Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014729.1 Kokia drynarioides strain JFW-HI SEQ_129768, 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: 122304
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Warning! 97 characters in sequence are not A, C, G, or T
Found at i:1702 original size:55 final size:56
Alignment explanation
Indices: 1626--1737 Score: 208
Period size: 55 Copynumber: 2.0 Consensus size: 56
1616 TTTGGTAAAT
1626 AATATGATGGGGATATTATTTTCATAATTAATTATTTTTTATATTATATTTTGGTA
1 AATATGATGGGGATATTATTTTCATAATTAATTATTTTTTATATTATATTTTGGTA
*
1682 AATATGAT-GGGATATTATTTTGATAATTAATTATTTTTTATATTATATTTTGGTA
1 AATATGATGGGGATATTATTTTCATAATTAATTATTTTTTATATTATATTTTGGTA
1737 A
1 A
1738 TTAATTAGTT
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
55 47 0.85
56 8 0.15
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (56 bp):
AATATGATGGGGATATTATTTTCATAATTAATTATTTTTTATATTATATTTTGGTA
Found at i:1714 original size:16 final size:16
Alignment explanation
Indices: 1695--1744 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
1685 ATGATGGGAT
1695 ATTATTTTGATAATTA
1 ATTATTTTGATAATTA
*
1711 ATTATTTT-TTATATT-
1 ATTATTTTGATA-ATTA
*
1726 A-TATTTTGGTAATTA
1 ATTATTTTGATAATTA
1741 ATTA
1 ATTA
1745 GTTAAGTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 13 0.46
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (16 bp):
ATTATTTTGATAATTA
Found at i:1733 original size:30 final size:30
Alignment explanation
Indices: 1642--1744 Score: 99
Period size: 30 Copynumber: 3.6 Consensus size: 30
1632 ATGGGGATAT
*
1642 TATTTTCATAATTAATTATTTTTTATATTA
1 TATTTTGATAATTAATTATTTTTTATATTA
* * * ***
1672 TATTTTGGTAAAT-ATGA--TGGGATA-T-
1 TATTTTGATAATTAATTATTTTTTATATTA
1697 TATTTTGATAATTAATTATTTTTTATATTA
1 TATTTTGATAATTAATTATTTTTTATATTA
*
1727 TATTTTGGTAATTAATTA
1 TATTTTGATAATTAATTA
1745 GTTAAGTTTA
Statistics
Matches: 54, Mismatches: 14, Indels: 10
0.69 0.18 0.13
Matches are distributed among these distances:
25 11 0.20
26 4 0.07
27 4 0.07
28 4 0.07
29 4 0.07
30 27 0.50
ACGTcount: A:0.33, C:0.01, G:0.09, T:0.57
Consensus pattern (30 bp):
TATTTTGATAATTAATTATTTTTTATATTA
Found at i:2696 original size:17 final size:18
Alignment explanation
Indices: 2674--2707 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2664 ACAAATTAAA
*
2674 ATATTTTAAA-ATTAACC
1 ATATTTAAAATATTAACC
2691 ATATTTAAAATATTAAC
1 ATATTTAAAATATTAAC
2708 TAAACTTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATTTAAAATATTAACC
Found at i:4640 original size:16 final size:16
Alignment explanation
Indices: 4600--4641 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
4590 TTTTTTATAG
4600 TATATATTTATAAAAA
1 TATATATTTATAAAAA
4616 TATGGATATTT-TAAAATA
1 TAT--ATATTTATAAAA-A
4634 TATATATT
1 TATATATT
4642 GGTGTTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 8 0.35
17 5 0.22
18 10 0.43
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (16 bp):
TATATATTTATAAAAA
Found at i:4943 original size:19 final size:20
Alignment explanation
Indices: 4921--4962 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
4911 TTCGATTCGA
4921 AAAACTTGAA-AAATAATTC
1 AAAACTTGAATAAATAATTC
*
4940 AAAATTTGAATTAAATAATTC
1 AAAACTTGAA-TAAATAATTC
4961 AA
1 AA
4963 GTTATTTGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
21 11 0.55
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.31
Consensus pattern (20 bp):
AAAACTTGAATAAATAATTC
Found at i:7823 original size:2 final size:2
Alignment explanation
Indices: 7816--7852 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7806 TTCGTTATGA
7816 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
7853 ATATATATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:7857 original size:2 final size:2
Alignment explanation
Indices: 7852--7880 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7842 TCTCTCTCTC
7852 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7881 TATTGTGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9825 original size:19 final size:18
Alignment explanation
Indices: 9781--9824 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
9771 TTAAATATTA
9781 TTATATATTTTTAATAAT
1 TTATATATTTTTAATAAT
*
9799 TTATTATATTTTTCATAAT
1 TTA-TATATTTTTAATAAT
9818 TT-TATAT
1 TTATATAT
9825 ACCTTTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 5 0.21
18 3 0.12
19 16 0.67
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATATATTTTTAATAAT
Found at i:9938 original size:49 final size:48
Alignment explanation
Indices: 9854--9949 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 48
9844 TTATCTTAAA
*
9854 TATTTTTATAACTTTTTTTTGCAATTTTTTAAATTTCTAGTAATTTTTG
1 TATTTTTATAACTTTTCTTTGCAATTTTTTAAATTTCTA-TAATTTTTG
* *
9903 TATTTTTGTAA-TTTTCTTTGCAA-TTTTTAGTAATTTCTATGATTTTT
1 TATTTTTATAACTTTTCTTTGCAATTTTTTA--AATTTCTATAATTTTT
9950 TATAATTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
47 6 0.14
48 18 0.43
49 18 0.43
ACGTcount: A:0.23, C:0.06, G:0.07, T:0.64
Consensus pattern (48 bp):
TATTTTTATAACTTTTCTTTGCAATTTTTTAAATTTCTATAATTTTTG
Found at i:9939 original size:21 final size:20
Alignment explanation
Indices: 9885--9957 Score: 64
Period size: 21 Copynumber: 3.8 Consensus size: 20
9875 CAATTTTTTA
*
9885 AATTTCTAGTAATTT-T-TG
1 AATTTTTAGTAATTTCTATG
* *
9903 TATTTTT-GTAATTTTCTTTG
1 AATTTTTAGTAA-TTTCTATG
9923 CAATTTTTAGTAATTTCTATG
1 -AATTTTTAGTAATTTCTATG
*
9944 ATTTTTTA-TAATTT
1 AATTTTTAGTAATTT
9958 AATTTTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
17 4 0.09
18 8 0.18
19 7 0.16
20 9 0.20
21 13 0.29
22 4 0.09
ACGTcount: A:0.25, C:0.05, G:0.08, T:0.62
Consensus pattern (20 bp):
AATTTTTAGTAATTTCTATG
Found at i:14324 original size:15 final size:16
