Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 38 of 276
Found at i:11924317 original size:24 final size:24
Alignment explanation
Indices: 11924257--11924337 Score: 110
Period size: 23 Copynumber: 3.4 Consensus size: 24
11924247 TTCCAGTTAC
*
11924257 ATGGCTCTTTGTGAGCTTCCTGAT
1 ATGGCTCTTTGTGAGCTTCCCGAT
11924281 A-GGCTCTTTGTGAGCTTCCCGAT
1 ATGGCTCTTTGTGAGCTTCCCGAT
* *
11924304 ATGGTTCTTTGTGAACTTCCCGATT
1 ATGGCTCTTTGTGAGCTTCCCGA-T
*
11924329 ATGACTCTT
1 ATGGCTCTT
11924338 ATGAGTTTCC
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 22 0.44
24 20 0.40
25 8 0.16
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.41
Consensus pattern (24 bp):
ATGGCTCTTTGTGAGCTTCCCGAT
Found at i:11931880 original size:54 final size:54
Alignment explanation
Indices: 11931813--11931950 Score: 276
Period size: 54 Copynumber: 2.6 Consensus size: 54
11931803 ATTGTCGTTG
11931813 CAGGGGATTTAGCCTGGACTGGTAATCCCGAAAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGAAAATACTCTATGAGTTTATATTA
11931867 CAGGGGATTTAGCCTGGACTGGTAATCCCGAAAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGAAAATACTCTATGAGTTTATATTA
11931921 CAGGGGATTTAGCCTGGACTGGTAATCCCG
1 CAGGGGATTTAGCCTGGACTGGTAATCCCG
11931951 CTGTAAGGAT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 84 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (54 bp):
CAGGGGATTTAGCCTGGACTGGTAATCCCGAAAATACTCTATGAGTTTATATTA
Found at i:11932058 original size:46 final size:46
Alignment explanation
Indices: 11931988--11932352 Score: 392
Period size: 46 Copynumber: 8.0 Consensus size: 46
11931978 GCTTTCTGAA
* *
11931988 ATGAAATGTGCAAGACCATGGTTGAAAGATACCATGGGAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
11932034 ATTAAATGTGTAAGACAATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
11932080 ATGAAATGTGTAAGACCATGGTTGAAAGATGCCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
11932126 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
****
11932172 ATGAAAAAAATAAGACCATGGTTGAAAGATACCATGGCAACATGA-
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * ** * ** * *
11932217 CGGGAATGAATAAGACCACGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *** * *
11932263 GTGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
11932309 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
11932353 CCAAAGATAA
Statistics
Matches: 271, Mismatches: 46, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
45 37 0.14
46 234 0.86
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:11932299 original size:137 final size:138
Alignment explanation
Indices: 11931988--11932352 Score: 432
Period size: 137 Copynumber: 2.7 Consensus size: 138
11931978 GCTTTCTGAA
* * * * * *
11931988 ATGAAATGTGCAAGACCATGGTTGAAAGATACCATGGGAACATGATATTAAATGTGTAAGACAAT
1 ATGAAATGTGCAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAGTAAGACCAT
* ** * *
11932053 GGTTGAAAGACACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATGCCATGGC
66 GGTTGAAAGACACCATGGCAACATGATAGGAAATGAATAAGACCACGGTTGAAAGATACCATGGC
11932118 AACAGGAT
131 AACAGGAT
* * * * *
11932126 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAAAATAAGACCAT
1 ATGAAATGTGCAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAGTAAGACCAT
* * *
11932191 GGTTGAAAGATACCATGGCAACATGA-CGGGAATGAATAAGACCACGGTTGAAAGATACCATGGC
66 GGTTGAAAGACACCATGGCAACATGATAGGAAATGAATAAGACCACGGTTGAAAGATACCATGGC
* *
11932255 AA-TGTA-
131 AACAGGAT
** *
11932261 ACGTGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGACA-GAAAATGAGTAAGAC
1 A--TGAAATGTGCAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAA-GAGTAAGAC
* * *
11932325 CATAGTTGAAAGACACTATGGCATCATG
63 CATGGTTGAAAGACACCATGGCAACATG
11932353 CCAAAGATAA
Statistics
Matches: 192, Mismatches: 32, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
135 1 0.01
136 7 0.04
137 105 0.55
138 79 0.41
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (138 bp):
ATGAAATGTGCAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAGTAAGACCAT
GGTTGAAAGACACCATGGCAACATGATAGGAAATGAATAAGACCACGGTTGAAAGATACCATGGC
AACAGGAT
Found at i:11932324 original size:183 final size:184
Alignment explanation
Indices: 11931999--11932347 Score: 448
Period size: 183 Copynumber: 1.9 Consensus size: 184
11931989 TGAAATGTGC
* ** ** *
11931999 AAGACCATGGTTGAAAGATACCATGGGAACATGATATTAAATGTGTAAGACAATGGTTGAAAGAC
1 AAGACCATGGTTGAAAGATACCATGGCAACATGATAGGAAATGAATAAGACAACGGTTGAAAGAC
* * *** * * *
11932064 ACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATGCCATGGCAACAGGATATA
66 ACCATGGCAACATAACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACAGGACAGA
* * *
11932129 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAAAAT
131 AAATGAGTAAGACCATAGTTGAAAGACACCATGGCAACGTGACATGAAAAAAAT
* * * *
11932183 AAGACCATGGTTGAAAGATACCATGGCAACATGA-CGGGAATGAATAAGACCACGGTTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGATAGGAAATGAATAAGACAACGGTTGAAAGAC
** * **
11932247 ACCATGGCAATGTAACGTGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGACAGA
66 ACCATGGCAACATAACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACAGGACAGA
*
11932312 AAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
131 AAATGAGTAAGACCATAGTTGAAAGACACCATGGCA
11932348 TCATGCCAAA
Statistics
Matches: 138, Mismatches: 27, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
183 105 0.76
184 33 0.24
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (184 bp):
AAGACCATGGTTGAAAGATACCATGGCAACATGATAGGAAATGAATAAGACAACGGTTGAAAGAC
ACCATGGCAACATAACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACAGGACAGA
AAATGAGTAAGACCATAGTTGAAAGACACCATGGCAACGTGACATGAAAAAAAT
Found at i:11933419 original size:212 final size:212
Alignment explanation
Indices: 11933050--11933473 Score: 704
Period size: 212 Copynumber: 2.0 Consensus size: 212
11933040 ACTTATCTAT
* *
11933050 CGATAGTGTCGCAAACACCCCCGCGTCATTGCTTTATCCAACTTGTGACCGCATAACAGCCGCAG
1 CGATAGTGTCGCAAACACCCCCGCGTCATTGCTTTATCCAACCTGTGACCACATAACAGCCGCAG
*
11933115 ACTGGGACCTTTACATACACTTCAACTCGTGACTGTATAAAGCACCATCACCCAGAAACCTGACT
66 ACTGGGACCTTTACATACACTTCAACTCGTGACCGTATAAAGCACCATCACCCAGAAACCTGACT
*
11933180 TCTATAGGATGAGTTTCTAAGGTAATGGACTCATCTCGACATGACATATGAAATGTGGGTGTCTC
131 TCCATAGGATGAGTTTCTAAGGTAATGGACTCATCTCGACATGACATATGAAATGTGGGTGTCTC
11933245 CGAACGTTATCGCATCC
196 CGAACGTTATCGCATCC
* * *
11933262 CGATAGTGTCGCAAACACCCCCTCGTCATTGTTTTATCCAACCTGTGACCACATAACAGCCGCCG
1 CGATAGTGTCGCAAACACCCCCGCGTCATTGCTTTATCCAACCTGTGACCACATAACAGCCGCAG
* * *
11933327 ACTGGGACTTTTACATACACTTCAACTCGTGACCGTATAAAGCACTATCACCCAGGAACCTGACT
66 ACTGGGACCTTTACATACACTTCAACTCGTGACCGTATAAAGCACCATCACCCAGAAACCTGACT
* * * *
11933392 TCCATAGGATGAGTTTCTAATGTAATGGTCTCATCTCGACATGACATATGAAATGTGTGTGTCTT
131 TCCATAGGATGAGTTTCTAAGGTAATGGACTCATCTCGACATGACATATGAAATGTGGGTGTCTC
* *
11933457 CGAGCGTTATTGCATCC
196 CGAACGTTATCGCATCC
11933474 TCGACAACTC
Statistics
Matches: 196, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
212 196 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (212 bp):
CGATAGTGTCGCAAACACCCCCGCGTCATTGCTTTATCCAACCTGTGACCACATAACAGCCGCAG
ACTGGGACCTTTACATACACTTCAACTCGTGACCGTATAAAGCACCATCACCCAGAAACCTGACT
TCCATAGGATGAGTTTCTAAGGTAATGGACTCATCTCGACATGACATATGAAATGTGGGTGTCTC
CGAACGTTATCGCATCC
Found at i:11935993 original size:17 final size:17
Alignment explanation
Indices: 11935973--11936006 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11935963 AGGTTTAGGT
11935973 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
*
11935990 TTAAAATTTTTAATTAA
1 TTAAAAATTTTAATTAA
11936007 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:11944131 original size:46 final size:45
Alignment explanation
Indices: 11943970--11944136 Score: 153
Period size: 46 Copynumber: 3.6 Consensus size: 45
11943960 CGCCCCTAAG
* * * *
11943970 TGAACTCGGGCTCAACTCAACGAGCTT-GGGCGTTCGCATTCATAAG
1 TGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCA-TCATAAC
* * * * *
11944016 TGAAATCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT-TTCAC
1 TGAACTCGGACTCAACTCAACGAGTTC-G--GAC-A-TTCGCATCATAAC
11944064 -GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAC
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT-CATAAC
11944109 TGAACTCGGACTCAACTCAACGAGTTCG
1 TGAACTCGGACTCAACTCAACGAGTTCG
11944137 AATGCTCAAC
Statistics
Matches: 98, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 5 0.05
46 50 0.51
47 26 0.27
48 2 0.02
49 3 0.03
50 2 0.02
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCATAAC
Found at i:11946566 original size:15 final size:15
Alignment explanation
Indices: 11946540--11946595 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
11946530 CAAGGAAACC
11946540 GAATAAAGAAATCTA
1 GAATAAAGAAATCTA
*
11946555 -AGATAGAGAAATCTA
1 GA-ATAAAGAAATCTA
*
11946570 GAATAAAGAAATCCA
1 GAATAAAGAAATCTA
11946585 GAATAAAGAAA
1 GAATAAAGAAA
11946596 CCCAAGATAC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 1 0.03
15 34 0.94
16 1 0.03
ACGTcount: A:0.61, C:0.07, G:0.16, T:0.16
Consensus pattern (15 bp):
GAATAAAGAAATCTA
Found at i:11949680 original size:93 final size:93
Alignment explanation
Indices: 11949567--11949737 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
11949557 GCCCCTAAGT
* *
11949567 GAACTCGGACTCAACTCAACGAGCTT-GGGCATTCGCATCCATAAGTGAACTAGGACTCAACTCA
1 GAACTCGAACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTAGGACTCAACTCA
11949631 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
* *
11949660 GAACTCGAACTCAACTCAACGAGTTCGGATATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTAGGACTCAACTCAA
11949725 CGAGTTCGGATGC
66 CGAGTTCGGATGC
11949738 TCAGCCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTAGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:11949753 original size:46 final size:46
Alignment explanation
Indices: 11949562--11949739 Score: 193
Period size: 46 Copynumber: 3.8 Consensus size: 46
11949552 AACCCGCCCC
*
11949562 TAAGTGAACTCGGACTCAACTCAACGAGCTTGGGCAT--TCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGG-ATGCTCGCATCCA
* * * *
11949608 TAAGTGAACTAGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CTCGCATCCA
* * * **
11949654 TTTCA-CGAACTCGAACTCAACTCAACGAGTTCGGATATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCATCCA
11949701 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
11949740 AGCCATCCTA
Statistics
Matches: 106, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
44 2 0.02
45 6 0.06
46 63 0.59
47 33 0.31
48 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCATCCA
Found at i:11952192 original size:42 final size:42
Alignment explanation
Indices: 11952146--11952235 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
11952136 CAACTACTTT
* * *
11952146 GGTATATCCAATGATACACTTATATGTTAGTATATTTGTTTC
