Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003902.1 Hibiscus syriacus cultivar Beakdansim tig00008433_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 230710
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:17291 original size:128 final size:128
Alignment explanation
Indices: 17063--17320 Score: 489
Period size: 128 Copynumber: 2.0 Consensus size: 128
17053 CCCATTAGAT
17063 TAAATATAGCCATTCTAGACCAATTATAAAGGGTATTGGGCCTAAGGTAGGCCCAAGAGTTAAGT
1 TAAATATAGCCATTCTAGACCAATTATAAAGGGTATTGGGCCTAAGGTAGGCCCAAGAGTTAAGT
17128 TTAGTGATAGTTTTAAATTAAATAAGAAAGGAGAGGGACCTAGATAACAATTTACCCATAGCC
66 TTAGTGATAGTTTTAAATTAAATAAGAAAGGAGAGGGACCTAGATAACAATTTACCCATAGCC
17191 TAAATATAGCCATTCTAGACCAATTATAAAGGGTATTGGGCCTAAGGTAGGCCCAAGAGTTAAGT
1 TAAATATAGCCATTCTAGACCAATTATAAAGGGTATTGGGCCTAAGGTAGGCCCAAGAGTTAAGT
* * *
17256 TTAGTGATAGTTTTAAATTAAATAAGAAATGAGAGGGGCCTAGATAACAATTTACCCCTAGCC
66 TTAGTGATAGTTTTAAATTAAATAAGAAAGGAGAGGGACCTAGATAACAATTTACCCATAGCC
17319 TA
1 TA
17321 TTTTAAGGTT
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 127 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (128 bp):
TAAATATAGCCATTCTAGACCAATTATAAAGGGTATTGGGCCTAAGGTAGGCCCAAGAGTTAAGT
TTAGTGATAGTTTTAAATTAAATAAGAAAGGAGAGGGACCTAGATAACAATTTACCCATAGCC
Found at i:22974 original size:2 final size:2
Alignment explanation
Indices: 22967--22991 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22957 TATTATAAAG
22967 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
22992 GTATGGATCC
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:23289 original size:12 final size:12
Alignment explanation
Indices: 23272--23307 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
23262 TCACTCACTC
23272 AACTGTTTCTTT
1 AACTGTTTCTTT
23284 AACTGTTTCTTT
1 AACTGTTTCTTT
23296 AACTGTTTCTTT
1 AACTGTTTCTTT
23308 TAGGAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.08, T:0.58
Consensus pattern (12 bp):
AACTGTTTCTTT
Found at i:27575 original size:2 final size:2
Alignment explanation
Indices: 27568--27616 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
27558 AAAATATAAT
27568 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27610 TA TA TA T
1 TA TA TA T
27617 GAAGATGTAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27967 original size:32 final size:32
Alignment explanation
Indices: 27925--27985 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
27915 TACCCCACTT
27925 CATACCATAAATTTATGTTATTGATATATCTC
1 CATACCATAAATTTATGTTATTGATATATCTC
*
27957 CATACTATAAATTTATGTTATTGATATAT
1 CATACCATAAATTTATGTTATTGATATAT
27986 ATGTGTTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (32 bp):
CATACCATAAATTTATGTTATTGATATATCTC
Found at i:30235 original size:60 final size:60
Alignment explanation
Indices: 30159--30294 Score: 145
Period size: 60 Copynumber: 2.3 Consensus size: 60
30149 CATAATAAAT
* * * * * *
30159 AGTCGGGTGACCATTTTGTAAGT-TTCAATAGT-AAAGGGACTCAATAAAGTAATAAT-CTAT
1 AGTCGAGTGACTATTTTGTAACTATT-AATAGTCAAA-AGACTCAATAAAGCAAT-ATCCTAC
*
30219 AGTCAGAG-GACTATTTTGTAACTATTAATAGTCAAAAGACTTAATAAAGCAATATCCTAC
1 AGTC-GAGTGACTATTTTGTAACTATTAATAGTCAAAAGACTCAATAAAGCAATATCCTAC
30279 AGTCGAGTGACTATTT
1 AGTCGAGTGACTATTT
30295 GTATACTTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
59 5 0.08
60 52 0.81
61 7 0.11
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.32
Consensus pattern (60 bp):
AGTCGAGTGACTATTTTGTAACTATTAATAGTCAAAAGACTCAATAAAGCAATATCCTAC
Found at i:30644 original size:22 final size:21
Alignment explanation
Indices: 30615--30663 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
30605 TATAAACATG
30615 AACCCTAAA-TC-ATAACCCTA
1 AACCCTAAACTCTA-AACCCTA
30635 TAACCTCTAAACTCTAAACCCTA
1 -AACC-CTAAACTCTAAACCCTA
30658 AACCCT
1 AACCCT
30664 GGCATGGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 6 0.24
22 9 0.36
23 9 0.36
24 1 0.04
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (21 bp):
AACCCTAAACTCTAAACCCTA
Found at i:31758 original size:30 final size:30
Alignment explanation
Indices: 31718--31776 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
31708 TAAACCTTAT
*
31718 GTTATTATTTTAGGATTTAGAGG-TTATAAG
1 GTTATGATTTTAGGATTTAG-GGTTTATAAG
31748 GTTATGATTTTAGGATTTAGGGTTTATAA
1 GTTATGATTTTAGGATTTAGGGTTTATAA
31777 TTTGTGATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (30 bp):
GTTATGATTTTAGGATTTAGGGTTTATAAG
Found at i:32922 original size:24 final size:24
Alignment explanation
Indices: 32890--32936 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
32880 TTGATTTTTT
* * *
32890 TAATTTTTTAATTTTTTAAAAATA
1 TAATGTTTTAATTATTAAAAAATA
*
32914 TAATGTTTTTATTATTAAAAAAT
1 TAATGTTTTAATTATTAAAAAAT
32937 TTAAAAATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TAATGTTTTAATTATTAAAAAATA
Found at i:33021 original size:30 final size:31
Alignment explanation
Indices: 32959--33021 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 31
32949 CGGTAAGTAT
* *
32959 CTAAAAAGTGTAACGAAAAAAATTATAAACAC
1 CTAAAAAGTATAACAAAAAAAATTAT-AACAC
32991 CTAAAAA-TATAACAAAAAAACATTAT-ACAC
1 CTAAAAAGTATAACAAAAAAA-ATTATAACAC
33021 C
1 C
33022 AGTTGTTAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 5 0.18
31 11 0.39
32 12 0.43
ACGTcount: A:0.60, C:0.16, G:0.05, T:0.19
Consensus pattern (31 bp):
CTAAAAAGTATAACAAAAAAAATTATAACAC
Found at i:36149 original size:19 final size:20
Alignment explanation
Indices: 36108--36151 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
36098 AATTGGAGGA
36108 TTTAATTTTAATAGATTTAT
1 TTTAATTTTAATAGATTTAT
36128 TTTAA-TTTAATAGATTTAT
1 TTTAATTTTAATAGATTTAT
36147 TTTAA
1 TTTAA
36152 CATGTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTAATTTTAATAGATTTAT
Found at i:53136 original size:16 final size:16
Alignment explanation
Indices: 53071--53137 Score: 64
Period size: 16 Copynumber: 4.2 Consensus size: 16
53061 TAATTTTGGA
** *
53071 TCGGGTTAAACTCGGT
1 TCGGGTTAATTTCAGT
*
53087 TCGGGTT-GTTTCAGT
1 TCGGGTTAATTTCAGT
** *
53102 TCAAGTTATTTTCAGT
1 TCGGGTTAATTTCAGT
53118 TCGGGTTAATTTCAGT
1 TCGGGTTAATTTCAGT
53134 TCGG
1 TCGG
53138 ATTGTTTTTG
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
15 9 0.22
16 31 0.77
ACGTcount: A:0.16, C:0.15, G:0.27, T:0.42
Consensus pattern (16 bp):
TCGGGTTAATTTCAGT
Found at i:55025 original size:21 final size:20
Alignment explanation
Indices: 54999--55066 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 20
54989 TCATTCATTC
54999 AACTAACTTAAATTTGTATAA
1 AACTAACTTAAATTT-TATAA
** * *
55020 AACTAAAAT-AGTTTTATATC
1 AACTAACTTAAATTTTATA-A
*
55040 AACTAACTTAAATTTATGTAA
1 AACTAACTTAAATTT-TATAA
55061 AACTAA
1 AACTAA
55067 AATAATTTAT
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
19 4 0.11
20 11 0.31
21 17 0.49
22 3 0.09
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (20 bp):
AACTAACTTAAATTTTATAA
Found at i:55054 original size:41 final size:40
Alignment explanation
Indices: 54997--55078 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 40
54987 TTTCATTCAT
* *
54997 TCAACTAACTTAAATTTGTATAAAACTAAAATAGTTTTATA
1 TCAACTAACTTAAATTTATATAAAACTAAAATA-ATTTATA
*
55038 TCAACTAACTTAAATTTATGTAAAACTAAAATAATTTATA
1 TCAACTAACTTAAATTTATATAAAACTAAAATAATTTATA
55078 T
1 T
55079 TGTGTGAGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
40 7 0.18
41 31 0.82
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.39
Consensus pattern (40 bp):
TCAACTAACTTAAATTTATATAAAACTAAAATAATTTATA
Found at i:55055 original size:20 final size:20
Alignment explanation
Indices: 54997--55056 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
54987 TTTCATTCAT
*
54997 TCAACTAACTTAAATTTGTA
1 TCAACTAACTTAAATTTATA
* ** **
55017 TAAAACTAAAATAGTTTTATA
1 T-CAACTAACTTAAATTTATA
55038 TCAACTAACTTAAATTTAT
1 TCAACTAACTTAAATTTAT
55057 GTAAAACTAA
Statistics
Matches: 28, Mismatches: 11, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (20 bp):
TCAACTAACTTAAATTTATA
Found at i:55291 original size:2 final size:2
Alignment explanation
Indices: 55284--55347 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
55274 ATCCATCCTC
55284 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55326 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
55348 TGAGAGATGC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62853 original size:14 final size:14
Alignment explanation
Indices: 62815--62866 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
62805 CTCAAAATTA
*
62815 TAAACCCTAAACCT
1 TAAACCCTAAATCT
* * *
62829 TAGAGCTTAAATCT
1 TAAACCCTAAATCT
*
62843 TAAACCCTAAATCC
1 TAAACCCTAAATCT
*
62857 TAAACTCTAA
1 TAAACCCTAA
62867 TCCTAAAAAG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.42, C:0.27, G:0.04, T:0.27
Consensus pattern (14 bp):
TAAACCCTAAATCT
Found at i:62870 original size:13 final size:14
Alignment explanation
Indices: 62836--62873 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
62826 CCTTAGAGCT
*
62836 TAAATCTTAAACCC
1 TAAATCCTAAACCC
*
62850 TAAATCCTAAACTC
1 TAAATCCTAAACCC
62864 T-AATCCTAAA
1 TAAATCCTAAA
62874 AAGAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAATCCTAAACCC
Found at i:63252 original size:2 final size:2
Alignment explanation
Indices: 63245--63275 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
63235 GATCCTACCC
63245 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 T
63276 GCAGTAATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:74450 original size:60 final size:59
Alignment explanation
Indices: 74338--74473 Score: 139
Period size: 60 Copynumber: 2.3 Consensus size: 59
74328 ATAGTCGGGT
* *
74338 GACCATTTTGTAACTTTTAATAATAGAGGAACTCAACAAAGCAACACTCTATAGTCAGAG
1 GACCATTTTGTAACTTTTAATAATAGAGGAACTCAACAAAACAACACCCTATAGT-AGAG
* * * * * * ** * *
74398 GACCATTTTGTAACTTTTAATAGTTGAGGGACTTAATAAAATAGTACCCTATAGTTGAT
1 GACCATTTTGTAACTTTTAATAATAGAGGAACTCAACAAAACAACACCCTATAGTAGAG
74457 GACCATTTGTGT-ACTTT
1 GACCATTT-TGTAACTTT
74474 ACCCTATTAT
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
59 15 0.24
60 48 0.76
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (59 bp):
GACCATTTTGTAACTTTTAATAATAGAGGAACTCAACAAAACAACACCCTATAGTAGAG
Found at i:75307 original size:14 final size:14
Alignment explanation
Indices: 75288--75314 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
75278 ATTTATTTTT
75288 TAATTATAATTATA
1 TAATTATAATTATA
75302 TAATTATAATTAT
1 TAATTATAATTAT
75315 TATTTAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATTATAATTATA
Found at i:75540 original size:18 final size:18
Alignment explanation
Indices: 75517--75560 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
75507 CAGGTTCTTC
*
75517 CGACCGGTCGGACCGATT
1 CGACCGGTCGAACCGATT
* *
75535 CGACCGGTTGAACCGGTT
1 CGACCGGTCGAACCGATT
75553 CGACCGGT
1 CGACCGGT
75561 AGCATGACCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.32, G:0.34, T:0.18
Consensus pattern (18 bp):
CGACCGGTCGAACCGATT
Found at i:78721 original size:18 final size:17
Alignment explanation
Indices: 78681--78714 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
78671 ATCAATGATA
78681 ATATAAATATATATAAT
1 ATATAAATATATATAAT
78698 ATTATAAATAT-TATAAT
