Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 33 of 356
Found at i:11136874 original size:230 final size:223
Alignment explanation
Indices: 11135825--11137129 Score: 1901
Period size: 227 Copynumber: 6.0 Consensus size: 223
11135815 TTGAATTTTG
11135825 AAACAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AAACAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
11135890 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
66 TTTTG-AAACAGAAATTGAAATTACCTCAACGTGTC-TGAGGCTCAACTCATTTCTCGCAATATG
11135955 AGTTGAATTTTGAAAACAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
129 AGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
11136019 CAATATGAGTTGAATTTTG----AAA--G-
194 CAATATGAGTTGAATTTTGAAAAAAATTGA
11136042 ---CAGAAATTGAAAATACCTC-ACGTGTC-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
11136102 ATTTTGAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 ATTTTGAAACAGAAATTGAAATTACCTCAACGTGTC-TGAGGCTCAACTCATTTCTCGCAATATG
11136167 AGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC-CATTTC-CG
129 AGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
***** ***
11136230 CAATATGA-TTGAAAAAAAAAAAAAAAAAAAAAAA
194 CAATATGAGTTG-----AATTTTGAAAAAAATTGA
* *
11136264 AAAAAAAAATTGAAAATACCTC-ACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
11136328 ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
65 ATTTTG-AAACAGAAATTGAAATTACCTCAACGTGTC-TGAGGCTCAACTCATTTCTCGCAATAT
11136393 GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
128 GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
11136458 GCAATATGAGTTG-ATTTTG---AAAA--G-
193 GCAATATGAGTTGAATTTTGAAAAAAATTGA
11136482 ---CAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AAACAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
11136544 TTTTGAAACAGAAATTGAAA-TACCTC-ACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTTTGAAACAGAAATTGAAATTACCTCAACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAG
11136607 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
131 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
11136672 ATATGAGTTGAATTTTGAAACATGAATATTGA
196 ATATGAGTTGAATTTTGAAA-A--AA-ATTGA
11136704 AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
11136769 ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
65 ATTTTG-AAACAGAAATTGAAATTACCTCAACGTGTC-TGAGGCTCAACTCATTTCTCGCAATAT
11136834 GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
128 GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
11136899 GCAATATGAGTTGAATTTTG---AAAA--G-
193 GCAATATGAGTTGAATTTTGAAAAAAATTGA
* *
11136924 ---CAGAAATTGAAATA-CTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT-AGTTG-A
1 AAACAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
*
11136983 TTTTGAAA-A-AAATT-AAATTA-CTCAGCGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTTTGAAACAGAAATTGAAATTACCTCAACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAG
* * * * * ** *
11137044 TTGATTTTTTAACAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGC
131 TTGAATTTTGAA-AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
*
11137109 AATATGAATTG-ATTTTGAAAA
195 AATATGAGTTGAATTTTGAAAA
11137130 CATAAATTAA
Statistics
Matches: 1012, Mismatches: 30, Indels: 99
0.89 0.03 0.09
Matches are distributed among these distances:
207 46 0.05
208 66 0.07
209 6 0.01
210 9 0.01
211 116 0.11
212 108 0.11
213 78 0.08
214 45 0.04
215 103 0.10
216 6 0.01
217 9 0.01
218 2 0.00
219 4 0.00
221 6 0.01
223 1 0.00
224 3 0.00
225 33 0.03
226 99 0.10
227 128 0.13
228 12 0.01
229 17 0.02
230 115 0.11
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (223 bp):
AAACAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAAACAGAAATTGAAATTACCTCAACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
ATATGAGTTGAATTTTGAAAAAAATTGA
Found at i:11144944 original size:28 final size:28
Alignment explanation
Indices: 11144908--11144971 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
11144898 CTTCTATTGC
*
11144908 TTTGAGTCTTTCCTCTAGACTCCTATAT
1 TTTGCGTCTTTCCTCTAGACTCCTATAT
11144936 TTTGCGTCTTTCCTCTAGACTCCTATAT
1 TTTGCGTCTTTCCTCTAGACTCCTATAT
11144964 TTTGCGTC
1 TTTGCGTC
11144972 ATGGTTATCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.14, C:0.27, G:0.12, T:0.47
Consensus pattern (28 bp):
TTTGCGTCTTTCCTCTAGACTCCTATAT
Found at i:11145566 original size:12 final size:12
Alignment explanation
Indices: 11145549--11145579 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11145539 TATGCAATGA
*
11145549 ATGAATTGATGC
1 ATGAATGGATGC
11145561 ATGAATGGATGC
1 ATGAATGGATGC
11145573 ATGAATG
1 ATGAATG
11145580 TCAAATGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.29
Consensus pattern (12 bp):
ATGAATGGATGC
Found at i:11150360 original size:20 final size:19
Alignment explanation
Indices: 11150337--11150382 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
11150327 AGGAAGAGGA
*
11150337 GGGAGAGAAAAGAGGGAGCG
1 GGGAGAGAAAAGAGGG-GAG
* *
11150357 GGGAAAGAAGAGAGGGGAG
1 GGGAGAGAAAAGAGGGGAG
11150376 GGGAGAG
1 GGGAGAG
11150383 CTCCGGCCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.39, C:0.02, G:0.59, T:0.00
Consensus pattern (19 bp):
GGGAGAGAAAAGAGGGGAG
Found at i:11164006 original size:40 final size:38
Alignment explanation
Indices: 11163951--11164122 Score: 182
Period size: 39 Copynumber: 4.4 Consensus size: 38
11163941 ATTTGATGTG
* **
11163951 TATCCGGGCTTAAAGACCCGCAGGTTATATGCTGGAATTA
1 TATCCGGACTT-AAGACCCGCAGGTT-CGTGCTGGAATTA
* * *
11163991 TATCCGGGCTTAAAGACCCGCAAGCTTCGTGCTGGAATTG
1 TATCCGGACTT-AAGACCCGC-AGGTTCGTGCTGGAATTA
** *
11164031 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTT
1 TATCCGGACTTAAGACCCGCAGG-TTCGTGCTGGAATTA
* * *
11164070 TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGTACTA
1 TATCCGGACTTAAGACCCGCAGG-TTCGTGCTGGAATTA
11164109 TATCCGGACTTAAG
1 TATCCGGACTTAAG
11164123 GTTCGTAGGC
Statistics
Matches: 117, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
38 2 0.02
39 70 0.60
40 41 0.35
41 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (38 bp):
TATCCGGACTTAAGACCCGCAGGTTCGTGCTGGAATTA
Found at i:11164062 original size:39 final size:39
Alignment explanation
Indices: 11163980--11164174 Score: 219
Period size: 39 Copynumber: 4.9 Consensus size: 39
11163970 GCAGGTTATA
* ** *
11163980 TGCTGGAATTATATCCGGGCTTAAAGACCCGCAAGCTTCG
1 TGCTGGAATTATATCCGGACTT-AAGGTCCGCAGGCTTCG
*
11164020 TGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCG
1 TGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTTCG
* *
11164059 TGCTGGAATTTTATCCGGACTTAAGATCCGCAGGCTTCG
1 TGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTTCG
* * * *
11164098 TGCTGGTACTATATCCGGACTTAAGGTTCGTAGGCTTCG
1 TGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTTCG
* * * * * *
11164137 TACTGGTACTATATCCGGGCTTAAAGTCCCGTAGGCTT
1 TGCTGGAATTATATCCGGACTTAAGGT-CCGCAGGCTT
11164175 TGTGTTGGTG
Statistics
Matches: 137, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
39 108 0.79
40 29 0.21
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.30
Consensus pattern (39 bp):
TGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTTCG
Found at i:11164120 original size:78 final size:78
Alignment explanation
Indices: 11163980--11164160 Score: 245
Period size: 78 Copynumber: 2.3 Consensus size: 78
11163970 GCAGGTTATA
* *
11163980 TGCTGGAATTATATCCGGGCTTAAAGACCCGCAAGCTTCGTGCTGGAATTGTATCCGGACTTAAG
1 TGCTGGAATTATATCCGGGCTT-AAGACCCGCAAGCTTCGTGCTGGAACTATATCCGGACTTAAG
11164045 GTCCGCAGGCTTCG
65 GTCCGCAGGCTTCG
* * * * *
11164059 TGCTGGAATTTTATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGTACTATATCCGGACTTAAGG
1 TGCTGGAATTATATCCGGGCTTAAGACCCGCAAGCTTCGTGCTGGAACTATATCCGGACTTAAGG
* *
11164124 TTCGTAGGCTTCG
66 TCCGCAGGCTTCG
* * *
11164137 TACTGGTACTATATCCGGGCTTAA
1 TGCTGGAATTATATCCGGGCTTAA
11164161 AGTCCCGTAG
Statistics
Matches: 88, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
78 68 0.77
79 20 0.23
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.30
Consensus pattern (78 bp):
TGCTGGAATTATATCCGGGCTTAAGACCCGCAAGCTTCGTGCTGGAACTATATCCGGACTTAAGG
TCCGCAGGCTTCG
Found at i:11166931 original size:21 final size:21
Alignment explanation
Indices: 11166907--11166961 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
11166897 GGGTATCATC
*
11166907 TTTTTAGTGAGTTAGGGTAGA
1 TTTTTAATGAGTTAGGGTAGA
11166928 TTTTTAATGAGTTAGGGTAG-
1 TTTTTAATGAGTTAGGGTAGA
*
11166948 TTTGTAACTGAGTT
1 TTTTTAA-TGAGTT
11166962 GGGCAGCTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 6 0.19
21 25 0.81
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.45
Consensus pattern (21 bp):
TTTTTAATGAGTTAGGGTAGA
Found at i:11167652 original size:2 final size:2
Alignment explanation
Indices: 11167645--11167701 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
11167635 CAACAAACAA
*
11167645 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC GC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
11167687 AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC A
11167702 TACCCATAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.49, G:0.02, T:0.00
Consensus pattern (2 bp):
AC
Found at i:11167836 original size:79 final size:78
Alignment explanation
Indices: 11167707--11167970 Score: 275
Period size: 79 Copynumber: 3.4 Consensus size: 78
11167697 ACACATACCC
* * *
11167707 ATAAAAAATAGTCACTGCATGCAAATTAAAAATAGTCAATAGCATGTGACCATCCCCACCAGCAA
1 ATAAAAAA-AGTCACTGCATGCATATTAAAAATAGTCAACAGCATGTGACCATCCCCACCAACAA
*
11167772 TCATACACACACAT
65 TCATACACACACAA
* * * * *
11167786 CTAAAAAACAGTCACTGCATGCATATTAAAAATAGTCAACAACATATGACCATCCCCATCAATAA
1 ATAAAAAA-AGTCACTGCATGCATATTAAAAATAGTCAACAGCATGTGACCATCCCCACCAACAA
*
11167851 TCATACACAGACAA
65 TCATACACACACAA
* * * * * *
11167865 ATTAAAAAA--CACTGTATGTATATTGAAAAACAGTCAACAGCATGTGACCAACCCTACCAACAA
1 ATAAAAAAAGTCACTGCATGCATATT-AAAAATAGTCAACAGCATGTGACCATCCCCACCAACAA
* * *
11167928 TCATACACAAATAG
65 TCATACACACACAA
* * *
11167942 ATTAGAAAA-T-ATTGCATGCATATTAAAAA
1 ATAAAAAAAGTCACTGCATGCATATTAAAAA
11167971 ACCCTCACTA
Statistics
Matches: 154, Mismatches: 29, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
76 18 0.12
77 61 0.40
78 1 0.01
79 74 0.48
ACGTcount: A:0.47, C:0.22, G:0.09, T:0.22
Consensus pattern (78 bp):
ATAAAAAAAGTCACTGCATGCATATTAAAAATAGTCAACAGCATGTGACCATCCCCACCAACAAT
