Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 33 of 78
Found at i:6720794 original size:19 final size:20
Alignment explanation
Indices: 6720733--6720846 Score: 62
Period size: 19 Copynumber: 5.8 Consensus size: 20
6720723 AAATATTTCT
*
6720733 TTTAAAAATAT-TTAAGAATC
1 TTTAAAAATATATTAA-AATA
* * * *
6720753 TTTAAAATTTTA-TATATTA
1 TTTAAAAATATATTAAAATA
6720772 TTTAAAAATATATTAAAAT-
1 TTTAAAAATATATTAAAATA
*
6720791 TTTATAAAT-TATTTAAAAATA
1 TTTAAAAATATA-TT-AAAATA
*
6720812 TATT-AAAAT-TATAAAAAT-
1 T-TTAAAAATATATTAAAATA
6720830 TATTAAATAATATATTA
1 T-TTAAA-AATATATTA
6720847 GTTTTGTTGA
Statistics
Matches: 72, Mismatches: 13, Indels: 17
0.71 0.13 0.17
Matches are distributed among these distances:
18 6 0.08
19 29 0.40
20 24 0.33
21 11 0.15
22 2 0.03
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.46
Consensus pattern (20 bp):
TTTAAAAATATATTAAAATA
Found at i:6720802 original size:30 final size:30
Alignment explanation
Indices: 6720732--6720846 Score: 146
Period size: 30 Copynumber: 3.9 Consensus size: 30
6720722 TAAATATTTC
* * *
6720732 TTTTA-AAAATATTTAAGAATCT-TTAAAA
1 TTTTATAAATTATTTAAAAATATATTAAAA
*
6720760 TTTTATATATTATTTAAAAATATATTAAAA
1 TTTTATAAATTATTTAAAAATATATTAAAA
6720790 TTTTATAAATTATTTAAAAATATATTAAAA
1 TTTTATAAATTATTTAAAAATATATTAAAA
* *
6720820 TTATAAAAATTA-TTAAATAATATATTA
1 TTTTATAAATTATTTAAA-AATATATTA
6720847 GTTTTGTTGA
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
28 5 0.06
29 18 0.23
30 54 0.70
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (30 bp):
TTTTATAAATTATTTAAAAATATATTAAAA
Found at i:6722703 original size:4 final size:4
Alignment explanation
Indices: 6722694--6722722 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
6722684 TATTAGAAAC
6722694 AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA A
6722723 CAGTGGTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:6724464 original size:135 final size:134
Alignment explanation
Indices: 6724217--6725059 Score: 852
Period size: 135 Copynumber: 6.3 Consensus size: 134
6724207 TTCGAGCTGC
* * * ** *
6724217 GAGTGCTTCTCATTATGAACTCTCTACTGGAAATGTTGGTCCCTCAAGTGAGGCATAC-CTGATT
1 GAGTTCTTCTCATTATGAACTCTC-ATTAGAAATGTTAATCCCTCAAGTGAGGCGT-CGCTGATT
* * * * * * * *
6724281 CGAAATACCTTGAATC-AGAAAAAAGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCTTCA
64 CAAAATATCGTGAATCGAG-CAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCT
6724345 ATCGGAT
128 ATCGGAT
*
6724352 GAGTTCTTCTCATTATGAACTCTACATTAGAAATGTTAATCCCTCGAGTGAGGCGTCGCTGATTC
1 GAGTTCTTCTCATTATGAACTCT-CATTAGAAATGTTAATCCCTCAAGTGAGGCGTCGCTGATTC
* * * *
6724417 CAAATATCGTGAATCAAGCAAAGGTTGAACAAATTCTTCTCATTATGAA-TATTTTCTCCCTCTA
65 AAAATATCGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACT-TCTTCTCCCTCTA
6724481 TCGGAT
129 TCGGAT
* *
6724487 GAGTTCTTCTCATTATGAACTCTCTATT-GAAAATATTAATCCCTC-----A----TCGCTGTTT
1 GAGTTCTTCTCATTATGAACTCTC-ATTAG-AAATGTTAATCCCTCAAGTGAGGCGTCGCTGATT
* * * * * * *
6724542 CAAAATTTTTCGTAAATCGAGAAAATGTTGAACAAATTCTTCTCATTATGAACTTATTCTCCCTT
64 CAAAA--TATCGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTC
6724607 TATCGGAT
127 TATCGGAT
* * * *
6724615 GAGATCTTCTCATTATGAACTCTCCATTAAAAATGTTAATCCCTCAAGTGAGGTGTCGTTGATTC
1 GAGTTCTTCTCATTATGAACTCT-CATTAGAAATGTTAATCCCTCAAGTGAGGCGTCGCTGATTC
* * ** * * *
6724680 AAAATA-CTGGGAATTGAGCAAAAATTGAACAAGTTCTTCTCATTGTTAACTTCTTCTCCCTTTA
65 AAAATATC-GTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTA
6724744 TCGGAT
129 TCGGAT
* *
6724750 GAGTTCTTCTCATTATAAACTCTCAATTAGAAATGTTAATCCCTCAAGTGAAGCGTCGCTGATTC
1 GAGTTCTTCTCATTATGAACTCTC-ATTAGAAATGTTAATCCCTCAAGTGAGGCGTCGCTGATTC
* * * * * * * * * *
6724815 AAAATGTTGTAAATTGAGCAAAGGTTGAACAATTTCTTCTTATAACGAATTTATTCTCCCTCTAT
65 AAAATATCGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTAT
6724880 CGGAT
130 CGGAT
* * ** * *
6724885 GAGTTCTTCTTATTATGAACTCTCCATTAGAAATGTTAATCCCTCGAGTGAGGTTTCGCTAATTT
1 GAGTTCTTCTCATTATGAACTCT-CATTAGAAATGTTAATCCCTCAAGTGAGGCGTCGCTGATTC
* * * * * * * *
6724950 GAAATTTCATGAATCGAGCAAAGATTTAACAAGTTATTCTCATTA-CAGCTTCTTCTCCCTCTAT
65 AAAATATCGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTAT
*
6725014 CAGAT
130 CGGAT
*
6725019 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATC
1 GAGTTCTTCTCATTATGAACTCT-CATTAGAAATGTTAATC
6725060 GGTTTATCTT
Statistics
Matches: 593, Mismatches: 91, Indels: 49
0.81 0.12 0.07
Matches are distributed among these distances:
126 12 0.02
128 96 0.16
129 2 0.00
130 1 0.00
133 1 0.00
134 64 0.11
135 401 0.68
136 4 0.01
137 12 0.02
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (134 bp):
GAGTTCTTCTCATTATGAACTCTCATTAGAAATGTTAATCCCTCAAGTGAGGCGTCGCTGATTCA
AAATATCGTGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATC
GGAT
Found at i:6724710 original size:263 final size:261
Alignment explanation
Indices: 6724300--6725059 Score: 868
Period size: 263 Copynumber: 2.9 Consensus size: 261
6724290 TTGAATCAGA
* * * *
6724300 AAAAAGTTGAACAAGTTATTCTCATTATGAACTTCTTCT-CCTTCAATCGGATGAGTTCTTCTCA
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTATTCTCCCTT-TATCGGATGAGTTCTTCTCA
* * *
6724364 TTATGAACTCTACATTAGAAATGTTAATCCCTCGAGTGAGGCGTCGCTGATTCCAAATA-TCGTG
65 TTATGAACTCTCCATTAGAAATGTTAATCCCTCGAGTGAGGTGTCGCTGATTCAAAATACT-G-G
* * * * *
6724428 AATCAAGCAAAGGTTGAACAAATTCTTCTCATTATGAATATTTTCTCCCTCTATCGGATGAGTTC
128 AATCGAGCAAAGATTGAACAAGTTCTTCTCATTATCAAT-TCTTCTCCCTCTATCGGATGAGTTC
* * * *
6724493 TTCTCATTATGAACTCTCTATTGAAAATATTAATCCCTC-A-TCGCTGTTTCAAAATTTTTCGTA
192 TTCTCATTATGAACTCTCAATTGAAAATGTTAATCCCTCAAGTCGCTGATTCAAAA-TGTT-GTA
6724556 AATCGAG
255 AATCGAG
* *
6724563 AAAATGTTGAACAAATTCTTCTCATTATGAACTTATTCTCCCTTTATCGGATGAGATCTTCTCAT
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTATTCTCCCTTTATCGGATGAGTTCTTCTCAT
* * *
6724628 TATGAACTCTCCATTAAAAATGTTAATCCCTCAAGTGAGGTGTCGTTGATTCAAAATACTGGGAA
66 TATGAACTCTCCATTAGAAATGTTAATCCCTCGAGTGAGGTGTCGCTGATTCAAAATACT-GGAA
* * * * *
6724693 TTGAGCAAAAATTGAACAAGTTCTTCTCATTGTTAACTTCTTCTCCCTTTATCGGATGAGTTCTT
130 TCGAGCAAAGATTGAACAAGTTCTTCTCATTATCAA-TTCTTCTCCCTCTATCGGATGAGTTCTT
*
6724758 CTCATTATAAACTCTCAATT-AGAAATGTTAATCCCTCAAGTGAAGCGTCGCTGATTCAAAATGT
194 CTCATTATGAACTCTCAATTGA-AAATGTTAATCCCTC-----AA--GTCGCTGATTCAAAATGT
*
6724822 TGTAAATTGAG
251 TGTAAATCGAG
* * * * * * * * *
6724833 CAAAGGTTGAACAATTTCTTCTTATAACGAATTTATTCTCCCTCTATCGGATGAGTTCTTCTTAT
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTATTCTCCCTTTATCGGATGAGTTCTTCTCAT
* * * * *
6724898 TATGAACTCTCCATTAGAAATGTTAATCCCTCGAGTGAGGTTTCGCTAATTTGAAATTTCAT-GA
66 TATGAACTCTCCATTAGAAATGTTAATCCCTCGAGTGAGGTGTCGCTGA-TTCAAAATAC-TGGA
* * * *
6724962 ATCGAGCAAAGATTTAACAAGTTATTCTCATTA-CAGCTTCTTCTCCCTCTATCAGATGAGTTCT
129 ATCGAGCAAAGATTGAACAAGTTCTTCTCATTATCA-ATTCTTCTCCCTCTATCGGATGAGTTCT
* *
6725026 TCTCATTATGAACTCTCCATTGGAAATGTTAATC
193 TCTCATTATGAACTCTCAATTGAAAATGTTAATC
6725060 GGTTTATCTT
Statistics
Matches: 422, Mismatches: 58, Indels: 28
0.83 0.11 0.06
Matches are distributed among these distances:
262 1 0.00
263 195 0.46
264 7 0.02
269 57 0.14
270 138 0.33
271 10 0.02
272 14 0.03
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (261 bp):
AAAAAGTTGAACAAATTCTTCTCATTATGAACTTATTCTCCCTTTATCGGATGAGTTCTTCTCAT
TATGAACTCTCCATTAGAAATGTTAATCCCTCGAGTGAGGTGTCGCTGATTCAAAATACTGGAAT
CGAGCAAAGATTGAACAAGTTCTTCTCATTATCAATTCTTCTCCCTCTATCGGATGAGTTCTTCT
CATTATGAACTCTCAATTGAAAATGTTAATCCCTCAAGTCGCTGATTCAAAATGTTGTAAATCGA
G
Found at i:6728413 original size:11 final size:11
Alignment explanation
Indices: 6728397--6728421 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6728387 CTTGTGTGTC
6728397 TTTTATTTTAT
1 TTTTATTTTAT
6728408 TTTTATTTTAT
1 TTTTATTTTAT
6728419 TTT
1 TTT
6728422 GGTGTTCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:6728539 original size:20 final size:20
Alignment explanation
Indices: 6728516--6728554 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6728506 TTCTTTCTTT
*
6728516 CTTTCTTTTATTTTATTTTG
1 CTTTATTTTATTTTATTTTG
*
6728536 CTTTATTTTCTTTTATTTT
1 CTTTATTTTATTTTATTTT
6728555 TTCTTTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.77
Consensus pattern (20 bp):
CTTTATTTTATTTTATTTTG
Found at i:6730378 original size:4 final size:4
Alignment explanation
Indices: 6730369--6730399 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
6730359 TTCGAACATA
*
6730369 AAAT AAAT AAAT AAGT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
6730400 AATTAACGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:6730680 original size:29 final size:29
Alignment explanation
Indices: 6730648--6730703 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
6730638 TTGTTAGAGT
* *
6730648 GCAATAAAATAAAAGTTAGTGGTTAATAC
1 GCAATAAAATAAAAGTAAGTAGTTAATAC
*
6730677 GCAATAAAATGAAAGTAAGTAGTTAAT
1 GCAATAAAATAAAAGTAAGTAGTTAAT
6730704 TAGAAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.50, C:0.05, G:0.18, T:0.27
Consensus pattern (29 bp):
GCAATAAAATAAAAGTAAGTAGTTAATAC
Found at i:6730711 original size:29 final size:29
Alignment explanation
Indices: 6730650--6730711 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
6730640 GTTAGAGTGC
* * *
6730650 AATAAAATAAAAGTTAGTGGTTAATACGC
1 AATAAAATAAAAGTAAGTAGTTAATACGA
*
6730679 AATAAAATGAAAGTAAGTAGTTAATTA-GA
1 AATAAAATAAAAGTAAGTAGTTAA-TACGA
6730708 AATA
1 AATA
6730712 TAAAATGCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 26 0.93
30 2 0.07
ACGTcount: A:0.53, C:0.03, G:0.16, T:0.27
Consensus pattern (29 bp):
AATAAAATAAAAGTAAGTAGTTAATACGA
Found at i:6732364 original size:60 final size:60
Alignment explanation
Indices: 6732253--6732367 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
6732243 ACTATGATTA
* * *
6732253 TCATTTTAAATTAGTCCTCAAACTTTTAAATAATTCAATTTTACCTCCAAACTATGACCT
1 TCATTCTAAATTAGTCCCCAAACTTTTAAATAATTCAATTTCACCTCCAAACTATGACCT
* * * *
6732313 TCATTCTAAATTAGTCCCCAAACTTTTTGAATATTTCGATTTCATCT-CAAACTAT
1 TCATTCTAAATTAGTCCCCAAAC-TTTTAAATAATTCAATTTCACCTCCAAACTAT
6732368 ATGTATATTC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
60 29 0.62
61 18 0.38
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (60 bp):
TCATTCTAAATTAGTCCCCAAACTTTTAAATAATTCAATTTCACCTCCAAACTATGACCT
Found at i:6732999 original size:17 final size:17
Alignment explanation
Indices: 6732977--6733057 Score: 74
Period size: 17 Copynumber: 5.4 Consensus size: 17
6732967 ATGATGATTG
6732977 ATACTTGTATCAATTAT
1 ATACTTGTATCAATTAT
6732994 ATACTT-T-T---TTAT
1 ATACTTGTATCAATTAT
*
6733006 TTACTTGTATCAATTAT
1 ATACTTGTATCAATTAT
6733023 ATACTT-T-T---TTAT
1 ATACTTGTATCAATTAT
*
6733035 TTACTTGTATCAATTAT
1 ATACTTGTATCAATTAT
6733052 ATACTT
1 ATACTT
6733058 TTTTTATTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 20
0.68 0.05 0.27
Matches are distributed among these distances:
12 18 0.36
13 2 0.04
14 2 0.04
15 2 0.04