1 A-TATAAATATATATAAT
78715 TCATATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAAATATATATAAT
Found at i:82052 original size:26 final size:26
Alignment explanation
Indices: 82005--82055 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
81995 TGCTTAAATG
*
82005 ATATCATGCTGCTAACCGCTTAAACA
1 ATATCATGCTGCTAACCACTTAAACA
* *
82031 ATATCATGCTGCTTATCACTTAAAC
1 ATATCATGCTGCTAACCACTTAAAC
82056 CAACCCAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.31
Consensus pattern (26 bp):
ATATCATGCTGCTAACCACTTAAACA
Found at i:91013 original size:6 final size:6
Alignment explanation
Indices: 91002--91042 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
90992 ATATATACTG
* *
91002 ATATAC ATATAC ATATAC ATATAC ATATAT ATATAT ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
91043 TAGCCTACAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (6 bp):
ATATAC
Found at i:91033 original size:2 final size:2
Alignment explanation
Indices: 90992--91044 Score: 52
Period size: 2 Copynumber: 25.5 Consensus size: 2
90982 ATCAATGGAG
* * * *
90992 AT AT AT ACT GAT AT AC AT AT AC AT AT AC AT AT AC AT AT AT AT AT
1 AT AT AT A-T -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91036 AT AT AT AT A
1 AT AT AT AT A
91045 GCCTACACAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 38 0.93
3 2 0.05
4 1 0.02
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (2 bp):
AT
Found at i:91043 original size:12 final size:12
Alignment explanation
Indices: 90992--91044 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
90982 ATCAATGGAG
90992 ATATATACTGATAT
1 ATATATAC--ATAT
*
91006 ACATATACATAT
1 ATATATACATAT
*
91018 ACATATACATAT
1 ATATATACATAT
*
91030 ATATATATATAT
1 ATATATACATAT
91042 ATA
1 ATA
91045 GCCTACACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
12 29 0.81
14 7 0.19
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (12 bp):
ATATATACATAT
Found at i:92199 original size:17 final size:17
Alignment explanation
Indices: 92163--92200 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
92153 TATTATATTT
92163 TATTATTAAAATTTTGA
1 TATTATTAAAATTTTGA
92180 TATTCATTAAAATTTT-A
1 TATT-ATTAAAATTTTGA
92197 TATT
1 TATT
92201 TATATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (17 bp):
TATTATTAAAATTTTGA
Found at i:100211 original size:3 final size:3
Alignment explanation
Indices: 100203--100249 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
100193 CTCAATAATT
100203 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
100250 TCTCATTTTG
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:107893 original size:20 final size:18
Alignment explanation
Indices: 107867--107916 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 18
107857 ATCAAAACTG
107867 ATAATTTAAATAAAGCTTA
1 ATAATTTAAATAAAG-TTA
*
107886 ATTAATTTAAAATAAAGTTG
1 A-TAATTT-AAATAAAGTTA
107906 ATAATTTAAAT
1 ATAATTTAAAT
107917 TTGAAGATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 4 0.14
19 7 0.25
20 9 0.32
21 8 0.29
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (18 bp):
ATAATTTAAATAAAGTTA
Found at i:107912 original size:19 final size:20
Alignment explanation
Indices: 107865--107915 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
107855 GGATCAAAAC
107865 TGATAATTT-AAATAAAGCT
1 TGATAATTTAAAATAAAGCT
*
107884 TAATTAATTTAAAATAAAG-T
1 TGA-TAATTTAAAATAAAGCT
107904 TGATAATTTAAA
1 TGATAATTTAAA
107916 TTTGAAGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 11 0.39
20 9 0.32
21 8 0.29
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (20 bp):
TGATAATTTAAAATAAAGCT
Found at i:111552 original size:76 final size:76
Alignment explanation
Indices: 111419--111563 Score: 245
Period size: 76 Copynumber: 1.9 Consensus size: 76
111409 TCAGTGATAT
*
111419 AATCGAAACAAAAATTAAAGTTAATATTATAATTAAAACAATAAAAAGTTCAATGATATGAACAA
1 AATCGAAACAAAAAATAAAGTTAATATTATAATTAAAACAATAAAAAGTTCAATGATATGAACAA
111484 CACACCATCTA
66 CACACCATCTA
* * * *
111495 AATCGAAACAAAAAATAAAGTTATTATTATAATTAAAACAATTAAAAGTTTAGTGATATGAACAA
1 AATCGAAACAAAAAATAAAGTTAATATTATAATTAAAACAATAAAAAGTTCAATGATATGAACAA
111560 CACA
66 CACA
111564 TCGTACACGA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 64 1.00
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (76 bp):
AATCGAAACAAAAAATAAAGTTAATATTATAATTAAAACAATAAAAAGTTCAATGATATGAACAA
CACACCATCTA
Found at i:120578 original size:144 final size:144
Alignment explanation
Indices: 119564--120595 Score: 659
Period size: 144 Copynumber: 7.2 Consensus size: 144
119554 TCAAACACTT
* * * *
119564 CAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTATTGT-ACAAGTAAAGAAACAGC
1 CAACATTCCAATTTCTTGAGGTATAGAACCAGAGAGTCCATTTTTATGA-AAGGAAAGAAACAGC
119628 AGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTACAAATAAAG
65 AGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTACAAATAAAG
119693 CTCTTCAAGGGAACC
130 CTCTTCAAGGGAACC
* * * * * * ** * * * *
119708 CAACATTCCAATTTCTTTAGGTATGGACCCTGAAATTTTA-TTGTCTGAAAGGCCAAGATA-AGA
1 CAACATTCCAATTTCTTGAGGTATAGAACCAGAGAGTCCATTTTTATGAAAGG-AAAGAAACAG-
* * * * * ** * * **** * * * * ** *
119771 TAAGTTGGCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATT-TTCAG-AGAGGTC
64 CAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTT--GTACAAATA
* *
119834 AAGTTCATTCAA---ACACTT
127 AAGCTC-TTCAAGGGA-AC-C
* **
119852 CAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTATTTAAGGAAAGAAACAGCA
1 CAACATTCCAATTTCTTGAGGTATAGAACCAGAGAGTCCATTTTTATGAAAGGAAAGAAACAGCA
119917 GGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTACAAATAAAGC
66 GGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTACAAATAAAGC
119982 TCTTCAAGGGAACC
131 TCTTCAAGGGAACC
* * * * * * ** * * * *
119996 CAACATTCCAATTTCTTTAGGTATGGACCCTGAAATTTTA-TTGTCTGAAAGGCCAAGATA-AGA
1 CAACATTCCAATTTCTTGAGGTATAGAACCAGAGAGTCCATTTTTATGAAAGG-AAAGAAACAG-
* * * * * ** * * **** * * * * ** *
120059 TAAGTTGGCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATT-TTCAG-AGAGGTC
64 CAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTT--GTACAAATA
* *
120122 AAGTTCATTCAA---ACACTT
127 AAGCTC-TTCAAGGGA-AC-C
* **
120140 CAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTATTTAAGGAAAGAAACAGCA
1 CAACATTCCAATTTCTTGAGGTATAGAACCAGAGAGTCCATTTTTATGAAAGGAAAGAAACAGCA
*
120205 GGTTTGTCAAGTTTCCAATGGAAGGAGAAATTTCACCAATAAGACTATTGTTGTACAAATAAAGC
66 GGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTACAAATAAAGC
120270 TCTTCAAGGGAACC
131 TCTTCAAGGGAACC
* * * * * * ** * * * *
120284 CAACATTCCAATTTCTTTAGGTATTGACCCTGAAATTTTA-TTGTCTGAAAGGCCAAGATA-AGA
1 CAACATTCCAATTTCTTGAGGTATAGAACCAGAGAGTCCATTTTTATGAAAGG-AAAGAAACAG-
* * * * * ** * * **** * * * * ** *
120347 TAAGTTGGCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATT-TTCAG-AGAGGTC
64 CAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTT--GTACAAATA
* *
120410 AAGTTCATTCAA---ACACTT
127 AAGCTC-TTCAAGGGA-AC-C
* **
120428 CAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTATTTAAGGAAAGAAACAGCA
1 CAACATTCCAATTTCTTGAGGTATAGAACCAGAGAGTCCATTTTTATGAAAGGAAAGAAACAGCA
120493 GGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTACAAATAAAGC
66 GGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTACAAATAAAGC
120558 TCTTCAAGGGAACC
131 TCTTCAAGGGAACC
*
120572 CAACATTCCAATTTCTTTAGGTAT
1 CAACATTCCAATTTCTTGAGGTAT
120596 GGACCCTGAA
Statistics
Matches: 619, Mismatches: 226, Indels: 86
0.66 0.24 0.09
Matches are distributed among these distances:
142 3 0.00
143 58 0.09
144 495 0.80
145 60 0.10
146 3 0.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (144 bp):
CAACATTCCAATTTCTTGAGGTATAGAACCAGAGAGTCCATTTTTATGAAAGGAAAGAAACAGCA
GGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTACAAATAAAGC
TCTTCAAGGGAACC
Found at i:120651 original size:288 final size:288
Alignment explanation
Indices: 119425--120637 Score: 2230
Period size: 288 Copynumber: 4.2 Consensus size: 288
119415 TTGGTTAAAT
* * * **
119425 TTCCGATTTCTTTAGGTATGGGCCCTGAAATTTTATTGT-TAAGAAGGTTAAGATAAGATAAGTT
1 TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGTCTGA-AAGGCCAAGATAAGATAAGTT
* * * *
119489 GGCCAAATTTCCAACAGATGGAGGGAGAGAACCGATTAGCTTATTTCCAGAGAGGTCAAGTCCAT
65 GGCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTCAAGTTCAT
* * ** *
119554 TCAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTATTGTACAAGTAA
130 TCAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTATTTAAGGAA
119619 AGAAACAGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTA
195 AGAAACAGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTA
119684 CAAATAAAGCTCTTCAAGGGAACCCAACA
260 CAAATAAAGCTCTTCAAGGGAACCCAACA
119713 TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGTCTGAAAGGCCAAGATAAGATAAGTTG
1 TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGTCTGAAAGGCCAAGATAAGATAAGTTG
119778 GCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTCAAGTTCATT
66 GCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTCAAGTTCATT
119843 CAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTATTTAAGGAAA
131 CAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTATTTAAGGAAA
119908 GAAACAGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTAC
196 GAAACAGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTAC
119973 AAATAAAGCTCTTCAAGGGAACCCAACA
261 AAATAAAGCTCTTCAAGGGAACCCAACA
120001 TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGTCTGAAAGGCCAAGATAAGATAAGTTG
1 TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGTCTGAAAGGCCAAGATAAGATAAGTTG
120066 GCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTCAAGTTCATT
66 GCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTCAAGTTCATT
120131 CAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTATTTAAGGAAA
131 CAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTATTTAAGGAAA
*
120196 GAAACAGCAGGTTTGTCAAGTTTCCAATGGAAGGAGAAATTTCACCAATAAGACTATTGTTGTAC
196 GAAACAGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTAC
120261 AAATAAAGCTCTTCAAGGGAACCCAACA
261 AAATAAAGCTCTTCAAGGGAACCCAACA
*
120289 TTCCAATTTCTTTAGGTATTGACCCTGAAATTTTATTGTCTGAAAGGCCAAGATAAGATAAGTTG
1 TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGTCTGAAAGGCCAAGATAAGATAAGTTG
120354 GCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTCAAGTTCATT
66 GCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTCAAGTTCATT
120419 CAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTATTTAAGGAAA
131 CAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTATTTAAGGAAA
120484 GAAACAGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTAC
196 GAAACAGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTAC
120549 AAATAAAGCTCTTCAAGGGAACCCAACA
261 AAATAAAGCTCTTCAAGGGAACCCAACA
* * * *
120577 TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGCCAGAAAGGCGAAGATCAGATAA
1 TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGTCTGAAAGGCCAAGATAAGATAA
120638 ATCGGTTAAA
Statistics
Matches: 902, Mismatches: 22, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
288 900 1.00
289 2 0.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (288 bp):
TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGTCTGAAAGGCCAAGATAAGATAAGTTG
GCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTCAAGTTCATT
CAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTATTTAAGGAAA
GAAACAGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTAC
AAATAAAGCTCTTCAAGGGAACCCAACA
Found at i:120721 original size:72 final size:72
Alignment explanation
Indices: 120582--120723 Score: 194
Period size: 72 Copynumber: 2.0 Consensus size: 72
120572 CAACATTCCA
* * **
120582 ATTTCTTTAGGTATGGACCCTGAAATTTTATTGCCAGAAAGGCGAAGATCAGATAAATCGGTTAA
1 ATTTCTTTAGGTATGGACCCTGAAATTTTATTGCCAAAAAGGCGAAGATAAGATAAATCGGCCAA
120647 ATTTCTG
66 ATTTCTG
** ** * *
120654 ATTTCTTTAGGTATGGACCCTGAAATTTTATTGTTAAAAAGGTTAAGATAAGATAAGTTGGCCAA
1 ATTTCTTTAGGTATGGACCCTGAAATTTTATTGCCAAAAAGGCGAAGATAAGATAAATCGGCCAA
120719 ATTTC
66 ATTTC
120724 CAACAGATGG
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (72 bp):
ATTTCTTTAGGTATGGACCCTGAAATTTTATTGCCAAAAAGGCGAAGATAAGATAAATCGGCCAA
ATTTCTG
Found at i:120806 original size:360 final size:360
Alignment explanation
Indices: 120289--121250 Score: 1710
Period size: 360 Copynumber: 2.7 Consensus size: 360
120279 GAACCCAACA
* * * **
120289 TTCCAATTTCTTTAGGTATTGACCCTGAAATTTTATTGTCT-GAAAGGCCAAGATAAGATAAGTT
1 TTCCGATTTCTTTAGGTATGGACCCTGAAATTTTATTGT-TAAAAAGGTTAAGATAAGATAAGTT
* *
120353 GGCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTCAAGTTCAT
65 GGCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAAATTATTTTCAGAGAGGACAAGTTCAT
* *
120418 TCAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTATTTAAGGAA
130 TCAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTATATAAGTAA
120483 AGAAACAGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTA
195 AGAAACAGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTA
120548 CAAATAAAGCTCTTCAAGGGAACCCAACATTCCAATTTCTTTAGGTATGGACCCTGAAATTTTAT
260 CAAATAAAGCTCTTCAAGGGAACCCAACATTCCAATTTCTTTAGGTATGGACCCTGAAATTTTAT
*
120613 TGCCAGAAAGGCGAAGATCAGATAAATCGGTTAAAT
325 TGCCAGAAAGACGAAGATCAGATAAATCGGTTAAAT
*
120649 TTCTGATTTCTTTAGGTATGGACCCTGAAATTTTATTGTTAAAAAGGTTAAGATAAGATAAGTTG
1 TTCCGATTTCTTTAGGTATGGACCCTGAAATTTTATTGTTAAAAAGGTTAAGATAAGATAAGTTG
120714 GCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAAATTATTTTCAGAGAGGACAAGTTCATT
66 GCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAAATTATTTTCAGAGAGGACAAGTTCATT
120779 CAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTATATAAGTAAA
131 CAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTATATAAGTAAA
120844 GAAACAGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTAC
196 GAAACAGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTAC
120909 AAATAAAGCTCTTCAAGGGAACCCAACATTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATT
261 AAATAAAGCTCTTCAAGGGAACCCAACATTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATT
*
120974 GCCAGAAAGACGAAGATCAGATAAATTGGTTAAAT
326 GCCAGAAAGACGAAGATCAGATAAATCGGTTAAAT
*
121009 TTCCGATTTCTTTAGGTATGGACCCTGAAATTTGATTGTTAAAAAGGTTAAGATAAGATAAGTTG
1 TTCCGATTTCTTTAGGTATGGACCCTGAAATTTTATTGTTAAAAAGGTTAAGATAAGATAAGTTG
121074 GCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAAATTATTTTCAGAGAGGACAAGTTCATT
66 GCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAAATTATTTTCAGAGAGGACAAGTTCATT
* * *
121139 CAAACACTTCAACATTCCAATTTGTTGAGGTATAAAACCAGAGAGTCCATTATTGTATAAGTAAA
131 CAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTATATAAGTAAA
* * * * * *
121204 GAAACATCAGGTCTGTCATGTTTCCTATAGAAGCAGGAATTTCACCA
196 GAAACAGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCA
121251 GAAAGATTAT
Statistics
Matches: 578, Mismatches: 23, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
359 1 0.00
360 577 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (360 bp):
TTCCGATTTCTTTAGGTATGGACCCTGAAATTTTATTGTTAAAAAGGTTAAGATAAGATAAGTTG
GCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAAATTATTTTCAGAGAGGACAAGTTCATT
CAAACACTTCAACATTCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTTTATATAAGTAAA
GAAACAGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTAC
AAATAAAGCTCTTCAAGGGAACCCAACATTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATT
GCCAGAAAGACGAAGATCAGATAAATCGGTTAAAT
Found at i:121062 original size:72 final size:72
Alignment explanation
Indices: 120937--121086 Score: 192
Period size: 72 Copynumber: 2.1 Consensus size: 72
120927 GAACCCAACA
* * *
120937 TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGCCAGAAAGACGAAGATCAGATAAATTG
1 TTCCAATTTCTTTAGGTATGGACCCTGAAATTTGATTGCCAAAAAGACGAAGATAAGATAAATTG
**
121002 GTTAAAT
66 GCCAAAT
* ** *** *
121009 TTCCGATTTCTTTAGGTATGGACCCTGAAATTTGATTGTTAAAAAGGTTAAGATAAGATAAGTTG
1 TTCCAATTTCTTTAGGTATGGACCCTGAAATTTGATTGCCAAAAAGACGAAGATAAGATAAATTG
121074 GCCAAAT
66 GCCAAAT
121081 TTCCAA
1 TTCCAA
121087 CAGATGGAGG
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (72 bp):
TTCCAATTTCTTTAGGTATGGACCCTGAAATTTGATTGCCAAAAAGACGAAGATAAGATAAATTG
GCCAAAT
Found at i:122075 original size:142 final size:142
Alignment explanation
Indices: 121819--122124 Score: 558
Period size: 142 Copynumber: 2.2 Consensus size: 142
121809 AGACTTTGAC
*
121819 ATTTCAAGCATGCAGCCAACCGGGTCGCACCGTCTTCATCGGGGTTGAAACTTATGGGGGTGACC
1 ATTTCAAGCATGCAGCCAACCGGGTCGCACCGTCTTCATCGGGGTTGAAACTTAAGGGGGTGACC
* *
121884 ACATGCTTCGTATCCTTCTTTTTTAGTACCATTATTTTCAGCCCTTTCATTTTCTGAAATAACCT
66 ACATGCTTCGTATCCTGCTTTTTAAGTACCATTATTTTCAGCCCTTTCATTTTCTGAAATAACCT
121949 TAGGGGAAGGTT
131 TAGGGGAAGGTT
*
121961 ATTTCAAGCATGCAGCCAACCGGGTCGCACCGTCTTCATCGGGGTTGGAACTTAAGGGGGTGACC
1 ATTTCAAGCATGCAGCCAACCGGGTCGCACCGTCTTCATCGGGGTTGAAACTTAAGGGGGTGACC
*
122026 ACATGCTTCGTATCCTGCTTTTTAAGTACCATTATTTTCAGCCTTTTCATTTTCTGAAATAACCT
66 ACATGCTTCGTATCCTGCTTTTTAAGTACCATTATTTTCAGCCCTTTCATTTTCTGAAATAACCT
122091 TAGGGGAAGGTT
131 TAGGGGAAGGTT
*
122103 ATTTCAAGCATACAGCCAACCG
1 ATTTCAAGCATGCAGCCAACCG
122125 ATCGAATCGA
Statistics
Matches: 158, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 158 1.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (142 bp):
ATTTCAAGCATGCAGCCAACCGGGTCGCACCGTCTTCATCGGGGTTGAAACTTAAGGGGGTGACC
ACATGCTTCGTATCCTGCTTTTTAAGTACCATTATTTTCAGCCCTTTCATTTTCTGAAATAACCT
TAGGGGAAGGTT
Found at i:123403 original size:23 final size:22
Alignment explanation
Indices: 123377--123427 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
123367 GGTTATTTTG
* *
123377 AAATTTATATGTTTTCTTTTTAA
1 AAATTTATA-ATTTTATTTTTAA
* *
123400 AAATATATAATTTTATTTTTTA
1 AAATTTATAATTTTATTTTTAA
123422 AAATTT
1 AAATTT
123428 TTAAATAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
AAATTTATAATTTTATTTTTAA
Found at i:125054 original size:19 final size:19
Alignment explanation
Indices: 125032--125076 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
125022 ATAAAACAAG
125032 AAAAAAAATAAAAAATAAC
1 AAAAAAAATAAAAAATAAC
* ** *
125051 AAAACACGTAAAAAATAAT
1 AAAAAAAATAAAAAATAAC
125070 AAAAAAA
1 AAAAAAA
125077 TAACAATAAT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.11
Consensus pattern (19 bp):
AAAAAAAATAAAAAATAAC
Found at i:125077 original size:30 final size:27
Alignment explanation
Indices: 125024--125082 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 27
125014 AATAATAAAT
125024 AAAACAAGAAAAAAAATAAAAAATAAC
1 AAAACAAGAAAAAAAATAAAAAATAAC
*
125051 AAAACACGTAAAAAATAATAAAAAAATAAC
1 AAAACAAG-AAAAAA-AAT-AAAAAATAAC
125081 AA
1 AA
125083 TAATAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 7 0.25
28 6 0.21
29 3 0.11
30 12 0.43
ACGTcount: A:0.78, C:0.08, G:0.03, T:0.10
Consensus pattern (27 bp):
AAAACAAGAAAAAAAATAAAAAATAAC
Found at i:125179 original size:18 final size:17
Alignment explanation
Indices: 125147--125193 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
125137 TATTAATGGA
125147 GTAAAAAAATAAAAAAG
1 GTAAAAAAATAAAAAAG
*
125164 GTAAAAGAAATTAAAAA-
1 GTAAAA-AAATAAAAAAG
125181 GTAATAAAAATAA
1 GTAA-AAAAATAA
125194 TATGTACATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (17 bp):
GTAAAAAAATAAAAAAG
Found at i:125299 original size:10 final size:10
Alignment explanation
Indices: 125286--125388 Score: 57
Period size: 11 Copynumber: 9.4 Consensus size: 10
125276 ATATTAAAAA
125286 AATAAAATAT
1 AATAAAATAT
125296 AATAAAAATAT
1 AAT-AAAATAT
*
125307 AATATATATAT
1 AATA-AAATAT
125318 ATATATAAATA-
1 A-ATA-AAATAT
* *
125329 AATAAAAACAAA
1 AAT-AAAA-TAT
125341 AATAAAATATT
1 AATAAAATA-T
*
125352 AAGAAAAAATAT
1 -A-ATAAAATAT
125364 ATATAAAA-AT
1 A-ATAAAATAT
125374 ATATAAAATAT
1 A-ATAAAATAT
125385 AATA
1 AATA
125389 TTAAGAAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
10 23 0.31
11 32 0.43
12 13 0.17
13 7 0.09
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.29
Consensus pattern (10 bp):
AATAAAATAT
Found at i:125300 original size:71 final size:67
Alignment explanation
Indices: 125225--125399 Score: 180
Period size: 71 Copynumber: 2.5 Consensus size: 67
125215 TTACTAAACA
*
125225 AATAAAAATAATAAATATATAATACTAAGTAAAACAAATA-AAAAATAAATGATATTAAAAAAAT
1 AATAAAAATAATAAATATATAATAATAAGTAAAA-AAA-ACAAAAATAAA--ATATTAAAAAAA-
125289 AAAATAT
61 AAAATAT
* *
125296 AATAAAAAT-ATAATATATATATATATATAAATAAATAAAAACAAAAATAAAATATTAAGAAAAA
1 AATAAAAATAATAA-ATATATA-ATA-ATAAGTAAA-AAAAACAAAAATAAAATATTAAAAAAAA
*
125360 ATATAT
62 AAATAT
*
125366 -ATAAAAATATATAAA-ATATAATATTAAG-AAAAAA
1 AATAAAAATA-ATAAATATATAATAATAAGTAAAAAA
125400 TATATATACA
Statistics
Matches: 91, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
65 3 0.03
66 3 0.03
67 3 0.03
68 3 0.03
69 13 0.14
70 11 0.12
71 31 0.34
72 4 0.04
73 19 0.21
74 1 0.01
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (67 bp):
AATAAAAATAATAAATATATAATAATAAGTAAAAAAAACAAAAATAAAATATTAAAAAAAAAAAT
AT
Found at i:125342 original size:73 final size:69
Alignment explanation
Indices: 125228--125388 Score: 181
Period size: 73 Copynumber: 2.3 Consensus size: 69
125218 CTAAACAAAT
*
125228 AAAA-ATAATAAATATATAATACTAAGTAAAACAAATAAAAAATAAATGATATTAAAAAAATAAA
1 AAAATATAATAAATATATAATACTAAATAAAACAAATAAAAAATAAA--ATATTAAAAAAA-AAA
125292 ATATAATA
63 ATAT-ATA
* * *
125300 AAAATATAATATATATATATATA-TAAATAAATA-AAA-ACAAAAATAAAATATTAAGAAAAAAT
1 AAAATATAATAAATATATA-ATACTAAATAAA-ACAAATA-AAAAATAAAATATTAAAAAAAAAA
125362 ATATATA
63 ATATATA
125369 AAAATAT-ATAAA-ATATAATA
1 AAAATATAATAAATATATAATA
125389 TTAAGAAAAA
Statistics
Matches: 80, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
66 3 0.04
67 5 0.06
68 4 0.05
69 10 0.12
70 6 0.08
71 11 0.14
72 5 0.06
73 32 0.40
74 4 0.05
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (69 bp):
AAAATATAATAAATATATAATACTAAATAAAACAAATAAAAAATAAAATATTAAAAAAAAAAATA
TATA
Found at i:125359 original size:12 final size:13
Alignment explanation
Indices: 125344--125405 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 13
125334 AAACAAAAAT
125344 AAAATAT-TAAGA
1 AAAATATATAAGA
*
125356 AAAA-ATATATATA
1 AAAATATATA-AGA
125369 AAAATATATAA-A
1 AAAATATATAAGA
125381 ATATAATAT-TAAGAA
1 A-A-AATATATAAG-A
125396 AAAATATATA
1 AAAATATATA
125406 TACATAGTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
11 2 0.05
