Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold363
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: 774241
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 50831 characters in sequence are not A, C, G, or T
File 2 of 4
Found at i:281849 original size:31 final size:29
Alignment explanation
Indices: 281808--281871 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 29
281798 TAAACACCAA
*
281808 AAAATTATTTTAAAAATAAAAAAATAAAAAT
1 AAAAGTATTTT-AAAAT-AAAAAATAAAAAT
*
281839 AAAAGTATTTTAAAATTAAAAATAAAAAT
1 AAAAGTATTTTAAAATAAAAAATAAAAAT
281868 AAAA
1 AAAA
281872 AATATATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 16 0.52
30 5 0.16
31 10 0.32
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (29 bp):
AAAAGTATTTTAAAATAAAAAATAAAAAT
Found at i:285252 original size:17 final size:18
Alignment explanation
Indices: 285230--285265 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
285220 TTGATATATT
285230 AATAAACTTG-GTTGTTA
1 AATAAACTTGTGTTGTTA
285247 AATAAACTTGTGTTGTTA
1 AATAAACTTGTGTTGTTA
285265 A
1 A
285266 GTGATTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.42
Consensus pattern (18 bp):
AATAAACTTGTGTTGTTA
Found at i:296666 original size:14 final size:16
Alignment explanation
Indices: 296647--296678 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
296637 CCCACAATGG
296647 ATACAT-TGG-AAATT
1 ATACATCTGGAAAATT
296661 ATACATCTGGAAAATT
1 ATACATCTGGAAAATT
296677 AT
1 AT
296679 TTTCAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.34
Consensus pattern (16 bp):
ATACATCTGGAAAATT
Found at i:301741 original size:13 final size:13
Alignment explanation
Indices: 301723--301748 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
301713 AGACTGATAA
301723 GAACAATTTTTAT
1 GAACAATTTTTAT
301736 GAACAATTTTTAT
1 GAACAATTTTTAT
301749 AAGATTCAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
GAACAATTTTTAT
Found at i:305009 original size:8 final size:8
Alignment explanation
Indices: 304994--305031 Score: 69
Period size: 8 Copynumber: 4.9 Consensus size: 8
304984 TTCCTTTTTT
304994 AATT-ATC
1 AATTCATC
305001 AATTCATC
1 AATTCATC
305009 AATTCATC
1 AATTCATC
305017 AATTCATC
1 AATTCATC
305025 AATTCAT
1 AATTCAT
305032 AATGATGAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 4 0.13
8 26 0.87
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (8 bp):
AATTCATC
Found at i:308073 original size:28 final size:28
Alignment explanation
Indices: 308026--308088 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
308016 ATTAATAATT
*
308026 TAATATAAATATATATTATTATT-TAACA
1 TAATATAAATATATAATATT-TTATAACA
*
308054 T-ATATAATTAATATAATATTTTATAACA
1 TAATATAAAT-ATATAATATTTTATAACA
308082 TAATATA
1 TAATATA
308089 TTCGAGCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 9 0.30
28 16 0.53
29 5 0.17
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TAATATAAATATATAATATTTTATAACA
Found at i:309449 original size:49 final size:49
Alignment explanation
Indices: 309356--309479 Score: 142
Period size: 49 Copynumber: 2.5 Consensus size: 49
309346 TTAGTTCACG
* * * *
309356 GTGGTTATACAATCATGGATTGAAGGATAACTAGGGCTACCAGTTGACA
1 GTGGTTATACAATCATGGGTTCAAGTATAACTAGGGCCACCAGTTGACA
* * * * *
309405 GTGGTTATACAATCACGGGTTCAAGTATAAGTCGGGCCATCAGTTGACG
1 GTGGTTATACAATCATGGGTTCAAGTATAACTAGGGCCACCAGTTGACA
*
309454 GTGGTTATGA-GATCATGGGTTCAAGT
1 GTGGTTAT-ACAATCATGGGTTCAAGT
309480 TTCATGCCAC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
49 62 0.98
50 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (49 bp):
GTGGTTATACAATCATGGGTTCAAGTATAACTAGGGCCACCAGTTGACA
Found at i:310357 original size:23 final size:24
Alignment explanation
Indices: 310276--310358 Score: 109
Period size: 23 Copynumber: 3.6 Consensus size: 24
310266 AGAAAGAAAG
*
310276 AAAATAACAAAGAATAAATTATT-
1 AAAATAACAAATAATAAATTATTC
*
310299 AAAAAAACAAATAATAAATTATTC
1 AAAATAACAAATAATAAATTATTC
*
310323 AAAATAA-TAATAATAAA-TATTC
1 AAAATAACAAATAATAAATTATTC
*
310345 AAAATAATAAATAA
1 AAAATAACAAATAA
310359 ATAACTAAAC
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
22 12 0.23
23 35 0.66
24 6 0.11
ACGTcount: A:0.67, C:0.05, G:0.01, T:0.27
Consensus pattern (24 bp):
AAAATAACAAATAATAAATTATTC
Found at i:310361 original size:20 final size:22
Alignment explanation
Indices: 310308--310361 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
310298 TAAAAAAACA
310308 AATAATAAATTATTCAAAATAAT
1 AATAATAAA-TATTCAAAATAAT
310331 AATAATAAATATTCAAAATAAT
1 AATAATAAATATTCAAAATAAT
310353 -A-AATAAATA
1 AATAATAAATA
310362 ACTAAACGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 8 0.26
21 1 0.03
22 13 0.42
23 9 0.29
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
AATAATAAATATTCAAAATAAT
Found at i:311291 original size:227 final size:229
Alignment explanation
Indices: 310942--311406 Score: 539
Period size: 227 Copynumber: 2.0 Consensus size: 229
310932 CGAGCTTTCG
* * * * * * * * **
310942 AGGGATTTAGCGGC-ATTTTCGTGAAAACGCCACAAAAAACCCTAAGACCAACGAGGTCGTTTTT
1 AGGGATTTAGCGGCGATTCT-GGGAAAGCACCGCAAAAAAACCTAAGACCAACGACGCCGTTTAC
* *
311006 TGAGCTTTCGGGGATTTAGCAGCGTTTTTAAGAAAGCGCTGCTAATGCTCAAGGCTTTAGCGGCG
65 TGAGCTTTCGGGGATTTAGCAGCATTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCG
* * *
311071 TTTTT-GGTAAAGCGCAACAAAAGAACCTAA-GCCAAACGATGCCGTTTACTGAGC-TTCGGGGC
130 TTTTTGGGAAAAGCGCAACAAAAGAACCTAAGGCC-AACGACGCCGTTTACTGAGCTTTCGGGGA
*
311133 TTTAGCGGCGTTTTTAAGT-AAGCGCCGCTAATGCTC
194 TTTAGCGGCGTTTTT-AGTAAAGCGCCACTAATGCTC
* *
311169 TGGGCTTTAGCGGCGATTCTGGGAAAGCACCGCAAAAAAACCTAA-ACCCAACGACGCCGTTTAC
1 AGGGATTTAGCGGCGATTCTGGGAAAGCACCGCAAAAAAACCTAAGA-CCAACGACGCCGTTTAC
* * * * *
311233 TGAGCTTTCGGGGCTTTAGC-GACATTTTTAGGTAAGCGCCGCTAATGCTTAGGGCTTTAGCGGC
65 TGAGCTTTCGGGGATTTAGCAG-CATTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGC
* * * * * * *
311297 GTTTTTGGGAAAAGCGCTACAAAGGGACCTAAGGCCAACGACGCTGTTTTCTTAGCTTTTGGGGA
129 GTTTTTGGGAAAAGCGCAACAAAAGAACCTAAGGCCAACGACGCCGTTTACTGAGCTTTCGGGGA
* * *
311362 TTTTGTGGTGTTTTTAGTAAAGCGCCACTAATGCTC
194 TTTAGCGGCGTTTTTAGTAAAGCGCCACTAATGCTC
311398 AGGGATTTA
1 AGGGATTTA
311407 AAATAATTTA
Statistics
Matches: 196, Mismatches: 35, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
226 2 0.01
227 106 0.54
228 44 0.22
229 44 0.22
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (229 bp):
AGGGATTTAGCGGCGATTCTGGGAAAGCACCGCAAAAAAACCTAAGACCAACGACGCCGTTTACT
GAGCTTTCGGGGATTTAGCAGCATTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGT
TTTTGGGAAAAGCGCAACAAAAGAACCTAAGGCCAACGACGCCGTTTACTGAGCTTTCGGGGATT
TAGCGGCGTTTTTAGTAAAGCGCCACTAATGCTC
Found at i:311295 original size:114 final size:114
Alignment explanation
Indices: 310973--311406 Score: 410
Period size: 113 Copynumber: 3.8 Consensus size: 114
310963 TGAAAACGCC
* * * ** *
310973 ACAAAAAACCCTAAGA-CCAACGAGGTCGTTTTTTGAGCTTTCGGGGATTTAGC-AGCGTTTTTA
1 ACAAAAAAACCTAA-ACCCAACGACGCCGTTTACTGAGCTTTCGGGGCTTTAGCGA-CGTTTTTA
* * * * * *
311036 AGAAAGCGCTGCTAATGCTCAAGGCTTTAGCGGCGTTTTTGGTAAAGCGCA
64 AGTAAGCGCCGCTAATGCTTAGGGCTTTAGCGGCGTTTTTGGGAAAGCACA
* * * * *
311087 ACAAAAGAACCTAAGCCAAACGATGCCGTTTACTGAGC-TTCGGGGCTTTAGCGGCGTTTTTAAG
1 ACAAAAAAACCTAAACCCAACGACGCCGTTTACTGAGCTTTCGGGGCTTTAGCGACGTTTTTAAG
* * *
311151 TAAGCGCCGCTAATGCTCT-GGGCTTTAGCGGCGATTCTGGGAAAGCACC
66 TAAGCGCCGCTAATGCT-TAGGGCTTTAGCGGCGTTTTTGGGAAAGCACA
* * *
311200 GCAAAAAAACCTAAACCCAACGACGCCGTTTACTGAGCTTTCGGGGCTTTAGCGACATTTTTAGG
1 ACAAAAAAACCTAAACCCAACGACGCCGTTTACTGAGCTTTCGGGGCTTTAGCGACGTTTTTAAG
* *
311265 TAAGCGCCGCTAATGCTTAGGGCTTTAGCGGCGTTTTTGGGAAAAGCGCT
66 TAAGCGCCGCTAATGCTTAGGGCTTTAGCGGCGTTTTTGGG-AAAGCACA
*** ** * * * * * * * **
311315 ACAAAGGGACCTAAGGCCAACGACGCTGTTTTCTTAGCTTTTGGGGATTTTGTGGTGTTTTT-AG
1 ACAAAAAAACCTAAACCCAACGACGCCGTTTACTGAGCTTTCGGGGCTTTAGCGACGTTTTTAAG
* * *
311379 TAAAGCGCCACTAATGCTCAGGGATTTA
66 T-AAGCGCCGCTAATGCTTAGGGCTTTA
311407 AAATAATTTA
Statistics
Matches: 262, Mismatches: 51, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
113 96 0.37
114 91 0.35
115 75 0.29
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (114 bp):
ACAAAAAAACCTAAACCCAACGACGCCGTTTACTGAGCTTTCGGGGCTTTAGCGACGTTTTTAAG
TAAGCGCCGCTAATGCTTAGGGCTTTAGCGGCGTTTTTGGGAAAGCACA
Found at i:311385 original size:115 final size:113
Alignment explanation
Indices: 310942--311406 Score: 468
Period size: 114 Copynumber: 4.1 Consensus size: 113
310932 CGAGCTTTCG
* * * * * * * * **
310942 AGGGATTTAGCGGCATTTTCGTGAAAACGCCACAAAA-AACCCTAAGACCAACGAGGTCGTTTTT
1 AGGGCTTTAGCGGCGTTTTTGGGAAAGCGCAACAAAAGAA-CCTAAG-CCAACGACGCCGTTTAC
* * * *
311006 TGAGCTTTCGGGGATTTAGCAGCGTTTTTAAGAAAGCGCTGCTAATGCTC
64 TGAGCTTTCGGGGCTTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTC
* * *
311056 AAGGCTTTAGCGGCGTTTTTGGTAAAGCGCAACAAAAGAACCTAAGCCAAACGATGCCGTTTACT
1 AGGGCTTTAGCGGCGTTTTTGGGAAAGCGCAACAAAAGAACCTAAGCC-AACGACGCCGTTTACT
311121 GAGC-TTCGGGGCTTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTC
65 GAGCTTTCGGGGCTTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTC
* * * * ** * *
311169 TGGGCTTTAGCGGCGATTCTGGGAAAGCACCGCAAAAAAACCTAAACCCAACGACGCCGTTTACT
1 AGGGCTTTAGCGGCGTTTTTGGGAAAGCGCAACAAAAGAACCT-AAGCCAACGACGCCGTTTACT
* * * *
311234 GAGCTTTCGGGGCTTTAGCGACATTTTTAGGTAAGCGCCGCTAATGCTT
65 GAGCTTTCGGGGCTTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTC
* * * * *
311283 AGGGCTTTAGCGGCGTTTTTGGGAAAAGCGCTACAAAGGGACCTAAGGCCAACGACGCTGTTTTC
1 AGGGCTTTAGCGGCGTTTTTGGG-AAAGCGCAACAAAAGAACCTAA-GCCAACGACGCCGTTTAC
* * * * * * *
311348 TTAGCTTTTGGGGATTTTGTGGTGTTTTT-AGTAAAGCGCCACTAATGCTC
64 TGAGCTTTCGGGGCTTTAGCGGCGTTTTTAAGT-AAGCGCCGCTAATGCTC
*
311398 AGGGATTTA
1 AGGGCTTTA
311407 AAATAATTTA
Statistics
Matches: 289, Mismatches: 55, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
113 95 0.33
114 119 0.41
115 75 0.26
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (113 bp):
AGGGCTTTAGCGGCGTTTTTGGGAAAGCGCAACAAAAGAACCTAAGCCAACGACGCCGTTTACTG
AGCTTTCGGGGCTTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTC
Found at i:311679 original size:15 final size:14
Alignment explanation
Indices: 311659--311726 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
311649 AAGTTTTATA
311659 GATTATGGAATTAAG
1 GATTATGG-ATTAAG
*
311674 GATTATGGATTAGG
1 GATTATGGATTAAG
* *
311688 GATTTTGGTTTAAG
1 GATTATGGATTAAG
*
311702 GGTTAATGTGATTTAAG
1 GATT-ATG-GA-TTAAG
*
311719 GTTTATGG
1 GATTATGG
311727 GTTCAGGGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
14 19 0.45
15 11 0.26
16 4 0.10
17 8 0.19
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (14 bp):
GATTATGGATTAAG
Found at i:311875 original size:14 final size:14
Alignment explanation
Indices: 311850--311889 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
311840 ATATATTAAA
*
311850 TAAGGTTTAGGGGT
1 TAAGGGTTAGGGGT
*
311864 TATGGGTTAGGGGT