16 2 0.04
17 24 0.48
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.56
Consensus pattern (17 bp):
ATACTTGTATCAATTAT
Found at i:6733020 original size:29 final size:29
Alignment explanation
Indices: 6732978--6733067 Score: 171
Period size: 29 Copynumber: 3.1 Consensus size: 29
6732968 TGATGATTGA
6732978 TACTTGTATCAATTATATACTTTTTTATT
1 TACTTGTATCAATTATATACTTTTTTATT
6733007 TACTTGTATCAATTATATACTTTTTTATT
1 TACTTGTATCAATTATATACTTTTTTATT
6733036 TACTTGTATCAATTATATACTTTTTTTATT
1 TACTTGTATCAATTATATAC-TTTTTTATT
6733066 TA
1 TA
6733068 GTTTTCTGAT
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 49 0.82
30 11 0.18
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (29 bp):
TACTTGTATCAATTATATACTTTTTTATT
Found at i:6735567 original size:15 final size:15
Alignment explanation
Indices: 6735549--6735591 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
6735539 ATTATTTACA
6735549 TTATATTTATTATCT
1 TTATATTTATTATCT
*
6735564 TTATAGTTATTA-CT
1 TTATATTTATTATCT
6735578 TTAATATTT-TTATC
1 TT-ATATTTATTATC
6735592 GTATTATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (15 bp):
TTATATTTATTATCT
Found at i:6736358 original size:28 final size:28
Alignment explanation
Indices: 6736326--6736381 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
6736316 ATGAGTTTTA
*
6736326 AAAT-GGATTTTTATTTAAATTTAACATT
1 AAATGGGA-TTTTATTCAAATTTAACATT
6736354 AAATGGGATTTTATTCAAATTTAACATT
1 AAATGGGATTTTATTCAAATTTAACATT
6736382 GTCAAATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.46
Consensus pattern (28 bp):
AAATGGGATTTTATTCAAATTTAACATT
Found at i:6739851 original size:2 final size:2
Alignment explanation
Indices: 6739846--6739875 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6739836 CGCATGCACG
*
6739846 CA CA CA CA TA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6739876 TATATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:6741157 original size:133 final size:131
Alignment explanation
Indices: 6740936--6741318 Score: 430
Period size: 132 Copynumber: 2.9 Consensus size: 131
6740926 TGCACTGCAC
* * * * * *** * * *
6740936 GGTAGATCAGATATGGAAATGTTGATTCACTCAACCGCTCTTCAGAGTAGATTGAAATGAGGCAG
1 GGTAGATCAAATCTGGAAACGTTGATTCATTCCACTATTCTTCAGGGAAGATTGAATTGAGGCAG
* *
6741001 ATTTGTTCCACTGCTCC-CTAGGGAAGATCAAATATGGAAAAAAGGGGATCTGCTCTACT-TCTC
66 ATTTGTTCCACTGCTCCTC-AGGGAAGATCAAATCTGGAAAAAA--GGATCTGCTCCACTGT-TC
*
6741064 TTTAG
127 TTCAG
* * *
6741069 GGTAGATCAAATCTGGAAACGTTGATTCATTCTACTATTCTTTAGGGAAGATTGAATTGAGGCAT
1 GGTAGATCAAATCTGGAAACGTTGATTCATTCCACTATTCTTCAGGGAAGATTGAATTGAGGCAG
* * * * * *
6741134 ACTTGTTCTACTGGTCCTCAGGGAAGATCAAATCTGGAAAAAAAGGATATCCTCCGCTGTTCTTC
66 ATTTGTTCCACTGCTCCTCAGGGAAGATCAAATCTGG-AAAAAAGGATCTGCTCCACTGTTCTTC
6741199 AG
130 AG
* * * *
6741201 GGTATATCAAATCTGGAAACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAG
1 GGTAGATCAAATCTGGAAACGTTGATTCATTCCACTATTCTTCAGGGAAGATTGAATTGAGGCAG
* * *
6741266 ATTTGTTCCACTACTCCTTAGGGAAGATAAAATCT-GAAAAAAGGATCTGCTCC
66 ATTTGTTCCACTGCTCCTCAGGGAAGATCAAATCTGGAAAAAAGGATCTGCTCC
6741319 TCTACTCTTC
Statistics
Matches: 210, Mismatches: 37, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
130 15 0.07
131 1 0.00
132 103 0.49
133 84 0.40
134 7 0.03
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (131 bp):
GGTAGATCAAATCTGGAAACGTTGATTCATTCCACTATTCTTCAGGGAAGATTGAATTGAGGCAG
ATTTGTTCCACTGCTCCTCAGGGAAGATCAAATCTGGAAAAAAGGATCTGCTCCACTGTTCTTCA
G
Found at i:6748520 original size:15 final size:15
Alignment explanation
Indices: 6748496--6748526 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6748486 TACAGTAGAA
*
6748496 ACTCTTTAAATTAAT
1 ACTCTGTAAATTAAT
6748511 ACTCTGTAAATTAAT
1 ACTCTGTAAATTAAT
6748526 A
1 A
6748527 AACTCTCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (15 bp):
ACTCTGTAAATTAAT
Found at i:6748537 original size:17 final size:17
Alignment explanation
Indices: 6748494--6748545 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
6748484 TATACAGTAG
*
6748494 AAACTCTTTAAATTAAT
1 AAACTCTCTAAATTAAT
*
6748511 --ACTCTGTAAATTAAT
1 AAACTCTCTAAATTAAT
*
6748526 AAACTCTCTAAAATAAT
1 AAACTCTCTAAATTAAT
6748543 AAA
1 AAA
6748546 TTTGTTCGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 14 0.47
17 16 0.53
ACGTcount: A:0.50, C:0.13, G:0.02, T:0.35
Consensus pattern (17 bp):
AAACTCTCTAAATTAAT
Found at i:6754997 original size:11 final size:10
Alignment explanation
Indices: 6754967--6755007 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
6754957 GGGCTTTGTA
6754967 ATTTAATATT
1 ATTTAATATT
6754977 ATTTATATATGT
1 ATTTA-ATAT-T
6754989 ATTTAATATAT
1 ATTTAATAT-T
6755000 ATTTAATA
1 ATTTAATA
6755008 ATAATAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 5 0.18
11 17 0.61
12 6 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (10 bp):
ATTTAATATT
Found at i:6755011 original size:3 final size:3
Alignment explanation
Indices: 6755003--6755063 Score: 86
Period size: 3 Copynumber: 20.3 Consensus size: 3
6754993 AATATATATT
* * * *
6755003 TAA TAA TAA TAA TGA TGA TGA TAA TAA TAA TAA TAA TAA TAA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6755051 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
6755064 TATTATTATT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6755068 original size:3 final size:3
Alignment explanation
Indices: 6755062--6755087 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6755052 AATAATAATA
6755062 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
6755088 AATAACAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:6755753 original size:113 final size:113
Alignment explanation
Indices: 6755450--6756088 Score: 915
Period size: 113 Copynumber: 5.6 Consensus size: 113
6755440 GTTGAACAAA
* *
6755450 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTGGAAAAGCTGCTCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCA
* * ** * *
6755514 AGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTTATTATGAAC
66 AATGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
* ** * * *
6755562 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCA
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCA
* *
6755627 TCAAATGATGAATTCAAACAAAATGTTGAACAAGTTCTTCTCATTATGAAC
63 TCAAATGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
*
6755678 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGATGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCA
* * * *
6755743 ATTGACGAATTCATGTAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
66 AATGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
* *
6755791 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTTTCTGGAAAATCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCA
* ** * *
6755856 AATGATGGATTTGAGCAAAAGGTTAAACAAGCTCTTCTCATTATGAAC
66 AATGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
* *
6755904 TTTTTCTTCCTTCTTCAGATGAGTTTTTCTCATTATGAACTTTTTCTGGAAATA-CTGATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAA-AGCTGATCCATC
* * *
6755968 AATTGATGAATTCATGTAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
65 AAATGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
6756017 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTT-TGGAAAAGCTGATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-TTCTGGAAAAGCTGATCCATC
6756081 AAATGATG
65 AAATGATG
6756089 GATTTGAATC
Statistics
Matches: 467, Mismatches: 53, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
112 21 0.04
113 346 0.74
114 3 0.01
115 20 0.04
116 77 0.16
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (113 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCA
AATGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
Found at i:6756021 original size:339 final size:339
Alignment explanation
Indices: 6755450--6756082 Score: 1009
Period size: 339 Copynumber: 1.9 Consensus size: 339
6755440 GTTGAACAAA
*
6755450 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGCTCCATCAA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGATCCATCAA
* * * *
6755515 GTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAG
66 ATGATGGATTTGAGCAAAAGGTTAAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* **
6755580 ATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAA
131 AT-A-GAGTTCTTCTCATTATGAACTCTACCTGGAAATACTGATCCATCAAATGATGAATTCAAA
*
6755645 CAAAATGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
194 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
6755710 TTATGAACTTT-TTCTGGAAAAGATGATCCATCAATTGACGAATTCATGTAAAAGGTTGAACAAG
259 TTATGAACTTTCTT-TGGAAAAGATGATCCATCAATTGACGAATTCATGTAAAAGGTTGAACAAG
6755774 TTCTTCTCATTATGAAC
323 TTCTTCTCATTATGAAC
* * *
6755791 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTTTCTGGAAAATCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTGGAAAAGCTGATCCATCA
* *
6755856 AATGATGGATTTGAGCAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCA
65 AATGATGGATTTGAGCAAAAGGTTAAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* * ** * ***
6755921 GAT-GAGTTTTTCTCATTATGAACTTTTTCTGGAAATACTGATCCATCAATTGATGAATTCATGT
130 GATAGAGTTCTTCTCATTATGAACTCTACCTGGAAATACTGATCCATCAAATGATGAATTCAAAC
6755985 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
195 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
6756050 TATGAACTTTCTTTGGAAAAGCTGATCCATCAA
260 TATGAACTTTCTTTGGAAAAGATGATCCATCAA
6756083 ATGATGGATT
Statistics
Matches: 267, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
339 143 0.54
340 2 0.01
341 39 0.15
342 83 0.31
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.39
Consensus pattern (339 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGATCCATCAA
ATGATGGATTTGAGCAAAAGGTTAAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
ATAGAGTTCTTCTCATTATGAACTCTACCTGGAAATACTGATCCATCAAATGATGAATTCAAACA
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTTTGGAAAAGATGATCCATCAATTGACGAATTCATGTAAAAGGTTGAACAAGTTC
TTCTCATTATGAAC
Found at i:6758146 original size:14 final size:14
Alignment explanation
Indices: 6758122--6758171 Score: 63
Period size: 13 Copynumber: 3.8 Consensus size: 14
6758112 CTTGACCCTC
6758122 CTTTTTCTTTTTTCT
1 CTTTTT-TTTTTTCT
6758137 C--TTTTTTTTTCT
1 CTTTTTTTTTTTCT
6758149 -TTTTTTTTTTT-T
1 CTTTTTTTTTTTCT
6758161 CTTTTTTTTTT
1 CTTTTTTTTTT
6758172 CTTCATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 9 0.28
13 22 0.69
15 1 0.03
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (14 bp):
CTTTTTTTTTTTCT
Found at i:6758171 original size:25 final size:26
Alignment explanation
Indices: 6758123--6758174 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
6758113 TTGACCCTCC
6758123 TTTTTCTTTTTTCTCTTTTTTTTTCT
1 TTTTTCTTTTTTCTCTTTTTTTTTCT
*
6758149 TTTTTTTTTTTTCT-TTTTTTTTTCT
1 TTTTTCTTTTTTCTCTTTTTTTTTCT
6758174 T
1 T