CATACACACACAA
Found at i:11170195 original size:6 final size:6
Alignment explanation
Indices: 11170179--11170231 Score: 88
Period size: 6 Copynumber: 8.7 Consensus size: 6
11170169 AAATAACCCT
*
11170179 AAATCCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATTA AAATCA
1 AAAT-CA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
11170228 AAAT
1 AAAT
11170232 TGAAATCGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
6 40 0.91
7 4 0.09
ACGTcount: A:0.66, C:0.15, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATCA
Found at i:11170267 original size:16 final size:17
Alignment explanation
Indices: 11170247--11170285 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
11170237 TCGAACTAAC
*
11170247 CCAAAATAACCTTAAAT
1 CCAAAATAACCCTAAAT
11170264 -CAAAATAACCCTAAAT
1 CCAAAATAACCCTAAAT
11170280 CCAAAA
1 CCAAAA
11170286 AAAGAAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.56, C:0.26, G:0.00, T:0.18
Consensus pattern (17 bp):
CCAAAATAACCCTAAAT
Found at i:11185880 original size:13 final size:13
Alignment explanation
Indices: 11185848--11185889 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
11185838 TTGTTTTTGG
11185848 AAAGTGC-TGTGA
1 AAAGTGCTTGTGA
*
11185860 AGATGTGCTTGTGA
1 A-AAGTGCTTGTGA
*
11185874 AAAGTGCTTTTGA
1 AAAGTGCTTGTGA
11185887 AAA
1 AAA
11185890 ACTTGGTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 1 0.04
13 18 0.72
14 6 0.24
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (13 bp):
AAAGTGCTTGTGA
Found at i:11202859 original size:54 final size:55
Alignment explanation
Indices: 11202801--11202913 Score: 210
Period size: 55 Copynumber: 2.1 Consensus size: 55
11202791 TTTTTCTGTT
*
11202801 AAAAAA-TAGAGGTCCTGATGGGTTTCTTCTAGTCATAAACTATAAAAACCTGCC
1 AAAAAAGTAGAGGTCCTGATGCGTTTCTTCTAGTCATAAACTATAAAAACCTGCC
11202855 AAAAAAGTAGAGGTCCTGATGCGTTTCTTCTAGTCATAAACTATAAAAACCTGCC
1 AAAAAAGTAGAGGTCCTGATGCGTTTCTTCTAGTCATAAACTATAAAAACCTGCC
11202910 AAAA
1 AAAA
11202914 GCAAATAAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
54 6 0.11
55 51 0.89
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (55 bp):
AAAAAAGTAGAGGTCCTGATGCGTTTCTTCTAGTCATAAACTATAAAAACCTGCC
Found at i:11204390 original size:18 final size:18
Alignment explanation
Indices: 11204345--11204403 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
11204335 GGTTTGTCAG
* * *
11204345 CAGTTGCAGTCTGTTATC
1 CAGTAGCAGTCAGTTATT
* *
11204363 CAATAACAGTCAGTTATT
1 CAGTAGCAGTCAGTTATT
* *
11204381 CAGTAGCAGTTAATTATT
1 CAGTAGCAGTCAGTTATT
11204399 CAGTA
1 CAGTA
11204404 CCTTTATTTA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (18 bp):
CAGTAGCAGTCAGTTATT
Found at i:11211937 original size:32 final size:34
Alignment explanation
Indices: 11211896--11211967 Score: 112
Period size: 32 Copynumber: 2.2 Consensus size: 34
11211886 GGTCCAATAT
*
11211896 TGTTTTTAGCTTTTGAATTGAGATTCCATC-A-C
1 TGTTTTTAGCTTCTGAATTGAGATTCCATCAATC
*
11211928 TGTTTTTAGCTTCTGAATTGAGTTTCCATCAATC
1 TGTTTTTAGCTTCTGAATTGAGATTCCATCAATC
11211962 TGTTTT
1 TGTTTT
11211968 ATAATAATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 28 0.78
33 1 0.03
34 7 0.19
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (34 bp):
TGTTTTTAGCTTCTGAATTGAGATTCCATCAATC
Found at i:11213259 original size:22 final size:23
Alignment explanation
Indices: 11213233--11213277 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
11213223 GACTTCCTAA
11213233 CCAAGTT-ATGACTCGATTGAGG
1 CCAAGTTGATGACTCGATTGAGG
*
11213255 CCAAGTTGATGACTCGGTTGAGG
1 CCAAGTTGATGACTCGATTGAGG
11213278 GTGACAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (23 bp):
CCAAGTTGATGACTCGATTGAGG
Found at i:11216656 original size:3 final size:3
Alignment explanation
Indices: 11216644--11216682 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
11216634 TGCACACCAC
11216644 AGA A-A AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
11216683 TGCTTTGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:11219612 original size:17 final size:18
Alignment explanation
Indices: 11219581--11219616 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
11219571 AAAAAATACT
*
11219581 TTTTTATATTTTTAATGA
1 TTTTTATATTATTAATGA
11219599 TTTTTA-ATTATTAATGA
1 TTTTTATATTATTAATGA
11219616 T
1 T
11219617 GGTTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (18 bp):
TTTTTATATTATTAATGA
Found at i:11220650 original size:24 final size:24
Alignment explanation
Indices: 11220629--11220683 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
11220619 TCAATTATTG
11220629 TTAT-AAATATTCAAAAATTTATAA
1 TTATAAAATATT-AAAAATTTATAA
*
11220653 TTATAAAATATTAAAAA-TTAAAA
1 TTATAAAATATTAAAAATTTATAA
11220676 TTATAAAA
1 TTATAAAA
11220684 AAAAACAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 13 0.45
24 9 0.31
25 7 0.24
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
TTATAAAATATTAAAAATTTATAA
Found at i:11230635 original size:5 final size:5
Alignment explanation
Indices: 11230625--11230650 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11230615 TTTTACAGTT
11230625 GGTGA GGTGA GGTGA GGTGA GGTGA G
1 GGTGA GGTGA GGTGA GGTGA GGTGA G
11230651 AAGTAAGAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.62, T:0.19
Consensus pattern (5 bp):
GGTGA
Found at i:11238396 original size:11 final size:11
Alignment explanation
Indices: 11238380--11238404 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11238370 TTTAATAAGA
11238380 TATTTTATTAT
1 TATTTTATTAT
11238391 TATTTTATTAT
1 TATTTTATTAT
11238402 TAT
1 TAT
11238405 ATAAAGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:11240733 original size:46 final size:46
Alignment explanation
Indices: 11240666--11240883 Score: 303
Period size: 46 Copynumber: 4.7 Consensus size: 46
11240656 ATGGCAACCT
* *
11240666 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAA
* * *
11240712 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAA
11240758 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAA
* **
11240804 AAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AA
* * * * *
11240850 ATGAGTAAGACCATAGTTAAAAGACACTATGGCA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCA
11240884 TCACGTCAAA
Statistics
Matches: 158, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 157 0.99
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAA
Found at i:11240990 original size:13 final size:13
Alignment explanation
Indices: 11240972--11241001 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11240962 TCAGATGGCG
11240972 AATGGTTATATGA
1 AATGGTTATATGA
*
11240985 AATGGTTGTATGA
1 AATGGTTATATGA
11240998 AATG
1 AATG
11241002 TTTACAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (13 bp):
AATGGTTATATGA
Found at i:11241189 original size:23 final size:25
Alignment explanation
Indices: 11241144--11241190 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
11241134 AATAAATATA
*
11241144 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
11241169 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
11241191 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:11242212 original size:21 final size:20
Alignment explanation
Indices: 11242152--11242212 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
11242142 AGCTCTTTTG
*
11242152 AGCTTCTATTTAACCCTTAT
1 AGCTTCTGTTTAACCCTTAT
* * * *
11242172 AGGTTTTCGTTCAACTCTTAT
1 AGCTTCT-GTTTAACCCTTAT
11242193 AAGCTTCTGTTTAACCCTTA
1 -AGCTTCTGTTTAACCCTTA
11242213 CGGGTTTCCG
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
20 5 0.17
21 20 0.67
22 5 0.17
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.44
Consensus pattern (20 bp):
AGCTTCTGTTTAACCCTTAT
Found at i:11242243 original size:42 final size:42
Alignment explanation
Indices: 11242096--11242244 Score: 163
Period size: 42 Copynumber: 3.5 Consensus size: 42
11242086 TTTACTTTAT
* * * *
11242096 GTTTAGCTCTCATGAGTTTCAGTTTAACCCTAATGGGTTTCC
1 GTTTAGCTCTTATGAGCTTCTGTTTAACCCTTATGGGTTTCC
* * * * *
11242138 ATTTAGCTCTTTTGAGCTTCTATTTAACCCTTATAGGTTTTC
1 GTTTAGCTCTTATGAGCTTCTGTTTAACCCTTATGGGTTTCC
* * * *
11242180 GTTCAACTCTTATAAGCTTCTGTTTAACCCTTACGGGTTTCC
1 GTTTAGCTCTTATGAGCTTCTGTTTAACCCTTATGGGTTTCC
* *
11242222 GTTTAGCACTTATGTGCTTCTGT
1 GTTTAGCTCTTATGAGCTTCTGT
11242245 ACAACCTTCG
Statistics
Matches: 84, Mismatches: 23, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.44
Consensus pattern (42 bp):
GTTTAGCTCTTATGAGCTTCTGTTTAACCCTTATGGGTTTCC
Found at i:11246282 original size:29 final size:29
Alignment explanation
Indices: 11246243--11246326 Score: 127
Period size: 28 Copynumber: 3.0 Consensus size: 29
11246233 CACTTTGTGC
11246243 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGATGGATTATAT
*
11246272 TATTCTGGTGTG-TTTGGGTGGATTATAT
1 TATTCTGGTGTGTTTTGGATGGATTATAT
* *
11246300 GATACTGGTGTGTTTTGGA-GGATTATA
1 TATTCTGGTGTGTTTTGGATGGATTATA
11246327 CTTGTGTGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
28 33 0.66
29 17 0.34
ACGTcount: A:0.18, C:0.04, G:0.31, T:0.48
Consensus pattern (29 bp):
TATTCTGGTGTGTTTTGGATGGATTATAT
Found at i:11246296 original size:23 final size:23
Alignment explanation
Indices: 11246270--11246367 Score: 63
Period size: 23 Copynumber: 4.0 Consensus size: 23
11246260 GATGGATTAT
11246270 ATTATTCTGGTGTGTTTGGGTGG
1 ATTATTCTGGTGTGTTTGGGTGG
* *
11246293 ATTATATGATACTGGTGTGTTTTGGAGG
1 A-T-TAT--T-CTGGTGTGTTTGGGTGG
* * *
11246321 ATTATACTTGTGTGTTTTGGTTGG
1 ATTATTCTGGTGTG-TTTGGGTGG
* * *
11246345 A-CATTTTGGTGTGTTTGGATGG
1 ATTATTCTGGTGTGTTTGGGTGG
11246367 A
1 A
11246368 ATCCGTGTAT
Statistics
Matches: 57, Mismatches: 12, Indels: 13
0.70 0.15 0.16
Matches are distributed among these distances:
22 9 0.16
23 16 0.28
24 8 0.14
25 3 0.05
26 3 0.05
27 2 0.04
28 16 0.28
ACGTcount: A:0.15, C:0.04, G:0.34, T:0.47
Consensus pattern (23 bp):
ATTATTCTGGTGTGTTTGGGTGG
Found at i:11246561 original size:23 final size:22
Alignment explanation
Indices: 11246531--11246617 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 22
11246521 GCTTTACTGA
11246531 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCAC-TTATGTGTCGTATT
* *
11246554 TCAGGCACATTGTGTGTCGCA--
1 TCAGGCAC-TTATGTGTCGTATT
* **
11246575 GCAGGCACCTCGTGTGTCG--TT
1 TCAGGCA-CTTATGTGTCGTATT
11246596 TCAGGCACTTATGTGTCGTATT
1 TCAGGCACTTATGTGTCGTATT
11246618 CTGATCAGGT
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