12 8 0.20
13 16 0.39
14 13 0.32
15 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (13 bp):
AAAATATATAAGA
Found at i:125492 original size:25 final size:24
Alignment explanation
Indices: 125444--125516 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 24
125434 ATCTATACAT
* *
125444 ATATATATATATATATAATGATATAA
1 ATATATATA-ATA-AAAATAATATAA
125470 GATATATATAATAAAAATAATAT-A
1 -ATATATATAATAAAAATAATATAA
*
125494 ATATAAATAA-AAAAATGAATATA
1 ATATATATAATAAAAAT-AATATA
125517 GTAAATAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 6 0.15
23 14 0.34
24 1 0.02
25 8 0.20
26 3 0.07
27 9 0.22
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (24 bp):
ATATATATAATAAAAATAATATAA
Found at i:125497 original size:21 final size:21
Alignment explanation
Indices: 125448--125554 Score: 63
Period size: 19 Copynumber: 5.5 Consensus size: 21
125438 ATACATATAT
* *
125448 ATATATATATATAAT-GATATA
1 ATATA-ATATATAATAAAAATA
*
125469 AGAT-ATATATAATAAAAATA
1 ATATAATATATAATAAAAATA
125489 ATATAATATA-AATAAAAA-A
1 ATATAATATATAATAAAAATA
* *
125508 AT-GAATATAGTAA-ATAAATA
1 ATATAATATA-TAATAAAAATA
* *
125528 A-ATAA-ATAAAATTAAAA-A
1 ATATAATATATAATAAAAATA
125546 ATAT-ATATA
1 ATATAATATA
125555 GGGGATGAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
18 11 0.16
19 27 0.40
20 21 0.31
21 8 0.12
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (21 bp):
ATATAATATATAATAAAAATA
Found at i:125497 original size:23 final size:23
Alignment explanation
Indices: 125444--125529 Score: 59
Period size: 25 Copynumber: 3.6 Consensus size: 23
125434 ATCTATACAT
* *
125444 ATATATATATATATATAATGATATA
1 ATATATATA-ATA-AAAATAATATA
*
125469 AGATATATATAATAAAAATAATATA
1 ATATAT--ATAATAAAAATAATATA
*
125494 ATATAAATAA-AAAAATGAATATA
1 ATATATATAATAAAAAT-AATATA
* *
125517 GTAAATA-AATAAA
1 ATATATATAATAAA
125530 TAAATAAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
22 8 0.16
23 17 0.35
25 18 0.37
26 3 0.06
27 3 0.06
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
ATATATATAATAAAAATAATATA
Found at i:125527 original size:4 final size:4
Alignment explanation
Indices: 125484--125537 Score: 54
Period size: 4 Copynumber: 12.8 Consensus size: 4
125474 TATATAATAA
* * *
125484 AAAT AATAT AATAT AAAT AAAA AAAT GAAT ATAGT AAAT AAAT AAAT AAAT
1 AAAT AA-AT AA-AT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT
125535 AAA
1 AAA
125538 ATTAAAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
4 30 0.71
5 12 0.29
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:126712 original size:85 final size:83
Alignment explanation
Indices: 126588--126774 Score: 207
Period size: 83 Copynumber: 2.2 Consensus size: 83
126578 CTATTTTCGT
* * * * * * *
126588 TGACAGATAGCCATTCTTGCCTTGAGCTATACTGTAAATT-TGATTTACCTCT-GAGTTGAATGT
1 TGACAGATAACCCTTCTTTCCTTGAGCTATACTGCAAATTATG-TGT--CT-TGGAGCTGAACGT
126651 AATCGAACTCGAAGGTCTTTGA
62 AATCGAACTCGAAGGTCTTTGA
* * * * *
126673 TGATAGATAACCCTTCTTTCCTTGAGTTATGCTGCAAATTATGTGTCTTGGAGCTGAGCGTAGTC
1 TGACAGATAACCCTTCTTTCCTTGAGCTATACTGCAAATTATGTGTCTTGGAGCTGAACGTAATC
*
126738 GAACTCGAAGGTCTTTGT
66 GAACTCGAAGGTCTTTGA
126756 TGACAGATAACCCTTCTTT
1 TGACAGATAACCCTTCTTT
126775 GAGTTGGATA
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
82 1 0.01
83 48 0.56
85 35 0.41
86 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (83 bp):
TGACAGATAACCCTTCTTTCCTTGAGCTATACTGCAAATTATGTGTCTTGGAGCTGAACGTAATC
GAACTCGAAGGTCTTTGA
Found at i:127163 original size:110 final size:110
Alignment explanation
Indices: 126953--127211 Score: 266
Period size: 110 Copynumber: 2.4 Consensus size: 110
126943 AGTATTGTTC
*
126953 CGAGTCCAATATC-CTC-CGTCGTGAAGTTG-AAATTGGCTCTG---G-AACTGGGAAA-TTATT
1 CGAGTCCAATATCACTCGC-T-GTGAAGTTGAAAATT-GCTCTGAATGAAACT-GAAAAGTTATT
* * * * *
127010 TGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCT
62 TGTTGACAACCAACCGCCCATTCGCTATGAAGTTGAACTTGTGTTGTCT
** *
127059 CGAGTTTAATATCATTCGCTGTGAAGTT-AAAATTGACTCTGAATGAAACTGAAAAGTTATTTGT
1 CGAGTCCAATATCACTCGCTGTGAAGTTGAAAATTG-CTCTGAATGAAACTGAAAAGTTATTTGT
* * * *
127123 TGACAATCAATCGCCCATTCGTTATGAATTTGAACTTGTGTTGTCT
65 TGACAACCAACCGCCCATTCGCTATGAAGTTGAACTTGTGTTGTCT
* * *
127169 TGAGTCCAATATCCCTCGCTGTGAAGTTGAAATTTGCTCTGAA
1 CGAGTCCAATATCACTCGCTGTGAAGTTGAAAATTGCTCTGAA
127212 ACTGGGAAGC
Statistics
Matches: 124, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
105 1 0.01
106 29 0.23
107 3 0.02
108 1 0.01
109 5 0.04
110 79 0.64
111 6 0.05
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (110 bp):
CGAGTCCAATATCACTCGCTGTGAAGTTGAAAATTGCTCTGAATGAAACTGAAAAGTTATTTGTT
GACAACCAACCGCCCATTCGCTATGAAGTTGAACTTGTGTTGTCT
Found at i:128020 original size:65 final size:67
Alignment explanation
Indices: 127874--128041 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 67
127864 ATGAAAAATG
* * **
127874 GTCTCAAGGGAAACAAAATTTTGTTTTAAGG-GAAATACATTTGAAGATTTTGTGTTTCAAGAGA
1 GTCTCAAGGGAGACAAAA-TTTGTTTT-AGGAGAAATAAATTCAAAGATTTTGTGTTTCAAGAGA
127938 AACT
64 AACT
127942 GTCTCAAGGGAGACAAAATTTGTTTTAGGAGAAATAAATTCAAAGA-TTT-TGTTTCAAG-GTAA
1 GTCTCAAGGGAGACAAAATTTGTTTTAGGAGAAATAAATTCAAAGATTTTGTGTTTCAAGAG-AA
128004 ACT
65 ACT
* * * *
128007 GTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAAT
1 GTCTCAAGGGAGACAAAATTTGTTTTAGGAGAAAT
128042 TGTCTTAAGA
Statistics
Matches: 90, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
64 1 0.01
65 45 0.50
66 6 0.07
67 21 0.23
68 17 0.19
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.32
Consensus pattern (67 bp):
GTCTCAAGGGAGACAAAATTTGTTTTAGGAGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAA
CT
Found at i:128046 original size:36 final size:36
Alignment explanation
Indices: 127989--128316 Score: 194
Period size: 36 Copynumber: 9.4 Consensus size: 36
127979 ATTCAAAGAT
*
127989 TTTGTTTCAAG-GTAAACTGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGAG-AAACTGTCTCAAGAGAGACAAAA
* *
128025 TTTGTTTCAAGAGAAATTGTCTTAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
128061 CTTAGTTCCAAAAGAAACTGTCTCAAG-GTAGACGAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAG-AGACAAAA
* * * *
128098 TTTGTTTCAA-ATAAAACATAT-TC-----A-A-ATAT
1 TTTGTTTCAAGA-GAAAC-TGTCTCAAGAGAGACAAAA
* * *
128127 TTTATTTCAAGGGAAACTATCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * *
128163 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
128199 TTTATTTCAATG-GAAA-TGTTTTC-A-A-TG-----T
1 TTTGTTTCAA-GAGAAACTG-TCTCAAGAGAGACAAAA
*
128227 TTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
1 TT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
128264 TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
128301 TTCGTTTCAAGGGAAA
1 TTTGTTTCAAGAGAAA
128317 TGTTTTCAAT
Statistics
Matches: 226, Mismatches: 38, Indels: 56
0.71 0.12 0.17
Matches are distributed among these distances:
28 6 0.03
29 30 0.13
30 4 0.02
31 1 0.00
32 1 0.00
33 1 0.00
34 2 0.01
35 5 0.02
36 111 0.49
37 63 0.28
38 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (36 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:128083 original size:37 final size:36
Alignment explanation
Indices: 128002--128087 Score: 109
Period size: 37 Copynumber: 2.4 Consensus size: 36
127992 GTTTCAAGGT
* * * *
128002 AAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAG
1 AAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAAG
* *
128038 AAATTGTCTTAAGAGAGACAAAACTTAGTTCCAAAAG
1 AAACTGTCTCAAGAGAGACAAAA-TTAGTTCCAAAAG
128075 AAACTGTCTCAAG
1 AAACTGTCTCAAG
128088 GTAGACGAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 20 0.49
37 21 0.51
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (36 bp):
AAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAAG
Found at i:128100 original size:138 final size:138
Alignment explanation
Indices: 127935--128194 Score: 380
Period size: 138 Copynumber: 1.9 Consensus size: 138
127925 GTGTTTCAAG
* * *
127935 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGAGAAATA-A-ATTCAAAGATTTTGTTTCA
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCA-AAGAAA-ACATATTCAAAGATTTTATTTCA
* * * *
127998 AGGTAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAATTGTCTTAAGAGAGACAAAACT
64 AGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACT
128063 TAGTTCCAAA
129 TAGTTCCAAA
* * * *
128073 AGAAACTGTCTCAAGGTAGACGAAATTTGTTTCAAATAAAACATATTCAAATATTTTATTTCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACATATTCAAAGATTTTATTTCAAG
*
128138 GGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAATTGTCTCAAGAGAGAC
66 GGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATTGTCTCAAGAGAGAC
128195 GAAATTTATT
Statistics
Matches: 108, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
136 1 0.01
137 5 0.05
138 102 0.94
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.28
Consensus pattern (138 bp):
AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACATATTCAAAGATTTTATTTCAAG
GGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTA
GTTCCAAA
Found at i:128158 original size:102 final size:102
Alignment explanation
Indices: 128029--128392 Score: 369
Period size: 102 Copynumber: 3.6 Consensus size: 102
128019 ACGAAATTTG
* * * * **
128029 TTTCAAGAGAAATTGTCTTAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAG-GTAGA
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAG-AGA
128093 CGAAATTTGTTTCAAAT-AAAACATATTCAAATATTT-TA
64 CGAAATTTGTTTCAAATGAAAACATATTC-AATATTTATA
* * *
128131 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAATTGTCTCAAGAGAGACG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACG
* * ** * * *
128196 AAATTTATTTC-AATGGAAATGTTTTCAATGTTTATG
66 AAATTTGTTTCAAATGAAAACATATTCAATATTTATA
* *
128232 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
* * * * ** * * *
128297 AAAATTCGTTTC-AAGGGAAATGTTTTCAATGTTTATG
65 GAAATTTGTTTCAAATGAAAACATATTCAATATTTATA
* * * *
128334 TTTCAAGAGAAACTGTCTCAAGGGAGACAATATTTTGTTTCAAAGGAAACTATCTCAAG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAA-AATTTGTTTCAAGGGAAACTGTCTCAAG
128393 CGATATAAAA
Statistics
Matches: 230, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
100 9 0.04
101 73 0.32
102 147 0.64
103 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (102 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACG
AAATTTGTTTCAAATGAAAACATATTCAATATTTATA
Found at i:128281 original size:37 final size:37
Alignment explanation
Indices: 128230--128392 Score: 141
Period size: 37 Copynumber: 4.6 Consensus size: 37
128220 TCAATGTTTA
*
128230 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTT
* *
128267 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTT
* * *
128303 CGTTTCAAGGGAAA-TGTTTTCAA---TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGGGAGACAAAATTT
* *
128331 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAATATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTT
* *
128369 TGTTTCAAAGGAAACTATCTCAAG
1 TGTTTCAAGGGAAACTGTCTCAAG
128393 CGATATAAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
28 2 0.02
29 17 0.17
30 2 0.02
32 1 0.01
33 1 0.01
35 1 0.01
36 20 0.20
37 52 0.53
38 3 0.03
