAA-GTTT
* * * * * *
82490 GGGGTTAAAATGTAATTTTAG-GAAGGTTTAAGGGTCAAAATGTAATTTTGGAGGAGTTT
1 GGGGTTAAAATATGATTTTAGAAAAAGTTT-AGGGTTAAAATGTAATTTTGGA-AAGTTT
* ** *
82549 AGGGGTTAAAATGTGATTTT-GAAGGAGTTTAGAGG-TCAAATGTAATTTTGGAAAGTTT
1 -GGGGTTAAAATATGATTTTAGAAAAAGTTTAG-GGTTAAAATGTAATTTTGGAAAGTTT
* * *
82607 AGGGGGTCAAAATAT-ACTTTTAG-AAAAGTTTGGGGTTAAAATATAATTTTTGGAAAAGTTT
1 --GGGGTTAAAATATGA-TTTTAGAAAAAGTTTAGGGTTAAAATGTAA-TTTTGG-AAAGTTT
* * *
82668 GGTGGTTAAAA-ATGATTTT-GGAAAAGTTTAAGGGTTAAAATATAATTTTAGAAAAGTTTT
1 GG-GGTTAAAATATGATTTTAGAAAAAGTTT-AGGGTTAAAATGTAATTTT-GGAAAG-TTT
* *
82728 GAGGTCAAAATATGATTTCTAGAAA
1 GGGGTTAAAATATGATTT-TAGAAA
82753 GTTGGGACTT
Statistics
Matches: 214, Mismatches: 29, Indels: 38
0.76 0.10 0.14
Matches are distributed among these distances:
58 9 0.04
59 107 0.50
60 87 0.41
61 8 0.04
62 3 0.01
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (58 bp):
GGGGTTAAAATATGATTTTAGAAAAAGTTTAGGGTTAAAATGTAATTTTGGAAAGTTT
Found at i:82499 original size:30 final size:30
Alignment explanation
Indices: 82452--82726 Score: 253
Period size: 30 Copynumber: 9.3 Consensus size: 30
82442 TGATTTTAGA
* *
82452 AAAAGTTTAGGAGTAAAAATGTAATTTTGG
1 AAAAGTTTAGGGGTTAAAATGTAATTTTGG
*
82482 AAATGTTT-GGGGTTAAAATGTAATTTTAGG
1 AAAAGTTTAGGGGTTAAAATGTAATTTT-GG
* * *
82512 -AAGGTTTAAGGGTCAAAATGTAATTTTGG
1 AAAAGTTTAGGGGTTAAAATGTAATTTTGG
** *
82541 AGGAGTTTAGGGGTTAAAATGTGATTTT-G
1 AAAAGTTTAGGGGTTAAAATGTAATTTTGG
* * *
82570 AAGGAGTTTAGAGG-TCAAATGTAATTTTGG
1 AA-AAGTTTAGGGGTTAAAATGTAATTTTGG
* * * *
82600 -AAAGTTTAGGGGGTCAAAATATACTTTTAG
1 AAAAGTTTA-GGGGTTAAAATGTAATTTTGG
*
82630 AAAAGTTT-GGGGTTAAAATATAATTTTTGG
1 AAAAGTTTAGGGGTTAAAATGTAA-TTTTGG
82660 AAAAGTTT-GGTGGTTAAAAATG--ATTTTGG
1 AAAAGTTTAGG-GGTT-AAAATGTAATTTTGG
* * *
82689 AAAAGTTTAAGGGTTAAAATATAATTTTAG
1 AAAAGTTTAGGGGTTAAAATGTAATTTTGG
82719 AAAAGTTT
1 AAAAGTTT
82727 TGAGGTCAAA
Statistics
Matches: 201, Mismatches: 30, Indels: 28
0.78 0.12 0.11
Matches are distributed among these distances:
28 11 0.05
29 74 0.37
30 100 0.50
31 11 0.05
32 5 0.02
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.36
Consensus pattern (30 bp):
AAAAGTTTAGGGGTTAAAATGTAATTTTGG
Found at i:82561 original size:89 final size:87
Alignment explanation
Indices: 82444--82726 Score: 297
Period size: 89 Copynumber: 3.2 Consensus size: 87
82434 TTAAAACATG
* *
82444 ATTTTAGAAAAAGTTTAGGAGTAAAAATGTAATTTTGGAAATGTTTGGGGTTAAAATGTAATTTT
1 ATTTTAG-AAAAGTTTAGGGGTTAAAATGTAATTTTGGAAA-GTTTGGGGTTAAAATGTAATTTT
* *
82509 AGGAAGGTTTAAGGGTCAAAATGTA
64 -GGAAAGTTTAAGGGTCAAAATATA
* ** * * *
82534 ATTTTGGAGGAGTTTAGGGGTTAAAATGTGATTTT-GAAGGAGTTTAGAGG-TCAAATGTAATTT
1 ATTTTAGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAA--AGTTT-GGGGTTAAAATGTAATTT
*
82597 TGGAAAGTTTAGGGGGTCAAAATATA
63 TGGAAAGTTTA-AGGGTCAAAATATA
* *
82623 CTTTTAGAAAAGTTT-GGGGTTAAAATATAATTTTTGGAAAAGTTTGGTGGTTAAAAATG--ATT
1 ATTTTAGAAAAGTTTAGGGGTTAAAATGTAA-TTTTGG-AAAGTTTGG-GGTT-AAAATGTAATT
*
82685 TTGGAAAAGTTTAAGGGTTAAAATATA
62 TTGG-AAAGTTTAAGGGTCAAAATATA
82712 ATTTTAGAAAAGTTT
