Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 206 of 226
Found at i:65084474 original size:51 final size:51
Alignment explanation
Indices: 65084406--65084536 Score: 183
Period size: 51 Copynumber: 2.6 Consensus size: 51
65084396 GATAGGTCGC
* *
65084406 ATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-TTCGATCAC
1 ATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAAT-GATCAA
* * * * *
65084457 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTAATGGTCAA
1 ATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGATCAA
65084508 ATGTGTAGTACTATGTGCAGGCTACTATG
1 ATGTGTAGTACTATGTGCAGGCTACTATG
65084537 TGAACTGAAC
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
51 69 0.99
52 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
ATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGATCAA
Found at i:65084596 original size:45 final size:45
Alignment explanation
Indices: 65084545--65084631 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
65084535 TGTGAACTGA
* *
65084545 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
65084590 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
65084632 TGAGTATCTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:65085046 original size:11 final size:10
Alignment explanation
Indices: 65085015--65085045 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
65085005 CCCTGTTCTG
65085015 AATT-TAAAA
1 AATTGTAAAA
65085024 AATTGTAAAA
1 AATTGTAAAA
65085034 AATTGTAAAA
1 AATTGTAAAA
65085044 AA
1 AA
65085046 ACTAATTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.19
10 17 0.81
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (10 bp):
AATTGTAAAA
Found at i:65087055 original size:10 final size:10
Alignment explanation
Indices: 65087040--65087078 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
65087030 TAAACTTGAT
65087040 CAAAACATAC
1 CAAAACATAC
*
65087050 CAAAACATGC
1 CAAAACATAC
*
65087060 CAAAACATGC
1 CAAAACATAC
65087070 CAAAACATA
1 CAAAACATA
65087079 TCATATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.56, C:0.28, G:0.05, T:0.10
Consensus pattern (10 bp):
CAAAACATAC
Found at i:65087065 original size:20 final size:20
Alignment explanation
Indices: 65087040--65087077 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
65087030 TAAACTTGAT
65087040 CAAAACATACCAAAACATGC
1 CAAAACATACCAAAACATGC
*
65087060 CAAAACATGCCAAAACAT
1 CAAAACATACCAAAACAT
65087078 ATCATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.29, G:0.05, T:0.11
Consensus pattern (20 bp):
CAAAACATACCAAAACATGC
Found at i:65087370 original size:50 final size:49
Alignment explanation
Indices: 65087295--65087406 Score: 181
Period size: 50 Copynumber: 2.2 Consensus size: 49
65087285 CATTCAAAAT
*
65087295 TAACCATTTAAGAGTGTCAAACACTTAACAAGAGACATATACATATCATA
1 TAACCA-TTAAGAGTGTCAAACACTTAACAAGACACATATACATATCATA
65087345 TAACCATTCAAGAGCT-TCAAACACTTAACAAGACACATATACATATCATA
1 TAACCATT-AAGAG-TGTCAAACACTTAACAAGACACATATACATATCATA
65087395 TAACCATTAAGA
1 TAACCATTAAGA
65087407 ACAAGGTATT
Statistics
Matches: 59, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
49 6 0.10
50 52 0.88
51 1 0.02
ACGTcount: A:0.46, C:0.21, G:0.08, T:0.25
Consensus pattern (49 bp):
TAACCATTAAGAGTGTCAAACACTTAACAAGACACATATACATATCATA
Found at i:65087785 original size:15 final size:14
Alignment explanation
Indices: 65087759--65087788 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
65087749 ATATAACTAT
65087759 CAATTCATTCAGTA
1 CAATTCATTCAGTA
65087773 CAATTCAATTCAGTA
1 CAATTC-ATTCAGTA
65087788 C
1 C
65087789 CATTTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (14 bp):
CAATTCATTCAGTA
Found at i:65088025 original size:22 final size:22
Alignment explanation
Indices: 65087991--65088045 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
65087981 GCTTTAACAA
* *
65087991 TAGACACCAAAGTGCTGAGT-AG
1 TAGACACCGAAGTGC-GAATCAG
*
65088013 TAGGCACCGAAGTGCGAATCAG
1 TAGACACCGAAGTGCGAATCAG
65088035 TAGACACCGAA
1 TAGACACCGAA
65088046 ATGCAAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 3 0.11
22 25 0.89
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.15
Consensus pattern (22 bp):
TAGACACCGAAGTGCGAATCAG
Found at i:65090888 original size:29 final size:29
Alignment explanation
Indices: 65090853--65090910 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
65090843 ACAAATGTTT
*
65090853 ACTAAAAATATTTACAAGCTCAGTTTACA
1 ACTAAAAATAATTACAAGCTCAGTTTACA
65090882 ACTAAAAATAATTACAAGCTCAGTTTACA
1 ACTAAAAATAATTACAAGCTCAGTTTACA
65090911 TAAACAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.29
Consensus pattern (29 bp):
ACTAAAAATAATTACAAGCTCAGTTTACA
Found at i:65092409 original size:16 final size:16
Alignment explanation
Indices: 65092388--65092423 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
65092378 TTTGGTTCGC
65092388 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
65092404 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
65092420 TGTA
1 TGTA
65092424 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:65092680 original size:18 final size:17
Alignment explanation
Indices: 65092659--65092693 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
65092649 TTATTACTAA
*
65092659 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
65092677 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
65092694 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:65092793 original size:67 final size:67
Alignment explanation
Indices: 65092585--65092797 Score: 152
Period size: 67 Copynumber: 3.1 Consensus size: 67
65092575 ATTGTTATTG
* * *
65092585 TTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAAT
65092650 TA
66 TA
* * * * ** ***
65092652 TTACTAAATATATTTTAATTAA-AATATATAAT-TTAAT-A-AAATTCTTATAAT--TAGCAGAA
1 TTA-T--TTAAATTTTAA-TAAGATTAT-TAATATCAATAATAAATAATT-TAATCATA-TTTAA
** * *
65092711 ATTTGTTATTG
59 A--CATAATTA
65092722 TTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAAT
65092787 TA
66 TA
65092789 TTA-TTAAAT
1 TTATTTAAAT
65092798 ACATTATAAT
Statistics
Matches: 103, Mismatches: 28, Indels: 31
0.64 0.17 0.19
Matches are distributed among these distances:
66 13 0.13
67 29 0.28
68 15 0.15
69 15 0.15
70 25 0.24
71 6 0.06
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (67 bp):
TTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAAT
TA
Found at i:65092822 original size:137 final size:138
Alignment explanation
Indices: 65092576--65092841 Score: 435
Period size: 137 Copynumber: 1.9 Consensus size: 138
65092566 TAAATGATTA
* * *
65092576 TTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTT
1 TTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
* *
65092641 AAACATAATTATTACTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTT-ATAATTA
66 AAACATAATTATTACTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
65092705 GCAGAAAT
131 GCAGAAAT
65092713 TTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
1 TTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
* ****
65092778 AAACATAATTATTATTAAATACATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT
66 AAACATAATTATTACTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
65092842 CATATTCTTA
Statistics
Matches: 118, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
137 112 0.95
138 6 0.05
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (138 bp):
TTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
AAACATAATTATTACTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
GCAGAAAT
Found at i:65092875 original size:137 final size:135
Alignment explanation
Indices: 65092579--65092875 Score: 330
Period size: 137 Copynumber: 2.2 Consensus size: 135
65092569 ATGATTATTG
* * ** * * *
65092579 TTATTGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAA
1 TTATTGTTACTCAAATCATAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAA
* *
65092644 CATAATTATTACTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAGCAG
66 CATAATTATTACTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTA-CA-
*
65092709 AAATTTG
129 AAATTTC
* * **
65092716 TTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAA
1 TTATTGTTACTCAAATCATAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAA
* ****
65092781 CATAATTATTATTAAATACATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT-C-A
66 CATAATTATTACTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTT-ATAATTACAA
*
65092844 TA-TTC
130 AATTTC
65092849 TTATATGAATTTACTCAAATCATAATA
1 TTAT-TG---TTACTCAAATCATAATA
65092876 TATGATAAAT
Statistics
Matches: 139, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
133 6 0.04
134 4 0.03
136 1 0.01
137 122 0.88
138 6 0.04
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.46
Consensus pattern (135 bp):
TTATTGTTACTCAAATCATAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAA
CATAATTATTACTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTACAAA
ATTTC
Found at i:65099392 original size:13 final size:13
Alignment explanation
Indices: 65099374--65099399 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65099364 CAGATAAACT
65099374 GAAACAGAAGGAA
1 GAAACAGAAGGAA
65099387 GAAACAGAAGGAA
1 GAAACAGAAGGAA
65099400 CGCCAGCTAA
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:0.62, C:0.08, G:0.31, T:0.00
Consensus pattern (13 bp):
GAAACAGAAGGAA
Found at i:65099431 original size:13 final size:13
Alignment explanation
Indices: 65099413--65099438 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65099403 CAGCTAAACT
65099413 GAAACAGAAGGAA
1 GAAACAGAAGGAA
65099426 GAAACAGAAGGAA
1 GAAACAGAAGGAA
65099439 AGGGGAAGCC
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:0.62, C:0.08, G:0.31, T:0.00
Consensus pattern (13 bp):
GAAACAGAAGGAA
Found at i:65100673 original size:3 final size:3
Alignment explanation
Indices: 65100665--65100714 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
65100655 AATATTATCT
* * *
65100665 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG CTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
65100713 TT
1 TT
65100715 GGAATTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:65113897 original size:15 final size:15
Alignment explanation
Indices: 65113858--65113923 Score: 82
Period size: 15 Copynumber: 4.5 Consensus size: 15
65113848 GTTCAGATTC
65113858 AAAAAAAGAAAAA-A
1 AAAAAAAGAAAAAGA
* *
65113872 GAAGAAA-AAAAAGA
1 AAAAAAAGAAAAAGA
65113886 AAAAAAAGAAAAAGA
1 AAAAAAAGAAAAAGA
* *
65113901 AGAAAAAGGAAAAGA
1 AAAAAAAGAAAAAGA
65113916 AAAAAAAG
1 AAAAAAAG
65113924 GAAGGAGAGG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
13 5 0.12
14 11 0.26
15 27 0.63
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAGA
Found at i:65113922 original size:9 final size:9
Alignment explanation
Indices: 65113858--65113923 Score: 87
Period size: 9 Copynumber: 6.9 Consensus size: 9
65113848 GTTCAGATTC
65113858 AAAAAAAGA
1 AAAAAAAGA
65113867 AAAAAGAAGA
1 AAAAA-AAGA
65113877 AAAAAAAGA
1 AAAAAAAGA
65113886 AAAAAAAGA
1 AAAAAAAGA
*
65113895 AAAAGAAGAA
1 AAAAAAAG-A
65113905 AAAGGAAAAGA
1 AAA--AAAAGA
65113916 AAAAAAAG
1 AAAAAAAG
65113924 GAAGGAGAGG
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
9 30 0.59
10 13 0.25
11 4 0.08
12 4 0.08
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:65115219 original size:44 final size:44
Alignment explanation
Indices: 65115169--65115314 Score: 184
Period size: 44 Copynumber: 3.3 Consensus size: 44
65115159 AGATTCTAAA
*
65115169 TCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGACTGTAAG
* * ** * *
65115213 TCCTAGCTCCCTAAACAGTAGTGGAATAGGCAGAAGATTGTAAA
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGACTGTAAG
** * * *
65115257 TCCTAGCTCATTGATCAGCGGTGGAATAGGTGGAAGACTTTAAG
1 TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGACTGTAAG
65115301 TCCTAGCTCCCTGA
1 TCCTAGCTCCCTGA
65115315 GTAGTAGTGG
Statistics
Matches: 82, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 82 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (44 bp):
TCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGACTGTAAG
Found at i:65115338 original size:88 final size:88
Alignment explanation
Indices: 65115157--65115330 Score: 249
Period size: 88 Copynumber: 2.0 Consensus size: 88