1 TAAGGGTTAGGGGT
311878 TAAGGGTTAGGG
1 TAAGGGTTAGGG
311890 ATTTTGGATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (14 bp):
TAAGGGTTAGGGGT
Found at i:311883 original size:8 final size:7
Alignment explanation
Indices: 311856--311889 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
311846 TAAATAAGGT
311856 TTAGGGG
1 TTAGGGG
*
311863 TTATGGG
1 TTAGGGG
311870 TTAGGGG
1 TTAGGGG
*
311877 TTAAGGG
1 TTAGGGG
311884 TTAGGG
1 TTAGGG
311890 ATTTTGGATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.50, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:312013 original size:83 final size:84
Alignment explanation
Indices: 311870--312120 Score: 296
Period size: 83 Copynumber: 3.0 Consensus size: 84
311860 GGGTTATGGG
*
311870 TTAGGGGTTAAGGGTTAGGGATTTTGGATCGGGTTATGGTTTAGGGTTTAGATTAATTAGTATTT
1 TTAGGGGTTAAGGGTTAGGGA-TTT-G---GGGTTAGGGTTTAGGGTTTAGATTAATTAGTATTT
*
311935 TTTAATTTATATATTAAATAAAGT
61 TTTAATTTATATATTAAATAAAAT
** *
311959 TTAGGGGTTAAGGGTTAGGGATTTGGGGCCA-GGTTTAGGGTTTAGATTAATTAGTATTTGTTAA
1 TTAGGGGTTAAGGGTTAGGGATTTGGGGTTAGGGTTTAGGGTTTAGATTAATTAGTATTTTTTAA
312023 TTTATATATTAAATAAAAT
66 TTTATATATTAAATAAAAT
* * * * * * *
312042 TTAGGGGTT-AGGGATTTA--GA-GTCGAGTTAGGGTTTAAGATTTAGATTAATCAGTACTTTTT
1 TTAGGGGTTAAGGG--TTAGGGATTTGGGGTTAGGGTTTAGGGTTTAGATTAATTAGTATTTTTT
312103 AATTTATATATTAAATAA
64 AATTTATATATTAAATAA
312121 GTTCTTTATA
Statistics
Matches: 145, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
81 4 0.03
82 50 0.34
83 59 0.41
84 7 0.05
87 1 0.01
88 3 0.02
89 21 0.14
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.43
Consensus pattern (84 bp):
TTAGGGGTTAAGGGTTAGGGATTTGGGGTTAGGGTTTAGGGTTTAGATTAATTAGTATTTTTTAA
TTTATATATTAAATAAAAT
Found at i:312390 original size:84 final size:84
Alignment explanation
Indices: 312309--312475 Score: 244
Period size: 84 Copynumber: 2.0 Consensus size: 84
312299 TTTGCCAAAG
* * * *
312309 CGGCGCCGTTTCTTTACTGGAATAAAATCTTTTAGTGGCGTTTTGTAGGAAAACGCCGCAAAAGT
1 CGGCGCCGTTTCTCTACTCGAATAAAATCTTATAGTGGCGTTTTGTAAGAAAACGCCGCAAAAGT
312374 GAATTAATGTTGGCCAATA
66 GAATTAATGTTGGCCAATA
* * * * *
312393 TGGCGCCGTTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACGCTGCAAGAGT
1 CGGCGCCGTTTCTCTACTCGAATAAAATCTTATAGTGGCGTTTTGTAAGAAAACGCCGCAAAAGT
*
312458 GAATTAATGTTTGCCAAT
66 GAATTAATGTTGGCCAAT
312476 GTGACTCAGT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 73 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (84 bp):
CGGCGCCGTTTCTCTACTCGAATAAAATCTTATAGTGGCGTTTTGTAAGAAAACGCCGCAAAAGT
GAATTAATGTTGGCCAATA
Found at i:312528 original size:84 final size:84
Alignment explanation
Indices: 312323--312537 Score: 201
Period size: 84 Copynumber: 2.6 Consensus size: 84
312313 GCCGTTTCTT
* * * *
312323 TACTGGAATAAAATCTTTTAGTGGCG-TTTTGTAGGAAAACGCCGCAAAAGTGAATTAATGTTGG
1 TACTCGAATGAAATCTTATACTGGCGTTTTTGTA-GAAAACGCCGCAAAAGTGAATTAATGTTGG
* * *
312387 CCAATATGGCGCCGTTTCTC
65 CCAATATGACGCAGTTTCGC
* * * *
312407 TACTCGAATGAAATCTTATAGTGGCGTTTTT-TAAGAAAACGCTGCAAGAGTGAATTAATGTTTG
1 TACTCGAATGAAATCTTATACTGGCGTTTTTGT-AGAAAACGCCGCAAAAGTGAATTAATGTTGG
* * *
312471 CCAATGTGACTCAGTTTGGC
65 CCAATATGACGCAGTTTCGC
*
312491 TTCAT-GAAATG-AAT-TTATACTGGCGTTTTTGCTAG-AAACGCCG-AAAA
1 TAC-TCG-AATGAAATCTTATACTGGCGTTTTTG-TAGAAAACGCCGCAAAA
312538 TATGCATTAA
Statistics
Matches: 109, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
82 3 0.03
83 22 0.20
84 73 0.67
85 11 0.10
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (84 bp):
TACTCGAATGAAATCTTATACTGGCGTTTTTGTAGAAAACGCCGCAAAAGTGAATTAATGTTGGC
CAATATGACGCAGTTTCGC
Found at i:312880 original size:84 final size:82
Alignment explanation
Indices: 312753--313002 Score: 218
Period size: 84 Copynumber: 3.0 Consensus size: 82
312743 CGCCGTTTTT
* * * *** * *
312753 ATGTTTTAAAATTTGTCAAAACGGCGCCGTTTATCTTGAGGAATGAAATATTCTTGTGGCAATTT
1 ATGTATTAAAATTTG-CCAAACGGCGCCGTTTCTCTACTGGAATGAAATATTATAGTGGC-ATTT
*
312818 TGATA-AAAACGC-CACAAGG
64 T-ATAGAAAACGCGCA-AAAG
* * * *
312837 ATGTATTAAAATTTGCCAAAGCAGCGCCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTT
1 ATGTATTAAAATTTGCCAAA-CGGCGCCGTTTCTCTACTGGAATGAAATATTATAGTGGCATTTT
312902 ATAGGAAAACGCTGCAAAAG
65 ATA-GAAAACGC-GCAAAAG
* ** * *
312922 -TGAATTAATGTTTGCCAATACGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTT
1 ATGTATTAAAATTTGCCAA-ACGGCGCCGTTTCTCTACTGGAATGAAATATTATAGTGGCATTTT
*
312986 TTAAGAAAACGCCGCAA
65 AT-AGAAAACG-CGCAA
313003 GTGTGAATTA
Statistics
Matches: 139, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
82 3 0.02
83 8 0.06
84 120 0.86
85 6 0.04
86 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (82 bp):
ATGTATTAAAATTTGCCAAACGGCGCCGTTTCTCTACTGGAATGAAATATTATAGTGGCATTTTA
TAGAAAACGCGCAAAAG
Found at i:313009 original size:84 final size:84
Alignment explanation
Indices: 312848--313069 Score: 279
Period size: 84 Copynumber: 2.7 Consensus size: 84
312838 TGTATTAAAA
* * *
312848 TTTGCCAA-AGCAGCGCCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTATAGGAAAAC
1 TTTGCCAATA-CAGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAAGAAAAC
*
312912 GCTGCAAAAGTGAATTAATG
65 GCCGCAAAAGTGAATTAATG
*
312932 TTTGCCAATACGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACG
1 TTTGCCAATACAGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACG
**
312997 CCGCAAGTGTGAATTAATG
66 CCGCAAAAGTGAATTAATG
* * * * * * *
313016 TTTGTCAATGCAGCACCGTTTCGCTTCATGAAATG-AAT-TTATACTGGCGTTTTT
1 TTTGCCAATACAGCGCCGTTTCTCTAC-TGGAATGAAATCTTATAGTGGCGTTTTT
313070 GCTAGAAACG
Statistics
Matches: 121, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
83 15 0.12
84 99 0.82
85 7 0.06
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (84 bp):
TTTGCCAATACAGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACG
CCGCAAAAGTGAATTAATG
Found at i:314491 original size:31 final size:33
Alignment explanation
Indices: 314444--314518 Score: 84
Period size: 35 Copynumber: 2.3 Consensus size: 33
314434 ATTTTTAAGT
314444 ATATATTACACTAC-T-TACACTACTTACTGAA
1 ATATATTACACTACTTATACACTACTTACTGAA
* *
314475 ATATATTACA-TAACTTAAATACATTACTTACTTAA
1 ATATATTACACT-ACTT--ATACACTACTTACTGAA
314510 ATATATTAC
1 ATATATTAC
314519 TTAAATACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
30 1 0.03
31 12 0.32
32 1 0.03
35 23 0.62
ACGTcount: A:0.43, C:0.17, G:0.01, T:0.39
Consensus pattern (33 bp):
ATATATTACACTACTTATACACTACTTACTGAA
Found at i:314497 original size:13 final size:13
Alignment explanation
Indices: 314481--314547 Score: 62
Period size: 13 Copynumber: 4.8 Consensus size: 13
314471 TGAAATATAT
314481 TACATAACTTAAA
1 TACATAACTTAAA
314494 TACATTACTTACTTAAA
1 TACA-TA---ACTTAAA
* *
314511 TATATTACTTAAA
1 TACATAACTTAAA
*
314524 TACATGACTTAAA
1 TACATAACTTAAA
*
314537 TACATGACTTA
1 TACATAACTTA
314548 CTAAAATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
13 33 0.72
14 2 0.04
16 1 0.02
17 10 0.22
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (13 bp):
TACATAACTTAAA
Found at i:314509 original size:17 final size:17
Alignment explanation
Indices: 314459--314521 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
314449 TTACACTACT
* *
314459 TACACTACTTACTGAAA
1 TACATTACTTACTTAAA
* *
314476 TATATTACATAACTTAAA
1 TACATTAC-TTACTTAAA
314494 TACATTACTTACTTAAA
1 TACATTACTTACTTAAA
*
314511 TATATTACTTA
1 TACATTACTTA
314522 AATACATGAC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
17 24 0.63
18 14 0.37
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.40
Consensus pattern (17 bp):
TACATTACTTACTTAAA
Found at i:314571 original size:43 final size:45
Alignment explanation
Indices: 314475--314600 Score: 117
Period size: 43 Copynumber: 3.0 Consensus size: 45
314465 ACTTACTGAA
*
314475 ATATATTACATAACTTAAATACATTACTTACTTAAATATATTACT
1 ATATATTACATAACTTAAATACATGACTTACTTAAATATATTACT
* * *
314520 -TA-AATACATGACTTAAATACATGACTTAC-TAAA-AT-TTAAGT
1 ATATATTACATAACTTAAATACATGACTTACTTAAATATATT-ACT
* * *
314561 ATATATTACATTAC-T---TACATTACTTACTAAAATATATTAC
1 ATATATTACATAACTTAAATACATGACTTACTTAAATATATTAC
314601 ATTACTTAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
39 11 0.17
40 5 0.08
41 7 0.11
42 9 0.14
43 32 0.48
44 2 0.03
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.40
Consensus pattern (45 bp):
ATATATTACATAACTTAAATACATGACTTACTTAAATATATTACT
Found at i:314624 original size:26 final size:26
Alignment explanation
Indices: 314497--314624 Score: 69
Period size: 26 Copynumber: 5.1 Consensus size: 26
314487 ACTTAAATAC
314497 ATTAC-TTACTTAAATATATTAC-TT
1 ATTACATTACTTAAATATATTACATT
* * * *
314521 AAATACATGACTTAAATACATGAC-TT
1 -ATTACATTACTTAAATATATTACATT
* * *
314547 ACTA-A-AATTTAAGTATATATTACATT
1 ATTACATTACTTAA--ATATATTACATT
*
314573 ACTTACATTACTT-ACTA-A--A-ATAT
1 A-TTACATTACTTAAATATATTACAT-T
314596 ATTACATTACTTAAATATATTACATT
1 ATTACATTACTTAAATATATTACATT
314622 ATT
1 ATT
314625 TAAAATTTAT
Statistics
Matches: 76, Mismatches: 14, Indels: 25
0.66 0.12 0.22
Matches are distributed among these distances:
22 13 0.17
23 11 0.14
24 2 0.03
25 15 0.20
26 26 0.34
27 4 0.05
28 2 0.03
29 3 0.04
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.42
Consensus pattern (26 bp):
ATTACATTACTTAAATATATTACATT
Found at i:314627 original size:18 final size:18
Alignment explanation
Indices: 314467--314628 Score: 78
Period size: 18 Copynumber: 8.5 Consensus size: 18
314457 CTTACACTAC
*
314467 TTACTGAAATATATTACA
1 TTACTTAAATATATTACA
* *
314485 TAACTTAAATACATTAC-
1 TTACTTAAATATATTACA
314502 TTACTTAAATATATTACTTAAA
1 TTACTTAAATATATTAC----A
* *
314524 TACATGACTTAAATACATGAC-
1 T---T-ACTTAAATATATTACA
* * *
314545 TTACTAAAATTTAAGTATATA
1 TTACTTAAATAT-A-T-TACA
** *
314566 TTACATTACTTACATTAC-
1 TTAC-TTAAATATATTACA
*
314584 TTACTAAAATATATTACA
1 TTACTTAAATATATTACA
314602 TTACTTAAATATATTACA
1 TTACTTAAATATATTACA
*
314620 TTATTTAAA
1 TTACTTAAA
314629 ATTTATATAC
Statistics
Matches: 105, Mismatches: 24, Indels: 30
0.66 0.15 0.19
Matches are distributed among these distances:
17 31 0.30
18 45 0.43
19 3 0.03
20 2 0.02
21 6 0.06
22 4 0.04
25 1 0.01
26 13 0.12
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.41
Consensus pattern (18 bp):
TTACTTAAATATATTACA
Found at i:314901 original size:20 final size:20
Alignment explanation
Indices: 314876--314928 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
314866 CTTATATATA
314876 AACTTACATAATAACATAAT
1 AACTTACATAATAACATAAT
314896 AACTTACATAATAACATAAT
1 AACTTACATAATAACATAAT
314916 AACTTACATAATA
1 AACTTACATAATA
314929 CACAACTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (20 bp):
AACTTACATAATAACATAAT
Found at i:314906 original size:12 final size:12
Alignment explanation
Indices: 314862--314928 Score: 53
Period size: 12 Copynumber: 6.2 Consensus size: 12
314852 CTATACTTAC
*
314862 ATAACTTATAT-
1 ATAACTTACATA
314873 ATAAACTTACATA
