Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 114 of 211
Found at i:35863280 original size:59 final size:59
Alignment explanation
Indices: 35863060--35863306 Score: 243
Period size: 59 Copynumber: 4.2 Consensus size: 59
35863050 TCTTTTCGGG
* *
35863060 TAATCTCTGTTAAAGGAAGCCTTTGTGGCTAATCTCTGTTAAATA--AAGCCTTTGTGGC
1 TAATCTCTGTTAAAGGAAGCCTTTATAGCTAATCTCTGTTAAA-AGGAAGCCTTTGTGGC
* * * * * **
35863118 TAATCCCTGTTAAAGGAAGCCTTTTTCGCTAATCTCTGTTAAATGGAAGCCTTTGAGAA
1 TAATCTCTGTTAAAGGAAGCCTTTATAGCTAATCTCTGTTAAAAGGAAGCCTTTGTGGC
* * *
35863177 TAATCTATGTTAAAGGAAGCCTCTATAGCTAATCTTTGTT-AAAGGAAGCCTTTTGTGGC
1 TAATCTCTGTTAAAGGAAGCCTTTATAGCTAATCTCTGTTAAAAGGAAGCC-TTTGTGGC
* * * * * * ***
35863236 TAATCTCTGTCATAGGAAGCCTTTAT-GGTGATTTGTGTTAAAAGGATTTCTTTGTGGC
1 TAATCTCTGTTAAAGGAAGCCTTTATAGCTAATCTCTGTTAAAAGGAAGCCTTTGTGGC
*
35863294 T-ATCTCAGTTAAA
1 TAATCTCTGTTAAA
35863307 TGAATGTCTT
Statistics
Matches: 154, Mismatches: 31, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
57 9 0.06
58 67 0.44
59 78 0.51
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (59 bp):
TAATCTCTGTTAAAGGAAGCCTTTATAGCTAATCTCTGTTAAAAGGAAGCCTTTGTGGC
Found at i:35867035 original size:28 final size:28
Alignment explanation
Indices: 35866999--35867193 Score: 209
Period size: 28 Copynumber: 7.0 Consensus size: 28
35866989 GGAAGTTTTT
35866999 TGGCTATCTCTGTTAATGGAAGCCTTTG
1 TGGCTATCTCTGTTAATGGAAGCCTTTG
* *
35867027 TGGCAATCTCTGTTAAAAGGAAGCCTTTG
1 TGGCTATCTCTGTT-AATGGAAGCCTTTG
*
35867056 TGGCTATCTCTATTAATGGAAGCCTTT-
1 TGGCTATCTCTGTTAATGGAAGCCTTTG
* * *
35867083 T-GCGATCTTTGTTAAAAT-GAAGCCTTTA
1 TGGCTATCTCTGTT--AATGGAAGCCTTTG
* *
35867111 TGGCTATCCCTATTAATGGAAGCCTTTG
1 TGGCTATCTCTGTTAATGGAAGCCTTTG
* * *
35867139 TGG-TGATATTTGTTAAAGGAAGCCTTTG
1 TGGCT-ATCTCTGTTAATGGAAGCCTTTG
* *
35867167 TGGCAATCTCTGTTAAAGGAAGCCTTT
1 TGGCTATCTCTGTTAATGGAAGCCTTT
35867194 ATTTCAATAC
Statistics
Matches: 138, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
26 9 0.07
27 14 0.10
28 82 0.59
29 33 0.24
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (28 bp):
TGGCTATCTCTGTTAATGGAAGCCTTTG
Found at i:35867124 original size:55 final size:57
Alignment explanation
Indices: 35866999--35867193 Score: 270
Period size: 55 Copynumber: 3.5 Consensus size: 57
35866989 GGAAGTTTTT
* * *
35866999 TGGCTATCTCTGTTAATGGAAGCCTTTGTGGCAATCTCTGTTAAAAGGAAGCCTTTG
1 TGGCTATCTCTATTAATGGAAGCCTTTGTGGCGATCTTTGTTAAAAGGAAGCCTTTG
* *
35867056 TGGCTATCTCTATTAATGGAAGCCTTT-T-GCGATCTTTGTTAAAATGAAGCCTTTA
1 TGGCTATCTCTATTAATGGAAGCCTTTGTGGCGATCTTTGTTAAAAGGAAGCCTTTG
* * *
35867111 TGGCTATCCCTATTAATGGAAGCCTTTGTGGTGATATTTGTT-AAAGGAAGCCTTTG
1 TGGCTATCTCTATTAATGGAAGCCTTTGTGGCGATCTTTGTTAAAAGGAAGCCTTTG
* * *
35867167 TGGCAATCTCTGTTAAAGGAAGCCTTT
1 TGGCTATCTCTATTAATGGAAGCCTTT
35867194 ATTTCAATAC
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
55 49 0.40
56 37 0.30
57 36 0.30
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (57 bp):
TGGCTATCTCTATTAATGGAAGCCTTTGTGGCGATCTTTGTTAAAAGGAAGCCTTTG
Found at i:35867272 original size:61 final size:61
Alignment explanation
Indices: 35867198--35867393 Score: 259
Period size: 61 Copynumber: 3.2 Consensus size: 61
35867188 GCCTTTATTT
* * * ** *
35867198 CAATACTCCAAAGGGAAAGCCTTTATGGAAAATACTAAATGTTAAAGGAATGTCTTTGTGG
1 CAATACTCTAAAGGGAAAGTCTTTGTGGCGAGTACTAAATGTTAAAGGAATGTCTTTGTGG
* * *
35867259 CAATACTCTAAAGGCAAAGTCTGTGTGGCGAGTACTGAAA-GTTAAAGGAATGCCTTTGTGG
1 CAATACTCTAAAGGGAAAGTCTTTGTGGCGAGTACT-AAATGTTAAAGGAATGTCTTTGTGG
* * * *
35867320 CAATACTTTGAAGGGAAAGTGTTTGTGGCGAGTACTAAATGTTAAAGGAATGTCTTTCTGG
1 CAATACTCTAAAGGGAAAGTCTTTGTGGCGAGTACTAAATGTTAAAGGAATGTCTTTGTGG
35867381 CAATACTCTAAAG
1 CAATACTCTAAAG
35867394 TTAAGGTAAG
Statistics
Matches: 115, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
60 3 0.03
61 109 0.95
62 3 0.03
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (61 bp):
CAATACTCTAAAGGGAAAGTCTTTGTGGCGAGTACTAAATGTTAAAGGAATGTCTTTGTGG
Found at i:35888013 original size:18 final size:18
Alignment explanation
Indices: 35887990--35888033 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
35887980 AATTATAAAG
35887990 ATTCAATATGATTAAACA
1 ATTCAATATGATTAAACA
*
35888008 ATTCAATATTATTAAACA
1 ATTCAATATGATTAAACA
35888026 ATTCAATA
1 ATTCAATA
35888034 ATATAATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.36
Consensus pattern (18 bp):
ATTCAATATGATTAAACA
Found at i:35888042 original size:21 final size:20
Alignment explanation
Indices: 35887994--35888038 Score: 67
Period size: 18 Copynumber: 2.3 Consensus size: 20
35887984 ATAAAGATTC
35887994 AATATGATTAAACAATTCAAT
1 AATAT-ATTAAACAATTCAAT
35888015 -AT-TATTAAACAATTCAAT
1 AATATATTAAACAATTCAAT
35888033 AATATA
1 AATATA
35888039 ATTAGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 15 0.68
19 3 0.14
20 4 0.18
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (20 bp):
AATATATTAAACAATTCAAT
Found at i:35888389 original size:18 final size:18
Alignment explanation
Indices: 35888366--35888402 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
35888356 TATAGTTTGG
*
35888366 TATTTGATTTATTCGAAT
1 TATTTGAGTTATTCGAAT
35888384 TATTTGAGTTATTCGAAT
1 TATTTGAGTTATTCGAAT
35888402 T
1 T
35888403 TGAAAACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.54
Consensus pattern (18 bp):
TATTTGAGTTATTCGAAT
Found at i:35888625 original size:15 final size:15
Alignment explanation
Indices: 35888607--35888645 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
35888597 GAGAAAGAAA
* *
35888607 AATGAATGAATGAGT
1 AATGAATGAAGGAAT
35888622 AATGAATGAAGGAAT
1 AATGAATGAAGGAAT
*
35888637 AATGGATGA
1 AATGAATGA
35888646 TTTTTAGGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.28, T:0.23
Consensus pattern (15 bp):
AATGAATGAAGGAAT
Found at i:35889281 original size:31 final size:31
Alignment explanation
Indices: 35889246--35889338 Score: 186
Period size: 31 Copynumber: 3.0 Consensus size: 31
35889236 AGGAAAATTA
35889246 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
35889277 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
35889308 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
35889339 AAAATTATCT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:35891579 original size:22 final size:22
Alignment explanation
Indices: 35891551--35891594 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
35891541 AAAAAGAAGG
35891551 CATCGATTACGATGAGACATTT
1 CATCGATTACGATGAGACATTT
35891573 CATCGATTACGATGAGACATTT
1 CATCGATTACGATGAGACATTT
35891595 TCTCTGGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (22 bp):
CATCGATTACGATGAGACATTT
Found at i:35894219 original size:12 final size:12
Alignment explanation
Indices: 35894202--35894227 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35894192 CAAAAATTTA
35894202 AAAATACTAAAT
1 AAAATACTAAAT
35894214 AAAATACTAAAT
1 AAAATACTAAAT
35894226 AA
1 AA
35894228 GAATTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATACTAAAT
Found at i:35901592 original size:30 final size:31
Alignment explanation
Indices: 35901551--35901621 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
35901541 TTAATAGCCT
* *
35901551 AAATGTTTATAAT-TTTTAAAGGA-TTAAATTA
1 AAAT-TTTATAATCTTTT-AAGGAGTCAAAGTA
*
35901582 AAATTTTATAATCTTTTGAGGAGTCAAAGTA
1 AAATTTTATAATCTTTTAAGGAGTCAAAGTA
35901613 AAATTTTAT
1 AAATTTTAT
35901622 CTTTACGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 12 0.34
31 23 0.66
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.44
Consensus pattern (31 bp):
AAATTTTATAATCTTTTAAGGAGTCAAAGTA
Found at i:35902615 original size:21 final size:19
Alignment explanation
Indices: 35902586--35902624 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
35902576 TAAAAAATAT
*
35902586 AATATTTTAAATATATTAAAA
1 AATAATTTAAA-A-ATTAAAA
35902607 AATAATTTAAAAATTAAA
1 AATAATTTAAAAATTAAA
35902625 TATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 1 0.06
21 10 0.59
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATAATTTAAAAATTAAAA
Found at i:35906065 original size:55 final size:56
Alignment explanation
Indices: 35905956--35906068 Score: 192
Period size: 55 Copynumber: 2.0 Consensus size: 56
35905946 TTAACCCTTC
*
35905956 TTACTTTTACAAACAAATAGAACATTTAAAAAAAAATGGTACATGATAGTAAACCT
1 TTACTTTTACAAACAAATAAAACATTTAAAAAAAAATGGTACATGATAGTAAACCT
* *
35906012 TTACTTTTACAAGCCAATAAAACATTT-AAAAAAAATGGTACATGATAGTAAACCT
1 TTACTTTTACAAACAAATAAAACATTTAAAAAAAAATGGTACATGATAGTAAACCT
35906067 TT
1 TT
35906069 TTTTTTGGCC
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 30 0.56
56 24 0.44
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (56 bp):
TTACTTTTACAAACAAATAAAACATTTAAAAAAAAATGGTACATGATAGTAAACCT
Found at i:35911345 original size:13 final size:13
Alignment explanation
Indices: 35911327--35911351 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35911317 TGGAAAACAA
35911327 ATTAATTAGTAAG
1 ATTAATTAGTAAG
35911340 ATTAATTAGTAA
1 ATTAATTAGTAA
35911352 ATCCTCAATT
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:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
ATTAATTAGTAAG
Found at i:35919836 original size:7 final size:7
Alignment explanation
Indices: 35919824--35919849 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
35919814 TTATCTGATC
35919824 AGTGACA
1 AGTGACA
35919831 AGTGACA
1 AGTGACA
35919838 AGTGACA
1 AGTGACA
35919845 AGTGA
1 AGTGA
35919850 TAGTGGTAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.31, T:0.15
Consensus pattern (7 bp):
AGTGACA
Found at i:35919866 original size:57 final size:58
Alignment explanation
Indices: 35919774--35919898 Score: 216
Period size: 57 Copynumber: 2.2 Consensus size: 58
35919764 TATCTGATCG
*
35919774 GTGACAAGTGACAAGTAATAAGTGGTAGCTTTAGCTATACTTATCTGATCAGTGACAA
1 GTGACAAGTGACAAGTAATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAA
*
35919832 GTGACAAGTGACAAGTGAT-AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAA
1 GTGACAAGTGACAAGTAATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAA
*
35919889 GTGATAAGTG
1 GTGACAAGTG