65115147 AAAAAACGGG
*
65115157 GAAGATTCTAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAAGTCCTAGCTC
1 GAAGATTCTAAATCCTAGCTCACTGACCAGCAGTGGAATAGGTGGAAGACTGTAAGTCCTAGCTC
*
65115222 CCTAAACAGTAGTGGAATAGGCA
66 CCTAAACAGTAGTGGAACAGGCA
* * * * *
65115245 GAAGATTGTAAATCCTAGCTCATTGATCAGCGGTGGAATAGGTGGAAGACTTTAAGTCCTAGCTC
1 GAAGATTCTAAATCCTAGCTCACTGACCAGCAGTGGAATAGGTGGAAGACTGTAAGTCCTAGCTC
* ** *
65115310 CCTGAGTAGTAGTGGAGCAGG
66 CCTAAACAGTAGTGGAACAGG
65115331 TTGAAGATAG
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (88 bp):
GAAGATTCTAAATCCTAGCTCACTGACCAGCAGTGGAATAGGTGGAAGACTGTAAGTCCTAGCTC
CCTAAACAGTAGTGGAACAGGCA
Found at i:65115399 original size:88 final size:88
Alignment explanation
Indices: 65115307--65115470 Score: 251
Period size: 88 Copynumber: 1.9 Consensus size: 88
65115297 TAAGTCCTAG
* * *
65115307 CTCCCT-GAGTAGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCTTGCATCGACAGC-GA
1 CTCCCTCG-GTAGTAGTCGAGCAGGTTGAAGATAGCAGATCTTGCCCTCCTGCATCGACAGCAG-
*
65115370 AGTAGATTGAAGACACAAGCCTTGC
64 AGCAGATTGAAGACACAAGCCTTGC
*
65115395 CTCCCTCGGTTGTAGTCGAGCAGGTTGAAGATAGCAGATCTTGCCCTCCTGCATCGACAGCAGAG
1 CTCCCTCGGTAGTAGTCGAGCAGGTTGAAGATAGCAGATCTTGCCCTCCTGCATCGACAGCAGAG
65115460 CAGATTGAAGA
66 CAGATTGAAGA
65115471 TGGCAGATTT
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
88 67 0.97
89 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (88 bp):
CTCCCTCGGTAGTAGTCGAGCAGGTTGAAGATAGCAGATCTTGCCCTCCTGCATCGACAGCAGAG
CAGATTGAAGACACAAGCCTTGC
Found at i:65115461 original size:45 final size:44
Alignment explanation
Indices: 65115324--65115478 Score: 122
Period size: 45 Copynumber: 3.5 Consensus size: 44
65115314 AGTAGTAGTG
* * *
65115324 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCTTGCATCGACAGC
1 GAGCAGATTGAAGATAGCAGATCTTGCCCTCCTGCATCGACAGC
* * * * * *
65115368 GAAGTAGATTGAAGACA-CA-AGCCTTG-CCTCCCT-CGGTTG-TAGTC
1 G-AGCAGATTGAAGATAGCAGA-TCTTGCCCT-CCTGC-ATCGACAG-C
*
65115412 GAGCAGGTTGAAGATAGCAGATCTTGCCCTCCTGCATCGACAGC
1 GAGCAGATTGAAGATAGCAGATCTTGCCCTCCTGCATCGACAGC
*
65115456 AGAGCAGATTGAAGATGGCAGAT
1 -GAGCAGATTGAAGATAGCAGAT
65115479 TTTACCTCCC
Statistics
Matches: 82, Mismatches: 18, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
43 18 0.22
44 25 0.30
45 39 0.48
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (44 bp):
GAGCAGATTGAAGATAGCAGATCTTGCCCTCCTGCATCGACAGC
Found at i:65115896 original size:258 final size:258
Alignment explanation
Indices: 65115457--65116435 Score: 1445
Period size: 258 Copynumber: 3.8 Consensus size: 258
65115447 ATCGACAGCA
* * *
65115457 GAGCAGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCC-GAAA
1 GAGCAGATTGAAGATGGCAGACTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAG-TA
* *** *
65115521 ATTCTATCTCCCTAGTTGGCAGTAGAATAGATTGAAGATT-CAGATCTTATCTCCC--A--A--A
65 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTA
*
65115579 GTGGAGCAGATTGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAG
130 GTGGAGCAGATCGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAG
65115644 TAATTCTATCTCTCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGTG
195 TAATTCTATCTCTCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGTG
65115708 GAGCAGATTGAAGATGGCAGACTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAGATTGAAGATGGCAGACTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
* * *
65115773 TTCTATCTCCCTGGGTAGCAATGGAATAGATTGAAGATTACAGATCATATCTCCCTAAGCAGTAG
66 TTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
* *
65115838 TGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGT
131 TGGAGCAGATCGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGT
* *
65115903 AATTCTATCTCTCTGGTTGGTAGTGGAATAGATTGAAGATTTCAGACCTTATCTCCCAAAGTG
196 AATTCTATCTCTCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGTG
*
65115966 GAGCAGATTGAAGATGGCAGACTTTACCTCCATGTGATTACAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAGATTGAAGATGGCAGACTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
*
65116031 TTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACATATCTTATCTCCCTAAGCAGTAG
66 TTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
* * *
65116096 TGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
131 TGGAGCAGATCGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGT
*** * *
65116161 AATTCTATCTCTCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGT
196 AATTCTATCTCTCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCC--A--A--
65116226 AGTG
255 AGTG
* * * * * *
65116230 GAGCAGATCGAAGATGGC-GAATTTTACCTCCCTGTGGTTCCAGTGGAGTACACTAAAGCCAGTA
1 GAGCAGATTGAAGATGGCAG-ACTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTA
* *
65116294 ATTCTATCTCCCTGGGCAGCAGTGCAATAGATGGAAGATTACAGATCTTATCTCCCTAAGCAGTA
65 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTA
* ** * * * *
65116359 GTGGAGCAGATCGAAGATGACAAATTTTACCTCCCTAAGGTTACAGTGGAGTACATTAAAGCAAA
130 GTGGAGCAGATCGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAG
*
65116424 TAATTTTATCTC
195 TAATTCTATCTC
65116436 CCCGAAGTTG
Statistics
Matches: 667, Mismatches: 46, Indels: 17
0.91 0.06 0.02
Matches are distributed among these distances:
251 94 0.14
252 15 0.02
254 1 0.00
256 1 0.00
258 364 0.55
260 1 0.00
262 1 0.00
263 1 0.00
264 189 0.28
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (258 bp):
GAGCAGATTGAAGATGGCAGACTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
TTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGT
AATTCTATCTCTCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGTG
Found at i:65115907 original size:132 final size:131
Alignment explanation
Indices: 65115457--65116437 Score: 1332
Period size: 132 Copynumber: 7.6 Consensus size: 131
65115447 ATCGACAGCA
* * *
65115457 GAGCAGATTGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCC-GAAA
1 GAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAG-TA
* * * *
65115521 ATTCTATCTCCCTAGTTGGCAGTAGAATAGATTGAAGATT-CAGATCTTATCTCCC--A-A--AG
65 ATTCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGAGTAG
65115580 TG
130 TG
* *
65115582 GAGCAGATTGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
* * * *
65115647 TTCTATCTCTCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCC--A-A--AGT
66 TTCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGAGTAGT
65115707 G
131 G
* *
65115708 GAGCAGATTGAAGATGGCAGACTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
* *
65115773 TTCTATCTCCCTGGGTAGCAATGGAATAGATTGAAGATTACAGATCATATCTCCCTAAGCAGTAG
66 TTCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAG-AGTAG
65115838 TG
130 TG
*
65115840 GAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
* * * * * *
65115905 TTCTATCTCTCTGGTTGGTAGTGGAATAGATTGAAGATTTCAGACCTTATCTCCC--A-A--AGT
66 TTCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGAGTAGT
65115965 G
131 G
* * *
65115966 GAGCAGATTGAAGATGGCAGACTTTACCTCCATGTGATTACAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
* *
65116031 TTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACATATCTTATCTCCCTAAGCAGTAG
66 TTCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAG-AGTAG
65116096 TG
130 TG
* *
65116098 GAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
1 GAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
* * *
65116163 TTCTATCTCTCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAG
66 TTCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAG-AGTAG
65116228 TG
130 TG
* * * *
65116230 GAGCAGATCGAAGATGGC-GAATTTTACCTCCCTGTGGTTCCAGTGGAGTACACTAAAGCCAGTA
1 GAGCAGATCGAAGATGGCAG-ATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTA
* * *
65116294 ATTCTATCTCCCTGGGCAGCAGTGCAATAGATGGAAGATTACAGATCTTATCTCCCTAAGCAGTA
65 ATTCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAG-AGTA
65116359 GTG
129 GTG
* * ** * * * *
65116362 GAGCAGATCGAAGATGACAAATTTTACCTCCCTAAGGTTACAGTGGAGTACATTAAAGCAAATAA
1 GAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
*
65116427 TTTTATCTCCC
66 TTCTATCTCCC
65116438 CGAAGTTGCG
Statistics
Matches: 777, Mismatches: 63, Indels: 25
0.90 0.07 0.03
Matches are distributed among these distances:
125 96 0.12
126 246 0.32
128 3 0.00
130 3 0.00
131 1 0.00
132 428 0.55
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (131 bp):
GAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAA
TTCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGAGTAGT
G
Found at i:65116064 original size:43 final size:43
Alignment explanation
Indices: 65116006--65116198 Score: 149
Period size: 44 Copynumber: 4.4 Consensus size: 43
65115996 CATGTGATTA
*
65116006 CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
1 CAGTGGAGTAGATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
* * **
65116049 CAGTGGAATAGATTGAAG--ATTACATATCTTATCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGCCAGTA-AT-TC-TATCTCCCTGGGCAG
* * * *** ** * * *
65116093 TAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA-
1 CAGTGGAGTAGATTGAAGCCAG-TAATTCTATCTCCCTG-GG-CAG
* *
65116138 CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCTCTGGGCAG
1 CAGTGGAGTAGATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
65116181 CAGTGGAGTAGATTGAAG
1 CAGTGGAGTAGATTGAAG
65116199 ATTACAGATC
Statistics
Matches: 109, Mismatches: 32, Indels: 18
0.69 0.20 0.11
Matches are distributed among these distances:
41 3 0.03
42 3 0.03
43 37 0.34
44 46 0.42
45 17 0.16
46 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (43 bp):
CAGTGGAGTAGATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
Found at i:65116111 original size:44 final size:44
Alignment explanation
Indices: 65116034--65116397 Score: 129
Period size: 44 Copynumber: 8.3 Consensus size: 44
65116024 CCAGTAATTC
** * * *
65116034 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACATATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTACAGATCT
* * ** * *
65116078 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTACAGATCT
* ** * * *
65116122 TACCTCCCT--GTGGTTACAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCTAAGCAG-T--AGTGGAGTAGATTGAAG--ATTACAGATCT
* ** *
65116166 TATCTCTCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTACAGATCT
* * * ** *
65116210 TATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGC-GAATTT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTACAG-ATCT
* ** * * * * *
65116254 TACCTCCCT--GTGGTTCCAGTGGAGTACACTAAAGCCAGTA-A-TTC-
1 TATCTCCCTAAGCAG-T--AGTGGAGTAGATTGAAG--ATTACAGATCT
** * * * *
65116298 TATCTCCCTGGGCAGCAGTGCAATAGATGGAAGATTACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTACAGATCT
* * * * *
65116342 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACAAATTT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTACAGATCT
*
65116386 TACCTCCCTAAG
1 TATCTCCCTAAG
65116398 GTTACAGTGG
Statistics
Matches: 222, Mismatches: 76, Indels: 44
0.65 0.22 0.13
Matches are distributed among these distances:
41 6 0.03
42 7 0.03
43 34 0.15
44 141 0.64
45 28 0.13
46 4 0.02
47 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTACAGATCT
Found at i:65117891 original size:5 final size:6
Alignment explanation
Indices: 65117877--65117910 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
65117867 AATTTCTTTC
* *
65117877 TTTTAT TTTTAT TTTTAT TTTTCT CTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
65117911 CTTCCTTTCG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:65117911 original size:12 final size:11
Alignment explanation
Indices: 65117873--65117913 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
65117863 CTCTAATTTC
65117873 TTTCTTTTATT
1 TTTCTTTTATT
*
65117884 TTTATTTTTATT
1 TTT-CTTTTATT
65117896 TTTCTCTTTATT
1 TTTCT-TTTATT
65117908 TTTCTT
1 TTTCTT
65117914 CCTTTCGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 5 0.19
12 21 0.81
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTCTTTTATT
Found at i:65118235 original size:3 final size:3
Alignment explanation
Indices: 65118227--65118266 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
65118217 TACTTTAATG
* *
65118227 TTA TTA TTA TTA TTA TTA TTA TCA TTA TAAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
65118267 GTTTTATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 30 0.94
