Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 318 of 349
Found at i:106247954 original size:87 final size:89
Alignment explanation
Indices: 106247857--106248018 Score: 222
Period size: 89 Copynumber: 1.8 Consensus size: 89
106247847 CAATACAGAG
* * * *
106247857 ATGCCAAATCATCTTGGATCTACTTC-A-GTGTAAACA-CCTGAAGGTTAGATCTGCTATGTCTT
1 ATGCCAAATCATCTTGGATCTACTTCGATGTGAAAACATCC-AAAGGTCAGATCTACTATGTCTT
*
106247919 CGATTTGCTCCGTGTAAACACAAGA
65 CGATCTGCTCCGTGTAAACACAAGA
* * *
106247944 ATGCCAAATCATCTTGGATCTGCTTCGATGTGAAAACATCCAAAGGTCAGATCTATTATGTTTTC
1 ATGCCAAATCATCTTGGATCTACTTCGATGTGAAAACATCCAAAGGTCAGATCTACTATGTCTTC
106248009 GATCTGCTCC
66 GATCTGCTCC
106248019 CTGTCGAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 25 0.39
88 1 0.02
89 36 0.56
90 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (89 bp):
ATGCCAAATCATCTTGGATCTACTTCGATGTGAAAACATCCAAAGGTCAGATCTACTATGTCTTC
GATCTGCTCCGTGTAAACACAAGA
Found at i:106248178 original size:87 final size:89
Alignment explanation
Indices: 106248077--106248237 Score: 220
Period size: 89 Copynumber: 1.8 Consensus size: 89
106248067 CAATACAGAG
* * *
106248077 ATGCCAAATCATCTTGGATCTACTTC-A-TTGTAAACA-CCTGAAGGCCAGATCTGCTATGTCTT
1 ATGCCAAATCATCTTGGATCTACTTCGACGTGAAAACATCC-AAAGGCCAGATCTGCTATGTCTT
*
106248139 CAATTTGCTCCTTGTAAACACAAGA
65 CAATATGCTCCTTGTAAACACAAGA
* * *
106248164 ATGCCAAATTATCTTGGATCTGCTTCGACGTGAAAACATCCAAAGGTCAGATCTGCTATGTCTTC
1 ATGCCAAATCATCTTGGATCTACTTCGACGTGAAAACATCCAAAGGCCAGATCTGCTATGTCTTC
*
106248229 GATATGCTC
66 AATATGCTC
106248238 TCCGTCGAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 24 0.38
88 1 0.02
89 36 0.57
90 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (89 bp):
ATGCCAAATCATCTTGGATCTACTTCGACGTGAAAACATCCAAAGGCCAGATCTGCTATGTCTTC
AATATGCTCCTTGTAAACACAAGA
Found at i:106248477 original size:44 final size:44
Alignment explanation
Indices: 106248411--106248512 Score: 161
Period size: 44 Copynumber: 2.3 Consensus size: 44
106248401 ATCTGCTCCA
* *
106248411 CTACTGCTTA-GGGAGATAAGATCCGCAATTTTGACCAGTTACC
1 CTACTGCTTAGGGGAGATAAGATCCGCAAATTTAACCAGTTACC
* *
106248454 CTACTGCTTAGGGGAGATAAGATCTGCAAATTTAACCTGTTACC
1 CTACTGCTTAGGGGAGATAAGATCCGCAAATTTAACCAGTTACC
106248498 CTACTGCTTAGGGGA
1 CTACTGCTTAGGGGA
106248513 TTAAGGAGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
43 10 0.19
44 44 0.81
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (44 bp):
CTACTGCTTAGGGGAGATAAGATCCGCAAATTTAACCAGTTACC
Found at i:106255010 original size:19 final size:19
Alignment explanation
Indices: 106254975--106255072 Score: 137
Period size: 19 Copynumber: 5.2 Consensus size: 19
106254965 AGATTACAAG
*
106254975 ATCATATCTTCAAGATTGCGT
1 ATCATATC-T-AAGATTGCAT
106254996 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
* *
106255015 ATCATATATAAAATTG--T
1 ATCATATCTAAGATTGCAT
106255032 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
106255051 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
106255070 ATC
1 ATC
106255073 CTTAAAGATT
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
17 15 0.21
19 46 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:106255036 original size:36 final size:36
Alignment explanation
Indices: 106254994--106255066 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
106254984 TCAAGATTGC
106254994 GTATCATATCTAAGATTGCATATCATATATAAAATT
1 GTATCATATCTAAGATTGCATATCATATATAAAATT
* *
106255030 GTATCATATCTAAGATTGCATATCATATCTAAGATT
1 GTATCATATCTAAGATTGCATATCATATATAAAATT
106255066 G
1 G
106255067 CATATCCTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.38
Consensus pattern (36 bp):
GTATCATATCTAAGATTGCATATCATATATAAAATT
Found at i:106256470 original size:26 final size:26
Alignment explanation
Indices: 106256441--106256496 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
106256431 TGGTACAAAT
*
106256441 TGATAATGGGTTAGGTGAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
106256467 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
106256493 TGAT
1 TGAT
106256497 TGGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:106263470 original size:26 final size:26
Alignment explanation
Indices: 106263441--106263496 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
106263431 TGATACAAAT
106263441 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
106263467 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
106263493 TGAT
1 TGAT
106263497 TGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:106268435 original size:18 final size:19
Alignment explanation
Indices: 106268404--106268441 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
106268394 TATATTCTAA
*
106268404 TATTAATT-ATTAAAATAT
1 TATTAATTAATAAAAATAT
*
106268422 TATTACTTAATAAAAATAT
1 TATTAATTAATAAAAATAT
106268441 T
1 T
106268442 TAAAAGCCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTAATTAATAAAAATAT
Found at i:106273444 original size:26 final size:27
Alignment explanation
Indices: 106273385--106273444 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
106273375 AAGTAGCCCT
106273385 GAAGAG-CTATTAATCAGGAAGCTCAC
1 GAAGAGCCTATTAATCAGGAAGCTCAC
*
106273411 AAAGAGCCT-TTAATC-GAGAAGCTCAC
1 GAAGAGCCTATTAATCAG-GAAGCTCAC
106273437 GAAGAGCC
1 GAAGAGCC
106273445 ATATATCGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 1 0.03
26 27 0.90
27 2 0.07
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (27 bp):
GAAGAGCCTATTAATCAGGAAGCTCAC
Found at i:106275690 original size:25 final size:25
Alignment explanation
Indices: 106275662--106275745 Score: 60
Period size: 25 Copynumber: 3.4 Consensus size: 25
106275652 ACATGTAAAT
* *
106275662 GGGAAGCTCTTTTGAGCCATATAAC
1 GGGAAGCTCTTATGAGCAATATAAC
* * * *** *
106275687 GGGAAACTCATGTGAGCTGCATAAT
1 GGGAAGCTCTTATGAGCAATATAAC
* * *
106275712 GGGAAGCTCTTACGAGCAATTTATC
1 GGGAAGCTCTTATGAGCAATATAAC
106275737 GGGAAGCTC
1 GGGAAGCTC
106275746 AAGAGAGCCA
Statistics
Matches: 42, Mismatches: 17, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (25 bp):
GGGAAGCTCTTATGAGCAATATAAC
Found at i:106275777 original size:25 final size:25
Alignment explanation
Indices: 106275733--106275784 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
106275723 ACGAGCAATT
106275733 TATCGGGAAGCTCAAGAGAGCCAAA
1 TATCGGGAAGCTCAAGAGAGCCAAA
* *
106275758 TATCGGGATGCTCATA-AGAGCTAAA
1 TATCGGGAAGCTCA-AGAGAGCCAAA
106275783 TA
1 TA
106275785 ATGGAAAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.19
Consensus pattern (25 bp):
TATCGGGAAGCTCAAGAGAGCCAAA
Found at i:106277177 original size:26 final size:26
Alignment explanation
Indices: 106277148--106277201 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
106277138 GAAAAAAGAA
106277148 GACTATGCCCTCACCATATGAAATAT
1 GACTATGCCCTCACCATATGAAATAT
* * *
106277174 GACTATGTCTTCACCATATGCAATAT
1 GACTATGCCCTCACCATATGAAATAT
106277200 GA
1 GA
106277202 ATTAGTAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (26 bp):
GACTATGCCCTCACCATATGAAATAT
Found at i:106277749 original size:11 final size:10
Alignment explanation
Indices: 106277721--106277756 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
106277711 TTTCTTATTT
106277721 CTATTCTTTAG
1 CTATT-TTTAG
106277732 CTATTTTTAG
1 CTATTTTTAG
106277742 CTATTTTTAG
1 CTATTTTTAG
106277752 CTATT
1 CTATT
106277757 CTTCTTGCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 20 0.80
11 5 0.20
ACGTcount: A:0.19, C:0.14, G:0.08, T:0.58
Consensus pattern (10 bp):
CTATTTTTAG
Found at i:106282908 original size:17 final size:17
Alignment explanation
Indices: 106282886--106282920 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
106282876 TGTTCTGAGC
*
106282886 ATTATCTTTTTCAGCTA
1 ATTATCTTTTTCAACTA
106282903 ATTATCTTTTTCAACTA
1 ATTATCTTTTTCAACTA
106282920 A
1 A
106282921 CTCCAGGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.03, T:0.51
Consensus pattern (17 bp):
ATTATCTTTTTCAACTA
Found at i:106286995 original size:24 final size:24
Alignment explanation
Indices: 106286984--106287048 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 24
106286974 TTATCATTTA
106286984 AATATATAATTTAAATATATTAAT
1 AATATATAATTTAAATATATTAAT
*
106287008 AATATATAA--T-AATATATAAAT
1 AATATATAATTTAAATATATTAAT
106287029 AATATAATAATATATAAATA
1 AATAT-ATAAT-T-TAAATA
106287049 AATATATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
21 15 0.44
22 5 0.15
24 9 0.26
26 1 0.03
27 4 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AATATATAATTTAAATATATTAAT
Found at i:106287011 original size:11 final size:11