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.30
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:128403 original size:102 final size:101
Alignment explanation
Indices: 128131--128392 Score: 407
Period size: 102 Copynumber: 2.6 Consensus size: 101
128121 AAATATTTTA
* * * * * * *
128131 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAATTGTCTCAAGAGAGACG
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACA
* *
128196 AAATTTATTTCAATGGAAATGTTTTCAATGTTTATG
66 AAATTCATTTCAAGGGAAATGTTTTCAATGTTTATG
128232 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
1 TTTCAAGAGAAACTGTCTCAAGGGAGAC-AAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
*
128297 AAAATTCGTTTCAAGGGAAATGTTTTCAATGTTTATG
65 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATG
*
128334 TTTCAAGAGAAACTGTCTCAAGGGAGACAATATTTTGTTTCAAAGGAAACTATCTCAAG
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAA-ATTTTGTTTCAAGGGAAACTATCTCAAG
128393 CGATATAAAA
Statistics
Matches: 148, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
101 27 0.18
102 121 0.82
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.31
Consensus pattern (101 bp):
TTTCAAGAGAAACTGTCTCAAGGGAGACAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACA
AAATTCATTTCAAGGGAAATGTTTTCAATGTTTATG
Found at i:129971 original size:68 final size:69
Alignment explanation
Indices: 129862--129998 Score: 240
Period size: 68 Copynumber: 2.0 Consensus size: 69
129852 TGTTTCTCTC
* *
129862 TTGATGCTCTATGATCTTCGAGTGGAGTGATTCAGTGATTCAGAAATGATTGTGCTTG-TCAATC
1 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATGGTGCTTGATCAATC
129926 TCAT
66 TCAT
*
129930 TTGATGCTCTATGATCTTCGAGTGAAGTGGTTCAGTGATTCAGAAATGATGGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATGGTGCTTGATCAATC
129995 TCAT
66 TCAT
129999 AGTTTGAATC
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
68 55 0.85
69 10 0.15
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (69 bp):
TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATGGTGCTTGATCAATC
TCAT
Found at i:133228 original size:26 final size:27
Alignment explanation
Indices: 133181--133237 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 27
133171 AATAATAAAT
**
133181 AAAACAAGAAAAAAAT-GGAAAATAAC
1 AAAACAAGAAAAAAATAAAAAAATAAC
* * *
133207 AAAACACGTAAAAAATAAAAAAATAAT
1 AAAACAAGAAAAAAATAAAAAAATAAC
133234 AAAA
1 AAAA
133238 ATAAACAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.75, C:0.07, G:0.07, T:0.11
Consensus pattern (27 bp):
AAAACAAGAAAAAAATAAAAAAATAAC
Found at i:133237 original size:17 final size:19
Alignment explanation
Indices: 133217--133256 Score: 66
Period size: 17 Copynumber: 2.2 Consensus size: 19
133207 AAAACACGTA
133217 AAAAATAAA-AAAAT-AAT
1 AAAAATAAACAAAATGAAT
133234 AAAAATAAACAAAATGAAT
1 AAAAATAAACAAAATGAAT
133253 AAAA
1 AAAA
133257 TGTTAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.43
18 5 0.24
19 7 0.33
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (19 bp):
AAAAATAAACAAAATGAAT
Found at i:133493 original size:41 final size:40
Alignment explanation
Indices: 133439--133616 Score: 119
Period size: 41 Copynumber: 4.3 Consensus size: 40
133429 CAGTTTCCAG
**
133439 ATTCGCAACGCGATTATGACTATCGCAATGCGATTTTCTA
1 ATTCGCATTGCGATTATGACTATCGCAATGCGATTTTCTA
* * ** * ***
133479 ATTTCGCGTTGCGATTTTCCCAATTCGCAATGCGAATTTAGAA
1 A-TTCGCATTGCGATTATGACTA-TCGCAATGCG-ATTTTCTA
* * *
133522 AATCGCAATGCGA-TACTGACTATCGCAATGCAATTTTCCTA
1 ATTCGCATTGCGATTA-TGACTATCGCAATGCGATTTT-CTA
**
133563 ATTCGCATTGCGATT-T-ACGTATTCGCGTTGCGATTTTCATA
1 ATTCGCATTGCGATTATGAC-TA-TCGCAATGCGATTTTC-TA
*
133604 ATTCGCAATGCGA
1 ATTCGCATTGCGA
133617 ATTAGGAAAA
Statistics
Matches: 102, Mismatches: 27, Indels: 17
0.70 0.18 0.12
Matches are distributed among these distances:
39 2 0.02
40 9 0.09
41 62 0.61
42 23 0.23
43 6 0.06
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (40 bp):
ATTCGCATTGCGATTATGACTATCGCAATGCGATTTTCTA
Found at i:133512 original size:21 final size:21
Alignment explanation
Indices: 133461--133616 Score: 104
Period size: 21 Copynumber: 7.5 Consensus size: 21
133451 ATTATGACTA
133461 TCGCAATGCGATTTT-CTAATT
1 TCGCAATGCGATTTTCCTAA-T
** *
133482 TCGCGTTGCGATTTTCCCAAT
1 TCGCAATGCGATTTTCCTAAT
* *** *
133503 TCGCAATGCGAATTTAGAAAA
1 TCGCAATGCGATTTTCCTAAT
* **
133524 TCGCAATGCGATACTGACT-A-
1 TCGCAATGCGAT-TTTCCTAAT
*
133544 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCCTAAT
* * *
133565 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCCTAAT
** *
133585 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCCTAAT
133606 TCGCAATGCGA
1 TCGCAATGCGA
133617 ATTAGGAAAA
Statistics
Matches: 102, Mismatches: 28, Indels: 10
0.73 0.20 0.07
Matches are distributed among these distances:
19 3 0.03
20 29 0.28
21 65 0.64
22 5 0.05
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCTAAT
Found at i:133650 original size:103 final size:102
Alignment explanation
Indices: 133457--133682 Score: 273
Period size: 103 Copynumber: 2.2 Consensus size: 102
133447 CGCGATTATG
* *
133457 ACTATCGCAATGCGATTTTC-TAATTTCGCGTTGCGATTTTCCCAATTCGCAATGCGAATTTAGA
1 ACTATCGCAATGCGATTTACGT-A-TTCGCGTTGCGATTTTCACAATTCGCAATGCGAATTTAGA
* * * *
133521 AAATCGCAATGCGATACTGACTATCGCAATGC-AATTTT
64 AAATCACAACGCGATACTGACAATCGCAATGCGAATCTT
* * *
133559 CCTAATTCGCATTGCGATTTACGTATTCGCGTTGCGATTTTCATAATTCGCAATGCGAA-TTAGG
1 ACT-A-TCGCAATGCGATTTACGTATTCGCGTTGCGATTTTCACAATTCGCAATGCGAATTTA-G
133623 AAAATCACAACGCGAATAC-GTA-AATCGCAATGCGAATCTT
63 AAAATCACAACGCG-ATACTG-ACAATCGCAATGCGAATCTT
133663 ACTATCGCAATGCGATTTAC
1 ACTATCGCAATGCGATTTAC
133683 ATAGCGCCAT
Statistics
Matches: 106, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
102 20 0.19
103 58 0.55
104 27 0.25
105 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (102 bp):
ACTATCGCAATGCGATTTACGTATTCGCGTTGCGATTTTCACAATTCGCAATGCGAATTTAGAAA
ATCACAACGCGATACTGACAATCGCAATGCGAATCTT
Found at i:133657 original size:20 final size:20
Alignment explanation
Indices: 133606--133677 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
133596 TTTTCATAAT
* *
133606 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
* *
133627 TCACAACGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
133647 TCGCAATGCGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
133667 TCGCAATGCGA
1 TCGCAATGCGA
133678 TTTACATAGC
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
19 3 0.07
20 29 0.69
21 10 0.24
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:134257 original size:19 final size:19
Alignment explanation
Indices: 134193--134277 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 19
134183 TAGTTTCGAG
134193 AATGAAAATCGCAACGCGGA
1 AATGAAAATCGCAACGC-GA
*
134213 AAT-AACTATCGCAA--CG-
1 AATGAA-AATCGCAACGCGA
*
134229 -A-GAGAATCGCAACGCGA
1 AATGAAAATCGCAACGCGA
134246 AATGAAAATCGCAACGCGA
1 AATGAAAATCGCAACGCGA
**
134265 AACCAAAATCGCA
1 AATGAAAATCGCA
134278 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
14 7 0.13
15 2 0.04
16 2 0.04
17 1 0.02
18 2 0.04
19 28 0.54
20 10 0.19
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.11
Consensus pattern (19 bp):
AATGAAAATCGCAACGCGA
Found at i:134363 original size:20 final size:19
Alignment explanation
Indices: 134273--134371 Score: 126
Period size: 19 Copynumber: 5.1 Consensus size: 19
134263 GAAACCAAAA
*
134273 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
134292 TCACGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
134311 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
134330 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
134350 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
134370 TC
1 TC
134372 AACCAAAAGA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
19 36 0.52
20 32 0.46
21 1 0.01
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:136026 original size:401 final size:402
Alignment explanation
Indices: 135278--136086 Score: 1349
Period size: 401 Copynumber: 2.0 Consensus size: 402
135268 ATATTGTTTG
*
135278 TAGATTTGGATATTCGAGGCTTTCCCCAGCATGCGTACATATGCAATAAAAACGTCAAATGATAT
1 TAGATTTGGATATTCGAGGCTTTCCCCA-CATGAGTACATATGCAATAAAAACGTCAAATGATAT
135343 TCCCAGGGCTATTTCCTGGAAGAGGAAAAATCTGTTGGATTGGGAAGACTTAATACCATATGCGA
65 TCCCAGGGCTATTTCCTGGAAGAGGAAAAATCTGTTGGATTGGGAAGACTTAATACCATATGCGA
135408 CAATAAATAATGTAAGTTAACACAAATACTTTCATATAATATATAAACAAGTTATTAATAGTAGA
130 CAATAAATAATGTAAGTTAACACAAATA---TCATATAATATATAAACAAGTTATTAATAGTAGA
135473 CGTTTAACTTTGTTTGAGTTTTTATATTGTTAGGAGGCCAACATTCCATTACAAAGACTGACACC
192 CGTTTAACTTTGTTTGAGTTTTTATATTGTTAGGAGGCCAACATTCCATTACAAAGACTGACACC
* * *
135538 CACGGAGGAAGAGCTTGCCACTGATTGGTGGCAAGCTAGTCAGAGTTTTTTTGATGGCACGGATG
257 CACGGAGGAAGAGCTTGCCACTGATTGGTGGCAAGCTAGTCAGACTTTTCTTGATGGCACGAATG
135603 ATGAGCAGCATCCACTTCCTCCAATTCGAGAGCCATCACCTCACCCAGAGCCATCACCCGATCGA
322 ATGAGCAGCATCCACTTCCTCCAATTCGAGAGCCATCACCTCACCCAGAGCCATCACCCGATCGA
135668 CCCGACTATACACCTC
387 CCCGACTATACACCTC
*
135684 TAGATTTGGATATTCGAGGCATTTCCCGC-CATGAAG-ACATATGCAATAAAAACTTCAAATGAT
1 TAGATTTGGATATTCGAGGC-TTTCCC-CACATG-AGTACATATGCAATAAAAACGTCAAATGAT
* * **
135747 ATTCCCATGGCTATTTTCTGGAAGAGGAAACGTCTGTTGGATTGGGAAGACTTAATACCATATGC
63 ATTCCCAGGGCTATTTCCTGGAAGAGGAAAAATCTGTTGGATTGGGAAGACTTAATACCATATGC
*
135812 GACAATAAATAATGTAAGTTAACACAAATA-C-TATCATATATAAACAAGTTATTAATAGTAGAC
128 GACAATAAATAATGTAAGTTAACACAAATATCATATAATATATAAACAAGTTATTAATAGTAGAC
* *
135875 GTTTAACTTTGTTTGAGTTTTTATATTTTTAGGAGGCCAACATTCCATTA-ATGAGACTGACACC
193 GTTTAACTTTGTTTGAGTTTTTATATTGTTAGGAGGCCAACATTCCATTACA-AAGACTGACACC
** *
135939 CACGGAGGCTGAGCTTGCCACTGATTGGTGGCAAGCTAGTCAGCCTTTTCTTGATGGCACGAATG
257 CACGGAGGAAGAGCTTGCCACTGATTGGTGGCAAGCTAGTCAGACTTTTCTTGATGGCACGAATG
* * *
136004 ATGAGCAGCCTCCACTTCCTCCACTTCGAGAGCCATCACCTCACCCAGAGCCATCACCTGATCGA
322 ATGAGCAGCATCCACTTCCTCCAATTCGAGAGCCATCACCTCACCCAGAGCCATCACCCGATCGA
136069 CCCGACTATACACCTC
387 CCCGACTATACACCTC
136085 TA
1 TA
136087 CAACGAGAGC
Statistics
Matches: 381, Mismatches: 18, Indels: 13
0.92 0.04 0.03
Matches are distributed among these distances:
400 1 0.00
401 230 0.60
402 1 0.00
406 141 0.37
407 7 0.02
408 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (402 bp):
TAGATTTGGATATTCGAGGCTTTCCCCACATGAGTACATATGCAATAAAAACGTCAAATGATATT
CCCAGGGCTATTTCCTGGAAGAGGAAAAATCTGTTGGATTGGGAAGACTTAATACCATATGCGAC
AATAAATAATGTAAGTTAACACAAATATCATATAATATATAAACAAGTTATTAATAGTAGACGTT
TAACTTTGTTTGAGTTTTTATATTGTTAGGAGGCCAACATTCCATTACAAAGACTGACACCCACG
GAGGAAGAGCTTGCCACTGATTGGTGGCAAGCTAGTCAGACTTTTCTTGATGGCACGAATGATGA
GCAGCATCCACTTCCTCCAATTCGAGAGCCATCACCTCACCCAGAGCCATCACCCGATCGACCCG
ACTATACACCTC
Found at i:136944 original size:21 final size:21
Alignment explanation
Indices: 136920--136986 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
136910 TCATTCCTCG
136920 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
136941 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
136962 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
136983 AGAG
1 AGAG
136987 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:136944 original size:42 final size:42
Alignment explanation