1 ATTTTAGAAAAGTTT
82727 TGAGGTCAAA
Statistics
Matches: 160, Mismatches: 22, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
88 26 0.16
89 107 0.67
90 20 0.12
91 7 0.04
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.37
Consensus pattern (87 bp):
ATTTTAGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAAGTTTGGGGTTAAAATGTAATTTTGG
AAAGTTTAAGGGTCAAAATATA
Found at i:82755 original size:30 final size:30
Alignment explanation
Indices: 82432--82752 Score: 156
Period size: 30 Copynumber: 10.7 Consensus size: 30
82422 GAGAATACGG
* * *
82432 GGTTAAAACATGATTTTAGAAAAAGTTTAG-
1 GGTTAAAATATAATTTTAG-AAAAGTTTTGA
* * * * *
82462 GAGTAAAAATGTAATTTTGGAAATG-TTTGG
1 G-GTTAAAATATAATTTTAGAAAAGTTTTGA
* * * *
82492 GGTTAAAATGTAATTTTAG-GAAGGTTTAA
1 GGTTAAAATATAATTTTAGAAAAGTTTTGA
* * * ** * *
82521 GGGTCAAAATGTAATTTTGGAGGAGTTTAGG
1 -GGTTAAAATATAATTTTAGAAAAGTTTTGA
* * * *
82552 GGTTAAAATGTGATTTT-GAAGGAGTTTAGA
1 GGTTAAAATATAATTTTAGAA-AAGTTTTGA
* * * * *
82582 GG-TCAAATGTAATTTT-GGAAAGTTTAGGG
1 GGTTAAAATATAATTTTAGAAAAGTTT-TGA
* * *
82611 GGTCAAAATATACTTTTAGAAAAG-TTTGG
1 GGTTAAAATATAATTTTAGAAAAGTTTTGA
* * *
82640 GGTTAAAATATAATTTTTGGAAAAGTTTGGT
1 GGTTAAAATATAA-TTTTAGAAAAGTTTTGA
* * *
82671 GGTTAAAA-ATGATTTTGGAAAAG-TTTAA
1 GGTTAAAATATAATTTTAGAAAAGTTTTGA
82699 GGGTTAAAATATAATTTTAGAAAAGTTTTGA
1 -GGTTAAAATATAATTTTAGAAAAGTTTTGA
* *
82730 GGTCAAAATATGATTTCTAGAAA
1 GGTTAAAATATAATTT-TAGAAA
82753 GTTGGGACTT
Statistics
Matches: 226, Mismatches: 50, Indels: 29
0.74 0.16 0.10
Matches are distributed among these distances:
28 9 0.04
29 73 0.32
30 100 0.44
31 44 0.19
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (30 bp):
GGTTAAAATATAATTTTAGAAAAGTTTTGA
Found at i:83381 original size:24 final size:24
Alignment explanation
Indices: 83353--83398 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
83343 TTAAAACATG
*
83353 TTTTTATTT-TGTTGTTTCCTTAT
1 TTTTTTTTTCTGTTGTTTCCTTAT
*
83376 TTTTTTTTTCTTTTGTTTCCTTA
1 TTTTTTTTTCTGTTGTTTCCTTA
83399 AAAACAGATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.07, C:0.11, G:0.07, T:0.76
Consensus pattern (24 bp):
TTTTTTTTTCTGTTGTTTCCTTAT
Found at i:84353 original size:17 final size:17
Alignment explanation
Indices: 84331--84363 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
84321 TGTATTGGAC
84331 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
*
84348 AATTTAAGTTTAAAAT
1 AATTTAAATTTAAAAT
84364 TTGTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:84964 original size:50 final size:50
Alignment explanation
Indices: 84790--85942 Score: 499
Period size: 50 Copynumber: 23.2 Consensus size: 50
84780 CATTGTGTCT
* * * *
84790 TCAATCTTTCCCGTCAC-T-TTTTCAAGGTGCTAGGTTTC-CCGTTGCGGCC
1 TCAACCTTTCCCATCACATCTTTT-AAGGTACCAGG-TTCGCCGTTGCGGCC
* * * * * * * *
84839 TCAACCTTTCCCTTTATATC-TTTATGGTATC-GAATTCGCCGTTACGACC
1 TCAACCTTTCCCATCACATCTTTTAAGGTACCAG-GTTCGCCGTTGCGGCC
* * * *
84888 TCAATCC-TT-CCATCGCATCTTCTAAGGTATCAGGTTCGCCGTTGCAGCC
1 TCAA-CCTTTCCCATCACATCTTTTAAGGTACCAGGTTCGCCGTTGCGGCC
* * * *