1 GGTATATCCAATGATACACTTACATGCTAGTATATTTGCTTC
* * *
11952188 GGTATATTCGATGATACACTTACGTGCTAGTATATTTGCTTC
1 GGTATATCCAATGATACACTTACATGCTAGTATATTTGCTTC
*
11952230 AGTATA
1 GGTATA
11952236 CCTGGTTATG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (42 bp):
GGTATATCCAATGATACACTTACATGCTAGTATATTTGCTTC
Found at i:11955302 original size:46 final size:46
Alignment explanation
Indices: 11955237--11955348 Score: 152
Period size: 46 Copynumber: 2.4 Consensus size: 46
11955227 TTATCTTCGA
* * * * * *
11955237 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGT
*
11955283 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGT
*
11955329 CATGTTGTCATGGTATCTTT
1 CATGTTGCCATGGTATCTTT
11955349 TGTAATATCC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGT
Found at i:11956693 original size:46 final size:46
Alignment explanation
Indices: 11956643--11957501 Score: 1675
Period size: 46 Copynumber: 18.7 Consensus size: 46
11956633 TGGTTGAGCA
11956643 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
11956689 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
11956735 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
11956781 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
11956827 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
11956873 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
11956919 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
11956965 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
11957011 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
11957057 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
11957103 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
11957149 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
11957195 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
11957241 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
11957287 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
11957333 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
11957379 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
11957425 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCGAACAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TG
*
11957472 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCAC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC
11957502 CTAGGGGCAG
Statistics
Matches: 809, Mismatches: 3, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
46 808 1.00
47 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:11960125 original size:46 final size:47
Alignment explanation
Indices: 11959884--11960196 Score: 211
Period size: 46 Copynumber: 6.6 Consensus size: 47
11959874 GTAAGGTGCT
* * * *
11959884 GATGTCATGTCCCAGACATGGTCTTCCACTGGCTA-TCATCTTCGAGGCT
1 GATG-CATGTCCCAGACATGGTCTTACACTGGC-ACTCATC-TCAATGCC
* * * * **
11959933 GATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCACATATCCGTGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCACT--CATCTCAATGCC
* *
11959983 GATGACATGTCCCAGACATGGTCTTATACT-G-ACACATCTC-ATAGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCACTCATCTCAAT-GCC
* * * * *
11960029 GATGCATGTCTCAAACAT-GTCTTACATTGGCTTACGT--TC-CGAGGCC
1 GATGCATGTCCCAGACATGGTCTTACACTGGC--AC-TCATCTCAATGCC
* *
11960075 GATGCATGTCCCAGACAT-GTCTTACACTGGCACTCGTCTCAATGCT
1 GATGCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCAATGCC
* *
11960121 GATGCTATGTCCCAGACATGGTCTTACACTGGCTCGCA--T-AATGTGGCC
1 GATGC-ATGTCCCAGACATGGTCTTACACTGGCACTCATCTCAA--T-GCC
11960169 GATGCATGTCCCAGACAT-GTCTTACACT
1 GATGCATGTCCCAGACATGGTCTTACACT
11960197 AGCCCACAAT
Statistics
Matches: 213, Mismatches: 33, Indels: 39
0.75 0.12 0.14
Matches are distributed among these distances:
43 1 0.00
44 10 0.05
45 18 0.08
46 64 0.30
47 30 0.14
48 25 0.12
49 31 0.15
50 31 0.15
51 3 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCAATGCC
Found at i:11960169 original size:94 final size:94
Alignment explanation
Indices: 11959884--11960196 Score: 286
Period size: 94 Copynumber: 3.3 Consensus size: 94
11959874 GTAAGGTGCT
* * *
11959884 GATGTCATGTCCCAGACATGGTCTTCCACTGGCTA-TCATCTTCGAGGCTGATGCCATGTCCCAG
1 GATGACATGTCCCAGACATGGTCTTACACTGGC-ACTCATC-TC-ATGCTGATG-CATGTCCCAG
* *
11959948 ACATGGTTTTACACTAGCTCTCACAT-ATCCGT-GCC
62 ACATGGTCTTACACT-G-GCTCACATAAT--GTGGCC
* * * * *
11959983 GATGACATGTCCCAGACATGGTCTTATACT-G-ACACATCTCATAGCCGATGCATGTCTCAAACA
1 GATGACATGTCCCAGACATGGTCTTACACTGGCACTCATCTCAT-GCTGATGCATGTCCCAGACA
* * * *** *
11960046 T-GTCTTACATTGGCTTACGTTCCGAGGCC
65 TGGTCTTACACTGGCTCACATAATGTGGCC
*
11960075 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCGTCTCAATGCTGATGCTATGTCCCAGAC
1 GATGACATGTCCCAGACATGGTCTTACACTGGCACTCATCTC-ATGCTGATGC-ATGTCCCAGAC
*
11960138 ATGGTCTTACACTGGCTCGCATAATGTGGCC
64 ATGGTCTTACACTGGCTCACATAATGTGGCC
11960169 GATG-CATGTCCCAGACAT-GTCTTACACT
1 GATGACATGTCCCAGACATGGTCTTACACT
11960197 AGCCCACAAT
Statistics
Matches: 175, Mismatches: 30, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
90 9 0.05
91 16 0.09
92 26 0.15
93 14 0.08
94 56 0.32
95 13 0.07
96 9 0.05
97 4 0.02
98 1 0.01
99 27 0.15
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (94 bp):
GATGACATGTCCCAGACATGGTCTTACACTGGCACTCATCTCATGCTGATGCATGTCCCAGACAT
GGTCTTACACTGGCTCACATAATGTGGCC
Found at i:11962757 original size:42 final size:43
Alignment explanation
Indices: 11962680--11962793 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 43
11962670 ATTTCAATGT
* * *
11962680 CATATCCCCGATATGGTCTTACATGAAAT-ATCATATCGATGC
1 CATATCCCCGATATGGTCTTATACGAAATCATCATATCGAGGC
* * *
11962722 CATGTCCCCGACATGGTCTTATACAAAATCA-CATATCGAGGC
1 CATATCCCCGATATGGTCTTATACGAAATCATCATATCGAGGC
11962764 CATAT-CCCGAATATGGTCTTATACGAAATC
1 CATATCCCCG-ATATGGTCTTATACGAAATC
11962794 TTAATAACCT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
41 4 0.07
42 56 0.92
43 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
CATATCCCCGATATGGTCTTATACGAAATCATCATATCGAGGC
Found at i:11970152 original size:7 final size:7
Alignment explanation
Indices: 11970142--11970179 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
11970132 GAACAGAGAT
11970142 GAAAGTA
1 GAAAGTA
11970149 GAAAGTA
1 GAAAGTA
*
11970156 G-AACTA
1 GAAAGTA
11970162 GAAAGTA
1 GAAAGTA
11970169 GAAAGTA
1 GAAAGTA
11970176 GAAA
1 GAAA
11970180 CGGGGGAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.58, C:0.03, G:0.26, T:0.13
Consensus pattern (7 bp):
GAAAGTA
Found at i:11970165 original size:13 final size:13
Alignment explanation
Indices: 11970147--11970171 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11970137 GAGATGAAAG
11970147 TAGAAAGTAGAAC
1 TAGAAAGTAGAAC
11970160 TAGAAAGTAGAA
1 TAGAAAGTAGAA
11970172 AGTAGAAACG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.24, T:0.16
Consensus pattern (13 bp):
TAGAAAGTAGAAC
Found at i:11987378 original size:44 final size:44
Alignment explanation
Indices: 11987314--11987403 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
11987304 ATCACCCAAG
* *
11987314 GAACACCTGTCTAGGCTAGATCCTTTCTATATTTGAGATCACTA
1 GAACACCTGTCCACGCTAGATCCTTTCTATATTTGAGATCACTA
*
11987358 GAACACCTGTCCACGTTAGATCCTTTCTATATTTGAGATCACTA
1 GAACACCTGTCCACGCTAGATCCTTTCTATATTTGAGATCACTA
11987402 GA
1 GA
11987404 TTCTCCATCC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (44 bp):
GAACACCTGTCCACGCTAGATCCTTTCTATATTTGAGATCACTA
Found at i:11987425 original size:44 final size:44
Alignment explanation
Indices: 11987314--11987427 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
11987304 ATCACCCAAG
* *
11987314 GAACACCTGTCTAGGCTAGATCCTTTCTATATTTGAGATCACTA
1 GAACACCTATCCAGGCTAGATCCTTTCTATATTTGAGATCACTA
* * *
11987358 GAACACCTGTCCACGTTAGATCCTTTCTATATTTGAGATCACTA
1 GAACACCTATCCAGGCTAGATCCTTTCTATATTTGAGATCACTA
* * *
11987402 GATTCTCC-ATCCAGGCTAAATCCTTT
1 GA-ACACCTATCCAGGCTAGATCCTTT
11987428 TCTGCAACAC
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 57 0.95
45 3 0.05
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.34
Consensus pattern (44 bp):
GAACACCTATCCAGGCTAGATCCTTTCTATATTTGAGATCACTA
Found at i:11989161 original size:20 final size:20
Alignment explanation
Indices: 11989136--11989175 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
11989126 TGTACCAAGA
11989136 CTTGTGAGAGTTGTATTAGT
1 CTTGTGAGAGTTGTATTAGT
11989156 CTTGTGAGAGTTGTATTAGT
1 CTTGTGAGAGTTGTATTAGT
11989176 GGCCAAGGTT
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:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (20 bp):
CTTGTGAGAGTTGTATTAGT
Found at i:11990746 original size:29 final size:29
Alignment explanation
Indices: 11990704--11990760 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
11990694 TTTTTGAAAG
11990704 TACGATCTGGATTTTTCAAAATATAACAA
1 TACGATCTGGATTTTTCAAAATATAACAA
11990733 TACGATCTGGATTTTTCAAAATATAACA
1 TACGATCTGGATTTTTCAAAATATAACA
11990761 GTTTTAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (29 bp):
TACGATCTGGATTTTTCAAAATATAACAA
Found at i:11998171 original size:22 final size:22
Alignment explanation
Indices: 11998143--11998189 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
11998133 TTCTCGGTTT
*
11998143 TGGAAGAAATTGTACGAGGGTC
1 TGGAAGAAATTGCACGAGGGTC
*
11998165 TGGAAGAAATTGCACGAGGTTC
1 TGGAAGAAATTGCACGAGGGTC
11998187 TGG
1 TGG
11998190 GTTTTTGAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.36, T:0.23
Consensus pattern (22 bp):
TGGAAGAAATTGCACGAGGGTC
Found at i:12005219 original size:48 final size:48
Alignment explanation
Indices: 12005156--12005381 Score: 207
Period size: 48 Copynumber: 4.8 Consensus size: 48
12005146 TAGTAAGATA
* * * *
12005156 CCAATACCATATCCCAGATATGGTCTTACATGGGATCTCATGTCGATG
1 CCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCGATG
* * * * * *
12005204 CCAATGCCATGTCCCAGACGTGATTTTACATGATG-TCTCATATCGATG
1 CCAATGCCATATCCCAGACATGGTCTTACATG-GGATCACATATCGATG
* *** *
12005252 CC-ATG---T-T-CCAGACACGGTCTTAC-TCAAAATCACATATAGATG
1 CCAATGCCATATCCCAGACATGGTCTTACAT-GGGATCACATATCGATG
* * *
12005294 CCAATGCCATATCCCAAATATGGTCTTACATGGGATCACATATTGATG
1 CCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCGATG
*
12005342 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 CCAATGCCATATCCCAGACATGGTCTTACATGGGATCACA
12005382 CATAACCTTA
Statistics
Matches: 141, Mismatches: 27, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
41 1 0.01
42 25 0.18
43 4 0.03
44 1 0.01
46 1 0.01
47 4 0.03
48 103 0.73
49 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (48 bp):
CCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCGATG
Found at i:12008339 original size:6 final size:6
Alignment explanation
Indices: 12008328--12008353 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
12008318 CTGAGCCCAA
12008328 ATCTGT ATCTGT ATCTGT ATCTGT AT