20 9 0.18
21 21 0.41
22 3 0.06
23 18 0.35
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.36
Consensus pattern (22 bp):
TCAGGCACTTATGTGTCGTATT
Found at i:11249440 original size:20 final size:21
Alignment explanation
Indices: 11249404--11249451 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
11249394 ATTTTGATAT
*
11249404 ACATGATTTGATATGATATGC
1 ACATGATATGATATGATATGC
11249425 ACATGATATG-TATGATATGC
1 ACATGATATGATATGATATGC
11249445 ACATGAT
1 ACATGAT
11249452 GTATTCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (21 bp):
ACATGATATGATATGATATGC
Found at i:11249536 original size:25 final size:25
Alignment explanation
Indices: 11249502--11249571 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
11249492 GAGGAAGTGC
*
11249502 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
11249527 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
11249552 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
11249572 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:11249584 original size:24 final size:24
Alignment explanation
Indices: 11249501--11249584 Score: 116
Period size: 25 Copynumber: 3.4 Consensus size: 24
11249491 GGAGGAAGTG
*
11249501 CAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAT
11249525 CGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
11249550 CAAAAAGGGCTTTGCCCCAG-TTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
*
11249574 TAAAAGAGGCT
1 CAAAAG-GGCT
11249585 AGGCCTCCAG
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
23 5 0.09
24 9 0.16
25 41 0.75
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:11249595 original size:50 final size:50
Alignment explanation
Indices: 11249502--11249596 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
11249492 GAGGAAGTGC
**
11249502 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
**
11249552 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
11249597 ATATGACAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 24 0.62
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:11250583 original size:39 final size:38
Alignment explanation
Indices: 11250540--11250684 Score: 159
Period size: 38 Copynumber: 3.8 Consensus size: 38
11250530 TACTAGCATG
* *
11250540 AGCCTGCGAGTCCTTAA-CCCGGATATTTTTCCAGCACT-T
1 AGCCTGCG-GACCTTAAGCCCGGAT-TTATTCCAGCA-TAT
* *
11250579 AGCCTGCGGACTTTAAGTCCGGATTTATTCCAGCATAT
1 AGCCTGCGGACCTTAAGCCCGGATTTATTCCAGCATAT
* * *
11250617 AGCCTGCGGACTTTAAGTCCGGATTTATTTCAGCATAT
1 AGCCTGCGGACCTTAAGCCCGGATTTATTCCAGCATAT
* * *
11250655 AGCCTGCGGACTTTAAGTCCAGATTTATTC
1 AGCCTGCGGACCTTAAGCCCGGATTTATTC
11250685 TTTTACTGAG
Statistics
Matches: 97, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
37 1 0.01
38 82 0.85
39 14 0.14
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (38 bp):
AGCCTGCGGACCTTAAGCCCGGATTTATTCCAGCATAT
Found at i:11250620 original size:38 final size:38
Alignment explanation
Indices: 11250558--11250684 Score: 202
Period size: 38 Copynumber: 3.3 Consensus size: 38
11250548 AGTCCTTAAC
*
11250558 CCGGATATTTTTCCAGCACT-TAGCCTGCGGACTTTAAGT
1 CCGGAT-TTATTCCAGCA-TATAGCCTGCGGACTTTAAGT
11250597 CCGGATTTATTCCAGCATATAGCCTGCGGACTTTAAGT
1 CCGGATTTATTCCAGCATATAGCCTGCGGACTTTAAGT
*
11250635 CCGGATTTATTTCAGCATATAGCCTGCGGACTTTAAGT
1 CCGGATTTATTCCAGCATATAGCCTGCGGACTTTAAGT
*
11250673 CCAGATTTATTC
1 CCGGATTTATTC
11250685 TTTTACTGAG
Statistics
Matches: 83, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
37 1 0.01
38 76 0.92
39 6 0.07
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.34
Consensus pattern (38 bp):
CCGGATTTATTCCAGCATATAGCCTGCGGACTTTAAGT
Found at i:11257077 original size:38 final size:38
Alignment explanation
Indices: 11257015--11257099 Score: 118
Period size: 38 Copynumber: 2.2 Consensus size: 38
11257005 GGTCCTTAAC
*
11257015 CCGGATATTTTTCCAGCACTTAGCCTGAGGACTTTAAGT
1 CCGGAT-TTATTCCAGCACTTAGCCTGAGGACTTTAAGT
*
11257054 CCGGATTTATTCCAGCA-TATAGCCTGCGGACTTTAAGT
1 CCGGATTTATTCCAGCACT-TAGCCTGAGGACTTTAAGT
*
11257092 CAGGATTT
1 CCGGATTT
11257100 CTTCTTTTAC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
37 1 0.02
38 35 0.83
39 6 0.14
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (38 bp):
CCGGATTTATTCCAGCACTTAGCCTGAGGACTTTAAGT
Found at i:11266416 original size:29 final size:30
Alignment explanation
Indices: 11266358--11266456 Score: 98
Period size: 30 Copynumber: 3.4 Consensus size: 30
11266348 ATTTTTAAAA
*
11266358 TTTAAAAATTTAAAAAAT-ATAAAAACTATT
1 TTTAAAAATTT-AAAAATCATAAAAAATATT
* * * *
11266388 TTTAAAAA-TTAGAAGTCAT-TAAAAT-TA
1 TTTAAAAATTTAAAAATCATAAAAAATATT
11266415 TTTAAAAATTTTAAAAATCATAAAAAATATT
1 TTTAAAAA-TTTAAAAATCATAAAAAATATT
*
11266446 TTTAAATATTT
1 TTTAAAAATTT
11266457 TTAAAAGATC
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
27 9 0.17
28 8 0.15
29 13 0.24
30 16 0.30
31 8 0.15
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (30 bp):
TTTAAAAATTTAAAAATCATAAAAAATATT
Found at i:11266473 original size:31 final size:30
Alignment explanation
Indices: 11266358--11266472 Score: 94
Period size: 32 Copynumber: 3.8 Consensus size: 30
11266348 ATTTTTAAAA
* *
11266358 TTTAAAAATTTAAAAAAT-ATAAAAACTATT
1 TTTAAAAATTTTAAAAATCA-AAAAAATATT
* * ** *
11266388 TTTAAAAA--TTAGAAGTCATTAAAAT-TA
1 TTTAAAAATTTTAAAAATCAAAAAAATATT
11266415 TTTAAAAATTTTAAAAATCATAAAAAATATT
1 TTTAAAAATTTTAAAAATCA-AAAAAATATT
*
11266446 TTTAAATATTTTTAAAAGATCAAAAAA
1 TTTAAA-AATTTTAAAA-ATCAAAAAA
11266473 TTAATTAAAT
Statistics
Matches: 65, Mismatches: 13, Indels: 12
0.72 0.14 0.13
Matches are distributed among these distances:
27 9 0.14
28 9 0.14
29 9 0.14
30 13 0.20
31 7 0.11
32 14 0.22
33 4 0.06
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (30 bp):
TTTAAAAATTTTAAAAATCAAAAAAATATT
Found at i:11266481 original size:30 final size:30
Alignment explanation
Indices: 11266408--11266485 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
11266398 AGAAGTCATT
11266408 AAAATTATTTAAA-AATTTTAAAAATCATAA
1 AAAATTATTTAAATAATTTTAAAAATCA-AA
* *
11266438 AAAATATTTTTAAATATTTTTAAAAGATC-AA
1 AAAAT-TATTTAAATAATTTTAAAA-ATCAAA
*
11266469 AAAATTAATTAAATAAT
1 AAAATTATTTAAATAAT
11266486 GAGGTGTCCG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
30 14 0.35
31 14 0.35
32 9 0.22
33 3 0.08
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (30 bp):
AAAATTATTTAAATAATTTTAAAAATCAAA
Found at i:11268803 original size:181 final size:174
Alignment explanation
Indices: 11268493--11268843 Score: 472
Period size: 181 Copynumber: 2.0 Consensus size: 174
11268483 TCTATATAGA
* *
11268493 TTTATCTATTTAACCAGCTTTCTGCTACTAATATTTTTTTCAGTTTGCACATGTGTCTTGTGAGC
1 TTTATCTATTTAACCAGCTTTCTGCAACTAATATTTTTTTCAGTTTGCACACGTGTCTTGTGAGC
* * * * *
11268558 ACTTGAATTCATCAAAAGACATTACAGAAGAAATTCTTTTATCATGTTCTTGGTTGCGTCACCTA
66 ACATGAATTCATCAAAAGACATTACAAAAGAAATTCTTTTATCATGTTCTCGGTAGCATCACCTA
* * * *
11268623 TTAAGGAAACATATATTTCCTTAGTATGTCTCTCAATAAGGCATTTCT
131 TTAA-G-AA-A-ACATTTCATTAGCATGTCTCTCAATAAAGCATTTCT
*
11268671 TTTATCTATTTAACCAGCTTTCTGCAAGTAA-ATTTTTCCTTCA-TCTTGCAGGCACGTGTCTTG
1 TTTATCTATTTAACCAGCTTTCTGCAACTAATATTTTT--TTCAGT-TTGCA--CACGTGTCTTG
* * *
11268734 TGTGTACATGAATTCATCTAAAGACATTACAAAAGAAATTCTTTTATCATGTTCTCGGTAGCATC
61 TGAGCACATGAATTCATCAAAAGACATTACAAAAGAAATTCTTTTATCATGTTCTCGGTAGCATC
11268799 ACCTATTAAGAAAACATTTCATTAGCATGTCTCTCAATAAAGCAT
126 ACCTATTAAGAAAACATTTCATTAGCATGTCTCTCAATAAAGCAT
11268844 CTTTTTTTGG
Statistics
Matches: 153, Mismatches: 15, Indels: 11
0.85 0.08 0.06
Matches are distributed among these distances:
177 34 0.22
178 31 0.20
179 11 0.07
180 1 0.01
181 76 0.50
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (174 bp):
TTTATCTATTTAACCAGCTTTCTGCAACTAATATTTTTTTCAGTTTGCACACGTGTCTTGTGAGC
ACATGAATTCATCAAAAGACATTACAAAAGAAATTCTTTTATCATGTTCTCGGTAGCATCACCTA
TTAAGAAAACATTTCATTAGCATGTCTCTCAATAAAGCATTTCT
Found at i:11275307 original size:15 final size:15
Alignment explanation
Indices: 11275283--11275316 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11275273 GATCTTTTTA
* *
11275283 ACATTTTAATTCTGT
1 ACATTATAATTCTAT
11275298 ACATTATAATTCTAT
1 ACATTATAATTCTAT
11275313 ACAT
1 ACAT
11275317 AGACATTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.15, G:0.03, T:0.47
Consensus pattern (15 bp):
ACATTATAATTCTAT
Found at i:11279465 original size:13 final size:13
Alignment explanation
Indices: 11279449--11279485 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
11279439 TTTAAATCAA
11279449 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
11279462 ACTTTTTC-AAAAC
1 AC-TTTTCAAAAAC
11279475 ACTTTTCAAAA
1 ACTTTTCAAAA
11279486 GTATTACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.23
13 12 0.55
14 5 0.23
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:11280441 original size:18 final size:18
Alignment explanation
Indices: 11280410--11280460 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
11280400 TAAATTATAT
11280410 TTTTATTAAATAATAATA
1 TTTTATTAAATAATAATA
* *
11280428 TTTTAATAAGTAATAATA
1 TTTTATTAAATAATAATA
*
11280446 TTTTATTAATTAATA
1 TTTTATTAAATAATA
11280461 TTATAATAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TTTTATTAAATAATAATA
Found at i:11281436 original size:30 final size:31
Alignment explanation
Indices: 11281391--11281461 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
11281381 AAAAAATAGT
* * * *
11281391 AATTTTACTTTTTTTTAAATATTGATG-GTCA
1 AATTTAACTGTTTTTAAAATATTGA-GAATCA
*
11281422 AATTTAACTGTTTTTAAAATGTTGAGAATCA
1 AATTTAACTGTTTTTAAAATATTGAGAATCA
11281453 AATTTAACT
1 AATTTAACT
11281462 AAAAAAAACC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 1 0.03
31 33 0.97
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (31 bp):
AATTTAACTGTTTTTAAAATATTGAGAATCA
Found at i:11282255 original size:20 final size:20
Alignment explanation
Indices: 11282230--11282275 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
11282220 CTGAAAATGA
11282230 TTTCTGCAAAATGATTTACT
1 TTTCTGCAAAATGATTTACT
*
11282250 TTTCTG-GAAATGATTTACT
1 TTTCTGCAAAATGATTTACT
11282269 TTTCTGC
1 TTTCTGC
11282276 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (20 bp):
TTTCTGCAAAATGATTTACT
Found at i:11282681 original size:29 final size:29
Alignment explanation
Indices: 11282639--11282724 Score: 172
Period size: 29 Copynumber: 3.0 Consensus size: 29
11282629 AATAACAACA