Alignment explanation
Indices: 106286997--106287066 Score: 85
Period size: 11 Copynumber: 6.6 Consensus size: 11
106286987 ATATAATTTA
*
106286997 AATATATTAAT
1 AATATATAAAT
106287008 AATATAT-AAT
1 AATATATAAAT
106287018 AATATATAAAT
1 AATATATAAAT
106287029 -A-ATAT-AAT
1 AATATATAAAT
106287037 AATATATAAAT
1 AATATATAAAT
106287048 AAATATATAAAT
1 -AATATATAAAT
*
106287060 AAAATAT
1 AATATAT
106287067 GCGTTATATA
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
8 3 0.06
9 5 0.09
10 15 0.28
11 19 0.36
12 11 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AATATATAAAT
Found at i:106287027 original size:29 final size:31
Alignment explanation
Indices: 106286996--106287066 Score: 60
Period size: 31 Copynumber: 2.3 Consensus size: 31
106286986 TATATAATTT
*
106286996 AAATATATTAATAATATATAATAATATATAAAT
1 AAATATATAAAT-A-ATATAATAATATATAAAT
106287029 -AATATA-ATAAT-ATATAAATAAATATATAAAT
1 AAATATATA-AATAATAT-AAT-AATATATAAAT
106287060 AAA-ATAT
1 AAATATAT
106287067 GCGTTATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 11
0.73 0.02 0.25
Matches are distributed among these distances:
29 4 0.12
30 3 0.09
31 14 0.44
32 11 0.34
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (31 bp):
AAATATATAAATAATATAATAATATATAAAT
Found at i:106287033 original size:19 final size:19
Alignment explanation
Indices: 106286997--106287065 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 19
106286987 ATATAATTTA
*
106286997 AATATATTAATAATATATAAT
1 AATATATAAAT-A-ATATAAT
106287018 AATATATAAATAATATAAT
1 AATATATAAATAATATAAT
106287037 AATATATAAATAA-ATATAT
1 AATATATAAATAATATA-AT
106287056 AA-ATA-AAATA
1 AATATATAAATA
106287066 TGCGTTATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
17 5 0.11
18 6 0.13
19 24 0.52
20 1 0.02
21 10 0.22
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AATATATAAATAATATAAT
Found at i:106287038 original size:12 final size:12
Alignment explanation
Indices: 106287005--106287062 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
106286995 TAAATATATT
106287005 AATAATAT-AT-
1 AATAATATAATA
106287015 AATAATAT-ATA
1 AATAATATAATA
106287026 AATAATATAAT-
1 AATAATATAATA
106287037 AAT-ATATAAATA
1 AATAATAT-AATA
106287049 AAT-ATATAAATA
1 AATAATAT-AATA
106287061 AA
1 AA
106287063 ATATGCGTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
10 14 0.32
11 14 0.32
12 16 0.36
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AATAATATAATA
Found at i:106287048 original size:8 final size:8
Alignment explanation
Indices: 106286982--106287060 Score: 57
Period size: 8 Copynumber: 10.8 Consensus size: 8
106286972 TATTATCATT
106286982 TAAATATA
1 TAAATATA
106286990 T-AAT-T-
1 TAAATATA
106286995 TAAATATA
1 TAAATATA
*
106287003 TTAATA-A
1 TAAATATA
*
106287010 TATATA-A
1 TAAATATA
106287017 T-AATATA
1 TAAATATA
106287024 TAAATA-A
1 TAAATATA
106287031 TATAATA-A
1 TA-AATATA
* *
106287039 TATATAAA
1 TAAATATA
106287047 TAAATATA
1 TAAATATA
106287055 TAAATA
1 TAAATA
106287061 AAATATGCGT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
5 1 0.02
6 7 0.12
7 19 0.33
8 30 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TAAATATA
Found at i:106292699 original size:21 final size:22
Alignment explanation
Indices: 106292670--106292715 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
106292660 TATTCAAACA
*
106292670 AGTGATACTCCACAGCAGGTGG
1 AGTGATACTCCAAAGCAGGTGG
106292692 AGTG-TACTCCAAAGCAGGTGG
1 AGTGATACTCCAAAGCAGGTGG
106292713 AGT
1 AGT
106292716 TTGAGCAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.28, C:0.20, G:0.33, T:0.20
Consensus pattern (22 bp):
AGTGATACTCCAAAGCAGGTGG
Found at i:106306416 original size:13 final size:12
Alignment explanation
Indices: 106306391--106306428 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
106306381 CAAACAGACC
106306391 TTTAATT-TCTA
1 TTTAATTGTCTA
106306402 TTTAAATTGTCTA
1 TTT-AATTGTCTA
106306415 TTT-ATTGTCTA
1 TTTAATTGTCTA
106306426 TTT
1 TTT
106306429 TTATAAGGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 14 0.56
12 4 0.16
13 7 0.28
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.63
Consensus pattern (12 bp):
TTTAATTGTCTA
Found at i:106310676 original size:94 final size:94
Alignment explanation
Indices: 106310558--106310762 Score: 333
Period size: 94 Copynumber: 2.2 Consensus size: 94
106310548 ACACAAAAAA
*
106310558 GAAAAAAAG--AGCAAGAATGCCATTGCAACACTAAAGAAGTAAAAACAAGACAAAGTCCATAAA
1 GAAAAAAAGAAAGCAAGAATGCCATTGCAACACTAAAGAAGTAAAAACAAGACAAAGCCCATAAA
* *
106310621 AACAAACATTGGAAGCAAGGGAATAAGTT
66 AACAAACATAGAAAGCAAGGGAATAAGTT
* * *
106310650 GAAAAAAAGAAAGCAAGAATGGCATTGCAACACTAAAGAAGTAAAAACGAGGCAAAGCCCATAAA
1 GAAAAAAAGAAAGCAAGAATGCCATTGCAACACTAAAGAAGTAAAAACAAGACAAAGCCCATAAA
*
106310715 AAGAAACATAGAAAGCAAGGGAATAAGTT
66 AACAAACATAGAAAGCAAGGGAATAAGTT
106310744 GAAAAAAAGAAAGCAAGAA
1 GAAAAAAAGAAAGCAAGAA
106310763 AATCTAAAAC
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
92 9 0.09
94 95 0.91
ACGTcount: A:0.57, C:0.13, G:0.20, T:0.11
Consensus pattern (94 bp):
GAAAAAAAGAAAGCAAGAATGCCATTGCAACACTAAAGAAGTAAAAACAAGACAAAGCCCATAAA
AACAAACATAGAAAGCAAGGGAATAAGTT
Found at i:106314608 original size:24 final size:24
Alignment explanation
Indices: 106314581--106314632 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
106314571 TTAGTAAGTC
*
106314581 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
106314605 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
106314629 AAAT
1 AAAT
106314633 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:106315116 original size:16 final size:16
Alignment explanation
Indices: 106315095--106315131 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
106315085 TATTAAGATA
106315095 GAGGACGAATGTATAC
1 GAGGACGAATGTATAC
106315111 GAGGACGAATGTATAC
1 GAGGACGAATGTATAC
106315127 GAGGA
1 GAGGA
106315132 TAATGAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.11, G:0.35, T:0.16
Consensus pattern (16 bp):
GAGGACGAATGTATAC
Found at i:106320196 original size:31 final size:31
Alignment explanation
Indices: 106320147--106320329 Score: 249
Period size: 31 Copynumber: 5.9 Consensus size: 31
106320137 TCACAAAAAC
106320147 AAATCAGTTACACTACAAACAAGCTGTCGAT
1 AAATCAGTTACACTACAAACAAGCTGTCGAT
* * * ** * *
106320178 AAATTAATTAGACTACAAACAAATTATCGAC
1 AAATCAGTTACACTACAAACAAGCTGTCGAT
106320209 AAATCAGTTACACTACAAACAAGCTGTCGAT
1 AAATCAGTTACACTACAAACAAGCTGTCGAT
* * *
106320240 AAATCAGTTACACTACAAACAAGTTATCAAT
1 AAATCAGTTACACTACAAACAAGCTGTCGAT
* *
106320271 AAATCAATTACACTACAAACAAGTTGTCGAT
1 AAATCAGTTACACTACAAACAAGCTGTCGAT
*
106320302 AAATCAGTTACACTACAAACAATCTGTC
1 AAATCAGTTACACTACAAACAAGCTGTC
106320330 AATCAATCCA
Statistics
Matches: 129, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 129 1.00
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.25
Consensus pattern (31 bp):
AAATCAGTTACACTACAAACAAGCTGTCGAT
Found at i:106320242 original size:62 final size:62
Alignment explanation
Indices: 106320144--106320323 Score: 288
Period size: 62 Copynumber: 2.9 Consensus size: 62
106320134 CACTCACAAA
* * *
106320144 AACAAATCAGTTACACTACAAACAAGCTGTCGATAAATTAATTAGACTACAAACAAATTATC
1 AACAAATCAGTTACACTACAAACAAGCTGTCGATAAATCAGTTACACTACAAACAAATTATC
* *
106320206 GACAAATCAGTTACACTACAAACAAGCTGTCGATAAATCAGTTACACTACAAACAAGTTATC
1 AACAAATCAGTTACACTACAAACAAGCTGTCGATAAATCAGTTACACTACAAACAAATTATC
* * *
106320268 AATAAATCAATTACACTACAAACAAGTTGTCGATAAATCAGTTACACTACAAACAA
1 AACAAATCAGTTACACTACAAACAAGCTGTCGATAAATCAGTTACACTACAAACAA
106320324 TCTGTCAATC
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 109 1.00
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.23
Consensus pattern (62 bp):
AACAAATCAGTTACACTACAAACAAGCTGTCGATAAATCAGTTACACTACAAACAAATTATC
Found at i:106320306 original size:93 final size:93
Alignment explanation
Indices: 106320147--106320329 Score: 285
Period size: 93 Copynumber: 2.0 Consensus size: 93
106320137 TCACAAAAAC
* * * *
106320147 AAATCAGTTACACTACAAACAAGCTGTCGATAAATTAATTAGACTACAAACAAATTATCGACAAA
1 AAATCAGTTACACTACAAACAAGCTATCAATAAATCAATTACACTACAAACAAATTATCGACAAA
106320212 TCAGTTACACTACAAACAAGCTGTCGAT
66 TCAGTTACACTACAAACAAGCTGTCGAT
* * * *
106320240 AAATCAGTTACACTACAAACAAGTTATCAATAAATCAATTACACTACAAACAAGTTGTCGATAAA
1 AAATCAGTTACACTACAAACAAGCTATCAATAAATCAATTACACTACAAACAAATTATCGACAAA
*
106320305 TCAGTTACACTACAAACAATCTGTC
66 TCAGTTACACTACAAACAAGCTGTC
106320330 AATCAATCCA
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 81 1.00
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.25