84937 TTAACCTTTCCCATCACATCTTTTAAGGTACC-GAATTCGCCGTTGGGGCT
1 TCAACCTTTCCCATCACATCTTTTAAGGTACCAG-GTTCGCCGTTGCGGCC
* * * * * * * * * **
84987 TCAATCC-TTCCCTTTAAATC-TTCATGGTACCGGGTTCACCATTACGGTT
1 TCAA-CCTTTCCCATCACATCTTTTAAGGTACCAGGTTCGCCGTTGCGGCC
* * *
85036 TCAACCTTTCCCATCACGTCTTCTT-AGGTACCGGGTTCGCCGTTGCAGCC
1 TCAACCTTTCCCATCACATCTT-TTAAGGTACCAGGTTCGCCGTTGCGGCC
* * **
85086 TTAACCTTTCCCATCGCATCTTTTAAGGTACCAAATTCGCCGTTGCGGCC
1 TCAACCTTTCCCATCACATCTTTTAAGGTACCAGGTTCGCCGTTGCGGCC
* * * * * *
85136 TCAATCCTTTCTCATCACATCTTTTAAGGTACTAGATTCACCATTCCGGCC
1 TCAA-CCTTTCCCATCACATCTTTTAAGGTACCAGGTTCGCCGTTGCGGCC
* ** * * **
85187 TCAATCC-TTCCCTTCGTAT-TTTCAAGGTACCAGATTTACCGTTGCGGCC
1 TCAA-CCTTTCCCATCACATCTTTTAAGGTACCAGGTTCGCCGTTGCGGCC
* * * ** ** * ** * * *
85236 TTAACCTTTCCCTTCATATC--TCCAGGATATTAGATTTACCATTACAGCC
1 TCAACCTTTCCCATCACATCTTTTAAGG-TACCAGGTTCGCCGTTGCGGCC
* * * * * * * * * *
85285 TTAATC-TTCCCTGTCAAATC-TTCATGGTACCGGGTTCGTCATTACGGCC
1 TCAACCTTTCCC-ATCACATCTTTTAAGGTACCAGGTTCGCCGTTGCGGCC
* * *
85334 TCAACCTTTCCCATCATATCTTCTT-AGGTATC-GGATTCGCCGTTACGGCC
1 TCAACCTTTCCCATCACATCTT-TTAAGGTACCAGG-TTCGCCGTTGCGGCC
* * * * *
85384 TCAACTTTTCCCATCACATTTTTTAAGGTACTAGATTCACCGTTGCGGCC
1 TCAACCTTTCCCATCACATCTTTTAAGGTACCAGGTTCGCCGTTGCGGCC
* * * *
85434 TCAATCCTTTCCCATCACATCTTTTAAGGTATC-GAATTCG-TGATTGTGGCC
1 TCAA-CCTTTCCCATCACATCTTTTAAGGTACCAG-GTTCGCCG-TTGCGGCC
* * ** ** * * *
85485 TCAATCATTCCTTTCGTAT-TTTTCATGGTATC-GAGTTCGTCGTTGCGGTCC
1 TCAACCTTTCCCATCACATCTTTT-AAGGTACCAG-GTTCGCCGTTGCGG-CC
** * * * * *
85536 -CAACCTTTCCCATCATGT-TTTCTTAGGTATCAAGTTTG-CGTTTCGGCC
1 TCAACCTTTCCCATCACATCTTT-TAAGGTACCAGGTTCGCCGTTGCGGCC
* * * *
85584 TCAATCTTTCCCATCGCATCTTTTAAGGTACC-GAATTCGCCGTT-CAGGCT
1 TCAACCTTTCCCATCACATCTTTTAAGGTACCAG-GTTCGCCGTTGC-GGCC
* * * * *
85634 TCAATCATTCCCTTCAAATCTTCTT--GGTACCCA-GTTCGCCATTGCGGCC
1 TCAACCTTTCCCATCACATCTT-TTAAGGTA-CCAGGTTCGCCGTTGCGGCC
* * * * *
85683 TCAACCTTT-CCATCACGTCTTCTT-ATGTACCAGGTTCGTCGTTACGGGC
1 TCAACCTTTCCCATCACATCTT-TTAAGGTACCAGGTTCGCCGTTGCGGCC
* * ** *
85732 TCAACCTTTCCCATCGCATCTTTTTAGGTACTGGGTTCGCCGTTGCGACC
1 TCAACCTTTCCCATCACATCTTTTAAGGTACCAGGTTCGCCGTTGCGGCC
* ** * * * * * **
85782 TCAATCC-TTCCCTTCGTATC-TTCATGGTATCGGGTTCGCCATTGCAACC
1 TCAA-CCTTTCCCATCACATCTTTTAAGGTACCAGGTTCGCCGTTGCGGCC
* * * * *
85831 TCAACTTTTCTCATCACATCTTCTT-AGGTACCGGGTTCGCCATTGTGGCC
1 TCAACCTTTCCCATCACATCTT-TTAAGGTACCAGGTTCGCCGTTGCGGCC
* * * * * * **
85881 TCAACATTTCTCATCACATCTTCTAAGGTATC-GAGTTCGTCGTTCCAACC
1 TCAACCTTTCCCATCACATCTTTTAAGGTACCAG-GTTCGCCGTTGCGGCC
85931 TCAACCTTTCCC
1 TCAACCTTTCCC
85943 TTCATCTCTC
Statistics
Matches: 839, Mismatches: 210, Indels: 109
0.72 0.18 0.09
Matches are distributed among these distances:
48 44 0.05
49 309 0.37
50 387 0.46
51 99 0.12
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.35
Consensus pattern (50 bp):
TCAACCTTTCCCATCACATCTTTTAAGGTACCAGGTTCGCCGTTGCGGCC
Found at i:85747 original size:148 final size:146
Alignment explanation
Indices: 85329--85925 Score: 482
Period size: 148 Copynumber: 4.0 Consensus size: 146