1 ATCTGT ATCTGT ATCTGT ATCTGT AT
12008354 TTGACTATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
ATCTGT
Found at i:12011461 original size:42 final size:42
Alignment explanation
Indices: 12011398--12011524 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 42
12011388 CTTCGTTTTC
** * *
12011398 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
12011441 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
12011482 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
12011523 TC
1 TC
12011525 TCACTGATGT
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
41 10 0.13
42 64 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:12011554 original size:46 final size:47
Alignment explanation
Indices: 12011483--12011602 Score: 134
Period size: 47 Copynumber: 2.6 Consensus size: 47
12011473 ATTCATATAT
* * * *
12011483 CGATGCCATAGCCCAGCTATGGTCTTACAC-GAATCACATATCTCAC
1 CGATGCCATACCCCAGATATGGTCTTACACAGAAGCACATATCACAC
* * * * * *
12011529 TGATGTCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATACCCCAGATATGGTCTTACACAGAAGCACATATCACAC
*
12011576 CGATACCATACCCCAGATATGGTCTTA
1 CGATGCCATACCCCAGATATGGTCTTA
12011603 TACGGAAATC
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
46 25 0.42
47 35 0.58
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (47 bp):
CGATGCCATACCCCAGATATGGTCTTACACAGAAGCACATATCACAC
Found at i:12011667 original size:31 final size:31
Alignment explanation
Indices: 12011632--12011779 Score: 208
Period size: 31 Copynumber: 4.8 Consensus size: 31
12011622 TTGTCACTTA
* *
12011632 TAGCCAAAGCTACCACTATTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
** *
12011663 TAGCCGGGGCTACCATTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
*
12011694 TAGCCGGAGCTACCACTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
12011725 TAGCCGGAA-CTACCACTTTTCACTGATCAGG
1 TAGCC-GAAGCTACCACTTTTCACTGATCAGG
**
12011756 TAGATGAAGCTACCACTTTTCACT
1 TAGCCGAAGCTACCACTTTTCACT
12011780 TGTCATTTGT
Statistics
Matches: 105, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
30 3 0.03
31 100 0.95
32 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (31 bp):
TAGCCGAAGCTACCACTTTTCACTGATCAGG
Found at i:12011860 original size:50 final size:51
Alignment explanation
Indices: 12011761--12011883 Score: 187
Period size: 50 Copynumber: 2.4 Consensus size: 51
12011751 TCAGGTAGAT
* * *
12011761 GAAGCTACCACTTTTCACTTGTCATTTGTCGTTGATCAAATAAGTGTAGCC
1 GAAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAAATAAGTGTAGCC
*
12011812 GAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGTGTAGCC
1 GAAGCTATCACTTATCACTTGTCA-TTTGTCCTTGATCAAATAAGTGTAGCC
12011862 GAAGCTATCACTTATCACTTGT
1 GAAGCTATCACTTATCACTTGT
12011884 TGCCATGGTC
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
50 44 0.67
51 22 0.33
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (51 bp):
GAAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAAATAAGTGTAGCC
Found at i:12015371 original size:13 final size:13
Alignment explanation
Indices: 12015353--12015388 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
12015343 CTCGATAGGG
12015353 ACACGCCCGTGTA
1 ACACGCCCGTGTA
12015366 ACACGCCCGTGTA
1 ACACGCCCGTGTA
12015379 ACACGCCCGT
1 ACACGCCCGT
12015389 ATGCGATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.22, C:0.42, G:0.22, T:0.14
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:12020795 original size:13 final size:13
Alignment explanation
Indices: 12020779--12020813 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
12020769 TGTTGTGGAA
12020779 AAGTGCTTTTGAG
1 AAGTGCTTTTGAG
*
12020792 AAGTACTTTTGAG
1 AAGTGCTTTTGAG
12020805 AAGTGCTTT
1 AAGTGCTTT
12020814 GGAAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (13 bp):
AAGTGCTTTTGAG
Found at i:12023211 original size:6 final size:6
Alignment explanation
Indices: 12023200--12023225 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
12023190 AATTATAAAT
12023200 ATTTTA ATTTTA ATTTTA ATTTTA AT
1 ATTTTA ATTTTA ATTTTA ATTTTA AT
12023226 AATTCATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTTA
Found at i:12024668 original size:9 final size:9
Alignment explanation
Indices: 12024654--12024765 Score: 50
Period size: 9 Copynumber: 12.0 Consensus size: 9
12024644 AATGAATGGC
12024654 TTTTTATAA
1 TTTTTATAA
12024663 TTTTTAT--
1 TTTTTATAA
* *
12024670 TATTTATCA
1 TTTTTATAA
*
12024679 TATTTATAA
1 TTTTTATAA
*
12024688 TTTATTA-GA
1 TTT-TTATAA
*
12024697 TTATTATAA
1 TTTTTATAA
12024706 GTTTTTATAA
1 -TTTTTATAA
* * *
12024716 TATTTGTAGG
1 TTTTTATA-A
*
12024726 TTTTTATGATTT
1 TTTTTAT-A--A
12024738 TTTTTATAA
1 TTTTTATAA
12024747 TTTTTATAA
1 TTTTTATAA
*
12024756 GTTTGTATAA
1 -TTTTTATAA
12024766 AAAAATTAAA
Statistics
Matches: 78, Mismatches: 16, Indels: 17
0.70 0.14 0.15
Matches are distributed among these distances:
7 6 0.08
8 3 0.04
9 36 0.46
10 24 0.31
11 2 0.03
12 7 0.09
ACGTcount: A:0.30, C:0.01, G:0.07, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:12024832 original size:39 final size:40
Alignment explanation
Indices: 12024738--12024834 Score: 101
Period size: 39 Copynumber: 2.4 Consensus size: 40
12024728 TTTATGATTT
12024738 TTTTTATAAT-TTTTATAAGTTTGTATAAAAAAATTAAATA
1 TTTTT-TAATATTTTATAAGTTTGTATAAAAAAATTAAATA
* * * **
12024778 TTTTTTAAAATTTTTATAAG-TT-TATATAAAATTTTCATA
1 TTTTTTAATA-TTTTATAAGTTTGTATAAAAAAATTAAATA
12024817 TTTTGTTAATATTTTATA
1 TTTT-TTAATATTTTATA
12024835 TGTCGTTATC
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
39 27 0.56
40 12 0.25
41 9 0.19
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (40 bp):
TTTTTTAATATTTTATAAGTTTGTATAAAAAAATTAAATA
Found at i:12027657 original size:8 final size:8
Alignment explanation
Indices: 12027644--12027673 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
12027634 AATAATTTAA
12027644 AAAATTTT
1 AAAATTTT
12027652 AAAATTTT
1 AAAATTTT
*
12027660 AAAACTTT
1 AAAATTTT
12027668 AAAATT
1 AAAATT
12027674 AATTTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (8 bp):
AAAATTTT
Found at i:12028999 original size:13 final size:13
Alignment explanation
Indices: 12028981--12029026 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
12028971 GTTGATGGTG
12028981 TATTAAATTATTT
1 TATTAAATTATTT
*
12028994 TATTAAA-TATAT
1 TATTAAATTATTT
*
12029006 CATTAAATTATTT
1 TATTAAATTATTT
12029019 TATTAAAT
1 TATTAAAT
12029027 ATATAGATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (13 bp):
TATTAAATTATTT
Found at i:12029011 original size:25 final size:25
Alignment explanation
Indices: 12028982--12029030 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
12028972 TTGATGGTGT
12028982 ATTAAATTATTTTATTAAATATATC
1 ATTAAATTATTTTATTAAATATATC
12029007 ATTAAATTATTTTATTAAATATAT
1 ATTAAATTATTTTATTAAATATAT
12029031 AGATAATGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTAAATTATTTTATTAAATATATC
Found at i:12041737 original size:40 final size:40
Alignment explanation
Indices: 12041675--12041781 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 40
12041665 ATACCAGCTC
* * *
12041675 ATAGCCTGTGGGT-TTCT-AGCCCGGATAGCATTCTAGCACG
1 ATAGCCTGCGGGTCTT-TAAGCCCGGATAACATTCCAGCA-G
*
12041715 A-AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCAT
1 ATAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCAG
*
12041754 ATAGCCTGCGTGTCTTTAAGCCCGGATA
1 ATAGCCTGCGGGTCTTTAAGCCCGGATA
12041782 CAATTCCTCA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
39 12 0.20
40 47 0.80
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
ATAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCAG
Found at i:12053453 original size:18 final size:18
Alignment explanation
Indices: 12053430--12053466 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
12053420 TGAGCTATAT
12053430 GTTTAATGATATGAATGA
1 GTTTAATGATATGAATGA
**
12053448 GTTTAATTCTATGAATGA
1 GTTTAATGATATGAATGA
12053466 G
1 G
12053467 CCCGACAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.41
Consensus pattern (18 bp):
GTTTAATGATATGAATGA
Found at i:12074667 original size:20 final size:20
Alignment explanation
Indices: 12074621--12074670 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
12074611 TTAAAATAAT
*
12074621 TAAAAATATATAGAAAATTA
1 TAAAAAAATATAGAAAATTA
** * *
12074641 TTTAAAAATATTGAGAATTA
1 TAAAAAAATATAGAAAATTA
12074661 TAAAAAAATA
1 TAAAAAAATA
12074671 AAATTATTTA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (20 bp):
TAAAAAAATATAGAAAATTA
Found at i:12077077 original size:13 final size:12
Alignment explanation
Indices: 12077059--12077093 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
12077049 AGAATTTTGC
12077059 TTTCTTTTCCCT
1 TTTCTTTTCCCT
*
12077071 ATTTCTTCTCCCT
1 -TTTCTTTTCCCT
12077084 TTTCTTTTCC
1 TTTCTTTTCC
12077094 ATCCTCTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTCTTTTCCCT
Found at i:12078106 original size:34 final size:34
Alignment explanation
Indices: 12078068--12078208 Score: 140
Period size: 34 Copynumber: 4.1 Consensus size: 34
12078058 ATCAATCTAC
* * *
12078068 TATAAGGATATTAATTGCTACCGTATTTATTTGT
1 TATAAGCATATTAATTGCTACCGTATTGATCTGT
* * *
12078102 TATAAGCACATTAATTGCGT-TCGTATTGATCCGT
1 TATAAGCATATTAATTGC-TACCGTATTGATCTGT
* * *
12078136 TATAAGCATTTTAATTACTATCGTATTGATCTGT
1 TATAAGCATATTAATTGCTACCGTATTGATCTGT
* * ** *
12078170 TATATGTATATTAATTGCTACTATATTGATCTAT
1 TATAAGCATATTAATTGCTACCGTATTGATCTGT
12078204 TATAA
1 TATAA
12078209 ACATGTCAAA
Statistics
Matches: 86, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
33 1 0.01
34 84 0.98
35 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.45
Consensus pattern (34 bp):
TATAAGCATATTAATTGCTACCGTATTGATCTGT
Found at i:12078207 original size:68 final size:68
Alignment explanation
Indices: 12078048--12078208 Score: 162
Period size: 68 Copynumber: 2.4 Consensus size: 68
12078038 ACCATACTAT
** * * * * *
12078048 TTGCTACTGTATCAATCTACTATAAGGATATTAATTGCTACCGTATTTATTTGTTATAAGCACAT
1 TTGCTACTGTATTGATCTATTATAAGCATATTAATTACTACCGTATTGATCTGTTATAAGCACAT
12078113 TAA
66 TAA
* ** * * * * *
12078116 TTGCGTTC-GTATTGATCCGTTATAAGCATTTTAATTACTATCGTATTGATCTGTTATATGTATA
1 TTGC-TACTGTATTGATCTATTATAAGCATATTAATTACTACCGTATTGATCTGTTATAAGCACA
12078180 TTAA
65 TTAA
*
12078184 TTGCTACTATATTGATCTATTATAA
1 TTGCTACTGTATTGATCTATTATAA
12078209 ACATGTCAAA
Statistics
Matches: 72, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
67 2 0.03
68 68 0.94
69 2 0.03
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (68 bp):
TTGCTACTGTATTGATCTATTATAAGCATATTAATTACTACCGTATTGATCTGTTATAAGCACAT
TAA
Found at i:12082967 original size:142 final size:142
Alignment explanation
Indices: 12082711--12082997 Score: 511
Period size: 142 Copynumber: 2.0 Consensus size: 142
12082701 TTCAGCGGAC
* *