Alignment explanation
Indices: 14301--14333 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14291 GCCGTTTGGG
*
14301 TCTTCTTCTTTTGTTT
1 TCTTCTTCTTTTCTTT
14317 TCTT-TTCTTTTCTTT
1 TCTTCTTCTTTTCTTT
14332 TC
1 TC
14334 CCAAATTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (16 bp):
TCTTCTTCTTTTCTTT
Found at i:14857 original size:31 final size:31
Alignment explanation
Indices: 14819--14890 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
14809 ATGGTATGAA
14819 ACCCTGGTTTGTTTTGTTATTCTTGCTTATT
1 ACCCTGGTTTGTTTTGTTATTCTTGCTTATT
14850 ACCCTGGTTTGTTTTGTTATTCTTGCTTATT
1 ACCCTGGTTTGTTTTGTTATTCTTGCTTATT
14881 ACCCTGGTTT
1 ACCCTGGTTT
14891 TAAGTTGAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.10, C:0.18, G:0.17, T:0.56
Consensus pattern (31 bp):
ACCCTGGTTTGTTTTGTTATTCTTGCTTATT
Found at i:20732 original size:33 final size:33
Alignment explanation
Indices: 20695--21035 Score: 134
Period size: 33 Copynumber: 10.3 Consensus size: 33
20685 TTTTGACATG
*
20695 TCAGGTAA-TTTAGGTAATACAGGTTTTGGTAAT
1 TCAGG-AACTTTAGGTAATACAGGTTTTGGTAAC
* * * *
20728 TCAGGAACTTTTGGTGATTCGGGTTTTGGTAAC
1 TCAGGAACTTTAGGTAATACAGGTTTTGGTAAC
** * * * * * * * *
20761 TCAGGAGTTTTGGGCAATTCTGATTTCGGCACC
1 TCAGGAACTTTAGGTAATACAGGTTTTGGTAAC
* * * * *
20794 TCGGGAATTTTAGGTAATTCTGGTTTTGTTAAC
1 TCAGGAACTTTAGGTAATACAGGTTTTGGTAAC
* * * * *
20827 TCAGGAATTTTTGGTAATTCAGATTTTGGCAA-
1 TCAGGAACTTTAGGTAATACAGGTTTTGGTAAC
* * * * * * * *
20859 TACAGGAGCTTTGGGCAATTCTGGCTTAGG-CAC
1 T-CAGGAACTTTAGGTAATACAGGTTTTGGTAAC
* * **
20892 TTCAGGAACTTTAGGCAATTCCA-ACTTTGGTAAC
1 -TCAGGAACTTTAGGTAA-TACAGGTTTTGGTAAC
* * * *
20926 TCCGGAACTTTTGGTAATTCAGGTTTTGGCAAC
1 TCAGGAACTTTAGGTAATACAGGTTTTGGTAAC
* * * * * * * *
20959 TCGGGAACCTTGGGTAATTCAGGCTTGGGCATC
1 TCAGGAACTTTAGGTAATACAGGTTTTGGTAAC
* *
20992 TCAGGAACTTTAGGCAACT-CTGGTTTTGGTAAC
1 TCAGGAACTTTAGGTAA-TACAGGTTTTGGTAAC
*
21025 TCTGGAACTTT
1 TCAGGAACTTT
21036 TGGTGCTTCA
Statistics
Matches: 231, Mismatches: 69, Indels: 16
0.73 0.22 0.05
Matches are distributed among these distances:
32 7 0.03
33 218 0.94
34 6 0.03
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.36
Consensus pattern (33 bp):
TCAGGAACTTTAGGTAATACAGGTTTTGGTAAC
Found at i:20772 original size:17 final size:17
Alignment explanation
Indices: 20717--20773 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 17
20707 GGTAATACAG
20717 GTTTTGGTAATTCAGGAA
1 GTTTTGGTAATTCAGG-A
* *
20735 CTTTTGGTGATTC-GG-
1 GTTTTGGTAATTCAGGA
*
20750 GTTTTGGTAACTCAGGA
1 GTTTTGGTAATTCAGGA
20767 GTTTTGG
1 GTTTTGG
20774 GCAATTCTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 10 0.31
16 2 0.06
17 9 0.28
18 11 0.34
ACGTcount: A:0.18, C:0.09, G:0.32, T:0.42
Consensus pattern (17 bp):
GTTTTGGTAATTCAGGA
Found at i:20806 original size:99 final size:99
Alignment explanation
Indices: 20714--21073 Score: 355
Period size: 99 Copynumber: 3.6 Consensus size: 99
20704 TTAGGTAATA
* * * * *
20714 CAGGTTTTGGTAATTCAGGAACTTTTGGTGATTCGGGTTTTGGTAACTCAGGAGTTTTGGGCAAT
1 CAGGTTTTGGTAACTCAGGAACTTTTGGTAATTCAGGTTTTGGCAACTCAGGAGCTTTGGGCAAT
** * * * * *
20779 TCTGATTTCGGCACCTCGGGAATTTTAGGTAATT
66 TCTGGCTTAGGCACCTCAGGAACTTTAGGCAACT
* * * *
20813 CTGGTTTTGTTAACTCAGGAATTTTTGGTAATTCAGATTTTGGCAA-TACAGGAGCTTTGGGCAA
1 CAGGTTTTGGTAACTCAGGAACTTTTGGTAATTCAGGTTTTGGCAACT-CAGGAGCTTTGGGCAA
* *
20877 TTCTGGCTTAGGCACTTCAGGAACTTTAGGCAATT
65 TTCTGGCTTAGGCACCTCAGGAACTTTAGGCAACT
** * * * * *
20912 CCA-ACTTTGGTAACTCCGGAACTTTTGGTAATTCAGGTTTTGGCAACTCGGGAACCTTGGGTAA
1 -CAGGTTTTGGTAACTCAGGAACTTTTGGTAATTCAGGTTTTGGCAACTCAGGAGCTTTGGGCAA
* * *
20976 TTCAGGCTTGGGCATCTCAGGAACTTTAGGCAACT
65 TTCTGGCTTAGGCACCTCAGGAACTTTAGGCAACT
* * ** * * * **
21011 CTGGTTTTGGTAACTCTGGAACTTTTGGTGCTTCAAGTTTTGACAAATTTGGAGCTTTGGGCA
1 CAGGTTTTGGTAACTCAGGAACTTTTGGTAATTCAGGTTTTGGCAACTCAGGAGCTTTGGGCA
21074 TCTCAGGAAC
Statistics
Matches: 211, Mismatches: 46, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
98 2 0.01
99 207 0.98
100 2 0.01
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (99 bp):
CAGGTTTTGGTAACTCAGGAACTTTTGGTAATTCAGGTTTTGGCAACTCAGGAGCTTTGGGCAAT
TCTGGCTTAGGCACCTCAGGAACTTTAGGCAACT
Found at i:20820 original size:66 final size:66
Alignment explanation
Indices: 20731--21038 Score: 185
Period size: 66 Copynumber: 4.7 Consensus size: 66
20721 TGGTAATTCA
* * *
20731 GGAACTTTTGGTGATTCGGGTTTTGGTAACTCAGGAGTTTTGGGCAATTCTGATTTCGGCACCTC
1 GGAACTTTTGGTAATTCGGGTTTTGGTAACTCAGGAATTTTGGGCAATTCAGATTTCGGCACCTC
20796 G
66 G
* * * * * *
20797 GGAA-TTTTAGGTAATTCTGGTTTTGTTAACTCAGGAATTTTTGGTAATTCAGATTTTGGCA-AT
1 GGAACTTTT-GGTAATTCGGGTTTTGGTAACTCAGGAATTTTGGGCAATTCAGATTTCGGCACCT
*
20860 ACA
65 -CG
* * * * * * * * * * *
20863 GGAGCTTTGGGCAATTCTGGCTTAGG-CACTTCAGGAACTTTAGGCAATTCCA-ACTTT-GGTAA
1 GGAACTTTTGGTAATTCGGGTTTTGGTAAC-TCAGGAATTTTGGGCAATT-CAGA-TTTCGGCAC
*
20925 CTCC
63 CTCG
* * * ** * ** * *
20929 GGAACTTTTGGTAATTCAGGTTTTGGCAACTCGGGAACCTTGGGTAATTCAGGCTTGGGCATCTC
1 GGAACTTTTGGTAATTCGGGTTTTGGTAACTCAGGAATTTTGGGCAATTCAGATTTCGGCACCTC
*
20994 A
66 G
* * * * *
20995 GGAACTTTAGGCAACTCTGGTTTTGGTAACTCTGGAACTTTTGG
1 GGAACTTTTGGTAATTCGGGTTTTGGTAACTCAGGAA-TTTTGG
21039 TGCTTCAAGT
Statistics
Matches: 184, Mismatches: 47, Indels: 21
0.73 0.19 0.08
Matches are distributed among these distances:
65 11 0.06
66 158 0.86
67 15 0.08
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (66 bp):
GGAACTTTTGGTAATTCGGGTTTTGGTAACTCAGGAATTTTGGGCAATTCAGATTTCGGCACCTC
G
Found at i:21038 original size:18 final size:18
Alignment explanation
Indices: 20995--21039 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 18
20985 GGGCATCTCA
* *
20995 GGAACTTTAGGCAACTCT
1 GGAACTTTTGGTAACTCT