6758175 CATTTTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (26 bp):
TTTTTCTTTTTTCTCTTTTTTTTTCT
Found at i:6758180 original size:14 final size:13
Alignment explanation
Indices: 6758129--6758182 Score: 69
Period size: 12 Copynumber: 4.2 Consensus size: 13
6758119 CTCCTTTTTC
6758129 TTTTTTC-TCTTT
1 TTTTTTCTTCTTT
6758141 TTTTTTCTT-TTT
1 TTTTTTCTTCTTT
6758153 TTTTTT-TTCTTTT
1 TTTTTTCTTC-TTT
6758166 TTTTTTCTTCATTT
1 TTTTTTCTTC-TTT
6758180 TTT
1 TTT
6758183 CTTCAAGCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
11 2 0.05
12 16 0.43
13 10 0.27
14 9 0.24
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTTCTTCTTT
Found at i:6758182 original size:1 final size:1
Alignment explanation
Indices: 6758123--6758171 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
6758113 TTGACCCTCC
* * * * *
6758123 TTTTTCTTTTTTCTCTTTTTTTTTCTTTTTTTTTTTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6758172 CTTCATTTTT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:6770983 original size:11 final size:10
Alignment explanation
Indices: 6770953--6770993 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
6770943 GGGCTTTGTA
6770953 ATTTAATATT
1 ATTTAATATT
6770963 ATTTATATATGT
1 ATTTA-ATAT-T
6770975 ATTTAATATAT
1 ATTTAATAT-T
6770986 ATTTAATA
1 ATTTAATA
6770994 ATAATAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 5 0.18
11 17 0.61
12 6 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (10 bp):
ATTTAATATT
Found at i:6770997 original size:3 final size:3
Alignment explanation
Indices: 6770989--6771056 Score: 118
Period size: 3 Copynumber: 22.7 Consensus size: 3
6770979 AATATATATT
*
6770989 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
6771037 TAA TAA CAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
6771057 TTTATAATAT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6777618 original size:2 final size:2
Alignment explanation
Indices: 6777565--6777599 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
6777555 GCATATTACC
6777565 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6777600 CATGCACAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6792310 original size:60 final size:59
Alignment explanation
Indices: 6792129--6792312 Score: 185
Period size: 60 Copynumber: 3.1 Consensus size: 59
6792119 GTATCATATG
* * * *
6792129 TCCCTAAACTATG-ACTCTCATTTTAAACTGATCCTTAAACTTTTAAATATTCCAATTTCA
1 TCCC-AAACTATGAAC-CTCATTTTAAATTGGTCCTTAAACTTTTGAATCTTCCAATTTCA
* * * * * * *
6792189 TTCTCAGACTATGAATCTCATTCTAGATTAGTCCTTAAACTTTTGAA-CATTCCAAATTCA
1 -TCCCAAACTATGAACCTCATTTTAAATTGGTCCTTAAACTTTTGAATC-TTCCAATTTCA
*
6792249 TCGCCAAACTATGAACCTCATTTTAAATTGGTGCC-CAAACTTTTGAATCTTCCAATTTCA
1 TC-CCAAACTATGAACCTCATTTTAAATTGGT-CCTTAAACTTTTGAATCTTCCAATTTCA
6792309 TCCC
1 TCCC
6792313 TAATTTCATC
Statistics
Matches: 99, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
59 4 0.04
60 88 0.89
61 7 0.07
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (59 bp):
TCCCAAACTATGAACCTCATTTTAAATTGGTCCTTAAACTTTTGAATCTTCCAATTTCA
Found at i:6792562 original size:60 final size:60
Alignment explanation
Indices: 6792452--6792606 Score: 179
Period size: 60 Copynumber: 2.6 Consensus size: 60
6792442 ACAATTTAGT
* * * **
6792452 ATGAAATTGAAACGTTCAAAAGTTTGGGGACTAATTTAGAATGAAGGTCATAGTTTGGGG
1 ATGAAATTGAAATGTTCAAAAGTTTGAGGACTAATATAGAATGAAGGTCATAGTTTAAGG
* * * *
6792512 ATGGAATTGAAGTGTTCAAAAGTTTGAGGACTAATATATAATTGTA-GTCATAGTTTAAGG
1 ATGAAATTGAAATGTTCAAAAGTTTGAGGACTAATATAGAA-TGAAGGTCATAGTTTAAGG
* *
6792572 ATGAAATTGAAATATTTAAAAGTTT-AGGGACTAAT
1 ATGAAATTGAAATGTTCAAAAGTTTGA-GGACTAAT
6792607 TGAAAGTGAA
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
59 1 0.01
60 76 0.95
61 3 0.04
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (60 bp):
ATGAAATTGAAATGTTCAAAAGTTTGAGGACTAATATAGAATGAAGGTCATAGTTTAAGG
Found at i:6795339 original size:21 final size:21
Alignment explanation
Indices: 6795315--6795355 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6795305 TCAATATTCC
* * *
6795315 AAGCTTGAGTATCGGTACTCT
1 AAGCCTGAGTACCGATACTCT
6795336 AAGCCTGAGTACCGATACTC
1 AAGCCTGAGTACCGATACTC
6795356 CAAGTGTCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (21 bp):
AAGCCTGAGTACCGATACTCT
Found at i:6795342 original size:207 final size:207
Alignment explanation
Indices: 6794987--6795389 Score: 707
Period size: 207 Copynumber: 1.9 Consensus size: 207
6794977 TGGTATCAAT
*
6794987 ACTCCATGCAATATTGATACAACTTATAATAGTAGCACCAATACTTCTTTTGCACAGTACTGATA
1 ACTCCATGCAATATCGATACAACTTATAATAGTAGCACCAATACTTCTTTTGCACAGTACTGATA
*
6795052 CTCGTATTTCCCAACGACTATATTTTTGTAATTAATGCAAGAAGTATCAATATTCCAAGCTCGAG
66 CCCGTATTTCCCAACGACTATATTTTTGTAATTAATGCAAGAAGTATCAATATTCCAAGCTCGAG
*
6795117 TATCGATACTCTAAGCCTGAGTACCGGTACTCCAAGTGTCTAAGCAACATTTATTGCGAGAAAAC
131 TATCGATACTCTAAGCCTGAGTACCGATACTCCAAGTGTCTAAGCAACATTTATTGCGAGAAAAC
6795182 TTCATCCCAACG
196 TTCATCCCAACG
* *
6795194 ACTCCATGCAATATCGATACTACTTATAATAGTAGCACCAATACTTCTTTTGCACAGTATTGATA
1 ACTCCATGCAATATCGATACAACTTATAATAGTAGCACCAATACTTCTTTTGCACAGTACTGATA
* * * *
6795259 CCCTTATTTCCCAACGACTATATTTTTGTAATTAATGTAAGTAGTATCAATATTCCAAGCTTGAG
66 CCCGTATTTCCCAACGACTATATTTTTGTAATTAATGCAAGAAGTATCAATATTCCAAGCTCGAG
* *
6795324 TATCGGTACTCTAAGCCTGAGTACCGATACTCCAAGTGTCTAGGCAACATTTATTGCGAGAAAAC
131 TATCGATACTCTAAGCCTGAGTACCGATACTCCAAGTGTCTAAGCAACATTTATTGCGAGAAAAC
6795389 T
196 T
6795390 CCAAGTCATA
Statistics
Matches: 185, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
207 185 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (207 bp):
ACTCCATGCAATATCGATACAACTTATAATAGTAGCACCAATACTTCTTTTGCACAGTACTGATA
CCCGTATTTCCCAACGACTATATTTTTGTAATTAATGCAAGAAGTATCAATATTCCAAGCTCGAG
TATCGATACTCTAAGCCTGAGTACCGATACTCCAAGTGTCTAAGCAACATTTATTGCGAGAAAAC
TTCATCCCAACG
Found at i:6795438 original size:21 final size:18
Alignment explanation
Indices: 6795408--6795450 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 18
6795398 TATGTGAAGA
6795408 CAAAAAATCACATATAAAGC
1 CAAAAAATCA-A-ATAAAGC
*
6795428 CAAAACAATCAAATAGAGC
1 CAAAA-AATCAAATAAAGC
6795447 CAAA
1 CAAA
6795451 TTTTAAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 10 0.48
20 6 0.29
21 5 0.24
ACGTcount: A:0.60, C:0.21, G:0.07, T:0.12
Consensus pattern (18 bp):
CAAAAAATCAAATAAAGC
Found at i:6798971 original size:17 final size:18
Alignment explanation
Indices: 6798941--6798977 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
6798931 AGTTTAAAAA
6798941 ATAACTATAAGTGAAATG
1 ATAACTATAAGTGAAATG
*
6798959 ATAA-TATAGGTGAAATG
1 ATAACTATAAGTGAAATG
6798976 AT
1 AT
6798978 CAAATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.49, C:0.03, G:0.19, T:0.30
Consensus pattern (18 bp):
ATAACTATAAGTGAAATG
Found at i:6799827 original size:18 final size:20
Alignment explanation
Indices: 6799790--6799827 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
6799780 TTAAGTATAA
6799790 AACTTTAAATAAAACGTTATG
1 AACTTTAAATAAAAC-TTATG
6799811 AACTTTAAA-AAAA-TTAT
1 AACTTTAAATAAAACTTAT
6799828 TTGTCCCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
20 4 0.24
21 9 0.53
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (20 bp):
AACTTTAAATAAAACTTATG
Found at i:6812040 original size:21 final size:21
Alignment explanation
Indices: 6811998--6812036 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6811988 TATTTAGGTC
*
6811998 TTTGTTGAAGCCATGAAATCT
1 TTTGTCGAAGCCATGAAATCT
*
6812019 TTTGTCGAGGCCAT-AAAT
1 TTTGTCGAAGCCATGAAAT
6812037 TCTTGTAGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (21 bp):
TTTGTCGAAGCCATGAAATCT
Found at i:6814903 original size:3 final size:3
Alignment explanation
Indices: 6814895--6814930 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
6814885 GTTGGGCTTT
*
6814895 GTA GTA GTA GTA GTA GTA GTA ATA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
6814931 ATAATAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.33
Consensus pattern (3 bp):
GTA
Found at i:6814938 original size:6 final size:6
Alignment explanation
Indices: 6814929--6815035 Score: 115
Period size: 6 Copynumber: 17.8 Consensus size: 6
6814919 GTAGTAGTAG
*
6814929 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATCA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
* * * * * * * * *
6814977 TAATAA TAATAT TATTAT TATTAT TAATAT TAATAT TAATAT TAATAT
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
*
6815025 TAATAT TAATA
1 TAATAA TAATA
6815036 TTGAAAAATG
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 96 1.00
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (6 bp):
TAATAA
Found at i:6816166 original size:241 final size:241
Alignment explanation
Indices: 6815615--6816387 Score: 1090
Period size: 240 Copynumber: 3.2 Consensus size: 241
6815605 GAACACCATA
* * * * *
6815615 TGAAAATATCCTGCCCGAAGGTCTTACT-GATGGACCGGAGGACTTACCATCTCGCTCGAAAGGC
1 TGAAAACATCCTGCCCGAAGGTCTTA-TGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGC
*
6815679 TTATAGATGACCCGAAGGATTT-AGACATCATGCTC-AAAATACTTACTGATGGCCCAAATGACT
65 TTATAGATGACCCGAAGGATTTAAG-CATCATGCTCGAAAA-ACTTACTGATGGCCCAAGTGACT
* * *
6815742 TACTAAGTAAAAAACTTTGGAAATTGTTTTCTTACTTTTAAAAAAAAAT-AATTTTTAGAAAAGA
128 TACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTTAAAAAAAATCAATTTTTAGAAAAGA
* * *
6815806 TTTAAATGAGAAATTTTGGAAATCGCTTTCCCATTTTTCGAAAATCATG
193 TTTAAATGAGAAAATTTGGAAATCGTTTTCTCATTTTTCGAAAATCATG
* * * *
6815855 GGAAATCATCCTACCCGAAGGTCTTATGGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGGCT
1 TGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGCT
* *
6815920 TATAGATGACCCGAAGGATTTAAGTATCATGCTCGAAAAACTTGCTGATGGCCCAAGTGACTTAC
66 TATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAAACTTACTGATGGCCCAAGTGACTTAC
* * *
6815985 TAAGTAAGAAACATTGGAAATCGTTTTCTTACTTTTTGAAAAAAATCAATTTTCAGAAAAGATTT
131 TAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTTAAAAAAAATCAATTTTTAGAAAAGATTT
6816050 AAATGAGAAAATTTGGAAATCGTTTTCTCATTTTTCGAAAATCATG
196 AAATGAGAAAATTTGGAAATCGTTTTCTCATTTTTCGAAAATCATG
* * **
6816096 TGAAAACATCCTGCCCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGTAT
1 TGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGCT
* ** * * * * *
6816161 TATAGATGACCCAAAGGATTTAAGCATCATGCTCGAATGATTTATTGATGACCCGAGGGACTTAC
66 TATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAAACTTACTGATGGCCCAAGTGACTTAC
* * *
6816226 TATGTAAGAAACTTTGGAAATCATTTTCTTAC-TTTTCAAAAAAATCAATTTTTAGAAAAGATTT
131 TAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTTAAAAAAAATCAATTTTTAGAAAAGATTT
* *
6816290 AAAT-ATGAAACTTTGGAAATCATTTTCTCATTTTTCGAAAATCATG
196 AAATGA-GAAAATTTGGAAATCGTTTTCTCATTTTTCGAAAATCATG
* * *
6816336 TGAAAACATCCTGTCCGAAGGTCTTGTGGATGACCCGAAGGACTTACTCATC
1 TGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTA-TCATC
6816388 AAGAAACCCT
Statistics