1 AT-AACTTACATA
314886 AT-A---ACATA
1 ATAACTTACATA
314894 ATAACTTACATA
1 ATAACTTACATA
314906 AT-A---ACATA
1 ATAACTTACATA
314914 ATAACTTACATA
1 ATAACTTACATA
314926 ATA
1 ATA
314929 CACAACTTAC
Statistics
Matches: 45, Mismatches: 1, Indels: 19
0.69 0.02 0.29
Matches are distributed among these distances:
8 14 0.31
9 2 0.04
11 4 0.09
12 23 0.51
13 2 0.04
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:314937 original size:16 final size:16
Alignment explanation
Indices: 314916--315179 Score: 67
Period size: 16 Copynumber: 16.4 Consensus size: 16
314906 ATAACATAAT
314916 AACTTACATAATACAC
1 AACTTACATAATACAC
* *
314932 AACTTACATAACTTAAAT
1 AACTTACATAA--TACAC
* *
314950 AACTTACATAGTACAT
1 AACTTACATAATACAC
*
314966 AACTT---TGAT----
1 AACTTACATAATACAC
* *
314975 AACTAACATTATACAC
1 AACTTACATAATACAC
314991 AACTTACATAACATACAC
1 AACTTACAT-A-ATACAC
* *
315009 TTAA-ATACATAACTTACAT
1 --AACTTACATAA--TACAC
*
315028 AACTTAAATAATACAC
1 AACTTACATAATACAC
* *
315044 AACTTAATTAATATTATACAT
1 AACTT-A--CATA--ATACAC
* *
315065 AACATACATAATACAT
1 AACTTACATAATACAC
315081 AA--TACATAATACAC
1 AACTTACATAATACAC
315095 AACTTA-AT--TA-A-
1 AACTTACATAATACAC
* * *
315106 TATTATACATAACATACAT
1 AACT-TACAT-A-ATACAC
315125 AA--TACATAATACAC
1 AACTTACATAATACAC
* *
315139 ATAACTTACATAGTACAT
1 --AACTTACATAATACAC
*
315157 AACTAACATAATACAC
1 AACTTACATAATACAC
315173 AACTTAC
1 AACTTAC
315180 GTAACTTAAA
Statistics
Matches: 184, Mismatches: 29, Indels: 70
0.65 0.10 0.25
Matches are distributed among these distances:
9 4 0.02
11 2 0.01
12 6 0.03
13 6 0.03
14 18 0.10
15 3 0.02
16 73 0.40
17 6 0.03
18 40 0.22
19 14 0.08
20 3 0.02
21 9 0.05
ACGTcount: A:0.50, C:0.19, G:0.01, T:0.30
Consensus pattern (16 bp):
AACTTACATAATACAC
Found at i:314939 original size:9 final size:9
Alignment explanation
Indices: 314914--315296 Score: 144
Period size: 9 Copynumber: 44.7 Consensus size: 9
314904 TAATAACATA
314914 ATAACTTAC
1 ATAACTTAC
314923 ATAA--TAC
1 ATAACTTAC
*
314930 ACAACTTAC
1 ATAACTTAC
*
314939 ATAACTTAA
1 ATAACTTAC
314948 ATAACTTAC
1 ATAACTTAC
*
314957 AT-A-GTAC
1 ATAACTTAC
**
314964 ATAACTTTG
1 ATAACTTAC
*
314973 ATAACTAAC
1 ATAACTTAC
*
314982 ATTA--TAC
1 ATAACTTAC
*
314989 ACAACTTAC
1 ATAACTTAC
*
314998 ATAACATAC
1 ATAACTTAC
*
315007 ACTTAA-ATAC
1 A--TAACTTAC
315017 ATAACTTAC
1 ATAACTTAC
*
315026 ATAACTTAA
1 ATAACTTAC
315035 ATAA--TAC
1 ATAACTTAC
*
315042 ACAACTTA-
1 ATAACTTAC
*
315050 ATTAATATTATAC
1 A-T-A-ACT-TAC
*
315063 ATAACATAC
1 ATAACTTAC
315072 ATAA--TAC
1 ATAACTTAC
315079 ATAA--TAC
1 ATAACTTAC
315086 ATAA--TAC
1 ATAACTTAC
*
315093 ACAACTTA-
1 ATAACTTAC
*
315101 ATTAATATTATAC
1 A-T-A-ACT-TAC
*
315114 ATAACATAC
1 ATAACTTAC
315123 ATAA--TAC
1 ATAACTTAC
*
315130 ATAA-TACAC
1 ATAACT-TAC
315139 ATAACTTAC
1 ATAACTTAC
*
315148 AT-A-GTAC
1 ATAACTTAC
*
315155 ATAACTAAC
1 ATAACTTAC
315164 ATAA--TAC
1 ATAACTTAC
*
315171 ACAACTTAC
1 ATAACTTAC
* *
315180 GTAACTTAA
1 ATAACTTAC
315189 ATAACTTAC
1 ATAACTTAC
* * *
315198 GTAGCTTAA
1 ATAACTTAC
315207 ATAA--TAC
1 ATAACTTAC
315214 ATAACTTAC
1 ATAACTTAC
*
315223 ATAACTTAT
1 ATAACTTAC
315232 ATAA--TAC
1 ATAACTTAC
315239 ATAACTTAC
1 ATAACTTAC
* *
315248 ACAATTTAC
1 ATAACTTAC
*
315257 CTAA--TAC
1 ATAACTTAC
*
315264 ATAA-TTAT
1 ATAACTTAC
* *
315272 ATATCATATC
1 ATAACTTA-C
315282 ATAACTTAC
1 ATAACTTAC
315291 ATAACT
1 ATAACT
315297 CATTTATAGT
Statistics
Matches: 276, Mismatches: 61, Indels: 74
0.67 0.15 0.18
Matches are distributed among these distances:
7 75 0.27
8 14 0.05
9 154 0.56
10 16 0.06
11 9 0.03
12 6 0.02
13 2 0.01
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:314964 original size:25 final size:26
Alignment explanation
Indices: 314936--315050 Score: 101
Period size: 25 Copynumber: 4.5 Consensus size: 26
314926 ATACACAACT
*
314936 TACATAACTTAAATAACTTACA-TAG
1 TACATAACTTAAATAACTTACATTAA
** *
314961 TACATAACTTTGATAACTAACATT-A
1 TACATAACTTAAATAACTTACATTAA
* * *
314986 TACACAACTTACATAACATACACTTAAA
1 TACATAACTTAAATAACTTACA-TT-AA
* *
315014 TACATAACTTACATAACTTA-AATAA
1 TACATAACTTAAATAACTTACATTAA
*
315039 TACACAACTTAA
1 TACATAACTTAA
315051 TTAATATTAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
25 48 0.67
26 4 0.06
27 1 0.01
28 19 0.26
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (26 bp):
TACATAACTTAAATAACTTACATTAA
Found at i:315030 original size:53 final size:55
Alignment explanation
Indices: 314906--315142 Score: 188
Period size: 51 Copynumber: 4.6 Consensus size: 55
314896 AACTTACATA
* * *
314906 ATAACATA-ATAACTTACATAA-TACACA-ACTTACATAACTTAAATAAC-TT--AC
1 ATAACATACATAACTTACATAACTA-ACATA-ATACACAACTTAATTAACATTACAC
* ** *
314957 AT-A-GTACATAACTTTGATAACTAACATTATACACAACTTACA-TAACA-TACAC
1 ATAACATACATAACTTACATAACTAACATAATACACAACTTA-ATTAACATTACAC
* * *
315009 TTAA-ATACATAACTTACATAACTTAA-ATAATACACAACTTAATTAATATTATAC
1 ATAACATACATAACTTACATAAC-TAACATAATACACAACTTAATTAACATTACAC
* *
315063 ATAACATACATAA--TACATAA-T-ACATAATACACAACTTAATTAATATTATAC
1 ATAACATACATAACTTACATAACTAACATAATACACAACTTAATTAACATTACAC
315114 ATAACATACATAA--TACATAA-TACACATAA
1 ATAACATACATAACTTACATAACTA-ACATAA
315143 CTTACATAGT
Statistics
Matches: 157, Mismatches: 14, Indels: 28
0.79 0.07 0.14
Matches are distributed among these distances:
49 2 0.01
50 31 0.20
51 55 0.35
52 4 0.03
53 47 0.30
54 10 0.06
55 8 0.05
ACGTcount: A:0.51, C:0.18, G:0.01, T:0.30
Consensus pattern (55 bp):
ATAACATACATAACTTACATAACTAACATAATACACAACTTAATTAACATTACAC
Found at i:315072 original size:30 final size:30
Alignment explanation
Indices: 315038--315123 Score: 93
Period size: 23 Copynumber: 3.2 Consensus size: 30
315028 AACTTAAATA
315038 ATACACAACTTAATTAATATTATACATAAC
1 ATACACAACTTAATTAATATTATACATAAC
315068 AT--AC-A--TAA-TACATA--ATACAT-A-
1 ATACACAACTTAATTA-ATATTATACATAAC
315089 ATACACAACTTAATTAATATTATACATAAC
1 ATACACAACTTAATTAATATTATACATAAC
315119 ATACA
1 ATACA
315124 TAATACATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 22
0.67 0.00 0.33
Matches are distributed among these distances:
21 2 0.04
22 1 0.02
23 8 0.18
24 3 0.07
25 6 0.13
26 6 0.13
27 3 0.07
28 8 0.18
29 1 0.02
30 7 0.16
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.31
Consensus pattern (30 bp):
ATACACAACTTAATTAATATTATACATAAC
Found at i:315080 original size:7 final size:7
Alignment explanation
Indices: 315068--315171 Score: 61
Period size: 7 Copynumber: 13.7 Consensus size: 7
315058 TATACATAAC
315068 ATACATA
1 ATACATA
315075 ATACATA
1 ATACATA
315082 ATACATA
1 ATACATA
*
315089 ATACACA
1 ATACATA
315096 ACTTA-ATTA
1 A--TACA-TA
*
315105 AT--ATT
1 ATACATA
315110 ATACATAA
1 ATACAT-A
315118 CATACATA
1 -ATACATA
315126 ATACATA
1 ATACATA
315133 ATACACATA
1 AT--ACATA
315142 ACTTACATA
1 A--TACATA
*
315151 GTACATA
1 ATACATA
315158 ACTAACATA
1 A-T-ACATA
315167 ATACA
1 ATACA
315172 CAACTTACGT
Statistics
Matches: 78, Mismatches: 6, Indels: 26
0.71 0.05 0.24
Matches are distributed among these distances:
5 3 0.04
6 1 0.01
7 42 0.54
8 4 0.05
9 27 0.35
11 1 0.01
ACGTcount: A:0.53, C:0.17, G:0.01, T:0.29
Consensus pattern (7 bp):
ATACATA
Found at i:315095 original size:51 final size:51
Alignment explanation
Indices: 315035--315137 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
315025 CATAACTTAA
315035 ATAATACACAACTTAATTAATATTATACATAACATACATAATACATAATAC
1 ATAATACACAACTTAATTAATATTATACATAACATACATAATACATAATAC
315086 ATAATACACAACTTAATTAATATTATACATAACATACATAATACATAATAC
1 ATAATACACAACTTAATTAATATTATACATAACATACATAATACATAATAC
315137 A
1 A
315138 CATAACTTAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (51 bp):
ATAATACACAACTTAATTAATATTATACATAACATACATAATACATAATAC
Found at i:315155 original size:25 final size:25
Alignment explanation
Indices: 314900--315167 Score: 98
Period size: 25 Copynumber: 10.6 Consensus size: 25
314890 CATAATAACT
*
314900 TACATAATAACATAATAACTTACATAA
1 TACATAAT-ACA-CATAACTTACATAA
* * *
314927 TACACAACT-TACATAACTTAAATAA
1 TACATAA-TACACATAACTTACATAA
* **
314952 CTTACATAGT--ACATAACTTTGATAA
1 --TACATAATACACATAACTTACATAA
*
314977 CTAACATTATACAC--AACTTACATAACA
1 -T-ACATAATACACATAACTTACAT-A-A
*
315004 TACACTTAA-ATACATAACTTACATAA
1 TACA--TAATACACATAACTTACATAA
*
315030 CTTAAATAATACAC--AACTTA-AT--
1 --TACATAATACACATAACTTACATAA
* * *
315052 TA-ATATTATACATAACATACATAA
1 TACATAATACACATAACTTACATAA
* * *
315076 TACATAATACATAATACAC-AACTTAA
1 TACATAATACA-CATA-ACTTACATAA
* * *
315102 TTA-ATATTATACATAACATACATAA
1 -TACATAATACACATAACTTACATAA
*
315127 TACATAATACACATAACTTACATAG
1 TACATAATACACATAACTTACATAA
315152 TACATAACTA-ACATAA
1 TACATAA-TACACATAA
315168 TACACAACTT
Statistics
Matches: 180, Mismatches: 34, Indels: 56
0.67 0.13 0.21
Matches are distributed among these distances:
19 7 0.04
20 2 0.01
21 5 0.03
22 2 0.01
24 9 0.05
25 91 0.51
26 27 0.15
27 24 0.13
28 13 0.07
ACGTcount: A:0.51, C:0.18, G:0.01, T:0.30
Consensus pattern (25 bp):
TACATAATACACATAACTTACATAA
Found at i:315217 original size:25 final size:25
Alignment explanation
Indices: 315189--315267 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
315179 CGTAACTTAA
* *
315189 ATAACTTACGTAGCTTAAATAATAC
1 ATAACTTACATAACTTAAATAATAC
*
315214 ATAACTTACATAACTTATATAATAC
1 ATAACTTACATAACTTAAATAATAC
* * **
315239 ATAACTTACACAATTTACCTAATAC
1 ATAACTTACATAACTTAAATAATAC
315264 ATAA
1 ATAA
315268 TTATATATCA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.33
Consensus pattern (25 bp):
ATAACTTACATAACTTAAATAATAC
Found at i:317194 original size:21 final size:21
Alignment explanation
Indices: 317168--317208 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
317158 AAGATATTTT
*
317168 CTGCAGCGAGGGAAGCAGAGG
1 CTGCAGCGAGAGAAGCAGAGG
317189 CTGCAGCGAGAGAAGCAGAG
1 CTGCAGCGAGAGAAGCAGAG
317209 CAGAGCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.20, G:0.44, T:0.05
Consensus pattern (21 bp):
CTGCAGCGAGAGAAGCAGAGG
Found at i:317616 original size:43 final size:43
Alignment explanation
Indices: 317556--317734 Score: 214
Period size: 43 Copynumber: 4.2 Consensus size: 43
317546 AAACAATAGT
**
317556 GGCGTTTGTGAGGGAAGCGCCGCTAAAGAACATGACCTTTAGC
1 GGCGTTTGTGACAGAAGCGCCGCTAAAGAACATGACCTTTAGC
* * *
317599 GGCGTTTGTTATAGAAGCGCCGCTGAAGAACATGACCTTTAGC
1 GGCGTTTGTGACAGAAGCGCCGCTAAAGAACATGACCTTTAGC
* * * *
317642 AGCGTTTGTGACAGAGGCACCGCTAAAGAACATGACCATTAGC
1 GGCGTTTGTGACAGAAGCGCCGCTAAAGAACATGACCTTTAGC
* ** * **
317685 GGGGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGTCTTTAGC
1 GGCGTTTGTGACAGAAGCGCCGCTAAAGAACATGACCTTTAGC
*
317728 GGTGTTT
1 GGCGTTT
317735 ATAAAAATAA
Statistics
Matches: 114, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 114 1.00
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (43 bp):
GGCGTTTGTGACAGAAGCGCCGCTAAAGAACATGACCTTTAGC
Found at i:318912 original size:16 final size:17
Alignment explanation