Consensus pattern (93 bp):
AAATCAGTTACACTACAAACAAGCTATCAATAAATCAATTACACTACAAACAAATTATCGACAAA
TCAGTTACACTACAAACAAGCTGTCGAT
Found at i:106324394 original size:22 final size:23
Alignment explanation
Indices: 106324349--106324394 Score: 58
Period size: 26 Copynumber: 1.9 Consensus size: 23
106324339 ACTATCGGTT
106324349 TAATAGTCCAACCAATAAGATTAAAA
1 TAATAGTCCAACCAAT---ATTAAAA
106324375 TAATAGTCCAACCAAT-TTAA
1 TAATAGTCCAACCAATATTAA
106324395 TCGGTCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
26 16 0.80
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.26
Consensus pattern (23 bp):
TAATAGTCCAACCAATATTAAAA
Found at i:106327323 original size:21 final size:21
Alignment explanation
Indices: 106327297--106327339 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
106327287 AGAACACACC
*
106327297 AACAGAAGCTCATAAGAGCTT
1 AACAGAAGCTCATAAAAGCTT
*
106327318 AACAGAAGCTCGTAAAAGCTT
1 AACAGAAGCTCATAAAAGCTT
106327339 A
1 A
106327340 TCCACCCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (21 bp):
AACAGAAGCTCATAAAAGCTT
Found at i:106328867 original size:18 final size:18
Alignment explanation
Indices: 106328846--106328889 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
106328836 ATTTGTATTT
106328846 TTTTATAAATATTTTG-AA
1 TTTTA-AAATATTTTGAAA
* *
106328864 TTTTAAATTTTTTTGAAA
1 TTTTAAAATATTTTGAAA
106328882 TTTTAAAA
1 TTTTAAAA
106328890 AAAATTGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
TTTTAAAATATTTTGAAA
Found at i:106329684 original size:27 final size:28
Alignment explanation
Indices: 106329623--106329684 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
106329613 TTTAAATGCA
*
106329623 CAATTACACAAAATCTAAATTCACATAT
1 CAATTACACAAAATCAAAATTCACATAT
** *
106329651 CATATTACATTAAATCAAAATTCATATAT
1 CA-ATTACACAAAATCAAAATTCACATAT
106329680 -AATTA
1 CAATTA
106329685 TAATATTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 4 0.14
28 3 0.10
29 22 0.76
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (28 bp):
CAATTACACAAAATCAAAATTCACATAT
Found at i:106331238 original size:55 final size:55
Alignment explanation
Indices: 106331174--106331283 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
106331164 TTATGAGATT
106331174 TTAACCAAAATCATAAGCAACTTAAATTTTTAATTTATCATTTCAATTACTCACA
1 TTAACCAAAATCATAAGCAACTTAAATTTTTAATTTATCATTTCAATTACTCACA
106331229 TTAACCAAAATCATAAGCAACTTAAATTTTTAATTTATCATTTCAATTACTCACA
1 TTAACCAAAATCATAAGCAACTTAAATTTTTAATTTATCATTTCAATTACTCACA
106331284 CTGTCTTCTC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (55 bp):
TTAACCAAAATCATAAGCAACTTAAATTTTTAATTTATCATTTCAATTACTCACA
Found at i:106331957 original size:18 final size:19
Alignment explanation
Indices: 106331934--106331969 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
106331924 AAAAAAAAAC
106331934 TGTTGTT-CTTTCTTGTTT
1 TGTTGTTACTTTCTTGTTT
*
106331952 TGTTGTTATTTTCTTGTT
1 TGTTGTTACTTTCTTGTT
106331970 ATTTTCTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.03, C:0.08, G:0.17, T:0.72
Consensus pattern (19 bp):
TGTTGTTACTTTCTTGTTT
Found at i:106335629 original size:16 final size:17
Alignment explanation
Indices: 106335610--106335652 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
106335600 TATTAATTAA
*
106335610 TTATATTATAAA-ACAT
1 TTATATTATAAATAAAT
*
106335626 TTATATAATAAATAAAT
1 TTATATTATAAATAAAT
106335643 TTA-ATTATAA
1 TTATATTATAA
106335653 CAAGTGAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
TTATATTATAAATAAAT
Found at i:106335706 original size:18 final size:18
Alignment explanation
Indices: 106335680--106335714 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
106335670 TGATATACAA
106335680 ATATAAAATAAATATTTG
1 ATATAAAATAAATATTTG
* *
106335698 ATATTAAATAGATATTT
1 ATATAAAATAAATATTT
106335715 TTATAGTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (18 bp):
ATATAAAATAAATATTTG
Found at i:106337090 original size:18 final size:18
Alignment explanation
Indices: 106337067--106337184 Score: 87
Period size: 18 Copynumber: 6.6 Consensus size: 18
106337057 TAAATAGAGG
*
106337067 TACTGAATAACTAACTGC
1 TACTGAATAACTGACTGC
* * *
106337085 TACTGAATAATTAACTGG
1 TACTGAATAACTGACTGC
* **
106337103 TACTGAATAAATGACTAT
1 TACTGAATAACTGACTGC
* *
106337121 TATTGAATAACTGA-TTC
1 TACTGAATAACTGACTGC
* *
106337138 TTACTGAATAATTGACTGT
1 -TACTGAATAACTGACTGC
*
106337157 TACTGAATAAAC-GACTGT
1 TACTGAAT-AACTGACTGC
*
106337175 TATTGAATAA
1 TACTGAATAA
106337185 ATTATTACTA
Statistics
Matches: 81, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
17 3 0.04
18 75 0.93
19 3 0.04
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (18 bp):
TACTGAATAACTGACTGC
Found at i:106337128 original size:36 final size:36
Alignment explanation
Indices: 106337065--106337202 Score: 96
Period size: 36 Copynumber: 3.8 Consensus size: 36
106337055 GGTAAATAGA
* * * * *
106337065 GGTACTGAATAACTAACTGCTACTGAATAATTAACT
1 GGTACTGAATAAATGACTACTACTGAATAAATGACT
* * * *
106337101 GGTACTGAATAAATGACTATTATTGAATAACTGATT
1 GGTACTGAATAAATGACTACTACTGAATAAATGACT
** * ** *
106337137 CTTACTGAATAATTGACTGTTACTGAATAAACGACT
1 GGTACTGAATAAATGACTACTACTGAATAAATGACT
* * * * *
106337173 GTTATTGAATAAATTATTACTATTGAATAA
1 GGTACTGAATAAATGACTACTACTGAATAA
106337203 CTAATTAATA
Statistics
Matches: 78, Mismatches: 24, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
36 78 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.36
Consensus pattern (36 bp):
GGTACTGAATAAATGACTACTACTGAATAAATGACT
Found at i:106337209 original size:18 final size:18
Alignment explanation
Indices: 106337175--106337209 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
106337165 AAACGACTGT
*
106337175 TATTGAATAAATTATTAC
1 TATTGAATAAATAATTAC
*
106337193 TATTGAATAACTAATTA
1 TATTGAATAAATAATTA
106337210 ATACTGATGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (18 bp):
TATTGAATAAATAATTAC
Found at i:106337215 original size:54 final size:54
Alignment explanation
Indices: 106337085--106337216 Score: 131
Period size: 54 Copynumber: 2.4 Consensus size: 54
106337075 AACTAACTGC
* ** * *
106337085 TACTGAATAATTAACTGGTACTGAATAAATGACTATTATTGAATAACTGATTCT
1 TACTGAATAACTAACTAATACTGAATAAACGACTATTATTGAATAAATGATTCT
* * ** * *
106337139 TACTGAATAATTGACTGTTACTGAATAAACGACTGTTATTGAATAAATTATTAC-
1 TACTGAATAACTAACTAATACTGAATAAACGACTATTATTGAATAAATGATT-CT
* *
106337193 TATTGAATAACTAATTAATACTGA
1 TACTGAATAACTAACTAATACTGA
106337217 TGACTGACTG
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 64 0.98
55 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (54 bp):
TACTGAATAACTAACTAATACTGAATAAACGACTATTATTGAATAAATGATTCT
Found at i:106340254 original size:46 final size:44
Alignment explanation
Indices: 106340149--106340355 Score: 221
Period size: 46 Copynumber: 4.7 Consensus size: 44
106340139 ATATGAAATG
*
106340149 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG---
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
* *
106340187 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATA
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGA-A-A
*
106340233 TGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
* *
106340277 AGAATAAGACCATGGTTGAAAGATGCCATGGCAACATGACA-GAAAA
1 TG--TAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAA
* * *
106340323 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 T--GTAAGACCATGGTTGAAAGATACCATGGCA
106340356 TCACGTCAAA
Statistics
Matches: 146, Mismatches: 10, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
38 36 0.25
41 2 0.01
44 2 0.01
45 2 0.01
46 103 0.71
48 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.21
Consensus pattern (44 bp):
TGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
Found at i:106340661 original size:23 final size:25
Alignment explanation
Indices: 106340616--106340662 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
106340606 AATAAATATA
*
106340616 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
106340641 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
106340663 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:106343569 original size:15 final size:15
Alignment explanation
Indices: 106343549--106343592 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
106343539 TATACTAAAA
106343549 TATATTTATTATTAG
1 TATATTTATTATTAG
*
106343564 TATATTTATAATT-G
1 TATATTTATTATTAG
*
106343578 TAATATATATTATTA
1 T-ATATTTATTATTA
106343593 AAATATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 2 0.08
15 22 0.92
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (15 bp):