Matches: 477, Mismatches: 50, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
239 2 0.00
240 263 0.55
241 212 0.44
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (241 bp):
TGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGCT
TATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAAACTTACTGATGGCCCAAGTGACTTAC
TAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTTAAAAAAAATCAATTTTTAGAAAAGATTT
AAATGAGAAAATTTGGAAATCGTTTTCTCATTTTTCGAAAATCATG
Found at i:6816660 original size:59 final size:58
Alignment explanation
Indices: 6816585--6816719 Score: 171
Period size: 59 Copynumber: 2.3 Consensus size: 58
6816575 GACTTAGGTC
* * *
6816585 TTTTAAAAATCATTTGAAAATATCATATCAAGAAACCTATGAAAATCAAACCTAGTTT
1 TTTTAAAATTCATTTGAAAACATCATACCAAGAAACCTATGAAAATCAAACCTAGTTT
* * * * *
6816643 GTTTTAAAATTCTTTTGAAAACATCATGCCAAGAAAGCTCTGAAAATCATACCTAGTTT
1 -TTTTAAAATTCATTTGAAAACATCATACCAAGAAACCTATGAAAATCAAACCTAGTTT
*
6816702 CTTTAAAATTCATATTGA
1 TTTTAAAATTCAT-TTGA
6816720 TTGAGTAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 11 0.17
59 54 0.83
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (58 bp):
TTTTAAAATTCATTTGAAAACATCATACCAAGAAACCTATGAAAATCAAACCTAGTTT
Found at i:6822125 original size:3 final size:3
Alignment explanation
Indices: 6822117--6822163 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
6822107 TTGGGCTTTG
6822117 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6822164 TATGGAATTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6827263 original size:3 final size:3
Alignment explanation
Indices: 6827255--6827292 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6827245 GATTGTTAGA
6827255 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6827293 ATATTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6827849 original size:35 final size:35
Alignment explanation
Indices: 6827801--6827872 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
6827791 TAAACTAAAA
*
6827801 AATAAGTCCATTCACCAAATGACATGACTTATTAT
1 AATAAGTCCATTCACCAAATGACATAACTTATTAT
* *
6827836 AATAAGTCTATTCACCAAGTGACATAACTTATTAT
1 AATAAGTCCATTCACCAAATGACATAACTTATTAT
6827871 AA
1 AA
6827873 ATAGCATCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (35 bp):
AATAAGTCCATTCACCAAATGACATAACTTATTAT
Found at i:6828979 original size:38 final size:38
Alignment explanation
Indices: 6828884--6829097 Score: 241
Period size: 38 Copynumber: 5.8 Consensus size: 38
6828874 TGCAAATGAT
* * **
6828884 TTTTG-AAATATATATGTAATATATAGTTTTTGAAATTA
1 TTTTGAAAACATATATATAATATATAGTTTTT-AAAACA
* *
6828922 TTTT-AAAA-ATATATATATTATATAGTTTTTAAGACA
1 TTTTGAAAACATATATATAATATATAGTTTTTAAAACA
* * *
6828958 TTATGGAAACATATATATATTATATAGTTTTTAAAAAACA
1 TTTTGAAAACATATATATAATATATAGTTTTT--AAAACA
6828998 TTTTGAAAAC-T-TATATAATATATAGTTTTTAAAACA
1 TTTTGAAAACATATATATAATATATAGTTTTTAAAACA
*
6829034 TTTTG--AA-A-ATATATAATATA-GGTTTTTAAAACA
1 TTTTGAAAACATATATATAATATATAGTTTTTAAAACA
6829067 TTTTGAAAACATATATATAATATATAGTTTT
1 TTTTGAAAACATATATATAATATATAGTTTT
6829098 AAATTTCCTT
Statistics
Matches: 151, Mismatches: 13, Indels: 24
0.80 0.07 0.13
Matches are distributed among these distances:
33 17 0.11
34 13 0.09
35 2 0.01
36 18 0.12
37 35 0.23
38 52 0.34
39 1 0.01
40 13 0.09
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.45
Consensus pattern (38 bp):
TTTTGAAAACATATATATAATATATAGTTTTTAAAACA
Found at i:6829122 original size:69 final size:68
Alignment explanation
Indices: 6828972--6829123 Score: 191
Period size: 71 Copynumber: 2.1 Consensus size: 68
6828962 GGAAACATAT
6828972 ATATATTATATAGTTTTTAAAAAACATTTTGAAAACTTATATAATATATAGTTTTTAAAACATTT
1 ATATA-TATATAGTTTTT-AAAAACATTTTGAAAACTTATATAATATATAGTTTTTAAAACATTT
6829037 TGAAA
64 TGAAA
*
6829042 ATATATAATATAGGTTTTT-AAAACATTTTGAAAACATATATATAATATATAG-TTTTAAATTTC
1 ATATAT-ATATA-GTTTTTAAAAACATTTTGAAAAC-T-TATATAATATATAGTTTTTAAA--AC
* *
6829105 CTTTTTAAA
60 ATTTTGAAA
6829114 ATATATATAT
1 ATATATATAT
6829124 TATTATTATT
Statistics
Matches: 73, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
69 17 0.23
70 18 0.25
71 24 0.33
72 14 0.19
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (68 bp):
ATATATATATAGTTTTTAAAAACATTTTGAAAACTTATATAATATATAGTTTTTAAAACATTTTG
AAA
Found at i:6830250 original size:28 final size:29
Alignment explanation
Indices: 6830192--6830257 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
6830182 TTTATGCATG
* * * **
6830192 TTTTAATTTAGCCACTTTTTATTTTTCTT
1 TTTTTATTTAGCCACTTGTGATTTTAATT
6830221 TTTTTATTTAGCCAC-TGTGATTTTAATT
1 TTTTTATTTAGCCACTTGTGATTTTAATT
*
6830249 TTTGTATTT
1 TTTTTATTT
6830258 TCATACTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
28 17 0.55
29 14 0.45
ACGTcount: A:0.18, C:0.11, G:0.08, T:0.64
Consensus pattern (29 bp):
TTTTTATTTAGCCACTTGTGATTTTAATT
Found at i:6830396 original size:26 final size:25
Alignment explanation
Indices: 6830345--6830401 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
6830335 TATTTTAACC
*
6830345 TTTTTATTTTTTTGTCTAAATTTTA
1 TTTTTATTTTTTTGTCTAAATATTA
*
6830370 TTTTTATTTTATTT-TTTAAATGATTA
1 TTTTTATTTT-TTTGTCTAAAT-ATTA
6830396 TCTTTT
1 T-TTTT
6830402 TCCTCTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 16 0.59
26 7 0.26
27 4 0.15
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (25 bp):
TTTTTATTTTTTTGTCTAAATATTA
Found at i:6830575 original size:12 final size:12
Alignment explanation
Indices: 6830560--6830591 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
6830550 TTTTCTTTAA
6830560 TTTATTTAATAT
1 TTTATTTAATAT
6830572 TTTATTTAATAT
1 TTTATTTAATAT
6830584 TTTATTTA
1 TTTATTTA
6830592 TTTGTTTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTATTTAATAT
Found at i:6830614 original size:9 final size:9
Alignment explanation
Indices: 6830581--6830623 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
6830571 TTTTATTTAA
*
6830581 TATTTTATT
1 TATTTTTTT
*
6830590 TATTTGTTT
1 TATTTTTTT
**
6830599 TGGTTTTTT
1 TATTTTTTT
6830608 TATTTTTTT
1 TATTTTTTT
6830617 TATTTTT
1 TATTTTT
6830624 CCCCTTGATT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.81
Consensus pattern (9 bp):
TATTTTTTT
Found at i:6830642 original size:23 final size:23
Alignment explanation
Indices: 6830616--6830660 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6830606 TTTATTTTTT
6830616 TTATT-TTTCCCCTTGATTTATTA
1 TTATTATTT-CCCTTGATTTATTA
* *
6830639 TTATTATTTTCTTTGATTTATT
1 TTATTATTTCCCTTGATTTATT
6830661 TAATATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.18, C:0.11, G:0.04, T:0.67
Consensus pattern (23 bp):
TTATTATTTCCCTTGATTTATTA
Found at i:6835949 original size:30 final size:30
Alignment explanation
Indices: 6835915--6835971 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
6835905 TTTGCCTTCA
6835915 ACCATTCTAACAGATCTAATGAAGTTAACC
1 ACCATTCTAACAGATCTAATGAAGTTAACC
*
6835945 ACCATTCTAACAGATTTAATGAAGTTA
1 ACCATTCTAACAGATCTAATGAAGTTA
6835972 TTACTTCAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (30 bp):
ACCATTCTAACAGATCTAATGAAGTTAACC
Found at i:6836478 original size:90 final size:90
Alignment explanation
Indices: 6836325--6836502 Score: 302
Period size: 90 Copynumber: 2.0 Consensus size: 90
6836315 CCTAACACAC
* * *
6836325 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
*
6836390 ATTTAATTAATTAGAATTTAATAAT
66 ATTTAATTAATTAGAATTAAATAAT
*
6836415 CCTTTTATATCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
*
6836480 ATTTAATTAATTGGAATTAAATA
66 ATTTAATTAATTAGAATTAAATA
6836503 TTCGGGATTA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 82 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTAGAATTAAATAAT
Found at i:6839762 original size:10 final size:9
Alignment explanation
Indices: 6839722--6839776 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
6839712 TCAATCAATC
6839722 AAAAAAAGA
1 AAAAAAAGA
**
6839731 AAGAAAAATT
1 AA-AAAAAGA
*
6839741 AAAAATA-A
1 AAAAAAAGA
*
6839749 AAAAATAGA
1 AAAAAAAGA
6839758 AAAAAAAG-
1 AAAAAAAGA
6839766 AAAAAAAGA
1 AAAAAAAGA
6839775 AA
1 AA
6839777 TTATAAACAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
8 15 0.39
9 16 0.42
10 7 0.18
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:6839769 original size:25 final size:26
Alignment explanation
Indices: 6839722--6839770 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
6839712 TCAATCAATC
*
6839722 AAAAAAAGAAAGAAAAATTAAAAATA
1 AAAAAAAGAAAGAAAAATGAAAAATA
6839748 AAAAAATAGAAA-AAAAA-GAAAAA
1 AAAAAA-AGAAAGAAAAATGAAAAA
6839771 AAGAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 5 0.24
26 11 0.52
27 5 0.24
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (26 bp):
AAAAAAAGAAAGAAAAATGAAAAATA
Found at i:6839840 original size:23 final size:21
Alignment explanation
Indices: 6839814--6839862 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 21
6839804 ACAAACAAAC
6839814 AAAAAACAAATCAAAGGAAA-AAT
1 AAAAAACAAAT-AAA--AAATAAT
*
6839837 AAAATACAAATAAAAAATAAT
1 AAAAAACAAATAAAAAATAAT
6839858 AAAAA
1 AAAAA
6839863 TATTAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 3 0.13
21 7 0.30
22 3 0.13
23 10 0.43
ACGTcount: A:0.78, C:0.06, G:0.04, T:0.12
Consensus pattern (21 bp):
AAAAAACAAATAAAAAATAAT
Found at i:6839907 original size:28 final size:28
Alignment explanation
Indices: 6839831--6839907 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 28
6839821 AAATCAAAGG
6839831 AAAAATA--AAATACAAATAAAAAATAAT
1 AAAAATATGAAATA-AAATAAAAAATAAT
* **
6839858 AAAAATATTAAATAAACCAAAAAATATAT
1 AAAAATATGAAATAAAATAAAAAATA-AT
* *
6839887 ATAAA-ATGGAATAAAATAAAA
1 AAAAATATGAAATAAAATAAAA
6839908 GAAAAAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
27 7 0.17
28 22 0.55
29 11 0.28
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.21
Consensus pattern (28 bp):
AAAAATATGAAATAAAATAAAAAATAAT
Found at i:6840304 original size:22 final size:23
Alignment explanation
Indices: 6840262--6840304 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6840252 ATTTTTCCCT
6840262 CTTTCTCAGAATAACCTCTCACC
1 CTTTCTCAGAATAACCTCTCACC
* *
6840285 CTTTCTCTGAA-ATCCTCTCA
1 CTTTCTCAGAATAACCTCTCA
6840305 AGCTATAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.23, C:0.37, G:0.05, T:0.35
Consensus pattern (23 bp):
CTTTCTCAGAATAACCTCTCACC
Found at i:6841160 original size:9 final size:9
Alignment explanation
Indices: 6841138--6841177 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
6841128 TGGACCTAGA
6841138 AAAATAAAT
1 AAAATAAAT
6841147 AAAAATAAAT
1 -AAAATAAAT
6841157 AAAATAAAT
1 AAAATAAAT
6841166 AATAA-AAAT
1 AA-AATAAAT
6841175 AAA
1 AAA
6841178 TATATATGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 1 0.03
9 17 0.59
10 11 0.38
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAATAAAT
Found at i:6841220 original size:20 final size:21
Alignment explanation