21013 GG---TTTTGGTAACTCT
1 GGAACTTTTGGTAACTCT
21028 GGAACTTTTGGT
1 GGAACTTTTGGT
21040 GCTTCAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.59
18 9 0.41
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.38
Consensus pattern (18 bp):
GGAACTTTTGGTAACTCT
Found at i:21229 original size:51 final size:51
Alignment explanation
Indices: 21139--21245 Score: 126
Period size: 51 Copynumber: 2.1 Consensus size: 51
21129 GGAGTTTTTC
* * * * *
21139 AACTCGGGAACCTTAGGAATTTCAGGCTTTGGCAACTCTGACACTTTTGGA
1 AACTCGGAAACCCTAGGAATTTCAGGCTTTGACAACTCTGACACTTTCGAA
* * *
21190 AACTCGGAAACCCTAGGTAA-TTCTGGTTTTGACAACTCTGGCACTTTCGAA
1 AACTCGGAAACCCTAGG-AATTTCAGGCTTTGACAACTCTGACACTTTCGAA
21241 AACTC
1 AACTC
21246 AGGAGCCTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
51 45 0.96
52 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (51 bp):
AACTCGGAAACCCTAGGAATTTCAGGCTTTGACAACTCTGACACTTTCGAA
Found at i:21384 original size:192 final size:192
Alignment explanation
Indices: 21159--21550 Score: 624
Period size: 192 Copynumber: 2.0 Consensus size: 192
21149 CCTTAGGAAT
* * *
21159 TTCAGGCTTTGGCAACTCTGACACTTTTGGAAACTCGGAAACCCTAGGTAATTCTGGTTTTGACA
1 TTCAGGCTGTGACAACTCTGACACTTTTGGAAACTCGGAAACCCTAGGTAATTCAGGTTTTGACA
* *
21224 ACTCTGGCACTTTCGAAAACTCAGGAGCCTTAGACAATTCAGGTTTTGGCAGCTCCGGAACTTTA
66 ACTCTGGCACTTTCGAAAACTCAAGAGCCTTAGACAATTCAGGTTTTGGCAACTCCGGAACTTTA
* *
21289 GGCAATTCGGGCTTTAACAACTCAGGCATTTTAGGTATTTCGGGTTTTGGGA-TTTCACGCAA
131 GGCAATTCGAGCTTTAACAACTCAGGCAGTTTAGGTATTTCGGGTTTTGGGATTTTC-CGCAA
* * *
21351 TTCAGGCTGTGACAACTCTGGCACTTTTGGAAACTCGGGAACCTTAGGTAATTCAGGTTTTGACA
1 TTCAGGCTGTGACAACTCTGACACTTTTGGAAACTCGGAAACCCTAGGTAATTCAGGTTTTGACA
* * *
21416 ACTCTGGCACTTTCGGAAATTCAAGAGCCTTAGGCAATTCAGGTTTTGGCAACTCCGGAACTTTA
66 ACTCTGGCACTTTCGAAAACTCAAGAGCCTTAGACAATTCAGGTTTTGGCAACTCCGGAACTTTA
** *
21481 GGCAATTCGAGCTTTGGCAACTCAGGCAGTTTAGGTATTTCGGGTTTTGGGATTTTCGGCAA
131 GGCAATTCGAGCTTTAACAACTCAGGCAGTTTAGGTATTTCGGGTTTTGGGATTTTCCGCAA
21543 TTCAGGCT
1 TTCAGGCT
21551 TTGGAAGTTC
Statistics
Matches: 183, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
192 179 0.98
193 4 0.02
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (192 bp):
TTCAGGCTGTGACAACTCTGACACTTTTGGAAACTCGGAAACCCTAGGTAATTCAGGTTTTGACA
ACTCTGGCACTTTCGAAAACTCAAGAGCCTTAGACAATTCAGGTTTTGGCAACTCCGGAACTTTA
GGCAATTCGAGCTTTAACAACTCAGGCAGTTTAGGTATTTCGGGTTTTGGGATTTTCCGCAA
Found at i:21425 original size:51 final size:51
Alignment explanation
Indices: 21347--21479 Score: 167
Period size: 51 Copynumber: 2.6 Consensus size: 51
21337 GGGATTTCAC
* * * **
21347 GCAATTCAGGCTGTGACAACTCTGGCACTTTTGGAAACTCGGGAACCTTAG
1 GCAATTCAGGTTTTGACAACTCTGGCACTTTCGGAAACTCAAGAACCTTAG
* * *
21398 GTAATTCAGGTTTTGACAACTCTGGCACTTTCGGAAATTCAAGAGCCTTAG
1 GCAATTCAGGTTTTGACAACTCTGGCACTTTCGGAAACTCAAGAACCTTAG
* * *
21449 GCAATTCAGGTTTTGGCAACTCCGGAACTTT
1 GCAATTCAGGTTTTGACAACTCTGGCACTTT
21480 AGGCAATTCG
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 70 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (51 bp):
GCAATTCAGGTTTTGACAACTCTGGCACTTTCGGAAACTCAAGAACCTTAG
Found at i:21487 original size:33 final size:32
Alignment explanation
Indices: 21445--21530 Score: 91
Period size: 33 Copynumber: 2.6 Consensus size: 32
21435 TTCAAGAGCC
*
21445 TTAGGCAATTCAGGTTTTGGCAACTCCGGAACT
1 TTAGGCAATTC-GGTTTTGGCAACTCAGGAACT
* * *
21478 TTAGGCAATTCGAGCTTTGGCAACTCAGGCAGT
1 TTAGGCAATTCG-GTTTTGGCAACTCAGGAACT
* *
21511 TTAGGTATTTCGGGTTTTGG
1 TTAGGCAATTC-GGTTTTGG
21531 GATTTTCGGC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
32 1 0.02
33 42 0.95
34 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (32 bp):
TTAGGCAATTCGGTTTTGGCAACTCAGGAACT
Found at i:23973 original size:33 final size:33
Alignment explanation
Indices: 23936--24419 Score: 185
Period size: 33 Copynumber: 14.7 Consensus size: 33
23926 AGGCAATTTA
* *
23936 GGCAATTCGGGAACTTTAGGTAATTCAGGTTTT
1 GGCAATTCAGGAACTTTAGGCAATTCAGGTTTT
* * * * *
23969 GGCAACTCAGG-AGTTTTGGACAATTCTGGTTTC
1 GGCAATTCAGGAACTTTAGG-CAATTCAGGTTTT
* * * * *
24002 GGTACTTCTGGAACTTTAGGCAATTCTGATTTT
1 GGCAATTCAGGAACTTTAGGCAATTCAGGTTTT
** * * * *
24035 GTTAACTCGGGAA-TTTGAGGTAATTGAGGTTTT
1 GGCAATTCAGGAACTTT-AGGCAATTCAGGTTTT
* * * * * *
24068 GGTAATTCAGGAGCTTTTGGCAATTCTGGCTTA
1 GGCAATTCAGGAACTTTAGGCAATTCAGGTTTT
* * * ** *
24101 GGCACTTGAGGAACTTTTGATACTTCAGGTTTT
1 GGCAATTCAGGAACTTTAGGCAATTCAGGTTTT
* * * *
24134 GGCAACTCAGGCACTTTGGGCAATTCTGGTTTT
1 GGCAATTCAGGAACTTTAGGCAATTCAGGTTTT
* ** * * *
24167 GGTACCTCAGGAATTTTAGGCAACTCTGGTTTT
1 GGCAATTCAGGAACTTTAGGCAATTCAGGTTTT
** * * *
24200 GTTAACTCAGGAATTTTTGGCAATTCAGGAGTTTT
1 GGCAATTCAGGAACTTTAGGCAATTCA-G-GTTTT
** *
24235 GGGCAATTCAGG--C-TTAGGCACCTCAGGAACTTTA
1 -GGCAATTCAGGAACTTTAGGCAATTCAGG---TTTT
* *
24269 GGCAATTCCGG--CTTT-GGTAATTCAGGTTTT
1 GGCAATTCAGGAACTTTAGGCAATTCAGGTTTT
* * * * * * *
24299 GGTAACTCAGGAGCTTTGGGTAATTCAGGCTTG
1 GGCAATTCAGGAACTTTAGGCAATTCAGGTTTT
* * * *
24332 GGCACTTCAGGAACTTTAGGAAATTCTGGCTTT
1 GGCAATTCAGGAACTTTAGGCAATTCAGGTTTT
* * * ***
24365 GGTAACTC-GAGAACTTTTGGTGCTTCAGGTTTT
1 GGCAATTCAG-GAACTTTAGGCAATTCAGGTTTT
* * * *
24398 GACAATTTAGGAGCTTTGGGCA
1 GGCAATTCAGGAACTTTAGGCA
24420 TCTCTAAAAC
Statistics
Matches: 329, Mismatches: 106, Indels: 32
0.70 0.23 0.07
Matches are distributed among these distances:
30 11 0.03
31 1 0.00
32 15 0.05
33 273 0.83
34 16 0.05
35 5 0.02
36 8 0.02
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.36
Consensus pattern (33 bp):
GGCAATTCAGGAACTTTAGGCAATTCAGGTTTT
Found at i:24134 original size:99 final size:99
Alignment explanation
Indices: 23942--24183 Score: 236
Period size: 99 Copynumber: 2.4 Consensus size: 99