35919899 GTAGCTTTAG
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
57 46 0.72
58 18 0.28
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.29
Consensus pattern (58 bp):
GTGACAAGTGACAAGTAATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAA
Found at i:35919907 original size:101 final size:104
Alignment explanation
Indices: 35919730--35919941 Score: 306
Period size: 101 Copynumber: 2.0 Consensus size: 104
35919720 ACTTATGATC
35919730 AGTGACAAATGATAAGTGGTAGCTTAGCTACACTTATCTGATCGGTGACAAGTGACAAGTAATAA
1 AGTGACAAATGATAAGTGGTAGCTTAGCTACACTTATCTGA---GT-ACAAGTGACAAGTAATAA
* *
35919795 GTGGTAGCTTTAGCTATACTTATCTGATCAGTGACAAGTGACA
62 GTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAATGACA
* *
35919838 AGTGACAAGTGAT-AGTGGTAGCTTTAGCTACACTTATCTGA-T-C-AGTGACAAGTGATAAGTG
1 AGTGACAAATGATAAGTGGTAGC-TTAGCTACACTTATCTGAGTACAAGTGACAAGTAATAAGTG
*
35919899 GTAGCTTTAGCTACACTTATCTGATTAGTGACAAATGACA
65 GTAGCTTTAGCTACACTTATCTGATCAGTGACAAATGACA
35919939 AGT
1 AGT
35919942 AGGGGTGAGC
Statistics
Matches: 98, Mismatches: 5, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
101 57 0.58
102 1 0.01
104 1 0.01
107 9 0.09
108 30 0.31
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (104 bp):
AGTGACAAATGATAAGTGGTAGCTTAGCTACACTTATCTGAGTACAAGTGACAAGTAATAAGTGG
TAGCTTTAGCTACACTTATCTGATCAGTGACAAATGACA
Found at i:35919908 original size:44 final size:44
Alignment explanation
Indices: 35919838--35919941 Score: 174
Period size: 44 Copynumber: 2.4 Consensus size: 44
35919828 ACAAGTGACA
35919838 AGTGACAAGTGAT-AGTGGTAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
*
35919881 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATT
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
* *
35919925 AGTGACAAATGACAAGT
1 AGTGACAAGTGATAAGT
35919942 AGGGGTGAGC
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 13 0.23
44 44 0.77
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (44 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
Found at i:35920023 original size:9 final size:9
Alignment explanation
Indices: 35920007--35920039 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
35919997 GAGTTAAACG
35920007 AATCGAGTT
1 AATCGAGTT
*
35920016 ATTCGAGTT
1 AATCGAGTT
35920025 AATCGAGTT
1 AATCGAGTT
35920034 AATCGA
1 AATCGA
35920040 ATCAACTCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (9 bp):
AATCGAGTT
Found at i:35920205 original size:29 final size:29
Alignment explanation
Indices: 35920172--35920227 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
35920162 CCTTTTTACT
* *
35920172 TTTCCCTCAAAACTTTTACTCCTTCCCAC
1 TTTCCCCCAAAACTTTTACTCCCTCCCAC
35920201 TTTCCCCCAAAACTTTTACTCCCTCCC
1 TTTCCCCCAAAACTTTTACTCCCTCCC
35920228 CTCTCAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.20, C:0.45, G:0.00, T:0.36
Consensus pattern (29 bp):
TTTCCCCCAAAACTTTTACTCCCTCCCAC
Found at i:35921181 original size:7 final size:7
Alignment explanation
Indices: 35921169--35921194 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
35921159 GCTCACCCCT
35921169 AGTGACA
1 AGTGACA
35921176 AGTGACA
1 AGTGACA
35921183 AGTGACA
1 AGTGACA
35921190 AGTGA
1 AGTGA
35921195 TAAATGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.31, T:0.15
Consensus pattern (7 bp):
AGTGACA
Found at i:35921978 original size:29 final size:29
Alignment explanation
Indices: 35921921--35921979 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
35921911 TCGTGGAAGA
* * *
35921921 GGTGGAGAACTTGTTCGTTTAGAGCTCGT
1 GGTGAAGAACTTGTTCGTTGAGAACTCGT
*
35921950 GGTGAAGAACTTGTTCGTTGAGAATTCGT
1 GGTGAAGAACTTGTTCGTTGAGAACTCGT
35921979 G
1 G
35921980 TCAAGGTGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.20, C:0.12, G:0.34, T:0.34
Consensus pattern (29 bp):
GGTGAAGAACTTGTTCGTTGAGAACTCGT
Found at i:35922707 original size:42 final size:42
Alignment explanation
Indices: 35922648--35922729 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
35922638 ATATATTAAT
35922648 AATGTTGTTGATTAAAATCTTGTCACAAATTAAATCAACACC
1 AATGTTGTTGATTAAAATCTTGTCACAAATTAAATCAACACC
35922690 AATGTTGTTGATTAAAATCTTGTCACAAATTAAATCAACA
1 AATGTTGTTGATTAAAATCTTGTCACAAATTAAATCAACA
35922730 ACACCTCACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (42 bp):
AATGTTGTTGATTAAAATCTTGTCACAAATTAAATCAACACC
Found at i:35929395 original size:25 final size:25
Alignment explanation
Indices: 35929367--35929414 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
35929357 TTAGAGAATA
* *
35929367 TTTCATACCATTCTTTCCTAATTCC
1 TTTCATACCATTCATTCATAATTCC
*
35929392 TTTCATGCCATTCATTCATAATT
1 TTTCATACCATTCATTCATAATT
35929415 TTGTTGTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.23, C:0.27, G:0.02, T:0.48
Consensus pattern (25 bp):
TTTCATACCATTCATTCATAATTCC
Found at i:35929741 original size:61 final size:61
Alignment explanation
Indices: 35929639--35929811 Score: 204
Period size: 61 Copynumber: 2.8 Consensus size: 61
35929629 ATAGAGATAT
* * * * *
35929639 TGCCACAAAGGCTTTTTCTTTACATTCAGTACTCGCTACAAAGGCTTTCCTGTCCAGAATTT
1 TGCCACAAAGGCTATCT-TTTACATTCAGTACTCGCTACAAAAGCTTTCCTATCCAGAATTA
* * * *
35929701 TTCCACAAAGGCTATCTTTTATATCCAGTACTCGCTACAAAAGCTTTCCTATCCAGAGTTA
1 TGCCACAAAGGCTATCTTTTACATTCAGTACTCGCTACAAAAGCTTTCCTATCCAGAATTA
* * * *
35929762 TGCCAAAAAGGCTGTCCTTTACATTCATTACTCG-TCACAAAAGCTTTCCT
1 TGCCACAAAGGCTATCTTTTACATTCAGTACTCGCT-ACAAAAGCTTTCCT
35929812 TTTAAAGCCT
Statistics
Matches: 94, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
60 1 0.01
61 79 0.84
62 14 0.15
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.34
Consensus pattern (61 bp):
TGCCACAAAGGCTATCTTTTACATTCAGTACTCGCTACAAAAGCTTTCCTATCCAGAATTA
Found at i:35934663 original size:13 final size:13
Alignment explanation
Indices: 35934643--35934677 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
35934633 CAAAGTCAAG
35934643 AAAAATTTTGTTA
1 AAAAATTTTGTTA
*
35934656 AGAAATTTTGTTA
1 AAAAATTTTGTTA
35934669 AAAAATTTT
1 AAAAATTTT
35934678 ACCGTTTACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (13 bp):
AAAAATTTTGTTA
Found at i:35935339 original size:25 final size:25
Alignment explanation
Indices: 35935311--35935391 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
35935301 CACCCCTCAT
35935311 CTCGTAGGAGCTTACCGATTCATAG
1 CTCGTAGGAGCTTACCGATTCATAG
* * *
35935336 CTCGTATGAGCTTACTGATTTATAG
1 CTCGTAGGAGCTTACCGATTCATAG
* * *
35935361 CTTG-AGAGAGCATACCAATTCATAG
1 CTCGTAG-GAGCTTACCGATTCATAG
35935386 CTCGTA
1 CTCGTA
35935392 TAAGCATACA
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
24 1 0.02
25 42 0.95
26 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (25 bp):
CTCGTAGGAGCTTACCGATTCATAG
Found at i:35935397 original size:25 final size:25
Alignment explanation
Indices: 35935323--35935400 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
35935313 CGTAGGAGCT
* *
35935323 TACCGATTCATAGCTCGTATGAGCT
1 TACCGATTCATAGCTCGTATAAGCA
* * * *
35935348 TACTGATTTATAGCTTG-AGAGAGCA
1 TACCGATTCATAGCTCGTATA-AGCA
*
35935373 TACCAATTCATAGCTCGTATAAGCA
1 TACCGATTCATAGCTCGTATAAGCA
35935398 TAC
1 TAC
35935401 ATGTACAGGA
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
24 1 0.03
25 37 0.93
26 2 0.05
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (25 bp):
TACCGATTCATAGCTCGTATAAGCA
Found at i:35938111 original size:82 final size:82
Alignment explanation
Indices: 35938025--35938181 Score: 199
Period size: 82 Copynumber: 1.9 Consensus size: 82
35938015 AAAGGATTGC
* * * * *
35938025 CACAAAGGCTTTTATATT-ATATATGAGACAAATGCTTTCTGTACAAAGGTTCGCCACAAAGGCT
1 CACAAACGCTTTTAT-TTCAGATATGACAAAAATGCTTTCTGTACAAAGGTTCGCCACAAAGACT
35938089 TTCCTTTCAGAGGCTCGG
65 TTCCTTTCAGAGGCTCGG
* * * * *
35938107 CACAAACGCTTTTCTTTCAGATATGCCAAAAATGCTTTCTGTACAGAGGTTTGCCATAAAGACTT
1 CACAAACGCTTTTATTTCAGATATGACAAAAATGCTTTCTGTACAAAGGTTCGCCACAAAGACTT
*
35938172 TTCTTTCAGA
66 TCCTTTCAGA
35938182 TACACCACAA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
81 2 0.03
82 61 0.97
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (82 bp):
CACAAACGCTTTTATTTCAGATATGACAAAAATGCTTTCTGTACAAAGGTTCGCCACAAAGACTT
TCCTTTCAGAGGCTCGG
Found at i:35938209 original size:54 final size:54
Alignment explanation
Indices: 35938115--35938228 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
35938105 GGCACAAACG
** * * * *
35938115 CTTTTCTTTCAGATATGCCAAAAATGCTTTCTGTACAGAGGTTTGCCATAAAGA
1 CTTTTCTTTCAGATACACCAAAAAGGATTTCTATAAAGAGGTTTGCCATAAAGA
* * *
35938169 CTTTTCTTTCAGATACACCACAAAGGATTTTTATAAAGAGGTTTGCCATAAAGG
1 CTTTTCTTTCAGATACACCAAAAAGGATTTCTATAAAGAGGTTTGCCATAAAGA
35938223 CTTTTC
1 CTTTTC
35938229 CTTTATAGAG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (54 bp):
CTTTTCTTTCAGATACACCAAAAAGGATTTCTATAAAGAGGTTTGCCATAAAGA
Found at i:35938221 original size:28 final size:28
Alignment explanation
Indices: 35938186--35938325 Score: 104
Period size: 28 Copynumber: 4.9 Consensus size: 28
35938176 TTCAGATACA
*
35938186 CCACAAAGGATTTTTATAAAGAGGTTTG
1 CCACAAAGGCTTTTTATAAAGAGGTTTG
* * * *
35938214 CCATAAAGGCTTTTCCTTTATAGAGGTTTT
1 CCACAAAGGCTTTT--TATAAAGAGGTTTG
* * * * *
35938244 CCACAAAGG-TTGTCTAGACAGTGGTTCG
1 CCACAAAGGCTT-TTTATAAAGAGGTTTG
* *
35938272 CCACAAAAGCTTTTCT-TTAAGAGGTTTG
1 CCACAAAGGCTTTT-TATAAAGAGGTTTG
* *
35938300 CCATAAAGGCTTTTTGTAAAGAGGTT
1 CCACAAAGGCTTTTTATAAAGAGGTT
35938326 CACCAAAAAT
Statistics
Matches: 83, Mismatches: 23, Indels: 12
0.70 0.19 0.10
Matches are distributed among these distances:
27 1 0.01
28 57 0.69
29 5 0.06
30 20 0.24
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (28 bp):
CCACAAAGGCTTTTTATAAAGAGGTTTG
Found at i:35938326 original size:56 final size:55
Alignment explanation
Indices: 35938186--35938369 Score: 165
Period size: 56 Copynumber: 3.3 Consensus size: 55
35938176 TTCAGATACA
* * * * *
35938186 CCACAAAGGATTTTTATAAAGAGGTTTGCCATAAAGGCTTTTCCTTTATAGAGGTTTT
1 CCACAAAGGCTTTTTGTAAAGAGGTTCGCCA-AAAAGCTTTT-CTTTA-AGAGGTTTG
* * *
35938244 CCACAAAGG-TTGTCTAG-ACAGTGGTTCGCCACAAAAGCTTTTCTTTAAGAGGTTTG
1 CCACAAAGGCTT-T-TTGTAAAGAGGTTCGCCA-AAAAGCTTTTCTTTAAGAGGTTTG