Indices: 6841192--6841231 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
6841182 TATGATATAT
*
6841192 ATTCTAAAAATATTTCCAAAA
1 ATTCTAAAAACATTTCCAAAA
*
6841213 ATTC-AAAAACATTTTCAAA
1 ATTCTAAAAACATTTCCAAA
6841232 CTATATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.33
Consensus pattern (21 bp):
ATTCTAAAAACATTTCCAAAA
Found at i:6841249 original size:34 final size:35
Alignment explanation
Indices: 6841211--6841278 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 35
6841201 ATATTTCCAA
6841211 AAATTCAAAAACATTTTCAA-ACTATATAT-TATAC
1 AAATTCAAAAACATTTTCAATA-TATATATATATAC
* **
6841245 AAATTTAAAAATGTTTTCAATATATATATATATA
1 AAATTCAAAAACATTTTCAATATATATATATATA
6841279 TATATATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 24 0.83
35 5 0.17
ACGTcount: A:0.50, C:0.09, G:0.01, T:0.40
Consensus pattern (35 bp):
AAATTCAAAAACATTTTCAATATATATATATATAC
Found at i:6841334 original size:38 final size:37
Alignment explanation
Indices: 6841273--6841605 Score: 295
Period size: 36 Copynumber: 9.4 Consensus size: 37
6841263 AATATATATA
* *
6841273 TATATATATATATA-TTCTAAAAATAGTTTTTAAAAAC
1 TATATAT-TATATAGTTTTCAAAATAGTTTTTAAAAAC
*
6841310 TATATATTATATGAGTTTTCAAAAT-GATTTTTAAAACC
1 TATATATTATAT-AGTTTTCAAAATAG-TTTTTAAAAAC
*
6841348 TATATATTATATATATGTTTTTAAAAT-GTTTTT-AAAAC
1 TATATA-T-TATATA-GTTTTCAAAATAGTTTTTAAAAAC
*
6841386 TATATATTATATAAGTTTTCAAAA-ATGATTTTAAAAAC
1 TATATATTATAT-AGTTTTCAAAATA-GTTTTTAAAAAC
*
6841424 TATATATTATATATATTTTCAAAA-A-TGTTTTAAAAAC
1 TATATATTATATA-GTTTTCAAAATAGT-TTTTAAAAAC
6841461 TATATATTATATAG-TTT-----TA------AAAA-C
1 TATATATTATATAGTTTTCAAAATAGTTTTTAAAAAC
6841485 TATATATTATATAGTTTTCAAAA-A-TGTTTTAAAAAC
1 TATATATTATATAGTTTTCAAAATAGT-TTTTAAAAAC
*
6841521 TATATATTATATATATTTTCAAAAT-G-TTTTAAAAAC
1 TATATATTATATA-GTTTTCAAAATAGTTTTTAAAAAC
*
6841557 TATATATTATATAGTTTTCAAAA-A-TGTTTGAAAAAC
1 TATATATTATATAGTTTTCAAAATAGT-TTTTAAAAAC
6841593 TATATATTATATA
1 TATATATTATATA
6841606 TGTATTTTCA
Statistics
Matches: 251, Mismatches: 13, Indels: 65
0.76 0.04 0.20
Matches are distributed among these distances:
24 15 0.06
25 7 0.03
29 1 0.00
31 1 0.00
35 16 0.06
36 78 0.31
37 49 0.20
38 61 0.24
39 7 0.03
40 16 0.06
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (37 bp):
TATATATTATATAGTTTTCAAAATAGTTTTTAAAAAC
Found at i:6841397 original size:76 final size:73
Alignment explanation
Indices: 6841224--6841605 Score: 366
Period size: 72 Copynumber: 5.3 Consensus size: 73
6841214 TTCAAAAACA
* * ** * *
6841224 TTTTCAAACTATATATTATACAAATTTAAAAATG-TTTTCAATATA-TATATATATATATATATA
1 TTTTAAAACTATATATTATATAGTTTTCAAAATGATTTT-AA-AAACTATATAT-TATATATAT-
*
6841287 TTCTAAAAATAGT
62 TTTTAAAAAT-GT
*
6841300 TTTTAAAAACTATATATTATATGAGTTTTCAAAATGATTTTTAAAACCTATATATTATATATATG
1 TTTT-AAAACTATATATTATAT-AGTTTTCAAAATGA-TTTTAAAAACTATATATTATATATAT-
*
6841365 TTTTTAAAATGT
62 TTTTAAAAATGT
6841377 TTTTAAAACTATATATTATATAAGTTTTCAAAAATGATTTTAAAAACTATATATTATATATATTT
1 TTTTAAAACTATATATTATAT-AGTTTTC-AAAATGATTTTAAAAACTATATATTATATATATTT
*
6841442 TCAAAAATGT
64 TTAAAAATGT
* * *
6841452 TTTAAAAACTATATA-T-TATA----T----A-G-TTTTAAAAACTATATATTATATA-GTTTTC
1 TTTTAAAACTATATATTATATAGTTTTCAAAATGATTTTAAAAACTATATATTATATATATTTTT
6841504 AAAAATGT
66 AAAAATGT
* * *
6841512 TTTAAAAACTATATATTATATATATTTTCAAAATG-TTTTAAAAACTATATATTATATA-GTTTT
1 TTTTAAAACTATATATTATATA-GTTTTCAAAATGATTTTAAAAACTATATATTATATATATTTT
*
6841575 CAAAAATGT
65 TAAAAATGT
**
6841584 TTGAAAAACTATATATTATATA
1 TTTTAAAACTATATATTATATA
6841606 TGTATTTTCA
Statistics
Matches: 271, Mismatches: 17, Indels: 40
0.83 0.05 0.12
Matches are distributed among these distances:
60 28 0.10
61 24 0.09
62 5 0.02
63 1 0.00
67 1 0.00
68 1 0.00
71 1 0.00
72 60 0.22
73 3 0.01
74 1 0.00
75 24 0.09
76 53 0.20
77 28 0.10
78 28 0.10
79 9 0.03
80 4 0.01
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (73 bp):
TTTTAAAACTATATATTATATAGTTTTCAAAATGATTTTAAAAACTATATATTATATATATTTTT
AAAAATGT
Found at i:6841495 original size:22 final size:24
Alignment explanation
Indices: 6841450--6841508 Score: 109
Period size: 24 Copynumber: 2.4 Consensus size: 24
6841440 TTTCAAAAAT
6841450 GTTTTAAAAACTATATATTATATA
1 GTTTTAAAAACTATATATTATATA
6841474 GTTTTAAAAACTATATATTATATA
1 GTTTTAAAAACTATATATTATATA
6841498 GTTTTCAAAAA
1 GTTTT-AAAAA
6841509 TGTTTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 29 0.85
25 5 0.15
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (24 bp):
GTTTTAAAAACTATATATTATATA
Found at i:6841533 original size:97 final size:98
Alignment explanation
Indices: 6841375--6841580 Score: 371
Period size: 97 Copynumber: 2.1 Consensus size: 98
6841365 TTTTTAAAAT
*
6841375 GTTTTTAAAACTATATATTATATAAGTTTTCAAAAATGATTTTAAAAACTATATATTATATATAT
1 GTTTTAAAAACTATATATTATATAAGTTTTCAAAAATGATTTTAAAAACTATATATTATATATAT
6841440 TTTCAAAAATGTTTTAAAAACTATATATTATATA
66 TTTC-AAAATGTTTTAAAAACTATATATTATATA
6841474 GTTTTAAAAACTATATATTATAT-AGTTTTCAAAAATG-TTTTAAAAACTATATATTATATATAT
1 GTTTTAAAAACTATATATTATATAAGTTTTCAAAAATGATTTTAAAAACTATATATTATATATAT
6841537 TTTCAAAATGTTTTAAAAACTATATATTATATA
66 TTTCAAAATGTTTTAAAAACTATATATTATATA
6841570 GTTTTCAAAAA
1 GTTTT-AAAAA
6841581 TGTTTGAAAA
Statistics
Matches: 105, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
96 34 0.32
97 35 0.33
98 14 0.13
99 22 0.21
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.45
Consensus pattern (98 bp):
GTTTTAAAAACTATATATTATATAAGTTTTCAAAAATGATTTTAAAAACTATATATTATATATAT
TTTCAAAATGTTTTAAAAACTATATATTATATA
Found at i:6842428 original size:80 final size:80
Alignment explanation
Indices: 6842083--6843135 Score: 1334
Period size: 80 Copynumber: 13.0 Consensus size: 80
6842073 ACTATAAATT
* * * * * * * *
6842083 TGATATGCCTTTGAGTTGAATGTAATCAAACTCGAATGTATTTTGTTGGCAAATAACCCTTCTAG
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAA-G--GTCT-TTGGCAGATAACCCTTCTTG
* *
6842148 CCTTGAGTTATGCTACGAATT
62 CCTTGAGTTATGCTGC-AA-A
* * * * *
6842169 TGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTTGTTGGAAGATAAACCTTCTCG
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG---TCT-TTGGCAGATAACCCTTCTTG
* * *
6842234 TCTTAAGCTATGCTGCAAA
62 CCTTGAGTTATGCTGCAAA
* * *
6842253 TGATATGTCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTTGCAGATAACCCTTCTCGC
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG---GCAGATAACCCTTCTTGC
*
6842318 CTTGAGCTATGCTGCAAA
63 CTTGAGTTATGCTGCAAA
* * *
6842336 TGGTGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTAGATAGCCCTTCTTGCCTT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTT
*
6842401 GAGTTATGTTGCAAA
66 GAGTTATGCTGCAAA
* * * * *
6842416 TGATATGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTTTTTGGCAGATAGCCCTTCTTGTCTT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTT
*
6842481 GA-TCTATGCTGTAAA
66 GAGT-TATGCTGCAAA
* *
6842496 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTGGCAGATAACCCTTCTAGCCTT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTT
*
6842561 AAGTTATGCTGCAAA
66 GAGTTATGCTGCAAA
* * *
6842576 TGATGTGCCTCTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCATAAAACCCTTCTTGCCTT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTT
6842641 GAGTTATGCTGCAAA
66 GAGTTATGCTGCAAA
* * *
6842656 TGATGTGCCTTTTAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGTCTT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTT
* *
6842721 GAGCTATACTGCAAA
66 GAGTTATGCTGCAAA
* * * * *
6842736 TGATGCGCCTTTGAGCTAAATGGAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTAGCCTT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTT
6842801 GAGTTATGCTGCAAA
66 GAGTTATGCTGCAAA
* * * * *
6842816 TGATGTGCCTCTGAGCTGAGTGTAATCGAACTCGACGGTCTTTGGCAGATAGCCCTTTTTACCTT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTT
*
6842881 GAGTTATACTGCAAA
66 GAGTTATGCTGCAAA
* * * *
6842896 TGATGTGCCTTTTAGCTGAGTGGAATCGAACTCAAAGGTCTTTGGCAGATAACCCTTCTAGCCTT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTT
6842961 GAGTTATGCTGCAAA
66 GAGTTATGCTGCAAA
* * *
6842976 TGGTGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTTCCTT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTT
* * *
6843041 GAGCTATGATGTAAA
66 GAGTTATGCTGCAAA
* * * *
6843056 TGGTGTGCCTTTGAGCTGAATTTAATCGAACTCGAAGGTCTTGGCTGACAGATAACCCTTCTTGC
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTT---TGGCAGATAACCCTTCTTGC
6843121 CTTGAGTTATGCTGC
63 CTTGAGTTATGCTGC
6843136 CAATAGTTTC
Statistics
Matches: 848, Mismatches: 108, Indels: 25
0.86 0.11 0.03
Matches are distributed among these distances:
79 1 0.00
80 639 0.75
81 3 0.00
83 102 0.12
84 37 0.04
85 3 0.00
86 63 0.07
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (80 bp):
TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTT
GAGTTATGCTGCAAA
Found at i:6844469 original size:95 final size:94
Alignment explanation
Indices: 6844277--6844528 Score: 292
Period size: 95 Copynumber: 2.6 Consensus size: 94
6844267 AGCTGAATCT
* ** * * *
6844277 ATAAAGTCGGGGCGTTTAACCAATTATTCTAGAGGGACAACTTAATATCATTGTATAG-ATATTA
1 ATAAAG-CAGGGCGTTTAACCAATTGCTCTAGAGGGACAAC-TCA-AGC-TT-TATTGTATATTA
6844341 TAATCACCTTTATCAAGCTAGCTGAATATTATCC
61 TAATCACCTTTATCAAGCTAGCTGAATATTATCC
*
6844375 ATAAAGCTAGGGCGTTTATCCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTATAAT
1 ATAAAGC-AGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTATAAT
*
6844440 CACCTTTAT-AAGGCTAGCTGAATCTTATCC
65 CACCTTTATCAA-GCTAGCTGAATATTATCC
* * * * * *
6844470 ATAAAGCGGGGTTGTTTAACTAATTGCTTTAGAGGAACAACTCAAGCTTTATTATATAT
1 ATAAAGCAGGG-CGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAT
6844529 ACATAATATT
Statistics
Matches: 135, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
94 9 0.07
95 86 0.64
96 2 0.01
97 3 0.02
98 35 0.26
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (94 bp):
ATAAAGCAGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTATAATC
ACCTTTATCAAGCTAGCTGAATATTATCC
Found at i:6844869 original size:19 final size:19
Alignment explanation
Indices: 6844845--6844883 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
6844835 GAAGGGTACG
6844845 GTGTTTGAGCGTATCTTCT
1 GTGTTTGAGCGTATCTTCT
6844864 GTGTTTGAGCGTATCTTCT
1 GTGTTTGAGCGTATCTTCT
6844883 G
1 G
6844884 GGTAAGGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.15, G:0.28, T:0.46
Consensus pattern (19 bp):
GTGTTTGAGCGTATCTTCT
Found at i:6848080 original size:4 final size:4
Alignment explanation
Indices: 6848071--6848225 Score: 61
Period size: 4 Copynumber: 37.8 Consensus size: 4
6848061 ACGTTAGAGA
* *
6848071 AAAT AAAT AAAT AAAT AAAT AAAT -ACT AAAT AAATT AAAAG AAAT AAA-
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA-T -AAAT AAAT AAAT
* * * * * *
6848119 AATT AAAATT AAAA AAAT AGAAT AAAA AATAT AAAC AATTT AAAA AAAT
1 AAAT -AAA-T AAAT AAAT A-AAT AAAT AA-AT AAAT AA-AT AAAT AAAT
* * * *
6848168 AAAT AAAC AAA- AAAC AAAT CACAT GAA- AAAT AAA- AAAT ACAAAT AAA-