23932 TTTAGGCAAT
* * *
23942 TCGGGAACTTTAGGTAATTCAGGTTTTGGCAACTCAGGAGTTTTGGACAATTCTGGTTTCGGTAC
1 TCGGGAACTTTAGGTAATTCAGGTTTTGGCAACTCAGGAGTTTTGGACAATTCTGGCTTAGGCAC
* * *
24007 TTCTGGAACTTTAGGCAATTCTGATTTTGTTAAC
66 TTCAGGAACTTTAGACAATTCAGATTTTGTTAAC
* * *
24041 TCGGGAA-TTTGAGGTAATTGAGGTTTTGGTAATTCAGGAGCTTTTGG-CAATTCTGGCTTAGGC
1 TCGGGAACTTT-AGGTAATTCAGGTTTTGGCAACTCAGGAG-TTTTGGACAATTCTGGCTTAGGC
* * * * * **
24104 ACTTGAGGAACTTTTGATACTTCAGGTTTTGGCAAC
64 ACTTCAGGAACTTTAGACAATTCAGATTTTGTTAAC
* * * * * * * *
24140 TCAGGCACTTTGGGCAATTCTGGTTTTGGTACCTCAGGAATTTT
1 TCGGGAACTTTAGGTAATTCAGGTTTTGGCAACTCAGGAGTTTT
24184 AGGCAACTCT
Statistics
Matches: 115, Mismatches: 25, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
98 7 0.06
99 99 0.86
100 9 0.08
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (99 bp):
TCGGGAACTTTAGGTAATTCAGGTTTTGGCAACTCAGGAGTTTTGGACAATTCTGGCTTAGGCAC
TTCAGGAACTTTAGACAATTCAGATTTTGTTAAC
Found at i:24210 original size:81 final size:81
Alignment explanation
Indices: 24125--24372 Score: 300
Period size: 81 Copynumber: 3.0 Consensus size: 81
24115 TTTTGATACT
* * * * *
24125 TCAGGTTTTGGCAACTCAGGCA-CTTTGGGCAATTCTGGTTTTGGTACCTCAGGAATTTTAGGCA
1 TCAGGTTTTGGCAACTCAGG-AGCTTTGGGCAATTCAGGCTTAGGCACCTCAGGAACTTTAGGCA
* * *
24189 ACTCTGGTTTTGTTAAC
65 ATTCTGGCTTTGGTAAC
* *
24206 TCAGGAATTTTTGGCAATTCAGGAGTTTTGGGCAATTCAGGCTTAGGCACCTCAGGAACTTTAGG
1 TCAGG---TTTTGGCAACTCAGGAGCTTTGGGCAATTCAGGCTTAGGCACCTCAGGAACTTTAGG
* *
24271 CAATTCCGGCTTTGGTAAT
63 CAATTCTGGCTTTGGTAAC
* * * * *
24290 TCAGGTTTTGGTAACTCAGGAGCTTTGGGTAATTCAGGCTTGGGCACTTCAGGAACTTTAGGAAA
1 TCAGGTTTTGGCAACTCAGGAGCTTTGGGCAATTCAGGCTTAGGCACCTCAGGAACTTTAGGCAA
24355 TTCTGGCTTTGGTAAC
66 TTCTGGCTTTGGTAAC
24371 TC
1 TC
24373 GAGAACTTTT
Statistics
Matches: 142, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
81 74 0.52
83 1 0.01
84 67 0.47
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (81 bp):
TCAGGTTTTGGCAACTCAGGAGCTTTGGGCAATTCAGGCTTAGGCACCTCAGGAACTTTAGGCAA
TTCTGGCTTTGGTAAC
Found at i:24227 original size:18 final size:18
Alignment explanation
Indices: 24206--24246 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
24196 TTTTGTTAAC
*
24206 TCAGGAATTTTTGGCAAT
1 TCAGGAATTTTGGGCAAT
*
24224 TCAGGAGTTTTGGGCAAT
1 TCAGGAATTTTGGGCAAT
24242 TCAGG
1 TCAGG
24247 CTTAGGCACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.34
Consensus pattern (18 bp):
TCAGGAATTTTGGGCAAT
Found at i:24295 original size:165 final size:166
Alignment explanation
Indices: 23924--24419 Score: 460
Period size: 165 Copynumber: 3.0 Consensus size: 166
23914 TTTTGGCATG
* *
23924 TCAGGCAA-TTTAGGCAATTCGGGAACTTTAGGTAATTCAGGTTTTGGCAACTCAGGAGTTTTGG
1 TCAGG-AACTTTAGGCAATTCAGG-ACTTT-GGTAATTCAGGTTTTGGCAACTCAGGAGCTTTGG
* * * *
23988 ACAATTCTGGTTTCGGTACTTCTGGAACTTTAGGCAATTCTGATTTTGTTAACTCGGGAATTTGA
63 GCAATTCTGGTTTCGGTACTTCAGGAACTTTAGGCAATTCTGGTTTTGTTAACTCAGGAATTTGA
* * * * *
24053 GGTAATTGAGGTTTTGGTAATTCAGGAGCTTTTGGCAAT
128 GGCAATTCAGGTTTTGGCAATTCAGGAGCTTTAGGCAAC
* * * * *
24092 TCTGG--C-TTAGGCACTTGAGGAACTTTTGATACTTCAGGTTTTGGCAACTCAGGCA-CTTTGG
1 TCAGGAACTTTAGGCAATTCAGG-AC-TTTGGTAATTCAGGTTTTGGCAACTCAGG-AGCTTTGG
* * * * **
24153 GCAATTCTGGTTTTGGTACCTCAGGAATTTTAGGCAACTCTGGTTTTGTTAACTCAGGAATTTTT
63 GCAATTCTGGTTTCGGTACTTCAGGAACTTTAGGCAATTCTGGTTTTGTTAACTCAGGAATTTGA
*
24218 GGCAATTCAGGAGTTTTGGGCAATTCA-G-GC-TTAGGCACC
128 GGCAATTCA-G-GTTTT-GGCAATTCAGGAGCTTTAGGCAAC
* * *
24257 TCAGGAACTTTAGGCAATTCCGG-CTTTGGTAATTCAGGTTTTGGTAACTCAGGAGCTTTGGGTA
1 TCAGGAACTTTAGGCAATTCAGGACTTTGGTAATTCAGGTTTTGGCAACTCAGGAGCTTTGGGCA
* * * * * * *
24321 ATTCAGGCTTGGGCACTTCAGGAACTTTAGGAAATTCTGGCTTTGGTAACTC-GAGAACTTTTG-
66 ATTCTGGTTTCGGTACTTCAGGAACTTTAGGCAATTCTGGTTTTGTTAACTCAG-GAA--TTTGA
* * *
24384 GTGC--TTCAGGTTTTGACAATTTAGGAGCTTTGGGCA
128 G-GCAATTCAGGTTTTGGCAATTCAGGAGCTTTAGGCA
24420 TCTCTAAAAC
Statistics
Matches: 266, Mismatches: 45, Indels: 37
0.76 0.13 0.11
Matches are distributed among these distances:
162 7 0.03
163 6 0.02
164 5 0.02
165 204 0.77
166 9 0.03
167 12 0.05
168 23 0.09
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.35
Consensus pattern (166 bp):
TCAGGAACTTTAGGCAATTCAGGACTTTGGTAATTCAGGTTTTGGCAACTCAGGAGCTTTGGGCA
ATTCTGGTTTCGGTACTTCAGGAACTTTAGGCAATTCTGGTTTTGTTAACTCAGGAATTTGAGGC
AATTCAGGTTTTGGCAATTCAGGAGCTTTAGGCAAC
Found at i:24326 original size:18 final size:16
Alignment explanation
Indices: 24278--24327 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
24268 AGGCAATTCC
24278 GGCTTTGGTAATTCA-
1 GGCTTTGGTAATTCAG
* *
24293 GGTTTTGGTAACTCAG
1 GGCTTTGGTAATTCAG
24309 GAGCTTTGGGTAATTCAG
1 G-GCTTT-GGTAATTCAG
24327 G
1 G
24328 CTTGGGCACT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 13 0.46
16 1 0.04
17 4 0.14
18 10 0.36
ACGTcount: A:0.20, C:0.12, G:0.32, T:0.36
Consensus pattern (16 bp):
GGCTTTGGTAATTCAG
Found at i:24341 original size:48 final size:48
Alignment explanation
Indices: 24203--24342 Score: 127
Period size: 48 Copynumber: 2.9 Consensus size: 48
24193 TGGTTTTGTT
* * *
24203 AACTCAGGAATTTTTGGCAATTCAGGAGTTTTGGGCAATTCAGGCTTAGGC
1 AACTCAGGAACTTTAGGCAATTCA-G-G-CTTGGGCAATTCAGGCTTAGGC
* * * * * * *
24254 ACCTCAGGAACTTTAGGCAATTCCGGCTTTGGTAATTCAGGTTTTGGT
1 AACTCAGGAACTTTAGGCAATTCAGGCTTGGGCAATTCAGGCTTAGGC
* * * *
24302 AACTCAGGAGCTTTGGGTAATTCAGGCTTGGGCACTTCAGG
1 AACTCAGGAACTTTAGGCAATTCAGGCTTGGGCAATTCAGG
24343 AACTTTAGGA
Statistics
Matches: 71, Mismatches: 18, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
48 49 0.69
49 1 0.01
50 1 0.01
51 20 0.28
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (48 bp):
AACTCAGGAACTTTAGGCAATTCAGGCTTGGGCAATTCAGGCTTAGGC
Found at i:24527 original size:18 final size:18