* * * * * *
35938300 CCATAAAGGCTTTTTGTAAAGAGGTTCACCAAAAATGCTTTCCTTTTAGAGGCTCG
1 CCACAAAGGCTTTTTGTAAAGAGGTTCGCCAAAAA-GCTTTTCTTTAAGAGGTTTG
35938356 CCACAAAGGCTTTT
1 CCACAAAGGCTTTT
35938370 CTTTTAGATA
Statistics
Matches: 103, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
55 6 0.06
56 57 0.55
57 9 0.09
58 30 0.29
59 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (55 bp):
CCACAAAGGCTTTTTGTAAAGAGGTTCGCCAAAAAGCTTTTCTTTAAGAGGTTTG
Found at i:35938350 original size:28 final size:28
Alignment explanation
Indices: 35938319--35938377 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
35938309 CTTTTTGTAA
* *
35938319 AGAGGTTCACCAAAAATGCTTTCCTTTT
1 AGAGGCTCACCAAAAAGGCTTTCCTTTT
* * *
35938347 AGAGGCTCGCCACAAAGGCTTTTCTTTT
1 AGAGGCTCACCAAAAAGGCTTTCCTTTT
35938375 AGA
1 AGA
35938378 TACACCAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (28 bp):
AGAGGCTCACCAAAAAGGCTTTCCTTTT
Found at i:35938486 original size:30 final size:30
Alignment explanation
Indices: 35938397--35938486 Score: 87
Period size: 30 Copynumber: 3.1 Consensus size: 30
35938387 AAGGTTTATG
* * *
35938397 TACAAAGGTTCGCTACAAAGGCT-TTCTTT
1 TACAGAGGTTTGCAACAAAGGCTATTCTTT
* *
35938426 T-CAGAGGTTTGCCACAAAGGTTTATT-TTT
1 TACAGAGGTTTGCAACAAAGG-CTATTCTTT
* *
35938455 TATAGAGGTTTGTAACAAAGGCTATTCTTT
1 TACAGAGGTTTGCAACAAAGGCTATTCTTT
35938485 TA
1 TA
35938487 GAAATGCCAC
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
28 16 0.33
29 10 0.20
30 23 0.47
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (30 bp):
TACAGAGGTTTGCAACAAAGGCTATTCTTT
Found at i:35946895 original size:42 final size:42
Alignment explanation
Indices: 35946848--35946931 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
35946838 ATTTTACGTC
* *
35946848 TAATAAACCTAAATTAAATAATAATTAG-ATTTAAATGTCAAT
1 TAATAAACATAAATTAAATAATAA-TAGTATTTAAATGCCAAT
* * *
35946890 TAATAAATATAAATTAAATTATAATAGTATTTAGATGCCAAT
1 TAATAAACATAAATTAAATAATAATAGTATTTAAATGCCAAT
35946932 ACAATTTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 3 0.08
42 33 0.92
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (42 bp):
TAATAAACATAAATTAAATAATAATAGTATTTAAATGCCAAT
Found at i:35947059 original size:5 final size:6
Alignment explanation
Indices: 35947047--35947074 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
35947037 TTAAACTAAA
35947047 TTATTT TTATTT TTATTT TTATTT TTAT
1 TTATTT TTATTT TTATTT TTATTT TTAT
35947075 ATATCAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTATTT
Found at i:35948218 original size:19 final size:19
Alignment explanation
Indices: 35948177--35948219 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
35948167 TTTGAATTAA
35948177 TCAAAATTTGTTTGGATAAT
1 TCAAAATTTGTTTGGAT-AT
*
35948197 TCAAATTTTGATTTGGAT-T
1 TCAAAATTTG-TTTGGATAT
35948216 TCAA
1 TCAA
35948220 CTAATTCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 9 0.43
21 7 0.33
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.47
Consensus pattern (19 bp):
TCAAAATTTGTTTGGATAT
Found at i:35950920 original size:62 final size:62
Alignment explanation
Indices: 35950823--35950949 Score: 218
Period size: 62 Copynumber: 2.0 Consensus size: 62
35950813 TCGTATAATA
* *
35950823 TATATTATATTATAAGGCCTTAGGTTCCAAATGTCACATCTCAAAAATGGAGTTAGAAGAAT
1 TATATTATATTACAAGGCCTTAGGTTCCAAATGTCACATCTCAAAAATGAAGTTAGAAGAAT
* *
35950885 TATATTATATTACAAGGCCTTAGGTTTCAAGTGTCACATCTCAAAAATGAAGTTAGAAGAAT
1 TATATTATATTACAAGGCCTTAGGTTCCAAATGTCACATCTCAAAAATGAAGTTAGAAGAAT
35950947 TAT
1 TAT
35950950 GTTTGTGGTT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.33
Consensus pattern (62 bp):
TATATTATATTACAAGGCCTTAGGTTCCAAATGTCACATCTCAAAAATGAAGTTAGAAGAAT
Found at i:35951304 original size:13 final size:13
Alignment explanation
Indices: 35951288--35951312 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35951278 ACCAAAAAGG
35951288 TTTTACTAAAATA
1 TTTTACTAAAATA
35951301 TTTTACTAAAAT
1 TTTTACTAAAAT
35951313 TATGACTCAG
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:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTACTAAAATA
Found at i:35953873 original size:28 final size:29
Alignment explanation
Indices: 35953837--35953897 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 29
35953827 GACGTCTTTA
*
35953837 TGGCTATCTCTATTAAA-GGAAGCCTATG
1 TGGCGATCTCTATTAAATGGAAGCCTATG
*
35953865 TGGCGATCTCTATTAAATGGAAGCCTTTG
1 TGGCGATCTCTATTAAATGGAAGCCTATG
35953894 TGGC
1 TGGC
35953898 TAACTCAGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 16 0.53
29 14 0.47
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (29 bp):
TGGCGATCTCTATTAAATGGAAGCCTATG
Found at i:35953896 original size:29 final size:28
Alignment explanation
Indices: 35953665--35953897 Score: 142
Period size: 26 Copynumber: 8.4 Consensus size: 28
35953655 CATATAAGTG
* * *
35953665 AGCCTTTGTGGCTATCT-T-TGAATGGA
1 AGCCTTTGTGGCGATCTCTATTAAAGGA
* * *
35953691 CGCCTTTGTGGCTATCTCTA--AAAAGA
1 AGCCTTTGTGGCGATCTCTATTAAAGGA
* *
35953717 AGCCTTTGTGTCAATCTCTACTATAAA-GA
1 AGCCTTTGTGGCGATCTCTA-T-TAAAGGA
* * * *
35953746 TGCCTTTGTAGCGACCTCTGTTAAATGGA
1 AGCCTTTGTGGCGATCTCTATTAAA-GGA
* * * *
35953775 AGCCTTTTTGGATG-TTTCTGTTAAAGGA
1 AGCCTTTGTGG-CGATCTCTATTAAAGGA
* *
35953803 AGCCTTTGTGGCTATATCTA--AATA-GA
1 AGCCTTTGTGGCGATCTCTATTAA-AGGA
* * * *
35953829 CGTCTTTATGGCTATCTCTATTAAAGGA
1 AGCCTTTGTGGCGATCTCTATTAAAGGA
*
35953857 AGCCTATGTGGCGATCTCTATTAAATGGA
1 AGCCTTTGTGGCGATCTCTATTAAA-GGA
35953886 AGCCTTTGTGGC
1 AGCCTTTGTGGC
35953898 TAACTCAGCT
Statistics
Matches: 159, Mismatches: 33, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
26 57 0.36
27 7 0.04
28 42 0.26
29 49 0.31
30 4 0.03
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (28 bp):
AGCCTTTGTGGCGATCTCTATTAAAGGA
Found at i:35957680 original size:24 final size:25
Alignment explanation
Indices: 35957653--35957795 Score: 80
Period size: 24 Copynumber: 5.8 Consensus size: 25
35957643 GGCTCTCACA
35957653 AGCTTCCCGATAT-TGGCTCGCATG
1 AGCTTCCCGATATATGGCTCGCATG
* * * **
35957677 AGCTTTCTGAT-TACGGCTCTTATG
1 AGCTTCCCGATATATGGCTCGCATG
* * *
35957701 AGCTTCCCGAT-TAATAGTTCTC-TG
1 AGCTTCCCGATAT-ATGGCTCGCATG
* * * *
35957725 AAGCTTCTCGATATTTGGCTCTCTTG
1 -AGCTTCCCGATATATGGCTCGCATG
* * *
35957751 AGCTTCTCG-TTTATGGCTCGTATG
1 AGCTTCCCGATATATGGCTCGCATG
* *
35957775 AGCTTCCTGTTATATGGCTCG
1 AGCTTCCCGATATATGGCTCG
35957796 GAATAGCTTC
Statistics
Matches: 90, Mismatches: 23, Indels: 11
0.73 0.19 0.09
Matches are distributed among these distances:
23 1 0.01
24 46 0.51
25 40 0.44
26 3 0.03
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (25 bp):
AGCTTCCCGATATATGGCTCGCATG
Found at i:35961254 original size:16 final size:15
Alignment explanation
Indices: 35961228--35961257 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
35961218 TGAATTTTTT
35961228 AAATAATATTATTTC
1 AAATAATATTATTTC
35961243 AAATATATATTATTT
1 AAATA-ATATTATTT
35961258 ATAAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
AAATAATATTATTTC
Found at i:35964737 original size:23 final size:23
Alignment explanation
Indices: 35964688--35964737 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
35964678 CACGACGCGA
** *
35964688 TGACATCGTGACGAGGAGGTTTT
1 TGACATCACGACGAGGAGGTTTC
35964711 TGACATCACGACGAGGA-GTTTCC
1 TGACATCACGACGAGGAGGTTT-C
35964734 TGAC
1 TGAC
35964738 GTTATGATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (23 bp):
TGACATCACGACGAGGAGGTTTC
Found at i:35966695 original size:25 final size:25
Alignment explanation
Indices: 35966667--35966719 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
35966657 AAGGTTAAGC
35966667 TTTAATGTATAGTTTATATATGTTA
1 TTTAATGTATAGTTTATATATGTTA
35966692 TTTAATGTATAGTTTATATATGTTA
1 TTTAATGTATAGTTTATATATGTTA
35966717 TTT
1 TTT
35966720 TATAAGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.58
Consensus pattern (25 bp):
TTTAATGTATAGTTTATATATGTTA
Found at i:35968075 original size:50 final size:52
Alignment explanation
Indices: 35967999--35968116 Score: 134
Period size: 50 Copynumber: 2.3 Consensus size: 52
35967989 TAATAAAGTT
*
35967999 ATGCATTATGTAACTTCCATACTAG-TTAAGTATGCATCA-TAAA-TAATGAC
1 ATGCATTATGTAACTCCCATACTAGTTTAAGTATGCATCATTAAATTAA-GAC
** * * *
35968049 ATGCATTATGTAACTCCCATGTTAGTTTAAGTTTGTATCATTAAATTAAGTC
1 ATGCATTATGTAACTCCCATACTAGTTTAAGTATGCATCATTAAATTAAGAC
* *
35968101 TTGCATTAAGTAACTC
1 ATGCATTATGTAACTC
35968117 ATTTGTCATT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
50 22 0.39
51 12 0.21
52 20 0.35
53 3 0.05
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (52 bp):
ATGCATTATGTAACTCCCATACTAGTTTAAGTATGCATCATTAAATTAAGAC
Found at i:35972452 original size:21 final size:22
Alignment explanation
Indices: 35972420--35972463 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
35972410 GAAAAATAAA
**
35972420 TAAATAAAATTTAGTTTAATTC
1 TAAATAAAATTTAAATTAATTC
35972442 TAAAT-AAATTTAAATTAATTC
1 TAAATAAAATTTAAATTAATTC
35972463 T
1 T
35972464 TAATTTGGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (22 bp):
TAAATAAAATTTAAATTAATTC
Found at i:35977045 original size:18 final size:18
Alignment explanation
Indices: 35977024--35977059 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
35977014 AACATTTCAA
*
35977024 TTAAAATGTATGTAAAAT
1 TTAAAAAGTATGTAAAAT
*
35977042 TTAAAAAGTATTTAAAAT
1 TTAAAAAGTATGTAAAAT
35977060 ATAATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TTAAAAAGTATGTAAAAT
Found at i:35977985 original size:45 final size:47
Alignment explanation
Indices: 35977934--35978033 Score: 123
Period size: 49 Copynumber: 2.1 Consensus size: 47
35977924 CATATAGAAC
* * **
35977934 TACACTTCTTTTATTT-TATT-TTAGAATAAGATTTTTCAACCTTAT
1 TACACTTCATCTATTTATATTATTAGAATAAGATGCTTCAACCTTAT
*
35977979 TACACTTCATCTATTTGATATTGATTAGAATAAGGTGCTTCAACCTTAT
1 TACACTTCATCTATTT-ATATT-ATTAGAATAAGATGCTTCAACCTTAT
35978028 TACACT
1 TACACT
35978034 CCTATTAGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
45 14 0.30
47 4 0.09
49 28 0.61
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.46
Consensus pattern (47 bp):