4 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:65125874 original size:3 final size:3
Alignment explanation
Indices: 65125840--65125905 Score: 64
Period size: 3 Copynumber: 22.0 Consensus size: 3
65125830 TTTAGTAATT
* * *
65125840 TTA TTA TT- TTG TTCA TTA TT- TTA ATC TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
65125884 TTA TCA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA
65125906 GTTTTATTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
2 4 0.08
3 43 0.83
4 5 0.10
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:65128604 original size:21 final size:21
Alignment explanation
Indices: 65128574--65128623 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
65128564 GTGGCCTTAA
*
65128574 ACATGGTCGTG-AGGCTAATCC
1 ACATGCTCGTGTA-GCTAATCC
* *
65128595 TCATGCTCGTGTAGCTACTCC
1 ACATGCTCGTGTAGCTAATCC
65128616 ACATGCTC
1 ACATGCTC
65128624 ATGTCTCAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.28
Consensus pattern (21 bp):
ACATGCTCGTGTAGCTAATCC
Found at i:65135949 original size:30 final size:31
Alignment explanation
Indices: 65135908--65135968 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
65135898 GGGAGGTGGG
*
65135908 ATGGGAAGGGAGTAAAAGTTTTAGGGGAAAA
1 ATGGGAAGGGAGTAAAAATTTTAGGGGAAAA
*
65135939 ATGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 ATGGGAAGGGAGTAAAAATTTTAGGGGAAAA
65135969 TAAAAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.41, C:0.00, G:0.39, T:0.20
Consensus pattern (31 bp):
ATGGGAAGGGAGTAAAAATTTTAGGGGAAAA
Found at i:65136947 original size:27 final size:27
Alignment explanation
Indices: 65136516--65136934 Score: 500
Period size: 27 Copynumber: 15.5 Consensus size: 27
65136506 TAATGGGCCT
* * *
65136516 TAGGATAAAATGACCAAAATACCCCCG
1 TAGGGTAAAATGACCGAAATACCCCCA
* *
65136543 TAGGGTAAAATAATCGAAATACCCCCA
1 TAGGGTAAAATGACCGAAATACCCCCA
* * *
65136570 TAGGGT-AAATAACTGAAATACCCCTA
1 TAGGGTAAAATGACCGAAATACCCCCA
65136596 TAGGGTAAAATGACCGAAATACCCCCCA
1 TAGGGTAAAATGACCGAAATA-CCCCCA
* * * * *
65136624 TAAGGTAGAATGACAGAGATACCCCTA
1 TAGGGTAAAATGACCGAAATACCCCCA
* *
65136651 TAGGGTAGAATGACTGAAATACCCCCA
1 TAGGGTAAAATGACCGAAATACCCCCA
* * *
65136678 TACGGTAGAAA-GACCAAAATACCCTCA
1 TAGGGTA-AAATGACCGAAATACCCCCA
* *
65136705 TAGGGTATAATGATCGAAATACCCCCA
1 TAGGGTAAAATGACCGAAATACCCCCA
* *
65136732 TAGGGTAAATTGACCGAAATACCCCTA
1 TAGGGTAAAATGACCGAAATACCCCCA
65136759 TAGGGTAAAATGACCGAAATACCCCCA
1 TAGGGTAAAATGACCGAAATACCCCCA
* *
65136786 TAGGGTAAAATAATCGAAATACCCCCA
1 TAGGGTAAAATGACCGAAATACCCCCA
**
65136813 TAGGGTAAAATGACCGAAATACCTTCA
1 TAGGGTAAAATGACCGAAATACCCCCA
* *
65136840 TAGGGTAAAATGACCAAAATACCTCCA
1 TAGGGTAAAATGACCGAAATACCCCCA
* *
65136867 TAGGGTTAAATGACCGAAATGCCCCCA
1 TAGGGTAAAATGACCGAAATACCCCCA
* * * *
65136894 TAAGGTAAAATAATCGAAATACCCCTA
1 TAGGGTAAAATGACCGAAATACCCCCA
65136921 TAGGGTAAAATGAC
1 TAGGGTAAAATGAC
65136935 TGTTATACCC
Statistics
Matches: 331, Mismatches: 57, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
26 25 0.08
27 282 0.85
28 24 0.07
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (27 bp):
TAGGGTAAAATGACCGAAATACCCCCA
Found at i:65147696 original size:17 final size:17
Alignment explanation
Indices: 65147674--65147708 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
65147664 TTTTTTATAG
65147674 TTTAATAATAATTTTAA
1 TTTAATAATAATTTTAA
* *
65147691 TTTAATACTTATTTTAA
1 TTTAATAATAATTTTAA
65147708 T
1 T
65147709 AGTATTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAATAATAATTTTAA
Found at i:65148309 original size:26 final size:25
Alignment explanation
Indices: 65148280--65148344 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
65148270 AGCTGCAGAG
65148280 AGAAAATTCTTT-GAAGAGATTATTCC
1 AGAAAATT-TTTAG-AGAGATTATTCC
* *
65148306 AGAAAATTTTTAGATATATTATTCC
1 AGAAAATTTTTAGAGAGATTATTCC
65148331 AGAAAATTTTTAGA
1 AGAAAATTTTTAGA
65148345 TATATTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
25 27 0.75
26 9 0.25
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (25 bp):
AGAAAATTTTTAGAGAGATTATTCC
Found at i:65148330 original size:25 final size:25
Alignment explanation
Indices: 65148298--65148350 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
65148288 CTTTGAAGAG
65148298 ATTATTCCAGAAAATTTTTAGATAT
1 ATTATTCCAGAAAATTTTTAGATAT
65148323 ATTATTCCAGAAAATTTTTAGATAT
1 ATTATTCCAGAAAATTTTTAGATAT
65148348 ATT
1 ATT
65148351 TTTATGATTT
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:0.40, C:0.08, G:0.08, T:0.45
Consensus pattern (25 bp):
ATTATTCCAGAAAATTTTTAGATAT
Found at i:65157350 original size:27 final size:27
Alignment explanation
Indices: 65157320--65157489 Score: 209
Period size: 27 Copynumber: 6.3 Consensus size: 27
65157310 TAAATGACAT
* *
65157320 AAATACCCTCATAGGATAAAATGA-TCG
1 AAATACCCTCATAGGGTAAAATAACT-G
*
65157347 AAATACCCCCATAGGGTAAAATAACTG
1 AAATACCCTCATAGGGTAAAATAACTG
* * ** * *
65157374 AAATACCCTTAGAAAGTAAAATGACCG
1 AAATACCCTCATAGGGTAAAATAACTG
*
65157401 AAATACCCTCATAGGGTAAAATAACTA
1 AAATACCCTCATAGGGTAAAATAACTG
*
65157428 AAATACCCTCATAAGGTAAAATAACTG
1 AAATACCCTCATAGGGTAAAATAACTG
65157455 AAATACCCTCATAGGGTAAAATGAAC-G
1 AAATACCCTCATAGGGTAAAAT-AACTG
65157482 AAATACCC
1 AAATACCC
65157490 CTAGAAGATG
Statistics
Matches: 121, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
27 117 0.97
28 4 0.03
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (27 bp):
AAATACCCTCATAGGGTAAAATAACTG
Found at i:65157446 original size:81 final size:81
Alignment explanation
Indices: 65157311--65157489 Score: 234
Period size: 81 Copynumber: 2.2 Consensus size: 81
65157301 AGAGACCAAT
** * * *
65157311 AAATGACATAAATACCCTCATAGGATAAAATGATCGAAATACCCCCATAGGGTAAAATAACTGAA
1 AAATGACCGAAATACCCTCATAGGATAAAATAATCAAAATACCCCCATAAGGTAAAATAACTGAA
*
65157376 ATACCCTTAGAAAGTA
66 ATACCCTCAGAAAGTA
* *
65157392 AAATGACCGAAATACCCTCATAGGGTAAAATAA-CTAAAATACCCTCATAAGGTAAAATAACTGA
1 AAATGACCGAAATACCCTCATAGGATAAAATAATC-AAAATACCCCCATAAGGTAAAATAACTGA
* **
65157456 AATACCCTCATAGGGTA
65 AATACCCTCAGAAAGTA
*
65157473 AAATGAACGAAATACCC
1 AAATGACCGAAATACCC
65157490 CTAGAAGATG
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 1 0.01
81 84 0.99
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (81 bp):
AAATGACCGAAATACCCTCATAGGATAAAATAATCAAAATACCCCCATAAGGTAAAATAACTGAA
ATACCCTCAGAAAGTA
Found at i:65157683 original size:26 final size:26
Alignment explanation
Indices: 65157654--65157707 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
65157644 TTGCCACATT
* *
65157654 TACTGTTACTAGTAGCTTCGCTGCGA
1 TACTATTACTAGCAGCTTCGCTGCGA
* *
65157680 TACTATTACTTGCAGCTTTGCTGCGA
1 TACTATTACTAGCAGCTTCGCTGCGA
65157706 TA
1 TA
65157708 TCGGTGTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
TACTATTACTAGCAGCTTCGCTGCGA
Found at i:65157850 original size:28 final size:28
Alignment explanation
Indices: 65157818--65157903 Score: 118
Period size: 28 Copynumber: 3.1 Consensus size: 28
65157808 GTACTGATAT
*
65157818 TGTATTGGGCTAAGGCTCACACTGTTAC
1 TGTATTGGGCTAAGGCCCACACTGTTAC
*
65157846 TGTATTGGGCTAAGGCCCACATTGTTAC
1 TGTATTGGGCTAAGGCCCACACTGTTAC
* * * *
65157874 TGTATTGGGTTTAGGCCCAGATTGTTAC
1 TGTATTGGGCTAAGGCCCACACTGTTAC
65157902 TG
1 TG
65157904 CATGTCGTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.35
Consensus pattern (28 bp):
TGTATTGGGCTAAGGCCCACACTGTTAC
Found at i:65157852 original size:33 final size:33
Alignment explanation
Indices: 65157804--65157880 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 33
65157794 TGTATTATTG
*
65157804 CACTG-TACTGATATTGTATTGGGCTAAGGCTCA
1 CACTGTTACTG-TATTGTATTGGGCTAAGGCCCA
65157837 CACTGTTAC-----TGTATTGGGCTAAGGCCCA
1 CACTGTTACTGTATTGTATTGGGCTAAGGCCCA
*
65157865 CATTGTTACTGTATTG
1 CACTGTTACTGTATTG
65157881 GGTTTAGGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
28 26 0.72
33 7 0.19
34 3 0.08
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.35
Consensus pattern (33 bp):
CACTGTTACTGTATTGTATTGGGCTAAGGCCCA
Found at i:65162041 original size:30 final size:30
Alignment explanation
Indices: 65162007--65162066 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
65161997 CACCTATTTT
65162007 TCTTTGATCGTCGAATACACCTTTCTCCCC
1 TCTTTGATCGTCGAATACACCTTTCTCCCC
* *
65162037 TCTTTTATTGTCGAATACACCTTTCTCCCC
1 TCTTTGATCGTCGAATACACCTTTCTCCCC
65162067 CTTCTGTCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.17, C:0.35, G:0.08, T:0.40
Consensus pattern (30 bp):
TCTTTGATCGTCGAATACACCTTTCTCCCC
Found at i:65162998 original size:27 final size:27
Alignment explanation
Indices: 65162968--65163046 Score: 131
Period size: 27 Copynumber: 2.9 Consensus size: 27
65162958 TAAATAACAT
65162968 AAATACCCCCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
65162995 AAATACCCCTATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
65163022 AAATACCCCCATAGGATAAAATGAC
1 AAATACCCCCATAGGGTAAAATGAC
65163047 TGTTATACCC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCG
Found at i:65163054 original size:27 final size:27
Alignment explanation
Indices: 65162968--65163075 Score: 112
Period size: 27 Copynumber: 4.0 Consensus size: 27
65162958 TAAATAACAT
* *
65162968 AAATACCCCCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGATAAAATGACTG
* *
65162995 AAATACCCCTATAGGGTAAAATGA-TCG
1 AAATACCCCCATAGGATAAAATGACT-G
65163022 AAATACCCCCATAGGATAAAATGACTG
1 AAATACCCCCATAGGATAAAATGACTG
** * *
65163049 TTATACCCCTA-AGAGATGAAATGACTG
1 AAATACCCCCATAG-GATAAAATGACTG
65163076 TTATGGCCTT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.03
27 67 0.96
28 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (27 bp):
AAATACCCCCATAGGATAAAATGACTG
Found at i:65163071 original size:54 final size:54
Alignment explanation
Indices: 65162968--65163072 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 54
65162958 TAAATAACAT
* *
65162968 AAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCG
1 AAATACCCCCATAGGATAAAATGACCGAAATACCCCTATAGGATAAAATGATCG
* ** *
65163022 AAATACCCCCATAGGATAAAATGACTGTTATACCCCTA-AGAGATGAAATGA
1 AAATACCCCCATAGGATAAAATGACCGAAATACCCCTATAG-GATAAAATGA
65163073 CTGTTATGGC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
53 2 0.05
54 42 0.95
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (54 bp):
AAATACCCCCATAGGATAAAATGACCGAAATACCCCTATAGGATAAAATGATCG
Found at i:65165386 original size:68 final size:72
Alignment explanation
Indices: 65165311--65165443 Score: 202
Period size: 68 Copynumber: 1.9 Consensus size: 72
65165301 TTTTAATTAT
* *
65165311 TTAATATTAAATTAAATTTAATGCTTATC-T-TA-AT-AGTATTTTATTAATTTAATATTAAAGT
1 TTAATATTAAATTAAATTTAATGCTTATCTTGTAGATAAATATTATATTAATTTAATATTAAAGT
65165372 TATTTTC
66 TATTTTC
* *
65165379 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTATATTAATTTAATATTAAAGT
1 TTAATATTAAATTAAATTTAATGCTTATCTTGTAGATAAATATTATATTAATTTAATATTAAAGT
65165444 GATTAAGTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
68 27 0.47
69 1 0.02
70 2 0.04
71 2 0.04
72 25 0.44
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (72 bp):
TTAATATTAAATTAAATTTAATGCTTATCTTGTAGATAAATATTATATTAATTTAATATTAAAGT
TATTTTC
Found at i:65167328 original size:7 final size:7
Alignment explanation
Indices: 65167316--65167342 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
65167306 AGATATTTTA
65167316 TAATTAT
1 TAATTAT
65167323 TAATTAT
1 TAATTAT
65167330 TAATTAT
1 TAATTAT
65167337 TAATTA
1 TAATTA
65167343 AATCAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TAATTAT
Found at i:65168180 original size:36 final size:35
Alignment explanation
Indices: 65168140--65168232 Score: 98
Period size: 36 Copynumber: 2.5 Consensus size: 35
65168130 TATATGTGTG
*
65168140 GAATTGAATCGAATAT-TGACTTGAAAATGGAAAAGT
1 GAATTGAATCGAAT-TGTGA-TTGAAAATGAAAAAGT
*
65168176 GAATTTTGAATCGAATTGTGATTGAAAGTGAAAAAGT
1 GAA--TTGAATCGAATTGTGATTGAAAATGAAAAAGT
* *
65168213 GAAATTGAATTGAAATGTGA
1 G-AATTGAATCGAATTGTGA
65168233 ATTTGGAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
36 17 0.35
37 16 0.33
38 16 0.33
ACGTcount: A:0.43, C:0.03, G:0.24, T:0.30
Consensus pattern (35 bp):
GAATTGAATCGAATTGTGATTGAAAATGAAAAAGT
Found at i:65168190 original size:38 final size:37
Alignment explanation
Indices: 65168143--65168232 Score: 103
Period size: 37 Copynumber: 2.4 Consensus size: 37