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT --AAAT AAAT
*
6848215 AAAT AATT AAA
1 AAAT AAAT AAA
6848226 ATATTAAATA
Statistics
Matches: 111, Mismatches: 24, Indels: 32
0.66 0.14 0.19
Matches are distributed among these distances:
3 15 0.14
4 70 0.63
5 18 0.16
6 8 0.07
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:6848142 original size:26 final size:29
Alignment explanation
Indices: 6848107--6848174 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 29
6848097 TAAATAAATT
*
6848107 AAAAGAAATAAAAAT-T-AA-AA-TTAAA
1 AAAATAAATAAAAATATAAACAATTTAAA
6848132 AAAATAGAATAAAAAATATAAACAATTTAAA
1 AAAATA-AAT-AAAAATATAAACAATTTAAA
6848163 AAAATAAATAAA
1 AAAATAAATAAA
6848175 CAAAAAACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
25 5 0.14
26 3 0.08
27 6 0.17
28 1 0.03
29 5 0.14
30 5 0.14
31 11 0.31
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.21
Consensus pattern (29 bp):
AAAATAAATAAAAATATAAACAATTTAAA
Found at i:6848147 original size:21 final size:21
Alignment explanation
Indices: 6848071--6848153 Score: 59
Period size: 21 Copynumber: 3.9 Consensus size: 21
6848061 ACGTTAGAGA
*
6848071 AAATAAATAAATAAA-T-AAAT
1 AAATAAATAAA-AAATTAAAAG
*
6848091 AAAT-ACTAAATAAATTAAAAG
1 AAATAAATAAA-AAATTAAAAG
6848112 AAATAAA-AATTAAAATTAAAA-
1 AAATAAATAA--AAAATTAAAAG
6848133 AAATAGAATAAAAAATATAAA
1 AAATA-AATAAAAAAT-TAAA
6848154 CAATTTAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
19 9 0.17
20 5 0.10
21 19 0.37
22 16 0.31
23 3 0.06
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.23
Consensus pattern (21 bp):
AAATAAATAAAAAATTAAAAG
Found at i:6848213 original size:13 final size:13
Alignment explanation
Indices: 6848195--6848219 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6848185 ATCACATGAA
6848195 AAATAAAAAATAC
1 AAATAAAAAATAC
6848208 AAATAAAAAATA
1 AAATAAAAAATA
6848220 ATTAAAATAT
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:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (13 bp):
AAATAAAAAATAC
Found at i:6848928 original size:13 final size:13
Alignment explanation
Indices: 6848910--6848936 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6848900 TTTTATGATA
6848910 TCCTTAAAAAACT
1 TCCTTAAAAAACT
6848923 TCCTTAAAAAACT
1 TCCTTAAAAAACT
6848936 T
1 T
6848937 TTGTACTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (13 bp):
TCCTTAAAAAACT
Found at i:6849576 original size:12 final size:13
Alignment explanation
Indices: 6849524--6849586 Score: 57
Period size: 12 Copynumber: 5.1 Consensus size: 13
6849514 AAAAAGAATA
6849524 AATAAAAACAAAT
1 AATAAAAACAAAT
6849537 AA-AAGAAA-AAAT
1 AATAA-AAACAAAT
6849549 AA-AATAAA-ATAA-
1 AATAA-AAACA-AAT
6849561 AAT-AAAACAAAT
1 AATAAAAACAAAT
6849573 AATAAAAACAAAT
1 AATAAAAACAAAT
6849586 A
1 A
6849587 TATATTATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
11 5 0.12
12 21 0.49
13 17 0.40
ACGTcount: A:0.79, C:0.05, G:0.02, T:0.14
Consensus pattern (13 bp):
AATAAAAACAAAT
Found at i:6849579 original size:22 final size:22
Alignment explanation
Indices: 6849511--6849567 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
6849501 CTTGGACCTG
*
6849511 AAAA-AAAAGAATAAATAAAA-
1 AAAATAAAAGAAAAAATAAAAT
6849531 ACAAATAAAAGAAAAAATAAAAT
1 A-AAATAAAAGAAAAAATAAAAT
*
6849554 AAAATAAAATAAAA
1 AAAATAAAAGAAAA
6849568 CAAATAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 1 0.03
21 3 0.09
22 27 0.84
23 1 0.03
ACGTcount: A:0.82, C:0.02, G:0.04, T:0.12
Consensus pattern (22 bp):
AAAATAAAAGAAAAAATAAAAT
Found at i:6849586 original size:27 final size:27
Alignment explanation
Indices: 6849511--6849579 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
6849501 CTTGGACCTG
6849511 AAAA-AAAAGAAT-AAATAAAA-ACAAAT
1 AAAACAAAA-AATAAAATAAAATA-AAAT
*
6849537 AAAAGAAAAAATAAAATAAAATAAAAT
1 AAAACAAAAAATAAAATAAAATAAAAT
*
6849564 AAAACAAATAATAAAA
1 AAAACAAAAAATAAAA
6849580 ACAAATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
26 7 0.18
27 30 0.79
28 1 0.03
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.13
Consensus pattern (27 bp):
AAAACAAAAAATAAAATAAAATAAAAT
Found at i:6849669 original size:34 final size:35
Alignment explanation
Indices: 6849631--6850004 Score: 289
Period size: 34 Copynumber: 10.6 Consensus size: 35
6849621 TTCAAAAACA
* *
6849631 TTTTCAAACTATATATTATACATA-TTTAAAAATG
1 TTTTAAAACTATATATTATATATATTTTAAAAATG
* * *
6849665 TTTTCAAAA-AAT-TA-TATATATATTCTAAAAATATT
1 TTTT-AAAACTATATATTATATATATT-TTAAAA-ATG
6849700 TTTTAAAAACTATATATTATATA-AGTTTTCAAAAA-G
1 TTTT-AAAACTATATATTATATATA-TTTT-AAAAATG
* *
6849736 ATTTTTAAAAACTATATATTATATGTATGTTTTTAAAATG
1 --TTTT-AAAACTATATATTATA--TATATTTTAAAAATG
*
6849776 TTTTAAAAACTATATATTATATAAATTTTAAAAAATG
1 TTTT-AAAACTATATATTATATATATTTT-AAAAATG
* *
6849813 ATTTT--AA--A-A-ACTATATAT-TTTCAAAAATG
1 -TTTTAAAACTATATATTATATATATTTTAAAAATG
* *
6849842 ATTTAAAAATTATATATTATATAGT-TTTTAAAAATG
1 -TTTTAAAACTATATATTATATA-TATTTTAAAAATG
* *
6849878 TTTTAAAAACTATACATTATATATATTTTCAAAATG
1 TTTT-AAAACTATATATTATATATATTTTAAAAATG
*
6849914 TTTTAAAA--ACTATATTATATATATTTTCAAAATG
1 TTTTAAAACTA-TATATTATATATATTTTAAAAATG
*
6849948 TTTTAAAA--ACTATATTATATATATTTTCAAAATG
1 TTTTAAAACTA-TATATTATATATATTTTAAAAATG
*
6849982 TTTTAAAAATTATATATTATATA
1 TTTT-AAAACTATATATTATATA
6850005 CGTATTTCCA
Statistics
Matches: 285, Mismatches: 25, Indels: 58
0.77 0.07 0.16
Matches are distributed among these distances:
29 11 0.04
30 3 0.01
31 9 0.03
32 8 0.03
33 6 0.02
34 73 0.26
35 34 0.12
36 60 0.21
37 12 0.04
38 58 0.20
39 4 0.01
40 7 0.02
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (35 bp):
TTTTAAAACTATATATTATATATATTTTAAAAATG
Found at i:6849708 original size:33 final size:32
Alignment explanation
Indices: 6849647--6849721 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 32
6849637 AACTATATAT
* * *
6849647 TATACATATTTAAAAATGTTTTCAAAAAATTA
1 TATATATATTTAAAAATATTTTCAAAAAACTA
**
6849679 TATATATATTCTAAAAATATTTTTTAAAAACTA
1 TATATATATT-TAAAAATATTTTCAAAAAACTA
6849712 TATATTATAT
1 TATA-TATAT
6849722 AAGTTTTCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
32 9 0.25
33 22 0.61
34 5 0.14
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (32 bp):
TATATATATTTAAAAATATTTTCAAAAAACTA
Found at i:6849847 original size:28 final size:29
Alignment explanation
Indices: 6849795--6849859 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
6849785 CTATATATTA
*
6849795 TATAAATTTTAAAAAATGATTTTAAAAAC
1 TATATATTTTAAAAAATGATTTTAAAAAC
* *
6849824 TATATATTTTCAAAAATGA-TTTAAAAAT
1 TATATATTTTAAAAAATGATTTTAAAAAC
6849852 TATATATT
1 TATATATT
6849860 ATATAGTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 16 0.48
29 17 0.52
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (29 bp):
TATATATTTTAAAAAATGATTTTAAAAAC
Found at i:6849847 original size:66 final size:64
Alignment explanation
Indices: 6849770--6849962 Score: 196
Period size: 66 Copynumber: 2.9 Consensus size: 64
6849760 GTATGTTTTT
*
6849770 AAAATGTTTTAAAAACTATATATTATATAAATTTTAAAAAATGATTTTAAAAACTATATATTTTC
1 AAAATGATTTAAAAACTATATATTATAT-AATTTTAAAAAATG-TTTTAAAAACTATATATTTTC
6849835 A
64 A
* * *
6849836 AAAATGATTTAAAAATTATATATTATATAGTTTTTAAAAATGTTTTAAAAACTATACATTATATA
1 AAAATGATTTAAAAACTATATATTATATAATTTTAAAAAATGTTTT--AAA--A-AC----TATA
6849901 TATTTTC-
57 TATTTTCA
* *
6849908 AAAATGTTTTAAAAAC--TATATTATATATATTTT-CAAAATGTTTTAAAAACTATAT
1 AAAATGATTTAAAAACTATATATTATATA-ATTTTAAAAAATGTTTTAAAAACTATAT
6849963 TATATATATT
Statistics
Matches: 109, Mismatches: 8, Indels: 25
0.77 0.06 0.18
Matches are distributed among these distances:
61 5 0.05
64 4 0.04
65 14 0.13
66 30 0.28
68 4 0.04
69 2 0.02
70 21 0.19
71 4 0.04
72 14 0.13
73 11 0.10
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.44
Consensus pattern (64 bp):
AAAATGATTTAAAAACTATATATTATATAATTTTAAAAAATGTTTTAAAAACTATATATTTTCA
Found at i:6849946 original size:70 final size:69
Alignment explanation
Indices: 6849640--6850004 Score: 342
Period size: 76 Copynumber: 5.2 Consensus size: 69
6849630 ATTTTCAAAC
* * ** *
6849640 TATATATTATACA-TATTTAAAAATGTTTTCAAAAAAT-TA-TATATATATTCTAAAAATATTTT
1 TATATATTATATAGT-TTTAAAAATGTTTT-AAAAACTATATTATATATATT-TTCAAA-ATGTT
*
6849702 TTAAAAAC
62 TTAAAAAT
* *
6849710 TATATATTATATAAGTTTTCAAAAA-GATTTTTAAAAACTATATATTATATGTATGTTTTTAAAA
1 TATATATTATAT-AGTTTT-AAAAATG--TTTTAAAAAC--TATATTATA--TATATTTTCAAAA
*
6849774 TGTTTTAAAAAC
58 TGTTTTAAAAAT
* *
6849786 TATATATTATATAAATTTTAAAAAATGATTTTAAAAAC-------TATATATTTTCAAAAATGAT
1 TATATATTATAT-AGTTTT-AAAAATG-TTTTAAAAACTATATTATATATATTTTC-AAAATGTT
6849844 TTAAAAAT
62 TTAAAAAT
6849852 TATATATTATATAGTTTTTAAAAATGTTTTAAAAACTATACATTATATATATTTTCAAAATGTTT
1 TATATATTATATAG-TTTTAAAAATGTTTTAAAAACTAT--ATTATATATATTTTCAAAATGTTT
*
6849917 TAAAAAC
63 TAAAAAT
*
6849924 TATAT-TATATATA-TTTTCAAAATGTTTTAAAAACTATATTATATATATTTTCAAAATGTTTTA
1 TATATAT-TATATAGTTTTAAAAATGTTTTAAAAACTATATTATATATATTTTCAAAATGTTTTA
6849987 AAAAT
65 AAAAT
6849992 TATATATTATATA
1 TATATATTATATA
6850005 CGTATTTCCA
Statistics
Matches: 252, Mismatches: 18, Indels: 52
0.78 0.06 0.16
Matches are distributed among these distances:
64 10 0.04
65 15 0.06
66 30 0.12
67 2 0.01
68 41 0.16
69 1 0.00
70 34 0.13
71 6 0.02
72 36 0.14
73 15 0.06
74 1 0.00
75 2 0.01
76 49 0.19
77 5 0.02
78 5 0.02
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (69 bp):
TATATATTATATAGTTTTAAAAATGTTTTAAAAACTATATTATATATATTTTCAAAATGTTTTAA
AAAT
Found at i:6850088 original size:2 final size:2
Alignment explanation
Indices: 6850031--6850068 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
6850021 ATTTGCAAAC
6850031 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6850069 GTAAAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6851523 original size:2 final size:2
Alignment explanation
Indices: 6851518--6851546 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6851508 CATCACCAAT
6851518 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6851547 TGTCATAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6854726 original size:133 final size:128
Alignment explanation
Indices: 6854427--6854769 Score: 398
Period size: 133 Copynumber: 2.6 Consensus size: 128
6854417 AAGAGCGATA
* * * ** *
6854427 ACACGACACCTACGTGATGAGGAGGTCTGGTTGGGGGATGACACAGTTCCTACGTTTTGAGGACA
1 ACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGGTTCCTACGTGATGAGGA-T
* * ** * *** *
6854492 GAAGACAATCTTTAGGAATGATAACACGGTTCATATGTGATGAGGACGGCTGGTTATGAGGATG
65 GAAGGCCATCTTTAGGAATGATAACACAATTCACACAAGATGAGGACGGCTGGTTATAAGGATG
** * * *
6854556 ACATAACTCCTACGTGATGAGGAGGTCTGGTCAGGGGATGACACGGTTCCTACGCGACGAGGATG
1 ACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGGTTCCTACGTGATGAGGATG
* *
6854621 ACAGGCCATCTTTAGGTAAGGTGATAACACAATTCCCACAAGATGAGGACGGGTGGTTATAAAGG
66 A-AGGCCATCTTTAGG-AA--TGATAACACAATTCACACAAGATGAGGACGGCTGGTTAT-AAGG