Indices: 318891--318926 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
318881 TGTCTTCGGC
*
318891 TTTCTCTGTTTTA-ATT
1 TTTCTCTCTTTTAGATT
318907 TTTCTCTCTTTTAGATT
1 TTTCTCTCTTTTAGATT
318924 TTT
1 TTT
318927 TAACATTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.11, C:0.14, G:0.06, T:0.69
Consensus pattern (17 bp):
TTTCTCTCTTTTAGATT
Found at i:319974 original size:80 final size:81
Alignment explanation
Indices: 319841--320002 Score: 308
Period size: 80 Copynumber: 2.0 Consensus size: 81
319831 GCTATAGTTG
*
319841 GAAAATCCATGTTCAGAAACCCAGAAAAAACAATGTATAGAGTTTACCCACCATGAATTTTGCAG
1 GAAAAACCATGTTCAGAAACCCAGAAAAAACAATGTATAGAGTTTACCCACCATGAATTTTGCAG
319906 AT-AAAAAAAAAGAAA
66 ATAAAAAAAAAAGAAA
319921 GAAAAACCATGTTCAGAAACCCAGAAAAAACAATGTATAGAGTTTACCCACCATGAATTTTGCAG
1 GAAAAACCATGTTCAGAAACCCAGAAAAAACAATGTATAGAGTTTACCCACCATGAATTTTGCAG
319986 ATAAAAAAAAAAGAAA
66 ATAAAAAAAAAAGAAA
320002 G
1 G
320003 TATACATGGG
Statistics
Matches: 80, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
80 66 0.82
81 14 0.17
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.19
Consensus pattern (81 bp):
GAAAAACCATGTTCAGAAACCCAGAAAAAACAATGTATAGAGTTTACCCACCATGAATTTTGCAG
ATAAAAAAAAAAGAAA
Found at i:320615 original size:45 final size:44
Alignment explanation
Indices: 320535--320625 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 44
320525 ACCTCTATTC
320535 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
* *
320579 CATTCAACCAAACA-ATTGATTTGCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACA-AGA-TTACTATTACGCCTCTATTCCATTA
320624 CA
1 CA
320626 CCTCTATTCC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 16 0.37
45 26 0.60
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
Found at i:320629 original size:16 final size:16
Alignment explanation
Indices: 320604--320657 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
320594 TTGATTTGCT
*
320604 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
320620 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
320636 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
320652 AATACA
1 ATTACA
320658 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.26, C:0.35, G:0.04, T:0.35
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:320772 original size:29 final size:26
Alignment explanation
Indices: 320730--320785 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 26
320720 GCATTCACCA
320730 TATTATATATATATATATATTAATAATTT
1 TATTATATATATATA-ATATT--TAATTT
320759 TATTATATCA-ATATAATATTTAATTT
1 TATTATAT-ATATATAATATTTAATTT
320785 T
1 T
320786 CTTCATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 7 0.27
28 5 0.19
29 13 0.50
30 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
TATTATATATATATAATATTTAATTT
Found at i:327815 original size:21 final size:21
Alignment explanation
Indices: 327791--327838 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
327781 ACAGTGGCGA
* *
327791 TGAGATAAGTTACTGTAGCGG
1 TGAGATAAGATACTGTAGCCG
**
327812 TGAGATTGGATACTGTAGCCG
1 TGAGATAAGATACTGTAGCCG
327833 TGAGAT
1 TGAGAT
327839 TAGAAACAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.10, G:0.33, T:0.29
Consensus pattern (21 bp):
TGAGATAAGATACTGTAGCCG
Found at i:330719 original size:30 final size:31
Alignment explanation
Indices: 330653--330720 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
330643 AACGATCTTT
* *
330653 TAAAATAATAATGAACATGTAAATAAATAAA
1 TAAAATAATAATGAACATATAAAAAAATAAA
*
330684 T-AAATAATAAT-AACA-ATAAAGAAAATGAA
1 TAAAATAATAATGAACATATAAA-AAAATAAA
330713 TAAAATAA
1 TAAAATAA
330721 AAAATGTAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 4 0.12
29 11 0.34
30 16 0.50
31 1 0.03
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.24
Consensus pattern (31 bp):
TAAAATAATAATGAACATATAAAAAAATAAA
Found at i:330791 original size:28 final size:28
Alignment explanation
Indices: 330734--330788 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
330724 ATGTAAGGAG
* *
330734 ATATATATGTATATTTTAAAATTGTAAA
1 ATATATATGTATATTATAAAATTATAAA
330762 ATATATATGTATA-TAT-AAATTATAAA
1 ATATATATGTATATTATAAAATTATAAA
330788 A
1 A
330789 AATGTGTGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 10 0.40
27 2 0.08
28 13 0.52
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (28 bp):
ATATATATGTATATTATAAAATTATAAA
Found at i:331089 original size:16 final size:16
Alignment explanation
Indices: 331059--331106 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
331049 AACAAAGTTT
* *
331059 TAAACAAATATATAAA
1 TAAACAAACAAATAAA
*
331075 TAAGCAAACAAATAAA
1 TAAACAAACAAATAAA
*
331091 TAAACGAACAAATAAA
1 TAAACAAACAAATAAA
331107 GGATTAAGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.69, C:0.10, G:0.04, T:0.17
Consensus pattern (16 bp):
TAAACAAACAAATAAA
Found at i:331859 original size:4 final size:4
Alignment explanation
Indices: 331850--331885 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
331840 GGGTTTGTAA
*
331850 AAAT AAAT AAAT AAAT AAAAT AAGT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAA
331886 AACAGGAAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:331871 original size:17 final size:17
Alignment explanation
Indices: 331849--331886 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
331839 AGGGTTTGTA
331849 AAAATAAATAAATAAAT
1 AAAATAAATAAATAAAT
*
331866 AAAATAAGTAAATAAAT
1 AAAATAAATAAATAAAT
331883 AAAA
1 AAAA
331887 ACAGGAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAATAAATAAATAAAT
Found at i:332884 original size:44 final size:43
Alignment explanation
Indices: 332722--332891 Score: 146
Period size: 44 Copynumber: 4.0 Consensus size: 43
332712 AGGATTCATC
* * * * *
332722 GTTTTAATCCGCTCCACTGCAAATTTAGAGAGATAGGATTAGTA
1 GTTTCAATCCGCTCCACTGCAACTTCAGAGAGATAAGATT-GTG
* * * *
332766 GCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TG
1 GTTTCAATCCGCTCCACTGCAACTTCAGAGAGATAAGATTGTG
* * * * *
332807 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTG
1 GTTTCAATCCGCTCCACTGCAACTTCAGAGAGATAAGAT-TGTG
* * * *
332851 GTTTTAATCCGCTCCACTGCAACGTCAGGGAGATAGGATTG
1 GTTTCAATCCGCTCCACTGCAACTTCAGAGAGATAAGATTG
332892 ATTTCTTCTG
Statistics
Matches: 99, Mismatches: 24, Indels: 7
0.76 0.18 0.05
Matches are distributed among these distances:
41 33 0.33
43 4 0.04
44 62 0.63
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (43 bp):
GTTTCAATCCGCTCCACTGCAACTTCAGAGAGATAAGATTGTG
Found at i:332981 original size:128 final size:128
Alignment explanation
Indices: 332722--333146 Score: 575
Period size: 128 Copynumber: 3.3 Consensus size: 128
332712 AGGATTCATC
** * ** * *
332722 GTTTTAATCCGCTCCACTGCAAATTTAGAGAGATAGGATT-AGTAGCTTCAGTCTGCTCCACTGC
1 GTTTTAATCCGCTCCACTGCAACGTCAGAGAGATAGGATTGA-TTTCTTCTGTCTGCTCCACTAC
** * * *
332786 AACTTCAGGGAGATAAGATTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTG
65 TGCTT-AGGGAGATAAGACTGGATGTGATCTGCTTTACTGCAACTTCAGAGAGATAAGATCTGTG
*
332851 GTTTTAATCCGCTCCACTGCAACGTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTACT
1 GTTTTAATCCGCTCCACTGCAACGTCAGAGAGATAGGATTGATTTCTTCTGTCTGCTCCACTACT
* * * * *
332916 GCTTAGGGAGATAAAACTGGATGTGATCTACTTTACTACAACTTCAGAGAGATAAGATTTATG
66 GCTTAGGGAGATAAGACTGGATGTGATCTGCTTTACTGCAACTTCAGAGAGATAAGATCTGTG
* * *
332979 GTTTTAATCCACTCCACTGCAACGTCAG-GAAGATATGATTGATTTCTTCTATCTGCTCCACTAC
1 GTTTTAATCCGCTCCACTGCAACGTCAGAG-AGATAGGATTGATTTCTTCTGTCTGCTCCACTAC
*
333043 TGTTTAGGGAGATAAGACTGGATGTGATCTGCTTTACTGCAACTTCAGAGAGATAAGATCTGTG
65 TGCTTAGGGAGATAAGACTGGATGTGATCTGCTTTACTGCAACTTCAGAGAGATAAGATCTGTG
* * * *
333107 ATTTTAATCCGCTCTACTGCCACATCAGAGAGATAGGATT
1 GTTTTAATCCGCTCCACTGCAACGTCAGAGAGATAGGATT
333147 TGTGGCTTAA
Statistics
Matches: 260, Mismatches: 33, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
127 1 0.00
128 200 0.77
129 58 0.22
130 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (128 bp):
GTTTTAATCCGCTCCACTGCAACGTCAGAGAGATAGGATTGATTTCTTCTGTCTGCTCCACTACT
GCTTAGGGAGATAAGACTGGATGTGATCTGCTTTACTGCAACTTCAGAGAGATAAGATCTGTG
Found at i:333184 original size:128 final size:127
Alignment explanation
Indices: 332793--333186 Score: 465
Period size: 128 Copynumber: 3.1 Consensus size: 127
332783 TGCAACTTCA
* * *
332793 GGGAGATAAGATTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAA
1 GGGAGATAAGACTGGATGTGATCTGCTTTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAA
*
332858 TCCGCTCCACTGCAACGTCAGGGAGATAGGATTGATTTCTTCTGTCTGC-TCC-ACTACTGCT-T
66 TCCGCTCCACTGCAACGTCA-GGAGATAGGATTGATTTCTTCTATCTGCTTCCTACTA-T-CTAT
* * * * *
332920 AGGGAGATAAAACTGGATGTGATCTACTTTACTACAACTTCAGAGAGATAAGATTTATGGTTTTA
1 -GGGAGATAAGACTGGATGTGATCTGCTTTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
* * * * *
332985 ATCCACTCCACTGCAACGTCAGGAAGATATGATTGATTTCTTCTATCTGCTCCACTACTGTTTA-
65 ATCCGCTCCACTGCAACGTCAGG-AGATAGGATTGATTTCTTCTATCTGCTTC-CTACTATCTAT
*
333049 GGGAGATAAGACTGGATGTGATCTGCTTTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 GGGAGATAAGACTGGATGTGATCTGCTTTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAA
* * * ** ** *
333114 TCCGCTCTACTGCCACATCAGAGAGATAGGATTTG-TGGCTTAAATCTACTTCCTACTATCTAT
66 TCCGCTCCACTGCAACGTCAG-GAGATAGGA-TTGATTTCTTCTATCTGCTTCCTACTATCTAT
*
333177 GGAAGATAAG
1 GGGAGATAAG
333187 GTTCGCCGTC
Statistics
Matches: 224, Mismatches: 34, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
127 10 0.04
128 203 0.91
129 6 0.03
130 2 0.01
131 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (127 bp):
GGGAGATAAGACTGGATGTGATCTGCTTTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAA
TCCGCTCCACTGCAACGTCAGGAGATAGGATTGATTTCTTCTATCTGCTTCCTACTATCTAT
Found at i:333359 original size:44 final size:44
Alignment explanation
Indices: 333180--333361 Score: 113
Period size: 44 Copynumber: 4.2 Consensus size: 44
333170 TATCTATGGA
* * * * * *
333180 AGATAAGGTTCGCCGTCTTCGATCTGCTCCACTACTGGTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTACTCCACTGCTGCTTAGAG
* ** * * * *
333224 AGATAAGA-TCTACAATCTTCAACCTACTCCACTGTTGCTCAGGG
1 AGATAAGATTC-GCCGTCTTCAATCTACTCCACTGCTGCTTAGAG
* ** * * * *
333268 AGATAAGACT-GGTGGCTTAAATCTACTTCCTACT-AT-C-TCGAG
1 AGATAAGATTCGCCGTCTTCAATCTAC-TCC-ACTGCTGCTTAGAG
333310 AAGATAAGATTCGCCGTCTTCAATCTACTCCACTGCTGCTTAGAG
1 -AGATAAGATTCGCCGTCTTCAATCTACTCCACTGCTGCTTAGAG
333355 AGATAAG
1 AGATAAG
333362 GTTGATGCTT
Statistics
Matches: 100, Mismatches: 29, Indels: 18
0.68 0.20 0.12
Matches are distributed among these distances:
42 5 0.05
43 25 0.25
44 62 0.62
45 8 0.08
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
AGATAAGATTCGCCGTCTTCAATCTACTCCACTGCTGCTTAGAG
Found at i:333488 original size:88 final size:86
Alignment explanation
Indices: 333224--333495 Score: 232
Period size: 88 Copynumber: 3.1 Consensus size: 86
333214 CTGGTTAGGG
* * *
333224 AGATAAGATCTACAATCTTCAACCTACTCCACTGTTGCTCAGGGAGATAAGACTGGTGGCTTAAA