TATATTTATTATTAG
Found at i:106343598 original size:11 final size:11
Alignment explanation
Indices: 106343584--106343636 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
106343574 ATTGTAATAT
106343584 ATATTATTAAA
1 ATATTATTAAA
*
106343595 ATATTAATATAA
1 ATATTATTA-AA
* *
106343607 ATATTTTTCAA
1 ATATTATTAAA
*
106343618 ATATTATTTAA
1 ATATTATTAAA
106343629 A-ATTATTA
1 ATATTATTA
106343637 CTTTTAAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
10 6 0.18
11 20 0.59
12 8 0.24
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (11 bp):
ATATTATTAAA
Found at i:106343604 original size:21 final size:22
Alignment explanation
Indices: 106343578--106343636 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
106343568 TTTATAATTG
106343578 TAATAT-ATATTATTAAAATAT
1 TAATATAATATTATTAAAATAT
* *
106343599 TAATATAAATATTTTTCAAATAT
1 TAATAT-AATATTATTAAAATAT
* *
106343622 T-ATTTAAAATTATTA
1 TAATATAATATTATTA
106343637 CTTTTAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 13 0.43
22 3 0.10
23 14 0.47
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TAATATAATATTATTAAAATAT
Found at i:106353090 original size:43 final size:42
Alignment explanation
Indices: 106352982--106353099 Score: 105
Period size: 43 Copynumber: 2.8 Consensus size: 42
106352972 GACTTATGAT
* *
106352982 TTACGTGTAAGACTATGTCTGGGACA-TCAGCATCGTATTTGA
1 TTACGTGTAAGACAATGTCTGGGACAGT-GGCATCGTATTTGA
** * ** * *
106353024 TTTTGTGTAAGCCCCTATTTGGGACAGTGGCATCGATATTTGA
1 TTACGTGTAAGACAATGTCTGGGACAGTGGCATCG-TATTTGA
*
106353067 TTACATGTAAGACAATGTCTGGGAC-GTTGGCAT
1 TTACGTGTAAGACAATGTCTGGGACAG-TGGCAT
106353100 TGTGCTAGCT
Statistics
Matches: 57, Mismatches: 16, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
42 26 0.46
43 31 0.54
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (42 bp):
TTACGTGTAAGACAATGTCTGGGACAGTGGCATCGTATTTGA
Found at i:106354358 original size:39 final size:39
Alignment explanation
Indices: 106354299--106354382 Score: 150
Period size: 39 Copynumber: 2.1 Consensus size: 39
106354289 CCTGTTTTGC
106354299 CACAGCTTAAACACACGAGCTTGTCTAATATCGTGTGAGG
1 CACA-CTTAAACACACGAGCTTGTCTAATATCGTGTGAGG
*
106354339 CACACTTAAACACACGAGCTTGTCTAATGTCGTGTGAGG
1 CACACTTAAACACACGAGCTTGTCTAATATCGTGTGAGG
106354378 CACAC
1 CACAC
106354383 GGCCTGCTCC
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 39 0.91
40 4 0.09
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (39 bp):
CACACTTAAACACACGAGCTTGTCTAATATCGTGTGAGG
Found at i:106355339 original size:22 final size:22
Alignment explanation
Indices: 106355309--106355351 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
106355299 TGAGTTGACA
106355309 TCGTCGCGACTTCAGGAGTTCC
1 TCGTCGCGACTTCAGGAGTTCC
* *
106355331 TCGTTGCGACTTTAGGAGTTC
1 TCGTCGCGACTTCAGGAGTTC
106355352 TTTGTCGCAA
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:0.14, C:0.26, G:0.28, T:0.33
Consensus pattern (22 bp):
TCGTCGCGACTTCAGGAGTTCC
Found at i:106356846 original size:22 final size:22
Alignment explanation
Indices: 106356821--106356877 Score: 53
Period size: 23 Copynumber: 2.5 Consensus size: 22
106356811 TCACAATTTT
106356821 TAGGGATTTGTTGGCTA-AATTG
1 TAGGGATTTGTT-GCTACAATTG
* * * *
106356843 TAGGCAATTGTCTTCTACAATTT
1 TAGGGATTTGT-TGCTACAATTG
106356866 TAGGGATTTGTT
1 TAGGGATTTGTT
106356878 TCTCTTTTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.23, C:0.09, G:0.25, T:0.44
Consensus pattern (22 bp):
TAGGGATTTGTTGCTACAATTG
Found at i:106357624 original size:19 final size:19
Alignment explanation
Indices: 106357586--106357676 Score: 76
Period size: 19 Copynumber: 4.8 Consensus size: 19
106357576 AGGGAAACTT
* * *
106357586 GCACACATAGTACATATTG
1 GCACACAAAGTGCATCTTG
*
106357605 GCGCACAAAGTGCATCTTG
1 GCACACAAAGTGCATCTTG
*
106357624 GCACACGAAGTGCATCTTG
1 GCACACAAAGTGCATCTTG
* * * **
106357643 ACGCATAAAGCACAT-TCTG
1 GCACACAAAGTGCATCT-TG
106357662 GCACACAAAGTGCAT
1 GCACACAAAGTGCAT
106357677 AAAGCCGTAC
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
18 1 0.02
19 53 0.98
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (19 bp):
GCACACAAAGTGCATCTTG
Found at i:106365253 original size:22 final size:21
Alignment explanation
Indices: 106365222--106365278 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
106365212 CTTCTCTATT
106365222 TTTTCTTTC-TCCCTTCTTTCC
1 TTTTCTTTCTTCCC-TCTTTCC
*
106365243 TTTTCTATTCTTTCCTCTTTCC
1 TTTTCT-TTCTTCCCTCTTTCC
*
106365265 CTTTC-TTCTTCCCT
1 TTTTCTTTCTTCCCT
106365279 TACCTCTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 8 0.26
21 6 0.19
22 14 0.45
23 3 0.10
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTCTTTCTTCCCTCTTTCC
Found at i:106371645 original size:26 final size:26
Alignment explanation
Indices: 106371558--106371652 Score: 66
Period size: 26 Copynumber: 3.5 Consensus size: 26
106371548 CAAAAATAAT
*
106371558 TTTATTTTAATAAATTTAATATTAAA
1 TTTAATTTAATAAATTTAATATTAAA
* * **
106371584 ATTAATTTAATACTTATATTGATAGTATTTTA
1 TTTAATTTAATA---A-ATT--TAATATTAAA
*
106371616 -TTAATTTAATAGATTTAATATTAAA
1 TTTAATTTAATAAATTTAATATTAAA
*
106371641 TTTAATCTAATA
1 TTTAATTTAATA
106371653 TTTGTCTTGA
Statistics
Matches: 52, Mismatches: 10, Indels: 14
0.68 0.13 0.18
Matches are distributed among these distances:
25 7 0.13
26 20 0.38
27 3 0.06
29 1 0.02
30 3 0.06
31 11 0.21
32 7 0.13
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (26 bp):
TTTAATTTAATAAATTTAATATTAAA
Found at i:106371646 original size:57 final size:58
Alignment explanation
Indices: 106371549--106371684 Score: 157
Period size: 57 Copynumber: 2.4 Consensus size: 58
106371539 TAACTATTCC
* * * *
106371549 AAAAATAATTTTATTTTAATAAATTTAATATTAAAATTAATTTAATACTTATATTGAT
1 AAAAATTATATTAATTTAATAAATTTAATATTAAAATTAATCTAATACTTATATTGAT
** * * * * * *
106371607 -AGTATTTTATTAATTTAATAGATTTAATATTAAATTTAATCTAATATTTGTCTTGAT
1 AAAAATTATATTAATTTAATAAATTTAATATTAAAATTAATCTAATACTTATATTGAT
106371664 AAAAATTATATTAATTTAATA
1 AAAAATTATATTAATTTAATA
106371685 TTAAAGTGAT
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
57 45 0.73
58 17 0.27
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (58 bp):
AAAAATTATATTAATTTAATAAATTTAATATTAAAATTAATCTAATACTTATATTGAT
Found at i:106373516 original size:42 final size:42
Alignment explanation
Indices: 106373358--106373506 Score: 156
Period size: 42 Copynumber: 3.5 Consensus size: 42
106373348 CAAAGCAATT
* * *
106373358 ATACTGGCACACAAAATGCATCATCGAATGAACCG-AATGATC
1 ATACTGGCACA-TAAATGCATCATCGAATAAACCGAAATAATC
* * * ** * *
106373400 ATACTGGTACATAAGTGTATCATCGAATAAATTGAAGTAACC
1 ATACTGGCACATAAATGCATCATCGAATAAACCGAAATAATC
* * * *
106373442 ATACTAGTACATAAGTTCATCATCGAATAAACCGAAATAATC
1 ATACTGGCACATAAATGCATCATCGAATAAACCGAAATAATC
106373484 ATACTGGCACATAAATGCATCAT
1 ATACTGGCACATAAATGCATCAT
106373507 TAGATAAACC
Statistics
Matches: 85, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
41 17 0.20
42 68 0.80
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (42 bp):
ATACTGGCACATAAATGCATCATCGAATAAACCGAAATAATC
Found at i:106374297 original size:11 final size:11
Alignment explanation
Indices: 106374281--106374305 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
106374271 CGTAATTCTT
106374281 CCACTACTCAA
1 CCACTACTCAA
106374292 CCACTACTCAA
1 CCACTACTCAA
106374303 CCA
1 CCA
106374306 TTAGCTGGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.48, G:0.00, T:0.16
Consensus pattern (11 bp):
CCACTACTCAA
Found at i:106379655 original size:18 final size:18
Alignment explanation
Indices: 106379632--106379687 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
106379622 ATTTTTTTAA
106379632 ATTAATAATAATATTCAT
1 ATTAATAATAATATTCAT
** *
106379650 ATTAAT-CGAAT-TT-AA
1 ATTAATAATAATATTCAT
106379665 ATTAATAATAATATTCAT
1 ATTAATAATAATATTCAT
106379683 ATTAA
1 ATTAA
106379688 CCATTCATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
15 7 0.24
16 5 0.17
17 5 0.17
18 12 0.41
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAATAATAATATTCAT
Found at i:106389030 original size:2 final size:2
Alignment explanation
Indices: 106389025--106389054 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
106389015 TATATATATA
106389025 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
106389055 AATGAGATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:106389227 original size:15 final size:15
Alignment explanation
Indices: 106389209--106389265 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
106389199 TATCTGTTTT