11282639 ACATTGTCCAAGTGCATAACTAATATTAG
1 ACATTGTCCAAGTGCATAACTAATATTAG
11282668 ACATTGTCCAAGTGCATAACTAATATTAG
1 ACATTGTCCAAGTGCATAACTAATATTAG
11282697 ACATTGTCCAAGTGCATAACTAATATTA
1 ACATTGTCCAAGTGCATAACTAATATTA
11282725 CACCACATTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.31
Consensus pattern (29 bp):
ACATTGTCCAAGTGCATAACTAATATTAG
Found at i:11283727 original size:32 final size:32
Alignment explanation
Indices: 11283686--11283778 Score: 159
Period size: 32 Copynumber: 2.9 Consensus size: 32
11283676 TGTCAATCAT
* *
11283686 TTCAATATCCAACAAGTTTAAAATATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
11283718 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
*
11283750 TTCAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
11283779 CAATATCCAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.29
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:11283785 original size:27 final size:30
Alignment explanation
Indices: 11283686--11283791 Score: 128
Period size: 32 Copynumber: 3.5 Consensus size: 30
11283676 TGTCAATCAT
* *
11283686 TTCAATATCCAACAAGTTTAAAATATAATAAA
1 TTCAATATCCAACAAGCTT-AAA-ACAATAAA
11283718 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAAC--AATAAA
*
11283750 TTCAATATCTAACAAGCTTAAAAC-AT-AA
1 TTCAATATCCAACAAGCTTAAAACAATAAA
11283778 -TCAATATCCAACAA
1 TTCAATATCCAACAA
11283792 ATCCAAGACA
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
27 13 0.19
28 2 0.03
29 2 0.03
30 1 0.01
31 3 0.04
32 47 0.69
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.27
Consensus pattern (30 bp):
TTCAATATCCAACAAGCTTAAAACAATAAA
Found at i:11285979 original size:16 final size:17
Alignment explanation
Indices: 11285948--11285981 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11285938 GATAAAAAAT
*
11285948 GAATACTACTATATAAA
1 GAATAATACTATATAAA
11285965 GAATAATAC-ATATAAA
1 GAATAATACTATATAAA
11285981 G
1 G
11285982 CAAAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.26
Consensus pattern (17 bp):
GAATAATACTATATAAA
Found at i:11286572 original size:18 final size:18
Alignment explanation
Indices: 11286535--11286573 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11286525 GATATATAAT
*
11286535 ATATAAAAATAATAAGTA
1 ATATAAAAATAATAACTA
11286553 ATATAAAAATAA-AACCTA
1 ATATAAAAATAATAA-CTA
11286571 ATA
1 ATA
11286574 AATGCTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (18 bp):
ATATAAAAATAATAACTA
Found at i:11288532 original size:119 final size:119
Alignment explanation
Indices: 11288321--11288635 Score: 497
Period size: 119 Copynumber: 2.6 Consensus size: 119
11288311 TTGAGTCTGT
* * * * * *
11288321 TTTGAGAACATTCGAGAGTCATATCTGCTACGTCCTCGATTTGTTCCTTGTAAGTACAAGGATGC
1 TTTGAGAACTTTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGC
*
11288386 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
11288440 TTTGAGAACTTTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAGGCACAAGGATGC
1 TTTGAGAACTTTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGC
11288505 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * * *
11288559 TCTGAGAA-TGTGTAAGAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATG
1 TTTGAGAACT-TTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATG
*
11288623 CCAAACCCTCTTG
65 CCAAACCATCTTG
11288636 AATTTGTTTA
Statistics
Matches: 181, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
118 1 0.01
119 180 0.99
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (119 bp):
TTTGAGAACTTTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGC
CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:11288796 original size:202 final size:202
Alignment explanation
Indices: 11288444--11288829 Score: 576
Period size: 202 Copynumber: 1.9 Consensus size: 202
11288434 GCTATATTTG
* * ** * *
11288444 AGAACTTTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAGGCACAAGGATGCCAAA
1 AGAACATTTGAGAGTCAAATCTGCAATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAA
*
11288509 CCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAATGTGTAA
66 CCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATCTGAGAATGTGTAA
* * *
11288574 GAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAACCCTCTTGAAT
131 GAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAACCCTCTTGAAT
11288639 TTGTTTA
196 TTGTTTA
* *
11288646 AGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAA
1 AGAACATTTGAGAGTCAAATCTGCAATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAA
* * * * *
11288711 TCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTACATTTGAGAACT-TTTG
66 CCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATCTGAGAA-TGTGTA
* * *
11288775 AGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAA
130 AGAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAA
11288830 TCATCTTGGA
Statistics
Matches: 163, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
202 162 0.99
203 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (202 bp):
AGAACATTTGAGAGTCAAATCTGCAATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAA
CCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATCTGAGAATGTGTAA
GAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAACCCTCTTGAAT
TTGTTTA
Found at i:11288946 original size:118 final size:118
Alignment explanation
Indices: 11288654--11288994 Score: 574
Period size: 118 Copynumber: 2.9 Consensus size: 118
11288644 TAAGAACATT
*
11288654 TGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTG
1 TGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTG
* *
11288719 GATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTACATTTGAGAACTTT
66 GATCTGCTTCAGTATAAATATCTGAA-GTTAGATCTGCTACATTTGAGAACGTG
11288773 TGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTG
1 TGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTG
* *
11288838 GATCTGCTTCAGTATAAACATCTGAAGTTAGATCTGCTATATTTGAGAACGTG
66 GATCTGCTTCAGTATAAATATCTGAAGTTAGATCTGCTACATTTGAGAACGTG
* *
11288891 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAAAACCAAATCATCTTG
1 TGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTG
* * *
11288956 GATCTGCTTCAGCATAAATGTCTGAACTCTAGATCTGCT
66 GATCTGCTTCAGTATAAATATCTGAAGT-TAGATCTGCT
11288995 GTCTTCAATT
Statistics
Matches: 210, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
118 111 0.53
119 99 0.47
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (118 bp):
TGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTG
GATCTGCTTCAGTATAAATATCTGAAGTTAGATCTGCTACATTTGAGAACGTG
Found at i:11300752 original size:13 final size:13
Alignment explanation
Indices: 11300734--11300758 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11300724 ATTTAATTTT
11300734 TAAATAATATAAA
1 TAAATAATATAAA
11300747 TAAATAATATAA
1 TAAATAATATAA
11300759 TTTGTATAAT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAATAATATAAA
Found at i:11300802 original size:14 final size:14
Alignment explanation
Indices: 11300785--11300816 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
11300775 TATGTGATAT
11300785 ATAATAATAAAAAA
1 ATAATAATAAAAAA
*
11300799 ATAATAATATAAAA
1 ATAATAATAAAAAA
11300813 ATAA
1 ATAA
11300817 AACTAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
ATAATAATAAAAAA
Found at i:11300927 original size:22 final size:21
Alignment explanation
Indices: 11300867--11300944 Score: 69
Period size: 20 Copynumber: 3.9 Consensus size: 21
11300857 GTAAACAATG
11300867 TATAATAA-ATAA-A-ATTTT
1 TATAATAATATAATATATTTT
*
11300885 TATAA-ATATATAATGTA-TTT
1 TATAATA-ATATAATATATTTT
11300905 TATAATAATATAAGTATATTTT
1 TATAATAATATAA-TATATTTT
*
11300927 TTTAATAA-ATAATTATAT
1 TATAATAATATAA-TATAT
11300945 AAAGAAAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
17 1 0.02
18 6 0.12
19 4 0.08
20 14 0.29
21 14 0.29
22 10 0.20
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (21 bp):
TATAATAATATAATATATTTT
Found at i:11312208 original size:16 final size:17
Alignment explanation
Indices: 11312177--11312210 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11312167 GATAAAAAAT
*
11312177 GAATACTACGATATAAA
1 GAATAATACGATATAAA
11312194 GAATAATAC-ATATAAA
1 GAATAATACGATATAAA
11312210 G
1 G
11312211 CAAAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
GAATAATACGATATAAA
Found at i:11312803 original size:19 final size:19
Alignment explanation
Indices: 11312764--11312804 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11312754 GATATATAAT
*
11312764 ATATAAAAAATAATAAGTA
1 ATATAAAAAATAATAACTA
11312783 ATATAAAAAATAA-AACCTA
1 ATATAAAAAATAATAA-CTA
11312802 ATA
1 ATA
11312805 AATGCTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (19 bp):
ATATAAAAAATAATAACTA
Found at i:11312923 original size:24 final size:23
Alignment explanation
Indices: 11312886--11312931 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
11312876 ATAAATGGTA
11312886 TTTTAGTAATAATATAAGTATATT
1 TTTTAGTAATAATA-AAGTATATT
*
11312910 TTTTA-TAATAAATAAATTATAT
1 TTTTAGTAAT-AATAAAGTATAT
11312932 AAAGAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
TTTTAGTAATAATAAAGTATATT
Found at i:11317343 original size:17 final size:17
Alignment explanation
Indices: 11317321--11317353 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11317311 CAGATTGATA
11317321 CAAAATCCAAACAGATG
1 CAAAATCCAAACAGATG
*
11317338 CAAAATCCAAATAGAT
1 CAAAATCCAAACAGAT
11317354 TCTTCAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.21, G:0.09, T:0.15
Consensus pattern (17 bp):
CAAAATCCAAACAGATG
Found at i:11322044 original size:11 final size:11
Alignment explanation
Indices: 11322030--11322057 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
11322020 TAGATAAGAA
11322030 ATACAAAGATT
1 ATACAAAGATT
11322041 ATACAAAGATT
1 ATACAAAGATT
11322052 ATACAA
1 ATACAA
11322058 TCTTCATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.25
Consensus pattern (11 bp):
ATACAAAGATT
Found at i:11327394 original size:27 final size:27
Alignment explanation
Indices: 11327338--11327405 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
11327328 ATTTAACATG
* *
11327338 AATAAGATATAAAGCAATTCGAAATAA
1 AATAATATTTAAAGCAATTCGAAATAA
11327365 AATAATATTTAAAGCAAATTTC-AAAT-A
1 AATAATATTTAAAGC-AA-TTCGAAATAA
11327392 AATAATATGTTAAA
1 AATAATAT-TTAAA
11327406 TAAGTTAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
27 22 0.61