TACACTTCATCTATTTATATTATTAGAATAAGATGCTTCAACCTTAT
Found at i:35980699 original size:42 final size:42
Alignment explanation
Indices: 35980648--35980819 Score: 170
Period size: 42 Copynumber: 4.1 Consensus size: 42
35980638 GCCCGAAGAC
* * *
35980648 TGAACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGGGT
1 TGAATAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGT
* *
35980690 TGAATAGAAGCTCGTAAGAGCTGAACAGGAACCCATAAGGGT
1 TGAATAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGT
* * *
35980732 TAAACTA-AAGCTCAAAAGAGCTGAACGGAAACCCATAAGGGT
1 TGAA-TAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGT
* * * * * *
35980774 TAAACTA-AAGCTAAAAAAAGCTGAA-TGAAAACCCATTAGGGT
1 TGAA-TAGAAGCTCATAAGAGCTGAACAG-AAACCCATAAGGGT
35980816 TGAA
1 TGAA
35980820 CGAAAAATCA
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
41 1 0.01
42 110 0.97
43 2 0.02
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (42 bp):
TGAATAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGT
Found at i:35980728 original size:21 final size:21
Alignment explanation
Indices: 35980633--35980770 Score: 77
Period size: 21 Copynumber: 6.7 Consensus size: 21
35980623 ACATCATTTT
*
35980633 CAGAAGCCC-GAAGA-CTGAA
1 CAGAAGCCCATAAGAGCTGAA
* * *
35980652 CAGAAGCTCATGAGAGCTAAA
1 CAGAAGCCCATAAGAGCTGAA
* * *
35980673 CAGAAACCCATAAGGGTTGAA
1 CAGAAGCCCATAAGAGCTGAA
* * *
35980694 TAGAAGCTCGTAAGAGCTGAA
1 CAGAAGCCCATAAGAGCTGAA
* * *
35980715 CAGGAA-CCCATAAGGGTTAAA
1 CA-GAAGCCCATAAGAGCTGAA
* *
35980736 CTA-AAGCTCAAAAGAGCTGAA
1 C-AGAAGCCCATAAGAGCTGAA
* *
35980757 CGGAAACCCATAAG
1 CAGAAGCCCATAAG
35980771 GGTTAAACTA
Statistics
Matches: 82, Mismatches: 31, Indels: 10
0.67 0.25 0.08
Matches are distributed among these distances:
19 8 0.10
20 5 0.06
21 65 0.79
22 4 0.05
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (21 bp):
CAGAAGCCCATAAGAGCTGAA
Found at i:35981560 original size:18 final size:18
Alignment explanation
Indices: 35981534--35981583 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
35981524 CACTTGATAT
35981534 TAATAATTTATTTCAATA
1 TAATAATTTATTTCAATA
* **
35981552 TATTAATTTA-GACAATA
1 TAATAATTTATTTCAATA
*
35981569 TAAAAATTTATTTCA
1 TAATAATTTATTTCA
35981584 TGCAATTTGG
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (18 bp):
TAATAATTTATTTCAATA
Found at i:35986025 original size:13 final size:14
Alignment explanation
Indices: 35985978--35986042 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
35985968 AATAAATAGG
*
35985978 AATATAATAAATAAT
1 AATATAAT-AGTAAT
*
35985993 AATACAA-AGCTAAT
1 AATATAATAG-TAAT
*
35986007 AGTATAATA-TAAT
1 AATATAATAGTAAT
35986020 AATATAATAGTAAT
1 AATATAATAGTAAT
35986034 GAATA-AATA
1 -AATATAATA
35986043 AGCATAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
13 13 0.32
14 17 0.41
15 11 0.27
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (14 bp):
AATATAATAGTAAT
Found at i:35988260 original size:22 final size:23
Alignment explanation
Indices: 35988211--35988260 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
35988201 CTTTCTTATT
* *
35988211 GTAGTAATTTTTGGGGTATTACA
1 GTAGTAATTTTCGGGATATTACA
35988234 GTAGTAATTTTCGGGATATTACA
1 GTAGTAATTTTCGGGATATTACA
35988257 -TAGT
1 GTAGT
35988261 CCTTTCTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.42
Consensus pattern (23 bp):
GTAGTAATTTTCGGGATATTACA
Found at i:35989227 original size:22 final size:23
Alignment explanation
Indices: 35989176--35989232 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
35989166 CGTGTAACTA
*
35989176 AATTGTGTATA-TTTATATGTTTG
1 AATTGTGAATATTTTATATG-TTG
35989199 AA-T-TGAATATTTTATATG-TG
1 AATTGTGAATATTTTATATGTTG
35989219 AATTGTGAA-ATTTT
1 AATTGTGAATATTTT
35989233 TATTTATATG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
20 4 0.13
21 11 0.37
22 13 0.43
23 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.53
Consensus pattern (23 bp):
AATTGTGAATATTTTATATGTTG
Found at i:35989554 original size:26 final size:25
Alignment explanation
Indices: 35989517--35989586 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 25
35989507 CCCGATATAT
35989517 GGCTCTTCGTGAGCTTCCTAATTAAA
1 GGCTCTT-GTGAGCTTCCTAATTAAA
*
35989543 GGCTCTATGTGAGCTTCCTAATTAAT
1 GGCTCT-TGTGAGCTTCCTAATTAAA
35989569 GGCTCTCTG-GAGCTTCCT
1 GGCTCT-TGTGAGCTTCCT
35989587 GTTATTGGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.22
26 31 0.76
27 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (25 bp):
GGCTCTTGTGAGCTTCCTAATTAAA
Found at i:35989644 original size:25 final size:25
Alignment explanation
Indices: 35989515--35989656 Score: 96
Period size: 25 Copynumber: 5.6 Consensus size: 25
35989505 GTCCCGATAT
* *
35989515 ATGGCTCTTCGTGAGCTTCCTAATTA
1 ATGGCTCTCCG-GAGCTTCCTGATTA
* ** *
35989541 AAGGCTCTATGTGAGCTTCCTAATTA
1 ATGGCTCTCCG-GAGCTTCCTGATTA
*
35989567 ATGGCTCTCTGGAGCTTCCTG-TTA
1 ATGGCTCTCCGGAGCTTCCTGATTA
* * *
35989591 TTGGCTCGCTC-GAACGTTCC-GA-TA
1 ATGGCTCTC-CGGAGC-TTCCTGATTA
*
35989615 TATGGCTATCCGGAGCTTCCTGATTA
1 -ATGGCTCTCCGGAGCTTCCTGATTA
35989641 ATGGCTC-CTCGGAGCT
1 ATGGCTCTC-CGGAGCT
35989657 ACCCGTTATT
Statistics
Matches: 93, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
24 22 0.24
25 37 0.40
26 34 0.37
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (25 bp):
ATGGCTCTCCGGAGCTTCCTGATTA
Found at i:35993868 original size:12 final size:12
Alignment explanation
Indices: 35993851--35993879 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
35993841 AACACAAGAG
35993851 CCGACCCGAGAC
1 CCGACCCGAGAC
35993863 CCGACCCGAGAC
1 CCGACCCGAGAC
35993875 CCGAC
1 CCGAC
35993880 TCGAATGCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.52, G:0.24, T:0.00
Consensus pattern (12 bp):
CCGACCCGAGAC
Found at i:35994304 original size:13 final size:13
Alignment explanation
Indices: 35994286--35994311 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35994276 TGTAATCTAA
35994286 TTTATATTATTTT
1 TTTATATTATTTT
35994299 TTTATATTATTTT
1 TTTATATTATTTT
35994312 ATCTTATCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTATATTATTTT
Found at i:36006331 original size:49 final size:44
Alignment explanation
Indices: 36006223--36006523 Score: 175
Period size: 44 Copynumber: 6.8 Consensus size: 44
36006213 CATCATGGCG
* * *
36006223 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAACCACT
1 AATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAACCACA
* * *
36006267 AATCTTATCCTCCTGAAGTTGTAGTGGGGCAGATTGAAGACGGGCTACA
1 AATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTGAA-AC---C-ACA
* *
36006316 AATCTTATCCCCCTGAAGTTGCAATGGAGCAGACT-AAAGCCACA
1 AATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAA-CCACA
* * * * * * ***
36006360 AA-CATTATCTCTCTGAAGTTGTAGTAGAGTAGGTTGAAGTAACA
1 AATC-TTATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAACCACA
* * * * *
36006404 AACCTTATCCCCCTGAAGTTACAGTAGG-GCAGGTTGAGTA-TACA
1 AATCTTATCCCCCTGAAGTTGCAGT-GGAGCAGATTGA-AACCACA
* * * * * * *
36006448 AGTCTTATCTCCTTAAAG--GCAGTGGAGCAGACTGATGA-TAGCA
1 AATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTGA-AACCA-CA
* *
36006491 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGA
1 AATCTTATCCCCCTGAAGTTGCAGTGGAGCAGA
36006524 CTAAAGCTAT
Statistics
Matches: 197, Mismatches: 45, Indels: 29
0.73 0.17 0.11
Matches are distributed among these distances:
41 2 0.01
42 14 0.07
43 18 0.09
44 107 0.54
45 19 0.10
47 1 0.01
48 4 0.02
49 32 0.16
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
AATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAACCACA
Found at i:36006397 original size:93 final size:93
Alignment explanation
Indices: 36006223--36006398 Score: 223
Period size: 93 Copynumber: 1.9 Consensus size: 93
36006213 CATCATGGCG
* * * * *
36006223 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAACCACTAATCTTATCCTCCTGAAGTTG
1 AATCTTATCCCCCTGAAGTTGCAATGGAGCAGACTGAAACCACTAAACTTATCCTCCTGAAGTTG
* *
36006288 TAGTGGGGCAGATTGAAGACGGGCTACA
66 TAGTAGAGCAGATTGAAGACGGGCTACA
36006316 AATCTTATCCCCCTGAAGTTGCAATGGAGCAGACT-AAAGCCAC-AAACATTAT-CTCTCTGAAG
1 AATCTTATCCCCCTGAAGTTGCAATGGAGCAGACTGAAA-CCACTAAAC-TTATCCTC-CTGAAG
* *
36006378 TTGTAGTAGAGTAGGTTGAAG
63 TTGTAGTAGAGCAGATTGAAG
36006399 TAACAAACCT
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
92 9 0.13
93 62 0.87
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (93 bp):
AATCTTATCCCCCTGAAGTTGCAATGGAGCAGACTGAAACCACTAAACTTATCCTCCTGAAGTTG
TAGTAGAGCAGATTGAAGACGGGCTACA
Found at i:36019993 original size:25 final size:25
Alignment explanation
Indices: 36019965--36020012 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
36019955 AATTCAAATA
*
36019965 AAATAAATTAAA-TTTGTAATAAAAG
1 AAATAAATGAAAGTTT-TAATAAAAG
*
36019990 AAATAGATGAAAGTTTTAATAAA
1 AAATAAATGAAAGTTTTAATAAA
36020013 CAACGAATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.31
Consensus pattern (25 bp):
AAATAAATGAAAGTTTTAATAAAAG
Found at i:36023843 original size:26 final size:26
Alignment explanation
Indices: 36023807--36023857 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
36023797 TTGACAAAAG
36023807 ATGTTTTATTTCCGTGATAATCTTGA
1 ATGTTTTATTTCCGTGATAATCTTGA
36023833 ATGTTTTATTTCCGTGATAATCTTG
1 ATGTTTTATTTCCGTGATAATCTTG
36023858 GTGACTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.51
Consensus pattern (26 bp):
ATGTTTTATTTCCGTGATAATCTTGA
Found at i:36027889 original size:29 final size:29
Alignment explanation
Indices: 36027846--36027911 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 29
36027836 TAAATGACAC
*
36027846 AAAAATATATAAATTA-TAAAAT-TTATTTT
1 AAAAAT-TAAAAATTATTAAAATATT-TTTT
36027875 AAATAATTAAAAATTATTAAAATATTTTTT
1 AAA-AATTAAAAATTATTAAAATATTTTTT
36027905 AAAAATT
1 AAAAATT
36027912 TATATAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 15 0.45
30 16 0.48
31 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
AAAAATTAAAAATTATTAAAATATTTTTT
Found at i:36027893 original size:10 final size:10
Alignment explanation
Indices: 36027856--36027984 Score: 50
Period size: 10 Copynumber: 12.4 Consensus size: 10