12082711 GATGTAATCTCCCGAATTCAGGCTTAACGTCTAGGCCAGGTTGGGGAGGTTACAGTGACAAAGGA
1 GATGTAATCTCCCGAATTCAGGCTTAACGTCTAGGCCAAGTTGGAGAGGTTACAGTGACAAAGGA
* * *
12082776 AGAAAAGTGAAGCAAATGAAGTGAAATCTAGCCAAAAATAGGTAAGTACTTTTATGGATTCTTTT
66 AGAAAAGTGAAACAAATGAAGTGAAATCTAGCCAAAAATAGGTAAGTACTCTTATGGATTCTATT
12082841 TACTTTTCTAAT
131 TACTTTTCTAAT
*
12082853 GATGTAATCTCTCGAATTCAGGCTTAACGTCTAGGCCAAGTTGGAGAGGTTACAGTGACAAAGGA
1 GATGTAATCTCCCGAATTCAGGCTTAACGTCTAGGCCAAGTTGGAGAGGTTACAGTGACAAAGGA
*
12082918 AGAAAAGTGAAACAAATGAAGTGAAATCTAGCCAAAAATAGGTAAGTACTCTTATGGGTTCTATT
66 AGAAAAGTGAAACAAATGAAGTGAAATCTAGCCAAAAATAGGTAAGTACTCTTATGGATTCTATT
12082983 TACTTTTCTAAT
131 TACTTTTCTAAT
12082995 GAT
1 GAT
12082998 TACATTAAAA
Statistics
Matches: 138, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
142 138 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (142 bp):
GATGTAATCTCCCGAATTCAGGCTTAACGTCTAGGCCAAGTTGGAGAGGTTACAGTGACAAAGGA
AGAAAAGTGAAACAAATGAAGTGAAATCTAGCCAAAAATAGGTAAGTACTCTTATGGATTCTATT
TACTTTTCTAAT
Found at i:12086371 original size:25 final size:25
Alignment explanation
Indices: 12086330--12086395 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
12086320 TAGTGCGCTC
* *
12086330 AAGTGTGATTGGCACTTCGGGGCTT
1 AAGTGTGATTGGCACTTCGAGGCAT
* *
12086355 AAGTGTGATCT-GTACTTCGATGCAT
1 AAGTGTGAT-TGGCACTTCGAGGCAT
*
12086380 AAGTGTGATTAGCACT
1 AAGTGTGATTGGCACT
12086396 CAGTGCTCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.03
25 32 0.94
26 1 0.03
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (25 bp):
AAGTGTGATTGGCACTTCGAGGCAT
Found at i:12092565 original size:12 final size:12
Alignment explanation
Indices: 12092548--12092574 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
12092538 TAGATCAGTA
12092548 GCCGAGTATGAG
1 GCCGAGTATGAG
12092560 GCCGAGTATGAG
1 GCCGAGTATGAG
12092572 GCC
1 GCC
12092575 AATTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.41, T:0.15
Consensus pattern (12 bp):
GCCGAGTATGAG
Found at i:12099176 original size:21 final size:21
Alignment explanation
Indices: 12099137--12099176 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
12099127 GGACTAAACT
* * *
12099137 GAAAACTTTGGAAAGTTTTGG
1 GAAAACTTAGAAAAATTTTGG
12099158 GAAAACTTAGAAAAATTTT
1 GAAAACTTAGAAAAATTTT
12099177 CATGAAACAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (21 bp):
GAAAACTTAGAAAAATTTTGG
Found at i:12101085 original size:47 final size:48
Alignment explanation
Indices: 12101034--12101206 Score: 240
Period size: 48 Copynumber: 3.6 Consensus size: 48
12101024 TATCGATGCT
* * * *
12101034 GATGCCATGTTCTAGACATGGTCTAACACTAGCACA-ATATCATCGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
* * *
12101081 GATGCCATGTCCCAAACATGATCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
12101129 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
* * **
12101177 AATGCCATGCCCCAGACACAGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
12101207 GGCTCTCATC
Statistics
Matches: 111, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 30 0.27
48 81 0.73
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
Found at i:12101236 original size:35 final size:35
Alignment explanation
Indices: 12101190--12101258 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
12101180 GCCATGCCCC
12101190 AGACACAGTCTTACACTGGCTCTCATCTCGAATGT
1 AGACACAGTCTTACACTGGCTCTCATCTCGAATGT
*
12101225 AGACATAGTCTTACACTGGCTCTCATCTCGAATG
1 AGACACAGTCTTACACTGGCTCTCATCTCGAATG
12101259 CATACGCCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (35 bp):
AGACACAGTCTTACACTGGCTCTCATCTCGAATGT
Found at i:12111307 original size:14 final size:15
Alignment explanation
Indices: 12111266--12111308 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
12111256 ATCAAAAACC
*
12111266 AAATTAAAATTAAAT
1 AAATTAAAATAAAAT
*
12111281 -AATCAAAATAAAAT
1 AAATTAAAATAAAAT
12111295 AAATTAAAA-AAAAT
1 AAATTAAAATAAAAT
12111309 TAAAGAAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 17 0.71
15 7 0.29
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATTAAAATAAAAT
Found at i:12111494 original size:17 final size:17
Alignment explanation
Indices: 12111467--12111499 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12111457 ACTAATCGAC
12111467 CAATACTCACTTATCTTT
1 CAATACTCACTT-TCTTT
12111485 CAAT-CTCACTTTCTT
1 CAATACTCACTTTCTT
12111500 GACTTGGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.45
Consensus pattern (17 bp):
CAATACTCACTTTCTTT
Found at i:12128780 original size:14 final size:15
Alignment explanation
Indices: 12128751--12128783 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
12128741 CTTTTTTCTT
12128751 GGAGGGTGGGAAGGG
1 GGAGGGTGGGAAGGG
*
12128766 GGAGGG-GGGAGGGG
1 GGAGGGTGGGAAGGG
12128780 GGAG
1 GGAG
12128784 TTTCTACAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.18, C:0.00, G:0.79, T:0.03
Consensus pattern (15 bp):
GGAGGGTGGGAAGGG
Found at i:12131484 original size:24 final size:23
Alignment explanation
Indices: 12131457--12131515 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
12131447 ATGTTTATTA
*
12131457 TTAAAATATTAATATA-AATATTTT
1 TTAAAAT-TTAATA-AGAATATTGT
*
12131481 TTAATAATTTATTAAGAATATTGT
1 TTAA-AATTTAATAAGAATATTGT
*
12131505 TTAAATTTTAA
1 TTAAAATTTAA
12131516 ATTATTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
23 6 0.21
24 20 0.69
25 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (23 bp):
TTAAAATTTAATAAGAATATTGT
Found at i:12131595 original size:30 final size:28
Alignment explanation
Indices: 12131544--12131606 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 28
12131534 TTATCATTAA
12131544 ATTAAAATAATATTTAATATTAAATAATTT
1 ATTAAAATAATATTT-ATATT-AATAATTT
*
12131574 ATTAAAATAATGAATTT-TATTAATATTTT
1 ATTAAAATAAT--ATTTATATTAATAATTT
12131603 ATTA
1 ATTA
12131607 TATTATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 11 0.37
30 15 0.50
32 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (28 bp):
ATTAAAATAATATTTATATTAATAATTT
Found at i:12131661 original size:31 final size:29
Alignment explanation
Indices: 12131570--12131663 Score: 77
Period size: 31 Copynumber: 3.1 Consensus size: 29
12131560 ATATTAAATA
12131570 ATTTATTA-A-AATAATGAATTTTATTAAT
1 ATTTATTATATAATAATGAATTTTA-TAAT
* * *
12131598 ATTTTATTATATTATATATAAATAATTA-AAT
1 A-TTTATTATATAATA-ATGAAT-TTTATAAT
*
12131629 ATTTATGTTTAGTAATAATGAATTTTATAAT
1 ATTTAT-TATA-TAATAATGAATTTTATAAT
12131660 ATTT
1 ATTT
12131664 TATATTAGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
28 1 0.02
29 7 0.14
30 9 0.18
31 22 0.43
32 9 0.18
33 3 0.06
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (29 bp):
ATTTATTATATAATAATGAATTTTATAAT
Found at i:12134663 original size:47 final size:47
Alignment explanation
Indices: 12134610--12134781 Score: 170
Period size: 47 Copynumber: 3.7 Consensus size: 47
12134600 GCTTGACCAA
* * *
12134610 TGGTTTATCCACAACGTATTCTAGTCGGCAATCATCTGCTCCACCTG
1 TGGTTTATCCACAACGTATTCTAGTCGGTAGTCATCTGCTCGACCTG
* ** *
12134657 TGGTTTAAT-CACAATGTATTCTAGTCGGTAGTCATCTAATCGACCAG
1 TGGTTT-ATCCACAACGTATTCTAGTCGGTAGTCATCTGCTCGACCTG
* * * *
12134704 TGGTTTATCTAC-ACGTATTTTAGTCAGTAGTCATCTGCACGACCAT-
1 TGGTTTATCCACAACGTATTCTAGTCGGTAGTCATCTGCTCGACC-TG
* * * *
12134750 TGGTTTATGCACAACGCATTTTAGTCAGTAGT
1 TGGTTTATCCACAACGTATTCTAGTCGGTAGT
12134782 TGTGACACCC
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
46 38 0.37
47 63 0.61
48 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (47 bp):
TGGTTTATCCACAACGTATTCTAGTCGGTAGTCATCTGCTCGACCTG
Found at i:12134775 original size:93 final size:94
Alignment explanation
Indices: 12134604--12134781 Score: 209
Period size: 93 Copynumber: 1.9 Consensus size: 94
12134594 TTATTTGCTT
* *
12134604 GACCAATGGTTTATCCACAACGTATTCTAGTCGGCAATCATCTGCTCCACCTGTGGTTTAATCAC
1 GACCAATGGTTTATCCACAACGTATTCTAGTCAGCAATCATCTGCACCACCTGTGGTTTAATCAC
* * *
12134669 AATGTATTCTAGTCGGTAGTCATCTAATC
66 AACGCATTCTAGTCAGTAGTCATCTAATC
* * * * * *
12134698 GACCAGTGGTTTATCTAC-ACGTATTTTAGTCAGTAGTCATCTGCACGACCAT-TGGTTT-ATGC
1 GACCAATGGTTTATCCACAACGTATTCTAGTCAGCAATCATCTGCACCACC-TGTGGTTTAAT-C
*
12134760 ACAACGCATTTTAGTCAGTAGT
64 ACAACGCATTCTAGTCAGTAGT
12134782 TGTGACACCC
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
92 2 0.03
93 51 0.73
94 17 0.24
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (94 bp):
GACCAATGGTTTATCCACAACGTATTCTAGTCAGCAATCATCTGCACCACCTGTGGTTTAATCAC
AACGCATTCTAGTCAGTAGTCATCTAATC
Found at i:12137125 original size:25 final size:25
Alignment explanation
Indices: 12137097--12137175 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
12137087 CTAATGGCCG
12137097 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
12137122 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
12137144 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
12137169 ATGTGAT
1 ATGTGAT
12137176 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:12137236 original size:49 final size:49
Alignment explanation
Indices: 12137081--12137468 Score: 621
Period size: 49 Copynumber: 8.1 Consensus size: 49
12137071 GAAATGATAG
12137081 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
12137128 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
12137175 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
12137224 TAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
12137273 TAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
12137322 TAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
12137371 TAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
12137418 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
12137465 TAAG
1 TAAG
12137469 TCCCGAAGGG
Statistics
Matches: 326, Mismatches: 11, Indels: 8
0.94 0.03 0.02
Matches are distributed among these distances:
47 130 0.40
48 1 0.00
49 195 0.60
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:12137638 original size:37 final size:37
Alignment explanation
Indices: 12137587--12137665 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
12137577 TCGAGCTCTA
12137587 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
12137624 GAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
12137661 AAGAC
1 AAGAC
12137666 TTCGTAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:12139671 original size:31 final size:31
Alignment explanation
Indices: 12139633--12139696 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
12139623 TTTATACAGA
12139633 AAATTAAATCCGACACTTCGATGCCGGTCCT
1 AAATTAAATCCGACACTTCGATGCCGGTCCT
*
12139664 AAATTAAATTCGACACTTCGATGCCGGTCCT
1 AAATTAAATCCGACACTTCGATGCCGGTCCT
12139695 AA
1 AA
12139697 TTTAGTTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (31 bp):
AAATTAAATCCGACACTTCGATGCCGGTCCT
Found at i:12141538 original size:79 final size:79