Indices: 136868--136986 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
136858 GACTCGCCTG
* * * * * * *
136868 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
136910 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
136952 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
136987 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:138174 original size:14 final size:14
Alignment explanation
Indices: 138154--138190 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
138144 GATTGTTTAA
138154 TTGATTTGTAAAA-
1 TTGATTTGTAAAAG
138167 TGTGATTTGTAAAAG
1 T-TGATTTGTAAAAG
138182 TTGATTTGT
1 TTGATTTGT
138191 TTAATTGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:138334 original size:14 final size:14
Alignment explanation
Indices: 138315--138371 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
138305 GCGAAATGAA
138315 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
138329 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
138348 AATCGCAACGAGAG
1 AATCGCAACGAGAG
138362 AATCGCAACG
1 AATCGCAACG
138372 CGAAATTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:138342 original size:33 final size:33
Alignment explanation
Indices: 138297--138386 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
138287 AAAAAGTACT
*
138297 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
138330 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
138363 ATCGCAACGCGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
138387 GTTGCGATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:138356 original size:19 final size:19
Alignment explanation
Indices: 138297--138357 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
138287 AAAAAGTACT
*
138297 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
138316 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
138330 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
138349 ATCGCAACG
1 ATCGCAACG
138358 AGAGAATCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 19 0.54
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:138428 original size:33 final size:33
Alignment explanation
Indices: 138386--138512 Score: 177
Period size: 33 Copynumber: 3.8 Consensus size: 33
138376 ATTAAATTCG
*
138386 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
* *
138419 CGTTGCGATTTTCATTTCGCATTGTGAAATT-AGT
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCACT
* *
138453 -GTTGCGATTTTCATTTTGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
138485 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
138513 AGTAATTTCC
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
31 3 0.04
32 1 0.01
33 74 0.90
34 1 0.01
35 3 0.04
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:138478 original size:19 final size:19
Alignment explanation
Indices: 138454--138512 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
138444 GAAATTAGTG
138454 TTGCGATTTTCATTTTGCA
1 TTGCGATTTTCATTTTGCA
* *
138473 TTGCGA--TTC--TCT-CG
1 TTGCGATTTTCATTTTGCA
*
138487 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTTGCA
138506 TTGCGAT
1 TTGCGAT
138513 AGTAATTTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
14 7 0.23
15 2 0.07
16 3 0.10
17 3 0.10
18 1 0.03
19 14 0.47
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTTGCA
Found at i:141036 original size:24 final size:24
Alignment explanation
Indices: 141002--141055 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
140992 CTCAAACATC
141002 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAT
* *
141026 ATCAAAGTCCGGGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAT
141050 ATCAAA
1 ATCAAA
141056 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAT
Found at i:141069 original size:24 final size:24
Alignment explanation
Indices: 141018--141084 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
141008 ATCCGAGTAT
* * ** *
141018 TGACCAATATCAAAGTCCGGGTAT
1 TGACCAATATCAAATTTCGAATAC
141042 TGACCAATATCAAATTTCGAATAC
1 TGACCAATATCAAATTTCGAATAC
*
141066 TGACTAATACTCACAATTT
1 TGACCAATA-TCA-AATTT
141085 TTTCTCTTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 27 0.77
25 3 0.09
26 5 0.14
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (24 bp):
TGACCAATATCAAATTTCGAATAC
Found at i:142198 original size:20 final size:19
Alignment explanation
Indices: 142173--142258 Score: 82
Period size: 20 Copynumber: 4.3 Consensus size: 19
142163 CGGGGAAATT
142173 GCAACGCAGAAATGGCTATC
1 GCAACGC-GAAATGGCTATC
142193 GCAACGCGAAAATGGCTATC
1 GCAACGCG-AAATGGCTATC
** ***
142213 GCAATTCGAAATGAAAAATC
1 GCAACGCGAAATG-GCTATC
142233 GCAACGCGAAAAATGGCTATC
1 GCAACGCG--AAATGGCTATC
142254 GCAAC
1 GCAAC
142259 TAGAAAATCG
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
19 6 0.12
20 33 0.63
21 8 0.15
22 5 0.10
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.15
Consensus pattern (19 bp):
GCAACGCGAAATGGCTATC
Found at i:142309 original size:14 final size:16
Alignment explanation
Indices: 142289--142362 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
142279 TGAAAATCGC
142289 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
142304 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
142321 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
142340 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
142356 -TTGCGAT
1 ATTGCGAT
142363 AGTCAGTTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:142326 original size:19 final size:19
Alignment explanation
Indices: 142285--142352 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
142275 GAAATGAAAA
142285 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
142301 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
142318 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
142337 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
142353 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:144457 original size:19 final size:18
Alignment explanation
Indices: 144435--144525 Score: 72
Period size: 14 Copynumber: 5.4 Consensus size: 18
144425 GGAAATGGTT
144435 ATCGCAATGCGAAATGCAA
1 ATCGCAATGCGAAATG-AA
*
144454 ATCGCAA--CGACA--AA
1 ATCGCAATGCGAAATGAA
144468 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG-AA
*
144487 ATCGCAA--CGACA--AA
1 ATCGCAATGCGAAATGAA
* *
144501 ATCGCAACGCTAAATGAA
1 ATCGCAATGCGAAATGAA
144519 ATCGCAA
1 ATCGCAA
144526 CGACAAAATC
Statistics
Matches: 58, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
14 18 0.31
16 7 0.12
17 8 0.14
18 9 0.16
19 16 0.28
ACGTcount: A:0.46, C:0.23, G:0.18, T:0.13
Consensus pattern (18 bp):
ATCGCAATGCGAAATGAA
Found at i:144471 original size:14 final size:14
Alignment explanation
Indices: 144452--144541 Score: 81
Period size: 14 Copynumber: 5.8 Consensus size: 14
144442 TGCGAAATGC
144452 AAATCGCAACGACA
1 AAATCGCAACGACA
*
144466 AAATCGCAATGCGAAATGA
1 AAATCGCAA--CG--A-CA
144485 AAATCGCAACGACA
1 AAATCGCAACGACA
*
144499 AAATCGCAACGCTAAA
1 AAATCGCAACG--ACA
144515 TGAAATCGCAACGACA
1 --AAATCGCAACGACA
144531 AAATCGCAACG
1 AAATCGCAACG
144542 CGAAACACAA
Statistics
Matches: 63, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 32 0.51
15 1 0.02
16 6 0.10
17 2 0.03
18 12 0.19
19 10 0.16
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.11
Consensus pattern (14 bp):
AAATCGCAACGACA
Found at i:144477 original size:33 final size:33
Alignment explanation
Indices: 144435--144557 Score: 185
Period size: 33 Copynumber: 3.8 Consensus size: 33
144425 GGAAATGGTT
*
144435 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGCAAATCGCAACGACAAA
* *
144468 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGCAAATCGCAACGACAAA
*
144501 ATCGCAACGCTAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGCAAATCGCAACGACAAA
**
144533 ATCGCAACGCGAAACACAAATCGCA
1 ATCGCAACGCGAAATGCAAATCGCA
144558 TTGCGACTTT
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
32 29 0.35
33 54 0.65
ACGTcount: A:0.46, C:0.25, G:0.17, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGCAAATCGCAACGACAAA
Found at i:144554 original size:65 final size:66
Alignment explanation
Indices: 144435--144557 Score: 187
Period size: 65 Copynumber: 1.9 Consensus size: 66
144425 GGAAATGGTT
* * *
144435 ATCGCAATGCGAAATGCAAATCGCAACGACAAAATCGCAATGCGAAATGAAAATCGCAACGACAA
1 ATCGCAACGCGAAATGCAAATCGCAACGACAAAATCGCAACGCGAAATCAAAATCGCAACGACAA
144500 A
66 A
*
144501 ATCGCAACGCTAAATG-AAATCGCAACGACAAAATCGCAACGCGAAA-CACAAATCGCA
1 ATCGCAACGCGAAATGCAAATCGCAACGACAAAATCGCAACGCGAAATCA-AAATCGCA
144558 TTGCGACTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
64 1 0.02
65 37 0.71
66 14 0.27
ACGTcount: A:0.46, C:0.25, G:0.17, T:0.11
Consensus pattern (66 bp):
ATCGCAACGCGAAATGCAAATCGCAACGACAAAATCGCAACGCGAAATCAAAATCGCAACGACAA
A
Found at i:144640 original size:33 final size:34
Alignment explanation
Indices: 144565--144650 Score: 147
Period size: 34 Copynumber: 2.6 Consensus size: 34
144555 GCATTGCGAC
*
144565 TTTCATTTCGCATTGCGATTTTGTCGTTGCGATT
1 TTTCATTTCGCATTGCGATTTTGTCGTTGCGAAT
*
144599 TTTCATTTCGCATTACGATTTTGTCGTTGC-AAT
1 TTTCATTTCGCATTGCGATTTTGTCGTTGCGAAT
144632 TTTCATTTCGCATTGCGAT
1 TTTCATTTCGCATTGCGAT
144651 AGCCATTTCC
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 20 0.41
34 29 0.59
ACGTcount: A:0.15, C:0.19, G:0.17, T:0.49
Consensus pattern (34 bp):
TTTCATTTCGCATTGCGATTTTGTCGTTGCGAAT
Found at i:144657 original size:19 final size:20
Alignment explanation
Indices: 144635--144678 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
144625 TTGCAATTTT
144635 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTGCGATAGC
* *
144654 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCATTGCGATAGC
144674 CATTT
1 CATTT
144679 TCATGTTGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTGCGATAGC
Found at i:144686 original size:20 final size:20
Alignment explanation
Indices: 144644--144689 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
144634 TCATTTCGCA
*
144644 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCACG
* * *
144664 TTGCGATAGTCATTTTCATG
1 TTGCGATAGCCATTTCCACG
144684 TTGCGA
1 TTGCGA
144690 AAGTAAACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCACG
Found at i:145181 original size:18 final size:18
Alignment explanation
Indices: 145155--145199 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
145145 GTCGATCAAA
*
145155 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
145173 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
145191 TGATGGCTC
1 TGATGGCTC
145200 CCGAAATTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:146544 original size:20 final size:20
Alignment explanation
Indices: 146519--146556 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
146509 AATAGTTTAT
146519 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
146539 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
146557 GTGAATTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:146868 original size:22 final size:22
Alignment explanation
Indices: 146841--146884 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