Alignment explanation
Indices: 24506--24663 Score: 70
Period size: 18 Copynumber: 9.3 Consensus size: 18
24496 TTTCGGAAAC
*
24506 TCAGGAACCTTCGGCAAT
1 TCAGGAACCTTTGGCAAT
*
24524 TCAGG---CTTTGGCAAC
1 TCAGGAACCTTTGGCAAT
* *
24539 TCCGGAACTTTTGGCAAT
1 TCAGGAACCTTTGGCAAT
* *
24557 TCAGGAACCTTAGGTAAT
1 TCAGGAACCTTTGGCAAT
* * *
24575 TCTGG---TTTTGGCAAC
1 TCAGGAACCTTTGGCAAT
* * *
24590 TCTGTG-A-CTTTCGGAAAC
1 TCAG-GAACCTTT-GGCAAT
*
24608 TCAGGAACCTTAGGCAAT
1 TCAGGAACCTTTGGCAAT
*
24626 TCAGG---CTTTGGCAAC
1 TCAGGAACCTTTGGCAAT
*
24641 TCCGGAA-CTTTAGGCAAT
1 TCAGGAACCTTT-GGCAAT
24659 TCAGG
1 TCAGG
24664 TTGTGGCAAC
Statistics
Matches: 104, Mismatches: 25, Indels: 22
0.69 0.17 0.15
Matches are distributed among these distances:
15 34 0.33
16 1 0.01
17 8 0.08
18 58 0.56
19 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (18 bp):
TCAGGAACCTTTGGCAAT
Found at i:24540 original size:33 final size:33
Alignment explanation
Indices: 24503--24696 Score: 135
Period size: 33 Copynumber: 5.8 Consensus size: 33
24493 CACTTTCGGA
* *
24503 AACTCAGGAACCTTCGGCAATTCAGGCTTTGGC
1 AACTCAGGAACTTTAGGCAATTCAGGCTTTGGC
* * * *
24536 AACTCCGGAACTTTTGGCAATTCAGGAACCTTAGGT
1 AACTCAGGAACTTTAGGCAATTCAGG---CTTTGGC
* * * * * *
24572 AATTCTGG---TTTTGGCAACTCTGTGACTTTCGGA
1 AACTCAGGAACTTTAGGCAATTCAG-G-CTTT-GGC
*
24605 AACTCAGGAACCTTAGGCAATTCAGGCTTTGGC
1 AACTCAGGAACTTTAGGCAATTCAGGCTTTGGC
*
24638 AACTCCGGAACTTTAGGCAATTCAGG-TTGTGGC
1 AACTCAGGAACTTTAGGCAATTCAGGCTT-TGGC
* * * *
24671 AACTCAGGCATTTTAGGTATTTCAGG
1 AACTCAGGAACTTTAGGCAATTCAGG
24697 TTTCGAGATT
Statistics
Matches: 126, Mismatches: 26, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
32 5 0.04
33 94 0.75
34 5 0.04
35 1 0.01
36 21 0.17
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (33 bp):
AACTCAGGAACTTTAGGCAATTCAGGCTTTGGC
Found at i:24634 original size:102 final size:102
Alignment explanation
Indices: 24479--24663 Score: 336
Period size: 102 Copynumber: 1.8 Consensus size: 102
24469 AAATTCAAAC
*
24479 TTTGGCAACTCTGGCACTTTCGGAAACTCAGGAACCTTCGGCAATTCAGGCTTTGGCAACTCCGG
1 TTTGGCAACTCTGGCACTTTCGGAAACTCAGGAACCTTAGGCAATTCAGGCTTTGGCAACTCCGG
*
24544 AACTTTTGGCAATTCAGGAACCTTAGGTAATTCTGGT
66 AACTTTAGGCAATTCAGGAACCTTAGGTAATTCTGGT
24581 TTTGGCAACTCTGTG-ACTTTCGGAAACTCAGGAACCTTAGGCAATTCAGGCTTTGGCAACTCCG
1 TTTGGCAACTCTG-GCACTTTCGGAAACTCAGGAACCTTAGGCAATTCAGGCTTTGGCAACTCCG
24645 GAACTTTAGGCAATTCAGG
65 GAACTTTAGGCAATTCAGG
24664 TTGTGGCAAC
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
102 79 0.99
103 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (102 bp):
TTTGGCAACTCTGGCACTTTCGGAAACTCAGGAACCTTAGGCAATTCAGGCTTTGGCAACTCCGG
AACTTTAGGCAATTCAGGAACCTTAGGTAATTCTGGT
Found at i:24663 original size:51 final size:51
Alignment explanation
Indices: 24452--24651 Score: 258
Period size: 51 Copynumber: 3.9 Consensus size: 51
24442 GGGTGTTTTC
* * ** * *
24452 AACTCGGGAACCTTAGGAAATTCAAACTTTGGCAACTCTGGCACTTTCGGA
1 AACTCAGGAACCTTAGGCAATTCAGGCTTTGGCAACTCCGGAACTTTCGGA
* * *
24503 AACTCAGGAACCTTCGGCAATTCAGGCTTTGGCAACTCCGGAACTTTTGGC
1 AACTCAGGAACCTTAGGCAATTCAGGCTTTGGCAACTCCGGAACTTTCGGA
* * * * *
24554 AATTCAGGAACCTTAGGTAATTCTGGTTTTGGCAACTCTGTG-ACTTTCGGA
1 AACTCAGGAACCTTAGGCAATTCAGGCTTTGGCAACTCCG-GAACTTTCGGA
24605 AACTCAGGAACCTTAGGCAATTCAGGCTTTGGCAACTCCGGAACTTT
1 AACTCAGGAACCTTAGGCAATTCAGGCTTTGGCAACTCCGGAACTTT
24652 AGGCAATTCA
Statistics
Matches: 125, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
50 1 0.01
51 123 0.98
52 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (51 bp):
AACTCAGGAACCTTAGGCAATTCAGGCTTTGGCAACTCCGGAACTTTCGGA
Found at i:31561 original size:3 final size:3
Alignment explanation
Indices: 31553--31579 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
31543 TTGTTTTTAG
31553 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
31580 TTTACTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:34163 original size:52 final size:52
Alignment explanation
Indices: 34106--34210 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
34096 AAAGCTAGGT
* *
34106 TCTAATATATTTTGTTTTTGGAATCTTGGTTCTAATATTTGAGTAAGACACA
1 TCTAATATATTTTGTTTTTGGAATCTGGGTTCTAATATTTGACTAAGACACA
34158 TCTAATATATTTTGTTTTTGGAATCTGGGTTCTAATATTTGACTAAGACACA
1 TCTAATATATTTTGTTTTTGGAATCTGGGTTCTAATATTTGACTAAGACACA
34210 T
1 T
34211 GTATGAAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (52 bp):
TCTAATATATTTTGTTTTTGGAATCTGGGTTCTAATATTTGACTAAGACACA
Found at i:41584 original size:12 final size:13
Alignment explanation
Indices: 41567--41596 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
41557 TAATATTTTT
41567 AATTAA-CTATTA
1 AATTAACCTATTA
41579 AATTAACCTATTA
1 AATTAACCTATTA
41592 AATTA
1 AATTA
41597 TATAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTAACCTATTA
Found at i:51930 original size:86 final size:86
Alignment explanation
Indices: 51826--52001 Score: 221
Period size: 86 Copynumber: 2.0 Consensus size: 86
51816 GAAAAACAAT
* *
51826 GCTAAAGAACATGATCTTTAACGGCGCTTTCC-CTACAAATGCCGCTAAAAAACATGATCTTTAG
1 GCTAAAGAACATGATCTTTAACGACGCTTTCCTC-ACAAACGCCGCTAAAAAACATGATCTTTAG
*
51890 CGA-CGTTTACCCCACAAACGCC
65 -GAGCGCTTACCCCACAAACGCC
* ** * * *
51912 GCTAAAGAACATGGTCTTTAACGACGCTTTTTTCACAAACGCCGCTAAAGAACATGGTCTTTAGT
1 GCTAAAGAACATGATCTTTAACGACGCTTTCCTCACAAACGCCGCTAAAAAACATGATCTTTAGG
* *
51977 AGCGCTTACTCCACAAATGCC
66 AGCGCTTACCCCACAAACGCC
51998 GCTA
1 GCTA
52002 TAGATAGTGT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
85 1 0.01
86 75 0.97
87 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (86 bp):
GCTAAAGAACATGATCTTTAACGACGCTTTCCTCACAAACGCCGCTAAAAAACATGATCTTTAGG
AGCGCTTACCCCACAAACGCC
Found at i:51983 original size:43 final size:43