85319 TTCGTCATTA
* * * * * * * *
85329 CGGCCTCAACCTTTCCCATCATATCTTCTTAGGTATCG-GATTCGCCGTTACGGCCTCAACTTTT
1 CGGCCTCAATCATTCCCTTCAAATCTTCAT-GGTATCGAG-TTCGCCATTGCGGCCTCAACCTTT
* * * * *
85393 CCCATCACAT-TTTTTAAGGTACTAGATTCACCGTTGCGGCCTCAATCCTTTCCCATCACATCTT
64 -CCATCACGTCTTCTT-AGGTACCAGGTTC-GCGTTGCGGCCTCAA-CCTTTCCCATCACATCTT
* *
85457 TTAAGGTATCGAATTCG-TGATT
125 TTAAGGTACCGAATTCGCCG-TT
* * * * * * *
85479 GTGGCCTCAATCATTCCTTTCGTATTTTTCATGGTATCGAGTTCGTCGTTGCGGTCC-CAACCTT
1 -CGGCCTCAATCATTCCCTTC-AAATCTTCATGGTATCGAGTTCGCCATTGCGG-CCTCAACCTT
* * * * * * * *
85543 TCCCATCATGTTTTCTTAGGTATCAAGTTTGCGTTTCGGCCTCAATCTTTCCCATCGCATCTTTT
63 T-CCATCACGTCTTCTTAGGTACCAGGTTCGCGTTGCGGCCTCAACCTTTCCCATCACATCTTTT
85608 AAGGTACCGAATTCGCCGTT
127 AAGGTACCGAATTCGCCGTT
* * * *
85628 CAGGCTTCAATCATTCCCTTCAAATCTTCTTGGTACCCAGTTCGCCATTGCGGCCTCAACCTTTC
1 C-GGCCTCAATCATTCCCTTCAAATCTTCATGGTATCGAGTTCGCCATTGCGGCCTCAACCTTTC
* * * * *
85693 CATCACGTCTTCTTATGTACCAGGTTCGTCGTTACGGGCTCAACCTTTCCCATCGCATCTTTTTA
65 CATCACGTCTTCTTAGGTACCAGGTTCG-CGTTGCGGCCTCAACCTTTCCCATCACATCTTTTAA
* **
85758 GGTACTGGGTTCGCCGTT
129 GGTACCGAATTCGCCGTT
* * ** * ** *
85776 GCGACCTCAATCCTTCCCTTCGTATCTTCATGGTATCGGGTTCGCCATTGCAACCTCAACTTTTC
1 -CGGCCTCAATCATTCCCTTCAAATCTTCATGGTATCGAGTTCGCCATTGCGGCCTCAACCTTTC
* * * * * * *
85841 TCATCACATCTTCTTAGGTACCGGGTTCGCCATTGTGGCCTCAACATTTCTCATCACATCTTCTA
65 -CATCACGTCTTCTTAGGTACCAGGTTCG-CGTTGCGGCCTCAACCTTTCCCATCACATCTTTTA
* * *
85906 AGGTATCGAGTTCGTCGTT
128 AGGTACCGAATTCGCCGTT
85925 C
1 C
85926 CAACCTCAAC
Statistics
Matches: 356, Mismatches: 80, Indels: 23
0.78 0.17 0.05
Matches are distributed among these distances:
147 25 0.07
148 131 0.37
149 118 0.33
150 14 0.04
151 56 0.16
152 12 0.03
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.36
Consensus pattern (146 bp):
CGGCCTCAATCATTCCCTTCAAATCTTCATGGTATCGAGTTCGCCATTGCGGCCTCAACCTTTCC
ATCACGTCTTCTTAGGTACCAGGTTCGCGTTGCGGCCTCAACCTTTCCCATCACATCTTTTAAGG
TACCGAATTCGCCGTT
Found at i:85762 original size:99 final size:101
Alignment explanation
Indices: 85303--85942 Score: 258
Period size: 99 Copynumber: 6.4 Consensus size: 101
85293 CCCTGTCAAA
* * ** * *
85303 TCTTCATGGTACCGGGTTCGTCATTACGGCCTCAACCTTTCCCATCATATCTTCTTAGGTATCGG
1 TCTTCATGGTACCAGGTTCGCCATTACAACCTCAACCTTTCCCATCACATCTTCTTAGGTACCGG
* * * * *
85368 ATTCGCCGTTACGGCCTCAACTTTTCCCATCACAT-T
66 GTTCGCCATTGCGGCCTCAACCTTT-CCATCACGTCT
* * * * * * * ** *
85404 T-TTTAAGGTACTAGATTCACCGTTGCGGCCTCAATCCTTTCCCATCACATCTT-TTAAGGTATC
1 TCTTCATGGTACCAGGTTCGCCATTACAACCTCAA-CCTTTCCCATCACATCTTCTT-AGGTACC
** ** * * * ** *
85467 GAATTCGTGATTGTGGCCTCAATCATTCC-TTTCGTAT
64 GGGTTCGCCATTGCGGCCTCAACCTTTCCATCACGTCT
* * * * * ** ** * *
85504 TTTTCATGGTATC-GAGTTCGTCGTTGCGGTCC-CAACCTTTCCCATCATGTTTTCTTAGGTATC
1 TCTTCATGGTACCAG-GTTCGCCATTAC-AACCTCAACCTTTCCCATCACATCTTCTTAGGTACC
** * * * * * *
85567 AAGTTTG-CGTTTCGGCCTCAATCTTTCCCATCGCATCT
64 GGGTTCGCCATTGCGGCCTCAACCTTT-CCATCACGTCT
* * * * * * * * *
85605 T-TT-AAGGTACC-GAATTCGCCGTT-CAGGCTTCAATCATTCCCTTCAAATCTTCTT-GGTACC