106389209 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
106389224 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
106389239 ATTGAATTTATATTG
1 ATTGAATTTATATTG
106389254 ATTGAA-TTATAT
1 ATTGAATTTATAT
106389266 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:106389244 original size:30 final size:28
Alignment explanation
Indices: 106389205--106389263 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
106389195 TGAATATCTG
106389205 TTTTATTGAATTTATATTGATTGAAATTA
1 TTTTATTGAATTTATATTGATTG-AATTA
106389234 TTTTGATTGAATTTATATTGATTGAATTA
1 TTTT-ATTGAATTTATATTGATTGAATTA
106389263 T
1 T
106389264 ATAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (28 bp):
TTTTATTGAATTTATATTGATTGAATTA
Found at i:106389696 original size:21 final size:22
Alignment explanation
Indices: 106389638--106389702 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
106389628 CTTTACCGAT
* *
106389638 TAGGCACTTTATGTGTCATATT
1 TAGGCACTTTATGTGTCGTATC
* **
106389660 TCAGGCACCTCGTGTGTCGT-TC
1 T-AGGCACTTTATGTGTCGTATC
106389682 TAGGCACTTTATGTGTCGTAT
1 TAGGCACTTTATGTGTCGTAT
106389703 ACTGATCAGG
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 15 0.45
22 4 0.12
23 14 0.42
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (22 bp):
TAGGCACTTTATGTGTCGTATC
Found at i:106389885 original size:18 final size:19
Alignment explanation
Indices: 106389864--106389904 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
106389854 AATGAAATGA
106389864 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
106389882 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
106389901 GAAA
1 GAAA
106389905 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:106397926 original size:25 final size:25
Alignment explanation
Indices: 106397873--106397998 Score: 191
Period size: 25 Copynumber: 5.0 Consensus size: 25
106397863 AAAAGCGGGG
* *
106397873 AAATTAAAAAT-ATTGCAAAAGGGAAA
1 AAATTAAAAATAATGGAAAAAGGG--A
106397899 AAATTAAAAATAATGGAAAAAGGGA
1 AAATTAAAAATAATGGAAAAAGGGA
106397924 AAATTAAAAATAATGGAAAAAGGGA
1 AAATTAAAAATAATGGAAAAAGGGA
106397949 AAATTAAAAATAATGGAAAAAGGGGA
1 AAATTAAAAATAATGGAAAAA-GGGA
*
106397975 AAATTAAAAATAATGAAAAAAGGG
1 AAATTAAAAATAATGGAAAAAGGG
106397999 GGGAAATTTT
Statistics
Matches: 95, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
25 50 0.53
26 35 0.37
27 10 0.11
ACGTcount: A:0.63, C:0.01, G:0.19, T:0.17
Consensus pattern (25 bp):
AAATTAAAAATAATGGAAAAAGGGA
Found at i:106398015 original size:51 final size:50
Alignment explanation
Indices: 106397873--106397998 Score: 191
Period size: 51 Copynumber: 2.5 Consensus size: 50
106397863 AAAAGCGGGG
* *
106397873 AAATTAAAAATATTG-CAAAAGGGAAAAAATTAAAAATAATGGAAAAAGGGA
1 AAATTAAAAATAATGAAAAAAGGG--AAAATTAAAAATAATGGAAAAAGGGA
*
106397924 AAATTAAAAATAATGGAAAAAGGGAAAATTAAAAATAATGGAAAAAGGGGA
1 AAATTAAAAATAATGAAAAAAGGGAAAATTAAAAATAATGGAAAAA-GGGA
106397975 AAATTAAAAATAATGAAAAAAGGG
1 AAATTAAAAATAATGAAAAAAGGG
106397999 GGGAAATTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
50 22 0.31
51 41 0.59
52 7 0.10
ACGTcount: A:0.63, C:0.01, G:0.19, T:0.17
Consensus pattern (50 bp):
AAATTAAAAATAATGAAAAAAGGGAAAATTAAAAATAATGGAAAAAGGGA
Found at i:106398066 original size:19 final size:20
Alignment explanation
Indices: 106398056--106398099 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
106398046 AAAAAAGGGT
*
106398056 AAAAATT-AAAAATAGTGAA
1 AAAAATTAAAAAAAAGTGAA
106398075 AAAAATTAAAAAAAATGTGAA
1 AAAAATTAAAAAAAA-GTGAA
106398096 AAAA
1 AAAA
106398100 GGAAAAGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 6 0.27
21 9 0.41
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (20 bp):
AAAAATTAAAAAAAAGTGAA
Found at i:106398133 original size:18 final size:17
Alignment explanation
Indices: 106398112--106398150 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
106398102 AAAAGAGGGG
*
106398112 AAAAATAAAAACAGTTA
1 AAAAATAAAAACAGGTA
* *
106398129 AAAAATTAAAAGAGGTA
1 AAAAATAAAAACAGGTA
106398146 AAAAA
1 AAAAA
106398151 AGTAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.72, C:0.03, G:0.10, T:0.15
Consensus pattern (17 bp):
AAAAATAAAAACAGGTA
Found at i:106398170 original size:20 final size:20
Alignment explanation
Indices: 106398147--106398189 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
106398137 AAAGAGGTAA
106398147 AAAAAGTAA-AAAAAAAAGTG
1 AAAAAG-AAGAAAAAAAAGTG
*
106398167 AAAAAGAAGAAAAAAAATTG
1 AAAAAGAAGAAAAAAAAGTG
106398187 AAA
1 AAA
106398190 TTGATGATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (20 bp):
AAAAAGAAGAAAAAAAAGTG
Found at i:106398236 original size:29 final size:29
Alignment explanation
Indices: 106398203--106398265 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
106398193 ATGATTGGTG
*
106398203 AAAATAAGGAAGGTGAAAAAA-AAAGAACA
1 AAAATAAGGAAGGTCAAAAAAGAAA-AACA
* *
106398232 AAAATAAGGGAGGTCAAAAAAGAAAAAGA
1 AAAATAAGGAAGGTCAAAAAAGAAAAACA
106398261 AAAAT
1 AAAAT
106398266 CGGAATATGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 27 0.90
30 3 0.10
ACGTcount: A:0.68, C:0.03, G:0.21, T:0.08
Consensus pattern (29 bp):
AAAATAAGGAAGGTCAAAAAAGAAAAACA
Found at i:106407384 original size:2 final size:2
Alignment explanation
Indices: 106407377--106407405 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
106407367 ATTCATTTGT
106407377 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
106407406 TTTTTTTGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:106414391 original size:17 final size:18
Alignment explanation
Indices: 106414369--106414402 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
106414359 CAAGTGCTTT
106414369 TTTGACAAA-TTGGAACA
1 TTTGACAAATTTGGAACA
106414386 TTTGACAAATTTGGAAC
1 TTTGACAAATTTGGAAC
106414403 TGTAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (18 bp):
TTTGACAAATTTGGAACA
Found at i:106418064 original size:16 final size:16
Alignment explanation
Indices: 106418043--106418074 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
106418033 TTATAGATAG
106418043 ATAGCCAAATGATTGT
1 ATAGCCAAATGATTGT
106418059 ATAGCCAAATGATTGT
1 ATAGCCAAATGATTGT
106418075 TTCATGAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (16 bp):
ATAGCCAAATGATTGT
Found at i:106421528 original size:20 final size:20
Alignment explanation
Indices: 106421489--106421528 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
106421479 GTTTAAGTTC
* *
106421489 TGAAAGACTATGGTATGTTG
1 TGAAAGACTATGATAGGTTG
*
106421509 TGAAAGATTATGATAGGTTG
1 TGAAAGACTATGATAGGTTG
106421529 CAAGTTGGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.35
Consensus pattern (20 bp):
TGAAAGACTATGATAGGTTG
Found at i:106426087 original size:12 final size:12
Alignment explanation
Indices: 106426070--106426102 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
106426060 CGGCCGGCCC
106426070 ATATTAATTTTT
1 ATATTAATTTTT
106426082 ATATT-ATTTTT
1 ATATTAATTTTT
106426093 ATA-TAATTTT
1 ATATTAATTTT
106426103 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:106432900 original size:21 final size:21
Alignment explanation
Indices: 106432860--106432900 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
106432850 AGACAAATAT
* *
106432860 TAAAATTTTAAACTCTAAATC
1 TAAAATTTTAAAATCAAAATC
106432881 TAAAATTTTAAAATCAAAAT
1 TAAAATTTTAAAATCAAAAT
106432901 TTATTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAATTTTAAAATCAAAATC
Found at i:106433313 original size:25 final size:27
Alignment explanation
Indices: 106433266--106433317 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
106433256 AATAAATGGT
*
106433266 TTTTGAGGTTATTATTCTGAAATATGTA
1 TTTTGAGATTATTATTC-GAAATATGTA
106433294 TTTTGAGATTATT-TTC-AAATATGT
1 TTTTGAGATTATTATTCGAAATATGT
106433318 GTTCTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 8 0.35
27 3 0.13
28 12 0.52
ACGTcount: A:0.29, C:0.04, G:0.15, T:0.52
Consensus pattern (27 bp):
TTTTGAGATTATTATTCGAAATATGTA
Found at i:106441773 original size:13 final size:14
Alignment explanation
Indices: 106441752--106441780 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
106441742 TGAAAAATGG
106441752 ATTAGAAAATATTT
1 ATTAGAAAATATTT
106441766 ATTA-AAAATATTT
1 ATTAGAAAATATTT
106441779 AT
1 AT
106441781 GAAGTTAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:106442441 original size:23 final size:23
Alignment explanation
Indices: 106442415--106442460 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
106442405 TATAAGAAAC
106442415 AAAAGAAAGAAACAAAAAGAATA
1 AAAAGAAAGAAACAAAAAGAATA
* * *
106442438 AAAAGAAGGAAAGAAACAGAATA