Alignment explanation
Indices: 51826--52001 Score: 187
Period size: 43 Copynumber: 4.1 Consensus size: 43
51816 GAAAAACAAT
* * * *
51826 GCTAAAGAACATGATCTTTAACGGCGCTTTC-CCTACAAATGCC
1 GCTAAAGAACATGGTCTTTAACGACGCTTACTCC-ACAAACGCC
* * * * *
51869 GCTAAAAAACATGATCTTTAGCGACGTTTACCCCACAAACGCC
1 GCTAAAGAACATGGTCTTTAACGACGCTTACTCCACAAACGCC
** *
51912 GCTAAAGAACATGGTCTTTAACGACGCTTTTTTCACAAACGCC
1 GCTAAAGAACATGGTCTTTAACGACGCTTACTCCACAAACGCC
*
51955 GCTAAAGAACATGGTCTTT-A-GTAGCGCTTACTCCACAAATGCC
1 GCTAAAGAACATGGTCTTTAACG-A-CGCTTACTCCACAAACGCC
51998 GCTA
1 GCTA
52002 TAGATAGTGT
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 107 0.96
44 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
GCTAAAGAACATGGTCTTTAACGACGCTTACTCCACAAACGCC
Found at i:52016 original size:86 final size:86
Alignment explanation
Indices: 51826--52047 Score: 209
Period size: 86 Copynumber: 2.6 Consensus size: 86
51816 GAAAAACAAT
* * *** *
51826 GCTAAAGAACATGATCTTTAACGGCGCTTTCCCT-ACAAATGCCGCTAAAAAACATGATCTTTAG
1 GCTAAAGAACATGGTCTTTAACGAC-CTTTTTTTCACAAACGCCGCTAAAAAACATGATCTTTAG
* *
51890 CGACGTTTACCCCACAAACGCC
65 AGACGCTTACCCCACAAACGCC
* *
51912 GCTAAAGAACATGGTCTTTAACGACGC-TTTTTTCACAAACGCCGCTAAAGAACATGGTCTTTAG
1 GCTAAAGAACATGGTCTTTAACGAC-CTTTTTTTCACAAACGCCGCTAAAAAACATGATCTTTAG
* *
51976 TAG-CGCTTACTCCACAAATGCC
65 -AGACGCTTACCCCACAAACGCC
* * * * * * *
51998 GCTATAGATA-GTGTTCTTTAGCGGCCTTTTTTTCACAAACACCGTTAAAA
1 GCTAAAGA-ACATGGTCTTTAACGACCTTTTTTTCACAAACGCCGCTAAAA
52048 TTAACAGATT
Statistics
Matches: 112, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
85 4 0.04
86 106 0.95
87 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (86 bp):
GCTAAAGAACATGGTCTTTAACGACCTTTTTTTCACAAACGCCGCTAAAAAACATGATCTTTAGA
GACGCTTACCCCACAAACGCC
Found at i:54155 original size:123 final size:122
Alignment explanation
Indices: 53964--54269 Score: 395
Period size: 123 Copynumber: 2.5 Consensus size: 122
53954 ATAAATGCCG
* * * * *
53964 TAATGCTCAGACATTTAGCGGCGCTTTCTCATAAAGGCCGCTAATGCTTTGACCTTTAACAGCGC
1 TAATGCTCTGACATTTAGCGGCGCTTTCTCATAAACGCCGTTAATTC-TTAACCTTTAACAGCGC
54029 TTTCTCATAAACGCCACTAATGCTCTGACATTTAGC-AGCGC-TTTCTCATAAACACCGC
65 TTTCTCATAAACGCCACTAATGCTCTGACATTTAGCGA-CGCTTTTCT-ATAAACACCGC
* * *
54087 TAATGCTCTGACTTTTAGCGGCGCTTTCTCATAAACGCCGTTAATTCTCTAACCTTTAGCGGCGC
1 TAATGCTCTGACATTTAGCGGCGCTTTCTCATAAACGCCGTTAATTCT-TAACCTTTAACAGCGC
* * * *
54152 TTTCTCATAAATGCCGCTAATTCTCTGACCTTTAGCGACGCTTTTCTATAAACACCGC
65 TTTCTCATAAACGCCACTAATGCTCTGACATTTAGCGACGCTTTTCTATAAACACCGC
* * *
54210 TAATGCTCTGACCTTTAGCGGCACTTTCAT-ATAAATGCCGTT-ATTACTTAACCTTTAACA
1 TAATGCTCTGACATTTAGCGGCGCTTTC-TCATAAACGCCGTTAATT-CTTAACCTTTAACA
54270 ACATTTTTTT
Statistics
Matches: 161, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
122 14 0.09
123 140 0.87
124 7 0.04
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (122 bp):
TAATGCTCTGACATTTAGCGGCGCTTTCTCATAAACGCCGTTAATTCTTAACCTTTAACAGCGCT
TTCTCATAAACGCCACTAATGCTCTGACATTTAGCGACGCTTTTCTATAAACACCGC
Found at i:54244 original size:41 final size:41
Alignment explanation
Indices: 53933--54237 Score: 380
Period size: 41 Copynumber: 7.4 Consensus size: 41
53923 TTACTACTCA
* * * *
53933 ACCTTTAGCGGCGTTTTTTCAATAAATGCCG-TAATGCTCAG
1 ACCTTTAGCGGCGCTTTCTC-ATAAACGCCGCTAATGCTCTG
* * *
53974 ACATTTAGCGGCGCTTTCTCATAAAGGCCGCTAATGCTTTG
1 ACCTTTAGCGGCGCTTTCTCATAAACGCCGCTAATGCTCTG
* * *
54015 ACCTTTAACAGCGCTTTCTCATAAACGCCACTAATGCTCTG
1 ACCTTTAGCGGCGCTTTCTCATAAACGCCGCTAATGCTCTG
* * *
54056 ACATTTAGCAGCGCTTTCTCATAAACACCGCTAATGCTCTG
1 ACCTTTAGCGGCGCTTTCTCATAAACGCCGCTAATGCTCTG
* * * *
54097 ACTTTTAGCGGCGCTTTCTCATAAACGCCGTTAATTCTCTA
1 ACCTTTAGCGGCGCTTTCTCATAAACGCCGCTAATGCTCTG
* *
54138 ACCTTTAGCGGCGCTTTCTCATAAATGCCGCTAATTCTCTG
1 ACCTTTAGCGGCGCTTTCTCATAAACGCCGCTAATGCTCTG
* *
54179 ACCTTTAGCGACGCTTT-TCTATAAACACCGCTAATGCTCTG
1 ACCTTTAGCGGCGCTTTCTC-ATAAACGCCGCTAATGCTCTG
*
54220 ACCTTTAGCGGCACTTTC
1 ACCTTTAGCGGCGCTTTC
54238 ATATAAATGC
Statistics
Matches: 229, Mismatches: 32, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
40 11 0.05
41 218 0.95
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.32
Consensus pattern (41 bp):
ACCTTTAGCGGCGCTTTCTCATAAACGCCGCTAATGCTCTG
Found at i:55793 original size:41 final size:41
Alignment explanation
Indices: 55731--55877 Score: 152
Period size: 41 Copynumber: 3.8 Consensus size: 41
55721 AATTCAATAT
* *
55731 TCTGACCTTTAACGG-TGCTTTCTCATAAACGCCGCTAATGC
1 TCTGACCTTTAGCGGCT-CTTTCCCATAAACGCCGCTAATGC
55772 TCTGACCTTTAGCGGCTCTTTCCCAT--A-------AATGC
1 TCTGACCTTTAGCGGCTCTTTCCCATAAACGCCGCTAATGC
*
55804 TCTGACCTTTAGCGGCACTTTCCCATAAACGCCGCTAATGC
1 TCTGACCTTTAGCGGCTCTTTCCCATAAACGCCGCTAATGC
* * *
55845 TCTGACCTTTAGCGGAGTTTTTCCTATAAACGC
1 TCTGACCTTTAGCGG-CTCTTTCCCATAAACGC
55878 TACTATTGCT
Statistics
Matches: 88, Mismatches: 7, Indels: 21
0.76 0.06 0.18
Matches are distributed among these distances:
32 30 0.34
34 1 0.01
39 1 0.01
41 42 0.48
42 14 0.16
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.32
Consensus pattern (41 bp):
TCTGACCTTTAGCGGCTCTTTCCCATAAACGCCGCTAATGC
Found at i:55808 original size:32 final size:32
Alignment explanation
Indices: 55767--55832 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
55757 AAACGCCGCT
*
55767 AATGCTCTGACCTTTAGCGGCTCTTTCCCATA
1 AATGCTCTGACCTTTAGCGGCACTTTCCCATA
55799 AATGCTCTGACCTTTAGCGGCACTTTCCCATA
1 AATGCTCTGACCTTTAGCGGCACTTTCCCATA
55831 AA
1 AA
55833 CGCCGCTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (32 bp):
AATGCTCTGACCTTTAGCGGCACTTTCCCATA
Found at i:55937 original size:40 final size:40
Alignment explanation
Indices: 55880--55985 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 40