1 TCTTCATGGTACCAG-GTTCGCCATTACA-ACCTCAACCTTTCCCATCACATCTTCTTAGGTACC
**
85665 CAGTTCGCCATTGCGGCCTCAACCTTTCCATCACGTCT
64 GGGTTCGCCATTGCGGCCTCAACCTTTCCATCACGTCT
* * *** * * *
85703 TCTT-AT-GTACCAGGTTCGTCGTTACGGGCTCAACCTTTCCCATCGCATCTTTTTAGGTACTGG
1 TCTTCATGGTACCAGGTTCGCCATTACAACCTCAACCTTTCCCATCACATCTTCTTAGGTACCGG
* * * * *
85766 GTTCGCCGTTGCGACCTCAATCC-TTCCCT-TCGT-A
66 GTTCGCCATTGCGGCCTCAA-CCTTTCCATCACGTCT
* * * * *
85800 TCTTCATGGTATCGGGTTCGCCATTGCAACCTCAACTTTTCTCATCACATCTTCTTAGGTACCGG
1 TCTTCATGGTACCAGGTTCGCCATTACAACCTCAACCTTTCCCATCACATCTTCTTAGGTACCGG
* * *
85865 GTTCGCCATTGTGGCCTCAACATTTCTCATCACATCT
66 GTTCGCCATTGCGGCCTCAACCTTTC-CATCACGTCT
* * * * *
85902 TC-T-AAGGTATC-GAGTTCGTCGTTCCAACCTCAACCTTTCCC
1 TCTTCATGGTACCAG-GTTCGCCATTACAACCTCAACCTTTCCC
85943 TTCATCTCTC
Statistics
Matches: 402, Mismatches: 113, Indels: 49
0.71 0.20 0.09
Matches are distributed among these distances:
97 4 0.01
98 61 0.15
99 165 0.41
100 95 0.24
101 72 0.18
102 5 0.01
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.36
Consensus pattern (101 bp):
TCTTCATGGTACCAGGTTCGCCATTACAACCTCAACCTTTCCCATCACATCTTCTTAGGTACCGG
GTTCGCCATTGCGGCCTCAACCTTTCCATCACGTCT
Found at i:85932 original size:149 final size:150
Alignment explanation
Indices: 84828--85947 Score: 563
Period size: 149 Copynumber: 7.5 Consensus size: 150
84818 GCTAGGTTTC
* * * * * *
84828 CCGTTGCGGCCTCAA-CCTTTCCCTTTATATC-TTTATGGTATCGAATTCGCCGTTACGACCTCA
1 CCGTTGCGGCCTCAATCCTTTCCCATCACATCTTTTAAGGTATCGAATTCGCCGTTGCAACCTCA
* ** * * * *
84891 ATCCTT-CCATCGCATCTTCTAAGGTATC-AGGTTCGCCGTTGCAGCCTTAACCTTTCCCATCAC
66 ATCCTTCCCTTCATATCTTC-ATGGTATCGA-GTTCGCCATTGCGGCCTCAACCTTTCCCATCAC
*
84954 ATCTT-TTAAGGTACC-GAATTCG
129 ATCTTCTT-AGGTACCAG-GTTCG
* * * * * * * * ** * * * ****
84976 CCGTTGGGGCTTCAATCC-TTCCCTTTAAATC-TTCATGGTACCGGGTTCACCATTACGGTTTCA
1 CCGTTGCGGCCTCAATCCTTTCCCATCACATCTTTTAAGGTATCGAATTCGCCGTTGCAACCTCA
* ** * * * * * * *
85039 A-CCTTTCCCATCACGTCTTCTTAGGTACCGGGTTCGCCGTTGCAGCCTTAACCTTTCCCATCGC
66 ATCC-TTCCCTTCATATCTTCAT-GGTATCGAGTTCGCCATTGCGGCCTCAACCTTTCCCATCAC
**
85103 ATCTT-TTAAGGTACCAAATTCG
129 ATCTTCTT-AGGTACCAGGTTCG
* * * * * **
85125 CCGTTGCGGCCTCAATCCTTTCTCATCACATCTTTTAAGGTA-CTAGATTCACCATTCCGGCCTC
1 CCGTTGCGGCCTCAATCCTTTCCCATCACATCTTTTAAGGTATCGA-ATTCGCCGTTGCAACCTC
* * * * ** * * * *
85189 AATCCTTCCCTTCGTATTTTCAAGGTA-CCAGATTTACCGTTGCGGCCTTAACCTTTCCCTTCAT
65 AATCCTTCCCTTCATATCTTCATGGTATCGAG-TTCGCCATTGCGGCCTCAACCTTTCCCATCAC
* ** * **
85253 ATC-TC-CAGGATATTAGATTTA
129 ATCTTCTTAGG-TACCAGGTTCG
* * * * * * * * * ** * * * **
85274 CCATTACAGCCTTAAT-C-TTCCCTGTCAAATC-TTCATGGTACCGGGTTCGTCATTACGGCCTC
1 CCGTTGCGGCCTCAATCCTTTCCC-ATCACATCTTTTAAGGTATCGAATTCGCCGTTGCAACCTC
* * * * *
85336 AA-CCTTTCCCATCATATCTTCTTAGGTATCG-GATTCGCCGTTACGGCCTCAACTTTTCCCATC
65 AATCC-TTCCCTTCATATCTTCAT-GGTATCGAG-TTCGCCATTGCGGCCTCAACCTTTCCCATC
* * * *
85399 ACAT-TTTTTAAGGTACTAGATTCA
127 ACATCTTCTT-AGGTACCAGGTTCG
* ***
85423 CCGTTGCGGCCTCAATCCTTTCCCATCACATCTTTTAAGGTATCGAATTCG-TGATTGTGGCCTC
1 CCGTTGCGGCCTCAATCCTTTCCCATCACATCTTTTAAGGTATCGAATTCGCCG-TTGCAACCTC