1 AGATAAGATCTACAATCTTCAA-CTACTCCACTGCTGCTCAGGGAGATAGGACTAGTGGCTTAAA
* *
333289 TCTACTTCCTACTATCTCGAGA
65 TCTACTTCCTACTACCTCGGGA
* ** * * *
333311 AGATAAGAT-TCGCCGTCTTCAATCTACTCCACTGCTGCTTAGAGAGATAAGG--TTGAT-GCTT
1 AGATAAGATCT-ACAATCTTCAA-CTACTCCACTGCTGCTCAGGGAGAT-AGGACTAG-TGGC-T
** * * *
333372 TCGATCTGCTT-C-ACTGCCAGTACAGGA
61 TAAATCTACTTCCTACTACC--T-CGGGA
* *
333399 AGACAAGATCTACAATCTTCAACATACTCCACTGCTACTCAGGGAGATAGGACTAGTGGCTTAAA
1 AGATAAGATCTACAATCTTCAAC-TACTCCACTGCTGCTCAGGGAGATAGGACTAGTGGCTTAAA
*
333464 TCTACTTCCTTACTACCTTGGGA
65 TCTACTTCC-TACTACCTCGGGA
333487 AGATAAGAT
1 AGATAAGAT
333496 TTTCCCTCTT
Statistics
Matches: 139, Mismatches: 31, Indels: 29
0.70 0.16 0.15
Matches are distributed among these distances:
85 4 0.03
86 6 0.04
87 54 0.39
88 63 0.45
89 7 0.05
91 5 0.04
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (86 bp):
AGATAAGATCTACAATCTTCAACTACTCCACTGCTGCTCAGGGAGATAGGACTAGTGGCTTAAAT
CTACTTCCTACTACCTCGGGA
Found at i:333730 original size:89 final size:89
Alignment explanation
Indices: 333557--333733 Score: 239
Period size: 89 Copynumber: 2.0 Consensus size: 89
333547 CTTCAACCTA
* **
333557 CTCCGCTGCAAACTCAGGAAGGTCAGGCTAGTGTCTTCGATCTACTTCGCTGCCAGTACAGGAAG
1 CTCCGCTGCAAACTCAGGAAGGTCAGGCTAGTGTCTTCGATCTACTTCACTGCCAGTACAAAAAG
333622 ACAAGATCTGCAATCTTTAGTCTG
66 ACAAGATCTGCAATCTTTAGTCTG
* * * * * *
333646 CTCCGCTGCAAACTCAGGGAGG-CGAGGCTGGTGTTTTCGATTTGCTTCACTGGCAGTACAAAAA
1 CTCCGCTGCAAACTCAGGAAGGTC-AGGCTAGTGTCTTCGATCTACTTCACTGCCAGTACAAAAA
* *
333710 GACAAGATCTGCTATTTTTAGTCT
65 GACAAGATCTGCAATCTTTAGTCT
333734 ACTTCACTGC
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
88 1 0.01
89 75 0.99
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (89 bp):
CTCCGCTGCAAACTCAGGAAGGTCAGGCTAGTGTCTTCGATCTACTTCACTGCCAGTACAAAAAG
ACAAGATCTGCAATCTTTAGTCTG
Found at i:333744 original size:89 final size:89
Alignment explanation
Indices: 333535--333753 Score: 235
Period size: 89 Copynumber: 2.5 Consensus size: 89
333525 TTAGGAAAAT
* * ** * *
333535 AAGATCTACAATCTTCAACCTACTCCGCTGCAAACTCAGGAAGGTCAGGCTAGTGTCTTCGATCT
1 AAGATCTGCAATCTTTAGTCTACTCCACTGCAAACTCAGGGAGGTCAGGCTAGTGTCTTCGATCT
* **
333600 ACTTCGCTGCCAGTACAGGAAGAC
66 ACTTCACTGCCAGTACAAAAAGAC
* * * * *
333624 AAGATCTGCAATCTTTAGTCTGCTCCGCTGCAAACTCAGGGAGG-CGAGGCTGGTGTTTTCGATT
1 AAGATCTGCAATCTTTAGTCTACTCCACTGCAAACTCAGGGAGGTC-AGGCTAGTGTCTTCGATC
* *
333688 TGCTTCACTGGCAGTACAAAAAGAC
65 TACTTCACTGCCAGTACAAAAAGAC
* * *
333713 AAGATCTGCTATTTTTAGTCTACTTCACTGC-AACTTCAGGG
1 AAGATCTGCAATCTTTAGTCTACTCCACTGCAAAC-TCAGGG
333754 GGATGAGATT
Statistics
Matches: 109, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
88 4 0.04
89 105 0.96
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (89 bp):
AAGATCTGCAATCTTTAGTCTACTCCACTGCAAACTCAGGGAGGTCAGGCTAGTGTCTTCGATCT
ACTTCACTGCCAGTACAAAAAGAC
Found at i:335076 original size:12 final size:12
Alignment explanation
Indices: 335059--335098 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
335049 TGGCCTCTCC
335059 TTTTTCTTTTCT
1 TTTTTCTTTTCT
*
335071 TTTTTCTTTTGT
1 TTTTTCTTTTCT
*
335083 TCTTT-TTTTCT
1 TTTTTCTTTTCT
335094 TTTTT
1 TTTTT
335099 TTAACATTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (12 bp):
TTTTTCTTTTCT
Found at i:335087 original size:8 final size:7
Alignment explanation
Indices: 335065--335098 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
335055 CTCCTTTTTC
335065 TTTTCTT
1 TTTTCTT
335072 TTTTCTT
1 TTTTCTT
335079 TTGTTCTTT
1 TT-TTC-TT
335088 TTTTCTT
1 TTTTCTT
335095 TTTT
1 TTTT
335099 TTAACATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 15 0.60
8 6 0.24
9 4 0.16
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (7 bp):
TTTTCTT
Found at i:335099 original size:8 final size:8
Alignment explanation
Indices: 335065--335099 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
335055 CTCCTTTTTC
335065 TTTTC-TT
1 TTTTCTTT
335072 TTTTCTTT
1 TTTTCTTT
*
335080 TGTTCTTT
1 TTTTCTTT
335088 TTTTCTTT
1 TTTTCTTT
335096 TTTT
1 TTTT
335100 TAACATTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 5 0.20
8 20 0.80
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (8 bp):
TTTTCTTT
Found at i:348248 original size:25 final size:25
Alignment explanation
Indices: 348220--348271 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
348210 ATAATTGGGT
* *
348220 AGCTCTTCCGAGCCATATATCAGGA
1 AGCTCATCCGAGCCATATAACAGGA
**
348245 AGCTCATGTGAGCCATATAACAGGA
1 AGCTCATCCGAGCCATATAACAGGA
348270 AG
1 AG
348272 TTCAAGCGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (25 bp):
AGCTCATCCGAGCCATATAACAGGA
Found at i:348282 original size:25 final size:25
Alignment explanation
Indices: 348228--348323 Score: 79
Period size: 24 Copynumber: 3.9 Consensus size: 25
348218 GTAGCTCTTC
* *
348228 CGAGCCATATATCAGGAAGCTCATG
1 CGAGCCATATAACAGGAAGCTCAAG
* *
348253 TGAGCCATATAACAGGAAGTTCAAG
1 CGAGCCATATAACAGGAAGCTCAAG
* * * **
348278 CGAGCCA-ACATCGGGAAGCTCTGG
1 CGAGCCATATAACAGGAAGCTCAAG
* *
348302 AGAGCCAT-TAACGGGAAGCTCA
1 CGAGCCATATAACAGGAAGCTCA
348324 TAAGAGCCAT
Statistics
Matches: 55, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
24 28 0.51
25 27 0.49
ACGTcount: A:0.33, C:0.23, G:0.27, T:0.17
Consensus pattern (25 bp):
CGAGCCATATAACAGGAAGCTCAAG
Found at i:348306 original size:24 final size:24
Alignment explanation
Indices: 348279--348430 Score: 98
Period size: 25 Copynumber: 6.2 Consensus size: 24
348269 AAGTTCAAGC
* *
348279 GAGCCAACATCGGGAAGCTCTGGA
1 GAGCCAATATCGGGAAGCTCTGAA
* *
348303 GAGCCATTAACGGGAAGCTCAT-AA
1 GAGCCAATATCGGGAAGCTC-TGAA
*
348327 GAGCCATTTATCGGGAAGCTCTGAA
1 GAGCCA-ATATCGGGAAGCTCTGAA
* *
348352 GAGCCAAATAAT-GGAAAGCTCCGAA
1 GAGCC-AAT-ATCGGGAAGCTCTGAA
*
348377 GAGCCAAATAAT-GGAAAGCTCGTG-A
1 GAGCC-AAT-ATCGGGAAGCTC-TGAA
* *
348402 GAGCCAAATATCAGGACA-CTCAGAA
1 GAGCC-AATATCGGGA-AGCTCTGAA
348427 GAGC
1 GAGC
348431 TGCGGTGTGT
Statistics
Matches: 107, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
24 28 0.26
25 74 0.69
26 5 0.05
ACGTcount: A:0.37, C:0.21, G:0.27, T:0.15
Consensus pattern (24 bp):
GAGCCAATATCGGGAAGCTCTGAA
Found at i:348307 original size:49 final size:50
Alignment explanation
Indices: 348228--348362 Score: 143
Period size: 49 Copynumber: 2.7 Consensus size: 50
348218 GTAGCTCTTC
* * *
348228 CGAGCCATATATCAGGAAGCTCAT-GTGAGCCATATAACAGGAAGTTCA-A
1 CGAGCCATATATCGGGAAGCTC-TGGAGAGCCATATAACAGGAAGCTCATA
* *
348277 GCGAGCCA-ACATCGGGAAGCTCTGGAGAGCCAT-TAACGGGAAGCTCATA
1 -CGAGCCATATATCGGGAAGCTCTGGAGAGCCATATAACAGGAAGCTCATA
* * * *
348326 AGAGCCATTTATCGGGAAGCTCTGAAGAGCCAAATAA
1 CGAGCCATATATCGGGAAGCTCTGGAGAGCCATATAA
348363 TGGAAAGCTC
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
48 19 0.27
49 42 0.59
50 10 0.14
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (50 bp):
CGAGCCATATATCGGGAAGCTCTGGAGAGCCATATAACAGGAAGCTCATA
Found at i:348346 original size:25 final size:24
Alignment explanation
Indices: 348287--348357 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 24
348277 GCGAGCCAAC
*
348287 ATCGGGAAGCTCTGGAGAGCCATT
1 ATCGGGAAGCTCTGAAGAGCCATT
*
348311 AACGGGAAGCTCAT-AAGAGCCATTT
1 ATCGGGAAGCTC-TGAAGAGCCA-TT
348336 ATCGGGAAGCTCTGAAGAGCCA
1 ATCGGGAAGCTCTGAAGAGCCA
348358 AATAATGGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.31, C:0.21, G:0.30, T:0.18
Consensus pattern (24 bp):
ATCGGGAAGCTCTGAAGAGCCATT
Found at i:348370 original size:25 final size:25
Alignment explanation
Indices: 348342--348411 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
348332 ATTTATCGGG
348342 AAGCTCTGAAGAGCCAAATAATGGA
1 AAGCTCTGAAGAGCCAAATAATGGA
*
348367 AAGCTCCGAAGAGCCAAATAATGGA
1 AAGCTCTGAAGAGCCAAATAATGGA
348392 AAGCTCGTG-AGAGCCAAATA
1 AAGCTC-TGAAGAGCCAAATA
348412 TCAGGACACT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 41 0.98
26 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.14
Consensus pattern (25 bp):
AAGCTCTGAAGAGCCAAATAATGGA
Found at i:351956 original size:22 final size:22
Alignment explanation
Indices: 351931--351979 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
351921 ACTTTGGTAA
* *
351931 TCTCTAATCAGCACTTCGGTGC
1 TCTCTAATCAGCACTACGATGC
* *
351953 TCTCTACTTAGCACTACGATGC
1 TCTCTAATCAGCACTACGATGC
351975 TCTCT
1 TCTCT
351980 GGTGTGGCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.33, G:0.14, T:0.35
Consensus pattern (22 bp):
TCTCTAATCAGCACTACGATGC
Found at i:353200 original size:7 final size:7
Alignment explanation
Indices: 353188--353219 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
353178 AAAATATATT
353188 TTTTTAA
1 TTTTTAA
353195 TTTTTAA
1 TTTTTAA
353202 TTTTTAA
1 TTTTTAA
353209 -TTTTAA
1 TTTTTAA
353215 TTTTT
1 TTTTT
353220 TTCTTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTAA
Found at i:353212 original size:13 final size:14
Alignment explanation
Indices: 353188--353219 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
353178 AAAATATATT
353188 TTTTTAATTTTTAA
1 TTTTTAATTTTTAA
353202 TTTTTAA-TTTTAA
1 TTTTTAATTTTTAA
353215 TTTTT
1 TTTTT
353220 TTCTTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTAATTTTTAA
Found at i:354115 original size:16 final size:16
Alignment explanation
Indices: 354096--354154 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
354086 TTTTTAACAT
*
354096 ATATAATATATATTAA
1 ATATTATATATATTAA
* *
354112 ATATTATTTGTATT-A
1 ATATTATATATATTAA
354127 ATATTATATACTATTAAA
1 ATATTATATA-TATT-AA
354145 ATATTCATAT
1 ATATT-ATAT
354155 TTTTATATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
15 9 0.26
16 15 0.44
18 6 0.18
19 4 0.12
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (16 bp):
ATATTATATATATTAA
Found at i:354163 original size:32 final size:30
Alignment explanation
Indices: 354095--354166 Score: 76
Period size: 32 Copynumber: 2.3 Consensus size: 30
354085 ATTTTTAACA
*
354095 TATATAATATATATTAAATATTATTTGTAT
1 TATATTATATATATTAAATATTATTTGTAT
354125 TAATATTATATACTATTAAAATATTCATATT-T-T
1 T-ATATTATATA-TATT-AAATATT-AT-TTGTAT
354158 TATATTATA
1 TATATTATA
354167 AAAATTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
30 1 0.03
31 9 0.25
32 12 0.33
33 9 0.25
34 3 0.08
35 2 0.06
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (30 bp):
TATATTATATATATTAAATATTATTTGTAT
Found at i:354762 original size:23 final size:23
Alignment explanation
Indices: 354728--354788 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
354718 TTTTTGAATT
*
354728 TATTTATATTTAATAATAAATA-A
1 TATTTATTTTTAATAA-AAATATA
*
354751 TATTTATTTTTAAATAAAAATATT
1 TATTTATTTTT-AATAAAAATATA
354775 TATATTATTTTTAA
1 TAT-TTATTTTTAA
354789 ACCCATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 15 0.45
24 10 0.30
25 8 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTTATTTTTAATAAAAATATA
Found at i:354774 original size:20 final size:23