1 AAAAGAAAGAAACAAAAAGAATA
106442461 GCAGGGGACG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.74, C:0.04, G:0.17, T:0.04
Consensus pattern (23 bp):
AAAAGAAAGAAACAAAAAGAATA
Found at i:106443399 original size:15 final size:15
Alignment explanation
Indices: 106443373--106443420 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
106443363 TATCAAATTT
*
106443373 ATATTGAATGAAATC
1 ATATTGATTGAAATC
* * *
106443388 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
106443403 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
106443417 ATAT
1 ATAT
106443421 AATAATATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 4 0.15
15 23 0.85
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:106443846 original size:21 final size:21
Alignment explanation
Indices: 106443820--106443867 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
106443810 ATCGTATTTT
106443820 AGGCACCTCGTGTGTCGTGTC
1 AGGCACCTCGTGTGTCGTGTC
* *
106443841 AGGCACCTCGTGTGTCGTTTT
1 AGGCACCTCGTGTGTCGTGTC
106443862 AGGCAC
1 AGGCAC
106443868 TTTATGTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.12, C:0.27, G:0.31, T:0.29
Consensus pattern (21 bp):
AGGCACCTCGTGTGTCGTGTC
Found at i:106443875 original size:21 final size:21
Alignment explanation
Indices: 106443816--106443876 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
106443806 ATGCATCGTA
*
106443816 TTTTAGGCACCTCGTGTGTCG
1 TTTTAGGCACCTCATGTGTCG
* * *
106443837 TGTCAGGCACCTCGTGTGTCG
1 TTTTAGGCACCTCATGTGTCG
* *
106443858 TTTTAGGCACTTTATGTGT
1 TTTTAGGCACCTCATGTGT
106443877 TGTATACTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.11, C:0.21, G:0.28, T:0.39
Consensus pattern (21 bp):
TTTTAGGCACCTCATGTGTCG
Found at i:106447028 original size:6 final size:7
Alignment explanation
Indices: 106447011--106447035 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
106447001 ATTTAGTCCC
106447011 TTTTTTA
1 TTTTTTA
106447018 TTTTTTA
1 TTTTTTA
106447025 TTTTTTA
1 TTTTTTA
106447032 TTTT
1 TTTT
106447036 AAATACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:106451170 original size:6 final size:6
Alignment explanation
Indices: 106451159--106451191 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
106451149 AAAACAAAAC
*
106451159 AAAGAA AAAGAA AAAGAA AAAGAA AACGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAA
106451192 TAATAGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:106451332 original size:18 final size:18
Alignment explanation
Indices: 106451298--106451346 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
106451288 GGGTTTGCAC
106451298 AATTCGGTTAAAACCGAAAA
1 AATTCGGTT--AACCGAAAA
***
106451318 AATTCGGTTAACCGACCC
1 AATTCGGTTAACCGAAAA
106451336 AATTCGGTTAA
1 AATTCGGTTAA
106451347 TCGGTTGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
20 9 0.35
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (18 bp):
AATTCGGTTAACCGAAAA
Found at i:106451606 original size:28 final size:27
Alignment explanation
Indices: 106451557--106451610 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
106451547 AATATATTTA
*
106451557 AACCCAACCCAATTACCTAATTTAATT
1 AACCCAACCCAATTACATAATTTAATT
106451584 AACCCAACCCAA-TACAAATAATTTAAT
1 AACCCAACCCAATTAC--ATAATTTAAT
106451611 AAATAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 3 0.12
27 12 0.50
28 9 0.38
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (27 bp):
AACCCAACCCAATTACATAATTTAATT
Found at i:106451637 original size:14 final size:14
Alignment explanation
Indices: 106451614--106451643 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
106451604 ATTTAATAAA
106451614 TAAAAATAAAAATC
1 TAAAAATAAAAATC
*
106451628 TAAAAGTAAAAATC
1 TAAAAATAAAAATC
106451642 TA
1 TA
106451644 CTAAAACTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.03, T:0.23
Consensus pattern (14 bp):
TAAAAATAAAAATC
Found at i:106452950 original size:12 final size:11
Alignment explanation
Indices: 106452921--106452954 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
106452911 TTGTACCAAT
106452921 ATTTTATTTAA
1 ATTTTATTTAA
*
106452932 TTTTTATTATAA
1 ATTTTATT-TAA
106452944 ATTTTATTTAA
1 ATTTTATTTAA
106452955 CAAGTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTTATTTAA
Found at i:106453041 original size:19 final size:21
Alignment explanation
Indices: 106453002--106453051 Score: 79
Period size: 19 Copynumber: 2.5 Consensus size: 21
106452992 ATGAAAATTG
106453002 TTTAATATTATAAATATGTAT
1 TTTAATATTATAAATATGTAT
106453023 TTTAATATTAT-AA-ATGTAT
1 TTTAATATTATAAATATGTAT
106453042 TTTAAT-TTAT
1 TTTAATATTAT
106453052 TATATAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.14
19 12 0.41
20 2 0.07
21 11 0.38
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTAATATTATAAATATGTAT
Found at i:106455559 original size:20 final size:18
Alignment explanation
Indices: 106455532--106455622 Score: 69
Period size: 17 Copynumber: 4.9 Consensus size: 18
106455522 TAATGTTTTA
106455532 AATTATGTAGTGATTCAT
1 AATTATGTAGTGATTCAT
* **
106455550 AGACTTATGTAAT-ATTTTT
1 A-A-TTATGTAGTGATTCAT
*
106455569 AATTATGTAGTGATTCAA
1 AATTATGTAGTGATTCAT
* **
106455587 AGACTTATGTAATG-TTTTT
1 A-A-TTATGTAGTGATTCAT
106455606 AATTATGTAGTGATTCA
1 AATTATGTAGTGATTCA
106455623 ATTCGGGTAT
Statistics
Matches: 53, Mismatches: 14, Indels: 12
0.67 0.18 0.15
Matches are distributed among these distances:
17 17 0.32
18 9 0.17
19 10 0.19
20 17 0.32
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.46
Consensus pattern (18 bp):
AATTATGTAGTGATTCAT
Found at i:106455559 original size:72 final size:73
Alignment explanation
Indices: 106455474--106455623 Score: 250
Period size: 72 Copynumber: 2.1 Consensus size: 73
106455464 ATGTGTTAAT
* *
106455474 TTCAAGACTTATGTAATGTTTTTAATTATGTAGTGATTCCAAGAC-T-TGTAATGTTTTAAATTA
1 TTCAAGACTTATGTAATATTTTTAATTATGTAGTGATTCAAAGACTTATGTAATGTTTTAAATTA
106455537 TGTAGTGA
66 TGTAGTGA
*
106455545 TTCATAGACTTATGTAATATTTTTAATTATGTAGTGATTCAAAGACTTATGTAATGTTTTTAATT
1 TTCA-AGACTTATGTAATATTTTTAATTATGTAGTGATTCAAAGACTTATGTAATGTTTTAAATT
106455610 ATGTAGTGA
65 ATGTAGTGA
106455619 TTCAA
1 TTCAA
106455624 TTCGGGTATT
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
71 4 0.05
72 39 0.53
73 2 0.03
74 28 0.38
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (73 bp):
TTCAAGACTTATGTAATATTTTTAATTATGTAGTGATTCAAAGACTTATGTAATGTTTTAAATTA
TGTAGTGA
Found at i:106455622 original size:37 final size:37
Alignment explanation
Indices: 106455477--106455623 Score: 244
Period size: 37 Copynumber: 4.0 Consensus size: 37
106455467 TGTTAATTTC
*
106455477 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCC
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
106455514 AAGAC-T-TGTAATGTTTTAAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
* *
106455549 TAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
106455586 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
106455623 A
1 A
106455624 TTCGGGTATT
Statistics
Matches: 101, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
35 31 0.31
36 2 0.02
37 68 0.67
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.46
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:106455645 original size:9 final size:9
Alignment explanation
Indices: 106455622--106455678 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
106455612 GTAGTGATTC
*
106455622 AATTCGGGT
1 AATTCGGTT
106455631 -ATTCGGTT
1 AATTCGGTT
106455639 AATTCGGTT
1 AATTCGGTT
106455648 AATTCGGTT
1 AATTCGGTT
* *
106455657 AACTCGTTT
1 AATTCGGTT
106455666 AATTCGGTT
1 AATTCGGTT
106455675 AATT
1 AATT
106455679 TTTAACCACA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
8 7 0.17
9 35 0.83
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.44
Consensus pattern (9 bp):
AATTCGGTT
Found at i:106456477 original size:3 final size:3
Alignment explanation
Indices: 106456469--106456507 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
106456459 GAATGGTAAG
106456469 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
106456508 GGTATTGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:106456843 original size:48 final size:48
Alignment explanation
Indices: 106456791--106456898 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 48
106456781 GTGTCGCCAT
* * * *
106456791 ACTGTGACTGTTTCGGATTCGTTCCGATGAGGTACTTAGTGTACCGTG
1 ACTGTGACTGTTCCAGATGCATTCCGATGAGGTACTTAGTGTACCGTG
* * *
106456839 ACTGTGACTGTTCCAGATGCATTCTGATGAGGTACTTTGTGTACTGTG
1 ACTGTGACTGTTCCAGATGCATTCCGATGAGGTACTTAGTGTACCGTG
* *
106456887 ATTGAGACTGTT