* * * * * *
85487 AATCATTCCTTTCGTATTTTTCATGGTATCGAGTTCGTCGTTGCGGTCC-CAACCTTTCCCATCA
65 AATCCTTCCCTTCATA-TCTTCATGGTATCGAGTTCGCCATTGCGG-CCTCAACCTTTCCCATCA
** * * * *
85551 TGTTTTCTTAGGTATCAAGTTTG
128 CATCTTCTTAGGTACCAGGTTCG
* * * * *
85574 -CGTTTCGGCCTCAAT-CTTTCCCATCGCATCTTTTAAGGTACCGAATTCGCCGTT-CAGGCTTC
1 CCGTTGCGGCCTCAATCCTTTCCCATCACATCTTTTAAGGTATCGAATTCGCCGTTGCA-ACCTC
* * * * * *
85636 AATCATTCCCTTCAAATCTTCTTGGTACCCAGTTCGCCATTGCGGCCTCAACCTTT-CCATCACG
65 AATCCTTCCCTTCATATCTTCATGGTATCGAGTTCGCCATTGCGGCCTCAACCTTTCCCATCACA
*
85700 TCTTCTTATGTACCAGGTTCG
130 TCTTCTTAGGTACCAGGTTCG
* * * * * ** *
85721 TCGTTACGGGCTCAA-CCTTTCCCATCGCATCTTTTTAGGTA-CTGGGTTCGCCGTTGCGACCTC
1 CCGTTGCGGCCTCAATCCTTTCCCATCACATCTTTTAAGGTATC-GAATTCGCCGTTGCAACCTC
* * ** * *
85784 AATCCTTCCCTTCGTATCTTCATGGTATCGGGTTCGCCATTGCAACCTCAACTTTTCTCATCACA
65 AATCCTTCCCTTCATATCTTCATGGTATCGAGTTCGCCATTGCGGCCTCAACCTTTCCCATCACA
*
85849 TCTTCTTAGGTACCGGGTTCG
130 TCTTCTTAGGTACCAGGTTCG
* * * * * * * *
85870 CCATTGTGGCCTCAA-CATTTCTCATCACATCTTCTAAGGTATCGAGTTCGTCGTTCCAACCTCA
1 CCGTTGCGGCCTCAATCCTTTCCCATCACATCTTTTAAGGTATCGAATTCGCCGTTGCAACCTCA
85934 A-CCTTTCCCTTCAT
66 ATCC-TTCCCTTCAT
85948 CTCTCTAGGA
Statistics
Matches: 753, Mismatches: 179, Indels: 79
0.74 0.18 0.08
Matches are distributed among these distances:
146 2 0.00
147 68 0.09
148 224 0.30
149 264 0.35
150 69 0.09
151 111 0.15
152 15 0.02
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.35
Consensus pattern (150 bp):
CCGTTGCGGCCTCAATCCTTTCCCATCACATCTTTTAAGGTATCGAATTCGCCGTTGCAACCTCA
ATCCTTCCCTTCATATCTTCATGGTATCGAGTTCGCCATTGCGGCCTCAACCTTTCCCATCACAT
CTTCTTAGGTACCAGGTTCG
Found at i:94109 original size:29 final size:29
Alignment explanation
Indices: 94054--94317 Score: 211
Period size: 29 Copynumber: 8.9 Consensus size: 29
94044 TTAAAACATG
* *
94054 ATTTTAGAAAAAGTTTAAGGGTAAAAATGTA
1 ATTTT-GAGAAAGTTT-AGGGTTAAAATGTA
94085 ATTTTGAGAAAGTTTAGGGTTAAAATGTA
1 ATTTTGAGAAAGTTTAGGGTTAAAATGTA
*
94114 ATTTT-AGATAAGTTTA-GGTTCAAAATGTG
1 ATTTTGAGA-AAGTTTAGGGTT-AAAATGTA
* *
94143 ATTTT-AGGAAAGTTTAAGGGTCAAAATGCA
1 ATTTTGA-GAAAGTTT-AGGGTTAAAATGTA
* * *
94173 ATTTT-AGAGTAGTTTAGAGGTCAAAATCTA
1 ATTTTGAGA-AAGTTTAG-GGTTAAAATGTA
* *
94203 ATTTTG-GAAAAGTGTAGGGGTTAAAATATA
1 ATTTTGAG-AAAGTTTA-GGGTTAAAATGTA
* *
94233 ATTTTG-GAAAGTTTAAGGATTAAAATATA
1 ATTTTGAGAAAGTTT-AGGGTTAAAATGTA
* *
94262 ATTTTGAAAAAGTTTGAGAGTT-AAATGTA
1 ATTTTGAGAAAGTTT-AGGGTTAAAATGTA
*
94291 ATTTT-AAAAATGTTTAGAGGTTAAAAT
1 ATTTTGAGAAA-GTTTAG-GGTTAAAAT
94318 ATGATTTTTA
Statistics
Matches: 197, Mismatches: 21, Indels: 31
0.79 0.08 0.12
Matches are distributed among these distances:
28 14 0.07
29 90 0.46
30 83 0.42
31 10 0.05
ACGTcount: A:0.41, C:0.02, G:0.21, T:0.36
Consensus pattern (29 bp):
ATTTTGAGAAAGTTTAGGGTTAAAATGTA
Found at i:94258 original size:89 final size:89
Alignment explanation
Indices: 94040--94325 Score: 278
Period size: 88 Copynumber: 3.2 Consensus size: 89
94030 CAGAGAATAC
* * *
94040 GGGGTTAAAACATGATTTTAGAAAAAGTTTAAGGGTAAAAATGTAATTTTGAGAAAGTTTAGGGT