Alignment explanation
Indices: 354728--354780 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 23
354718 TTTTTGAATT
354728 TATTTATATTTAATAATAAATAA
1 TATTTATATTTAATAATAAATAA
*
354751 TATTTAT-TTTTA-AATAAA-AA
1 TATTTATATTTAATAATAAATAA
354771 TATTTATATT
1 TATTTATATT
354781 ATTTTTAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 9 0.32
21 8 0.29
22 4 0.14
23 7 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTTATATTTAATAATAAATAA
Found at i:355302 original size:85 final size:85
Alignment explanation
Indices: 355185--355363 Score: 288
Period size: 85 Copynumber: 2.1 Consensus size: 85
355175 TAACATAAAG
* * *
355185 TAATTA-TATCGTAATTCCCAATGTCATATTTGGTAGTACAAATTGTAATTACATAGTTACATAA
1 TAATTACTATCGTAATTCCCAATGTCATATTTGGTAGTACAAATCGTAATTACACAGTTACAAAA
355249 TTTATATTTTTAAAAACTAT
66 TTTATATTTTTAAAAACTAT
* * * *
355269 TAATTACTATCGTAATTCCCAGTGTTATGTTTGGTAGTACAAATCGTAATTACACGGTTACAAAA
1 TAATTACTATCGTAATTCCCAATGTCATATTTGGTAGTACAAATCGTAATTACACAGTTACAAAA
355334 TTTATATTTTTAAAAACTAT
66 TTTATATTTTTAAAAACTAT
355354 TAATTACTAT
1 TAATTACTAT
355364 AAAAAAATTA
Statistics
Matches: 87, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 6 0.07
85 81 0.93
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (85 bp):
TAATTACTATCGTAATTCCCAATGTCATATTTGGTAGTACAAATCGTAATTACACAGTTACAAAA
TTTATATTTTTAAAAACTAT
Found at i:363218 original size:18 final size:17
Alignment explanation
Indices: 363178--363228 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
363168 AAACGGACGG
*
363178 ATAGAA-AGAAAATTAA
1 ATAGAAGAGAAAAATAA
363194 A-AG-AGAGAAGAAATAA
1 ATAGAAGAGAA-AAATAA
363210 ATAGAAGAGGAAAAATAA
1 ATAGAAGA-GAAAAATAA
363228 A
1 A
363229 AAGCCGAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 6 0.21
16 7 0.24
17 2 0.07
18 10 0.34
19 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.12
Consensus pattern (17 bp):
ATAGAAGAGAAAAATAA
Found at i:363726 original size:3 final size:3
Alignment explanation
Indices: 363720--363754 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
363710 CCCTAATAGT
*
363720 AGA AGA AGA ATA AGA AGA AGA AGA AGA AG- AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
363755 GACTGTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:365372 original size:16 final size:17
Alignment explanation
Indices: 365351--365386 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
365341 TCAATCATCC
365351 CTCATCCCTCATCC-CT
1 CTCATCCCTCATCCTCT
*
365367 CTCATCTCTCATCCTCT
1 CTCATCCCTCATCCTCT
365384 CTC
1 CTC
365387 TCAACTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.11, C:0.53, G:0.00, T:0.36
Consensus pattern (17 bp):
CTCATCCCTCATCCTCT
Found at i:371700 original size:15 final size:15
Alignment explanation
Indices: 371682--371719 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
371672 TGAAGATAAA
*
371682 AAAAATGAATACTAT
1 AAAAATGAATAATAT
371697 AAAAAT-AATAATAT
1 AAAAATGAATAATAT
*
371711 CAAAATGAA
1 AAAAATGAA
371720 GTTTAAAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (15 bp):
AAAAATGAATAATAT
Found at i:372020 original size:21 final size:21
Alignment explanation
Indices: 371978--372020 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
371968 ATCAAAATCA
* *
371978 GTATTTAATAAAGTAATTTAC
1 GTATATAATAAAGTAATATAC
371999 GTATATAA-AAAGTAAATATAC
1 GTATATAATAAAGT-AATATAC
372020 G
1 G
372021 AACTAATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (21 bp):
GTATATAATAAAGTAATATAC
Found at i:374622 original size:20 final size:20
Alignment explanation
Indices: 374585--374622 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
374575 ATTTTTCTAG
*
374585 TTTAAATTATTTTATTAAAT
1 TTTAAATTATTTAATTAAAT
374605 TTTAAATT-TTTAAGTTAA
1 TTTAAATTATTTAA-TTAA
374623 TAAAGGGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTAAATTATTTAATTAAAT
Found at i:386986 original size:243 final size:243
Alignment explanation
Indices: 386558--386995 Score: 804
Period size: 243 Copynumber: 1.8 Consensus size: 243
386548 GGAGTCGTAT
* * **
386558 GGTCGTGTGGCCAGGTTGTGTAAATTATTAAAGTTGTGTGGGTCAACATGCAAAAATTCAAAAAA
1 GGTCGTGTGGCCAGGTTGTGTAAATCACTAAAGCCGTGTGGGTCAACATGCAAAAATTCAAAAAA
*
386623 AGTCACATGACCATGTGCTTGGGTCGTGTAACAACCTGGGACAGTGTGCAAAAACTAAGTGTCCA
66 AGTCACATGACCATGTGCTTGGGTCGTGTAACAACCTGGGACAATGTGCAAAAACTAAGTGTCCA
386688 TATCTATAGTACTCACACGGACGTATGGCCTACCCATGTGCCAATCGGGAACTGTGTAGAACATA
131 TATCTATAGTACTCACACGGACGTATGGCCTACCCATGTGCCAATCGGGAACTGTGTAGAACATA
386753 AAATAACTTACCCTAGTGGTTATACAGCCATGTCACCAGCCTGTGTGG
196 AAATAACTTACCCTAGTGGTTATACAGCCATGTCACCAGCCTGTGTGG
*
386801 GGTCGTGTGGCCAGGTTGTGTAAATCACTAAAGCCGTGTGGGTCAACATGTAAAAATTCAAAAAA
1 GGTCGTGTGGCCAGGTTGTGTAAATCACTAAAGCCGTGTGGGTCAACATGCAAAAATTCAAAAAA
* *
386866 AGTCACATGACCATGTGCTTGGGTCGTGTAACAACTTGGGACAATGTGTAAAAACTAAGTGTCCA
66 AGTCACATGACCATGTGCTTGGGTCGTGTAACAACCTGGGACAATGTGCAAAAACTAAGTGTCCA
386931 TATCTATAGTACTCACACGGACGTATGGCCTACCCATGTGCCAATCGGGAACTGTGTAGAACATA
131 TATCTATAGTACTCACACGGACGTATGGCCTACCCATGTGCCAATCGGGAACTGTGTAGAACATA
386996 GTGGTTATAC
Statistics
Matches: 187, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
243 187 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (243 bp):
GGTCGTGTGGCCAGGTTGTGTAAATCACTAAAGCCGTGTGGGTCAACATGCAAAAATTCAAAAAA
AGTCACATGACCATGTGCTTGGGTCGTGTAACAACCTGGGACAATGTGCAAAAACTAAGTGTCCA
TATCTATAGTACTCACACGGACGTATGGCCTACCCATGTGCCAATCGGGAACTGTGTAGAACATA
AAATAACTTACCCTAGTGGTTATACAGCCATGTCACCAGCCTGTGTGG
Found at i:389457 original size:24 final size:24
Alignment explanation
Indices: 389410--389457 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
389400 GATGAATTAT
* *
389410 AATTTAAAGTATATTGGTTGAATA
1 AATTTAAAGTATAATGATTGAATA
389434 AATTTAAAGTATGAATGATT-AATA
1 AATTTAAAGTAT-AATGATTGAATA
389458 TACTGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (24 bp):
AATTTAAAGTATAATGATTGAATA
Found at i:390529 original size:5 final size:5
Alignment explanation
Indices: 390521--390559 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
390511 CCTGCCCGAA
*
390521 CCCGG CCCGG CCCGAA CCCGG CCCGG CCCGG CCCGG CCC
1 CCCGG CCCGG CCCG-G CCCGG CCCGG CCCGG CCCGG CCC
390560 ATGAGCACCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.05, C:0.62, G:0.33, T:0.00
Consensus pattern (5 bp):
CCCGG
Found at i:390533 original size:16 final size:16
Alignment explanation
Indices: 390509--390559 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
390499 TTTTTTTCAA
*
390509 GCCCTGCCCGAACCCG
1 GCCCGGCCCGAACCCG
390525 GCCCGGCCCGAACCCG
1 GCCCGGCCCGAACCCG
*
390541 GCCCGGCCCG-GCCCG
1 GCCCGGCCCGAACCCG
390556 GCCC
1 GCCC
390560 ATGAGCACCT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
15 8 0.24
16 25 0.76
ACGTcount: A:0.08, C:0.59, G:0.31, T:0.02
Consensus pattern (16 bp):
GCCCGGCCCGAACCCG
Found at i:396122 original size:30 final size:30
Alignment explanation
Indices: 396059--396121 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
396049 CATTTGACTA
* * *
396059 TTTGGTCACTTTGGCCCTTTATGTTTTTTT
1 TTTGGTCACTTTGGCCCCTAACGTTTTTTT
396089 TTTGGATCACTTTGGCCCCTAACGTTTTTTT
1 TTTGG-TCACTTTGGCCCCTAACGTTTTTTT
396120 TT
1 TT
396122 GTCAAATTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.10, C:0.19, G:0.16, T:0.56
Consensus pattern (30 bp):
TTTGGTCACTTTGGCCCCTAACGTTTTTTT
Found at i:396292 original size:10 final size:9
Alignment explanation
Indices: 396265--396333 Score: 77
Period size: 9 Copynumber: 7.3 Consensus size: 9
396255 GTCAGCAAAT
396265 AATT-TTAA
1 AATTATTAA
396273 AATTATTAA
1 AATTATTAA
396282 AATTAATTAA
1 AATT-ATTAA
396292 AATTTATTAA
1 AA-TTATTAA
*
396302 AATGATTTTAA
1 AAT--TATTAA
*
396313 AATCATTAA
1 AATTATTAA
396322 AATTATTAA
1 AATTATTAA
396331 AAT
1 AAT
396334 AATAATAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
8 4 0.08
9 24 0.46
10 14 0.27
11 10 0.19
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (9 bp):
AATTATTAA
Found at i:396298 original size:20 final size:19
Alignment explanation
Indices: 396269--396333 Score: 78
Period size: 20 Copynumber: 3.4 Consensus size: 19
396259 GCAAATAATT
396269 TTAAAATTATTAAAATTAA
1 TTAAAATTATTAAAATTAA
* *
396288 TTAAAATTTATTAAAATGATT
1 TTAAAA-TTATTAAAATTA-A
*
396309 TTAAAATCATTAAAATT-A
1 TTAAAATTATTAAAATTAA
396327 TTAAAAT
1 TTAAAAT
396334 AATAATAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
18 7 0.18
19 6 0.15
20 20 0.51
21 6 0.15
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
TTAAAATTATTAAAATTAA
Found at i:396342 original size:29 final size:30
Alignment explanation
Indices: 396287--396343 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
396277 ATTAAAATTA
* **
396287 ATTAAAATTTATTAAAATGATTTTAAAATC
1 ATTAAAATTTATTAAAATAATAATAAAATC
396317 ATTAAAA-TTATTAAAATAATAATAAAA
1 ATTAAAATTTATTAAAATAATAATAAAA
396344 AACCCTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (30 bp):
ATTAAAATTTATTAAAATAATAATAAAATC
Found at i:396343 original size:40 final size:40
Alignment explanation
Indices: 396261--396343 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
396251 CCACGTCAGC
* * *
396261 AAATAATTTTAAAATTATTAAAATTAATTAAAATTTATTA
1 AAATAATTTTAAAATCATTAAAATTAATTAAAATATAATA
*
396301 AAATGATTTTAAAATCATTAAAATT-ATTAAAATAATAATA
1 AAATAATTTTAAAATCATTAAAATTAATTAAAAT-ATAATA
396341 AAA
1 AAA
396344 AACCCTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
39 8 0.21
40 30 0.79
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (40 bp):
AAATAATTTTAAAATCATTAAAATTAATTAAAATATAATA
Found at i:397017 original size:28 final size:29
Alignment explanation
Indices: 396954--397025 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 29
396944 GTGAGCAATC
* *
396954 CCCAATATCTCCAAACTCAAAAACCCTAA
1 CCCAAAATCTCCAAAATCAAAAACCCTAA
* * * *
396983 ACAAAAATCTCCAAAATC-AAAACCTTTA
1 CCCAAAATCTCCAAAATCAAAAACCCTAA
*
397011 CCCAAAATCCCCAAA
1 CCCAAAATCTCCAAA
397026 TTTAACTATC
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
28 20 0.59
29 14 0.41
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.17
Consensus pattern (29 bp):
CCCAAAATCTCCAAAATCAAAAACCCTAA
Found at i:397466 original size:38 final size:39
Alignment explanation
Indices: 397410--397493 Score: 134
Period size: 38 Copynumber: 2.2 Consensus size: 39
397400 GCAATGATCT
*
397410 ATTTTAATAATTTTATATTTCAAAAAAATAA-TATAATA
1 ATTTTAATAATTTCATATTTCAAAAAAATAATTATAATA
* *
397448 ATTTTAATAATTTCATATTTCAAAAAATTAATTTTAATA
1 ATTTTAATAATTTCATATTTCAAAAAAATAATTATAATA
397487 ATTTTAA
1 ATTTTAA
397494 AGTCATTTGC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 29 0.69
39 13 0.31
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.48
Consensus pattern (39 bp):
ATTTTAATAATTTCATATTTCAAAAAAATAATTATAATA
Found at i:397791 original size:194 final size:195
Alignment explanation
Indices: 397451--397840 Score: 773