55870 ATAAACGCTA
* *
55880 CTATTGCTTTACTTTTTACGGTGTTTATGGAAAAGCGCCG
1 CTATTGCTTTACCTTTTACGGTGTTTATGGAAAAACGCCG
* ** *
55920 CTATTGCTTTACCTTTTATGACGTTTATGGAAAAACGTCG
1 CTATTGCTTTACCTTTTACGGTGTTTATGGAAAAACGCCG
* *
55960 CTATTGCTTTACCTTTTGCTGTGTTT
1 CTATTGCTTTACCTTTTACGGTGTTT
55986 TTTGCTCATG
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (40 bp):
CTATTGCTTTACCTTTTACGGTGTTTATGGAAAAACGCCG
Found at i:56911 original size:20 final size:20
Alignment explanation
Indices: 56886--56923 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
56876 CCATTAGTAG
*
56886 ATTGATTAAACTGAATTAAA
1 ATTGATTAAACCGAATTAAA
56906 ATTGATTAAACCGAATTA
1 ATTGATTAAACCGAATTA
56924 TTTTAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (20 bp):
ATTGATTAAACCGAATTAAA
Found at i:61510 original size:31 final size:30
Alignment explanation
Indices: 61475--61541 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
61465 TTTGTCCAAG
61475 TTAGGCTCTAAACTT-GACAATTGTTCCCACA
1 TTAGGC-CTAAA-TTAGACAATTGTTCCCACA
** *
61506 TTAGGGCCTAAATTAGGTAATTGTTTCCACA
1 TTA-GGCCTAAATTAGACAATTGTTCCCACA
61537 TTAGG
1 TTAGG
61542 GCTTGAACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
30 4 0.13
31 24 0.77
32 3 0.10
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (30 bp):
TTAGGCCTAAATTAGACAATTGTTCCCACA
Found at i:61784 original size:65 final size:65
Alignment explanation
Indices: 61652--61784 Score: 149
Period size: 65 Copynumber: 2.0 Consensus size: 65
61642 TTGGACAAAT
** * * * * * * *
61652 AAAGTTCAAGCCCCAATGTAGGAACAATTGTCAAGTTTAAAACCTAATTTGGATAATAATAATAA
1 AAAGTTCAAGCCCCAATGTAAAAACAATTATCAAGTTTAAAACCTAACTTGAACAAAAAAAAAAA
* ** *
61717 AAAGTTCAAGCTCCAATGTAAAAACAATTATCAAGTTTAAGGCTTAACTTGAACAAAAAAAAAAA
1 AAAGTTCAAGCCCCAATGTAAAAACAATTATCAAGTTTAAAACCTAACTTGAACAAAAAAAAAAA
61782 AAA
1 AAA
61785 AAGGTTCAAT
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.50, C:0.14, G:0.12, T:0.25
Consensus pattern (65 bp):
AAAGTTCAAGCCCCAATGTAAAAACAATTATCAAGTTTAAAACCTAACTTGAACAAAAAAAAAAA
Found at i:62065 original size:23 final size:20
Alignment explanation
Indices: 62009--62065 Score: 51
Period size: 23 Copynumber: 2.5 Consensus size: 20
61999 AATTTAGAGA
*
62009 TTAATTTAAATAAAAAAAAT
1 TTAATTTATATAAAAAAAAT
62029 TTAAATCTTAATATAAAAATAATTAT
1 TT-AAT-TT-ATATAAAAA-AA--AT
62055 TTAATTTATAT
1 TTAATTTATAT
62066 TCTAACATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
20 2 0.07
21 3 0.10
22 2 0.07
23 12 0.40
24 4 0.13
25 3 0.10
26 4 0.13
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAATTTATATAAAAAAAAT
Found at i:63238 original size:29 final size:28
Alignment explanation
Indices: 63167--63243 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 28
63157 GAATACCCGG
*
63167 GGGGTAAAATGGTAATTTT-GGATTCTT
1 GGGGTAAAATGGTAATTTTGGGAATCTT
*
63194 GAGGGTGAAATGGTAATTTTGGGAAAAT-TT
1 G-GGGTAAAATGGTAATTTTGGG--AATCTT
*
63224 GGGGTAAAAAGGTAATTTTG
1 GGGGTAAAATGGTAATTTTG
63244 AGAGTTTCGA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
27 1 0.02
28 17 0.40
29 19 0.45
30 3 0.07
31 2 0.05
ACGTcount: A:0.31, C:0.01, G:0.32, T:0.35
Consensus pattern (28 bp):
GGGGTAAAATGGTAATTTTGGGAATCTT
Found at i:63348 original size:29 final size:30
Alignment explanation
Indices: 63283--63419 Score: 108
Period size: 29 Copynumber: 4.6 Consensus size: 30
63273 GGACATTCGG
*
63283 GGGT-AAAATGGTAATTTTTAGAAGTTTCGA
1 GGGTAAAAATGG-AATTTTTAGAAGTTTTGA
* * *
63313 GGTTAAAAATGGGATTTTTAGAAG-TTAGA
1 GGGTAAAAATGGAATTTTTAGAAGTTTTGA
*
63342 GGGTAAAAATAGAATTTTT-GAAAGTTTTG-
1 GGGTAAAAATGGAATTTTTAG-AAGTTTTGA
* *
63371 GGGTCAAAAAATGGGAA-TTTTGGAAG-TTTGG
1 GGGT--AAAAAT-GGAATTTTTAGAAGTTTTGA
*
63402 GGGTAAAAA-CGAATTTTT
1 GGGTAAAAATGGAATTTTT
63420 TGGACAGTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
27 3 0.03
28 5 0.06
29 32 0.36
30 21 0.24
31 24 0.27
32 4 0.04
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.34
Consensus pattern (30 bp):
GGGTAAAAATGGAATTTTTAGAAGTTTTGA
Found at i:63410 original size:30 final size:31
Alignment explanation
Indices: 63287--63410 Score: 114
Period size: 31 Copynumber: 4.1 Consensus size: 31
63277 ATTCGGGGGT
* * * *
63287 AAAATGGTAATTTTTAGAAGTTTCGAGGTTA
1 AAAATGGGAATTTTTAGAAGTTTGGGGGTAA
* *
63318 AAAATGGG-ATTTTTAGAAGTTAGAGGGT-A
1 AAAATGGGAATTTTTAGAAGTTTGGGGGTAA
* *
63347 AAAAT-AGAATTTTT-GAAAGTTTTGGGGTCAA
1 AAAATGGGAATTTTTAG-AAGTTTGGGGGT-AA
*
63378 AAAATGGGAA-TTTTGGAAGTTTGGGGGTAA
1 AAAATGGGAATTTTTAGAAGTTTGGGGGTAA
63408 AAA
1 AAA
63411 CGAATTTTTT
Statistics
Matches: 76, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
28 2 0.03
29 21 0.28
30 21 0.28
31 28 0.37
32 4 0.05
ACGTcount: A:0.38, C:0.02, G:0.27, T:0.33
Consensus pattern (31 bp):
AAAATGGGAATTTTTAGAAGTTTGGGGGTAA
Found at i:63957 original size:28 final size:27
Alignment explanation
Indices: 63908--63960 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
63898 TTTTTACTCA
*
63908 TTATTATTATTATTATTAAGAAAATAT
1 TTATTATTATAATTATTAAGAAAATAT
*
63935 TTATTATTAATAATTATTGAGAAAAT
1 TTATTATT-ATAATTATTAAGAAAAT
63961 TGTTCGTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (27 bp):
TTATTATTATAATTATTAAGAAAATAT
Found at i:64043 original size:3 final size:3
Alignment explanation
Indices: 63989--64014 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
63979 GTCATTAATG
63989 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
64015 TAAACAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:64563 original size:15 final size:15
Alignment explanation
Indices: 64543--64610 Score: 84
Period size: 15 Copynumber: 4.5 Consensus size: 15
64533 TGGAATCTTA
64543 GGCCATTTGTAATTG
1 GGCCATTTGTAATTG
* *
64558 GGCCATCTGTAATCG