*
6854686 GTG
126 ATG
*
6854689 ACACGACTCCTACGTGATGAGGAAGTCTGGTCGGGGGATGACACGGTTCCTACGTGATGAGGATG
1 ACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGGTTCCTACGTGATGAGGAT-
*
6854754 GTAGGCCATCTTTAGG
65 GAAGGCCATCTTTAGG
6854770 GATAACGGTT
Statistics
Matches: 178, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
128 2 0.01
129 65 0.37
130 2 0.01
132 31 0.17
133 77 0.43
134 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (128 bp):
ACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGGTTCCTACGTGATGAGGATG
AAGGCCATCTTTAGGAATGATAACACAATTCACACAAGATGAGGACGGCTGGTTATAAGGATG
Found at i:6854983 original size:63 final size:62
Alignment explanation
Indices: 6854872--6855054 Score: 251
Period size: 63 Copynumber: 2.9 Consensus size: 62
6854862 AAGGTTGGTT
*
6854872 TCAAGAGAAAATGTCTCAAGAGTGACAAAACTTTGTTTCCAGAGAAACAGACTCAAAGATTTTTC
1 TCAAAAGAAAATGTCTCAAGA--GACAAAACTTTGTTTCCAGAGAAACA-ACTCAAAGATTTTTC
* *
6854937 TCAAAAGAAATTGTCTCAAGAGACAAAACTTTGTTTCCAGAGAAACAAACTCAAAGATTTTTT
1 TCAAAAGAAAATGTCTCAAGAGACAAAACTTTGTTTCCAGAGAAAC-AACTCAAAGATTTTTC
* * * * *
6855000 TCAAAAGAAACTATCTCGAGAGACAAAA-TTTGTTTCAAGAGAAACAATTCAAAGA
1 TCAAAAGAAAATGTCTCAAGAGACAAAACTTTGTTTCCAGAGAAACAACTCAAAGA
6855055 ATAGTGATAG
Statistics
Matches: 109, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
61 9 0.08
62 16 0.15
63 64 0.59
64 1 0.01
65 19 0.17
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.26
Consensus pattern (62 bp):
TCAAAAGAAAATGTCTCAAGAGACAAAACTTTGTTTCCAGAGAAACAACTCAAAGATTTTTC
Found at i:6855181 original size:33 final size:33
Alignment explanation
Indices: 6855136--6855237 Score: 168
Period size: 33 Copynumber: 3.1 Consensus size: 33
6855126 GTTGAATCCC
*
6855136 CAAAGATGCCCCAAAATTCGATGTTGATTGCTT
1 CAAAGATGCCCCAATATTCGATGTTGATTGCTT
* *
6855169 CAAAGATTCCCCAATAGTCGATGTTGATTGCTT
1 CAAAGATGCCCCAATATTCGATGTTGATTGCTT
*
6855202 CAAAGATGCCCCAATATTTGATGTTGATTGCTT
1 CAAAGATGCCCCAATATTCGATGTTGATTGCTT
6855235 CAA
1 CAA
6855238 CACTGATTCT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (33 bp):
CAAAGATGCCCCAATATTCGATGTTGATTGCTT
Found at i:6861099 original size:30 final size:30
Alignment explanation
Indices: 6860978--6861104 Score: 93
Period size: 30 Copynumber: 4.3 Consensus size: 30
6860968 AAAGTTAAAT
* *
6860978 GACTAAAGTGGAAAAAACTA-AAACTTAAAGG
1 GACTAAAATAGAAAAAA-TAGAAACTT-AAGG
* *
6861009 G-CTAAAACA-ATAAAAATTGAAACTTAA-G
1 GACTAAAATAGA-AAAAATAGAAACTTAAGG
* * * * * * *
6861037 GTCT-AAATAGTAAATACAGACATTTAAAG
1 GACTAAAATAGAAAAAATAGAAACTTAAGG
6861066 GACTAAAATAGAAAAAATAGAAACTTAAGG
1 GACTAAAATAGAAAAAATAGAAACTTAAGG
6861096 GACTAAAAT
1 GACTAAAAT
6861105 GGTATTAACA
Statistics
Matches: 72, Mismatches: 18, Indels: 13
0.70 0.17 0.13
Matches are distributed among these distances:
28 17 0.24
29 10 0.14
30 44 0.61
31 1 0.01
ACGTcount: A:0.55, C:0.09, G:0.15, T:0.20
Consensus pattern (30 bp):
GACTAAAATAGAAAAAATAGAAACTTAAGG
Found at i:6861119 original size:88 final size:88
Alignment explanation
Indices: 6860913--6861125 Score: 209
Period size: 88 Copynumber: 2.4 Consensus size: 88
6860903 AAATAAGCAT
* * * *
6860913 TTAAGGTACTAAAATATGATTAACAGAAATTTAAAGGACTAAATAATAAATACATAAAGTTAAAT
1 TTAAGGGACTAAAATAT-ATTAACAGAAACTTAAAGGACTAAATAATAAATACAGAAAGTTAAAG
* *
6860978 GACTAAAGTGGAAAAAACTAAAAC
65 GACTAAAATAGAAAAAACTAAAAC
* * * * * * *
6861002 TTAAAGGG-CTAAAACA-ATAAAAATTGAAACTT-AAGGTCTAAATAGTAAATACAGACATTTAA
1 TT-AAGGGACTAAAATATATTAACA--GAAACTTAAAGGACTAAATAATAAATACAGAAAGTTAA
6861064 AGGACTAAAATAGAAAAAA-TAGAAAC
63 AGGACTAAAATAGAAAAAACTA-AAAC
* *
6861090 TTAAGGGACTAAAATGGTATTAACAGAAACTAAAAG
1 TTAAGGGACTAAAAT-ATATTAACAGAAACTTAAAG
6861126 AGCTAAACAT
Statistics
Matches: 98, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
87 12 0.12
88 59 0.60
89 18 0.18
90 9 0.09
ACGTcount: A:0.54, C:0.08, G:0.14, T:0.23
Consensus pattern (88 bp):
TTAAGGGACTAAAATATATTAACAGAAACTTAAAGGACTAAATAATAAATACAGAAAGTTAAAGG
ACTAAAATAGAAAAAACTAAAAC
Found at i:6862566 original size:3 final size:3
Alignment explanation
Indices: 6862552--6862618 Score: 61
Period size: 3 Copynumber: 23.3 Consensus size: 3
6862542 TGTACAATTG
* *
6862552 TAA TAC TAA TAA TAA TAA TAA TAA -AA -AA TAA TAA TAA CAA -AA TTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* *
6862598 TAT TTA TAA T-A TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA T
6862619 TTTAGTAGAC
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
2 8 0.15
3 43 0.81
4 2 0.04
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6862583 original size:13 final size:14
Alignment explanation
Indices: 6862565--6862599 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
6862555 TACTAATAAT
6862565 AATAATAATAA-AA
1 AATAATAATAACAA
6862578 AATAATAATAACAA
1 AATAATAATAACAA
6862592 AATTAATA
1 AA-TAATA
6862600 TTTATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 11 0.55
14 4 0.20
15 5 0.25
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (14 bp):
AATAATAATAACAA
Found at i:6862583 original size:16 final size:16
Alignment explanation
Indices: 6862562--6862593 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6862552 TAATACTAAT
*
6862562 AATAATAATAATAAAA
1 AATAATAATAACAAAA
6862578 AATAATAATAACAAAA
1 AATAATAATAACAAAA
6862594 TTAATATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (16 bp):
AATAATAATAACAAAA
Found at i:6863339 original size:16 final size:16
Alignment explanation
Indices: 6863320--6863374 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
6863310 AGTTGCTTTC
6863320 GGTTCGGGTTAATTTT
1 GGTTCGGGTTAATTTT
* **
6863336 GGTTCGGATTGCTTTT
1 GGTTCGGGTTAATTTT
* * *
6863352 AGTTCAGGTTAATTTC
1 GGTTCGGGTTAATTTT
6863368 GGTTCGG
1 GGTTCGG
6863375 ATTGTTTTCT
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.13, C:0.11, G:0.31, T:0.45
Consensus pattern (16 bp):
GGTTCGGGTTAATTTT
Found at i:6863348 original size:32 final size:32
Alignment explanation
Indices: 6863312--6863383 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
6863302 TCGATTCTAG
* * *
6863312 TTGCTTTCGGTTCGGGTTAATTTTGGTTCGGA
1 TTGCTTTCAGTTCAGGTTAATTTCGGTTCGGA
*
6863344 TTGCTTTTAGTTCAGGTTAATTTCGGTTCGGA
1 TTGCTTTCAGTTCAGGTTAATTTCGGTTCGGA
*
6863376 TTGTTTTC
1 TTGCTTTC
6863384 TATCGAACTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.11, C:0.12, G:0.26, T:0.50
Consensus pattern (32 bp):
TTGCTTTCAGTTCAGGTTAATTTCGGTTCGGA
Found at i:6864260 original size:34 final size:34
Alignment explanation
Indices: 6864167--6864266 Score: 105
Period size: 34 Copynumber: 2.9 Consensus size: 34
6864157 ATTGTATCGT
* *
6864167 TCCTTATCA-TATACTTACTCCTTTTCATGTATCAA
1 TCCTT-TCACTATA-TTATTCCTTTTCCTGTATCAA
** *
6864202 TCCTTTCACTATATTATTATTTTTCCTGTATCAC
1 TCCTTTCACTATATTATTCCTTTTCCTGTATCAA
*
6864236 TCCTTTCACTGTATTGA-TCCTTTTCCTGTAT
1 TCCTTTCACTATATT-ATTCCTTTTCCTGTAT
6864267 GGATTTTTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
34 45 0.82
35 10 0.18
ACGTcount: A:0.20, C:0.25, G:0.05, T:0.50
Consensus pattern (34 bp):
TCCTTTCACTATATTATTCCTTTTCCTGTATCAA
Found at i:6864264 original size:17 final size:18
Alignment explanation
Indices: 6864222--6864266 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
6864212 ATATTATTAT
6864222 TTTTCCTGTA-TCACTCC
1 TTTTCCTGTATTCACTCC
*
6864239 -TTTCACTGTATTGA-TCC
1 TTTTC-CTGTATTCACTCC
6864256 TTTTCCTGTAT
1 TTTTCCTGTAT
6864267 GGATTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 4 0.17
17 14 0.58
18 6 0.25
ACGTcount: A:0.13, C:0.27, G:0.09, T:0.51
Consensus pattern (18 bp):
TTTTCCTGTATTCACTCC
Found at i:6864538 original size:65 final size:65
Alignment explanation
Indices: 6864434--6864780 Score: 438
Period size: 65 Copynumber: 5.4 Consensus size: 65
6864424 GAATGTATGA
* * *
6864434 TACATGAGTCATATGAGTGATTTGTACTGTATACAATTATCACTCCA-CTTAGTGCACCACAAAG
1 TACATGAGTCATATGAGTGATATGTACTGTATTCAATTATCACTCCACCTCA-TGCACCACAAAG
6864498 G
65 G
* ** *
6864499 TACATGAGTCATATGAGTGATATGTATTACATTCAATTATCACTCCACCTCATGCACTACAAAGG
1 TACATGAGTCATATGAGTGATATGTACTGTATTCAATTATCACTCCACCTCATGCACCACAAAGG
* * *
6864564 TACATGAGTCATATGAGTGATCTGTATTGTATTCAA-T-T-A-T--ACCTCATGCACCACAAAGT
1 TACATGAGTCATATGAGTGATATGTACTGTATTCAATTATCACTCCACCTCATGCACCACAAAGG
* * * * * *
6864623 TACATGAGTTATATAAGTGATATGTACTATATTCAGTTATCACTCTACCTCACGCACCACAAAGG
1 TACATGAGTCATATGAGTGATATGTACTGTATTCAATTATCACTCCACCTCATGCACCACAAAGG
* * * *
6864688 TACATGAGTCATATGAGTGATCTGTACTGTATTCAATTATCACTCCACCCCATGCACCGCAAAAG
1 TACATGAGTCATATGAGTGATATGTACTGTATTCAATTATCACTCCACCTCATGCACCACAAAGG
* *
6864753 AACATGTGTCATATGAGTGATATGTACT
1 TACATGAGTCATATGAGTGATATGTACT
6864781 TGTTCACTCT
Statistics
Matches: 242, Mismatches: 33, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
59 47 0.19
60 1 0.00
61 2 0.01
62 2 0.01
63 2 0.01
64 1 0.00
65 184 0.76
66 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (65 bp):
TACATGAGTCATATGAGTGATATGTACTGTATTCAATTATCACTCCACCTCATGCACCACAAAGG
Found at i:6864663 original size:124 final size:128
Alignment explanation
Indices: 6864434--6864780 Score: 443
Period size: 124 Copynumber: 2.7 Consensus size: 128
6864424 GAATGTATGA
* * *
6864434 TACATGAGTCATATGAGTGATTTGTACTGTATACAATTATCACTCCACTTAGTGCACCACAAAGG
1 TACATGAGTCATATGAGTGATCTGTACTGTATTCAATTATCA--CCACTCAGTGCACCACAAAGG
* * * *
6864499 TACATGAGTCATATGAGTGATATGTATTACATTCAATTATCACTCCACCTCATGCACTACAAAGG
64 TACATGAGTCATATAAGTGATATGTACTACATTCAATTATCACTCCACCTCACGCACCACAAAGG
* *
6864564 TACATGAGTCATATGAGTGATCTGTATTGTATTCAATTAT-A-C-CTCA-TGCACCACAAAGTTA
1 TACATGAGTCATATGAGTGATCTGTACTGTATTCAATTATCACCACTCAGTGCACCACAAAGGTA
* * * *
6864625 CATGAGTTATATAAGTGATATGTACTATATTCAGTTATCACTCTACCTCACGCACCACAAAGG
66 CATGAGTCATATAAGTGATATGTACTACATTCAATTATCACTCCACCTCACGCACCACAAAGG
* * *
6864688 TACATGAGTCATATGAGTGATCTGTACTGTATTCAATTATCACTCCACCCCA-TGCACCGCAAAA
1 TACATGAGTCATATGAGTGATCTGTACTGTATTCAATTATCA--CCA-CTCAGTGCACCACAAAG
* * *
6864752 GAACATGTGTCATATGAGTGATATGTACT
63 GTACATGAGTCATATAAGTGATATGTACT
6864781 TGTTCACTCT
Statistics
Matches: 189, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
124 108 0.57
125 4 0.02
126 1 0.01
128 1 0.01
129 1 0.01
130 74 0.39
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (128 bp):
TACATGAGTCATATGAGTGATCTGTACTGTATTCAATTATCACCACTCAGTGCACCACAAAGGTA
CATGAGTCATATAAGTGATATGTACTACATTCAATTATCACTCCACCTCACGCACCACAAAGG
Found at i:6864766 original size:189 final size:190
Alignment explanation
Indices: 6864434--6864783 Score: 497
Period size: 189 Copynumber: 1.8 Consensus size: 190
6864424 GAATGTATGA
* * * * *
6864434 TACATGAGTCATATGAGTGATTTGTACTGTATACAATTATCACTCCACTTAGTGCACCACAAAGG
1 TACATGAGTCATATAAGTGATATGTACTATATACAATTATCACTCCACTCAGCGCACCACAAAGG
* * * *
6864499 TACATGAGTCATATGAGTGATATGTATTACATTCAATTATCACTCCACCTCATGCACTACAAAGG
66 TACATGAGTCATATGAGTGATATGTACTACATTCAATTATCACTCCACCCCATGCACCACAAAAG