Period size: 194 Copynumber: 2.0 Consensus size: 195
397441 TATAATAATT
397451 TTAATAATTTCATATTTCAAAAAATTAATTTTAATAATTTTAAAGTCATTTGCTGACGTGGCATA
1 TTAATAATTTCATATTTCAAAAAATTAATTTTAATAATTTTAAAGTCATTTGCTGACGTGGCATA
397516 TAAGACAAAATAGTGCCACATCAGCATTTAAATACACTTGGACCACTATGTCAGCGGTTAATGTT
66 TAAGACAAAATAGTGCCACATCAGCATTTAAATACACTTGGACCACTATGTCAGCGGTTAATGTT
397581 GTCAACTAATGGCCAAGTCATCATGCCCGTTAAAAATAGGCCAATTTGACAAAAAAATGTTAGGG
131 GTCAACTAATGGCCAAGTCATCATGCCCGTTAAAAATAGGCCAATTTGACAAAAAAATGTTAGGG
397646 TTAATAATTT-ATATTTCAAAAAATTAATTTTAATAATTTTAAAGTCATTTGCTGACGTGGCATA
1 TTAATAATTTCATATTTCAAAAAATTAATTTTAATAATTTTAAAGTCATTTGCTGACGTGGCATA
397710 TAAGACAAAATAGTGCCACATCAGCATTTAAATACACTTGGACCACTATGTCAGCGGTTAATGTT
66 TAAGACAAAATAGTGCCACATCAGCATTTAAATACACTTGGACCACTATGTCAGCGGTTAATGTT
397775 GTCAACTAATGGCCAAGTCATCATGCCCGTTAAAAATAGGCCAATTTGACAAAAAAATGTTAGGG
131 GTCAACTAATGGCCAAGTCATCATGCCCGTTAAAAATAGGCCAATTTGACAAAAAAATGTTAGGG
397840 T
1 T
397841 CCAAAGTGAT
Statistics
Matches: 195, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
194 185 0.95
195 10 0.05
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (195 bp):
TTAATAATTTCATATTTCAAAAAATTAATTTTAATAATTTTAAAGTCATTTGCTGACGTGGCATA
TAAGACAAAATAGTGCCACATCAGCATTTAAATACACTTGGACCACTATGTCAGCGGTTAATGTT
GTCAACTAATGGCCAAGTCATCATGCCCGTTAAAAATAGGCCAATTTGACAAAAAAATGTTAGGG
Found at i:407636 original size:39 final size:39
Alignment explanation
Indices: 407582--407659 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
407572 ATCCTCACAT
407582 TCACTTAAGATTGTTTATGGTGGTGATTGATTCTTTCAA
1 TCACTTAAGATTGTTTATGGTGGTGATTGATTCTTTCAA
*
407621 TCACTTAAGTTTGTTTATGGTGGTGATTGATTCTTTCAA
1 TCACTTAAGATTGTTTATGGTGGTGATTGATTCTTTCAA
407660 ATTAGCCAGA
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:0.22, C:0.10, G:0.21, T:0.47
Consensus pattern (39 bp):
TCACTTAAGATTGTTTATGGTGGTGATTGATTCTTTCAA
Found at i:413088 original size:22 final size:19
Alignment explanation
Indices: 413063--413106 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
413053 TGATAATAAC
413063 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
*
413085 TAATGTATATTAATTATTA
1 TAATATATATTAATTATTA
413104 TAA
1 TAA
413107 ACTTGGTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 9 0.43
20 1 0.05
21 4 0.19
22 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:413095 original size:16 final size:15
Alignment explanation
Indices: 413063--413101 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
413053 TGATAATAAC
413063 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
413079 TTATTATAATGTATAT
1 TAATTATAAT-TATAT
413095 TAATTAT
1 TAATTAT
413102 TATAAACTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:415275 original size:31 final size:31
Alignment explanation
Indices: 415237--415297 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
415227 TTATTTAATG
415237 TTTCTTAGGATATTTAATGTTTTTTGGATTC
1 TTTCTTAGGATATTTAATGTTTTTTGGATTC
415268 TTTCTTAGGATATTTAATGTTTTTTGGATT
1 TTTCTTAGGATATTTAATGTTTTTTGGATT
415298 AGGTTCTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.20, C:0.05, G:0.16, T:0.59
Consensus pattern (31 bp):
TTTCTTAGGATATTTAATGTTTTTTGGATTC
Found at i:416323 original size:144 final size:142
Alignment explanation
Indices: 416139--416424 Score: 423
Period size: 145 Copynumber: 2.0 Consensus size: 142
416129 ATACAGTCAA
*
416139 ATGCTCGTGTTAAAAAAAAAGAAAGAGCATATGTGCTCAAAAGAAA-TAGATGTACAAAAGAGCA
1 ATGCTCGTGTTAAAAAAAAAGAAAGAGCATATGTACTCAAAAGAAATTAGATGTACAAAAGAGCA
* * * *
416203 TGTGAAAGTAAAATGAGTTGGTGCATTAAAGGTATTTATTTCGAAGGTCTGA-TGCAAGCTGAGT
66 TGTGAAAGCAAAATGAGTTGGTGCATTAAAGGTACTTATTCCGAAGGTCT-ATTGCAAGCTAAGT
*
416267 CTAGGGTTTTTAG
130 CTAGGGGTTTTAG
* * *
416280 ATGCTCGTGTTAAAAAAAGAAAAGAAATAGCATATGTACTCAAAAGAAATTAGTTGTATAAAAGA
1 ATGCTCGTGTT--AAAAA-AAAAGAAAGAGCATATGTACTCAAAAGAAATTAGATGTACAAAAGA
* *
416345 GCATGTGAAAGCAAAATGAGTTGGTGTATTGAAGGTACTTATTCCGAAGGTCTATTGCAAGCTAA
63 GCATGTGAAAGCAAAATGAGTTGGTGCATTAAAGGTACTTATTCCGAAGGTCTATTGCAAGCTAA
416410 GTCTAGGGGTTTTAG
128 GTCTAGGGGTTTTAG
416425 CTTAAAATTA
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
141 11 0.09
143 5 0.04
144 29 0.22
145 84 0.65
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.28
Consensus pattern (142 bp):
ATGCTCGTGTTAAAAAAAAAGAAAGAGCATATGTACTCAAAAGAAATTAGATGTACAAAAGAGCA
TGTGAAAGCAAAATGAGTTGGTGCATTAAAGGTACTTATTCCGAAGGTCTATTGCAAGCTAAGTC
TAGGGGTTTTAG
Found at i:418589 original size:13 final size:13
Alignment explanation
Indices: 418571--418595 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
418561 ATTATTTTTG
418571 GTGTGAAAATTTC
1 GTGTGAAAATTTC
418584 GTGTGAAAATTT
1 GTGTGAAAATTT
418596 TATCGTTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:420444 original size:26 final size:27
Alignment explanation
Indices: 420377--420433 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
420367 ACCGAAATAT
* *
420377 CCCCTGTAGGGAAAAATGATCGTAATG
1 CCCCTGTAGAGTAAAATGATCGTAATG
420404 CCCCTGTAGAGTAAAATGA-CTGTAATG
1 CCCCTGTAGAGTAAAATGATC-GTAATG
420431 CCC
1 CCC
420434 TGGTGGGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (27 bp):
CCCCTGTAGAGTAAAATGATCGTAATG
Found at i:420503 original size:24 final size:24
Alignment explanation
Indices: 420463--420509 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
420453 TTTGCCTCGA
*
420463 GTCTGTGTTTGGTATGACTGATTT
1 GTCTGTGTTTGGAATGACTGATTT
*
420487 GTCTGTGATTT-GAATGATTGATT
1 GTCTGTG-TTTGGAATGACTGATT
420510 CTGAGTATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.17, C:0.06, G:0.28, T:0.49
Consensus pattern (24 bp):
GTCTGTGTTTGGAATGACTGATTT
Found at i:420621 original size:27 final size:26
Alignment explanation
Indices: 420578--420643 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
420568 GGAAGTACTG
420578 TACTGGTGGCTCTGCCACA-ATCACTAT
1 TACTGGTGGCT-TGCCACATAT-ACTAT
420605 TACTGGTGGCTTGGCCACATATACTAT
1 TACTGGTGGCTT-GCCACATATACTAT
* *
420632 TATTGGTAGCTT
1 TACTGGTGGCTT
420644 TGCTGCGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 1 0.03
27 32 0.91
28 2 0.06
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (26 bp):
TACTGGTGGCTTGCCACATATACTAT
Found at i:420727 original size:32 final size:32
Alignment explanation
Indices: 420681--420910 Score: 145
Period size: 32 Copynumber: 7.4 Consensus size: 32
420671 ATCGCGATGC
* * *
420681 TACTGATGGTTTTGTGCCGATCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
** *
420713 TACTGATGGCTTTGTATCGATCATCTTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* *
420745 TACCGATGGCTGTGTGCC-ATTCAT-TTCACTGT
1 TACTGATGGCTTTGTGCCGA-TCATATT-ACTGT
* * * * *
420777 TATTAATGGCTATGTGCCGATCATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* *
420809 TACTGA-----TTGTGCTGATCATGA-TACCGT
1 TACTGATGGCTTTGTGCCGATCAT-ATTACTGT
* * * * * *
420836 TATTGATGGCTGTGTGTCGGTCATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* * *
420868 TACTAATGGCTTTGTGCCAATCACATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
*
420899 TACTTATGGCTT
1 TACTGATGGCTT
420911 GTAGCCATTT
Statistics
Matches: 147, Mismatches: 40, Indels: 23
0.70 0.19 0.11
Matches are distributed among these distances:
27 19 0.13
28 1 0.01
31 15 0.10
32 110 0.75
33 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACTGT
Found at i:421987 original size:43 final size:42
Alignment explanation
Indices: 421876--421988 Score: 113
Period size: 43 Copynumber: 2.7 Consensus size: 42
421866 GAAATTTATG
* *
421876 TGTAAGACCATGTCTGGGACATTGGCATAATATATGATTTCA
1 TGTAAGACCACGTCTGGGACATTGGCATAATATATGATTACA
* * * **
421918 TGTAAGACC-CTGTCTAGGATAATGGCATCGT-TAGTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATAATATA--TGATTACA
*
421961 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
421989 TGTACGAGCT
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
41 2 0.04
42 24 0.43
43 29 0.52
44 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATAATATATGATTACA
Found at i:426603 original size:226 final size:226
Alignment explanation
Indices: 426209--426658 Score: 740
Period size: 226 Copynumber: 2.0 Consensus size: 226
426199 GCATGAATTG
* * * *
426209 GGTATACGAGTTCTGCAGTATGTAACGTCATTCATAATAGTGGAATTTATAGCCCAAGAAATGGG
1 GGTATACGACTTCTGCAGTATGTAACGTCATTCATAACAGTGGAATTCATAACCCAAGAAATGGG
* *
426274 TAAATGATATCCTCTCATTGGCATTACATGGTTGATGAATAGTAAACGTGGCCACGGGTCGTTCG
66 TAAATGATATCCTCTCATTGGCATTACATGGTTGATGAAAAGTAAACGTGGCCACGGGTCGTTCA
* *
426339 TTTATGTGATGAATGACTTGATTACTATTTGATAGTAATTGACTTTTCATGAAGGAAGATGTAGT
131 TTTATGTGATGAATGACTTGATTACTATTTGATAGTAATTGACTTTTCATGAAGGAAAATGTACT
426404 GGATACCATGAGATAAAATAAGATCATATTT
196 GGATACCATGAGATAAAATAAGATCATATTT
*
426435 GGTATACGACTTCTGCAGTATGTAGCGTCATTCATAACAGTGGAATTCATAACCCAAGAAATGGG
1 GGTATACGACTTCTGCAGTATGTAACGTCATTCATAACAGTGGAATTCATAACCCAAGAAATGGG
*
426500 TAAATGATATCTTCTCATTGGCATTACATGGTTGATGAAAAGTAAACGTGGCCACGGGTCGCTT-
66 TAAATGATATCCTCTCATTGGCATTACATGGTTGATGAAAAGTAAACGTGGCCACGGGTCG-TTC
* *
426564 ATTTATGTGATGAATGATTTGATTATTATTTGATAGTAATTGACTTTTCATGAAGGAAAATGTAC
130 ATTTATGTGATGAATGACTTGATTACTATTTGATAGTAATTGACTTTTCATGAAGGAAAATGTAC
* * * *
426629 TGGTTATCTTGAGATAAAATAGGATCATAT
195 TGGATACCATGAGATAAAATAAGATCATAT
426659 GCGGAGAACG
Statistics
Matches: 207, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
226 205 0.99
227 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (226 bp):
GGTATACGACTTCTGCAGTATGTAACGTCATTCATAACAGTGGAATTCATAACCCAAGAAATGGG
TAAATGATATCCTCTCATTGGCATTACATGGTTGATGAAAAGTAAACGTGGCCACGGGTCGTTCA
TTTATGTGATGAATGACTTGATTACTATTTGATAGTAATTGACTTTTCATGAAGGAAAATGTACT
GGATACCATGAGATAAAATAAGATCATATTT
Found at i:428414 original size:17 final size:17
Alignment explanation
Indices: 428394--428452 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
428384 AGAAGATTTC
428394 ATTTCAACATAAATTCA
1 ATTTCAACATAAATTCA
**** *
428411 ATTTCAGTGCAAATTTA
1 ATTTCAACATAAATTCA
*
428428 CATTTCAACTTAAATTCA
1 -ATTTCAACATAAATTCA
428446 ATTTCAA
1 ATTTCAA
428453 TAACAAATTT
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
17 19 0.61
18 12 0.39
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.39
Consensus pattern (17 bp):
ATTTCAACATAAATTCA
Found at i:431217 original size:183 final size:187
Alignment explanation
Indices: 430928--431293 Score: 481
Period size: 183 Copynumber: 2.0 Consensus size: 187
430918 AAATATTATG
*
430928 TATTTTTATCAAAAAAAATAGCTTTTAAACATTTTTTTTTACTTTTTTAAAGTTTTTTTTAAGAA
1 TATTTTTATC-AAAAAAATAACTTTTAAACA-TTTTTTTTACTTTTTT--A-TTTTTTTTAAGAA
* *
430993 TCAAATTGATAGAATATGTAAAATTGCAAGCTAAATTATTTGAATTTTAAGATTTAGGACTGACT
61 TCAAATTGACAGAATATGTAAAATTGCAAGCTAAATTATTTGAATTTTAAGATTTAGGACTAACT
* *
431058 AATAGAATGTATAAATGTTGAAGGGATAAATTTATTATTATGCCAATAAAAAAGGTAATTGT
126 AATAGAATGTATAAATATTGAAGGGATAAATTTATTATTATACCAATAAAAAAGGTAATTGT
431120 TATTTTTATC-AAAAAATAACTTTT-AA-A-TTTTTTTACTTTTTT-TTTATTTTTAAGAATCAA