65168133 ATGTGTGGAA
*
65168143 TTGAATCGAATAT-TGACTTGAAAATGGAAAAGTGAATT
1 TTGAATCGAAT-TGTGA-TTGAAAATGAAAAAGTGAATT
* *
65168181 TTGAATCGAATTGTGATTGAAAGTGAAAAAGTGAA-A
1 TTGAATCGAATTGTGATTGAAAATGAAAAAGTGAATT
* *
65168217 TTGAATTGAAATGTGA
1 TTGAATCGAATTGTGA
65168233 ATTTGGAGAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
36 14 0.30
37 18 0.39
38 14 0.30
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.31
Consensus pattern (37 bp):
TTGAATCGAATTGTGATTGAAAATGAAAAAGTGAATT
Found at i:65172067 original size:26 final size:27
Alignment explanation
Indices: 65172014--65172073 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
65172004 TATTTTCTTG
*
65172014 AAATTTTACCAAATGGCAAAATCATCA
1 AAATTTTACCAAAGGGCAAAATCATCA
* **
65172041 AAATTTTACC-AAGGGTAAAATTGTCA
1 AAATTTTACCAAAGGGCAAAATCATCA
65172067 AAATTTT
1 AAATTTT
65172074 GATGTGGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTTTACCAAAGGGCAAAATCATCA
Found at i:65176578 original size:17 final size:17
Alignment explanation
Indices: 65176556--65176590 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
65176546 ATTACAAAAT
*
65176556 CAAATCTTATTAGATTA
1 CAAATCTTATAAGATTA
*
65176573 CAAATCTTCTAAGATTA
1 CAAATCTTATAAGATTA
65176590 C
1 C
65176591 TCTCTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (17 bp):
CAAATCTTATAAGATTA
Found at i:65177171 original size:3 final size:3
Alignment explanation
Indices: 65177159--65177206 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
65177149 AACTCATTTA
65177159 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
65177206 A
1 A
65177207 AAAACTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:65181766 original size:3 final size:3
Alignment explanation
Indices: 65181758--65181804 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
65181748 TAGTCACCTT
65181758 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
65181805 TTGGCATTTG
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:65182659 original size:7 final size:7
Alignment explanation
Indices: 65182649--65182693 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
65182639 TCGGGTTTGG
65182649 GGTTCAA
1 GGTTCAA
65182656 GGTTCAA
1 GGTTCAA
*
65182663 -GTTCGA
1 GGTTCAA
*
65182669 GGTTCGA
1 GGTTCAA
*
65182676 GGTTTAA
1 GGTTCAA
65182683 GGTTCAA
1 GGTTCAA
65182690 GGTT
1 GGTT
65182694 TTGAATTCGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 5 0.15
7 28 0.85
ACGTcount: A:0.22, C:0.11, G:0.33, T:0.33
Consensus pattern (7 bp):
GGTTCAA
Found at i:65183739 original size:2 final size:2
Alignment explanation
Indices: 65183732--65183766 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
65183722 TACTTGTGGT
65183732 TA 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 T
65183767 GAGTAAAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:65187925 original size:31 final size:30
Alignment explanation
Indices: 65187876--65187944 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 30
65187866 CCAAAAAGCT
* * *
65187876 ACTTCAAACTAAAATAGTTATTCGATTAAC
1 ACTTAAAACAAAAATAGTTATTCGATTAAA
* *
65187906 ACTTAAAACAAAAATTAGTTGTTGGATTAAA
1 ACTTAAAACAAAAA-TAGTTATTCGATTAAA
*
65187937 ATTTAAAA
1 ACTTAAAA
65187945 AATTGAGAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.48, C:0.10, G:0.09, T:0.33
Consensus pattern (30 bp):
ACTTAAAACAAAAATAGTTATTCGATTAAA
Found at i:65188193 original size:39 final size:40
Alignment explanation
Indices: 65188119--65188194 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
65188109 CGGCATTTGG
* *
65188119 ATAACAAACGCCACTAAAGATCAATCATTAGCGGCGTATT
1 ATAAAAAACGCCACTAAAGATCAATCATTACCGGCGTATT
* *
65188159 ATAAAAAACGCCGCTGAAA-AT-AATCATTCCCGGCGT
1 ATAAAAAACGCCACT-AAAGATCAATCATTACCGGCGT
65188195 TTTTGAGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
39 13 0.42
40 15 0.48
41 3 0.10
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (40 bp):
ATAAAAAACGCCACTAAAGATCAATCATTACCGGCGTATT
Found at i:65188551 original size:115 final size:113
Alignment explanation
Indices: 65188189--65188743 Score: 520
Period size: 114 Copynumber: 4.9 Consensus size: 113
65188179 TAATCATTCC
* * * * * *
65188189 CGGCGTTTTTGAGAAAGCGCCAC-AAAAACCT-AGCGCAACGACGCCGTTTCCCCAGCATTC-GG
1 CGGCGTTTTTGTGAAAGCGCCGCAAAAAAACTAAGCGCAACGACGTCGTTTCCCGAGCTTTCAGG
* * * *
65188251 TGATTTAGCGGCGTTTTTCAGTAAGCGCCGCTAATGCTCAAGGCTTTAG
66 -GATTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTTAAGTCTTTAG
* * *
65188300 CGGCGTTTCTAG-GAAAGCGCCGCAAAAATAACTAAGCCCAACGATGTCGTTTCCCGAGCTTTCA
1 CGGCGTTT-TTGTGAAAGCGCCGCAAAAA-AACTAAGCGCAACGACGTCGTTTCCCGAGCTTTCA
* * * * * *
65188364 GGGATTTAGCGACGCTTT-CTATAAAGCGCCGCTAATGGTTAGGTCGTTAG
64 GGGATTTAGCGGCGTTTTAC-AGAAAGCGCCGCTAATGCTTAAGTCTTTAG
* * ** *
65188414 CAGCGTTTCTG-GAAAAGCGCCGCTACTTAAAACT-AGCGCAACGACGTCGTCTCCCGAGCTTTC
1 CGGCGTTTTTGTG-AAAGCGCCGC-A-AAAAAACTAAGCGCAACGACGTCGTTTCCCGAGCTTTC
*
65188477 AGGGATTTAGCGGCGCTTTTACAGAAAGCGCCGCTAATGCTGAAGTCTTTAG
63 AGGGATTTAGCGGCG-TTTTACAGAAAGCGCCGCTAATGCTTAAGTCTTTAG
* * * * * * *
65188529 CGGCGTTTTTGTTAAAGCGCCGCAAAAAATCTAAGCCCAACGACGCCGTTTTCTG-GCTTTCGGG
1 CGGCGTTTTTGTGAAAGCGCCGCAAAAAAACTAAGCGCAACGACGTCGTTTCCCGAGCTTTCAGG
**** *
65188593 GATTTTAGCGGCGTTTTTGTTAAAGCGCCGCTAATG-TTCAGTCTTTAG
66 GA-TTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTTAAGTCTTTAG
* * * *
65188641 CGGCGTTTTT-TGGAAAGCGCCGCAAAAAAAAACTAAGCGCAACGTCGTCGTTTTCTGTGCTTTT
1 CGGCGTTTTTGT-GAAAGCGCCGC--AAAAAAACTAAGCGCAACGACGTCGTTTCCCGAGC-TTT
* *
65188705 GAGGGATTTAGCGGCGTTTT-TAGAAAAGCGCCGCTAATG
62 CAGGGATTTAGCGGCGTTTTACAG-AAAGCGCCGCTAATG
65188744 ATCAGGGATT
Statistics
Matches: 364, Mismatches: 60, Indels: 36
0.79 0.13 0.08
Matches are distributed among these distances:
111 19 0.05
112 36 0.10
113 40 0.11
114 174 0.48
115 85 0.23
116 10 0.03
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.27
Consensus pattern (113 bp):
CGGCGTTTTTGTGAAAGCGCCGCAAAAAAACTAAGCGCAACGACGTCGTTTCCCGAGCTTTCAGG
GATTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTTAAGTCTTTAG
Found at i:65188619 original size:228 final size:227
Alignment explanation
Indices: 65188212--65188743 Score: 612
Period size: 228 Copynumber: 2.3 Consensus size: 227
65188202 AAAGCGCCAC
* * * * * *
65188212 AAAAACCTAGCGCAACGACGCCGTTTCCCCAGCATTC-GGTGATTTAGCGGCGTTTTTCAGTAAG
1 AAAAAACTAGCGCAACGACGTCGTTTCCCGAGCTTTCAGG-GATTTAGCGGCGTTTTACAGAAAG
65188276 CGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTCTAGGAAAGCGCCGCAAAAATAACTAAGCCCAA
65 CGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTCTAGGAAAGCGCCGCAAAAATAACTAAGCCCAA
* *
65188341 CGATGTCGTTTCCCGAGCTTTCAGGGATTTAGCGACGCTTTCTATAAAGCGCCGCTAATGGTT-A
130 CGACGCCGTTTCCCGAGCTTTCAGGGATTTAGCGACGCTTTCTATAAAGCGCCGCTAAT-GTTCA
* *
65188405 GGTCGTTAGCAGCG-TTTCTGGAAAAGCGCCGCTAC
194 -GTCGTTAGCAGCGTTTTCTGG-AAAGCGCCGCAAA
** *
65188440 TTAAAACTAGCGCAACGACGTCGTCTCCCGAGCTTTCAGGGATTTAGCGGCGCTTTTACAGAAAG
1 AAAAAACTAGCGCAACGACGTCGTTTCCCGAGCTTTCAGGGATTTAGCGGCG-TTTTACAGAAAG
* * * * *
65188505 CGCCGCTAATGCTGAAGTCTTTAGCGGCGTTT-TTGTTAAAGCGCCGCAAAAA-ATCTAAGCCCA
65 CGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTCTAG-GAAAGCGCCGCAAAAATAACTAAGCCCA
* * * * * *
65188568 ACGACGCCGTTTTCTG-GCTTTCGGGGATTTTAGCGGCG-TTTTTGTTAAAGCGCCGCTAATGTT
129 ACGACGCCGTTTCCCGAGCTTTCAGGGA-TTTAGCGACGCTTTCT-ATAAAGCGCCGCTAATGTT
* * *
65188631 CAGTCTTTAGCGGCGTTTTTTGGAAAGCGCCGCAAA
192 CAGTCGTTAGCAGCGTTTTCTGGAAAGCGCCGCAAA
* * * * * *
65188667 AAAAAACTAAGCGCAACGTCGTCGTTTTCTGTGCTTTTGAGGGATTTAGCGGCGTTTT-TAGAAA
1 AAAAAACT-AGCGCAACGACGTCGTTTCCCGAGC-TTTCAGGGATTTAGCGGCGTTTTACAG-AA
65188731 AGCGCCGCTAATG
63 AGCGCCGCTAATG
65188744 ATCAGGGATT
Statistics
Matches: 258, Mismatches: 36, Indels: 20
0.82 0.11 0.06
Matches are distributed among these distances:
227 47 0.18
228 136 0.53
229 75 0.29
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (227 bp):
AAAAAACTAGCGCAACGACGTCGTTTCCCGAGCTTTCAGGGATTTAGCGGCGTTTTACAGAAAGC
GCCGCTAATGCTCAAGGCTTTAGCGGCGTTTCTAGGAAAGCGCCGCAAAAATAACTAAGCCCAAC
GACGCCGTTTCCCGAGCTTTCAGGGATTTAGCGACGCTTTCTATAAAGCGCCGCTAATGTTCAGT
CGTTAGCAGCGTTTTCTGGAAAGCGCCGCAAA
Found at i:65189047 original size:7 final size:7
Alignment explanation
Indices: 65189029--65189081 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
65189019 AGAGTTAAGA
*
65189029 TTTAGGA
1 TTTAGGG
65189036 TTTAGGG
1 TTTAGGG
* *
65189043 GTTAGAG
1 TTTAGGG
65189050 TTTAGGG
1 TTTAGGG
65189057 TTTAGGG
1 TTTAGGG
**
65189064 ATTTTTGG
1 -TTTAGGG
65189072 TTTAGGG
1 TTTAGGG
65189079 TTT
1 TTT
65189082 GAACGGTAAG
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 31 0.86
8 5 0.14
ACGTcount: A:0.17, C:0.00, G:0.36, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:65189396 original size:31 final size:32
Alignment explanation
Indices: 65189353--65189427 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 32
65189343 AATAAATTTT
* * *
65189353 TTTAGGGGTTATGGTTTAGGGGTTAGAGGAG-
1 TTTAGGGGTTATGCTTTAAGGGTTAAAGGAGA
* *
65189384 TTTAGGGTTTATGCTTTAAGGGTTAAAGGGGA
1 TTTAGGGGTTATGCTTTAAGGGTTAAAGGAGA
65189416 TTTAGGGGTTAT
1 TTTAGGGGTTAT
65189428 ATATGGGTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 26 0.70
32 11 0.30
ACGTcount: A:0.21, C:0.01, G:0.39, T:0.39
Consensus pattern (32 bp):
TTTAGGGGTTATGCTTTAAGGGTTAAAGGAGA
Found at i:65190228 original size:39 final size:39
Alignment explanation
Indices: 65190140--65190221 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
65190130 TAATTGGAAT
* *
65190140 GGTTTAGGGGTTATGCTTTAGGGGTTAGGGAGATTTAGG
1 GGTTTATGGTTTATGCTTTAGGGGTTAGGGAGATTTAGG
*
65190179 GGTTTATGGTTTATGCTTTAAGGGTTTAGGG-GATTTAGG
1 GGTTTATGGTTTATGCTTT-AGGGGTTAGGGAGATTTAGG
65190218 GGTT
1 GGTT
65190222 ATTGGTTAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
39 29 0.74
40 10 0.26
ACGTcount: A:0.17, C:0.02, G:0.40, T:0.40
Consensus pattern (39 bp):
GGTTTATGGTTTATGCTTTAGGGGTTAGGGAGATTTAGG
Found at i:65196851 original size:66 final size:65
Alignment explanation
Indices: 65196743--65196913 Score: 200
Period size: 66 Copynumber: 2.6 Consensus size: 65
65196733 GAGCAAATTA
* * * * *
65196743 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGATGTTCAAAG-AAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAG-TATGAAGAACTCCA
65196807 G
65 G
*
65196808 CTACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAGTATGAAGAACTCCA
65196873 G
65 G
* * * ** *
65196874 CAGCAGCTTAGAGCAGATGCGGCAGTAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
65196914 CGACAGCGAG
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
65 2 0.02
66 86 0.95
67 3 0.03
ACGTcount: A:0.39, C:0.19, G:0.28, T:0.14
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAGTATGAAGAACTCCAG
Found at i:65196966 original size:21 final size:21
Alignment explanation
Indices: 65196942--65196996 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
65196932 AGGCTGCTAA
*
65196942 GAGGGAAGCAGAGGCTAAAGC
1 GAGGGAAGTAGAGGCTAAAGC
**
65196963 GAGGGAAGTAGAGGCTGCAGC
1 GAGGGAAGTAGAGGCTAAAGC
65196984 GAGGGAAGTAGAG
1 GAGGGAAGTAGAG
65196997 CAGCGTCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.47, T:0.07
Consensus pattern (21 bp):
GAGGGAAGTAGAGGCTAAAGC
Found at i:65197001 original size:17 final size:18
Alignment explanation
Indices: 65196960--65197001 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 18
65196950 CAGAGGCTAA
65196960 AGCGAGGGAAGTAGAGGCTGC
1 AGCGAGGGAAGTAGA-G--GC
65196981 AGCGAGGGAAGTAGA-GC
1 AGCGAGGGAAGTAGAGGC
65196998 AGCG
1 AGCG
65197002 TCAAAAGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
21 15 0.71
ACGTcount: A:0.31, C:0.14, G:0.48, T:0.07
Consensus pattern (18 bp):
AGCGAGGGAAGTAGAGGC
Found at i:65197436 original size:43 final size:42
Alignment explanation
Indices: 65197350--65197553 Score: 153
Period size: 43 Copynumber: 4.7 Consensus size: 42
65197340 TGTTAGTCTT
* * * * ** *
65197350 TAGCGGCGTTTGTGACCGAAGCGCCGCTATAGATCAGGGTCTA
1 TAGCGGCGTTTGTG-CCAAAACGCCGCTAAAGACCCTGATCTA
* **
65197393 TTGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCCTGATCTA
1 TAGCGGCGTTTGTGCCAAAA-CGCCGCTAAAGACCCTGATCTA
* * *
65197436 TAGCGGCGTTTCG-GTCACAAATGCCACTAAAGACCCTGATCTA
1 TAGCGGCGTTT-GTGCCA-AAACGCCGCTAAAGACCCTGATCTA
* *
65197479 TAGCGGCGCTTT-TACCAAAAACGCCGCTAAATACCCT-AGTCTA