36027846 AAAAATATAT
36027856 AAATTA-TAA
1 AAATTATTAA
* **
36027865 AATTTATTTT
1 AAATTATTAA
*
36027875 AAATAATTAA
1 AAATTATTAA
36027885 AAATTATTAA
1 AAATTATTAA
*
36027895 AATATTTTTTAA
1 AA-A-TTATTAA
*
36027907 AAATT-TATAT
1 AAATTAT-TAA
*
36027917 AAATTATGAAAA
1 AAATTAT--TAA
*
36027929 ACAATTTTTTTAA
1 A-AA--TTATTAA
**
36027942 AAA-TACGAA
1 AAATTATTAA
36027951 AAATTATTTAA
1 AAATTA-TTAA
*
36027962 AAA-TATGAA
1 AAATTATTAA
36027971 AAATTATTAA
1 AAATTATTAA
36027981 AAAT
1 AAAT
36027985 ATTTTAGAAA
Statistics
Matches: 87, Mismatches: 21, Indels: 23
0.66 0.16 0.18
Matches are distributed among these distances:
9 18 0.21
10 40 0.46
11 8 0.09
12 13 0.15
13 5 0.06
15 3 0.03
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (10 bp):
AAATTATTAA
Found at i:36027972 original size:19 final size:20
Alignment explanation
Indices: 36027937--36027986 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
36027927 AAACAATTTT
*
36027937 TTTAAAAATACGAAAAATTA
1 TTTAAAAATATGAAAAATTA
36027957 TTTAAAAATATGAAAAATTA
1 TTTAAAAATATGAAAAATTA
36027977 -TTAAAAATAT
1 TTTAAAAATAT
36027987 TTTAGAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (20 bp):
TTTAAAAATATGAAAAATTA
Found at i:36028364 original size:20 final size:19
Alignment explanation
Indices: 36028320--36028380 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
36028310 AAAAAAATGA
* *
36028320 TTTTATATTTTTTTTCATAT
1 TTTTTTATTCTTTTT-ATAT
*
36028340 ATTTTTAGTT-TGTTTTATA-
1 TTTTTTA-TTCT-TTTTATAT
36028359 TTTTTTATTCTTTTTATAT
1 TTTTTTATTCTTTTTATAT
36028378 TTT
1 TTT
36028381 ATAATATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
18 9 0.26
19 10 0.29
20 9 0.26
21 6 0.18
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTTTTATTCTTTTTATAT
Found at i:36028390 original size:18 final size:18
Alignment explanation
Indices: 36028352--36028417 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
36028342 TTTTAGTTTG
* * *
36028352 TTTTATATTTTTTATTCT
1 TTTTATATTTTATAATAT
36028370 TTTTATATTTTATAATAT
1 TTTTATATTTTATAATAT
*
36028388 TTTTAAATTTTATTAA-AT
1 TTTTATATTTTA-TAATAT
36028406 TTTTAATATTTT
1 TTTT-ATATTTT
36028418 TAAAAGTTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
18 32 0.78
19 9 0.22
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTATATTTTATAATAT
Found at i:36028419 original size:9 final size:9
Alignment explanation
Indices: 36028338--36028420 Score: 57
Period size: 9 Copynumber: 9.1 Consensus size: 9
36028328 TTTTTTTCAT
36028338 ATATTTTTA
1 ATATTTTTA
* *
36028347 GT-TTGTTTT
1 ATATT-TTTA
*
36028356 ATATTTTTT
1 ATATTTTTA
*
36028365 AT-TCTTTTT
1 ATAT-TTTTA
36028374 ATATTTTATA
1 ATATTTT-TA
36028384 ATATTTTTA
1 ATATTTTTA
36028393 A-ATTTTATTA
1 ATA-TTT-TTA
36028403 A-ATTTTTA
1 ATATTTTTA
36028411 ATATTTTTA
1 ATATTTTTA
36028420 A
1 A
36028421 AAGTTCTCTA
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
8 8 0.13
9 38 0.61
10 16 0.26
ACGTcount: A:0.29, C:0.01, G:0.02, T:0.67
Consensus pattern (9 bp):
ATATTTTTA
Found at i:36028551 original size:21 final size:21
Alignment explanation
Indices: 36028525--36028573 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
36028515 GCACTTTTCT
*
36028525 ATATTTTT-GTAATATTTTAAA
1 ATATTTTTCATAA-ATTTTAAA
36028546 ATATTTTTCATAAATTTTAAA
1 ATATTTTTCATAAATTTTAAA
36028567 ATTATTT
1 A-TATTT
36028574 ATTTATCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
ATATTTTTCATAAATTTTAAA
Found at i:36031217 original size:46 final size:46
Alignment explanation
Indices: 36031150--36031486 Score: 491
Period size: 46 Copynumber: 7.6 Consensus size: 46
36031140 TTTGAGTACT
* * *
36031150 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
36031196 TCTGATCAAGTGACAAAGTGAT-A-----AG---T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
* * * *
36031232 TTTGATTAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
* *
36031278 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
*
36031324 TCTGATCAAGTGACAAAGTGATAAGTGATAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
36031370 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
36031416 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
*
36031462 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
36031487 ATCATACGTA
Statistics
Matches: 268, Mismatches: 13, Indels: 22
0.88 0.04 0.07
Matches are distributed among these distances:
36 29 0.11
37 2 0.01
40 2 0.01
42 2 0.01
44 12 0.04
45 7 0.03
46 214 0.80
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
Found at i:36032708 original size:21 final size:22
Alignment explanation
Indices: 36032677--36032717 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
36032667 TAGCTTTGAT
36032677 GTTTAGTTGTCTCGAGACAAGG
1 GTTTAGTTGTCTCGAGACAAGG
36032699 GTTTA-TTGTCTCGAGACAA
1 GTTTAGTTGTCTCGAGACAA
36032718 TGCATTATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (22 bp):
GTTTAGTTGTCTCGAGACAAGG
Found at i:36032725 original size:21 final size:21
Alignment explanation
Indices: 36032683--36032730 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
36032673 TGATGTTTAG
**
36032683 TTGTCTCGAGACAAGGGTTTA
1 TTGTCTCGAGACAAGGCATTA
*
36032704 TTGTCTCGAGACAATGCATTA
1 TTGTCTCGAGACAAGGCATTA
36032725 TGTGTC
1 T-TGTC
36032731 AAGCATGTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (21 bp):
TTGTCTCGAGACAAGGCATTA
Found at i:36034243 original size:28 final size:28
Alignment explanation
Indices: 36034212--36034275 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
36034202 AAGGAATAGT
* *
36034212 CTTTGTGGCAAACTCTGAAAAGATTAGC
1 CTTTGTGGCAAACTCTGAAAAGAATAAC
* **
36034240 CTTTGTAGTGAACTCTGAAAAGAATAAC
1 CTTTGTGGCAAACTCTGAAAAGAATAAC
36034268 CTTTGTGG
1 CTTTGTGG
36034276 AAAATTCTAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (28 bp):
CTTTGTGGCAAACTCTGAAAAGAATAAC
Found at i:36042225 original size:18 final size:18
Alignment explanation
Indices: 36042204--36042238 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
36042194 AAATCACAAA
36042204 AAATAAGAAAAAATAATT
1 AAATAAGAAAAAATAATT
36042222 AAATAAGAAAAAATAAT
1 AAATAAGAAAAAATAAT
36042239 ACAAATTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (18 bp):
AAATAAGAAAAAATAATT
Found at i:36045882 original size:17 final size:17
Alignment explanation
Indices: 36045860--36045896 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
36045850 TTGATTTAAA
36045860 TACATGTTAAACATGTC
1 TACATGTTAAACATGTC
36045877 TACATGTTAAACATGTC
1 TACATGTTAAACATGTC
36045894 TAC
1 TAC
36045897 TATTATTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (17 bp):
TACATGTTAAACATGTC
Found at i:36047000 original size:14 final size:15
Alignment explanation
Indices: 36046981--36047009 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36046971 GGTATCAGAG
36046981 CTCGGTATT-CTAAA
1 CTCGGTATTCCTAAA
36046995 CTCGGTATTCCTAAA
1 CTCGGTATTCCTAAA
36047010 AGGGGTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (15 bp):
CTCGGTATTCCTAAA
Found at i:36052227 original size:44 final size:44
Alignment explanation
Indices: 36052179--36052267 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
36052169 ATATCTCAAG
* *
36052179 GTCCATGTTTATAACATGGCAATTAAGGAAGAATTGACGGAAAA
1 GTCCATGTCTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
*
36052223 GTCCATGTCTATAACATGGCAATTAAGAAAGAATTGATGGAAAA
1 GTCCATGTCTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
36052267 G
1 G
36052268 ATCATGGTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (44 bp):
GTCCATGTCTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
Found at i:36052422 original size:50 final size:49
Alignment explanation
Indices: 36052295--36052526 Score: 287
Period size: 50 Copynumber: 4.8 Consensus size: 49
36052285 GCAGTAAGTG
36052295 TGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAG--
1 TGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGAA
* *
36052342 TGCCAATGTAAGACCATGTCTGGGACATGGCATCAGCACAGACCGAGGAA
1 TGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGA-GAA
* * * * *
36052392 TGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGAACGGACAGAGAA
1 TGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGAA
* * * * *
36052441 GAGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTC-GA--GATGAG
1 -TGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGA-GAA
36052489 TGCCAGTGTAA-ACCATGTCTGGGACATGGCATCGGCAC
1 TGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
36052527 CGATATGTGA
Statistics
Matches: 161, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
46 25 0.16
47 55 0.34
48 3 0.02
49 5 0.03
50 73 0.45
ACGTcount: A:0.28, C:0.22, G:0.31, T:0.19
Consensus pattern (49 bp):
TGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGAA
Found at i:36052497 original size:97 final size:96
Alignment explanation
Indices: 36052294--36052521 Score: 282
Period size: 97 Copynumber: 2.4 Consensus size: 96
36052284 GGCAGTAAGT
* * * *
36052294 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGTGCCAATGTAAGACCAT
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGAACAGACAGAGAGCCAATGTAAGACCAT
*
36052359 GTCTGGGACATGGCATCAGCACAGACCGAGGA
66 GTCTAGGACATGGCATCAGCACAGA-CGAGGA
* * * * *
36052391 ATGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGAACGGACAGAGAAGAGTCAGTGTAAGAC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGAACAGAC--AG-AGAGCCAATGTAAGAC
* * *
36052456 CATGTCTAGGACATGGCATCGGCTC-GA-GATGA
63 CATGTCTAGGACATGGCATCAGCACAGACGAGGA
36052488 GTGCCAGTGTAA-ACCATGTCTGGGACATGGCATC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATC
36052522 GGCACCGATA
Statistics
Matches: 113, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
96 22 0.19
97 53 0.47
99 3 0.03
100 35 0.31
ACGTcount: A:0.29, C:0.22, G:0.31, T:0.19
Consensus pattern (96 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGAACAGACAGAGAGCCAATGTAAGACCAT
GTCTAGGACATGGCATCAGCACAGACGAGGA
Found at i:36052566 original size:48 final size:47
Alignment explanation
Indices: 36052297--36052568 Score: 230
Period size: 50 Copynumber: 5.7 Consensus size: 47
36052287 AGTAAGTGTG