1 GGGGTTAAAATATGATTTTAG-GAAAGTTTAAGGGTAAAAATGCAATTTTGAGAAAGTTTAGGGT
* * * *
94105 TAAAATGTAATTTTAGATAAGTTTA
65 CAAAATCTAATTTTAGAAAAGTGTA
* * *
94130 --GGTTCAAAATGTGATTTTAGGAAAGTTTAAGGGTCAAAATGCAATTTT-AGAGTAGTTTAGAG
1 GGGGTT-AAAATATGATTTTAGGAAAGTTTAAGGGTAAAAATGCAATTTTGAGA-AAGTTTAG-G
*
94192 GTCAAAATCTAATTTTGGAAAAGTGTA
63 GTCAAAATCTAATTTTAGAAAAGTGTA
* * * ** * *
94219 GGGGTTAAAATATAATTTT-GGAAAGTTTAAGGATTAAAATATAATTTTGAAAAAGTTTGAGAGT
1 GGGGTTAAAATATGATTTTAGGAAAGTTTAAGGGTAAAAATGCAATTTTGAGAAAGTTT-AGGGT
* * *
94283 -TAAATGTAATTTTA-AAAATGTTTA
65 CAAAATCTAATTTTAGAAAA-GTGTA
*
94307 GAGGTTAAAATATGATTTT
1 GGGGTTAAAATATGATTTT
94326 TAAAAAGTCC
Statistics
Matches: 162, Mismatches: 26, Indels: 18
0.79 0.13 0.09
Matches are distributed among these distances:
87 7 0.04
88 68 0.42
89 68 0.42
90 15 0.09
91 4 0.02
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.36
Consensus pattern (89 bp):
GGGGTTAAAATATGATTTTAGGAAAGTTTAAGGGTAAAAATGCAATTTTGAGAAAGTTTAGGGTC
AAAATCTAATTTTAGAAAAGTGTA
Found at i:94306 original size:59 final size:57
Alignment explanation
Indices: 94061--94333 Score: 228
Period size: 59 Copynumber: 4.6 Consensus size: 57
94051 ATGATTTTAG
* * *
94061 AAAAAGTTTAAGGGTAAAAATGTAATTTTGAGAAAGTTTAGGGTTAAAATGTAATTTT
1 AAAAAGTTTAA-GGTTAAAATATAATTTTGAAAAAGTTTAGGGTTAAAATGTAATTTT
* * * * * *
94119 AGATAAGTTT-AGGTTCAAAATGTGATTTT-AGGAAAGTTTAAGGGTCAAAATGCAATTTT
1 A-AAAAGTTTAAGGTT-AAAATATAATTTTGA-AAAAGTTT-AGGGTTAAAATGTAATTTT
** * * * * *
94178 AGAGTAGTTTAGAGGTCAAAATCTAATTTTGGAAAAGTGTAGGGGTTAAAATATAATTTT
1 A-AAAAGTTTA-AGGTTAAAATATAATTTTGAAAAAGTTTA-GGGTTAAAATGTAATTTT
** *
94238 GGAAAGTTTAAGGATTAAAATATAATTTTGAAAAAGTTTGAGAGTT-AAATGTAATTTT
1 AAAAAGTTTAAGG-TTAAAATATAATTTTGAAAAAGTTT-AGGGTTAAAATGTAATTTT
* *
94296 AAAAATGTTTAGAGGTTAAAATATGATTTTTAAAAAGT
1 AAAAA-GTTTA-AGGTTAAAATATAATTTTGAAAAAGT
94334 CCAGAGACTA
Statistics
Matches: 173, Mismatches: 30, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
57 4 0.02
58 39 0.23
59 90 0.52
60 36 0.21
61 4 0.02
ACGTcount: A:0.41, C:0.02, G:0.21, T:0.36
Consensus pattern (57 bp):
AAAAAGTTTAAGGTTAAAATATAATTTTGAAAAAGTTTAGGGTTAAAATGTAATTTT
Found at i:94309 original size:28 final size:30
Alignment explanation
Indices: 94183--94333 Score: 111
Period size: 30 Copynumber: 5.1 Consensus size: 30
94173 ATTTTAGAGT
* * *
94183 AGTTT-AGAGGTCAAAATCTAATTTTGGAAA
1 AGTTTGAGAGGT-TAAATATAATTTTGAAAA
* * *
94213 AGTGT-AGGGGTTAAAATATAATTTTG-GAA
1 AGTTTGAGAGGTT-AAATATAATTTTGAAAA
94242 AGTTT-A-AGGATTAAAATATAATTTTGAAAA
1 AGTTTGAGAGG-TT-AAATATAATTTTGAAAA
*
94272 AGTTTGAGA-GTTAAATGTAATTTT-AAAA
1 AGTTTGAGAGGTTAAATATAATTTTGAAAA
* *
94300 ATGTTT-AGAGGTTAAAATATGATTTTTAAAA
1 A-GTTTGAGAGGTT-AAATATAATTTTGAAAA
94331 AGT
1 AGT
94334 CCAGAGACTA
Statistics
Matches: 101, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
28 10 0.10
29 41 0.41
30 42 0.42
31 7 0.07
32 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.19, T:0.37
Consensus pattern (30 bp):
AGTTTGAGAGGTTAAATATAATTTTGAAAA
Found at i:95308 original size:22 final size:23