1 TAGCGGCG-TTTGTGCC-AAAACGCCGCTAAAGACCCTGA-TCTA
* * *
65197522 TAGCGGCGCTTATACCAAAAACGCCGCTAAAG
1 TAGCGGCGTTTGTGCC-AAAACGCCGCTAAAG
65197554 GTATTACTCT
Statistics
Matches: 131, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
42 5 0.04
43 118 0.90
44 8 0.06
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (42 bp):
TAGCGGCGTTTGTGCCAAAACGCCGCTAAAGACCCTGATCTA
Found at i:65197575 original size:43 final size:42
Alignment explanation
Indices: 65197480--65197614 Score: 123
Period size: 43 Copynumber: 3.2 Consensus size: 42
65197470 CCTGATCTAT
* * *
65197480 AGCGGCGCTTTTACCAAAAACGCCGCTAAA-TACCCTAGTCTAT-
1 AGCGGCGCTTATACCAAAAACGCCGCTAAAGTA--TTACTCT-TC
65197523 AGCGGCGCTTATACCAAAAACGCCGCTAAAGGTATTACTCTTC
1 AGCGGCGCTTATACCAAAAACGCCGCTAAA-GTATTACTCTTC
* * * * * *
65197566 AGCGACGCTTCTA-CTAAAGCGCCGGTAAAGCTCTTACTCTTC
1 AGCGGCGCTTATACCAAAAACGCCGCTAAAG-TATTACTCTTC
65197608 AGCGGCG
1 AGCGGCG
65197615 TTTGTGATAT
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
41 1 0.01
42 30 0.38
43 45 0.58
45 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (42 bp):
AGCGGCGCTTATACCAAAAACGCCGCTAAAGTATTACTCTTC
Found at i:65197752 original size:22 final size:22
Alignment explanation
Indices: 65197720--65197762 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
65197710 CTGCGGCGCT
*
65197720 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
*
65197742 AAAAAGTGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
65197763 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:65201102 original size:2 final size:2
Alignment explanation
Indices: 65201095--65201177 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
65201085 TCGTTGGCTT
65201095 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
65201137 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
65201178 TTATTATTCA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:65203271 original size:8 final size:8
Alignment explanation
Indices: 65203260--65203284 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
65203250 TAAAATTTTG
65203260 AAATAATA
1 AAATAATA
65203268 AAATAATA
1 AAATAATA
65203276 AAATAATA
1 AAATAATA
65203284 A
1 A
65203285 GAGATGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:65213415 original size:51 final size:50
Alignment explanation
Indices: 65213359--65213488 Score: 154
Period size: 51 Copynumber: 2.6 Consensus size: 50
65213349 GATGGTCATG
65213359 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGCT-TCGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAG-TAT-GATCACA
* *** * * *
65213410 TGTGTAGTACTATGTGCAGGCTATTACATGTATCGGATAGTGATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGT-ATGATCACA
*
65213461 TGTGTAGTACTATGTGTAGGCTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTATG
65213489 TGAACCAGTA
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
50 1 0.02
51 64 0.97
52 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTATGATCACA
Found at i:65213565 original size:46 final size:44
Alignment explanation
Indices: 65213497--65213584 Score: 115
Period size: 46 Copynumber: 2.0 Consensus size: 44
65213487 TGTGAACCAG
*
65213497 TATCATTAATTATAAAGTGGTTGCTATGTGCTG-ATCTCACCGGA
1 TATCATTAATTACAAAGTGGTTGCTATGTGCTGAATC-CACCGGA
* *
65213541 TATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAATCCACCG
1 TATCATTAATTACAAA--GTGGTTGCTATGTGCTGAATCCACCG
65213585 TGTATATGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 14 0.37
46 21 0.55
47 3 0.08
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (44 bp):
TATCATTAATTACAAAGTGGTTGCTATGTGCTGAATCCACCGGA
Found at i:65213760 original size:37 final size:38
Alignment explanation
Indices: 65213691--65213762 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 38
65213681 ATGTGTGGAA
* **
65213691 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATACTGACTTGAAAATGAAAAAGTGAATT
*
65213729 TTGAATTGAATACTGA-TTGAAAGTGAAAAAGTGA
1 TTGAATTGAATACTGACTTGAAAATGAAAAAGTGA
65213763 TATTAAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 15 0.50
38 15 0.50
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATACTGACTTGAAAATGAAAAAGTGAATT
Found at i:65224602 original size:67 final size:69
Alignment explanation
Indices: 65224525--65224655 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 69
65224515 ATAAACAATA
* * **
65224525 TAATGGTTTTGCCTTTTAAC-TT-AATGGGTAAACAATTATCAAAACAACATAGTTTTGCCTTAT
1 TAATGATTTTGACTTTTAACTTTAAAAAGGTAAACAATTATCAAAACAACATAGTTTTGCCTTAT
65224588 AACT
66 AACT
* *
65224592 TAATGATTTTGACTTTTAACTTTAAAAAAGGTAAACATTTATCAAAACGACATAGTTTTGCCTT
1 TAATGATTTTGACTTTTAACTTT-AAAAAGGTAAACAATTATCAAAACAACATAGTTTTGCCTT
65224656 TTCTTATTCG
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
67 18 0.33
68 2 0.04
70 35 0.64
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (69 bp):
TAATGATTTTGACTTTTAACTTTAAAAAGGTAAACAATTATCAAAACAACATAGTTTTGCCTTAT
AACT
Found at i:65225426 original size:23 final size:22
Alignment explanation
Indices: 65225396--65225438 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
65225386 AGTCTCTATA
*
65225396 CTTTTATTTTTGAGAATTTAGT
1 CTTTTATTTTTCAGAATTTAGT
*
65225418 CTTTCTATTTTTCAGATTTTA
1 CTTT-TATTTTTCAGAATTTA
65225439 AAACTCAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.60
Consensus pattern (22 bp):
CTTTTATTTTTCAGAATTTAGT
Found at i:65229533 original size:20 final size:17
Alignment explanation
Indices: 65229493--65229525 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
65229483 AGACCAAATA
*
65229493 CAAATAATAAATAAAAC
1 CAAAAAATAAATAAAAC
65229510 CAAAAAATAAATAAAA
1 CAAAAAATAAATAAAA
65229526 AGTCCAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (17 bp):
CAAAAAATAAATAAAAC
Found at i:65230841 original size:18 final size:19
Alignment explanation
Indices: 65230818--65230858 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
65230808 TTAAAATACA
65230818 TTTATTTTA-TTATATCGT
1 TTTATTTTATTTATATCGT
*
65230836 TTTA-TTTATTTATATCTT
1 TTTATTTTATTTATATCGT
65230854 TTTAT
1 TTTAT
65230859 ATATTTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTATTTTATTTATATCGT
Found at i:65230863 original size:18 final size:18
Alignment explanation
Indices: 65230827--65230864 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
65230817 ATTTATTTTA
*
65230827 TTATATCGTTTTATTTAT
1 TTATATCGTTTTATATAT
*
65230845 TTATATCTTTTTATATAT
1 TTATATCGTTTTATATAT
65230863 TT
1 TT
65230865 TCAAACTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TTATATCGTTTTATATAT
Found at i:65236689 original size:22 final size:20
Alignment explanation
Indices: 65236681--65236743 Score: 94
Period size: 19 Copynumber: 3.1 Consensus size: 20
65236671 AGATTACAAA
65236681 ATCATATCTTCCAAGATTGCAT
1 ATCATATC-T-CAAGATTGCAT
65236703 ATCATATC-CAAGATTGCAT
1 ATCATATCTCAAGATTGCAT
65236722 ATCATATCT-AAGATTGCAT
1 ATCATATCTCAAGATTGCAT
65236741 ATC
1 ATC
65236744 CTTGAATATT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
19 32 0.80
22 8 0.20
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.35
Consensus pattern (20 bp):
ATCATATCTCAAGATTGCAT
Found at i:65236714 original size:19 final size:19
Alignment explanation
Indices: 65236690--65236743 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
65236680 AATCATATCT
65236690 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
65236709 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
65236728 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
65236744 CTTGAATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.33
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:65237209 original size:44 final size:44
Alignment explanation
Indices: 65237159--65237387 Score: 156
Period size: 44 Copynumber: 5.2 Consensus size: 44
65237149 GTCGGTGCAA
65237159 GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
1 GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
* * * * * ** * * ****
65237203 GGAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAG
1 GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCCAG
*
65237247 GAAGACAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
1 GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
* * * * * ** * * ***
65237291 GGAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAG
1 GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCCAG
* * *
65237335 GAAGGTAAGATCTACTATTTTTAACCAGCTCCGCTGCAACCCAG
1 GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
*
65237379 GTAGGCAAG
1 GAAGGCAAG
65237388 GCTAGTGTCT
Statistics
Matches: 124, Mismatches: 57, Indels: 8
0.66 0.30 0.04
Matches are distributed among these distances:
43 36 0.29
44 54 0.44
45 34 0.27
ACGTcount: A:0.22, C:0.26, G:0.27, T:0.25
Consensus pattern (44 bp):
GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
Found at i:65237256 original size:88 final size:88
Alignment explanation
Indices: 65237103--65238127 Score: 1169
Period size: 88 Copynumber: 11.8 Consensus size: 88
65237093 AACTTGATCT
* * * * *
65237103 GCTGCAACTCGGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
65237168 ATCTGCTATTTTTAACCTGCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * *
65237191 GCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGACAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
65237256 ATCTGCTATTTTTAACCTGCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * *
65237279 GCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGTAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
* *
65237344 ATCTACTATTTTTAACCAGCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * *
65237367 GCTGCAACCCAGGTAGGCAAGGCTAGTGTCTTC-A-AT-C-T-GC--T---T-CAGGATGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
*
65237421 ATCTGCTATCTTTAACCTGCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * * * * **
65237444 GCTGCCACCGAGGGAGGCGAGGCTAGTGTCTTCAATCTGCTTCACTGT-TATACAGGAAGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
* * *
65237508 ATCTGCTATCTTTAACCTGTTGC
66 ATCTGCTATTTTTAACCTGCTCC
* * ** * * * * *
65237531 ACTGCCACTGAGGAAGGCAATGCTAGTGTCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
*
65237596 ATCTGCTATCTTTAACCTGCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * * * * * **
65237619 GCTGCCACCGAGTGAGGCAAGGCTAGTGTCTTCAATCTGTTTCACTGTTAGTACAGGAAGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
*
65237684 ATCTGCTATCTTTAACCTGCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * * * * * * * * * **
65237707 GCTGCCACCGAGGGAGGCAAGGCTAGTGTCTCCGATCTACTCCACT-ACTGCT-TAGGGAGATAA
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTC-GGTACAGGAAGGCAA
* * * * *
65237770 GATCGGCAATTTTCAACATGCTCT
65 GATCTGCTATTTTTAACCTGCTCC
* * *
65237794 GCTGCAACCCAGGGAGGCAAGGCTAGAGTCTTTGATTTGCTTCGCTGTCGGTACAGGAAGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
* *
65237859 ATCTGTTATTTTTAACCTACTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * ** *
65237882 GCTGCAACCTAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAGTACAGAAAGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
* *
65237947 ATCTGCTATTTTCAACCTTCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * * * * *
65237970 GCTGCAACCCAGTGAGGCAAGGTTAATGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGACAAT
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
65238035 ATCTGCTATTTTTAACCTGCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * * * *
65238058 GCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAGG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
65238123 ATCTG
66 ATCTG
65238128 TTATCTTCAC
Statistics
Matches: 807, Mismatches: 116, Indels: 28
0.85 0.12 0.03
Matches are distributed among these distances:
77 59 0.07
78 2 0.00
79 1 0.00
80 1 0.00
81 2 0.00
82 1 0.00
83 2 0.00
84 2 0.00
85 1 0.00
86 2 0.00
87 140 0.17
88 594 0.74
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.27
Consensus pattern (88 bp):
GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
ATCTGCTATTTTTAACCTGCTCC
Found at i:65237549 original size:44 final size:44
Alignment explanation
Indices: 65237410--65237727 Score: 145
Period size: 44 Copynumber: 7.2 Consensus size: 44
65237400 AATCTGCTTC
* * * *
65237410 AGGATGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCG
1 AGGAAGGCAAGATCTGCTATCTTTAACCTGTTCCACTGCCACTG
* * * * * * ** *
65237454 AGGGAGGCGAG-GCTAG-TGTCTTCAATCTGCTT-CACTGTTA-TAC
1 AGGAAGGCAAGATCT-GCTATCTTTAACCTG-TTCCACTGCCACT-G
*
65237497 AGGAAGGCAAGATCTGCTATCTTTAACCTGTTGCACTGCCACTG
1 AGGAAGGCAAGATCTGCTATCTTTAACCTGTTCCACTGCCACTG
* * * * * *
65237541 AGGAAGGC-A-ATGCTAG-TGTCTTCAATCTGCTT-CACTGTCAGTAC
1 AGGAAGGCAAGAT-CT-GCTATCTTTAACCTG-TTCCACTGCCACT-G
* * *
65237585 AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCG
1 AGGAAGGCAAGATCTGCTATCTTTAACCTGTTCCACTGCCACTG
* * * * * ** * *
65237629 AGTG-AGGCAAG-GCTAG-TGTCTTCAATCTGTTTCACTGTTAGTAC
1 AG-GAAGGCAAGATCT-GCTATCTTTAACCTGTTCCACTGCCACT-G
* * *
65237673 AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCG
1 AGGAAGGCAAGATCTGCTATCTTTAACCTGTTCCACTGCCACTG
*
65237717 AGGGAGGCAAG
1 AGGAAGGCAAG
65237728 GCTAGTGTCT
Statistics
Matches: 191, Mismatches: 62, Indels: 42
0.65 0.21 0.14
Matches are distributed among these distances:
42 2 0.01
43 69 0.36
44 79 0.41
45 39 0.20
46 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.26
Consensus pattern (44 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCTGTTCCACTGCCACTG
Found at i:65237850 original size:263 final size:262
Alignment explanation
Indices: 65237115--65238134 Score: 1195
Period size: 263 Copynumber: 3.9 Consensus size: 262
65237105 TGCAACTCGG
* * ** * * *
65237115 GGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTT
1 GGAGGCAAGGCTAGTGTCTTCAATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTT
* *
65237180 TAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGC
66 TAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTC-GTGC
*
65237245 AGGAAGACAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCT
130 AGGAAGACAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCT
* * * *
65237310 TCGATCTGCTTCGCTGTCAGTACAGGAAGGTAAGATCTACTATTTTTAACCAGCTCCGCTGCAAC
195 TCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAAC
65237375 CCA
260 CCA
*
65237378 GGTAGGCAAGGCTAGTGTCTTCAA--T-C-T-GC---T--T-CAGGATGGCAAGATCTGCTATCT
1 GG-AGGCAAGGCTAGTGTCTTCAATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCT
* * * * ** *
65237432 TTAACCTGCTCCGCTGCCACCGAGGGAGGCGAGGCTAGTGTCTTCAATCTGCTTCACTGTTATAC
65 TTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCGTGC
* * * * * * ** * *
65237497 AGGAAGGCAAGATCTGCTATCTTTAACCTGTTGCACTGCCACTGAGGAAGGCAATGCTAGTGTCT
130 AGGAAGACAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCT
* * *
65237562 TCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCAC
195 TCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAAC
*
65237627 CGA
260 CCA
* *
65237630 GTGAGGCAAGGCTAGTGTCTTCAATCTGTTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATCT
1 G-GAGGCAAGGCTAGTGTCTTCAATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCT
* * * * * *
65237695 TTAACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTCCGATCTACTCCACT-AC-TGC
65 TTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCGTGC
* * * * * * * *
65237758 TTAGGGAGATAAGATCGGCAATTTTCAACATGCTCTGCTGCAACCCAGGGAGGCAAGGCTAGAGT
130 --AGGAAGACAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGT
* * * * * *
65237823 CTTTGATTTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGTTATTTTTAACCTACTCCGCTGCA
193 CTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCA
*
65237888 ACCTA
258 ACCCA
* * *
65237893 GGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAGTACAGAAAGGCAAGATCTGCTAT-T
1 -GGAGGCAAGGCTAGTGTCTTCAATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCT
* * * * *
65237957 TTCAACCTTCTCCGCTGCAACCCAGTGAGGCAAGGTTAATGTCTTCGATCTGCTTCGCTGTCGGT
65 TT-AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTC-GT
* * * *
65238022 GCAGGAAGACAATATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGTTGGTGT
128 GCAGGAAGACAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGT
* * * *
65238087 CTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAGGATCTGTTATCTT
193 CTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTT
65238135 CACTGATCTG
Statistics
Matches: 631, Mismatches: 106, Indels: 39
0.81 0.14 0.05
Matches are distributed among these distances:
252 138 0.22
253 75 0.12
254 2 0.00
256 1 0.00
257 1 0.00
259 2 0.00
260 2 0.00
261 3 0.00
262 5 0.01
263 284 0.45
264 115 0.18
266 3 0.00
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.28
Consensus pattern (262 bp):
GGAGGCAAGGCTAGTGTCTTCAATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTT
TAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCGTGCA
GGAAGACAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTT
CGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAACC
CA
Found at i:65242214 original size:22 final size:22
Alignment explanation
Indices: 65242189--65242261 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
65242179 GAACTAAACC
65242189 CTCATGGCTAACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
65242211 CTCATGGCTAACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
** *
65242233 CTCATGTTTCACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
65242255 CTCATGG
1 CTCATGG
65242262 ATATTTATGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (22 bp):
CTCATGGCTAACGTACTAAGCT
Found at i:65243979 original size:11 final size:11
Alignment explanation
Indices: 65243959--65244056 Score: 63
Period size: 11 Copynumber: 9.5 Consensus size: 11
65243949 ATAAAAATTA
65243959 AAAAAGTATTTT
1 AAAAA-TATTTT
65243971 AAAAATATTTT
1 AAAAATATTTT
*
65243982 --AAA-A-TTA
1 AAAAATATTTT
65243989 AAAAAGTATTTT
1 AAAAA-TATTTT
65244001 AAAAA-ATTTT
1 AAAAATATTTT
65244011 --AAA-A-TTT
1 AAAAATATTTT
*
65244018 AAAAAT-TTAAT
1 AAAAATATT-TT
*
65244029 AAAAGTATTTT
1 AAAAATATTTT
*
65244040 AAAAGTATTTT
1 AAAAATATTTT
65244051 AAAAAT
1 AAAAAT
65244057 TAAAAAAATA
Statistics
Matches: 69, Mismatches: 6, Indels: 23
0.70 0.06 0.23
Matches are distributed among these distances:
7 5 0.07
8 5 0.07
9 9 0.13
10 6 0.09
11 30 0.43
12 14 0.20
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:65243986 original size:30 final size:30
Alignment explanation
Indices: 65243952--65244043 Score: 127
Period size: 29 Copynumber: 3.1 Consensus size: 30
65243942 ATTTAAAATA
65243952 AAAATTAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAAGTATTTTAAAAATATTTT
65243982 AAAATTAAAAAAGTATTTTAAAAA-ATTTT
1 AAAATTAAAAAAGTATTTTAAAAATATTTT
* * *
65244011 AAAATTTAAAAA-T-TTAATAAAAGTATTTT
1 AAAATTAAAAAAGTATT-TTAAAAATATTTT
65244040 AAAA
1 AAAA
65244044 GTATTTTAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
27 2 0.04
28 6 0.11
29 25 0.44
30 24 0.42
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (30 bp):
AAAATTAAAAAAGTATTTTAAAAATATTTT
Found at i:65244033 original size:39 final size:38
Alignment explanation
Indices: 65243977--65244071 Score: 120
Period size: 39 Copynumber: 2.4 Consensus size: 38
65243967 TTTTAAAAAT
*
65243977 ATTTTAAAATTAAAAAAGTATTTTAAAA-AATTTTAAA
1 ATTTAAAAATTAAAAAAGTATTTTAAAAGAATTTTAAA
*
65244014 ATTTAAAAATTTAATAAAAGTATTTTAAAAGTATTTTAAAA
1 ATTTAAAAA-TTAA-AAAAGTATTTTAAAAGAATTTT-AAA
* *
65244055 ATTAAAAAAATAAAAAA
1 ATTTAAAAATTAAAAAA
65244072 TAATAAAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
37 8 0.16
38 4 0.08
39 19 0.38
40 8 0.16
41 11 0.22
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (38 bp):
ATTTAAAAATTAAAAAAGTATTTTAAAAGAATTTTAAA
Found at i:65244065 original size:50 final size:47
Alignment explanation
Indices: 65243990--65244085 Score: 113
Period size: 47 Copynumber: 2.0 Consensus size: 47
65243980 TTAAAATTAA
** * *
65243990 AAAAGTATTTTAAAAAATTTTAAAATTTAAAAATTTAATAAAAGTATTTT
1 AAAAGTATTTTAAAAAA--TTAAAAAATAAAAA-ATAATAAAAATATTTT
65244040 AAAAGTATTTT-AAAAATTAAAAAAATAAAAAATAATAAAAATATTT
1 AAAAGTATTTTAAAAAATT-AAAAAATAAAAAATAATAAAAATATTT
65244086 ATTATATTCG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
47 15 0.37
48 10 0.24
49 5 0.12
50 11 0.27
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (47 bp):
AAAAGTATTTTAAAAAATTAAAAAATAAAAAATAATAAAAATATTTT
Found at i:65244072 original size:16 final size:16
Alignment explanation
Indices: 65244050--65244082 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
65244040 AAAAGTATTT
*
65244050 TAAAAATTAA-AAAAA
1 TAAAAAATAATAAAAA
65244065 TAAAAAATAATAAAAA
1 TAAAAAATAATAAAAA
65244081 TA
1 TA
65244083 TTTATTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
TAAAAAATAATAAAAA
Found at i:65245413 original size:21 final size:21
Alignment explanation
Indices: 65245376--65245430 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
65245366 AATCATATCT
65245376 TCCAAGATTGC--ATATCATA
1 TCCAAGATTGCATATATCATA
65245395 TCCAAGATTGCATATATCATA
1 TCCAAGATTGCATATATCATA
*
65245416 TCTAAGATTGCATAT
1 TCCAAGATTGCATAT
65245431 CCTTGAAGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 11 0.33
21 22 0.67
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (21 bp):
TCCAAGATTGCATATATCATA
Found at i:65246178 original size:16 final size:16
Alignment explanation
Indices: 65246159--65246207 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
65246149 TTTAAATTAC
*
65246159 TTAAATTCAAA-TCAAA
1 TTAAATT-AAACTAAAA
65246175 TTAAATTAAACTAAAA
1 TTAAATTAAACTAAAA
*
65246191 TTAAA--AAAATAAAA
1 TTAAATTAAACTAAAA
65246205 TTA
1 TTA
65246208 TTTCAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 11 0.37
15 3 0.10
16 16 0.53
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (16 bp):
TTAAATTAAACTAAAA
Found at i:65247693 original size:4 final size:4
Alignment explanation
Indices: 65247686--65247723 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
65247676 TTTATTTGTG
65247686 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT AT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT AT
65247724 ATATATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.24, G:0.00, T:0.50
Consensus pattern (4 bp):
ATCT
Found at i:65255443 original size:18 final size:18
Alignment explanation
Indices: 65255420--65255475 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
65255410 TTTCATTTAC
65255420 TTACTTTTATTTTTATTT
1 TTACTTTTATTTTTATTT
*
65255438 TTACTTTGT-TTTTTGAGTT
1 TTACTTT-TATTTTT-ATTT
* *
65255457 TT-CTTTTAATTTCATTT
1 TTACTTTTATTTTTATTT
65255474 TT
1 TT
65255476 CGAAATATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
17 6 0.19
18 19 0.61
19 6 0.19
ACGTcount: A:0.14, C:0.07, G:0.05, T:0.73
Consensus pattern (18 bp):
TTACTTTTATTTTTATTT
Found at i:65256186 original size:23 final size:21
Alignment explanation
Indices: 65256147--65256193 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
65256137 AATTAATAAC
65256147 ATTATTATTATTACTATTGAT
1 ATTATTATTATTACTATTGAT
* *
65256168 ATTATTTATATATTTCTATTTAT
1 ATTA-TTAT-TATTACTATTGAT
65256191 ATT
1 ATT
65256194 TATGTAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 4 0.18
23 14 0.64
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTATTATTATTACTATTGAT
Found at i:65256526 original size:26 final size:25
Alignment explanation
Indices: 65256487--65256538 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
65256477 TGTATATATA
*
65256487 TATATATATATACTTATTTTTTAACT
1 TATATACATATACTTA-TTTTTAACT
*
65256513 TATATACATGTACTTATTTTTAACT
1 TATATACATATACTTATTTTTAACT
65256538 T
1 T
65256539 TCATAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.33, C:0.10, G:0.02, T:0.56
Consensus pattern (25 bp):
TATATACATATACTTATTTTTAACT
Found at i:65262461 original size:11 final size:11
Alignment explanation
Indices: 65262446--65262502 Score: 68
Period size: 11 Copynumber: 5.4 Consensus size: 11
65262436 AAAAATTAAA
65262446 AAAAAGTATTTT
1 AAAAA-TATTTT
65262458 AAAAATATTTT
1 AAAAATATTTT
65262469 AAAAATA----
1 AAAAATATTTT
65262476 AAAAAGTATTTT
1 AAAAA-TATTTT
65262488 AAAAATATTTT
1 AAAAATATTTT
65262499 AAAA
1 AAAA
65262503 TAAAAAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
7 5 0.12
8 2 0.05
11 23 0.57
12 10 0.25
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:65262479 original size:30 final size:29
Alignment explanation
Indices: 65262445--65262509 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 29
65262435 AAAAAATTAA
65262445 AAAAAAGTATTTTAAAAATATTTTAAAAAT
1 AAAAAAGTATTTTAAAAATATTTT-AAAAT