1 ACTGTGACTGTT
106456899 ACCGTTACGG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.37
Consensus pattern (48 bp):
ACTGTGACTGTTCCAGATGCATTCCGATGAGGTACTTAGTGTACCGTG
Found at i:106458420 original size:42 final size:43
Alignment explanation
Indices: 106458323--106458476 Score: 156
Period size: 43 Copynumber: 3.6 Consensus size: 43
106458313 TGTTATCGTA
* *
106458323 TAAGACCACGTCT-GGACGTTGGCATCG--ACTTATGATTTACGTG
1 TAAGACCATGTCTGGGACGTTGGCATCGATAC-T-TGATTT-CATG
* *
106458366 TAAGACCATGTCTGGGACGTTAGCATC-CTACTTGATTTCATG
1 TAAGACCATGTCTGGGACGTTGGCATCGATACTTGATTTCATG
** * *
106458408 TAAGACTTTGTCTGGGACAG-TGGCATCGATATTTGATTACATG
1 TAAGACCATGTCTGGGAC-GTTGGCATCGATACTTGATTTCATG
*
106458451 TAAGACCACGTCTGGGACGTTGGCAT
1 TAAGACCATGTCTGGGACGTTGGCAT
106458477 TATACTAGCT
Statistics
Matches: 93, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
42 26 0.28
43 52 0.56
44 13 0.14
45 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACGTTGGCATCGATACTTGATTTCATG
Found at i:106462190 original size:2 final size:2
Alignment explanation
Indices: 106462183--106462207 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
106462173 ATGCCGATTT
106462183 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
106462208 TATCTCACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:106462642 original size:31 final size:31
Alignment explanation
Indices: 106462604--106462676 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
106462594 TAATCTCATC
*
106462604 AATTTTAGTCTCTATACTTTCCAAATTG-GTA
1 AATTTTAGTCTCTATACTTTCCAAAATGTG-A
*
106462635 AATTTTAGTCTCTATACTTTTCAAAATGTGA
1 AATTTTAGTCTCTATACTTTCCAAAATGTGA
*
106462666 AATTTTTGTCT
1 AATTTTAGTCT
106462677 TGAAACAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 37 0.97
32 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.48
Consensus pattern (31 bp):
AATTTTAGTCTCTATACTTTCCAAAATGTGA
Found at i:106480886 original size:24 final size:23
Alignment explanation
Indices: 106480859--106480903 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
106480849 ATATTTAATT
106480859 TTATATAATAAAAAATAAAAATAA
1 TTATATAATAAAAAA-AAAAATAA
* *
106480883 TTATATATTAAATAAAAAAAT
1 TTATATAATAAAAAAAAAAAT
106480904 TCAATTCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
TTATATAATAAAAAAAAAAATAA
Found at i:106483430 original size:30 final size:29
Alignment explanation
Indices: 106483385--106483462 Score: 102
Period size: 31 Copynumber: 2.6 Consensus size: 29
106483375 TTTTTACTAA
*
106483385 AAAAATTATAATTTAATTATTAAACTATTT
1 AAAAATT-TTATTTAATTATTAAACTATTT
* *
106483415 AAAATTTTTTATTTAAATTATTAAATTATTT
1 AAAA-ATTTTATTT-AATTATTAAACTATTT
106483446 AAAAATTTTATTTAATT
1 AAAAATTTTATTTAATT
106483463 CAATCTATTG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 4 0.10
30 17 0.40
31 21 0.50
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (29 bp):
AAAAATTTTATTTAATTATTAAACTATTT
Found at i:106488310 original size:48 final size:48
Alignment explanation
Indices: 106488239--106488330 Score: 175
Period size: 48 Copynumber: 1.9 Consensus size: 48
106488229 AAGATGTTTG
*
106488239 GATTTTAGTTTATAGATTTGTGACTTCAAAATGTTTTTTGAAAATTTA
1 GATTTTAGTTTATAGATTTGTGACTTCAAAATGTTTTATGAAAATTTA
106488287 GATTTTAGTTTATAGATTTGTGACTTCAAAATGTTTTATGAAAA
1 GATTTTAGTTTATAGATTTGTGACTTCAAAATGTTTTATGAAAA
106488331 ACTAAACTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (48 bp):
GATTTTAGTTTATAGATTTGTGACTTCAAAATGTTTTATGAAAATTTA
Found at i:106493164 original size:163 final size:164
Alignment explanation
Indices: 106492877--106493207 Score: 610
Period size: 163 Copynumber: 2.0 Consensus size: 164
106492867 TCATGTCGAA
106492877 AATATAAAATGTAACTTTTCATTTTTATATATTTATAAGTTTTTAAGTTAAAATATTAAAAAAAA
1 AATATAAAATGTAACTTTTCATTTTTATATATTTATAAGTTTTTAAGTTAAAATATT-AAAAAAA
*
106492942 ACTCTCAACTTTATCATATTATTTACAGTATAGATATTAAAATCATATAATTTGATTTGTATTTA
65 ACTCTCAACTTTATCATATTATTTACAGTATAAATATTAAAATCATATAATTTGATTTGTATTTA
106493007 AATAAGTAGACTTAACTAGGTATAAATTTAAAGTC
130 AATAAGTAGACTTAACTAGGTATAAATTTAAAGTC
* *
106493042 AATATAAAATGTAACTTTTCATTTTTATATATTTATAATTTTTTAAGTTAAAATATT-AGAAAAA
1 AATATAAAATGTAACTTTTCATTTTTATATATTTATAAGTTTTTAAGTTAAAATATTAAAAAAAA
*
106493106 CTCTCAACTTTATCATATTATTTACTGTATAAATATTAAAATCATATAATTTGATTTGTATTTAA
66 CTCTCAACTTTATCATATTATTTACAGTATAAATATTAAAATCATATAATTTGATTTGTATTTAA
106493171 ATAAGTAGACTTAACTAGGTATAAATTTAAAGTC
131 ATAAGTAGACTTAACTAGGTATAAATTTAAAGTC
106493205 AAT
1 AAT
106493208 GATTTATAAA
Statistics
Matches: 162, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
163 106 0.65
165 56 0.35
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (164 bp):
AATATAAAATGTAACTTTTCATTTTTATATATTTATAAGTTTTTAAGTTAAAATATTAAAAAAAA
CTCTCAACTTTATCATATTATTTACAGTATAAATATTAAAATCATATAATTTGATTTGTATTTAA
ATAAGTAGACTTAACTAGGTATAAATTTAAAGTC
Found at i:106494474 original size:41 final size:41
Alignment explanation
Indices: 106494429--106494511 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
106494419 AAACAAGGAC
106494429 TTAGTTTATTTGATAGACAAATATCATGTTTCTGTAGTGAA
1 TTAGTTTATTTGATAGACAAATATCATGTTTCTGTAGTGAA
*
106494470 TTAGTTTATTTGGTAGACAAATATCATGTTTCTGTAGTGAA
1 TTAGTTTATTTGATAGACAAATATCATGTTTCTGTAGTGAA
106494511 T
1 T
106494512 AAAATGAGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.45
Consensus pattern (41 bp):
TTAGTTTATTTGATAGACAAATATCATGTTTCTGTAGTGAA
Found at i:106494506 original size:21 final size:21
Alignment explanation
Indices: 106494442--106494506 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
106494432 GTTTATTTGA
106494442 TAGACAAATATCATGTTTCTG
1 TAGACAAATATCATGTTTCTG
** * * * *
106494463 TAGTGAATTAGT-TTATTT-GG
1 TAGACAAATA-TCATGTTTCTG
106494483 TAGACAAATATCATGTTTCTG
1 TAGACAAATATCATGTTTCTG
106494504 TAG
1 TAG
106494507 TGAATAAAAT
Statistics
Matches: 29, Mismatches: 12, Indels: 6
0.62 0.26 0.13
Matches are distributed among these distances:
19 1 0.03
20 12 0.41
21 15 0.52
22 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (21 bp):
TAGACAAATATCATGTTTCTG
Found at i:106494578 original size:24 final size:20
Alignment explanation
Indices: 106494513--106494569 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
106494503 GTAGTGAATA
*
106494513 AAATGAGAAGAGAGAAAAAT
1 AAATGGGAAGAGAGAAAAAT
106494533 AAATGGGAAGAGAGAAAAAT
1 AAATGGGAAGAGAGAAAAAT
106494553 AAATGGGAAGA-AGAAAA
1 AAATGGGAAGAGAGAAAA
106494570 GGAAAATAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
19 6 0.17
20 30 0.83
ACGTcount: A:0.63, C:0.00, G:0.28, T:0.09
Consensus pattern (20 bp):
AAATGGGAAGAGAGAAAAAT
Found at i:106498317 original size:55 final size:55
Alignment explanation
Indices: 106498205--106498318 Score: 149
Period size: 55 Copynumber: 2.1 Consensus size: 55
106498195 TCAAGACAAC
* * **
106498205 TTTTTTTTCTTTTGGAACATTAATGGCCGGCACCACCTTTTTCGGGTCTTGAATT
1 TTTTTTTTCTTCTGGAACATTAATGGCCAGCACCACCTTTTTCGGGTCTCCAATT
* * * *
106498260 TTTTTTTTGTTCTGGGACATTGATGGCCAGCATCACCTTTTTCGGGTC-CCAATT
1 TTTTTTTTCTTCTGGAACATTAATGGCCAGCACCACCTTTTTCGGGTCTCCAATT
106498314 TTTTT
1 TTTTT
106498319 CCTTTTTCTC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
54 9 0.18
55 42 0.82
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.46
Consensus pattern (55 bp):
TTTTTTTTCTTCTGGAACATTAATGGCCAGCACCACCTTTTTCGGGTCTCCAATT
Found at i:106501902 original size:54 final size:52
Alignment explanation
Indices: 106501788--106501917 Score: 127
Period size: 54 Copynumber: 2.4 Consensus size: 52
106501778 TGCCGGTCAA
* * *
106501788 CAGTGTCCCAAAATAAAAAAATTTCGGGACTCAAAAAAGGTGGTACCAGCCAT
1 CAGTGTCCCAAAA-AAAAAAATTTCGAGACCCAAAAAAGGTGGTACCAGCCAC
* * * **
106501841 CAATGTCCCAGAACAAAAAAAATTTCGAGACCCGAAAATGGTGGTGTC-GACCAC
1 CAGTGTCCCA-AA-AAAAAAAATTTCGAGACCCAAAAAAGGTGGTACCAG-CCAC
*
106501895 CAGTGTCCTAAAGAAAAAAAATT
1 CAGTGTCCCAAA-AAAAAAAATT
106501918 GTCTTGGGAC
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
53 22 0.35
54 40 0.63
55 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.18
Consensus pattern (52 bp):
CAGTGTCCCAAAAAAAAAAATTTCGAGACCCAAAAAAGGTGGTACCAGCCAC
Found at i:106503447 original size:44 final size:45
Alignment explanation
Indices: 106503394--106503495 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 45
106503384 GTCTTTGACG
* * *
106503394 TGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAATA
1 TGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAATA
** *
106503438 TGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAATA
1 TGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAATA
*