Alignment explanation
Indices: 12141407--12141566 Score: 302
Period size: 79 Copynumber: 2.0 Consensus size: 79
12141397 CATCATTTTC
*
12141407 ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTTGTTAATTCAAATTGAG
1 ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTTGTTAATTCAAATTAAG
*
12141472 TTTTAAATGATTAT
66 TTTTAAACGATTAT
12141486 ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTTGTTAATTCAAATTAAG
1 ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTTGTTAATTCAAATTAAG
12141551 TTTTAAACGATTAT
66 TTTTAAACGATTAT
12141565 AT
1 AT
12141567 TTAGATTTGA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (79 bp):
ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTTGTTAATTCAAATTAAG
TTTTAAACGATTAT
Found at i:12147970 original size:15 final size:16
Alignment explanation
Indices: 12147950--12147983 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
12147940 GATTCCAATA
*
12147950 AAATGTGATTG-CTGG
1 AAATGTAATTGTCTGG
12147965 AAATGTAATTGTCTGG
1 AAATGTAATTGTCTGG
12147981 AAA
1 AAA
12147984 GTTATTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.32
Consensus pattern (16 bp):
AAATGTAATTGTCTGG
Found at i:12148200 original size:5 final size:5
Alignment explanation
Indices: 12148192--12148253 Score: 72
Period size: 5 Copynumber: 12.2 Consensus size: 5
12148182 TGAAATTTTC
* * *
12148192 TCGAA TCGAG TCGAG T-GAGA TGGAA TTCGAA TCGAA TCGAA TCGAA TCGAA
1 TCGAA TCGAA TCGAA TCGA-A TCGAA T-CGAA TCGAA TCGAA TCGAA TCGAA
12148243 TCGAA TCGAA T
1 TCGAA TCGAA T
12148254 TAAATATATT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
4 2 0.04
5 43 0.84
6 6 0.12
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:12150055 original size:21 final size:21
Alignment explanation
Indices: 12150029--12150079 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
12150019 TTTTAGATTT
12150029 GTTTTGTTTTGCTAAATAGAA
1 GTTTTGTTTTGCTAAATAGAA
12150050 GTTTTGTTTTGCTAAATAGAA
1 GTTTTGTTTTGCTAAATAGAA
12150071 GTTTTGTTT
1 GTTTTGTTT
12150080 AAGTTAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.53
Consensus pattern (21 bp):
GTTTTGTTTTGCTAAATAGAA
Found at i:12150851 original size:21 final size:22
Alignment explanation
Indices: 12150821--12150870 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
12150811 ATCCCTGGTC
* *
12150821 CACACAGCCGTATGCCTCTA-T
1 CACACGGCCGTATGCCCCTATT
*
12150842 CACACGGCCGTGTGCCCCTATT
1 CACACGGCCGTATGCCCCTATT
12150864 CACACGG
1 CACACGG
12150871 GTGTTTGACC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.20, C:0.40, G:0.20, T:0.20
Consensus pattern (22 bp):
CACACGGCCGTATGCCCCTATT
Found at i:12152897 original size:28 final size:28
Alignment explanation
Indices: 12152855--12152995 Score: 122
Period size: 28 Copynumber: 5.0 Consensus size: 28
12152845 AAAATTCAAT
* *
12152855 GGTCATATTGC-AACGATCAGAGTCCAAC
1 GGTCATATT-CTAACGGTCAGATTCCAAC
* * *
12152883 GTTCATATTCTAACGGTTAGATTCCAAT
1 GGTCATATTCTAACGGTCAGATTCCAAC
* * * * *
12152911 GGCCATATTATAATGGTCAAATTCTAAC
1 GGTCATATTCTAACGGTCAGATTCCAAC
* *
12152939 AGTCATATTGTAACGGTCAGATTCCAAC
1 GGTCATATTCTAACGGTCAGATTCCAAC
* * **
12152967 GGTCATATTGTCACTATCAGATTCCAAC
1 GGTCATATTCTAACGGTCAGATTCCAAC
12152995 G
1 G
12152996 ACCATATTAT
Statistics
Matches: 89, Mismatches: 23, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
27 1 0.01
28 88 0.99
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (28 bp):
GGTCATATTCTAACGGTCAGATTCCAAC
Found at i:12152967 original size:14 final size:14
Alignment explanation
Indices: 12152855--12152975 Score: 71
Period size: 14 Copynumber: 8.6 Consensus size: 14
12152845 AAAATTCAAT
*
12152855 GGTCATATTGCAAC
1 GGTCATATTCCAAC
* * *
12152869 GATCAGAGTCCAAC
1 GGTCATATTCCAAC
* *
12152883 GTTCATATTCTAAC
1 GGTCATATTCCAAC
* * *
12152897 GGTTAGATTCCAAT
1 GGTCATATTCCAAC
* ** *
12152911 GGCCATATTATAAT
1 GGTCATATTCCAAC
* *
12152925 GGTCAAATTCTAAC
1 GGTCATATTCCAAC
* **
12152939 AGTCATATTGTAAC
1 GGTCATATTCCAAC
*
12152953 GGTCAGATTCCAAC
1 GGTCATATTCCAAC
12152967 GGTCATATT
1 GGTCATATT
12152976 GTCACTATCA
Statistics
Matches: 77, Mismatches: 30, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
14 77 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (14 bp):
GGTCATATTCCAAC
Found at i:12158827 original size:18 final size:18
Alignment explanation
Indices: 12158806--12158840 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12158796 TTTGAAAGAG
*
12158806 TTGAGAGAATTAGGAGAT
1 TTGAAAGAATTAGGAGAT
*
12158824 TTGAAAGAATTGGGAGA
1 TTGAAAGAATTAGGAGA
12158841 ATAAGATGTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.34, T:0.26
Consensus pattern (18 bp):
TTGAAAGAATTAGGAGAT
Found at i:12160053 original size:41 final size:41
Alignment explanation
Indices: 12160007--12160089 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
12159997 TGTCAAATTG
12160007 AAAGAGAAAAGAAAATAATTCAATTCCAAATGGAAATAGGA
1 AAAGAGAAAAGAAAATAATTCAATTCCAAATGGAAATAGGA
* * *
12160048 AAAGAGAATAGAGAATAATTCAATTCCAAATTGAAATAGGA
1 AAAGAGAAAAGAAAATAATTCAATTCCAAATGGAAATAGGA
12160089 A
1 A
12160090 TACAAAAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.19
Consensus pattern (41 bp):
AAAGAGAAAAGAAAATAATTCAATTCCAAATGGAAATAGGA
Found at i:12160210 original size:15 final size:16
Alignment explanation
Indices: 12160177--12160231 Score: 87
Period size: 15 Copynumber: 3.5 Consensus size: 16
12160167 CTAATTTAAT
12160177 ATAAAATCAAAAATAAA
1 ATAAAAT-AAAAATAAA
12160194 ATAAAATAAAAAT-AA
1 ATAAAATAAAAATAAA
12160209 ATAAAAT-AAAATAAA
1 ATAAAATAAAAATAAA
12160224 ATAAAATA
1 ATAAAATA
12160232 TTTCTATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.14
15 18 0.50
16 6 0.17
17 7 0.19
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (16 bp):
ATAAAATAAAAATAAA
Found at i:12160212 original size:4 final size:5
Alignment explanation
Indices: 12160186--12160231 Score: 76
Period size: 5 Copynumber: 9.2 Consensus size: 5
12160176 TATAAAATCA
12160186 AAAAT AAAAT AAAAT AAAA- ATAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT AAAAT AAAAT A
12160232 TTTCTATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 1 0.03
5 37 0.95
6 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:12163092 original size:62 final size:62
Alignment explanation
Indices: 12163016--12163139 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
12163006 TTTATCTTTG
12163016 CATTTTCAAGGTGATTCAGTGGGATTTATTCATTATCACCTATATATTGTAATACGTGTGGA
1 CATTTTCAAGGTGATTCAGTGGGATTTATTCATTATCACCTATATATTGTAATACGTGTGGA
12163078 CATTTTCAAGGTGATTCAGTGGGATTTATTCATTATCACCTATATATTGTAATACGTGTGGA
1 CATTTTCAAGGTGATTCAGTGGGATTTATTCATTATCACCTATATATTGTAATACGTGTGGA
12163140 ATGATGATGA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.40
Consensus pattern (62 bp):
CATTTTCAAGGTGATTCAGTGGGATTTATTCATTATCACCTATATATTGTAATACGTGTGGA
Found at i:12165797 original size:12 final size:12
Alignment explanation
Indices: 12165780--12165804 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12165770 TATGTTAGTC
12165780 TACTTTCGAGGT
1 TACTTTCGAGGT
12165792 TACTTTCGAGGT
1 TACTTTCGAGGT
12165804 T
1 T
12165805 TATGCACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (12 bp):
TACTTTCGAGGT
Found at i:12168513 original size:16 final size:16
Alignment explanation
Indices: 12168492--12168522 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12168482 TTTTTTTTTT
12168492 TGGGTGGGGGGGGTTC
1 TGGGTGGGGGGGGTTC
*
12168508 TGGGTGGGGTGGGTT
1 TGGGTGGGGGGGGTT
12168523 GCAATCTGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.03, G:0.68, T:0.29
Consensus pattern (16 bp):
TGGGTGGGGGGGGTTC
Found at i:12169745 original size:19 final size:19
Alignment explanation
Indices: 12169721--12169759 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
12169711 CTTCTTCACC
12169721 TATAAAATCAACATTGTAG
1 TATAAAATCAACATTGTAG
12169740 TATAAAATCAACATTGTAG
1 TATAAAATCAACATTGTAG
12169759 T
1 T
12169760 CAAACTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (19 bp):
TATAAAATCAACATTGTAG
Found at i:12173157 original size:12 final size:12
Alignment explanation
Indices: 12173140--12173165 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12173130 AACCCGAATA
12173140 TAATTTCTAATT
1 TAATTTCTAATT
12173152 TAATTTCTAATT
1 TAATTTCTAATT
12173164 TA
1 TA
12173166 TTTAGTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (12 bp):
TAATTTCTAATT
Found at i:12174791 original size:3 final size:3
Alignment explanation
Indices: 12174777--12174845 Score: 54
Period size: 3 Copynumber: 23.7 Consensus size: 3
12174767 GAGTGCCGAA
* * *
12174777 AAT AAT AA- AAT AAT AAT AA- AAT AAT AAG AAT AAA AATT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
* * *
12174821 AA- AAT AAT AAT GAC AAC AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
12174846 ATGAATAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
2 6 0.12
3 44 0.85
4 2 0.04
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:12174793 original size:11 final size:11
Alignment explanation
Indices: 12174777--12174846 Score: 59
Period size: 11 Copynumber: 5.8 Consensus size: 11
12174767 GAGTGCCGAA
12174777 AATAATAAAAT
1 AATAATAAAAT
12174788 AATAATAAAAT
1 AATAATAAAAT
12174799 AATAAGAATAAAAATT
1 AAT---AAT-AAAA-T
*
12174815 AAAAATAAAAT
1 AATAATAAAAT
* *
12174826 AATAATGACAAC
1 AATAAT-AAAAT
12174838 AATAATAAA
1 AATAATAAA
12174847 TGAATAAAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
11 22 0.46
12 13 0.27
13 3 0.06
14 3 0.06
15 4 0.08
16 3 0.06
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:12174847 original size:27 final size:27
Alignment explanation
Indices: 12174783--12174847 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
12174773 CGAAAATAAT
*
12174783 AAAATAAT-AATAAAATAATAAGAATA
1 AAAATAATAAATAAAATAATAAGAACA
12174809 AAAATTAA-AAATAAAATAATAATG-ACA
1 AAAA-TAATAAATAAAATAATAA-GAACA
*
12174836 ACAATAATAAAT
1 AAAATAATAAAT
12174848 GAATAAAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
26 7 0.21
27 25 0.76
28 1 0.03
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (27 bp):
AAAATAATAAATAAAATAATAAGAACA
Found at i:12174930 original size:5 final size:5
Alignment explanation
Indices: 12174920--12174944 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
12174910 AAGAAATAAT
12174920 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
12174945 GTTTGTAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:12176463 original size:44 final size:44
Alignment explanation
Indices: 12176391--12176934 Score: 177
Period size: 44 Copynumber: 11.9 Consensus size: 44
12176381 ACATTTCAAC
* **
12176391 CCACTGCAACTTCAGGG-GTATAAGATTTGCCGCTTTAATCTACT
1 CCACTGCAACTTCAGGGAG-ATAAAATTTGTAGCTTTAATCTACT
* * *
12176435 CCACTGCAACTTCAGGGAGATAAAATTTGTGGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAAATTTGTAGCTTTAATCTACT
* * * * *
12176479 CCACTGCAACTTTAGGGAGATGATTTGTAACTTGTAGCTTTAGTCTATT
1 CCACTGCAACTTCAGGGAGAT-A----AAATTTGTAGCTTTAATCTACT
* * *
12176528 CCACTGCAACTTCAGGGAGATAAGACTTGCTATGGTAGATTTAATCCGA-T
1 CCACTGCAACTTCAGGGAGATAA-A-AT--T-T-GTAGCTTTAAT-CTACT
* * ** ** * * *
12176578 CTACTG-AACCTCA-AAAGTATAGGACTTATCG-TTTCAATCTACT
1 CCACTGCAACTTCAGGGAG-ATAAAATTTGTAGCTTT-AATCTACT
* * * * * * * *
12176621 CAACTGCAACTTTAAGGAGATAAGATCTGTAACTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAAATTTGTAGCTTTAATCTACT
* * **
12176665 CCACTGCAACTTCAGGGAGATAAGATTTGTAATTTATAGTTTTAATCTGTT
1 CCACTGCAACTTCAGGGAGAT-A-A-----AATTTGTAGCTTTAATCTACT
* * * * *** **
12176716 TCACTACAACTTCAGGGAAATAAGATCCACTA--TTGTCAGCCTACT
1 CCACTGCAACTTCAGGGAGATAAAAT-TTGTAGCTT-T-AATCTACT
* * * * * * *
12176761 CCACTGCAACTTCAAGGAGATAAAACTTGCAACTTCAACCTGCT
1 CCACTGCAACTTCAGGGAGATAAAATTTGTAGCTTTAATCTACT
** * * *
12176805 CCACTGCAACTTCAGGGAGATAAGGTTTATAGCTTTAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAAATTTGTAGCTTTAATCTACT
** * * * ** * *
12176849 ATACTGCAACTTTAGAGAGATAAGATTTGCTATTTTTGATCTATT
1 CCACTGCAACTTCAGGGAGATAAAATTTG-TAGCTTTAATCTACT
* * *
12176894 CCACTGTAATTTCAGAGAGATAAAATTTGT-GACTTTAATCT
1 CCACTGCAACTTCAGGGAGATAAAATTTGTAG-CTTTAATCT
12176935 TTTCCACTAT
Statistics
Matches: 358, Mismatches: 109, Indels: 66
0.67 0.20 0.12
Matches are distributed among these distances:
42 5 0.01
43 13 0.04
44 170 0.47
45 67 0.19
46 3 0.01
48 4 0.01
49 46 0.13
50 16 0.04
51 34 0.09
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAAATTTGTAGCTTTAATCTACT
Found at i:12199328 original size:239 final size:240
Alignment explanation
Indices: 12198904--12199348 Score: 849
Period size: 239 Copynumber: 1.9 Consensus size: 240
12198894 GCAATCCAAG
12198904 AACTGGGTTTGAAATTAGAGCAAGTCAATTTGAACATCGCCCAAGTATATTTTAGAGCAAAGCCC
1 AACTGGGTTTGAAATTAGAGCAAGTCAATTTGAACATCGCCCAAGTATATTTTAGAGCAAAGCCC
12198969 AAAGATTGATAAAAGAGCTAAGCAATGTGGGTTAAAATAATTTCTTTGCCATACTCAGTTTCCAT
66 AAAGATTGATAAAAGAGCTAAGCAATGTGGGTTAAAATAATTTCTTTGCCATACTCAGTTTCCAT
*
12199034 GGAAGAACTATGAGCAAAACAACAAATATATTTCTATTGCTGCAAATGTACACTGCAAGTTACAA
131 GGAAGAACTATGAGCAAAACAACAAATATATTTCTATTGCTGCAAATGCACACTGCAAGTTACAA
12199099 CATCTATCCATGGAAGAACTATGATAAATCAAGTTACATTTGACT
196 CATCTATCCATGGAAGAACTATGATAAATCAAGTTACATTTGACT
12199144 AACTGGGTTTGAAATT-GCAGCAAGTCAATTTGAACATCGCCCAAGTATATTTTAGAGCAAAGCC
1 AACTGGGTTTGAAATTAG-AGCAAGTCAATTTGAACATCGCCCAAGTATATTTTAGAGCAAAGCC
*
12199208 CGAAGATTGAT-AAAGAGCTAAGCAATGTGGGTTAAAATAATTTCTTTGCCATACTCAGTTTCCA
65 CAAAGATTGATAAAAGAGCTAAGCAATGTGGGTTAAAATAATTTCTTTGCCATACTCAGTTTCCA
12199272 TGGAAGAACTATGAGCAAAACAACAAATATATTTCTATTGCTGCAAATGCACACTGCAAGTTACA
130 TGGAAGAACTATGAGCAAAACAACAAATATATTTCTATTGCTGCAAATGCACACTGCAAGTTACA
12199337 ACATCTATCCAT
195 ACATCTATCCAT
12199349 ACTAATACTG
Statistics
Matches: 202, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
239 130 0.64
240 72 0.36
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (240 bp):
AACTGGGTTTGAAATTAGAGCAAGTCAATTTGAACATCGCCCAAGTATATTTTAGAGCAAAGCCC
AAAGATTGATAAAAGAGCTAAGCAATGTGGGTTAAAATAATTTCTTTGCCATACTCAGTTTCCAT
GGAAGAACTATGAGCAAAACAACAAATATATTTCTATTGCTGCAAATGCACACTGCAAGTTACAA
CATCTATCCATGGAAGAACTATGATAAATCAAGTTACATTTGACT
Found at i:12214730 original size:20 final size:20
Alignment explanation
Indices: 12214698--12214737 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
12214688 TAAAATTATT
*
12214698 ATTTTATGGTTTTATTTAAG
1 ATTTTATGGTTTTAATTAAG
12214718 ATTTT-TGGTTTTTAATTAAG
1 ATTTTATGG-TTTTAATTAAG
12214738 GGTGTGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (20 bp):
ATTTTATGGTTTTAATTAAG
Found at i:12220470 original size:46 final size:46
Alignment explanation
Indices: 12220417--12220511 Score: 156
Period size: 46 Copynumber: 2.1 Consensus size: 46
12220407 ATAGAATTGT
*
12220417 AATGAAATAGAGCTGTAA-TCAGTAATTCAATTGTTTGGTTGAATGA
1 AATGAAATAGAGCTGTAACT-AGTAATTCAATTGTTTGGTTGAATAA
*
12220463 AATGAAATAGAGTTGTAACTAGTAATTCAATTGTTTGGTTGAATAA
1 AATGAAATAGAGCTGTAACTAGTAATTCAATTGTTTGGTTGAATAA
12220509 AAT
1 AAT
12220512 AGATATAGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 45 0.98
47 1 0.02
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (46 bp):
AATGAAATAGAGCTGTAACTAGTAATTCAATTGTTTGGTTGAATAA
Found at i:12220618 original size:25 final size:26
Alignment explanation
Indices: 12220585--12220634 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
12220575 TAGGTAAATG
*
12220585 ATTATTGTT-ATTAAATTTTAATAAT
1 ATTATTGTTAAATAAATTTTAATAAT
*
12220610 ATTATTGTTAAATATATTTTAATAA
1 ATTATTGTTAAATAAATTTTAATAA
12220635 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (26 bp):
ATTATTGTTAAATAAATTTTAATAAT
Found at i:12220713 original size:12 final size:11
Alignment explanation
Indices: 12220698--12220764 Score: 50
Period size: 12 Copynumber: 5.9 Consensus size: 11
12220688 TCTAATAAAA
12220698 TAATATATAATT
1 TAATA-ATAATT
* *
12220710 TAATAACATTCT
1 TAATAATAAT-T
12220722 TAAT-ATAATTAT
1 TAATAATAA-T-T
12220734 TAATAAT-ATT
1 TAATAATAATT
12220744 TAATAATAATTT
1 TAATAATAA-TT
12220756 TAAT-ATAAT
1 TAATAATAAT
12220765 ATTATTAAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
10 9 0.20
11 11 0.24
12 23 0.51
13 2 0.04
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (11 bp):
TAATAATAATT
Found at i:12220759 original size:34 final size:36
Alignment explanation
Indices: 12220698--12220785 Score: 101
Period size: 36 Copynumber: 2.4 Consensus size: 36
12220688 TCTAATAAAA
*
12220698 TAATATATAATTTAATAACATTCTTAATAT-A-ATTAT
1 TAATA-AT-ATTTAATAAAATTCTTAATATAATATTAT
12220734 TAATAATATTTAATAATAATT-TTAATATAATATTAT
1 TAATAATATTTAATAA-AATTCTTAATATAATATTAT
*
12220770 TAAGAATATTTCAATA
1 TAATAATATTT-AATA
12220786 TCTAATATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
34 16 0.35
35 6 0.13
36 20 0.43
37 4 0.09
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (36 bp):
TAATAATATTTAATAAAATTCTTAATATAATATTAT
Found at i:12226651 original size:19 final size:19
Alignment explanation
Indices: 12226627--12226665 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
12226617 TCAAGCGACC
12226627 AATTCGAAGCAAATTAGAA
1 AATTCGAAGCAAATTAGAA
12226646 AATTCGAAGCAAATTAGAA
1 AATTCGAAGCAAATTAGAA
12226665 A
1 A
12226666 GTTCAGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.21
Consensus pattern (19 bp):
AATTCGAAGCAAATTAGAA
Found at i:12228067 original size:33 final size:33
Alignment explanation
Indices: 12227998--12228106 Score: 128
Period size: 33 Copynumber: 3.3 Consensus size: 33
12227988 ATAACCCGAT
* * * *
12227998 TATGGTCTTATCATTAGAATGCCATAACCCAAC
1 TATGGTCTTATCATCAGGATGCCATAGCCCAGC
* *
12228031 TATGGTCTTATCATCAGGACGGCATAGCCCAGC
1 TATGGTCTTATCATCAGGATGCCATAGCCCAGC
* * * *
12228064 TATGGTCTTATTATCAAGATACCATAGCCTAGC
1 TATGGTCTTATCATCAGGATGCCATAGCCCAGC
12228097 TATGGTCTTA
1 TATGGTCTTA
12228107 CATATATACA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (33 bp):
TATGGTCTTATCATCAGGATGCCATAGCCCAGC
Found at i:12229374 original size:16 final size:17
Alignment explanation
Indices: 12229343--12229375 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12229333 ATAACAATTA
12229343 AATTTAACCTCTTTTAC
1 AATTTAACCTCTTTTAC
*
12229360 AATTTAATC-CTTTTAC
1 AATTTAACCTCTTTTAC
12229376 CTTAATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTTAACCTCTTTTAC
Found at i:12231828 original size:43 final size:44
Alignment explanation
Indices: 12231762--12231897 Score: 141
Period size: 51 Copynumber: 3.0 Consensus size: 44
12231752 TTATAAATCC
* *
12231762 GAACTCGTTGAGTGGTCCAAGTTCATTATGGATGTG-AGCATCT
1 GAACTCGTTGAGTGGTCCGAGTTCATTATGGATGTGTAACATCT
* *
12231805 GAGCTCGTTGAGTGG-CCTGAGTTCATGATGGATGCGACGCATGTAACATCT
1 GAACTCGTTGAGTGGTCC-GAGTTCAT--T--ATG-GATG--TGTAACATCT
*
12231856 GAACTCGTTGAGTGGTCCGAGTTCATTATGGATGTGTTACAT
1 GAACTCGTTGAGTGGTCCGAGTTCATTATGGATGTGTAACAT
12231898 GTTATGAGGT
Statistics
Matches: 76, Mismatches: 7, Indels: 19
0.75 0.07 0.19
Matches are distributed among these distances:
42 2 0.03
43 21 0.28
44 7 0.09
45 1 0.01
46 3 0.04
47 6 0.08
48 3 0.04
49 1 0.01
50 2 0.03
51 28 0.37
52 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (44 bp):
GAACTCGTTGAGTGGTCCGAGTTCATTATGGATGTGTAACATCT
Found at i:12240976 original size:19 final size:19
Alignment explanation
Indices: 12240943--12240989 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
12240933 CAATAAGAAT
12240943 AACAATAAAATAAT-AATA
1 AACAATAAAATAATAAATA
*
12240961 AACACTAAATATAATAAATA
1 AACAATAAA-ATAATAAATA
12240981 AA-AATAAAA
1 AACAATAAAA
12240990 AAGTAAAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 9 0.36
19 10 0.40
20 6 0.24
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.21
Consensus pattern (19 bp):
AACAATAAAATAATAAATA
Found at i:12244893 original size:40 final size:40
Alignment explanation
Indices: 12244808--12244918 Score: 111
Period size: 40 Copynumber: 2.8 Consensus size: 40
12244798 GATTATGTTC
* *
12244808 GGCATTAAGTGTGCGATTTGAAATAGCTTCAGCTATAAATA
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCAGCTAT-AATA
*
12244849 -GCACTAAGTGTGCGAATTGGAATAGCTTC-GACTAT-ATGA
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCAG-CTATAAT-A
* * *
12244888 GGCACTAAGTGTACGATATCGAGATAGCTTC
1 GGCACTAAGTGTGCGA-ATTGAAATAGCTTC
12244919 GATTATTTGA
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
38 2 0.03
39 2 0.03
40 44 0.75
41 11 0.19
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (40 bp):
GGCACTAAGTGTGCGAATTGAAATAGCTTCAGCTATAATA
Found at i:12251696 original size:21 final size:19
Alignment explanation
Indices: 12251660--12251704 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 19
12251650 ATTAAAAGGT
*
12251660 AAAAATTAAATCAAAAATA
1 AAAAATTAAATAAAAAATA
12251679 AAAATATTAAAATAAAAAATA
1 AAAA-ATT-AAATAAAAAATA
12251700 AAAAA
1 AAAAA
12251705 ATTGGCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 4 0.17
21 15 0.65
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAAATTAAATAAAAAATA
Found at i:12261577 original size:68 final size:72
Alignment explanation
Indices: 12261505--12261642 Score: 194
Period size: 72 Copynumber: 2.0 Consensus size: 72
12261495 TTTAATAGAT
* ** *
12261505 TTAATATTAAATTAAATTTAATACTTATC-T-TA-A-CAATATTTTATTAATTTAATATTGAAGT
1 TTAATATTAAATTAAATTTAATACTTATCTTGTAGATAAATATCCTATTAATTTAATATTAAAGT
12261566 GATTATC
66 GATTATC
* *
12261573 TTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATCCTATTAATTTAATATTAAAGT
1 TTAATATTAAATTAAATTTAATACTTATCTTGTAGATAAATATCCTATTAATTTAATATTAAAGT
12261638 GATTA
66 GATTA
12261643 AATTTAATCA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
68 27 0.45
69 1 0.02
70 2 0.03
71 1 0.02
72 29 0.48
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (72 bp):