65262475 AAAAAAGTATTTTAAAAATATTTTAAAAT
1 AAAAAAGTATTTTAAAAATATTTTAAAAT
65262504 AAAAAA
1 AAAAAA
65262510 ATAAATATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.31
30 24 0.69
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAAAAGTATTTTAAAAATATTTTAAAAT
Found at i:65262485 original size:19 final size:18
Alignment explanation
Indices: 65262458--65262494 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
65262448 AAAGTATTTT
65262458 AAAAATATTTTAAAAATA
1 AAAAATATTTTAAAAATA
65262476 AAAAAGTATTTTAAAAATA
1 AAAAA-TATTTTAAAAATA
65262495 TTTTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
AAAAATATTTTAAAAATA
Found at i:65267238 original size:56 final size:56
Alignment explanation
Indices: 65267173--65267302 Score: 156
Period size: 56 Copynumber: 2.3 Consensus size: 56
65267163 TTAATTCATT
* * * * *
65267173 TAATAATTATATTAAGGATGTTATTAAATTA-TT-TTATTTTATTAAATTGTATTTAA
1 TAATAATTATATTAA-AATATGATTAAATTATTTATTA-TTTATTAAAATATATTTAA
*
65267229 TAATAATTATGTTAAAATATGATTAAATTATTTATTATTTATTAAAATATATTTAA
1 TAATAATTATATTAAAATATGATTAAATTATTTATTATTTATTAAAATATATTTAA
* *
65267285 CAATAATTTTATTAAAAT
1 TAATAATTATATTAAAAT
65267303 TTAATAACAA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
55 12 0.19
56 48 0.76
57 3 0.05
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.51
Consensus pattern (56 bp):
TAATAATTATATTAAAATATGATTAAATTATTTATTATTTATTAAAATATATTTAA
Found at i:65267310 original size:25 final size:26
Alignment explanation
Indices: 65267266--65267315 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
65267256 TTATTTATTA
*
65267266 TTTATTAAAATATATTTAACAATAAT
1 TTTATTAAAATATATATAACAATAAT
*
65267292 TTTATTAAAATTTA-ATAACAATAA
1 TTTATTAAAATATATATAACAATAA
65267316 CAATAATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (26 bp):
TTTATTAAAATATATATAACAATAAT
Found at i:65267449 original size:44 final size:44
Alignment explanation
Indices: 65267400--65267488 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 44
65267390 ACATCTATTT
65267400 CATTCAACTAAACACAA-GAATGT-T-ATTACAGCTCTATTCCATTC
1 CATTCAAC-AAA-ACAAGGAAT-TATGATTACAGCTCTATTCCATTC
65267444 CATTCAACAAAACAATGGAATTACTGATTACAGCTCTATTCCATT
1 CATTCAACAAAACAA-GGAATTA-TGATTACAGCTCTATTCCATT
65267489 ACAACTCTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
42 4 0.10
43 4 0.10
44 12 0.30
45 1 0.03
46 19 0.47
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (44 bp):
CATTCAACAAAACAAGGAATTATGATTACAGCTCTATTCCATTC
Found at i:65267491 original size:16 final size:16
Alignment explanation
Indices: 65267470--65267521 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
65267460 GGAATTACTG
65267470 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
65267486 ATTACAACTCTATTCA
1 ATTACAGCTCTATTCC
65267502 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
65267518 ATTA
1 ATTA
65267522 GAGTGAACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:65268151 original size:27 final size:27
Alignment explanation
Indices: 65268120--65268174 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
65268110 AAAAATAAAA
65268120 TTCTGACACTACCGTTTCAAATACCAC
1 TTCTGACACTACCGTTTCAAATACCAC
65268147 TTCTGACACTACCGTTTCAAATACCAC
1 TTCTGACACTACCGTTTCAAATACCAC
65268174 T
1 T
65268175 AACTTTTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.33, G:0.07, T:0.31
Consensus pattern (27 bp):
TTCTGACACTACCGTTTCAAATACCAC
Found at i:65272400 original size:9 final size:9
Alignment explanation
Indices: 65272386--65272488 Score: 143
Period size: 9 Copynumber: 11.4 Consensus size: 9
65272376 GTAGTGATTC
*
65272386 AATTTGGTT
1 AATTCGGTT
*
65272395 AATTTGGTT
1 AATTCGGTT
*
65272404 AATTCGGGT
1 AATTCGGTT
65272413 AATTCGGTT
1 AATTCGGTT
*
65272422 AATTCGGAT
1 AATTCGGTT
*
65272431 AATTCGGGT
1 AATTCGGTT
*
65272440 AATTTGGTT
1 AATTCGGTT
*
65272449 AATTCGGGT
1 AATTCGGTT
65272458 AATTCGGTT
1 AATTCGGTT
65272467 AATTCGGTT
1 AATTCGGTT
65272476 AATTCGGTT
1 AATTCGGTT
65272485 AATT
1 AATT
65272489 TTTAACCAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 84 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (9 bp):
AATTCGGTT
Found at i:65274197 original size:228 final size:228
Alignment explanation
Indices: 65272954--65274074 Score: 1713
Period size: 228 Copynumber: 4.9 Consensus size: 228
65272944 CTCTCCAAAG
* * * *
65272954 ATGCAGATCTTCGTCAAAACCCTT-ACCGGCAAGACCATCACCCTCGAGGTTGAGAGTTCTGACA
1 ATGCAGATCTTCGTCAAAA-CCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACA
65273018 CCATCGACAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
65 CCATCGACAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
*
65273083 ATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
130 ATCTTCGCCGGCAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
*
65273148 TACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
195 CACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
65273182 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
* *
65273247 CATCGATAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTTA
66 CATCGACAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
*
65273312 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
131 TCTTCGCCGGCAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
* *
65273377 ACCCTCCACCTTGTCTTACGTCTTCGTGGGGGT
196 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
* *
65273410 ATGCAGATCTTCGTCAAAACTTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
* *
65273475 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 CATCGACAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
65273540 TCTTCGCCGGCAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
131 TCTTCGCCGGCAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
65273605 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
196 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
65273638 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
* *
65273703 CATCGACAATGTCAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 CATCGACAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
* * * * *
65273768 TCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCCTGGCCGATTATAATATCCAGAAGGAATCC
131 TCTTCGCCGGCAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
* * *
65273833 ACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGA
196 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
* * * * * * * *
65273866 ATGCAGATCTTCGTGAAAACCTTGACCGGCAAGACCATCACCTTGGAGGTGGAGAGTTCGGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
* * * * * * * * * * *
65273931 CATCGACAATGTAAAGGCGAAGATTCAGGACAAGGAAGGGATCCCGCCAGACCAACAACGTTTGA
66 CATCGACAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
* * * * * * ** * * * *
65273996 TCTTTGCAGGGAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATCG
131 TCTTCGCCGGCAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
*
65274061 ACCCTTCACCTTGT
196 ACCCTCCACCTTGT
65274075 TTTGAGGCTT
Statistics
Matches: 828, Mismatches: 64, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
227 4 0.00
228 824 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.19
Consensus pattern (228 bp):
ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
CATCGACAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
TCTTCGCCGGCAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
Found at i:65274229 original size:228 final size:228
Alignment explanation
Indices: 65272954--65274305 Score: 972
Period size: 228 Copynumber: 5.9 Consensus size: 228
65272944 CTCTCCAAAG
* * * * ** * * * *
65272954 ATGCAGATCTTCGTCAAAACCCTT-ACCGGCAAGACCATCACCCTCGAGGTTGAGAGTTCTGACA
1 ATGCAGATCTTCGTGAAAA-CATTGACCGGCAAAACAATCACATTGGAGGTGGAAAGTTCGGACA
* * * * *
65273018 CCATCGACAATGTGAAGTCTAAA-ATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCT
65 CAATCGACAATGTAAAGGC-AAAGATTCAGGACAAGGAAGGCATCCCACCAGACCAGCAACGTCT
* * * * * * ** * * *
65273082 CATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAAT
129 CATCTTTGCAGGCAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAAT
* * * * * * * *
65273147 CTACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
194 CCACCCTTCACCTTGTTCTCAGGCTTCGCGGAGGA
* * * * * ** * * * * * *
65273182 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTGAAAACATTGACCGGCAAAACAATCACATTGGAGGTGGAAAGTTCGGACAC
* * * * * * *
65273247 CATCGATAATGTGAAGTCTAAA-ATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTT
66 AATCGACAATGTAAAGGC-AAAGATTCAGGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTC
* * * * * * ** * * *
65273311 ATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
130 ATCTTTGCAGGCAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATC
* * * * * *
65273376 CACCCTCCACCTTG-TCTTACGTCTTCGTGGGGGT
195 CACCCTTCACCTTGTTCTCA-GGCTTCGCGGAGGA
* * * * * ** * * * * * *
65273410 ATGCAGATCTTCGTCAAAACTTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACAC
1 ATGCAGATCTTCGTGAAAACATTGACCGGCAAAACAATCACATTGGAGGTGGAAAGTTCGGACAC
* * * * *
65273475 CATCGATAATGTAAAGTCTAAA-ATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
66 AATCGACAATGTAAAGGC-AAAGATTCAGGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTC
* * * * * ** * * *
65273539 ATCTTCGCCGGCAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
130 ATCTTTGCAGGCAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATC
* * * * * * *
65273604 CACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
195 CACCCTTCACCTTGTTCTCAGGCTTCGCGGAGGA
* * * * * ** * * * * * *
65273638 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTGAAAACATTGACCGGCAAAACAATCACATTGGAGGTGGAAAGTTCGGACAC
* * * * * *
65273703 CATCGACAATGTCAAGTCTAAA-ATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
66 AATCGACAATGTAAAGGC-AAAGATTCAGGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTC
* * * * * ** * * * *
65273767 ATCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCCTGGCCGATTATAATATCCAGAAGGAATC
130 ATCTTTGCAGGCAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATC
* * * * * *
65273832 CACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGA
195 CACCCTTCACCTTGTTCTCAGGCTTCGCGGAGGA
* * * * *
65273866 ATGCAGATCTTCGTGAAAACCTTGACCGGCAAGACCATCACCTTGGAGGTGGAGAGTTCGGACAC
1 ATGCAGATCTTCGTGAAAACATTGACCGGCAAAACAATCACATTGGAGGTGGAAAGTTCGGACAC
* * * * * * *
65273931 CATCGACAATGTAAAGGCGAAGATTCAGGACAAGGAAGGGATCCCGCCAGACCAACAACGTTTGA
66 AATCGACAATGTAAAGGCAAAGATTCAGGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTCA
* *
65273996 TCTTTGCAGGGAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATCG
131 TCTTTGCAGGCAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATCC
* * * *
65274061 ACCCTTCACCTTGTTTTGAGGCTTCGTGGAGGC
196 ACCCTTCACCTTGTTCTCAGGCTTCGCGGAGGA
* * * * * *
65274094 ATGCAGATTTTCGTTAAGACATTGACTGGGAAAACAATCACATTGGAGGTGGAAAGTTCGGATAC
1 ATGCAGATCTTCGTGAAAACATTGACCGGCAAAACAATCACATTGGAGGTGGAAAGTTCGGACAC
* * * * * * *
65274159 AATTGACAATGTGAAGGCAAAGATTCAGGACAAGGAAGGTATCCCCCCAGATCAGCAAAGGCTCA
66 AATCGACAATGTAAAGGCAAAGATTCAGGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTCA
* * * * * * *
65274224 TCTTTGCTGGCAAGCA-ATTGGAGGATGGGAGGACTTTAGCTGATTATAACATTCAGAAAGAGTC
131 TCTTTGCAGGCAAGCAGCTT-GAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATC
65274288 CACCCTTCACCTTGTTCT
195 CACCCTTCACCTTGTTCT
65274306 TCGTCTCCGT
Statistics
Matches: 1013, Mismatches: 106, Indels: 10
0.90 0.09 0.01
Matches are distributed among these distances:
227 10 0.01
228 1001 0.99
229 2 0.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (228 bp):
ATGCAGATCTTCGTGAAAACATTGACCGGCAAAACAATCACATTGGAGGTGGAAAGTTCGGACAC
AATCGACAATGTAAAGGCAAAGATTCAGGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTCA
TCTTTGCAGGCAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATCC
ACCCTTCACCTTGTTCTCAGGCTTCGCGGAGGA
Found at i:65274292 original size:684 final size:684
Alignment explanation
Indices: 65272954--65274317 Score: 1746
Period size: 684 Copynumber: 2.0 Consensus size: 684
65272944 CTCTCCAAAG
* * * *
65272954 ATGCAGATCTTCGTCAAAACCCTTACCGGCAAGACCATCACCCTCGAGGTTGAGAGTTCTGACAC
1 ATGCAGATCTTCGTCAAAACCCTTACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
* *
65273019 CATCGACAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 CATCGACAATGTCAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