106503484 AGGACTTACATG
1 TGGACTTACATG
106503496 GCTCATTTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
44 32 0.65
46 17 0.35
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (45 bp):
TGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAATA
Found at i:106503498 original size:46 final size:44
Alignment explanation
Indices: 106503412--106503500 Score: 133
Period size: 46 Copynumber: 2.0 Consensus size: 44
106503402 CATGAATTAT
* *
106503412 TCCTGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAA
1 TCCTGTCTCCAAAGCCATATATAATAAGGACTTACATGGCTCAA
*
106503456 TCCTGTCTCCAAAGCCATATTTCTAATAAGGACTTACATGGCTCA
1 TCCTGTCTCCAAAGCCATA--TATAATAAGGACTTACATGGCTCA
106503501 TTTTGTTCTG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 18 0.45
46 22 0.55
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.31
Consensus pattern (44 bp):
TCCTGTCTCCAAAGCCATATATAATAAGGACTTACATGGCTCAA
Found at i:106507667 original size:14 final size:17
Alignment explanation
Indices: 106507636--106507672 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
106507626 ATTATAAAGG
106507636 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
106507653 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
106507667 ATATTA
1 ATATTA
106507673 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:106507848 original size:14 final size:14
Alignment explanation
Indices: 106507822--106507872 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
106507812 GAAAACAAAA
106507822 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
106507836 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
106507850 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
106507865 G-AATAAAA
1 GAAATAAAA
106507873 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:106507883 original size:17 final size:16
Alignment explanation
Indices: 106507861--106507894 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
106507851 AAGTTAAAAT
106507861 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
106507878 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
106507894 A
1 A
106507895 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:106509048 original size:37 final size:39
Alignment explanation
Indices: 106508989--106509084 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
106508979 CGGATAGATT
* * * *
106508989 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
106509026 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
106509065 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
106509085 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:106511696 original size:35 final size:35
Alignment explanation
Indices: 106511606--106511736 Score: 101
Period size: 35 Copynumber: 3.8 Consensus size: 35
106511596 ACCTATAGTT
* *
106511606 CAAATTCAATA-GAACATCACATATAGCCGAATATG
1 CAAATTCAATATAAACATCACATATA-CCGAATATA
* * *
106511641 CACATTCAAGT-T-AACTTCACATATGACCGAATACA
1 CAAATTCAA-TATAAACATCACATAT-ACCGAATATA
* * *
106511676 CAAATTCAATATAAAC-TCACATGTAATCGAATATT
1 CAAATTCAATATAAACATCACATAT-ACCGAATATA
* *
106511711 CAAGTTCAATATAAGC-TCACATATAC
1 CAAATTCAATATAAACATCACATATAC
106511737 TTACCTACGT
Statistics
Matches: 77, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
34 2 0.03
35 70 0.91
36 5 0.06
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (35 bp):
CAAATTCAATATAAACATCACATATACCGAATATA
Found at i:106524544 original size:27 final size:28
Alignment explanation
Indices: 106524514--106524568 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
106524504 TTTAAATATT
106524514 TTTAA-ATTTT-CATAATTTTTAAAAAAA
1 TTTAATATTTTGCA-AATTTTTAAAAAAA
* *
106524541 TTTAATGTTTTGCAATTTTTTAAAAAAA
1 TTTAATATTTTGCAAATTTTTAAAAAAA
106524569 ATAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.21
28 17 0.71
29 2 0.08
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (28 bp):
TTTAATATTTTGCAAATTTTTAAAAAAA
Found at i:106527923 original size:41 final size:42
Alignment explanation
Indices: 106527840--106527932 Score: 125
Period size: 41 Copynumber: 2.2 Consensus size: 42
106527830 CGGGTTTCCT
* * ** *
106527840 AATTATTTTTGGACTTTGAGCTTTTGGACTTTATTTAAATAA
1 AATTATTTTTGGACTTTAAACTTTTCAACTTTAATTAAATAA
*
106527882 AATTATTTTTGGA-TTTAAACTTTTCAACTTTAATTAGATAA
1 AATTATTTTTGGACTTTAAACTTTTCAACTTTAATTAAATAA
106527923 AATTATTTTT
1 AATTATTTTT
106527933 TAGATTTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
41 32 0.71
42 13 0.29
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (42 bp):
AATTATTTTTGGACTTTAAACTTTTCAACTTTAATTAAATAA
Found at i:106535685 original size:6 final size:6
Alignment explanation
Indices: 106535674--106535785 Score: 215
Period size: 6 Copynumber: 18.7 Consensus size: 6
106535664 TGATTAATAT
*
106535674 ATATAC ATATAC ATATAC ATATAC TTATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
106535722 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
106535770 ATATAC ATATAC ATAT
1 ATATAC ATATAC ATAT
106535786 GTGTGTATGT
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 104 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (6 bp):
ATATAC
Found at i:106539076 original size:27 final size:27
Alignment explanation
Indices: 106539023--106539078 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
106539013 TACTGCATTC
* *
106539023 ATTTGTTTTTGTTTTGATGTATCAAAA
1 ATTTGTATTTGTTTTGATGTATAAAAA
* *
106539050 ATTTGTATTTGTTTTGATTTTTAAAAA
1 ATTTGTATTTGTTTTGATGTATAAAAA
106539077 AT
1 AT
106539079 GAGCTTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (27 bp):
ATTTGTATTTGTTTTGATGTATAAAAA
Found at i:106539118 original size:19 final size:19
Alignment explanation
Indices: 106539094--106539132 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
106539084 TTTAAGGATT
106539094 ATTTTTATTAAAAAAATTA
1 ATTTTTATTAAAAAAATTA
*
106539113 ATTTTTTTTAAAAAAATTA
1 ATTTTTATTAAAAAAATTA
106539132 A
1 A
106539133 ATATTAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTTTATTAAAAAAATTA
Found at i:106545978 original size:21 final size:21
Alignment explanation
Indices: 106545953--106546058 Score: 84
Period size: 20 Copynumber: 5.3 Consensus size: 21
106545943 TAGCCTTCAG
*
106545953 GCTTCTGTTTAGCACTTGTGT
1 GCTTCAGTTTAGCACTTGTGT
106545974 GCTTCAG-TTAGC-CTTCG-G-
1 GCTTCAGTTTAGCACTT-GTGT
*
106545992 GCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTTAGCACTTGTGT
*
106546013 GCTTCA-ATTAGC-CTTCG-G-
1 GCTTCAGTTTAGCACTT-GTGT
* * *
106546031 GCTTCCGTTCAGCACTTATGT
1 GCTTCAGTTTAGCACTTGTGT
106546052 GCTTCAG
1 GCTTCAG
106546059 CTAGACTTCG
Statistics
Matches: 66, Mismatches: 9, Indels: 20
0.69 0.09 0.21
Matches are distributed among these distances:
18 11 0.17
19 18 0.27
20 20 0.30
21 17 0.26
ACGTcount: A:0.12, C:0.25, G:0.24, T:0.39
Consensus pattern (21 bp):
GCTTCAGTTTAGCACTTGTGT
Found at i:106545981 original size:39 final size:39
Alignment explanation
Indices: 106545935--106546074 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
106545925 CCTCTGATGA
* *
106545935 GCTTCAGTTAGCCTTCAGGCTTCTGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
106545974 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* * *
106546013 GCTTCAATTAGCCTTCGGGCTTCCGTTCAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
106546052 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
106546075 AAATCATGAT
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.13, C:0.26, G:0.24, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:106550418 original size:64 final size:64
Alignment explanation
Indices: 106550317--106550437 Score: 224
Period size: 64 Copynumber: 1.9 Consensus size: 64
106550307 ACAGGGGTTG
*
106550317 CACGGGTGAGAACGTAGACTGGGACAGACCGTATGTCCCTAGTTCGAAGGTTACACTAGAGTCA
1 CACGGGTGAGAACATAGACTGGGACAGACCGTATGTCCCTAGTTCGAAGGTTACACTAGAGTCA
*
106550381 CACGGGTGAGGACATAGACTGGGACAGACCGTATGTCCCTAGTTCGAAGGTTACACT
1 CACGGGTGAGAACATAGACTGGGACAGACCGTATGTCCCTAGTTCGAAGGTTACACT
106550438 GCCTAAGACA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (64 bp):
CACGGGTGAGAACATAGACTGGGACAGACCGTATGTCCCTAGTTCGAAGGTTACACTAGAGTCA
Found at i:106553347 original size:20 final size:20
Alignment explanation
Indices: 106553322--106553364 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
106553312 TATATTACAT
106553322 CAAATCTTAATTTAACAATG
1 CAAATCTTAATTTAACAATG
* *
106553342 CAAATCTTAATTTGATAATG
1 CAAATCTTAATTTAACAATG
106553362 CAA
1 CAA
106553365 TTTGGGGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (20 bp):
CAAATCTTAATTTAACAATG
Done.