* * *
36052297 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGACCGAGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCCGAGA-TGAGTC
* * * * * *
36052344 CCAATGTAAGACCATGTCTGGGACATGGCATCAGCACAGACCGAGGAATG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CCGA--GATGAGTC
* * * *
36052394 CTAGTGTAAGACCATGTCTGGGACATGGCATCAGAACGGACAGAGAAGAGT-
1 CCAGTGTAAGACCATGTCTGGGACATGGCAT-----CGGCCCGAGATGAGTC
* * *
36052445 -CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTCGAGATGAGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCCGAGATGAGTC
* *
36052491 CCAGTGTAA-ACCATGTCTGGGACATGGCATCGGCACCGATATGTGATC
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CCGAGATGAG-TC
* *
36052539 CCA-TGTAAGACCATATCTGGGATATGGCAT
1 CCAGTGTAAGACCATGTCTGGGACATGGCAT
36052569 TGGCGTCCTA
Statistics
Matches: 186, Mismatches: 25, Indels: 27
0.78 0.11 0.11
Matches are distributed among these distances:
45 11 0.06
46 24 0.13
47 53 0.28
48 23 0.12
49 1 0.01
50 61 0.33
51 2 0.01
52 5 0.03
54 4 0.02
55 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (47 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCCGAGATGAGTC
Found at i:36054527 original size:37 final size:38
Alignment explanation
Indices: 36054485--36054557 Score: 105
Period size: 37 Copynumber: 1.9 Consensus size: 38
36054475 ACATTTCAAT
36054485 TTCACTTTTTCACTTTCAA-TCACA-ATTCAATTCAAAA
1 TTCACTTTTTCACTTTCAAGTCA-ATATTCAATTCAAAA
* *
36054522 TTCACTTTTTCATTTTCAAGTCAATATTCATTTCAA
1 TTCACTTTTTCACTTTCAAGTCAATATTCAATTCAA
36054558 TTCCTCACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
37 19 0.59
38 13 0.41
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (38 bp):
TTCACTTTTTCACTTTCAAGTCAATATTCAATTCAAAA
Found at i:36061748 original size:37 final size:36
Alignment explanation
Indices: 36061677--36061749 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 36
36061667 GTCTCCAAAT
* * **
36061677 TCACATTTCAATTCAATTTCACTTTTTTACTTTCAA
1 TCACAATTCAATTCAAATTCACTTTTCCACTTTCAA
*
36061713 TCACAATTCAATTCAAAATTCACTTTTCCATTTTCAA
1 TCACAATTCAATTC-AAATTCACTTTTCCACTTTCAA
36061750 GTCAATATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
36 13 0.42
37 18 0.58
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.45
Consensus pattern (36 bp):
TCACAATTCAATTCAAATTCACTTTTCCACTTTCAA
Found at i:36062126 original size:22 final size:24
Alignment explanation
Indices: 36062083--36062126 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
36062073 TAACTAAGTT
36062083 TACTTACTTTTCTACCTTAATTCA
1 TACTTACTTTTCTACCTTAATTCA
36062107 TACTT-CTTTTCTA-CTTAATT
1 TACTTACTTTTCTACCTTAATT
36062127 TCTTGCCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTACCTTAATTCA
Found at i:36062477 original size:16 final size:16
Alignment explanation
Indices: 36062456--36062487 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
36062446 GTTTTTCCTT
*
36062456 TCTTTCTTTCTCTTTC
1 TCTTTCTCTCTCTTTC
36062472 TCTTTCTCTCTCTTTC
1 TCTTTCTCTCTCTTTC
36062488 CCCTGCTCTA
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:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (16 bp):
TCTTTCTCTCTCTTTC
Found at i:36063696 original size:37 final size:38
Alignment explanation
Indices: 36063654--36063726 Score: 105
Period size: 37 Copynumber: 1.9 Consensus size: 38
36063644 ACATTTCAAT
36063654 TTCACTTTTTCACTTTCAA-TCACA-ATTCAATTCAAAA
1 TTCACTTTTTCACTTTCAAGTCA-ATATTCAATTCAAAA
* *
36063691 TTCACTTTTTCATTTTCAAGTCAATATTCATTTCAA
1 TTCACTTTTTCACTTTCAAGTCAATATTCAATTCAA
36063727 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
37 19 0.59
38 13 0.41
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (38 bp):
TTCACTTTTTCACTTTCAAGTCAATATTCAATTCAAAA
Found at i:36064085 original size:22 final size:24
Alignment explanation
Indices: 36064043--36064086 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
36064033 TAACTAAGTT
*
36064043 TACTTACTTTTCTACCTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
36064067 TACTT-CTTTTC-AACTTAATT
1 TACTTACTTTTCTAACTTAATT
36064087 TCTTGCCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 6 0.32
24 5 0.26
ACGTcount: A:0.25, C:0.23, G:0.00, T:0.52
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:36064576 original size:25 final size:27
Alignment explanation
Indices: 36064542--36064599 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
36064532 AATAAATATC
36064542 TATTTAAACTATTA-T-ATTCTATAAT
1 TATTTAAACTATTATTCATTCTATAAT
*
36064567 TATTTGAACTATTATTTTCATTCTATAAT
1 TATTTAAACTATTA--TTCATTCTATAAT
36064596 TATT
1 TATT
36064600 ACACATGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 13 0.46
28 1 0.04
29 14 0.50
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (27 bp):
TATTTAAACTATTATTCATTCTATAAT
Found at i:36064996 original size:13 final size:13
Alignment explanation
Indices: 36064978--36065003 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36064968 TAAGTTATAT
36064978 GTGTGAAAATTTG
1 GTGTGAAAATTTG
36064991 GTGTGAAAATTTG
1 GTGTGAAAATTTG
36065004 ATAGTTTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (13 bp):
GTGTGAAAATTTG
Found at i:36066740 original size:41 final size:41
Alignment explanation
Indices: 36066681--36066759 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
36066671 AGTTTAAAAC
* *
36066681 CTAGCAGGCTTAAAGCCGGCGAAGTTATTCGGACTTTATGT
1 CTAGCAGGCTTAAAGCCGGCGAAATAATTCGGACTTTATGT
*** *
36066722 CTAGCAGGCTTTGTGCCGGTGAAATAATTCGGACTTTA
1 CTAGCAGGCTTAAAGCCGGCGAAATAATTCGGACTTTA
36066760 AGGGCTAGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (41 bp):
CTAGCAGGCTTAAAGCCGGCGAAATAATTCGGACTTTATGT
Found at i:36066797 original size:13 final size:13
Alignment explanation
Indices: 36066776--36066852 Score: 91
Period size: 13 Copynumber: 5.9 Consensus size: 13
36066766 AGTTCTTCAT
36066776 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
36066789 TGTTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
36066802 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
36066815 TGCTTTTCAGAAG
1 TGCTTTTGAAAAG
*
36066828 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
36066841 TGCTTTTGAAAA
1 TGCTTTTGAAAA
36066853 TTTTGAGTGT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 52 1.00
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:36067493 original size:21 final size:21
Alignment explanation
Indices: 36067469--36067508 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
36067459 TTTGATTCAC
36067469 CGTCATCATCA-CTATCATCGT
1 CGTCATCATCATC-ATCATCGT
*
36067490 CGTCGTCATCATCATCATC
1 CGTCATCATCATCATCATC
36067509 ACTTTCTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.23, C:0.35, G:0.10, T:0.33
Consensus pattern (21 bp):
CGTCATCATCATCATCATCGT
Found at i:36068989 original size:72 final size:72
Alignment explanation
Indices: 36068899--36069072 Score: 201
Period size: 71 Copynumber: 2.4 Consensus size: 72
36068889 AAAATCACAT
** * * *
36068899 ATAAACAACTATCGATAAAACTAATTTAGTA-AAAAATAAGTAGAATATAAATTCAACATCTAAA
1 ATAAACAACTATTAATAAAACTAATTTAGCACAAAAATAAGTAGAACAT-AATTCAACATCCAAA
*
36068963 GACCAAAC
65 AACCAAAC
* * *
36068971 ATAAACAACTTTTAATAAAACTAGA-TTA-CACATAAATAAGTAGAACATAATTCAATATCCAAA
1 ATAAACAACTATTAATAAAACTA-ATTTAGCACAAAAATAAGTAGAACATAATTCAACATCCAAA
36069034 AACCAAAC
65 AACCAAAC
* * *
36069042 ATAAATAACTGTTAATAAAACTAGTTTAGCA
1 ATAAACAACTATTAATAAAACTAATTTAGCA
36069073 TTGTTGTTTA
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
71 45 0.52
72 40 0.47
73 1 0.01
ACGTcount: A:0.54, C:0.14, G:0.06, T:0.25
Consensus pattern (72 bp):
ATAAACAACTATTAATAAAACTAATTTAGCACAAAAATAAGTAGAACATAATTCAACATCCAAAA
ACCAAAC
Found at i:36069057 original size:71 final size:72
Alignment explanation
Indices: 36068932--36069065 Score: 207
Period size: 71 Copynumber: 1.9 Consensus size: 72
36068922 ATTTAGTAAA
* * * *
36068932 AAATAAGTAGAATATAAATTCAACATCTAAAGACCAAACATAAACAACTTTTAATAAAACTAGAT
1 AAATAAGTAGAACATAAATTCAACATCCAAAAACCAAACATAAACAACTGTTAATAAAACTAGAT
36068997 TACACAT
66 TACACAT
* *
36069004 AAATAAGTAGAACAT-AATTCAATATCCAAAAACCAAACATAAATAACTGTTAATAAAACTAG
1 AAATAAGTAGAACATAAATTCAACATCCAAAAACCAAACATAAACAACTGTTAATAAAACTAG
36069066 TTTAGCATTG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
71 42 0.75
72 14 0.25
ACGTcount: A:0.55, C:0.15, G:0.06, T:0.24
Consensus pattern (72 bp):
AAATAAGTAGAACATAAATTCAACATCCAAAAACCAAACATAAACAACTGTTAATAAAACTAGAT
TACACAT
Found at i:36069514 original size:18 final size:18
Alignment explanation
Indices: 36069493--36069558 Score: 96
Period size: 18 Copynumber: 3.7 Consensus size: 18
36069483 TCCATCAATT
* *
36069493 TGAACGTCATTTGAAATG
1 TGAACATCATTTGAAATA
* *
36069511 TGAACATCACTTGAAATT
1 TGAACATCATTTGAAATA
36069529 TGAACATCATTTGAAATA
1 TGAACATCATTTGAAATA
36069547 TGAACATCATTT
1 TGAACATCATTT
36069559 CTCATATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTGAAATA
Found at i:36070935 original size:44 final size:44
Alignment explanation
Indices: 36070873--36071059 Score: 315
Period size: 44 Copynumber: 4.2 Consensus size: 44
36070863 ACGCCTCCTC
*
36070873 CTTTTATC-AATTGCTATCTTCTTCTTTTTCATTTTT-TCCCCTT
1 CTTTTACCTAATTGCTATCTTCTTCTTTTTC-TTTTTGTCCCCTT
36070916 CTTTTACCTAATTGCTATCTTCTTCTTTTTCTTTTTGTCCCCTT
1 CTTTTACCTAATTGCTATCTTCTTCTTTTTCTTTTTGTCCCCTT
36070960 CTTTTACCTAATTGCTATCTTCTTCTTTTTCTTTTTGTCCCCTT
1 CTTTTACCTAATTGCTATCTTCTTCTTTTTCTTTTTGTCCCCTT
**
36071004 CTTTTACCTAATTGCTATCTTCTTCTTTTTCTTATTTCCCCCCTT
1 CTTTTACCTAATTGCTATCTTCTTCTTTTTCTT-TTTGTCCCCTT
36071049 CTTTTACCTAA
1 CTTTTACCTAA
36071060 ATCAGATTGC
Statistics
Matches: 138, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
43 12 0.09
44 106 0.77
45 20 0.14
ACGTcount: A:0.11, C:0.28, G:0.03, T:0.58
Consensus pattern (44 bp):
CTTTTACCTAATTGCTATCTTCTTCTTTTTCTTTTTGTCCCCTT
Found at i:36070939 original size:21 final size:21
Alignment explanation
Indices: 36070913--36071027 Score: 54
Period size: 21 Copynumber: 5.3 Consensus size: 21
36070903 ATTTTTTCCC
36070913 CTTCTTTTACCTAATTGCTAT
1 CTTCTTTTACCTAATTGCTAT
** ** **
36070934 CTTCTTCTTTTTCTTTTTG-TCC