28 11 0.31
29 3 0.08
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.29
Consensus pattern (27 bp):
AATAATATTTAAAGCAATTCGAAATAA
Found at i:11328057 original size:3 final size:3
Alignment explanation
Indices: 11328051--11328183 Score: 89
Period size: 3 Copynumber: 44.7 Consensus size: 3
11328041 TAACAATAGA
* * * *
11328051 AAT AAT -AT AAT AAT AA- AGT AGAA AAT AAT AGT AAT AAT ACGTT AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT A--AT AAT
* * *
11328097 AAC AAT AAT AAT AAT -AT ATT AAT AAT AAC AAT AAT AGA- AAGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA-T AAT
* * *
11328142 GAT AA- AAT AAT AAA AAT AAT AAT AAT AAA AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11328184 AGAATAGTGC
Statistics
Matches: 99, Mismatches: 20, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
2 10 0.10
3 83 0.84
4 4 0.04
5 2 0.02
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:11328181 original size:23 final size:23
Alignment explanation
Indices: 11328040--11328183 Score: 96
Period size: 23 Copynumber: 6.0 Consensus size: 23
11328030 TAAGATGATG
* * *
11328040 ATAACAATAGAAATAATATAATA
1 ATAATAATAAAAATAATAAAATA
* *
11328063 ATAA-AGTAGAAAATAATAGTAATA
1 ATAATAATA-AAAATAATA-AAATA
* *
11328087 ATACGTTAATAACAATAATAATAATA
1 ATA--ATAATAAAAATAATAA-AATA
* *
11328113 TATTAATAATAACAATAATAGAA-A
1 -A-TAATAATAAAAATAATAAAATA
* *
11328137 GTAATGAT-AAAATAATAAAAATA
1 ATAATAATAAAAATAAT-AAAATA
11328160 ATAATAATAAAAATAATAAAATA
1 ATAATAATAAAAATAATAAAATA
11328183 A
1 A
11328184 AGAATAGTGC
Statistics
Matches: 96, Mismatches: 14, Indels: 22
0.73 0.11 0.17
Matches are distributed among these distances:
21 7 0.07
22 12 0.12
23 26 0.27
24 17 0.18
25 2 0.02
26 26 0.27
27 4 0.04
28 2 0.02
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.27
Consensus pattern (23 bp):
ATAATAATAAAAATAATAAAATA
Found at i:11328247 original size:18 final size:20
Alignment explanation
Indices: 11328224--11328275 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
11328214 ATAGAAAAGC
*
11328224 AATAATAGAA-ACT-GTAAT
1 AATAATAGAAGAATGGTAAT
*
11328242 AATAATAAAAGTAATGGTAAT
1 AATAATAGAAG-AATGGTAAT
11328263 AATAATAG-AGAAT
1 AATAATAGAAGAAT
11328276 AGCAGTACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 9 0.32
19 3 0.11
20 4 0.14
21 12 0.43
ACGTcount: A:0.58, C:0.02, G:0.13, T:0.27
Consensus pattern (20 bp):
AATAATAGAAGAATGGTAAT
Found at i:11328248 original size:21 final size:21
Alignment explanation
Indices: 11328224--11328269 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
11328214 ATAGAAAAGC
*
11328224 AATAATAGAAACT-GTAATAAT
1 AATAAAAGAAA-TGGTAATAAT
*
11328245 AATAAAAGTAATGGTAATAAT
1 AATAAAAGAAATGGTAATAAT
11328266 AATA
1 AATA
11328270 GAGAATAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.28
Consensus pattern (21 bp):
AATAAAAGAAATGGTAATAAT
Found at i:11328340 original size:3 final size:3
Alignment explanation
Indices: 11328334--11328396 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
11328324 AAAGAGAGAC
* * * *
11328334 AAT AAT -AT ACT AAT AAA AAT AAT AAT AGGTT AAT AAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT AAT
*
11328380 AAA AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
11328397 AATGAAATAA
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
2 2 0.04
3 43 0.91
5 2 0.04
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:11331748 original size:20 final size:20
Alignment explanation
Indices: 11331723--11331765 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
11331713 TGCTGGGTTG
11331723 GGCAAGCAATTTTGGGCTGA
1 GGCAAGCAATTTTGGGCTGA
11331743 GGCAAGCAATTTTGGGCTGA
1 GGCAAGCAATTTTGGGCTGA
11331763 GGC
1 GGC
11331766 TGTGACATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.16, G:0.37, T:0.23
Consensus pattern (20 bp):
GGCAAGCAATTTTGGGCTGA
Found at i:11338481 original size:6 final size:6
Alignment explanation
Indices: 11338470--11338607 Score: 276
Period size: 6 Copynumber: 23.0 Consensus size: 6
11338460 ATTGCATGAA
11338470 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
11338518 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
11338566 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
11338608 TTGCCTTTAT
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 132 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:11339348 original size:43 final size:43
Alignment explanation
Indices: 11339300--11339385 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
11339290 GTTCTATGCC
*
11339300 TTTGATGTTGTATAAGTGTGTGAGGGATTAACGTTGACCAAGG
1 TTTGATGTTGTATAAGTGTGTGAGGAATTAACGTTGACCAAGG
**
11339343 TTTGATGTTGTATAAGTGTGTGAGGAATTATGGTTGACCAAGG
1 TTTGATGTTGTATAAGTGTGTGAGGAATTAACGTTGACCAAGG
11339386 CTTGGAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.26, C:0.06, G:0.33, T:0.36
Consensus pattern (43 bp):
TTTGATGTTGTATAAGTGTGTGAGGAATTAACGTTGACCAAGG
Found at i:11339607 original size:18 final size:18
Alignment explanation
Indices: 11339558--11339598 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
11339548 CATGTTCGAG
11339558 CCACACGGACGTGTGTAA
1 CCACACGGACGTGTGTAA
11339576 CCACACGGACGTGTGTAA
1 CCACACGGACGTGTGTAA
11339594 CCACA
1 CCACA
11339599 TGGGCGTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.32, G:0.24, T:0.15
Consensus pattern (18 bp):
CCACACGGACGTGTGTAA
Found at i:11340021 original size:49 final size:47
Alignment explanation
Indices: 11339897--11340026 Score: 170
Period size: 47 Copynumber: 2.7 Consensus size: 47
11339887 AGAACTTGTA
* * *
11339897 CATTCTATCATCCTGGGTGGCCCAACAATGATGACTTTCACTATTTG
1 CATTCTATCATCCTGAGTGGCCCGACAATGATGGCTTTCACTATTTG
* *
11339944 CATTCTATCATCCCGAGTGGCCCGACAATGATGGCTTTCACTGTTTG
1 CATTCTATCATCCTGAGTGGCCCGACAATGATGGCTTTCACTATTTG
* **
11339991 CATATTTTATCATCCTGAGTGGCTTGACAATGATGG
1 C--ATTCTATCATCCTGAGTGGCCCGACAATGATGG
11340027 TTTTAAATTA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 43 0.60
49 29 0.40
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (47 bp):
CATTCTATCATCCTGAGTGGCCCGACAATGATGGCTTTCACTATTTG
Found at i:11344200 original size:2 final size:2
Alignment explanation
Indices: 11344195--11344259 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
11344185 TATATATATA
11344195 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
11344237 TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG T
11344260 AAGAAATTCT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:11352933 original size:8 final size:8
Alignment explanation
Indices: 11352920--11352954 Score: 56
Period size: 7 Copynumber: 4.6 Consensus size: 8
11352910 AGTTTTCTTT
11352920 TATTTATA
1 TATTTATA
11352928 TATTTATA
1 TATTTATA
11352936 T-TTTATA
1 TATTTATA
11352943 T-TTTATA
1 TATTTATA
11352950 TATTT
1 TATTT
11352955 TTAGTGTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 14 0.54
8 12 0.46
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
TATTTATA
Found at i:11354516 original size:46 final size:46
Alignment explanation
Indices: 11354454--11354589 Score: 159
Period size: 46 Copynumber: 3.0 Consensus size: 46
11354444 TTATCTTTGA
* *
11354454 CATGATGCCATAGTATCTTTCAACTC-TAGTCTTACTCGTTTTC-TAT
1 CATGTTGCCATAGTATCTTTCAAC-CATAGTCTTACTC-ATTTCATAT
* * * *
11354500 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATAGTATCTTTCAACCATAGTCTTACTCATTTCATAT
* * *
11354546 CACGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATAGTATCTTTCAACCATAGTCTTACTCATTTCAT
11354590 TTCAGAGAGC
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
45 5 0.06
46 73 0.94
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATAGTATCTTTCAACCATAGTCTTACTCATTTCATAT
Found at i:11357186 original size:17 final size:19
Alignment explanation
Indices: 11357164--11357220 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 19
11357154 TAAAATCTTA
11357164 TAATAAA-AT-TATTTAAT
1 TAATAAATATCTATTTAAT
*
11357181 TAATAAATATCTTTTATAAAT
1 TAATAAATATCTATT-T-AAT
11357202 TAATAAATATCTATTTAAT
1 TAATAAATATCTATTTAAT
11357221 ATCTAATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 7 0.21
18 2 0.06
19 6 0.18
20 2 0.06
21 17 0.50
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (19 bp):
TAATAAATATCTATTTAAT
Found at i:11357202 original size:21 final size:22
Alignment explanation
Indices: 11357178--11357218 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
11357168 AAAATTATTT
11357178 AATTAATAAATATCT-TTTATA
1 AATTAATAAATATCTATTTATA
11357199 AATTAATAAATATCTATTTA
1 AATTAATAAATATCTATTTA
11357219 ATATCTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (22 bp):
AATTAATAAATATCTATTTATA
Found at i:11362215 original size:2 final size:2
Alignment explanation
Indices: 11362210--11362235 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11362200 TATATATATA
11362210 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
11362236 AATGAGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:11362409 original size:15 final size:15
Alignment explanation
Indices: 11362391--11362447 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
11362381 TATATGTTTT
11362391 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
11362406 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
11362421 ATTGAATTTATATTG
1 ATTGAATTTATATTG
11362436 ATTGAA-TTATAT
1 ATTGAATTTATAT
11362448 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:11362426 original size:30 final size:28
Alignment explanation
Indices: 11362387--11362445 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
11362377 TGAATATATG
11362387 TTTTATTGAATTTATATTGATTGAAATTA
1 TTTTATTGAATTTATATTGATTG-AATTA
11362416 TTTTGATTGAATTTATATTGATTGAATTA
1 TTTT-ATTGAATTTATATTGATTGAATTA
11362445 T
1 T
11362446 ATAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (28 bp):
TTTTATTGAATTTATATTGATTGAATTA
Found at i:11362866 original size:21 final size:21
Alignment explanation
Indices: 11362831--11362926 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
11362821 AGGCACTTTA
11362831 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
11362854 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
11362875 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
11362896 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
11362917 TGTGTCGTAT
1 TGTGTCGTAT
11362927 ACTGATCAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 58 0.87
23 9 0.13