TTAATATTAAATTAAATTTAATACTTATCTTGTAGATAAATATCCTATTAATTTAATATTAAAGT
GATTATC
Found at i:12266963 original size:10 final size:10
Alignment explanation
Indices: 12266925--12266968 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
12266915 ATTCAAAGTC
12266925 TCATTTTTCTT
1 TCATTTTT-TT
12266936 TCAATTTTATTT
1 TC-ATTTT-TTT
12266948 TCATTTTTTT
1 TCATTTTTTT
*
12266958 TGATTTTTTT
1 TCATTTTTTT
12266968 T
1 T
12266969 ATCTACCGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 13 0.43
11 7 0.23
12 9 0.30
13 1 0.03
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (10 bp):
TCATTTTTTT
Found at i:12267788 original size:29 final size:26
Alignment explanation
Indices: 12267755--12267820 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
12267745 TTGACTTCCT
12267755 TTTATTTTATGTAAATATTCTCTCTTAAA
1 TTTA-TTTATGTAAATATTCT-T-TTAAA
* *
12267784 TTTA-TTATATATATATTCTTTTAAA
1 TTTATTTATGTAAATATTCTTTTAAA
12267809 TTTATTTATGTA
1 TTTATTTATGTA
12267821 TAATTTGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
25 9 0.27
26 7 0.21
27 13 0.39
29 4 0.12
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (26 bp):
TTTATTTATGTAAATATTCTTTTAAA
Found at i:12267812 original size:25 final size:26
Alignment explanation
Indices: 12267769--12267822 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
12267759 TTTTATGTAA
12267769 ATATTCTCTCTTAAATTTATTATATAT
1 ATATTCTCTCTTAAATTTATT-TATAT
*
12267796 ATATTCT-T-TTAAATTTATTTATGT
1 ATATTCTCTCTTAAATTTATTTATAT
12267820 ATA
1 ATA
12267823 ATTTGGTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 7 0.27
25 11 0.42
26 1 0.04
27 7 0.27
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.57
Consensus pattern (26 bp):
ATATTCTCTCTTAAATTTATTTATAT
Found at i:12268594 original size:127 final size:128
Alignment explanation
Indices: 12268436--12268686 Score: 396
Period size: 128 Copynumber: 2.0 Consensus size: 128
12268426 ATTTTCGTCT
* * * *
12268436 CGTGTTTTGGAAATCATGAGATGATCTCAG-TTTTTGGAGGCTTAAAATATCGTGTCCTAACGTG
1 CGTGTTCTGGAAATCATGAGATGATCTCAGTTTTTTAGAGGCTTAAAATATCCTGTCCTAACATG
* * *
12268500 CTGGATGTGGTATTTTATTCCTTTGGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTCG
66 CTGGATGTGGTATTTAATTCCTTTGAAACGAGTGAATCTTAAAATCCAACATGAGTTGTTTCG
* * *
12268563 CGTGTTCTGGGAATCATGAGGTGATCTCAGTTTTTTAGAGGTTTAAAATATCCTGTCCTAACATG
1 CGTGTTCTGGAAATCATGAGATGATCTCAGTTTTTTAGAGGCTTAAAATATCCTGTCCTAACATG
*
12268628 CTGGATGTGGTATTTAATTCCTTTGAAACGAGTGAATCTTAAAATCCATCATGAGTTGT
66 CTGGATGTGGTATTTAATTCCTTTGAAACGAGTGAATCTTAAAATCCAACATGAGTTGT
12268687 GCACACATTT
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
127 27 0.24
128 85 0.76
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.37
Consensus pattern (128 bp):
CGTGTTCTGGAAATCATGAGATGATCTCAGTTTTTTAGAGGCTTAAAATATCCTGTCCTAACATG
CTGGATGTGGTATTTAATTCCTTTGAAACGAGTGAATCTTAAAATCCAACATGAGTTGTTTCG
Found at i:12280091 original size:177 final size:177
Alignment explanation
Indices: 12279782--12280796 Score: 1314
Period size: 177 Copynumber: 5.7 Consensus size: 177
12279772 GCGACATCGG
* * *
12279782 TAAAAATTACAAATCTTATCTCCATGTATCGGTTATGAAGCAGATCGAAAATGGCGAGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* *
12279847 TCCATGTATCGGCTATGGAGCAAATTTTAGTCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
*
12279912 AGGCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGAC
131 AGGCTCAATATGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
* * * * *
12279959 CAAAAATTACATATCTTATCTCCATGTATTGGCTATGGAGAAGATCGAAAATGGCAAGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* * ** * *
12280024 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGAAGGAAG-AGAG
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAG-TTGCAGTGGAG
* * * *
12280088 CAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
130 CAGGCTCAATATGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
* * * *
12280136 TGAAAATTACATATCTTATCTCCATGTATCGGCTATGGGGCAGATCGAAAATGGCAAGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
*
12280201 TCCATGTATCCGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
* * *
12280266 AGGCTCAATATGCAAGTATTATCTTCTTGAAGTTGCAGAAAGCAGAC
131 AGGCTCAATATGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
* * * ** * * *
12280313 TAAAAATAATAGATCTTATTTCCATGTATTAGTTATGGAGTAGATCGAAAATGGCGTGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* * * * * *
12280378 TCCATGTATCGACTATGGAGCAGATTTTAGCCACCAACCTTATCTCTGTGAGGTAGCAAG-AGAG
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGC-AGTGGAG
* * * ** *
12280442 CAGGTTGAAGATATAAGTCTTATCTTCCTGAAGTTGAAGGAAGCAGAC
130 CAGGCTCAATATGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
* * * * *
12280490 TGAAATTTACAGATCTTATCTCCATGTATTGGCTATGGGGTAGATCGAAAATGGCGAGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* * *
12280555 TCCATGTATCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATTTCTCTGAAGTTGCAGTGGAGC
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
* * * * *
12280620 AAGCTCAATATGCAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAAT
131 AGGCTCAATATGCAAGTCTTATCTTCCTGAAGTTGC-AGGAAGCAGAC
* * * * *
12280668 TGAAAATAACAGATCTTATTTCCACGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* * ** * * * *
12280733 TCCATGTATCGGTTATGGAGTAGATTTTAGCCACTGGCTTTGTCTCCCTGAAGTTACAGTGGAG
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAG
12280797 TAGGTTGAAG
Statistics
Matches: 718, Mismatches: 115, Indels: 9
0.85 0.14 0.01
Matches are distributed among these distances:
176 5 0.01
177 589 0.82
178 124 0.17
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (177 bp):
TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
AGGCTCAATATGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
Found at i:12280441 original size:354 final size:354
Alignment explanation
Indices: 12279784--12280766 Score: 1534
Period size: 354 Copynumber: 2.8 Consensus size: 354
12279774 GACATCGGTA
* **
12279784 AAAATTACAAATCTTATCTCCATGTATCGGTTATGAAGCAGATCGAAAATGGCGAGTCTTATCTC
1 AAAATTACAAATCTTATCTCCATGTATCGGCTATGGGGCAGATCGAAAATGGCGAGTCTTATCTC
* *
12279849 CATGTATCGGCTATGGAGCAAATTTTAGTCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGCAG
66 CATGTATCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGCAG
* * * *
12279914 GCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACCAAAAATTACATATCTTATC
131 GCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTAAAAATAACAGATCTTATT
*
12279979 TCCATGTATTGGCTATGGAGAAGATCGAAAATGGCAAGTCTTATCTCCATGTATCGGCTATGGAG
196 TCCATGTATTGGCTATGGAGAAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAG
* * *
12280044 CAGATTTTAGCCACTAGCCTTATCTCTCTGAGGAAGGAAGAGAGCAGGTTGAAGATACAAGTCTT
261 CAGATTTTAGCCACCAACCTTATCTCTCTGAGGAAGCAAGAGAGCAGGTTGAAGATACAAGTCTT
*
12280109 ATCTTCCTGAAGTTGCAGGAAGCAGACTG
326 ATCTTCCTGAAGTTGAAGGAAGCAGACTG
* *
12280138 AAAATTACATATCTTATCTCCATGTATCGGCTATGGGGCAGATCGAAAATGGCAAGTCTTATCTC
1 AAAATTACAAATCTTATCTCCATGTATCGGCTATGGGGCAGATCGAAAATGGCGAGTCTTATCTC
* *
12280203 CATGTATCCGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGCAG
66 CATGTATCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGCAG
* * *
12280268 GCTCAATATGCAAGTATTATCTTCTTGAAGTTGCAGAAAGCAGACTAAAAATAATAGATCTTATT
131 GCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTAAAAATAACAGATCTTATT
* * * * *
12280333 TCCATGTATTAGTTATGGAGTAGATCGAAAATGGCGTGTCTTATCTCCATGTATCGACTATGGAG
196 TCCATGTATTGGCTATGGAGAAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAG
* * *
12280398 CAGATTTTAGCCACCAACCTTATCTCTGTGAGGTAGCAAGAGAGCAGGTTGAAGATATAAGTCTT
261 CAGATTTTAGCCACCAACCTTATCTCTCTGAGGAAGCAAGAGAGCAGGTTGAAGATACAAGTCTT
12280463 ATCTTCCTGAAGTTGAAGGAAGCAGACTG
326 ATCTTCCTGAAGTTGAAGGAAGCAGACTG
* * * *
12280492 AAATTTACAGATCTTATCTCCATGTATTGGCTATGGGGTAGATCGAAAATGGCGAGTCTTATCTC
1 AAAATTACAAATCTTATCTCCATGTATCGGCTATGGGGCAGATCGAAAATGGCGAGTCTTATCTC
* *
12280557 CATGTATCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATTTCTCTGAAGTTGCAGTGGAGCAA
66 CATGTATCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGCAG
* * * * * *
12280622 GCTCAATATGCAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAATTGAAAATAACAGATCTTAT
131 GCTCAATATGCAAGTCTTATCTTCTTGAAGTTGC-AGGAAGCAGACTAAAAATAACAGATCTTAT
* * * * *
12280687 TTCCACGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATCGGTTATGGA
195 TTCCATGTATTGGCTATGGAGAAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGA
*
12280752 GTAGATTTTAGCCAC
260 GCAGATTTTAGCCAC
12280767 TGGCTTTGTC
Statistics
Matches: 572, Mismatches: 56, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
354 477 0.83
355 95 0.17
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (354 bp):
AAAATTACAAATCTTATCTCCATGTATCGGCTATGGGGCAGATCGAAAATGGCGAGTCTTATCTC
CATGTATCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGCAG
GCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTAAAAATAACAGATCTTATT
TCCATGTATTGGCTATGGAGAAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAG
CAGATTTTAGCCACCAACCTTATCTCTCTGAGGAAGCAAGAGAGCAGGTTGAAGATACAAGTCTT
ATCTTCCTGAAGTTGAAGGAAGCAGACTG
Found at i:12282319 original size:29 final size:27
Alignment explanation
Indices: 12282286--12282353 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 27
12282276 TTAACTTCCT
12282286 TTTATTTTATGTAAATATTCTCTCTTAAA
1 TTTATTTTATGTAAATATTCT-T-TTAAA
* * *
12282315 TTTATTATATATATATATTCTTTTAAA
1 TTTATTTTATGTAAATATTCTTTTAAA
12282342 TTTA-TTTATGTA
1 TTTATTTTATGTA
12282354 TAATTTGGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 6 0.18
27 9 0.26
28 1 0.03
29 18 0.53
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (27 bp):
TTTATTTTATGTAAATATTCTTTTAAA
Found at i:12282322 original size:27 final size:28
Alignment explanation
Indices: 12282286--12282355 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 28
12282276 TTAACTTCCT
12282286 TTTATTTTATGTA-A-ATATTCTCTCTTAAA
1 TTTA-TTTATGTATATATATTCT-T-TTAAA
*
12282315 TTTA-TTATATATATATATTCTTTTAAA
1 TTTATTTATGTATATATATTCTTTTAAA
12282342 TTTATTTATGTATA
1 TTTATTTATGTATA
12282356 ATTTGGTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
27 15 0.42
28 10 0.28
29 11 0.31
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.59
Consensus pattern (28 bp):
TTTATTTATGTATATATATTCTTTTAAA
Found at i:12283120 original size:127 final size:128
Alignment explanation
Indices: 12282973--12283212 Score: 401
Period size: 128 Copynumber: 1.9 Consensus size: 128
12282963 ATTTTCGTCT
* *
12282973 CGTGTTTTGGAAATCATGAGGTGATCTCAG-TTTTTGGAGGCTTAAAATATCGTGTCCTAACGTG
1 CGTGTTTTGGAAATCATGAGGTGATCTCAGTTTTTTGCAGGCTTAAAATATCATGTCCTAACGTG
* *
12283037 CTGGATGTGCTATTTTATTCCTTTGGAACGAGTGAATCGTAAAATCCAACTTGAGTTGTTTCA
66 CTGGATGTGCTATTTAATTCCTTTGGAACGAGCGAATCGTAAAATCCAACTTGAGTTGTTTCA
* *