1 CTTC-T-TTTACCTAATTGCTAT
36070956 CCTTCTTTTACCTAATTGCTAT
1 C-TTCTTTTACCTAATTGCTAT
** ** **
36070978 CTTCTTCTTTTTCTTTTTG-TCC
1 CTTC-T-TTTACCTAATTGCTAT
36071000 CCTTCTTTTACCTAATTGCTAT
1 C-TTCTTTTACCTAATTGCTAT
36071022 CTTCTT
1 CTTCTT
36071028 CTTTTTCTTA
Statistics
Matches: 62, Mismatches: 24, Indels: 16
0.61 0.24 0.16
Matches are distributed among these distances:
21 28 0.45
22 12 0.19
23 22 0.35
ACGTcount: A:0.10, C:0.27, G:0.04, T:0.58
Consensus pattern (21 bp):
CTTCTTTTACCTAATTGCTAT
Found at i:36070942 original size:24 final size:24
Alignment explanation
Indices: 36070913--36071032 Score: 94
Period size: 24 Copynumber: 5.3 Consensus size: 24
36070903 ATTTTTTCCC
36070913 CTTCTTTTACCTAATTGCTATCTT
1 CTTCTTTTACCTAATTGCTATCTT
* * * **
36070937 CTTCTTTT-TCT--TT-TTGTCCC
1 CTTCTTTTACCTAATTGCTATCTT
36070957 CTTCTTTTACCTAATTGCTATCTT
1 CTTCTTTTACCTAATTGCTATCTT
* * * **
36070981 CTTCTTTT-TCT--TT-TTGTCCC
1 CTTCTTTTACCTAATTGCTATCTT
36071001 CTTCTTTTACCTAATTGCTATCTT
1 CTTCTTTTACCTAATTGCTATCTT
36071025 CTTCTTTT
1 CTTCTTTT
36071033 TCTTATTTCC
Statistics
Matches: 68, Mismatches: 20, Indels: 16
0.65 0.19 0.15
Matches are distributed among these distances:
20 22 0.32
21 8 0.12
23 8 0.12
24 30 0.44
ACGTcount: A:0.10, C:0.27, G:0.04, T:0.59
Consensus pattern (24 bp):
CTTCTTTTACCTAATTGCTATCTT
Found at i:36072404 original size:19 final size:19
Alignment explanation
Indices: 36072366--36072404 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
36072356 GTGGTGGAGA
*
36072366 AGAGGAACAAAGCACCAGC
1 AGAGGAACAAAGAACCAGC
*
36072385 AGAGGAACAAAGAACTAGC
1 AGAGGAACAAAGAACCAGC
36072404 A
1 A
36072405 CCAGTAGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.21, G:0.26, T:0.03
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:36072435 original size:19 final size:19
Alignment explanation
Indices: 36072408--36072444 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
36072398 ACTAGCACCA
36072408 GTAGAGGAACAAATAACCG
1 GTAGAGGAACAAATAACCG
*
36072427 GTAGGGGAACAAATAACC
1 GTAGAGGAACAAATAACC
36072445 AGCACCAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.16, G:0.27, T:0.11
Consensus pattern (19 bp):
GTAGAGGAACAAATAACCG
Found at i:36072505 original size:19 final size:19
Alignment explanation
Indices: 36072481--36072522 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
36072471 GAACCAGCAC
36072481 CAGCAGAGGATCAAAGAAG
1 CAGCAGAGGATCAAAGAAG
36072500 CAGCAGAGGATCAAAGAAG
1 CAGCAGAGGATCAAAGAAG
36072519 CAGC
1 CAGC
36072523 GATGAGAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.45, C:0.19, G:0.31, T:0.05
Consensus pattern (19 bp):
CAGCAGAGGATCAAAGAAG
Found at i:36072738 original size:30 final size:30
Alignment explanation
Indices: 36072702--36072763 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
36072692 TTTCACCCAA
36072702 AAAGCACTTTTGGGTGTAAAAGTGCTTTTC
1 AAAGCACTTTTGGGTGTAAAAGTGCTTTTC
36072732 AAAGCACTTTTGGGTGTAAAAGTGCTTTTC
1 AAAGCACTTTTGGGTGTAAAAGTGCTTTTC
36072762 AA
1 AA
36072764 CTGGGGCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (30 bp):
AAAGCACTTTTGGGTGTAAAAGTGCTTTTC
Found at i:36073839 original size:2 final size:2
Alignment explanation
Indices: 36073828--36073859 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
36073818 AGTAAGTGAT
36073828 TA TA -A 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 T
36073860 GAAAATGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36076354 original size:51 final size:51
Alignment explanation
Indices: 36076188--36076340 Score: 216
Period size: 51 Copynumber: 3.0 Consensus size: 51
36076178 CCGTGATGAC
* * * *
36076188 GGTATATGGCATAAAATCATAGATGAAAGAGGCTATGATAGTCTAGTATAA
1 GGTATATGGCGTAAAACCATAGATGAAAGAGGCTATAATAGTCTGGTATAA
* * * * *
36076239 GGTATATGGTGTAAGACAATAGATGAAAGAAGCTATAACAGTCTGGTATAA
1 GGTATATGGCGTAAAACCATAGATGAAAGAGGCTATAATAGTCTGGTATAA
*
36076290 GGTATATGGCGTAAAACCATAAATGAAAGAGGCTATAATAGTCTGGTATAA
1 GGTATATGGCGTAAAACCATAGATGAAAGAGGCTATAATAGTCTGGTATAA
36076341 AATACGTAGC
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 87 1.00
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.26
Consensus pattern (51 bp):
GGTATATGGCGTAAAACCATAGATGAAAGAGGCTATAATAGTCTGGTATAA
Found at i:36076367 original size:51 final size:50
Alignment explanation
Indices: 36076188--36076370 Score: 204
Period size: 51 Copynumber: 3.6 Consensus size: 50
36076178 CCGTGATGAC
* * * *
36076188 GGTATATGGCATAAAATCATAGATGAAAGAGGCTATGATAGTCTAGTATAA
1 GGTATATGGCGTAAGA-CATAGATGAAAGAGGCTATAATAGTCTGGTATAA
* * *
36076239 GGTATATGGTGTAAGACAATAGATGAAAGAAGCTATAACAGTCTGGTATAA
1 GGTATATGGCGTAAGAC-ATAGATGAAAGAGGCTATAATAGTCTGGTATAA
* *
36076290 GGTATATGGCGTAAAACCATAAATGAAAGAGGCTATAATAGTCTGGTATAA
1 GGTATATGGCGTAAGA-CATAGATGAAAGAGGCTATAATAGTCTGGTATAA
** ** *
36076341 AATACGTAGCGTAAGAGCATAGATGAAAGA
1 GGTATATGGCGTAAGA-CATAGATGAAAGA
36076371 TACTGTGAGG
Statistics
Matches: 110, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
50 1 0.01
51 108 0.98
52 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.25, T:0.25
Consensus pattern (50 bp):
GGTATATGGCGTAAGACATAGATGAAAGAGGCTATAATAGTCTGGTATAA
Found at i:36084153 original size:31 final size:30
Alignment explanation
Indices: 36084111--36084186 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 30
36084101 ATCTCACATT
*
36084111 CATG-AATTTTGATTTAATGTGTAATTATATA
1 CATGAAATTTTGATTT--TGTGCAATTATATA
* * *
36084142 CGT-AAATTTTGATTTTGTGCAATTTTATT
1 CATGAAATTTTGATTTTGTGCAATTATATA
36084171 CATGAAATTTTGATTT
1 CATGAAATTTTGATTT
36084187 GATCTAATTC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
29 13 0.34
30 12 0.32
31 13 0.34
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.51
Consensus pattern (30 bp):
CATGAAATTTTGATTTTGTGCAATTATATA
Found at i:36084181 original size:30 final size:31
Alignment explanation
Indices: 36084108--36084186 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
36084098 TAAATCTCAC
*
36084108 ATTCATG-AATTTTGATTTAATGTGTAATTAT
1 ATTCATGAAATTTTGATTT-ATGTGCAATTAT
* * *
36084139 ATACGT-AAATTTTGATTT-TGTGCAATTTT
1 ATTCATGAAATTTTGATTTATGTGCAATTAT
36084168 ATTCATGAAATTTTGATTT
1 ATTCATGAAATTTTGATTT
36084187 GATCTAATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 13 0.32
30 12 0.30
31 15 0.38
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.52
Consensus pattern (31 bp):
ATTCATGAAATTTTGATTTATGTGCAATTAT
Found at i:36093610 original size:19 final size:18
Alignment explanation
Indices: 36093565--36093630 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
36093555 ATTTTTATCC
* * *
36093565 TTATAAATTTTAAATATA
1 TTATTAATTTAAAATAAA
*
36093583 TTTTTAATTTAAAATAAAA
1 TTATTAATTTAAAAT-AAA
*
36093602 TTATTAATTAAAAATAAA
1 TTATTAATTTAAAATAAA
36093620 TTA--AATTTAAA
1 TTATTAATTTAAA
36093631 TCAAATACAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
16 7 0.17
18 18 0.45
19 15 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TTATTAATTTAAAATAAA
Found at i:36093889 original size:49 final size:51
Alignment explanation
Indices: 36093822--36093933 Score: 140
Period size: 49 Copynumber: 2.2 Consensus size: 51
36093812 ACAAATTAGC
* * * * * *
36093822 TTCCTAAAACAATTAAAATTATATTATAT-TTAAACAAGTAAAAATATG-AC
1 TTCCTAAAAAAATCAAAATTAAATTATATATT-AACAAATAAAAAAATGAAA
36093872 TT-CTAAAAAAATCAAAATTAAATTATATATTAACAAATAAAAAAATGAAA
1 TTCCTAAAAAAATCAAAATTAAATTATATATTAACAAATAAAAAAATGAAA
36093922 TTCCTAAAAAAA
1 TTCCTAAAAAAA
36093934 ATTAAATTGA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
49 37 0.70
50 7 0.13
51 9 0.17
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.30
Consensus pattern (51 bp):
TTCCTAAAAAAATCAAAATTAAATTATATATTAACAAATAAAAAAATGAAA
Found at i:36093941 original size:51 final size:49
Alignment explanation
Indices: 36093822--36093964 Score: 130
Period size: 49 Copynumber: 2.8 Consensus size: 49
36093812 ACAAATTAGC
* * * * *
36093822 TTCCTAAAACAATTAAAATTATATTATATTTAAACAAGTAAAAATATGAC
1 TTCCTAAAAAAATT-AAATTAAATTATATTTAAACAAATAAAAAAATGAA
*
36093872 TT-CTAAAAAAATCAAAATTAAATTATATATT-AACAAATAAAAAAATGAAA
1 TTCCTAAAAAAAT-TAAATTAAATTATAT-TTAAACAAATAAAAAAATG-AA
* *
36093922 TTCCTAAAAAAAATTAAATTGAAATCTA-ATTAAAATAAATAAA
1 TTCCT-AAAAAAATTAAATT-AAAT-TATATTTAAACAAATAAA
36093965 TAATAATTGT
Statistics
Matches: 76, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
49 36 0.47
50 7 0.09
51 8 0.11
52 23 0.30
53 2 0.03
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.31
Consensus pattern (49 bp):
TTCCTAAAAAAATTAAATTAAATTATATTTAAACAAATAAAAAAATGAA
Found at i:36094800 original size:23 final size:23
Alignment explanation
Indices: 36094766--36094828 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 23
36094756 AAATACTTTA
*
36094766 ATTTAAATTATACATGTATATGT
1 ATTTAAATTATACATATATATGT
* *
36094789 ATTTACAA-TATATATATATATAT
1 ATTTA-AATTATACATATATATGT
* *
36094812 ATAT-AAGTATACATATA
1 ATTTAAATTATACATATA
36094829 AAAAAAAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
21 2 0.06
22 9 0.27
23 20 0.61
24 2 0.06
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (23 bp):
ATTTAAATTATACATATATATGT
Found at i:36096998 original size:42 final size:42
Alignment explanation
Indices: 36096951--36097134 Score: 282
Period size: 42 Copynumber: 4.4 Consensus size: 42
36096941 CACTGCCTAT
36096951 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* *
36096993 CAGGCTTAATGCCGGTGAAATAATTTCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
*
36097035 CAGGCTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* * * *
36097077 CAGGCTTAATGCTGGTGAAAC-ATTTCAGACTATATGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
36097118 CAGGC-TAAGTGCCGGTG
1 CAGGCTTAA-TGCCGGTG
36097135 TACTGAATCA
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
40 3 0.02
41 29 0.22
42 98 0.75
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (42 bp):
CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
Found at i:36101622 original size:44 final size:44
Alignment explanation
Indices: 36101547--36101657 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 44