1 TATTTTTATCAAAAAAATAACTTTTAAACATTTTTTTTACTTTTTTATTT-TTTTTAAGAATCAA
* * * * * * * * *
431180 ATTGACAGAATGTGTAAAGTTGTAGGCTAATTTATTTGGATTTTTAGATTTAGGACTAATTGATA
65 ATTGACAGAATATGTAAAATTGCAAGCTAAATTATTTGAATTTTAAGATTTAGGACTAACTAATA
* * * *
431245 GAATGTATAAATATTGGATGGCTAAATTTATTATTATACTAATAAAAAA
130 GAATGTATAAATATTGAAGGGATAAATTTATTATTATACCAATAAAAAA
431294 AAGTCATTGT
Statistics
Matches: 155, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
182 3 0.02
183 111 0.72
186 15 0.10
188 1 0.01
189 2 0.01
190 13 0.08
192 10 0.06
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.43
Consensus pattern (187 bp):
TATTTTTATCAAAAAAATAACTTTTAAACATTTTTTTTACTTTTTTATTTTTTTTAAGAATCAAA
TTGACAGAATATGTAAAATTGCAAGCTAAATTATTTGAATTTTAAGATTTAGGACTAACTAATAG
AATGTATAAATATTGAAGGGATAAATTTATTATTATACCAATAAAAAAGGTAATTGT
Found at i:431858 original size:30 final size:30
Alignment explanation
Indices: 431814--431876 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
431804 ACTTAACAAG
*
431814 CAAATGCTTCTAAAATAATAATAAAATTAA
1 CAAATGCTTCTAAAATAATAACAAAATTAA
431844 CAAATGTCTT-TAAAATAATAACAAAATTAA
1 CAAATG-CTTCTAAAATAATAACAAAATTAA
431874 CAA
1 CAA
431877 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGCTTCTAAAATAATAACAAAATTAA
Found at i:432665 original size:9 final size:9
Alignment explanation
Indices: 432644--432678 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
432634 CTTAAGTACT
432644 AAAATTTAGA
1 AAAATTTA-A
432654 AAAATTTAAA
1 AAAATTT-AA
432664 AAAATTTAA
1 AAAATTTAA
432673 AAAATT
1 AAAATT
432679 ATTTTATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 8 0.33
10 15 0.62
11 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAATTTAA
Found at i:444947 original size:36 final size:37
Alignment explanation
Indices: 444907--444998 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
444897 GTCTCCAAAT
*
444907 TCACATTTCAATTCAATTTCACTTTTTCATTTTCAA-
1 TCACATTTCAATTCAATTTCACTTTTCCATTTTCAAG
* *
444943 TCACAATTCAATTCAAAATTCACTTTTCCATTTTCAAG
1 TCACATTTCAATTC-AATTTCACTTTTCCATTTTCAAG
*
444981 TCA-ATATTCATTTCAATT
1 TCACAT-TTCAATTCAATT
444999 CCACACATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
36 13 0.28
37 24 0.51
38 10 0.21
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.46
Consensus pattern (37 bp):
TCACATTTCAATTCAATTTCACTTTTCCATTTTCAAG
Found at i:446260 original size:30 final size:31
Alignment explanation
Indices: 446224--446281 Score: 109
Period size: 30 Copynumber: 1.9 Consensus size: 31
446214 TCACATAAAA
446224 ATCTTCAATCTTACCC-ACTTATGCCGCTTT
1 ATCTTCAATCTTACCCAACTTATGCCGCTTT
446254 ATCTTCAATCTTACCCAACTTATGCCGC
1 ATCTTCAATCTTACCCAACTTATGCCGC
446282 CTAAATTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.22, C:0.34, G:0.07, T:0.36
Consensus pattern (31 bp):
ATCTTCAATCTTACCCAACTTATGCCGCTTT
Found at i:446522 original size:25 final size:25
Alignment explanation
Indices: 446488--446535 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
446478 TTTTTCGATG
446488 CCCGTGAATTTTGGGTCATTACATA
1 CCCGTGAATTTTGGGTCATTACATA
446513 CCCGTGAATTTTGGGTCATTACA
1 CCCGTGAATTTTGGGTCATTACA
446536 AAACTGTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (25 bp):
CCCGTGAATTTTGGGTCATTACATA
Found at i:460934 original size:22 final size:22
Alignment explanation
Indices: 460908--460964 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
460898 TAATGCCTAG
*
460908 CAGGCTTTGTGCCAATGTTATT
1 CAGGCTTAGTGCCAATGTTATT
* **
460930 TAGGCTTAGTGCCGGTGTTATT
1 CAGGCTTAGTGCCAATGTTATT
*
460952 CAGGCTTAATGCC
1 CAGGCTTAGTGCC
460965 TAGAAGGCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.37
Consensus pattern (22 bp):
CAGGCTTAGTGCCAATGTTATT
Found at i:460986 original size:60 final size:60
Alignment explanation
Indices: 460883--461002 Score: 177
Period size: 60 Copynumber: 2.0 Consensus size: 60
460873 ATTCAAATTA
* * * * *
460883 GGTGTTATTCAAGCTTAATGCCTAGCAGGCTTTGTGCCAATGTTATTTAGGCTTAGTGCC
1 GGTGTTATTCAAGCTTAATGCCTAGAAGGCTTTATGCCAATGTTACTCAAGCTTAGTGCC
* *
460943 GGTGTTATTCAGGCTTAATGCCTAGAAGGCTTTATGCCGATGTTACTCAAGCTTAGTGCC
1 GGTGTTATTCAAGCTTAATGCCTAGAAGGCTTTATGCCAATGTTACTCAAGCTTAGTGCC
461003 TAGCAGGCTT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (60 bp):
GGTGTTATTCAAGCTTAATGCCTAGAAGGCTTTATGCCAATGTTACTCAAGCTTAGTGCC
Found at i:461018 original size:76 final size:76
Alignment explanation
Indices: 460931--461127 Score: 238
Period size: 76 Copynumber: 2.6 Consensus size: 76
460921 AATGTTATTT
*
460931 AGGCTTAGTGCCGGTGTTATTCAGGCTTAATGCCTAGAAGGCTTTATGCC-GATGTTACTCAAGC
1 AGGCTTCGTGCCGGTGTTATTCAGGCTTAATGCCTAGAAGGCTTTATGCCAG-TGTTACTCAAGC
460995 TTAGTGCCTAGC
65 TTAGTGCCTAGC
* * * * *
461007 AGGCTTCGTGCCGGTGTTATTCAGGCTTAGTGCCTAGTAGGCTTTTTGCCAGTGTTATTTAAGCT
1 AGGCTTCGTGCCGGTGTTATTCAGGCTTAATGCCTAGAAGGCTTTATGCCAGTGTTACTCAAGCT
*
461072 TAGTTCCTAGC
66 TAGTGCCTAGC
* * * * *
461083 AGGC-TC-AGCATTGGTGTTATTCAGGCTTAACGCCAAGCAGGCTTT
1 AGGCTTCGTGC--CGGTGTTATTCAGGCTTAATGCCTAGAAGGCTTT
461128 GTACTGGTGT
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
74 2 0.02
75 2 0.02
76 100 0.95
77 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (76 bp):
AGGCTTCGTGCCGGTGTTATTCAGGCTTAATGCCTAGAAGGCTTTATGCCAGTGTTACTCAAGCT
TAGTGCCTAGC
Found at i:461137 original size:38 final size:38
Alignment explanation
Indices: 460931--461129 Score: 191
Period size: 38 Copynumber: 5.2 Consensus size: 38
460921 AATGTTATTT
* * *
460931 AGGCTTAGTGCCGGTGTTATTCAGGCTTAATGCCTAGA
1 AGGCTTTGTGCCGGTGTTATTCAGGCTTAGTGCCTAGC
* * * *
460969 AGGCTTTATGCCGATGTTACTCAAGCTTAGTGCCTAGC
1 AGGCTTTGTGCCGGTGTTATTCAGGCTTAGTGCCTAGC
* *
461007 AGGCTTCGTGCCGGTGTTATTCAGGCTTAGTGCCTAGT
1 AGGCTTTGTGCCGGTGTTATTCAGGCTTAGTGCCTAGC
* * * * *
461045 AGGCTTTTTGCCAGTGTTATTTAAGCTTAGTTCCTAGC
1 AGGCTTTGTGCCGGTGTTATTCAGGCTTAGTGCCTAGC
** **** ** *
461083 AGGCTCAGCATTGGTGTTATTCAGGCTTAACGCCAAGC
1 AGGCTTTGTGCCGGTGTTATTCAGGCTTAGTGCCTAGC
461121 AGGCTTTGT
1 AGGCTTTGT
461130 ACTGGTGTAC
Statistics
Matches: 124, Mismatches: 37, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
38 124 1.00
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.34
Consensus pattern (38 bp):
AGGCTTTGTGCCGGTGTTATTCAGGCTTAGTGCCTAGC
Found at i:467484 original size:22 final size:22
Alignment explanation
Indices: 467449--467490 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
467439 ATTTGAATTA
*
467449 GGTGTGATTTAGGCTTAGTGCC
1 GGTGTGATTCAGGCTTAGTGCC
*
467471 GGTGTTATTCAGGCTTAGTG
1 GGTGTGATTCAGGCTTAGTG
467491 GCTAGCAGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.12, G:0.36, T:0.38
Consensus pattern (22 bp):
GGTGTGATTCAGGCTTAGTGCC
Found at i:467510 original size:38 final size:38
Alignment explanation
Indices: 467459--467731 Score: 279
Period size: 38 Copynumber: 7.2 Consensus size: 38
467449 GGTGTGATTT
467459 AGGC-TTAGTGCCGGTGTTATTCAGGCTTAGTGGCTAGC
1 AGGCTTTA-TGCCGGTGTTATTCAGGCTTAGTGGCTAGC
*
467497 AGGCTTTATGCCGGTGTTATTCAGACTTAGT-GCTTAGC
1 AGGCTTTATGCCGGTGTTATTCAGGCTTAGTGGC-TAGC
* * * *
467535 AGGCTTTGTGCCGGTGCTATTTAGGCTTAGTGGTTAGC
1 AGGCTTTATGCCGGTGTTATTCAGGCTTAGTGGCTAGC
* *
467573 AGGC-TCAGTGCCAGTGTTATTCAGGCTTAGTGGCTAGC
1 AGGCTTTA-TGCCGGTGTTATTCAGGCTTAGTGGCTAGC
* * *
467611 AGGCTTCGA-GCCGGTGTTATTCAAGCTTAG-GGCCTAGT
1 AGGCTT-TATGCCGGTGTTATTCAGGCTTAGTGG-CTAGC
** * *
467649 AGGCTTCGTTCCGGTGTTATTCAGGCTTAGTGCCTAGC
1 AGGCTTTATGCCGGTGTTATTCAGGCTTAGTGGCTAGC
* * * * *
467687 AAGC-TCAGTGCCGGTGTTATTCAAGCTTAGCGCCTAGC
1 AGGCTTTA-TGCCGGTGTTATTCAGGCTTAGTGGCTAGC
467725 AGGCTTT
1 AGGCTTT
467732 GTGTCAGTGT
Statistics
Matches: 195, Mismatches: 29, Indels: 21
0.80 0.12 0.09
Matches are distributed among these distances:
37 7 0.04
38 180 0.92
39 7 0.04
40 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.30, T:0.32
Consensus pattern (38 bp):
AGGCTTTATGCCGGTGTTATTCAGGCTTAGTGGCTAGC
Found at i:467590 original size:76 final size:76
Alignment explanation
Indices: 467459--467730 Score: 327
Period size: 76 Copynumber: 3.6 Consensus size: 76
467449 GGTGTGATTT
* * *
467459 AGGCTTAGTGCCGGTGTTATTCAGGCTTAGTGGCTAGCAGGCTTTA-TGCCGGTGTTATTCAGAC
1 AGGCTTAGTGCCGGTGTTATTCAAGCTTAGTGGCTAGCAGGCTTCAGTGCCGGTGTTATTCAGGC
467523 TTAGTGCTTAGC
66 TTAGTGC-TAGC
* * * * * *
467535 AGGCTTTGTGCCGGTGCTATTTAGGCTTAGTGGTTAGCAGGC-TCAGTGCCAGTGTTATTCAGGC
1 AGGCTTAGTGCCGGTGTTATTCAAGCTTAGTGGCTAGCAGGCTTCAGTGCCGGTGTTATTCAGGC
467599 TTAGTGGCTAGC
66 TTAGT-GCTAGC
* * * *
467611 AGGCTTCGAGCCGGTGTTATTCAAGCTTAG-GGCCTAGTAGGCTTC-GTTCCGGTGTTATTCAGG
1 AGGCTTAGTGCCGGTGTTATTCAAGCTTAGTGG-CTAGCAGGCTTCAGTGCCGGTGTTATTCAGG
467674 CTTAGTGCCTAGC
65 CTTAGTG-CTAGC
* * * *
467687 AAGCTCAGTGCCGGTGTTATTCAAGCTTAGCGCCTAGCAGGCTT
1 AGGCTTAGTGCCGGTGTTATTCAAGCTTAGTGGCTAGCAGGCTT
467731 TGTGTCAGTG
Statistics
Matches: 168, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
75 5 0.03
76 158 0.94
77 5 0.03
ACGTcount: A:0.17, C:0.21, G:0.31, T:0.32
Consensus pattern (76 bp):
AGGCTTAGTGCCGGTGTTATTCAAGCTTAGTGGCTAGCAGGCTTCAGTGCCGGTGTTATTCAGGC
TTAGTGCTAGC
Found at i:467640 original size:114 final size:114
Alignment explanation
Indices: 467459--467730 Score: 368
Period size: 114 Copynumber: 2.4 Consensus size: 114
467449 GGTGTGATTT
* *
467459 AGGCTTAGTGCCGGTGTTATTCAGGCTTAGTGGCTAGCAGGCTTTATGCCGGTGTTATTCAGACT
1 AGGCTCAGTGCCGGTGTTATTCAGGCTTAGTGGCTAGCAGGCTTGATGCCGGTGTTATTCAGACT
* * * * **
467524 TAGTGCTTAGCAGGCTTTGTGCCGGTGCTATTTAGGCTTAGTGGTTAGC
66 TAGGGCCTAGCAGGCTTCGTGCCGGTGCTATTCAGGCTTAGTGCCTAGC
*
467573 AGGCTCAGTGCCAGTGTTATTCAGGCTTAGTGGCTAGCAGGCTTCGA-GCCGGTGTTATTCA-AG
1 AGGCTCAGTGCCGGTGTTATTCAGGCTTAGTGGCTAGCAGGCTT-GATGCCGGTGTTATTCAGA-
* * *
467636 CTTAGGGCCTAGTAGGCTTCGTTCCGGTGTTATTCAGGCTTAGTGCCTAGC
64 CTTAGGGCCTAGCAGGCTTCGTGCCGGTGCTATTCAGGCTTAGTGCCTAGC
* * * *
467687 AAGCTCAGTGCCGGTGTTATTCAAGCTTAGCGCCTAGCAGGCTT
1 AGGCTCAGTGCCGGTGTTATTCAGGCTTAGTGGCTAGCAGGCTT
467731 TGTGTCAGTG
Statistics
Matches: 139, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
113 1 0.01
114 137 0.99
115 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.31, T:0.32
Consensus pattern (114 bp):
AGGCTCAGTGCCGGTGTTATTCAGGCTTAGTGGCTAGCAGGCTTGATGCCGGTGTTATTCAGACT
TAGGGCCTAGCAGGCTTCGTGCCGGTGCTATTCAGGCTTAGTGCCTAGC
Found at i:476530 original size:41 final size:41
Alignment explanation
Indices: 476484--476573 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 41
476474 AAATACATCA
*
476484 TTTTCATTTGT-CATCCTTTT-TAGATAACATCCTTTTCAACC
1 TTTTCATTT-TACATCCTTTTCCA-ATAACATCCTTTTCAACC
*
476525 TTTTCATTTTATATCCTTTTCCAATAACATCCTTTTCAACC
1 TTTTCATTTTACATCCTTTTCCAATAACATCCTTTTCAACC
476566 TTTTCATT
1 TTTTCATT
476574 GATTCGGTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
40 1 0.02
41 43 0.96
42 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.02, T:0.51
Consensus pattern (41 bp):
TTTTCATTTTACATCCTTTTCCAATAACATCCTTTTCAACC
Done.