12283100 CGTGTTTTGGGAATCATGAGGTGATCTCAGTTTTTTGCAGGTTTAAAATATCATGTCCTAACGTG
1 CGTGTTTTGGAAATCATGAGGTGATCTCAGTTTTTTGCAGGCTTAAAATATCATGTCCTAACGTG
* *
12283165 CTGGATGTGGTATTTAATTCCTTTGGAACGAGCGAATCTTAAAATCCA
66 CTGGATGTGCTATTTAATTCCTTTGGAACGAGCGAATCGTAAAATCCA
12283213 TCACGAGTTG
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
127 29 0.28
128 75 0.72
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (128 bp):
CGTGTTTTGGAAATCATGAGGTGATCTCAGTTTTTTGCAGGCTTAAAATATCATGTCCTAACGTG
CTGGATGTGCTATTTAATTCCTTTGGAACGAGCGAATCGTAAAATCCAACTTGAGTTGTTTCA
Found at i:12288990 original size:118 final size:118
Alignment explanation
Indices: 12288782--12289028 Score: 458
Period size: 118 Copynumber: 2.1 Consensus size: 118
12288772 TCCAAAAAAT
12288782 TAATTAGTACATTTTCCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
1 TAATTAGTACATTTTCCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
*
12288847 GTCCAAAAAATTAGAGTCAACATCTTAAAAAATGGAAAAAATTAATTTTATTG
66 GTCCAAAAAATTAGAGTCAACATCTTAAAAAACGGAAAAAATTAATTTTATTG
12288900 TAATTAGTACATTTTCCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
1 TAATTAGTACATTTTCCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
* *
12288965 GTCCAAAAAATTAGAGTCAACATCTTAAAAAACGGGAAAAATTAATTTTGTTG
66 GTCCAAAAAATTAGAGTCAACATCTTAAAAAACGGAAAAAATTAATTTTATTG
*
12289018 TAATTAATACA
1 TAATTAGTACA
12289029 ATAAATAAGC
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 125 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (118 bp):
TAATTAGTACATTTTCCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
GTCCAAAAAATTAGAGTCAACATCTTAAAAAACGGAAAAAATTAATTTTATTG
Found at i:12293666 original size:3 final size:3
Alignment explanation
Indices: 12293660--12293737 Score: 50
Period size: 3 Copynumber: 25.7 Consensus size: 3
12293650 CTTATATCTT
* * * * *
12293660 TAA TAA TAA TCA TAA TAA TAA TAC TTA TAA TATT TAA TAA TCA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* * * *
12293705 CAA TAA TAA TAC TTA TAA TATT TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA
12293738 CAATAGTAAA
Statistics
Matches: 55, Mismatches: 17, Indels: 6
0.71 0.22 0.08
Matches are distributed among these distances:
2 1 0.02
3 50 0.91
4 4 0.07
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:12293682 original size:33 final size:33
Alignment explanation
Indices: 12293643--12293742 Score: 157
Period size: 33 Copynumber: 3.0 Consensus size: 33
12293633 TATGTTGAAA
* *
12293643 AATAATACTTAT-ATCTTTAATAATAATCATAAT
1 AATAATACTTATAATATTTAATAATAAT-ACAAT
*
12293676 AATAATACTTATAATATTTAATAATCATACAAT
1 AATAATACTTATAATATTTAATAATAATACAAT
12293709 AATAATACTTATAATATTTAATAATAATACAAT
1 AATAATACTTATAATATTTAATAATAATACAAT
12293742 A
1 A
12293743 GTAAAAATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
33 49 0.79
34 13 0.21
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (33 bp):
AATAATACTTATAATATTTAATAATAATACAAT
Found at i:12293711 original size:11 final size:11
Alignment explanation
Indices: 12293661--12293742 Score: 51
Period size: 11 Copynumber: 7.4 Consensus size: 11
12293651 TTATATCTTT
*
12293661 AATAATAATCAT
1 AATAATAAT-AC
12293673 AATAATAATAC
1 AATAATAATAC
* **
12293684 TTATAAT-ATTT
1 -AATAATAATAC
*
12293695 AATAATCATAC
1 AATAATAATAC
12293706 AATAATAATAC
1 AATAATAATAC
* **
12293717 TTATAAT-ATTT
1 -AATAATAATAC
12293728 AATAATAATAC
1 AATAATAATAC
12293739 AATA
1 AATA
12293743 GTAAAAATAT
Statistics
Matches: 52, Mismatches: 14, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
10 10 0.19
11 23 0.44
12 19 0.37
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (11 bp):
AATAATAATAC
Found at i:12295667 original size:22 final size:21
Alignment explanation
Indices: 12295625--12295664 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12295615 ATAAATAATT
*
12295625 TATAAAAAATTTAAACTAACA
1 TATAAAAAATTTAAAATAACA
*
12295646 TATAAAAAGTTTAAAATAA
1 TATAAAAAATTTAAAATAA
12295665 ACAATATGAG
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:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (21 bp):
TATAAAAAATTTAAAATAACA
Found at i:12295872 original size:21 final size:18
Alignment explanation
Indices: 12295841--12295879 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 18
12295831 TAAAATAGAT
12295841 AATATATAAAATAGTTTAA
1 AATATATAAAATA-TTTAA
12295860 AATATATGAAAAATATTTAA
1 AATATAT--AAAATATTTAA
12295880 TAAATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
AATATATAAAATATTTAA
Found at i:12297188 original size:12 final size:12
Alignment explanation
Indices: 12297171--12297207 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
12297161 TGTAGAACTT
12297171 TTTTATTTTTGG
1 TTTTATTTTTGG
12297183 TTTTA-TTTT-G
1 TTTTATTTTTGG
12297193 TTTTATTTTTTGG
1 TTTTA-TTTTTGG
12297206 TT
1 TT
12297208 GTTGGCCTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 6 0.27
11 4 0.18
12 9 0.41
13 3 0.14
ACGTcount: A:0.08, C:0.00, G:0.14, T:0.78
Consensus pattern (12 bp):
TTTTATTTTTGG
Found at i:12297662 original size:178 final size:179
Alignment explanation
Indices: 12297415--12297741 Score: 512
Period size: 178 Copynumber: 1.8 Consensus size: 179
12297405 ATAGTTTTAG
* * * * *
12297415 GGAGAAGAGATTTGTAGCTTCGATATACTCCGTTGGAACTTAAAGGAGACAAGAATTGGTAATTT
1 GGAGAAGAGATTCGTAGCTTCGATATACTCCATTGAAACTCAAAGGAGACAAGAATTGGTAACTT
12297480 CAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCGTATTTTTATCCTA-CCTACTACAAC
66 CAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCGTATTTTTATCCTATCCTACTACAAC
*
12297544 TTCAGAGAGATAAAGATTGCAATTTCGGTTTACTCCAATGTATTTTCAA
131 TTCAGAAAGATAAAGATTGCAATTTCGGTTTACTCCAATGTATTTTCAA
* * * *
12297593 GGAGAAGAGATTCGTAGCTTCGTTCTACTCTATTGAAACTCAAAGGAGATAAGAATTGGTAACTT
1 GGAGAAGAGATTCGTAGCTTCGATATACTCCATTGAAACTCAAAGGAGACAAGAATTGGTAACTT
* * * *
12297658 CAACCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTATTCTACTGCAAC
66 CAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCGTATTTTTATCCTATCCTACTACAAC
*
12297723 TTCAGAAAGATAAGGATTG
131 TTCAGAAAGATAAAGATTG
12297742 TGGCTTCGAT
Statistics
Matches: 133, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
178 107 0.80
179 26 0.20
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (179 bp):
GGAGAAGAGATTCGTAGCTTCGATATACTCCATTGAAACTCAAAGGAGACAAGAATTGGTAACTT
CAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCGTATTTTTATCCTATCCTACTACAAC
TTCAGAAAGATAAAGATTGCAATTTCGGTTTACTCCAATGTATTTTCAA
Found at i:12297688 original size:45 final size:45
Alignment explanation
Indices: 12297637--12297869 Score: 166
Period size: 44 Copynumber: 5.2 Consensus size: 45
12297627 GAAACTCAAA
*
12297637 GGAGATAAGAATTGGTAACTTCAACCTGCTCTACTGCAACTTCAG
1 GGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAG
** ** * * ** *
12297682 GGAGATAAGGTTTGTGTATTTTTATCCTATTCTACTGCAACTTCAG
1 GGAGATAAGAATTG-GTAACTTCAACCTGCTCCACTGCAACTTCAG
** * ** * *
12297728 AAAGATAAGGATT-GTGGCTTCGATCTGCTCCACTGCAACTTCAG
1 GGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAG
* *** * **
12297772 GGAAATAA-AATCCACTATCTTCAGTCTGCTCCACTGCAACTTCAG
1 GGAGATAAGAAT-TGGTAACTTCAACCTGCTCCACTGCAACTTCAG
* * * * *
12297817 AGAGATAAGACTTGCT-ACTTCAACCTGCTCCACTGCTACTTCAT
1 GGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAG
12297861 GGAGATAAG
1 GGAGATAAG
12297870 GTTTGCTATG
Statistics
Matches: 142, Mismatches: 42, Indels: 9
0.74 0.22 0.05
Matches are distributed among these distances:
43 2 0.01
44 57 0.40
45 46 0.32
46 37 0.26
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (45 bp):
GGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAG
Found at i:12297907 original size:41 final size:43
Alignment explanation
Indices: 12297715--12297911 Score: 145
Period size: 44 Copynumber: 4.5 Consensus size: 43
12297705 ATCCTATTCT
* * *
12297715 ACTGCAACTTCAGAAAGATAAGGA-TTG-TGGCTTCGATCTGCTCC
1 ACTGCAACTTCAGAGAGATAA-GACTTGCT-AC-TCAATCTGCTCC
* * * ** *
12297759 ACTGCAACTTCAGGGAAATAA-AATCCACTATCTTCAGTCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGACT-TGCTA-C-TCAATCTGCTCC
*
12297804 ACTGCAACTTCAGAGAGATAAGACTTGCTACTTCAACCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGACTTGCTAC-TCAATCTGCTCC
* ** *
12297848 ACTGCTACTTCATG-GAGATAAGGTTTGCTA-T-GATCTGCTCC
1 ACTGCAACTTCA-GAGAGATAAGACTTGCTACTCAATCTGCTCC
*
12297889 ACTGCAACTTTAGAGAGATAAGA
1 ACTGCAACTTCAGAGAGATAAGA
12297912 TCTGTTTATT
Statistics
Matches: 123, Mismatches: 23, Indels: 17
0.75 0.14 0.10
Matches are distributed among these distances:
40 1 0.01
41 26 0.21
42 2 0.02
43 1 0.01
44 55 0.45
45 36 0.29
46 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (43 bp):
ACTGCAACTTCAGAGAGATAAGACTTGCTACTCAATCTGCTCC
Found at i:12298924 original size:65 final size:65
Alignment explanation
Indices: 12298854--12298978 Score: 178
Period size: 65 Copynumber: 1.9 Consensus size: 65
12298844 AACAATGGAC
* *
12298854 AAGAAGGAAATTGATTAGGAGCATAGCTCGAAACGAATAAATTAATCAAAGATAGCAAATGGAAT
1 AAGAAGGAAATTGATTAGGAGCATAGCTCGAAACGAATAAAGTAATCAAAAATAGCAAATGGAAT
* * * * * *
12298919 AAGAAGGAAATTTATTGGGAGCATATCTTGAAACGAATAAAGTACTCAAAAATAGTAAAT
1 AAGAAGGAAATTGATTAGGAGCATAGCTCGAAACGAATAAAGTAATCAAAAATAGCAAAT
12298979 TCAATATGGG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 52 1.00
ACGTcount: A:0.49, C:0.09, G:0.20, T:0.22
Consensus pattern (65 bp):
AAGAAGGAAATTGATTAGGAGCATAGCTCGAAACGAATAAAGTAATCAAAAATAGCAAATGGAAT
Found at i:12299275 original size:15 final size:16
Alignment explanation
Indices: 12299255--12299290 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
12299245 TGGCCTCTCC
*
12299255 TTTTTCTT-TGTTCTT
1 TTTTTCTTCTCTTCTT
12299270 TTTTTCTTCTCTTCTT
1 TTTTTCTTCTCTTCTT
12299286 TTTTT
1 TTTTT
12299291 GGAAAACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTTCTTCTCTTCTT
Found at i:12302764 original size:19 final size:20
Alignment explanation
Indices: 12302740--12302784 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
12302730 TTGTGACATT
*
12302740 CAATGCATATG-ATGAAATG
1 CAATGCAGATGCATGAAATG
*
12302759 CAATGCAGATGCGTGAAATG
1 CAATGCAGATGCATGAAATG
12302779 -AATGCA
1 CAATGCA
12302785 AAAAGAGACG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.22
Consensus pattern (20 bp):
CAATGCAGATGCATGAAATG
Found at i:12304774 original size:29 final size:28
Alignment explanation
Indices: 12304741--12304800 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
12304731 AAAAAGTTTG
* *
12304741 AAATAAACAATATGTGAAAAATAAATTTA
1 AAATAAACAATATAT-AAAAATAAATATA
* * *
12304770 AAATAGAGAATATATAAAAATATATATA
1 AAATAAACAATATATAAAAATAAATATA
12304798 AAA
1 AAA
12304801 CGGTTCAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 14 0.54
29 12 0.46
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.27
Consensus pattern (28 bp):
AAATAAACAATATATAAAAATAAATATA
Done.