36101537 CTGCTCTCTG
* * * *
36101547 CAACTTCAGAGAGATAAGATCT-GTGGTTTTAATCCGCTCCACTA
1 CAACTTCAGGGAGATAAGAT-TATTGGCTTTAATCCACTCCACTA
* * * *
36101591 CAACTTCGGGGAGATAGGATTATTGGCTTTAATCTACTCCACTG
1 CAACTTCAGGGAGATAAGATTATTGGCTTTAATCCACTCCACTA
36101635 CAACTTCAGGGAGATAAGATTAT
1 CAACTTCAGGGAGATAAGATTAT
36101658 CAATCTTCAA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 1 0.02
44 55 0.98
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATTATTGGCTTTAATCCACTCCACTA
Found at i:36101734 original size:44 final size:44
Alignment explanation
Indices: 36101641--36101740 Score: 123
Period size: 44 Copynumber: 2.3 Consensus size: 44
36101631 ACTGCAACTT
* **
36101641 CAGGGAGATAAGATTATCAATCTTCAACCTATTCCCCTGTTGAA
1 CAGGGAGATAAGATTATCAATCTTCAACCTATTCCACTACTGAA
* *
36101685 TAGGGAGATAGGATTCA-CAATCTTCAACCTATTCCACTACT-AA
1 CAGGGAGATAAGATT-ATCAATCTTCAACCTATTCCACTACTGAA
36101728 CCAGGGAGATAAG
1 -CAGGGAGATAAG
36101741 GCTGGATGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
43 2 0.04
44 44 0.94
45 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (44 bp):
CAGGGAGATAAGATTATCAATCTTCAACCTATTCCACTACTGAA
Found at i:36101898 original size:88 final size:88
Alignment explanation
Indices: 36101778--36102584 Score: 865
Period size: 88 Copynumber: 9.2 Consensus size: 88
36101768 TTAGGGAGAT
* * * * *
36101778 AAGATCTG-TAATCTTTAACCTGCTCCACTGCCACTGAGGGAGGCAAGGCTAGTGTCTTCGATCT
1 AAGATCTGCT-ATTTTTAACCTGCTCCGCTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCT
* * *
36101842 GCTTCACTGTTAGTACAGGAAGGC
65 GCTTCGCTGTTGGTGCAGGAAGGC
* * * * * *
36101866 AAGATCTGCTATCTTTAACCTACTCCGTTGCCAC-CGAGGGAGGCAAGGTTAGTGTCTTCGATCT
1 AAGATCTGCTATTTTTAACCTGCTCCGCTGCAACTC-AGGGAGGCAAGGCTGGTGTCTTCGATCT
* * ** * * * **
36101930 ACTCCGCTACTGCT-TAGGGAGAT
65 GCTTCGCTGTTGGTGCAGGAAGGC
* * * ** ** * *
36101953 AAGATCTG-TAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGAGTCTTCGATCT
1 AAGATCTGCT-ATTTTTAACCTGCTCCGCTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCT
* ** *
36102017 GCTTCGCTGTCGACGTAGGAAGGC
65 GCTTCGCTGTTGGTGCAGGAAGGC
* *
36102041 AAGATCTGCTATTTTTAACCTGCTCCGCTGAAAC-CTAGGGAGGCAAGGCTGATGTCTTCGATCT
1 AAGATCTGCTATTTTTAACCTGCTCCGCTGCAACTC-AGGGAGGCAAGGCTGGTGTCTTCGATCT
* * *
36102105 GCTTCGCTGTCGGCGCAGGAATGC
65 GCTTCGCTGTTGGTGCAGGAAGGC
* * *
36102129 AAGATCTGCTATTTTTAACCTGCTCTGCTGCAACCCAGGGAGGCAAGGCTGGCGTCTTCGATCTG
1 AAGATCTGCTATTTTTAACCTGCTCCGCTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* * ** *
36102194 CTTCGCTATCGACGTAGGAAGGC
66 CTTCGCTGTTGGTGCAGGAAGGC
* * * * ** **
36102217 AAGATTTACTA-TTTTAATCTGCTCTGCTGCAA-TCCAGAAAGGCAAGGCTGGTGTCTTTAATCT
1 AAGATCTGCTATTTTTAACCTGCTCCGCTGCAACT-CAGGGAGGCAAGGCTGGTGTCTTCGATCT
* *
36102280 GTTTCGCTGTTGGCGCAGGAAGGC
65 GCTTCGCTGTTGGTGCAGGAAGGC
* * *
36102304 AAGATCTGCTATTTTTAACTTGCTCCGCTGGAAACT-AGGGAGGCAAGGCTGGTGTCTTCAATCT
1 AAGATCTGCTATTTTTAACCTGCTCCGCT-GCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCT
* **
36102368 GCTTCGCTGTCGGCACAGGAAGGC
65 GCTTCGCTGTTGGTGCAGGAAGGC
*
36102392 AAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
1 AAGATCTGCTATTTTTAACCTGCTCCGCTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* *
36102457 CTTTGCTGTCGGTGCAGGAAGGC
66 CTTCGCTGTTGGTGCAGGAAGGC
* *
36102480 AAGATCTGCTATTTTTAACCTGTTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
1 AAGATCTGCTATTTTTAACCTGCTCCGCTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
*
36102545 CTTCGCTGTCGGTGCAGGAAGGC
66 CTTCGCTGTTGGTGCAGGAAGGC
36102568 AAGATCTGCTATTTTTA
1 AAGATCTGCTATTTTTA
36102585 CCGATCTGCT
Statistics
Matches: 613, Mismatches: 93, Indels: 26
0.84 0.13 0.04
Matches are distributed among these distances:
86 1 0.00
87 139 0.23
88 466 0.76
89 6 0.01
90 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (88 bp):
AAGATCTGCTATTTTTAACCTGCTCCGCTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
CTTCGCTGTTGGTGCAGGAAGGC
Found at i:36102010 original size:87 final size:86
Alignment explanation
Indices: 36101749--36102016 Score: 247
Period size: 88 Copynumber: 3.1 Consensus size: 86
36101739 AGGCTGGATG
* * * * *
36101749 CGATCCACTCCACTACTGTTTAGGGAGATAAGATCTGTAATCTTTAACCTGCTCCACTGCCACTG
1 CGATCTACTCCGCTACTGCTTAGGGAGATAAGATCTGTAATCTTTAACCTACTCCACTGCCAC-C
*
36101814 AGGGAGGCAAGGCTAGTGTCTT
65 AGGGAGACAAGGCTAGTGTCTT
* * * * * ** **
36101836 CGATCTGCTTCACTGTTAGTAC--AGGAAGGCAAGATCTGCT-ATCTTTAACCTACTCCGTTGCC
1 CGATCTAC-TC-C-GCTACTGCTTAGGGAGATAAGATCTG-TAATCTTTAACCTACTCCACTGCC
* *
36101898 ACCGAGGGAGGCAAGGTTAGTGTCTT
62 ACC-AGGGAGACAAGGCTAGTGTCTT
**
36101924 CGATCTACTCCGCTACTGCTTAGGGAGATAAGATCTGTAAT-TTTCAACCTACTCCACTGCTGCT
1 CGATCTACTCCGCTACTGCTTAGGGAGATAAGATCTGTAATCTTT-AACCTACTCCACTGCCAC-
* *
36101988 CAGGGAGATAAGGCTAGAGTCTT
64 CAGGGAGACAAGGCTAGTGTCTT
36102011 CGATCT
1 CGATCT
36102017 GCTTCGCTGT
Statistics
Matches: 141, Mismatches: 30, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
85 5 0.04
86 5 0.04
87 61 0.43
88 65 0.46
89 2 0.01
90 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (86 bp):
CGATCTACTCCGCTACTGCTTAGGGAGATAAGATCTGTAATCTTTAACCTACTCCACTGCCACCA
GGGAGACAAGGCTAGTGTCTT
Found at i:36102148 original size:263 final size:259
Alignment explanation
Indices: 36101778--36102584 Score: 919
Period size: 263 Copynumber: 3.1 Consensus size: 259
36101768 TTAGGGAGAT
* * **
36101778 AAGATCTG-TAATCTTTAACCTGCTCCACTGCCACTGAGGGAGGCAAGGCT-AGTGTCTTCGATC
1 AAGATCTGCT-ATTTTTAACCTGCTCCGCTGAAACT-AGGGAGGCAAGGCTGA-TGTCTTCGATC
* ** * * * * * *
36101841 TGCTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTACTCCGTTGCCACCGAGGG
63 TGCTTCGCTGTCGGCACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGG
* * * * * **
36101906 AGGCAAGGTTAGTGTCTTCGATCTACTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTCAA
128 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTACTGC-TAGGAAGGCAAGATCTGTAATTTT-AA
** * * * *
36101971 CCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGAGTCTTCGATCTGCTTCGCTGTCGACGTAGG
191 CCT-CTCCACTGCTGCTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGCGCAGG
36102036 AAGGC
255 AAGGC
36102041 AAGATCTGCTATTTTTAACCTGCTCCGCTGAAACCTAGGGAGGCAAGGCTGATGTCTTCGATCTG
1 AAGATCTGCTATTTTTAACCTGCTCCGCTGAAA-CTAGGGAGGCAAGGCTGATGTCTTCGATCTG
* * *
36102106 CTTCGCTGTCGGCGCAGGAATGCAAGATCTGCTATTTTTAACCTGCTCTGCTGCAACCCAGGGAG
65 CTTCGCTGTCGGCACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAG
*
36102171 GCAAGGCTGGCGTCTTCGATCTGCTTCGCTA-TCGACGTAGGAAGGCAAGAT-T-TACTATTTTA
130 GCAAGGCTGGTGTCTTCGATCTGCTTCGCTACT-G-C-TAGGAAGGCAAGATCTGTA--ATTTTA
* * ** ** * *
36102233 A--TCTGCTCTGCTGCAATCCAGAAAGGCAAGGCTGGTGTCTTTAATCTGTTTCGCTGTTGGCGC
190 ACCTCTCCACTGCTGC--T-CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGCGC
36102296 AGGAAGGC
252 AGGAAGGC
* * *
36102304 AAGATCTGCTATTTTTAACTTGCTCCGCTGGAAACTAGGGAGGCAAGGCTGGTGTCTTCAATCTG
1 AAGATCTGCTATTTTTAACCTGCTCCGCT-GAAACTAGGGAGGCAAGGCTGATGTCTTCGATCTG
36102369 CTTCGCTGTCGGCACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAG
65 CTTCGCTGTCGGCACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAG
* * *
36102434 GCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCGGTGC-AGGAAGGCAAGATCTGCTATTTTTAA
130 GCAAGGCTGGTGTCTTCGATCTGCTTCGCT-AC--TGCTAGGAAGGCAAGATCTG-TAATTTTAA
* * ** * *
36102498 CCTGTTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGG
191 CCT-CTCCACTGCTGCTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGCGCAGG
36102563 AAGGC
255 AAGGC
36102568 AAGATCTGCTATTTTTA
1 AAGATCTGCTATTTTTA
36102585 CCGATCTGCT
Statistics
Matches: 461, Mismatches: 62, Indels: 41
0.82 0.11 0.07
Matches are distributed among these distances:
260 10 0.02
261 1 0.00
262 4 0.01
263 338 0.73
264 95 0.21
265 1 0.00
266 4 0.01
267 8 0.02
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (259 bp):
AAGATCTGCTATTTTTAACCTGCTCCGCTGAAACTAGGGAGGCAAGGCTGATGTCTTCGATCTGC
TTCGCTGTCGGCACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGG
CAAGGCTGGTGTCTTCGATCTGCTTCGCTACTGCTAGGAAGGCAAGATCTGTAATTTTAACCTCT
CCACTGCTGCTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGC
Found at i:36102348 original size:44 final size:43
Alignment explanation
Indices: 36102295--36102438 Score: 112
Period size: 44 Copynumber: 3.3 Consensus size: 43
36102285 GCTGTTGGCG
*
36102295 CAGGAAGGCAAGATCTGCTATTTTTAACTTGCTCCGCTGGAAA
1 CAGGGAGGCAAGATCTGCTATTTTTAACTTGCTCCGCTGGAAA
* * * * * * **
36102338 CTAGGGAGGCAAG-GCTGGTGTCTTCAA-TCTGCTTCGCTGTCGGCA
1 C-AGGGAGGCAAGATCTGCTATTTTTAACT-TGCTCCGCTG--GAAA
* * * *
36102383 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGGAGGCAAGATCTGCTATTTTTAACTTGCTCCGCTGGAA-A
36102427 CAGGGAGGCAAG
1 CAGGGAGGCAAG
36102439 GCTGGTGTCT
Statistics
Matches: 72, Mismatches: 22, Indels: 13
0.67 0.21 0.12
Matches are distributed among these distances:
42 1 0.01
43 19 0.26
44 31 0.43
45 21 0.29
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (43 bp):
CAGGGAGGCAAGATCTGCTATTTTTAACTTGCTCCGCTGGAAA
Found at i:36102480 original size:44 final size:44
Alignment explanation
Indices: 36102344--36102570 Score: 145
Period size: 44 Copynumber: 5.2 Consensus size: 44
36102334 GAAACTAGGG
* **
36102344 AGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCGGCACAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
* * * * ** * * **** *
36102388 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCCAGGG
1 AGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
*
36102432 AGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCGGTGCAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
* * * * ** * **** *
36102476 AGGCAAGATCTGCTATTTTTAACCTG-TTCCGCTG-CAACCCAGGG
1 AGGCAAG-GCTGGTGTCTTCGATCTGCTT-CGCTGTCGGTGCAGGA
36102520 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
36102564 AGGCAAG
1 AGGCAAG
36102571 ATCTGCTATT
Statistics
Matches: 127, Mismatches: 50, Indels: 12
0.67 0.26 0.06
Matches are distributed among these distances:
43 33 0.26
44 60 0.47
45 34 0.27
ACGTcount: A:0.19, C:0.25, G:0.30, T:0.26
Consensus pattern (44 bp):
AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
Done.