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:11362901 original size:42 final size:42
Alignment explanation
Indices: 11362818--11362926 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
11362808 GGCTTTATCG
* *
11362818 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTA--TCAGGCACCTCGTGTGTCGT
*
11362862 ATCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
* * * *
11362904 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
11362927 ACTGATCAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 38 0.67
44 19 0.33
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.36
Consensus pattern (42 bp):
ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
Found at i:11363109 original size:18 final size:19
Alignment explanation
Indices: 11363088--11363128 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
11363078 AATGAAATGA
11363088 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
11363106 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
11363125 GAAA
1 GAAA
11363129 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:11364431 original size:3 final size:3
Alignment explanation
Indices: 11364362--11364415 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
11364352 AATGTTCTTG
11364362 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11364410 TTA TTA
1 TTA TTA
11364416 GCTTATGTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11366433 original size:20 final size:20
Alignment explanation
Indices: 11366408--11366445 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11366398 TGCAAATCAG
11366408 ACGAAAAAA-ACAACAAAAGA
1 ACGAAAAAAGA-AACAAAAGA
11366428 ACGAAAAAAGAAACAAAA
1 ACGAAAAAAGAAACAAAA
11366446 ATGTTGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.76, C:0.13, G:0.11, T:0.00
Consensus pattern (20 bp):
ACGAAAAAAGAAACAAAAGA
Found at i:11366843 original size:39 final size:39
Alignment explanation
Indices: 11366800--11366877 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
11366790 TGTGGTGCCA
11366800 TCGCTAGCGACCGGCGGCCGCCACAGTGGTCTGGCACCG
1 TCGCTAGCGACCGGCGGCCGCCACAGTGGTCTGGCACCG
*
11366839 TCGCTGGCGACCGGCGGCCGCCACAGTGGTCTGGCACCG
1 TCGCTAGCGACCGGCGGCCGCCACAGTGGTCTGGCACCG
11366878 GAGCCATGGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.12, C:0.38, G:0.37, T:0.13
Consensus pattern (39 bp):
TCGCTAGCGACCGGCGGCCGCCACAGTGGTCTGGCACCG
Found at i:11372582 original size:6 final size:6
Alignment explanation
Indices: 11372551--11372581 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
11372541 ATATGAAGGG
11372551 TTCTTT TTCTTT TTCTTT TTCTTT TT-TTT TT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TT
11372582 TGGCTGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTCTTT
Found at i:11372673 original size:17 final size:17
Alignment explanation
Indices: 11372651--11372683 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11372641 CATTTTCTTC
*
11372651 AAAGAATTTTTAATTAG
1 AAAGAAATTTTAATTAG
11372668 AAAGAAATTTTAATTA
1 AAAGAAATTTTAATTA
11372684 ATCAAACTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (17 bp):
AAAGAAATTTTAATTAG
Found at i:11382787 original size:30 final size:31
Alignment explanation
Indices: 11382716--11382789 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
11382706 GAATTGAATT
*
11382716 ATAATTAAAATTTTATGTATATATTTTAATC
1 ATAATTAAAATTTTATGTATATATTATAATC
*
11382747 ATAGTTAAAATTTTACGTGTATA-ATTAT-ATC
1 ATAATTAAAATTTTA--TGTATATATTATAATC
11382778 A-AATTAAAATTT
1 ATAATTAAAATTT
11382790 ATAAATCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
30 10 0.26
31 18 0.47
32 4 0.11
33 6 0.16
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (31 bp):
ATAATTAAAATTTTATGTATATATTATAATC
Found at i:11386825 original size:37 final size:37
Alignment explanation
Indices: 11386764--11386956 Score: 248
Period size: 37 Copynumber: 5.0 Consensus size: 37
11386754 TACGTATGAT
*
11386764 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
11386799 CACCTATCACTTTGT-TCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCT-CTTGATCAGATAAGTGTAGC
11386836 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
11386873 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
*
11386916 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
11386956 C
1 C
11386957 GAAGCTATCA
Statistics
Matches: 141, Mismatches: 4, Indels: 24
0.83 0.02 0.14
Matches are distributed among these distances:
35 9 0.06
36 4 0.03
37 84 0.60
38 1 0.01
39 2 0.01
40 4 0.03
41 1 0.01
42 1 0.01
43 3 0.02
44 2 0.01
46 30 0.21
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:11386926 original size:46 final size:46
Alignment explanation
Indices: 11386873--11387239 Score: 437
Period size: 46 Copynumber: 7.6 Consensus size: 46
11386863 TAAGTGTAGC
* **
11386873 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
11386919 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
11386965 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
11387017 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
11387069 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
11387115 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
11387161 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
11387213 CACTTATCACTTTATCACTTAATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
11387240 AGTACTCAAA
Statistics
Matches: 290, Mismatches: 18, Indels: 26
0.87 0.05 0.08
Matches are distributed among these distances:
46 154 0.53
48 1 0.00
49 1 0.00
50 2 0.01
51 3 0.01
52 129 0.44
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:11386992 original size:52 final size:52
Alignment explanation
Indices: 11386916--11387232 Score: 424
Period size: 52 Copynumber: 6.3 Consensus size: 52
11386906 TAGCTAAAGC
* *
11386916 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
11386969 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
11387021 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
11387073 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
11387119 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
11387165 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
11387217 TATCACTTTATCACTT
1 TATCACTTT-TCACTT
11387233 AATCAGAAGT
Statistics
Matches: 238, Mismatches: 16, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
46 84 0.35
47 2 0.01
48 2 0.01
52 133 0.56
53 17 0.07
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:11387114 original size:196 final size:196
Alignment explanation
Indices: 11386873--11387225 Score: 607
Period size: 196 Copynumber: 1.8 Consensus size: 196
11386863 TAAGTGTAGC
* * * * *
11386873 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
*
11386938 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
* *
11387003 GTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
131 GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
11387068 T
196 T
*
11387069 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
*
11387134 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
*
11387199 GTAGCTAAAGCTACCACTTATCACTTT
131 GTAGCCAAAGCTACCACTTATCACTTT
11387226 ATCACTTAAT
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 146 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (196 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
T
Found at i:11387228 original size:98 final size:97
Alignment explanation
Indices: 11386873--11387239 Score: 492
Period size: 98 Copynumber: 3.7 Consensus size: 97
11386863 TAAGTGTAGC
* * * *
11386873 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACT
11386938 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
64 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
11386972 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTG
1 CAC-TTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTT--A----
* *
11387037 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
59 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
11387076 CAC--T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTTG
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
*
11387136 ATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 ATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
11387168 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
1 CACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTT
*
11387233 AATCAGA
65 GATCAGA
11387240 AGTACTCAAA
Statistics
Matches: 239, Mismatches: 16, Indels: 27
0.85 0.06 0.10
Matches are distributed among these distances:
92 39 0.16
94 1 0.00
96 1 0.00
98 149 0.62
99 7 0.03
100 2 0.01
101 1 0.00
104 39 0.16
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (97 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
ATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:11390418 original size:49 final size:49
Alignment explanation
Indices: 11390363--11390557 Score: 309
Period size: 49 Copynumber: 4.0 Consensus size: 49
11390353 TTCGTTTTCT
* * *
11390363 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
* * *
11390412 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
* *
11390461 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
11390510 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACA-AATCACAT
11390558 GTTCACAAGT
Statistics
Matches: 137, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
49 131 0.96
50 6 0.04
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
Found at i:11391873 original size:37 final size:37
Alignment explanation
Indices: 11391812--11392004 Score: 248
Period size: 37 Copynumber: 5.0 Consensus size: 37
11391802 TACGTATGAT
*
11391812 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
11391847 CACCTATCACTTTGT-TCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCT-CTTGATCAGATAAGTGTAGC
11391884 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
11391921 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
*
11391964 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
11392004 C
1 C
11392005 GAAGCTATCA
Statistics
Matches: 141, Mismatches: 4, Indels: 24
0.83 0.02 0.14
Matches are distributed among these distances:
35 9 0.06
36 4 0.03
37 84 0.60
38 1 0.01
39 2 0.01
40 4 0.03
41 1 0.01
42 1 0.01
43 3 0.02
44 2 0.01
46 30 0.21
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:11391974 original size:46 final size:46