Alignment explanation
Indices: 95270--95319 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
95260 CGCTCGTTTT
*
95270 TATTT-ATTTTTATTTAAAAATA
1 TATTTAATATTTATTTAAAAATA
* *
95292 TATTTAATATTTA-TTAATATTA
1 TATTTAATATTTATTTAAAAATA
95314 TATTTA
1 TATTTA
95320 TTTGAAACGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTTAATATTTATTTAAAAATA
Found at i:105801 original size:2 final size:2
Alignment explanation
Indices: 105794--105822 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
105784 NNNNNNNNNN
105794 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
105823 CAACAACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:107211 original size:21 final size:21
Alignment explanation
Indices: 107187--107226 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
107177 TAGTTCATTA
* *
107187 CCATCTTTATCTTCATCATCT
1 CCATCTTCATCATCATCATCT
107208 CCATCTTCATCATCATCAT
1 CCATCTTCATCATCATCAT
107227 TGTCATCGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (21 bp):
CCATCTTCATCATCATCATCT
Found at i:107288 original size:12 final size:12
Alignment explanation
Indices: 107188--107289 Score: 55
Period size: 12 Copynumber: 8.0 Consensus size: 12
107178 AGTTCATTAC
*
107188 CATCTTTATCTT
1 CATCTTCATCTT
107200 CATCATCTCCATCTT
1 CATC-T-T-CATCTT
*
107215 CATCATCATCATTGT
1 CATCTTCATC--T-T
*
107230 CATCGTT-ATCAT
1 CATC-TTCATCTT
* *
107242 CATATTCATCTC
1 CATCTTCATCTT
* *
107254 CATCTCCAATATT
1 CATCTTC-ATCTT
107267 -ATCTTCATCTT
1 CATCTTCATCTT
107278 CATCTTCATCTT
1 CATCTTCATCTT
107290 GTTCCTCCAC
Statistics
Matches: 67, Mismatches: 13, Indels: 20
0.67 0.13 0.20
Matches are distributed among these distances:
11 6 0.09
12 36 0.54
13 5 0.07
14 2 0.03
15 17 0.25
16 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.02, T:0.45
Consensus pattern (12 bp):
CATCTTCATCTT
Found at i:110214 original size:23 final size:22
Alignment explanation
Indices: 110182--110284 Score: 82
Period size: 23 Copynumber: 4.5 Consensus size: 22
110172 GCTCGGGAAA
*
110182 CAGTAAGCACACACAATGCAAT
1 CAGTAGGCACACACAATGCAAT
*
110204 CCAGTAGGCACACACAGTGCAAT
1 -CAGTAGGCACACACAATGCAAT
* * ** *
110227 CAGTAGGCGCACATAGCGTAAAT
1 CAGTAGGCACACACAATG-CAAT
*
110250 CAGTAGGCACACA-AAGTGCGAAA
1 CAGTAGGCACACACAA-TGC-AAT
*
110273 CAGTAAGCACAC
1 CAGTAGGCACAC
110285 GAGGTGCGAA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
22 16 0.25
23 49 0.75
ACGTcount: A:0.40, C:0.26, G:0.21, T:0.13
Consensus pattern (22 bp):
CAGTAGGCACACACAATGCAAT
Found at i:110291 original size:23 final size:23
Alignment explanation
Indices: 110250--110326 Score: 118
Period size: 23 Copynumber: 3.3 Consensus size: 23
110240 TAGCGTAAAT
* * *
110250 CAGTAGGCACACAAAGTGCGAAA
1 CAGTAAGCACACGAGGTGCGAAA
110273 CAGTAAGCACACGAGGTGCGAAA
1 CAGTAAGCACACGAGGTGCGAAA
*
110296 CAGTAAGCATACGAGGTGCGAAA
1 CAGTAAGCACACGAGGTGCGAAA
110319 CAGTAAGC
1 CAGTAAGC
110327 GCTCTAGCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.40, C:0.21, G:0.29, T:0.10
Consensus pattern (23 bp):
CAGTAAGCACACGAGGTGCGAAA
Done.