146831 GATGGAGATA
146841 GACGGATTTCACCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
**
146863 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
146885 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCACCGGAGATGGG
Found at i:147179 original size:20 final size:20
Alignment explanation
Indices: 147052--147247 Score: 182
Period size: 20 Copynumber: 9.7 Consensus size: 20
147042 CGCTTTGAAA
*
147052 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
147073 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
147093 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
147113 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
* *
147134 ATCGCATTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
147155 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
147175 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
*
147195 ATCGGATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
*
147215 ATCGTATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
147235 ATCGCATTGCGAT
1 ATCGCATTGCGAT
147248 TTTCCCAATT
Statistics
Matches: 154, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.03
20 103 0.67
21 44 0.29
22 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:147280 original size:20 final size:21
Alignment explanation
Indices: 147236--147287 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
147226 ATAGTCAGTA
*
147236 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTACCAAT
**
147257 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACCAAT
147277 TCGCATTGCGA
1 TCGCATTGCGA
147288 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACCAAT
Found at i:147302 original size:122 final size:122
Alignment explanation
Indices: 147048--147270 Score: 265
Period size: 122 Copynumber: 1.8 Consensus size: 122
147038 ATGGCGCTTT
* *
147048 GAAAATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 GAAAATCGCATTGCGATTATGTAGTATCGCGTTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGT
* * ** *
147113 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATTTTGTATTATCGCATTGCGATAG
66 ATCGCATTGCGATTTTCCAATATCGCATTGCGATTTTGTATTATCGCATTGCGATAG
* * * * * *
147170 TAAGTATCGCATTGCGA-TA-GTCAGTATCG-GATTGCGATAGTCAGTATCGTATTGCGATAGTC
1 GAA-AATCGCATTGCGATTATGT-AGTATCGCG-TTGCGAAAGTCAGAATCGCATTGCGAAAGTC
147232 AGTATCGCATTGCGATTTTCCCAAT-TCGCATTGCGATTT
63 AGTATCGCATTGCGATTTT-CCAATATCGCATTGCGATTT
147271 ACTTATTCGC
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
121 3 0.04
122 67 0.80
123 14 0.17
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.35
Consensus pattern (122 bp):
GAAAATCGCATTGCGATTATGTAGTATCGCGTTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGT
ATCGCATTGCGATTTTCCAATATCGCATTGCGATTTTGTATTATCGCATTGCGATAG
Found at i:147358 original size:21 final size:21
Alignment explanation
Indices: 147318--147358 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
147308 ACTGTAGACC
** *
147318 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
147339 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
147359 GCGGATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:147532 original size:18 final size:18
Alignment explanation
Indices: 147509--147556 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
147499 TATTAATAGA
147509 GTAAAAAAAATAAAAAAG
1 GTAAAAAAAATAAAAAAG
* * *
147527 GTAAAAGAAATTAAAAAT
1 GTAAAAAAAATAAAAAAG
*
147545 G-AATAAAAATAA
1 GTAAAAAAAATAA
147557 TGTGTACATA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
GTAAAAAAAATAAAAAAG
Found at i:147669 original size:36 final size:34
Alignment explanation
Indices: 147582--147674 Score: 91
Period size: 34 Copynumber: 2.6 Consensus size: 34
147572 TAGTATTTAC
*
147582 TAAAACAAATAAAAATAATAAATATATAATACTAAG
1 TAAAAAAAAT-AAAA-AATAAATATATAATACTAAG
*
147618 TAAAACAAATAAAAAATAAATATATACATGA-TAA-
1 TAAAAAAAATAAAAAATAAATATATA-AT-ACTAAG
147652 TAAAAAATAATAGAAAAAATAAA
1 TAAAAAA-AAT--AAAAAATAAA
147675 ATAAAGTAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
34 18 0.35
35 12 0.24
36 11 0.22
37 10 0.20
ACGTcount: A:0.70, C:0.04, G:0.03, T:0.23
Consensus pattern (34 bp):
TAAAAAAAATAAAAAATAAATATATAATACTAAG
Found at i:147687 original size:16 final size:17
Alignment explanation
Indices: 147655--147688 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
147645 ATGATAATAA
147655 AAAATAATAGAAAAAAT
1 AAAATAATAGAAAAAAT
*
147672 AAAATAA-AGTAAAAAT
1 AAAATAATAGAAAAAAT
147688 A
1 A
147689 TAACATATAT
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:0.00, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAATAATAGAAAAAAT
Found at i:147858 original size:14 final size:14
Alignment explanation
Indices: 147850--147928 Score: 63
Period size: 14 Copynumber: 5.4 Consensus size: 14
147840 TATAAGATAT
147850 ATATAATAAAAATA
1 ATATAATAAAAATA
*
147864 ATATAATATAAATA
1 ATATAATAAAAATA
*
147878 A-ATAAAAAAGAAT-
1 ATATAATAAA-AATA
*
147891 ATAGTAAATAAATAAAA
1 ATA-T-AATAAA-AATA
147908 ATATAATTAAAAATA
1 ATATAA-TAAAAATA
147923 TATATA
1 -ATATA
147929 TAGGGGACGA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
13 7 0.14
14 18 0.35
15 6 0.12
16 17 0.33
17 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (14 bp):
ATATAATAAAAATA
Found at i:147867 original size:25 final size:24
Alignment explanation
Indices: 147839--147910 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 24
147829 ATATATAATG
*
147839 ATATAAGATATATATAATAAAAATA
1 ATATAAGATAAATA-AATAAAAATA
* *
147864 ATATAATATAAATAAATAAAAAAGA
1 ATATAAGATAAATAAAT-AAAAATA
147889 ATAT-AG-TAAATAAATAAAAATA
1 ATATAAGATAAATAAATAAAAATA
147911 TAATTAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 6 0.15
23 9 0.22
24 4 0.10
25 22 0.54
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (24 bp):
ATATAAGATAAATAAATAAAAATA
Found at i:147872 original size:23 final size:23
Alignment explanation
Indices: 147819--147910 Score: 60
Period size: 25 Copynumber: 3.8 Consensus size: 23
147809 ACATCTATAC
* *
147819 ATATATATATATATATAATGATATA
1 ATATATATA-ATA-AAAATAATATA
*
147844 AGATATATATAATAAAAATAATATA
1 ATATAT--ATAATAAAAATAATATA
* *
147869 ATATAAATAAATAAAAAAGAATATA
1 ATATATAT-AAT-AAAAATAATATA
* *
147894 GTAAATA-AATAAAAATA
1 ATATATATAATAAAAATA
147911 TAATTAAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 11
0.72 0.14 0.15
Matches are distributed among these distances:
22 6 0.11
23 5 0.09
24 3 0.06
25 33 0.62
26 3 0.06
27 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (23 bp):
ATATATATAATAAAAATAATATA
Found at i:148364 original size:17 final size:17
Alignment explanation
Indices: 148327--148369 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
148317 TAATTATTTT
*
148327 TAGAATCCTATTAACAA
1 TAGAATCCTAATAACAA
148344 TAGAATCCTAAT-ACAA
1 TAGAATCCTAATAACAA
*
148360 CTAGACTCCT
1 -TAGAATCCT
148370 TACTCGGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (17 bp):
TAGAATCCTAATAACAA
Found at i:150604 original size:16 final size:16
Alignment explanation
Indices: 150583--150633 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
150573 GAATTTTATT
150583 TAATATTATAACTATA
1 TAATATTATAACTATA
*
150599 TAATATTATAATTATAAAA
1 TAATATTATAACTAT---A
*
150618 AAATATTATAACTATA
1 TAATATTATAACTATA
150634 AAAATAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 15 0.52
19 14 0.48
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATATTATAACTATA
Found at i:150624 original size:19 final size:19
Alignment explanation
Indices: 150600--150661 Score: 79
Period size: 19 Copynumber: 3.1 Consensus size: 19
150590 ATAACTATAT
150600 AATATTATAATTATAAAAA
1 AATATTATAATTATAAAAA
*
150619 AATATTATAACTATAAAAA
1 AATATTATAATTATAAAAA
150638 TAATTATTAAATAATTATAAAAA
1 -AA-TATT--ATAATTATAAAAA
150661 A
1 A
150662 TAGTTATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
19 18 0.49
20 2 0.05
21 4 0.11
22 1 0.03
23 12 0.32
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
AATATTATAATTATAAAAA
Found at i:153385 original size:72 final size:72
Alignment explanation
Indices: 153298--153512 Score: 277
Period size: 72 Copynumber: 3.0 Consensus size: 72
153288 TAGCATCCCA
* ** * * * * **
153298 ATTTCTTTTGGTATGGACCCCAAAATTTTATTGCCAGAAAGATTAAGATCGGATAAAATGGTTAA
1 ATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGTTAAGATCAGATAAAATGGCCAA
153363 ATTTCCG
66 ATTTCCG
* * * **
153370 ATTTCTTTAGGTATGGACCCTGAAATTTTATTGTTAAAAAGGTAAAGAACAGATAAGTTGGCCAA
1 ATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGTTAAGATCAGATAAAATGGCCAA
153435 ATTTCCG
66 ATTTCCG
* **
153442 ATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGTTAAGATAAGATAAGTTGGCCAA
1 ATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGTTAAGATCAGATAAAATGGCCAA
153507 ATTTCC
66 ATTTCC
153513 AACAGATGGA
Statistics
Matches: 125, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 125 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (72 bp):
ATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGTTAAGATCAGATAAAATGGCCAA
ATTTCCG
Found at i:153598 original size:144 final size:141
Alignment explanation
Indices: 153450--153884 Score: 333
Period size: 144 Copynumber: 3.0 Consensus size: 141
153440 CGATTTCTTT
153450 AGGTATGGACCCTGAAATTTTATTGCTAAAAAGGTTAAGATAAGATAAGTTGGCCAAATTTCCAA
1 AGGTATGGACCCTGAAATTTTATTG-TAAAAAGGTTAAGATAAGATAAGTTGGCCAAATTTCCAA
153515 CAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTCAAGTTCATTCAAACACTTCAAC
65 CAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTCAAG-TCATTCAAA-ACTTCAAC
*
153580 AATCCAATTTGTTG
128 ATTCCAATTTGTTG
* * * * * ** * * * * * * * * *
153594 AGGTATAGAACCAGAGAGTCCATTTGTGTATAA-GTAAAGA-AACAGCAGGTTTGTCAAGTTTCC
1 AGGTATGGACCCTGAAATTTTA-TTGT-AAAAAGGTTAAGATAAGA-TAAGTTGGCCAAATTTCC
** * * **** * * * * ** * *
153657 AATGGAAGGAGGAATTTCACCAATAAGACTATTGTT--GTACAAATAAAG-CGTTTCAAGGGAAC
63 AACAGATGGAGGGAGAGAACCGATCAGATTATT-TTCAG-AGAGGTCAAGTC-ATTCAA---AAC
* * *
153719 -CCAACATTCCAATTTCTTT
122 TTCAACATTCCAATTTGTTG
* * *
153738 AGGTATGGACCCTGAAATTTTATTGTTAGAAAGGCTAAGATAAGATAAGTTGGCCAAATTTTCAA
1 AGGTATGGACCCTGAAATTTTATTG-TAAAAAGGTTAAGATAAGATAAGTTGGCCAAATTTCCAA
*
153803 CAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTCAAGTCCATTCAAGGACTTCAAC
65 CAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTCAAGT-CATTCAA-AACTTCAAC
153868 ATTCCAATTTGTTG
128 ATTCCAATTTGTTG
153882 AGG
1 AGG
153885 AATAGAACCA
Statistics
Matches: 199, Mismatches: 75, Indels: 34
0.65 0.24 0.11
Matches are distributed among these distances:
142 1 0.01
143 19 0.10
144 158 0.79
145 19 0.10
146 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (141 bp):
AGGTATGGACCCTGAAATTTTATTGTAAAAAGGTTAAGATAAGATAAGTTGGCCAAATTTCCAAC
AGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTCAAGTCATTCAAAACTTCAACATT
CCAATTTGTTG
Found at i:153811 original size:288 final size:288
Alignment explanation
Indices: 153437--153966 Score: 907
Period size: 288 Copynumber: 1.8 Consensus size: 288
153427 TTGGCCAAAT
* *
153437 TTCCGATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGTTAAGATAAGATAAGTTG
1 TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGCTAAGATAAGATAAGTTG
*
153502 GCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTCAAGTTCATT
66 GCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTCAAGTCCATT
* *
153567 CAAACACTTCAACAATCCAATTTGTTGAGGTATAGAACCAGAGAGTCCATTTGTGTATAAGTAAA
131 CAAACACTTCAACAATCCAATTTGTTGAGGAATAGAACCAGAGAGTCCATTTGTGTACAAGTAAA
* * *
153632 GAAACAGCAGGTTTGTCAAGTTTCCAATGGAAGGAGGAATTTCACCAATAAGACTATTGTTGTAC
196 GAAACAGCAGGTCTGTCAAGTTTCCAATAGAAGCAGGAATTTCACCAATAAGACTATTGTTGTAC
153697 AAATAAAGCGTTTCAAGGGAACCCAACA
261 AAATAAAGCGTTTCAAGGGAACCCAACA
* *
153725 TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGTTAGAAAGGCTAAGATAAGATAAGTTG
1 TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGCTAAGATAAGATAAGTTG
*
153790 GCCAAATTTTCAACAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTCAAGTCCATT
66 GCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTCAAGTCCATT
** * *
153855 CAAGGACTTCAACATTCCAATTTGTTGAGGAATAGAACCAGAGAGTCCATTTTTGTACAAGTAAA
131 CAAACACTTCAACAATCCAATTTGTTGAGGAATAGAACCAGAGAGTCCATTTGTGTACAAGTAAA
* *
153920 GAAACAGCAGGTCTGTCATGTTTCCTATAGAAGCAGGAATTTCACCA
196 GAAACAGCAGGTCTGTCAAGTTTCCAATAGAAGCAGGAATTTCACCA
153967 GAAAAATGAT
Statistics
Matches: 225, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
288 225 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (288 bp):
TTCCAATTTCTTTAGGTATGGACCCTGAAATTTTATTGCTAAAAAGGCTAAGATAAGATAAGTTG
GCCAAATTTCCAACAGATGGAGGGAGAGAACCGATCAGATTATTTTCAGAGAGGTCAAGTCCATT
CAAACACTTCAACAATCCAATTTGTTGAGGAATAGAACCAGAGAGTCCATTTGTGTACAAGTAAA
GAAACAGCAGGTCTGTCAAGTTTCCAATAGAAGCAGGAATTTCACCAATAAGACTATTGTTGTAC
AAATAAAGCGTTTCAAGGGAACCCAACA
Found at i:154665 original size:35 final size:34
Alignment explanation
Indices: 154600--154702 Score: 188
Period size: 35 Copynumber: 3.0 Consensus size: 34
154590 TGGGGGTGAC
154600 CACCTGCTTCGTATCCTGCTTTTTTAGTACCATT
1 CACCTGCTTCGTATCCTGCTTTTTTAGTACCATT
154634 CACCTGCTTCGTATCCTGCTTTTTTTAGTACCATT
1 CACCTGCTTCGTATCCTGC-TTTTTTAGTACCATT
*
154669 CACCTGCTTCGTATCCTGCTTTTTGAGTACCATT
1 CACCTGCTTCGTATCCTGCTTTTTTAGTACCATT
154703 ATTTTCAGCC
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
34 33 0.49
35 34 0.51
ACGTcount: A:0.15, C:0.29, G:0.13, T:0.44
Consensus pattern (34 bp):
CACCTGCTTCGTATCCTGCTTTTTTAGTACCATT
Found at i:155042 original size:12 final size:12
Alignment explanation
Indices: 155025--155049 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
155015 ATATTTATAG
155025 TTTTTGAAAATA
1 TTTTTGAAAATA
155037 TTTTTGAAAATA
1 TTTTTGAAAATA
155049 T
1 T
155050 ATATATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTTTGAAAATA
Found at i:155094 original size:40 final size:39
Alignment explanation
Indices: 155031--155354 Score: 157
Period size: 37 Copynumber: 8.7 Consensus size: 39
155021 ATAGTTTTTG
155031 AAAATATTTTTGAAAATATATATATTATATATAGTTTTAAAAA
1 AAAATA-TTTTG-AAA-ATATATA-TATATATAGTTTTAAAAA
* *
155074 AAAATATTTTGAAAACATATATATTATATAGTTTTTAAAA
1 AAAATATTTTGAAAATATATATA-TATATAGTTTTAAAAA
* **
155114 AAAACATTTTG-AAATATATATA-ATATAGTTTT---TG
1 AAAATATTTTGAAAATATATATATATATAGTTTTAAAAA
* *
155148 AAAACATTTT-AAAATATATATAT-TATATGATTTT---TA
1 AAAATATTTTGAAAATATATATATATATA-G-TTTTAAAAA
* * *
155184 AAAACATTTTGAAAAATATATATAATATATAATTTT----T
1 AAAATATTTTG-AAAATATATAT-ATATATAGTTTTAAAAA
* *
155221 AAAACATTTTGAAAACTATATA-ATATAT-GATTTT--GAA
1 AAAATATTTTGAAAA-TATATATATATATAG-TTTTAAAAA
* * *
155258 AAGAT-TTTTAAAAATATATATAATATATAATTTT--AAA
1 AAAATATTTTGAAAATATATAT-ATATATAGTTTTAAAAA
* * *
155295 ATATTA-TTTGAAAA-ATATATAT-TACATGATTTT----A
1 AAAATATTTTGAAAATATATATATATATA-G-TTTTAAAAA
155329 AAAATATTTT-AAAATATATATATATA
1 AAAATATTTTGAAAATATATATATATA
155355 GTATATACTT
Statistics
Matches: 235, Mismatches: 24, Indels: 51
0.76 0.08 0.16
Matches are distributed among these distances:
34 37 0.16
35 30 0.13
36 39 0.17
37 51 0.22
38 15 0.06
39 14 0.06
40 35 0.15
41 3 0.01
42 5 0.02
43 6 0.03
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.44
Consensus pattern (39 bp):
AAAATATTTTGAAAATATATATATATATAGTTTTAAAAA
Found at i:155114 original size:37 final size:37
Alignment explanation
Indices: 154975--155351 Score: 285
Period size: 36 Copynumber: 10.4 Consensus size: 37
154965 ATGTTCTTTA
* *
154975 AAAATATATATATAATATAGTTTTTGAAAATATTTT-
1 AAAATATATATATTATATAGTTTTTAAAAATATTTTG
* *
155011 ----T-TAAATATT-TATAGTTTTTGAAAATATTTTTG
1 AAAATATATATATTATATAGTTTTTAAAAATA-TTTTG
*
155043 AAAATATATATATTATATATAGTTTTAAAAAAAAATATTTTG
1 AAAATATATATA-T-TATATAGTTTT---TAAAAATATTTTG
* *
155085 AAAACATATATATTATATAGTTTTTAAAAAAAACATTTTG
1 AAAATATATATATTATATAGTTTTT---AAAAATATTTTG
* *
155125 -AAATATATATA--ATATAGTTTTTGAAAACATTTT-
1 AAAATATATATATTATATAGTTTTTAAAAATATTTTG
*
155158 AAAATATATATATTATAT-GATTTTTAAAAACATTTTG
1 AAAATATATATATTATATAG-TTTTTAAAAATATTTTG
* * *
155195 AAAAATATATATAATATATAATTTTT-AAAACATTTTG
1 -AAAATATATATATTATATAGTTTTTAAAAATATTTTG
* *
155232 AAAACTATATA-A-TATAT-GATTTTGAAAAGAT-TTTTA
1 AAAA-TATATATATTATATAG-TTTTTAAAA-ATATTTTG
* *
155268 AAAATATATATAATATATA-ATTTT-AAAATATTATTTG
1 AAAATATATATATTATATAGTTTTTAAAAATA-T-TTTG
* *
155305 AAAA-ATATATATTACAT-GATTTTAAAAATATTTT-
1 AAAATATATATATTATATAGTTTTTAAAAATATTTTG
155339 AAAATATATATAT
1 AAAATATATATAT
155352 ATAGTATATA
Statistics
Matches: 283, Mismatches: 22, Indels: 73
0.75 0.06 0.19
Matches are distributed among these distances:
30 17 0.06
31 10 0.04
32 1 0.00
34 27 0.10
35 30 0.11
36 58 0.20
37 52 0.18
38 23 0.08
39 11 0.04
40 31 0.11
41 1 0.00
42 16 0.06
43 6 0.02
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (37 bp):
AAAATATATATATTATATAGTTTTTAAAAATATTTTG
Found at i:155182 original size:73 final size:69
Alignment explanation
Indices: 155074--155360 Score: 287
Period size: 73 Copynumber: 4.0 Consensus size: 69
155064 GTTTTAAAAA
* * * *
155074 AAAATATTTTGAAAACATATATATTATATAGTTTTTAAAAAAAACATTTTGAAATATATATAATA
1 AAAACATTTTGAAAATATATATATTATAT-GATTTT---AAAAACATTTTAAAATATATATAATA
155139 TAGT-TTTT
62 TA-TATTTT
155147 GAAAACATTTT-AAAATATATATATTATATGATTTTTAAAAACATTTTGAAAAATATATATAATA
1 -AAAACATTTTGAAAATATATATATTATATGA-TTTTAAAAACATTTT--AAAATATATATAATA
155211 TATAATTTTT
62 TAT-A-TTTT
* *
155221 AAAACATTTTGAAAACTATATA-A-TATATGATTTTGAAAAGATTTTTAAAAATATATATAATAT
1 AAAACATTTTGAAAA-TATATATATTATATGATTTTAAAAACA-TTTT-AAAATATATATAATAT
155284 ATAATTTT
63 AT-ATTTT
* * *
155292 AAAATATTATTTGAAAA-ATATATATTACATGATTTTAAAAATATTTTAAAATATATATATATAG
1 AAAACA-T-TTTGAAAATATATATATTATATGATTTTAAAAACATTTTAAAATATATATA-ATA-
155356 TATAT
62 TATAT
155361 ACTTTTTTAA
Statistics
Matches: 188, Mismatches: 10, Indels: 32
0.82 0.04 0.14
Matches are distributed among these distances:
70 11 0.06
71 27 0.14
72 58 0.31
73 68 0.36
74 18 0.10
75 6 0.03
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (69 bp):
AAAACATTTTGAAAATATATATATTATATGATTTTAAAAACATTTTAAAATATATATAATATATA
TTTT
Found at i:155339 original size:11 final size:12
Alignment explanation
Indices: 155245--155347 Score: 54
Period size: 11 Copynumber: 8.5 Consensus size: 12
155235 ACTATATAAT
155245 ATATGATTTTGAAA
1 ATAT-ATTTT-AAA
*
155259 AGAT-TTTTAAA
1 ATATATTTTAAA
* *
155270 A-ATATATATAAT
1 ATATAT-TTTAAA
155282 ATATAATTTTAAA
1 ATAT-ATTTTAAA
*
155295 ATATTATTTGAAAA
1 ATA-TATTT-TAAA
* *
155309 ATATATATT-AC
1 ATATATTTTAAA
*
155320 AT-GATTTTAAA
1 ATATATTTTAAA
155331 A-ATATTTTAAA
1 ATATATTTTAAA
155342 ATATAT
1 ATATAT
155348 ATATATAGTA
Statistics
Matches: 67, Mismatches: 13, Indels: 20
0.67 0.13 0.20
Matches are distributed among these distances:
10 6 0.09
11 19 0.28
12 13 0.19
13 17 0.25
14 12 0.18
ACGTcount: A:0.50, C:0.01, G:0.05, T:0.45
Consensus pattern (12 bp):
ATATATTTTAAA
Found at i:155352 original size:37 final size:36
Alignment explanation
Indices: 155073--155353 Score: 234
Period size: 37 Copynumber: 7.7 Consensus size: 36
155063 AGTTTTAAAA
* * * *
155073 AAAAATATTTTGAAAACATATATATTATATAGTTTTT
1 AAAAACATTTTAAAAATATATATATTATAT-GATTTT
* * *
155110 AAAAAAAACATTTT-GAAATATATATAATATA-GTTTTT
1 ---AAAAACATTTTAAAAATATATATATTATATGATTTT
*
155147 GAAAACATTTT-AAAATATATATATTATATGATTTTT
1 AAAAACATTTTAAAAATATATATATTATATGA-TTTT
* *
155183 AAAAACATTTTGAAAAATATATATAATATATAATTTT
1 AAAAACATTTT-AAAAATATATATATTATATGATTTT
* *
155220 TAAAACATTTTGAAAACTATATA-A-TATATGATTTT
1 AAAAACATTTT-AAAAATATATATATTATATGATTTT
* * * *
155255 GAAAAGATTTTTAAAAATATATATAATATATAATTTT
1 AAAAACA-TTTTAAAAATATATATATTATATGATTTT
* * *
155292 AAAATA-TTATTTGAAAA-ATATATATTACATGATTTT
1 AAAA-ACAT-TTTAAAAATATATATATTATATGATTTT
*
155328 AAAAATATTTTAAAATATATATATAT
1 AAAAACATTTTAAAA-ATATATATAT
155354 AGTATATACT
Statistics
Matches: 203, Mismatches: 26, Indels: 27
0.79 0.10 0.11
Matches are distributed among these distances:
34 25 0.12
35 33 0.16
36 43 0.21
37 59 0.29
38 19 0.09
39 14 0.07
40 10 0.05
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.43
Consensus pattern (36 bp):
AAAAACATTTTAAAAATATATATATTATATGATTTT
Found at i:155393 original size:4 final size:4
Alignment explanation
Indices: 155379--155430 Score: 58
Period size: 4 Copynumber: 13.8 Consensus size: 4
155369 AAATGTTCTT
155379 TTTA TTTTA TTTA TTTA -TTA TTTA TTTA -TTA TTT- TTTA -TTA TTTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
155424 TTCA TTT
1 TTTA TTT
155431 TTTGCATTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
3 12 0.29
4 25 0.61
5 4 0.10
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:155401 original size:7 final size:7
Alignment explanation
Indices: 155384--155430 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
155374 TTCTTTTTAT
155384 TTTATTTA
1 TTTA-TTA
155392 TTTATTA
1 TTTATTA
155399 TTTATT-
1 TTTATTA
*
155405 TATTATTT
1 T-TTATTA
155413 TTTATTA
1 TTTATTA
155420 TTTATTCA
1 TTTATT-A
155428 TTT
1 TTT
155431 TTTGCATTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
6 1 0.03
7 25 0.71
8 9 0.26
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTATTA
Found at i:155401 original size:11 final size:11
Alignment explanation
Indices: 155385--155425 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
155375 TCTTTTTATT
155385 TTATTTATTTA
1 TTATTTATTTA
155396 TTATTTATTTA
1 TTATTTATTTA
155407 TTATTT-TTTA
1 TTATTTATTTA
155417 TTATTTATT
1 TTATTTATT
155426 CATTTTTTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 10 0.34
11 19 0.66
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:156494 original size:5 final size:5
Alignment explanation
Indices: 156484--156516 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
156474 AGCATGTATG
156484 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
156517 GATCCTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:158362 original size:36 final size:36
Alignment explanation
Indices: 158316--158391 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
158306 TGCAACTGGC
158316 GAAAGAAAAAAAGGCGGAAGACGAATCAACCTGTCA
1 GAAAGAAAAAAAGGCGGAAGACGAATCAACCTGTCA
158352 GAAAGAAAAAAAGGCGGAAGACGAATCAACCTGTCA
1 GAAAGAAAAAAAGGCGGAAGACGAATCAACCTGTCA
158388 GAAA
1 GAAA
158392 TTGTTTGGGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.51, C:0.16, G:0.25, T:0.08
Consensus pattern (36 bp):
GAAAGAAAAAAAGGCGGAAGACGAATCAACCTGTCA
Done.