Alignment explanation
Indices: 11391921--11392287 Score: 428
Period size: 46 Copynumber: 7.6 Consensus size: 46
11391911 TAAGTGTAGC
* **
11391921 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
11391967 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
11392013 CACTTATCACTTTTCACTTGTCACTTGATTAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
11392065 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
11392117 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
11392163 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
11392209 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
11392261 CACTTATCACTTTATCACTTAATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
11392288 AGTACTCAAA
Statistics
Matches: 288, Mismatches: 20, Indels: 26
0.86 0.06 0.08
Matches are distributed among these distances:
46 154 0.53
48 1 0.00
49 1 0.00
50 2 0.01
51 3 0.01
52 127 0.44
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:11392040 original size:52 final size:52
Alignment explanation
Indices: 11391964--11392280 Score: 415
Period size: 52 Copynumber: 6.3 Consensus size: 52
11391954 TAGCTAAAGC
* *
11391964 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
11392017 TATCACTTTTCACTTGTCACTTGATTAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
11392069 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
11392121 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
11392167 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
11392213 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
11392265 TATCACTTTATCACTT
1 TATCACTTT-TCACTT
11392281 AATCAGAAGT
Statistics
Matches: 236, Mismatches: 18, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
46 84 0.36
47 2 0.01
48 2 0.01
52 131 0.56
53 17 0.07
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:11392162 original size:196 final size:196
Alignment explanation
Indices: 11391921--11392273 Score: 598
Period size: 196 Copynumber: 1.8 Consensus size: 196
11391911 TAAGTGTAGC
* * * * *
11391921 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
* *
11391986 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATTAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
* *
11392051 GTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
131 GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
11392116 T
196 T
*
11392117 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
*
11392182 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
*
11392247 GTAGCTAAAGCTACCACTTATCACTTT
131 GTAGCCAAAGCTACCACTTATCACTTT
11392274 ATCACTTAAT
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 145 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (196 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
T
Found at i:11392276 original size:98 final size:97
Alignment explanation
Indices: 11391921--11392287 Score: 483
Period size: 98 Copynumber: 3.7 Consensus size: 97
11391911 TAAGTGTAGC
* * * *
11391921 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACT
11391986 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
64 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
11392020 CACTTTTCACTTGTCACTTGATTAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTG
1 CAC-TTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTT--A----
* *
11392085 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
59 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
11392124 CAC--T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTTG
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
*
11392184 ATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 ATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
11392216 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
1 CACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTT
*
11392281 AATCAGA
65 GATCAGA
11392288 AGTACTCAAA
Statistics
Matches: 237, Mismatches: 18, Indels: 27
0.84 0.06 0.10
Matches are distributed among these distances:
92 39 0.16
94 1 0.00
96 1 0.00
98 147 0.62
99 7 0.03
100 2 0.01
101 1 0.00
104 39 0.16
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (97 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
ATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:11398575 original size:21 final size:21
Alignment explanation
Indices: 11398549--11398589 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11398539 AGACAAGCAA
* *
11398549 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
11398570 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
11398590 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:11404828 original size:22 final size:22
Alignment explanation
Indices: 11404786--11404829 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
11404776 AATTATTTAC
* *
11404786 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
11404808 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
11404830 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:11405130 original size:40 final size:40
Alignment explanation
Indices: 11405056--11405317 Score: 429
Period size: 40 Copynumber: 6.6 Consensus size: 40
11405046 AACCCAAGTA
* * *
11405056 CCTTCGGGATTTAG-CCGGATATA-ACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
11405095 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
11405135 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
11405175 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
11405215 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
11405255 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
11405295 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
11405318 CATTCGAATA
Statistics
Matches: 210, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 12 0.06
40 195 0.93
41 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:11414441 original size:15 final size:16
Alignment explanation
Indices: 11414421--11414450 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11414411 TTATATTAAC
11414421 TAATTTAA-TTAAAAT
1 TAATTTAAGTTAAAAT
11414436 TAATTTAAGTTAAAA
1 TAATTTAAGTTAAAA
11414451 AAATAATAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
TAATTTAAGTTAAAAT
Found at i:11416255 original size:20 final size:20
Alignment explanation
Indices: 11416230--11416267 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11416220 GTGAAATTTG
11416230 TATGAA-AATATAAAATTAAT
1 TATGAAGAATA-AAAATTAAT
11416250 TATGAAGAATAAAAATTA
1 TATGAAGAATAAAAATTA
11416268 GTCTCGACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (20 bp):
TATGAAGAATAAAAATTAAT
Found at i:11418377 original size:14 final size:14
Alignment explanation
Indices: 11418358--11418388 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
11418348 TCTACCTAAC
11418358 CACTAAGCTACTTA
1 CACTAAGCTACTTA
11418372 CACTAAGCTACTTA
1 CACTAAGCTACTTA
11418386 CAC
1 CAC
11418389 ATTAATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.32, G:0.06, T:0.26
Consensus pattern (14 bp):
CACTAAGCTACTTA
Found at i:11423119 original size:13 final size:13
Alignment explanation
Indices: 11423103--11423142 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
11423093 CAATCTCATA
11423103 TCTCAATTTCAAT
1 TCTCAATTTCAAT
11423116 TCTCAA-TTCAAT
1 TCTCAATTTCAAT
11423128 ATCTC-ATTTC-AT
1 -TCTCAATTTCAAT
11423140 TCT
1 TCT
11423143 AATAGCTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 3 0.12
12 9 0.36
13 13 0.52
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (13 bp):
TCTCAATTTCAAT
Found at i:11423129 original size:26 final size:24
Alignment explanation
Indices: 11423092--11423142 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 24
11423082 GTTCATGTTT
11423092 TCAATCTCATATCTCAATTTCAATTC
1 TCAATCTCATATCTC-ATTTC-ATTC
11423118 TCAAT-TCAATATCTCATTTCATTC
1 TCAATCTC-ATATCTCATTTCATTC
11423142 T
1 T
11423143 AATAGCTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 5 0.21
25 7 0.29
26 12 0.50
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.45
Consensus pattern (24 bp):
TCAATCTCATATCTCATTTCATTC
Found at i:11423791 original size:15 final size:15
Alignment explanation
Indices: 11423767--11423819 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
11423757 ATATATATAT
*
11423767 TATAATTTCAATCAA
1 TATAAATTCAATCAA
11423782 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* * *
11423797 AATGATTTCAATCAA
1 TATAAATTCAATCAA
11423812 TATAAATT
1 TATAAATT
11423820 TGATAAATTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:11424690 original size:19 final size:19
Alignment explanation
Indices: 11424666--11424704 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
11424656 AATACTTATT
*
11424666 TATTATTTATACATGTGTA
1 TATTATTAATACATGTGTA
11424685 TATTATTAATACATGTGTA
1 TATTATTAATACATGTGTA
11424704 T
1 T
11424705 CTATTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TATTATTAATACATGTGTA
Found at i:11424712 original size:19 final size:19
Alignment explanation
Indices: 11424669--11424712 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
11424659 ACTTATTTAT
11424669 TATTT-ATACATGTGTATA
1 TATTTAATACATGTGTATA
*
11424687 T-TATTAATACATGTGTATC
1 TAT-TTAATACATGTGTATA
11424706 TATTTAA
1 TATTTAA
11424713 AACCATACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 1 0.05
18 3 0.14
19 17 0.77
20 1 0.05
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.50
Consensus pattern (19 bp):
TATTTAATACATGTGTATA
Found at i:11426381 original size:20 final size:20
Alignment explanation
Indices: 11426356--11426413 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
11426346 CCATTAAGCC
11426356 CCCCCCCAAAAAAAACCTAA
1 CCCCCCCAAAAAAAACCTAA
11426376 CCCCCCCAAAAAAAACCTAA
1 CCCCCCCAAAAAAAACCTAA
*
11426396 CCCTCCCAAAAATAAACC
1 CCCCCCCAAAAA-AAACC
11426414 AAGAAACCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 31 0.86
21 5 0.14
ACGTcount: A:0.48, C:0.45, G:0.00, T:0.07
Consensus pattern (20 bp):
CCCCCCCAAAAAAAACCTAA
Found at i:11437217 original size:71 final size:69
Alignment explanation
Indices: 11437119--11437293 Score: 208
Period size: 71 Copynumber: 2.5 Consensus size: 69
11437109 TTTTCAAAGG
* *
11437119 AAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACATTGAGGTATTTTTAATTTTT
1 AAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACACTGAGGTATTTTTAATTTAT
11437183 GTTTT
65 GTTTT
*** * * *
11437188 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGGCACGCTGAGGTATTTTTAGTTTA
1 --AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTTAATTTA
11437253 TGTTTT
64 TGTTTT
** * *
11437259 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
11437294 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
69 31 0.34
71 58 0.64
72 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.35
Consensus pattern (69 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTTAATTTATG
TTTT
Found at i:11437414 original size:72 final size:71
Alignment explanation
Indices: 11437293--11437458 Score: 235
Period size: 72 Copynumber: 2.3 Consensus size: 71
11437283 GAGTTAAGCC
** * *
11437293 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTAAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGGCACGC
11437357 TGAGGTA
65 TGAGGTA
* *
11437364 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGGCACGC
11437429 TGAGGTA
65 TGAGGTA
* *
11437436 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
11437459 ACGTTGTTCA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
71 12 0.14
72 69 0.81
73 4 0.05
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:11437768 original size:279 final size:279
Alignment explanation
Indices: 11437391--11438291 Score: 1636
Period size: 279 Copynumber: 3.2 Consensus size: 279
11437381 TTAATTTCAA
11437391 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
11437456 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGA-GTGGGTTGAACCTTTTAATTTCTACTTTT
* *
11437521 TCAAAATCAGCTCATATTGCGATAGGTGAGTTGAGCCTCAGGTCACACTGAGGTATTTTCAATTT
130 TCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTT
11437586 CTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAAT
195 CTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAAT
11437651 TTCTACTTTTTCAAAATCAG
260 TTCTACTTTTTCAAAATCAG
11437671 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCT-AGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
11437735 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAG-AGTGGGTTGAACCTTTTAATTTCTACTTTT
11437800 TCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTT
130 TCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTT
*
11437865 CTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAAT
195 CTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAAT
11437930 TTCTACTTTTTCAAAATCAG
260 TTCTACTTTTTCAAAATCAG
11437950 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
11438015 TTTA-GTTGTTCAAGAATCAACTCATATTGCGAGAATGGGTTGAACCTTTTAA-TT-T-CTTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGTGGGTTGAACCTTTTAATTTCTACTTTTT
*
11438076 CAAAATCAGCTCATATTGCGAGAGGTGAG-TGAGTCTCAGGTCACGCTGAGGTATTTTCAATTTC
131 CAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTC
*
11438140 TGTTTTCAATTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATT
196 TGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATT
11438205 TCTACTTTTTCAAAATCAG
261 TCTACTTTTTCAAAATCAG
*
11438224 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GATTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GTCAC--GCTGAGGTATTTTCAATTTCTGT-TT
11438288 TCAA
62 TCAA
11438292 AAAAAAAAAT
Statistics
Matches: 607, Mismatches: 8, Indels: 15
0.96 0.01 0.02
Matches are distributed among these distances:
273 1 0.00
274 149 0.25
275 35 0.06
276 24 0.04
277 8 0.01
278 18 0.03
279 303 0.50
280 69 0.11
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (279 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGTGGGTTGAACCTTTTAATTTCTACTTTTT
CAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTC
TGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATT
TCTACTTTTTCAAAATCAG
Found at i:11437821 original size:139 final size:140
Alignment explanation
Indices: 11437391--11438291 Score: 1638
Period size: 140 Copynumber: 6.5 Consensus size: 140
11437381 TTAATTTCAA
11437391 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
11437456 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
11437521 TCAAAATCAG
131 TCAAAATCAG
* *
11437531 CTCATATTGCGATAGGTGAGTTGAGCCTCAGGTCACACTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
11437596 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
11437661 TCAAAATCAG
131 TCAAAATCAG
11437671 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCT-AGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
11437735 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
11437800 TCAAAATCAG
131 TCAAAATCAG
11437810 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
11437875 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
11437940 TCAAAATCAG
131 TCAAAATCAG
11437950 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
11438015 TTTA-GTTGTTCAAGAATCAACTCATATTGCGAGAA-TGGGTTGAACCTTTTAA-TT-T-CTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
11438075 TCAAAATCAG
131 TCAAAATCAG
*
11438085 CTCATATTGCGAGAGGTGAG-TGAGTCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* *
11438149 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
11438214 TCAAAATCAG
131 TCAAAATCAG
*
11438224 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GATTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GTCAC--GCTGAGGTATTTTCAATTTCTGT-TT
11438288 TCAA
62 TCAA
11438292 AAAAAAAAAT
Statistics
Matches: 741, Mismatches: 9, Indels: 19
0.96 0.01 0.02
Matches are distributed among these distances:
134 47 0.06
135 65 0.09
136 18 0.02
137 4 0.01
138 18 0.02
139 205 0.28
140 355 0.48
142 23 0.03
143 6 0.01
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:11438147 original size:13 final size:13
Alignment explanation
Indices: 11438129--11438162 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
11438119 CGCTGAGGTA
*
11438129 TTTTCAATTTCTG
1 TTTTCAATTTATG
11438142 TTTTCAATTTATG
1 TTTTCAATTTATG
11438155 TTGTTCAA
1 TT-TTCAA
11438163 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:11438413 original size:71 final size:72
Alignment explanation
Indices: 11438216--11438702 Score: 485
Period size: 72 Copynumber: 6.5 Consensus size: 72
11438206 CTACTTTTTC
* ** ** * * *
11438216 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGATTCACATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-A-AGACACGTTGAGGTAATTTCAATTT
11438281 CTGTCTTTCAAAAAAA
64 CTG--TTTC-----AA
11438297 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
11438362 TGTTTC-A
65 TGTTTCAA
*
11438369 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCT
11438434 GTTTTC-A
66 G-TTTCAA
* * * * *
11438441 AAATTCAACTCATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC-
*
11438506 ATTTTTCAAAAAA
65 -TGTTTC----AA
* * * *
11438519 AAAATCAACTCATATTGTGAGAAATGAGTTGAGCTTCAAGACA-TTCTGAGGTATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT-TGAGGTAATTTCAATTTC
11438583 TGTTTTTCAAA
65 TG--TTTC-AA
** * * *
11438594 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCT
*
11438659 GTTGCCAA
66 GTT-TCAA
* * ***
11438667 AAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
11438703 TAGGTCACAC
Statistics
Matches: 358, Mismatches: 34, Indels: 36
0.84 0.08 0.08
Matches are distributed among these distances:
71 62 0.17
72 69 0.19
73 41 0.11
74 2 0.01
75 59 0.16
76 1 0.00
78 66 0.18
80 23 0.06
81 5 0.01
82 30 0.08
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (72 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCT
GTTTCAA
Found at i:11438474 original size:225 final size:223
Alignment explanation
Indices: 11438211--11438990 Score: 717
Period size: 225 Copynumber: 3.3 Consensus size: 223
11438201 AATTTCTACT
*
11438211 TTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGATTCACATGCTGAGGTATTTTC
1 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-A-TCACATGCTGAGGTATTTTC
*
11438276 AATTTCTGTCTTTCAAAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
64 AATTTCTGTTTTTCAAAAAAAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
*
11438341 CGT-TGAGGTAATTTCAATTTCTG-TTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGC
128 -GTCTGAGGTAATTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
* *
11438403 CTCAAGACACGTTGAGGTAATTTCAATTTCTG
192 CTCAAGACACGCTAAGGTAATTTCAATTTCTG
** * **
11438435 TTTTCAAAATTCAACTCATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCA
1 TTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATCACATGCTGAGGTATTTTCA
* * * *
11438500 ATTTCTATTTTTC-AAAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCTTCAAGACATT
65 ATTTCTGTTTTTCAAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAGT
* **
11438564 CTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
130 CTGAGGTAATTTCAATTTCTG-TTTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
*
11438629 TCAGGACACGCTAAGGTAATTTCAATTTCTG
193 TCAAGACACGCTAAGGTAATTTCAATTTCTG
** * * * * * *
11438660 TTGCCAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATTT
1 TTTTC--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--TCACATGCTGAGGTATTT
* **
11438725 TCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
62 TCAATTTCTGTTTTTCAA------------AAAAAAAAATCAACTCATATTGCGAGAAATGAGTT
** * * * *
11438790 GAGCCT-TGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTG
115 GAGCCTCAAG-ACA-G-TCTGAGGTAATTTCAATTTCTGT-TTTC-AAAAAATCAACTCATATTG
* ** * * * * * * *
11438854 CAAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATAT
175 CGAGAAATGAGTTGAGCCTCA-A-GACACGCTAAGGTA--ATTTCAATTTCT-G
* * *
11438908 TTTTCAAAGAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTAT
1 TTTTC--A-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--ATCACATGCT-GAGGTAT
**
11438972 TTTCAAAATCTGTTTTTCA
60 TTTCAATTTCTGTTTTTCA
11438991 GATTCTGTTT
Statistics
Matches: 454, Mismatches: 66, Indels: 47
0.80 0.12 0.08
Matches are distributed among these distances:
220 1 0.00
221 56 0.12
222 10 0.02
223 34 0.07
224 10 0.02
225 93 0.20
226 27 0.06
227 4 0.01
228 28 0.06
229 1 0.00
240 1 0.00
241 39 0.09
242 1 0.00
243 63 0.14
245 11 0.02
247 10 0.02
248 6 0.01
249 59 0.13
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (223 bp):
TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATCACATGCTGAGGTATTTTCAA
TTTCTGTTTTTCAAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAGTC
TGAGGTAATTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
AGACACGCTAAGGTAATTTCAATTTCTG
Done.