* * *
65273084 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCT
131 TCTTCGCCGGAAAACAGCTCGAAGACGGCCGTACCCTGGCCGATTACAACATCCAGAAGGAATCC
* * *
65273149 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGTATGCAGATCTTCGTCAAAACCTTAACCGGCAA
196 ACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGAATGCAGATCTTCGTCAAAACCTTAACCGGCAA
* * * *
65273214 GACCATCACCCTCGAAGTCGAGAGCTCCGACACCATCGATAATGTGAAGTCTAAAATTCAAGACA
261 GACCATCACCCTCGAAGTCGAGAGCTCCGACACCATCGACAATGTAAAGGCGAAAATTCAAGACA
* * * * *
65273279 AGGAAGGCATCCCACCAGACCAGCAGCGTCTTATCTTCGCCGGAAAACAGCTCGAGGACGGCCGT
326 AGGAAGGCATCCCACCAGACCAACAACGTCTTATCTTCGCAGGAAAACAGCTCGAGGACGGCAGG
* *
65273344 ACCTTGGCCGATTACAACATCCAGAAGGAATCCACCCTCCACCTTGTCTTACGTCTTCGTGGGGG
391 ACCTTGGCCGATTACAACATCCAGAAGGAATCCACCCTCCACCTTGTCTTACGGCTTCGTGGAGG
* * * * * * *
65273409 TATGCAGATCTTCGTCAAAACTTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACA
456 CATGCAGATCTTCGTCAAAACATTAACCGGCAAAACAATCACACTCGAAGTCGAAAGCTCGGACA
* * * ** *
65273474 CCATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
521 CAATCGACAATGTAAAGGCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAAAGGCTC
* * * * *
65273539 ATCTTCGCCGGCAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
586 ATCTTCGCCGGCAAACAACTCGAGGACGGCAGGACCTTAGCCGATTACAACATCCAGAAAGAATC
*
65273604 CACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
651 CACCCTCCACCTTGTCCTCCGTCTCCGTGGGGGT
65273638 ATGCAGATCTTCGTCAAAA-CCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACA
1 ATGCAGATCTTCGTCAAAACCCTT-ACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACA
65273702 CCATCGACAATGTCAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
65 CCATCGACAATGTCAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
* * * *
65273767 ATCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCCTGGCCGATTATAATATCCAGAAGGAATC
130 ATCTTCGCCGGAAAACAGCTCGAAGACGGCCGTACCCTGGCCGATTACAACATCCAGAAGGAATC
* *
65273832 CACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGAATGCAGATCTTCGTGAAAACCTTGACCGGCA
195 CACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGAATGCAGATCTTCGTCAAAACCTTAACCGGCA
* * * * * * * *
65273897 AGACCATCACCTTGGAGGTGGAGAGTTCGGACACCATCGACAATGTAAAGGCGAAGATTCAGGAC
260 AGACCATCACCCTCGAAGTCGAGAGCTCCGACACCATCGACAATGTAAAGGCGAAAATTCAAGAC
* * * * * * * *
65273962 AAGGAAGGGATCCCGCCAGACCAACAACGT-TTGATCTTTGCAGGGAAGCAGCTTGAGGATGGGA
325 AAGGAAGGCATCCCACCAGACCAACAACGTCTT-ATCTTCGCAGGAAAACAGCTCGAGGACGGCA
* * * * *
65274026 GGACCTTGGCTGATTATAACATCCAGAAGGAATCGACCCTTCACCTTGTTTTGA-GGCTTCGTGG
389 GGACCTTGGCCGATTACAACATCCAGAAGGAATCCACCCTCCACCTTGTCTT-ACGGCTTCGTGG
* * * * * * * * * * *
65274090 AGGCATGCAGATTTTCGTTAAGACATTGACTGGGAAAACAATCACATTGGAGGTGGAAAGTTCGG
453 AGGCATGCAGATCTTCGTCAAAACATTAACCGGCAAAACAATCACACTCGAAGTCGAAAGCTCGG
* * * * * * *
65274155 ATACAATTGACAATGTGAAGGC-AAAGATTCAGGACAAGGAAGGTATCCCCCCAGATCAGCAAAG
518 ACACAATCGACAATGTAAAGGCTAAA-ATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAAAG
* * * * * * * * * * *
65274219 GCTCATCTTTGCTGGCAAGCAATTGGAGGATGGGAGGACTTTAGCTGATTATAACATTCAGAAAG
582 GCTCATCTTCGCCGGCAAACAACTCGAGGACGGCAGGACCTTAGCCGATTACAACATCCAGAAAG
* * * *
65274284 AGTCCACCCTTCACCTTGTTCTTCGTCTCCGTGG
647 AATCCACCCTCCACCTTGTCCTCCGTCTCCGTGG
65274318 TGGGCAGTGA
Statistics
Matches: 574, Mismatches: 102, Indels: 8
0.84 0.15 0.01
Matches are distributed among these distances:
683 9 0.02
684 564 0.98
685 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (684 bp):
ATGCAGATCTTCGTCAAAACCCTTACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
CATCGACAATGTCAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
TCTTCGCCGGAAAACAGCTCGAAGACGGCCGTACCCTGGCCGATTACAACATCCAGAAGGAATCC
ACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGAATGCAGATCTTCGTCAAAACCTTAACCGGCAA
GACCATCACCCTCGAAGTCGAGAGCTCCGACACCATCGACAATGTAAAGGCGAAAATTCAAGACA
AGGAAGGCATCCCACCAGACCAACAACGTCTTATCTTCGCAGGAAAACAGCTCGAGGACGGCAGG
ACCTTGGCCGATTACAACATCCAGAAGGAATCCACCCTCCACCTTGTCTTACGGCTTCGTGGAGG
CATGCAGATCTTCGTCAAAACATTAACCGGCAAAACAATCACACTCGAAGTCGAAAGCTCGGACA
CAATCGACAATGTAAAGGCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAAAGGCTC
ATCTTCGCCGGCAAACAACTCGAGGACGGCAGGACCTTAGCCGATTACAACATCCAGAAAGAATC
CACCCTCCACCTTGTCCTCCGTCTCCGTGGGGGT
Found at i:65275840 original size:19 final size:19
Alignment explanation
Indices: 65275813--65275860 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
65275803 TATATAAAAT
* *
65275813 TATACAAAATCAAAGTTTA
1 TATATAAAATCAAAGTTCA
*
65275832 TATATAAAATCGAAGTTCA
1 TATATAAAATCAAAGTTCA
*
65275851 TGTATAAAAT
1 TATATAAAAT
65275861 TACATATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.33
Consensus pattern (19 bp):
TATATAAAATCAAAGTTCA
Found at i:65289267 original size:17 final size:17
Alignment explanation
Indices: 65289244--65289281 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
65289234 AATAAATATA
*
65289244 TTTATTTTTAAAAT-TT
1 TTTAATTTTAAAATGTT
65289260 TTTAATTTTAAAATGTT
1 TTTAATTTTAAAATGTT
65289277 TTTAA
1 TTTAA
65289282 AATACTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
TTTAATTTTAAAATGTT
Found at i:65289728 original size:29 final size:29
Alignment explanation
Indices: 65289681--65289742 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
65289671 TGTAATGTTG
* *
65289681 TACATGAACTTTGATTTTG-TTCAATTTT
1 TACATGAAATTTGAATTTGATTCAATTTT
*
65289709 ATACATGAAATTTTAATTTGATTCAATTTT
1 -TACATGAAATTTGAATTTGATTCAATTTT
65289739 TACA
1 TACA
65289743 AACAACTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 20 0.69
30 9 0.31
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.50
Consensus pattern (29 bp):
TACATGAAATTTGAATTTGATTCAATTTT
Found at i:65295641 original size:33 final size:32
Alignment explanation
Indices: 65295607--65295672 Score: 78
Period size: 36 Copynumber: 1.9 Consensus size: 32
65295597 GAAATGGTAG
*
65295607 CAAAATAGTAAAAAAAAAAAACAACAAAAATAGCAA
1 CAAAACAGTAAAAAAAAAAAAC--CAAAAATAG--A
*
65295643 CAAAACAGTAAAAAAAAATAACCAAAAATA
1 CAAAACAGTAAAAAAAAAAAACCAAAAATA
65295673 ATTGTTGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 8 0.29
36 20 0.71
ACGTcount: A:0.74, C:0.12, G:0.05, T:0.09
Consensus pattern (32 bp):
CAAAACAGTAAAAAAAAAAAACCAAAAATAGA
Found at i:65299545 original size:22 final size:22
Alignment explanation
Indices: 65299520--65299566 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
65299510 TGAAAACAAA
* *
65299520 AAAAAATAATACTGATAATAAT
1 AAAAAATAATAATAATAATAAT
*
65299542 AAAAAATAGTAATAATAATAAT
1 AAAAAATAATAATAATAATAAT
65299564 AAA
1 AAA
65299567 GAAGTTCACG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (22 bp):
AAAAAATAATAATAATAATAAT
Found at i:65301478 original size:51 final size:51
Alignment explanation
Indices: 65301401--65301732 Score: 262
Period size: 46 Copynumber: 6.8 Consensus size: 51
65301391 TTTCAACTTT
* * * * * * *
65301401 AACGCCAGGGAGATAAGATGCGCTGCCTACAACATTAATCTACTCCGCTGC
1 AACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCTACTCCACTGC
65301452 AACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAA--T-CT--ACTGC
1 AACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCTACTCCACTGC
* * * * * **
65301498 GATGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATATGTTCCACTGC
1 AACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCTACTCCACTGC
* * * *
65301549 AACGCCAAAGAAATGAGATTCGCTGCCTTCAGCTTTAATCTA-T----TGC
1 AACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCTACTCCACTGC
* * * * ** *
65301595 AATGCCAAGGAGACAAGATTCACTGCCTTCAGCTTTAATCTGTTCCACCGC
1 AACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCTACTCCACTGC
* *
65301646 AACGCCAAGGAAATGAGATTCATTGCCTTCAACTTTAATCTA-T----TGC
1 AACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCTACTCCACTGC
* * * * * *
65301692 AATGCCAGGGAAACAAGATTCGCCGCCTTCAGCTTTAATCT
1 AACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCT
65301733 GTTCCATTGT
Statistics
Matches: 229, Mismatches: 42, Indels: 25
0.77 0.14 0.08
Matches are distributed among these distances:
46 111 0.48
47 1 0.00
48 3 0.01
49 2 0.01
50 2 0.01
51 110 0.48
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (51 bp):
AACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCTACTCCACTGC
Found at i:65301524 original size:46 final size:46
Alignment explanation
Indices: 65301448--65301732 Score: 282
Period size: 46 Copynumber: 6.0 Consensus size: 46
65301438 ATCTACTCCG
* *
65301448 CTGCAACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCTA
1 CTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTA
* * *
65301494 CTGCGATGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATATGTTCCA
1 CTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTT-A-A---TCTA
* *
65301545 CTGCAACGCCAAAGAAATGAGATTCGCTGCCTTCAGCTTTAATCTA
1 CTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTA
* * * * *
65301591 TTGCAATGCCAAGGAGACAAGATTCACTGCCTTCAGCTTTAATCTGTTCCA
1 CTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC---T--A
* * ** *
65301642 CCGCAACGCCAAGGAAATGAGATTCATTGCCTTCAACTTTAATCTA
1 CTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTA
* * * * *
65301688 TTGCAATGCCAGGGAAACAAGATTCGCCGCCTTCAGCTTTAATCT
1 CTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCT
65301733 GTTCCATTGT
Statistics
Matches: 194, Mismatches: 35, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
46 112 0.58
47 1 0.01
48 2 0.01
49 2 0.01
50 1 0.01
51 76 0.39
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (46 bp):
CTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTA
Found at i:65301579 original size:97 final size:97
Alignment explanation
Indices: 65301415--65301738 Score: 459
Period size: 97 Copynumber: 3.3 Consensus size: 97
65301405 CCAGGGAGAT
* * * * ** * *
65301415 AAGATGCGCTGCCTACAACATTAATCTACTCCGCTGCAACGCCAAGGAAATAAGATTCACTGCCT
1 AAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATGAGATTCACTGCCT
* * *
65301480 TCAACTTTAATCTACTGCGATGCCAAGGAAAT
66 TCAACTTTAATCTATTGCAATGCCAAGGAAAC
* * *
65301512 AAGATTCGCTGCCTTCAGCTTTAATATGTTCCACTGCAACGCCAAAGAAATGAGATTCGCTGCCT
1 AAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATGAGATTCACTGCCT
* *
65301577 TCAGCTTTAATCTATTGCAATGCCAAGGAGAC
66 TCAACTTTAATCTATTGCAATGCCAAGGAAAC
* * *
65301609 AAGATTCACTGCCTTCAGCTTTAATCTGTTCCACCGCAACGCCAAGGAAATGAGATTCATTGCCT
1 AAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATGAGATTCACTGCCT
*
65301674 TCAACTTTAATCTATTGCAATGCCAGGGAAAC
66 TCAACTTTAATCTATTGCAATGCCAAGGAAAC
*
65301706 AAGATTCGCCGCCTTCAGCTTTAATCTGTTCCA
1 AAGATTCGCTGCCTTCAGCTTTAATCTGTTCCA
65301739 TTGTAACTTT
Statistics
Matches: 200, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
97 200 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (97 bp):
AAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATGAGATTCACTGCCT
TCAACTTTAATCTATTGCAATGCCAAGGAAAC
Found at i:65302065 original size:24 final size:24
Alignment explanation
Indices: 65302038--65302093 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
65302028 CAGATTGCCC
*
65302038 CCACTGTAATCTTCAAGGTTTAAT
1 CCACTGTAATCTTCAAGGTTCAAT
*
65302062 CCACTATAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
65302086 CCACTGTA
1 CCACTGTA
65302094 CTTTTGGAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGTTCAAT
Found at i:65309076 original size:24 final size:24
Alignment explanation
Indices: 65309029--65309076 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
65309019 GGATCTTAGC
* * *
65309029 TAGCTGCTCTTGCATTTGCGTTTG
1 TAGCTGCTCTTGCATCTCCCTTTG
*
65309053 TAGCTGGTCTTGCATCTCCCTTTG
1 TAGCTGCTCTTGCATCTCCCTTTG
65309077 AAGTTGTTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.08, C:0.25, G:0.23, T:0.44
Consensus pattern (24 bp):
TAGCTGCTCTTGCATCTCCCTTTG
Found at i:65313120 original size:3 final size:3
Alignment explanation
Indices: 65313096--65313144 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
65313086 TAATGAAAAC
* *
65313096 AAT AA- AAT AAT AA- AACT GAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
65313140 AAT AA
1 AAT AA
65313145 AGAAGTTCAC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 34 0.87
4 1 0.03
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Done.