* *
6864564 TACATGAGTCATATGAGTGATCTGTA-TTGTATTCAATTATACCTCATGCACCACAAAGT
131 AACATGAGTCATATGAGTGATATGTACTTGTATTCAATTATACCTCATGCACCACAAAGT
* * * *
6864623 TACATGAGTTATATAAGTGATATGTACTATATTCAGTTATCACTCTACCTCA-CGCACCACAAAG
1 TACATGAGTCATATAAGTGATATGTACTATATACAATTATCACTCCA-CTCAGCGCACCACAAAG
* ** *
6864687 GTACATGAGTCATATGAGTGATCTGTACTGTATTCAATTATCACTCCACCCCATGCACCGCAAAA
65 GTACATGAGTCATATGAGTGATATGTACTACATTCAATTATCACTCCACCCCATGCACCACAAAA
*
6864752 GAACATGTGTCATATGAGTGATATGTACTTGT
130 GAACATGAGTCATATGAGTGATATGTACTTGT
6864784 TCACTCTACC
Statistics
Matches: 139, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
189 132 0.95
190 7 0.05
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (190 bp):
TACATGAGTCATATAAGTGATATGTACTATATACAATTATCACTCCACTCAGCGCACCACAAAGG
TACATGAGTCATATGAGTGATATGTACTACATTCAATTATCACTCCACCCCATGCACCACAAAAG
AACATGAGTCATATGAGTGATATGTACTTGTATTCAATTATACCTCATGCACCACAAAGT
Found at i:6877994 original size:25 final size:25
Alignment explanation
Indices: 6877962--6878010 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
6877952 ACCCCAAGGC
6877962 TTTTGATTGATAATGTTAAATCATT
1 TTTTGATTGATAATGTTAAATCATT
6877987 TTTTGATTGATAATGTTAAATCAT
1 TTTTGATTGATAATGTTAAATCAT
6878011 GTTAAATCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (25 bp):
TTTTGATTGATAATGTTAAATCATT
Found at i:6882261 original size:50 final size:50
Alignment explanation
Indices: 6882198--6882298 Score: 157
Period size: 50 Copynumber: 2.0 Consensus size: 50
6882188 AAGATGTAGT
*
6882198 TAGGGTAAATATGAAACCTCATTCCTAAAGATTCTGATGCGTGCGCCTTA
1 TAGGGTAAATATGAAACCTCATTCCTAAAGATTCTGATGAGTGCGCCTTA
* * * *
6882248 TAGGGTGATTATGAAACCTCATTCTTAAAGATTCTGATGAGTGTGCCTTA
1 TAGGGTAAATATGAAACCTCATTCCTAAAGATTCTGATGAGTGCGCCTTA
6882298 T
1 T
6882299 TACGAGGTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (50 bp):
TAGGGTAAATATGAAACCTCATTCCTAAAGATTCTGATGAGTGCGCCTTA
Found at i:6888337 original size:3 final size:3
Alignment explanation
Indices: 6888329--6888362 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
6888319 TCGGATCGAA
* *
6888329 TAT TAT TAT TAT TAT TAT TAC TAT TAT TAA TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6888363 TATTTATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:6891992 original size:32 final size:32
Alignment explanation
Indices: 6891955--6892015 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
6891945 TTTCACCTGT
* *
6891955 ACTAACTAATTTTTTTTCTTTTGTTTGTGCAC
1 ACTAACTAATTTTATTTCTTTTGATTGTGCAC
*
6891987 ACTAACTTATTTTATTTCTTTTGATTGTG
1 ACTAACTAATTTTATTTCTTTTGATTGTG
6892016 TCATTTTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.20, C:0.13, G:0.10, T:0.57
Consensus pattern (32 bp):
ACTAACTAATTTTATTTCTTTTGATTGTGCAC
Found at i:6894238 original size:21 final size:20
Alignment explanation
Indices: 6894200--6894239 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
6894190 GATCAATATT
*
6894200 TTTGCATATGCATTTGCATA
1 TTTGCATATGCATCTGCATA
*
6894220 TTTGCATTTTGCATCTGCAT
1 TTTGCA-TATGCATCTGCAT
6894240 TTCATTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (20 bp):
TTTGCATATGCATCTGCATA
Found at i:6899264 original size:40 final size:41
Alignment explanation
Indices: 6899203--6899298 Score: 115
Period size: 40 Copynumber: 2.3 Consensus size: 41
6899193 GAACAAGCAA
* * *
6899203 TCTTCATCACGTATGAGCTGTGTC-ATCACCTG-ACCAGATC
1 TCTTCATCACGTAGGAACTGTGTCAATC-CCTGAACCAGAAC
*
6899243 TCTTCATCACGTAGGAACTGTGTCAATCCTTGATAACCAGAAC
1 TCTTCATCACGTAGGAACTGTGTCAATCCCTG--AACCAGAAC
6899286 TCTTCATCACGTA
1 TCTTCATCACGTA
6899299 TGAGTCGTGT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
40 25 0.52
41 3 0.06
43 20 0.42
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (41 bp):
TCTTCATCACGTAGGAACTGTGTCAATCCCTGAACCAGAAC
Found at i:6905626 original size:2 final size:2
Alignment explanation
Indices: 6905619--6905680 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
6905609 TTTCTCAACA
6905619 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6905661 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
6905681 CATGGCCTCT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6906413 original size:15 final size:15
Alignment explanation
Indices: 6906393--6906430 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
6906383 GCATGAGATA
*
6906393 CATGCATAAGTGATC
1 CATGCATAAGCGATC
6906408 CATGCATAAGCGATC
1 CATGCATAAGCGATC
6906423 CATGCATA
1 CATGCATA
6906431 CATCACATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (15 bp):
CATGCATAAGCGATC
Found at i:6909690 original size:21 final size:21
Alignment explanation
Indices: 6909664--6909703 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6909654 AGGAGGAGAT
6909664 GGAAAAAAAGCACTCATTGAA
1 GGAAAAAAAGCACTCATTGAA
**
6909685 GGAAAAGGAGCACTCATTG
1 GGAAAAAAAGCACTCATTG
6909704 CATGAGTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.15, G:0.25, T:0.15
Consensus pattern (21 bp):
GGAAAAAAAGCACTCATTGAA
Found at i:6913875 original size:9 final size:9
Alignment explanation
Indices: 6913852--6913883 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
6913842 TTCAATATTT
6913852 AATCTCTTC
1 AATCTCTTC
6913861 AATCT-TT-
1 AATCTCTTC
6913868 AATCTCTTC
1 AATCTCTTC
6913877 AATCTCT
1 AATCTCT
6913884 ACATAATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 5 0.24
8 4 0.19
9 12 0.57
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47
Consensus pattern (9 bp):
AATCTCTTC
Found at i:6913880 original size:16 final size:16
Alignment explanation
Indices: 6913842--6913881 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
6913832 TAAGTTGTCT
*
6913842 TTCAATATTTAATCTC
1 TTCAATCTTTAATCTC
6913858 TTCAATCTTTAATCTC
1 TTCAATCTTTAATCTC
6913874 TTCAATCT
1 TTCAATCT
6913882 CTACATAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.00, T:0.50
Consensus pattern (16 bp):
TTCAATCTTTAATCTC
Found at i:6917746 original size:22 final size:23
Alignment explanation
Indices: 6917701--6917760 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
6917691 TTCCGATATT
6917701 GGGGAATC-TATTCCCCTTCAAAG
1 GGGGAATCGT-TTCCCCTTCAAAG
6917724 GGGGAATCGTTTCCCCTTC-AAG
1 GGGGAATCGTTTCCCCTTCAAAG
* *
6917746 GGGGTATCGATTCCC
1 GGGGAATCGTTTCCC
6917761 TCTGCCTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 16 0.47
23 17 0.50
24 1 0.03
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGGGAATCGTTTCCCCTTCAAAG
Found at i:6927718 original size:20 final size:20
Alignment explanation
Indices: 6927645--6927764 Score: 73
Period size: 20 Copynumber: 6.0 Consensus size: 20
6927635 ATATAAGATG
* * *
6927645 TTGAAATTTGAGAAATCCAA
1 TTGAAATTTGACAAAACCGA
** *
6927665 TTTTAATTTGACAAAACAGGTA
1 TTGAAATTTGACAAAAC-CG-A
*
6927687 ATG-AATTTGACAAAACCGA
1 TTGAAATTTGACAAAACCGA
* *
6927706 TTGGAAA-TTGACAAAATCGG
1 TT-GAAATTTGACAAAACCGA
* *
6927726 TTGAAATTTGACAAAATCGG
1 TTGAAATTTGACAAAACCGA
** *
6927746 TTTCAATTTGAAAAAACCG
1 TTGAAATTTGACAAAACCG
6927765 GTAAAGAGCT
Statistics
Matches: 79, Mismatches: 16, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
19 6 0.08
20 56 0.71
21 15 0.19
22 2 0.03
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (20 bp):
TTGAAATTTGACAAAACCGA
Found at i:6927733 original size:19 final size:19
Alignment explanation
Indices: 6927688--6927747 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 19
6927678 AAACAGGTAA
* * *
6927688 TGAATTTGACAAAACCGAT
1 TGAAATTGACAAAATCGGT
6927707 TGGAAATTGACAAAATCGGT
1 T-GAAATTGACAAAATCGGT
6927727 TGAAATTTGACAAAATCGGT
1 TGAAA-TTGACAAAATCGGT
6927747 T
1 T
6927748 TCAATTTGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 5 0.14
20 31 0.86
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (19 bp):
TGAAATTGACAAAATCGGT
Found at i:6930609 original size:36 final size:37
Alignment explanation
Indices: 6930553--6930623 Score: 119
Period size: 36 Copynumber: 1.9 Consensus size: 37
6930543 TAATAAGTTC
6930553 AACTACCATTTTTCACTCGGATACA-ATCATGTTTCGT
1 AACTACCATTTTTCACTCGGATACATA-CATGTTTCGT
6930590 AACTACCA-TTTTCACTCGGATACATACATGTTTC
1 AACTACCATTTTTCACTCGGATACATACATGTTTC
6930624 TTACTGTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
36 24 0.73
37 9 0.27
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (37 bp):
AACTACCATTTTTCACTCGGATACATACATGTTTCGT
Found at i:6931141 original size:2 final size:2
Alignment explanation
Indices: 6931134--6931158 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6931124 GTTTTTCCGT
6931134 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6931159 GTTTACTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6931661 original size:29 final size:29
Alignment explanation
Indices: 6931628--6931694 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
6931618 CAAATTTTGG
*
6931628 TTAGTGACTAAAATATAAATTTTGAAAGT
1 TTAGTGACTAAAATATAAATTTGGAAAGT
* *
6931657 TTAGTGGA-GAAAGTATAAATTTGGAAAGT
1 TTAGT-GACTAAAATATAAATTTGGAAAGT
*
6931686 TTAGGGACT
1 TTAGTGACT
6931695 TGGTTAGTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
28 2 0.06
29 27 0.87
30 2 0.06
ACGTcount: A:0.40, C:0.03, G:0.22, T:0.34
Consensus pattern (29 bp):
TTAGTGACTAAAATATAAATTTGGAAAGT
Found at i:6931710 original size:70 final size:72
Alignment explanation
Indices: 6931624--6931765 Score: 234
Period size: 70 Copynumber: 2.0 Consensus size: 72
6931614 CTCCCAAATT
*
6931624 TTGGTTAGTGACTAAAATATAAATTTTGAAAGTTTAGTGGAGAAAGTAT-AAATTTGG-AAAGTT
1 TTGGTTAGTGACTAAAATATAAATTTTGAAAGTTTAGTGGACAAAGTATAAAATTTGGAAAAGTT
6931687 TAGGGAC
66 TAGGGAC
* * *
6931694 TTGGTTAGTGACTAAAATATAAGTTTTGAAAGTTTAGTGGCCAAATTATAAAATTTGGAAAAGTT
1 TTGGTTAGTGACTAAAATATAAATTTTGAAAGTTTAGTGGACAAAGTATAAAATTTGGAAAAGTT
6931759 TAGGGAC
66 TAGGGAC
6931766 CTAAGTGGTA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
70 45 0.68
71 8 0.12
72 13 0.20
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.35
Consensus pattern (72 bp):
TTGGTTAGTGACTAAAATATAAATTTTGAAAGTTTAGTGGACAAAGTATAAAATTTGGAAAAGTT
TAGGGAC
Found at i:6933589 original size:22 final size:22
Alignment explanation
Indices: 6933559--6933608 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
6933549 ATTTTAGGGT
*
6933559 ATGACCACCCTAAAATAGATGG
1 ATGAACACCCTAAAATAGATGG
6933581 ATGAACACCCTAAAATAGATGG
1 ATGAACACCCTAAAATAGATGG
6933603 ATGAAC
1 ATGAAC
6933609 TTTTATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (22 bp):
ATGAACACCCTAAAATAGATGG
Found at i:6933810 original size:18 final size:18
Alignment explanation
Indices: 6933787--6933827 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
6933777 CAGTACTTTG
6933787 TGTGCTTTCGGCACTATA
1 TGTGCTTTCGGCACTATA
* *
6933805 TGTGCTTTTGGCACTATG
1 TGTGCTTTCGGCACTATA
6933823 TGTGC
1 TGTGC
6933828 ATCCATGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.20, G:0.27, T:0.41
Consensus pattern (18 bp):
TGTGCTTTCGGCACTATA
Done.