1 GGCCATTTGTAATTG
*
64573 GGCCGTTTAG-AATTG
1 GGCCATTT-GTAATTG
64588 GGCCATTTGTAATTG
1 GGCCATTTGTAATTG
*
64603 AGCCATTT
1 GGCCATTT
64611 AGATCTATAC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
14 1 0.02
15 42 0.95
16 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (15 bp):
GGCCATTTGTAATTG
Found at i:64695 original size:23 final size:23
Alignment explanation
Indices: 64644--64697 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
64634 TTAATTAGAC
*
64644 ATTTTAAATTTAAATTTATAATA
1 ATTTTAAATTTAAATATATAATA
*
64667 AATTTAAATTTAAA-ATA-AACTTA
1 ATTTTAAATTTAAATATATAA--TA
64690 ATTTTAAA
1 ATTTTAAA
64698 ATAAATTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.08
22 2 0.08
23 22 0.85
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTTAAATTTAAATATATAATA
Found at i:64710 original size:17 final size:17
Alignment explanation
Indices: 64648--64704 Score: 87
Period size: 17 Copynumber: 3.4 Consensus size: 17
64638 TTAGACATTT
*
64648 TAAATTTAAATTTATAA
1 TAAATTTAAATTTAAAA
64665 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* *
64682 TAAACTTAATTTTAAAA
1 TAAATTTAAATTTAAAA
64699 TAAATT
1 TAAATT
64705 CAATTTCCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:65328 original size:204 final size:202
Alignment explanation
Indices: 64966--65600 Score: 823
Period size: 206 Copynumber: 3.1 Consensus size: 202
64956 TGGCCTTCTT
* *
64966 CTCAGTATCTCATCCGGAAGATGACCGTTTTATTACTTCGACCTGCTTCTCAGTATCTC-TCATT
1 CTCAGTATCTCATCAGGAAGCT-ACCGTTTTATTACTTCGACCTGCTTCTCAGTATCTCATCA--
* * * *
65030 CGGAAGCTGGGGTTTGAAGATTCGTTCATCGCGCGTGGGTTTGATTTAGTCTTCTCCTCAGTATC
63 -GGAAGCTGGGGTTCGAAGATT-TTTCATCGTGCGTGGGTTTGATTTAGTCTTCTTCTCAGTATC
* *
65095 TCATCAGGAAGATGACCGCGTCATTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAA
126 TCATCAAGAAGATGACCGCGTCGTTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAA
65160 TTTGGTTCACTC
191 TTTGGTTCACTC
*
65172 C-CTAGTATCTCATCAGGAAGCTATCCGTTTTATTACTTCGACTTGCTTCTCAGTATCTCATCAG
1 CTC-AGTATCTCATCAGGAAGCTA-CCGTTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAG
*
65236 GAAGCTGGGGTTCGAAGATTTATTCATCGTGCGTGGGTTCGATTTAGTCTTCTTCTCAGTATCTC
64 GAAGCTGGGGTTCGAAGATTT-TTCATCGTGCGTGGGTTTGATTTAGTCTTCTTCTCAGTATCTC
*
65301 ATCAAGAAGATGATCGCGTCGTTTGTTTCAAAT-CGCTTCTCTGTATCTCATCAGGAAGACGAAT
128 ATCAAGAAGATGACCGCGTCGTTTGTTTC-AATCCGCTTCTCTGTATCTCATCAGGAAGACGAAT
65365 TTGGTTCACTC
192 TTGGTTCACTC
* * * * * *
65376 CTCAGTATCTTATCAAGAAGCTAACCG-TTTATTGCTTCAACCTACTTCTC-GATGTCTCATCAG
1 CTCAGTATCTCATCAGGAAGCT-ACCGTTTTATTACTTCGACCTGCTTCTCAG-TATCTCATCAG
* * * * * *
65439 GAAGCTGGGGTTCAAAGATTTTGC-TCGCTTTAAGCATGAGTTTGATTTGGTCTTCTTCTCAGTG
64 GAAGCTGGGGTTCGAAGATTTTTCATCG---T--GCGTGGGTTTGATTTAGTCTTCTTCTCAGTA
* * * * *
65503 TCTCATCAAAAAGATGACCGCATCGTTTGTGTCAAACCGCTTCTTTGTATCTCATCAGGAAGACG
124 TCTCATCAAGAAGATGACCGCGTCGTTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACG
65568 AATTTGGTTCACTC
189 AATTTGGTTCACTC
*
65582 CTCAGTATCTTATCAGGAA
1 CTCAGTATCTCATCAGGAA
65601 TCCGACATAT
Statistics
Matches: 383, Mismatches: 32, Indels: 28
0.86 0.07 0.06
Matches are distributed among these distances:
201 3 0.01
202 3 0.01
203 49 0.13
204 150 0.39
205 9 0.02
206 166 0.43
207 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (202 bp):
CTCAGTATCTCATCAGGAAGCTACCGTTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGA
AGCTGGGGTTCGAAGATTTTTCATCGTGCGTGGGTTTGATTTAGTCTTCTTCTCAGTATCTCATC
AAGAAGATGACCGCGTCGTTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGG
TTCACTC
Found at i:71984 original size:28 final size:28
Alignment explanation
Indices: 71948--72004 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
71938 TAGGCTCAAT
*
71948 ACTCGTCCAACACTGAAGTGCAGTAATA
1 ACTCGTCCAACACCGAAGTGCAGTAATA
* *
71976 ACTCGTCCAGCACCGAAGTGCGGTAATA
1 ACTCGTCCAACACCGAAGTGCAGTAATA
72004 A
1 A
72005 GCGCGCAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.19
Consensus pattern (28 bp):
ACTCGTCCAACACCGAAGTGCAGTAATA
Found at i:73235 original size:27 final size:27
Alignment explanation
Indices: 73183--73236 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
73173 TATTTTTGGG
* * *
73183 TGGTGCCTACCTGATAGACGGTACCAA
1 TGGTGCCTACCTAACAGACGGCACCAA
*
73210 TGGTGCCTACCTAACAGGCGGCACCAA
1 TGGTGCCTACCTAACAGACGGCACCAA
73237 GTCCCAATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.19
Consensus pattern (27 bp):
TGGTGCCTACCTAACAGACGGCACCAA
Found at i:73476 original size:17 final size:17
Alignment explanation
Indices: 73444--73477 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
73434 AAAAAAATTC
*
73444 ATTTAAATGTTATTTAA
1 ATTTAAATATTATTTAA
*
73461 ATTTAAATATTGTTTAA
1 ATTTAAATATTATTTAA
73478 TCATGTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
ATTTAAATATTATTTAA
Found at i:76548 original size:26 final size:26
Alignment explanation
Indices: 76493--76568 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
76483 GTTAAACCTC
**
76493 ATTAAATAAATTCAAACATAAAAATT
1 ATTAAATAAATTCAAACATAAAAAGA
** *
76519 ATTAAATAAATTCAAATTTAAACAGA
1 ATTAAATAAATTCAAACATAAAAAGA
* *
76545 ATTAATTCCAAATTCAATCATAAA
1 ATTAAAT--AAATTCAAACATAAA
76569 CTTAATTAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 27 0.69
28 12 0.31
ACGTcount: A:0.57, C:0.11, G:0.01, T:0.32
Consensus pattern (26 bp):
ATTAAATAAATTCAAACATAAAAAGA
Found at i:79358 original size:25 final size:26
Alignment explanation
Indices: 79305--79355 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
79295 TCTGCTAACC
* *
79305 TTTTGTTTCCTTTTCTTCTTCAAAAA
1 TTTTGCTTCCTTTCCTTCTTCAAAAA
79331 TTTTGCTTCCTTTCCTTCTTCAAAA
1 TTTTGCTTCCTTTCCTTCTTCAAAA
79356 TTTGCTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.24, G:0.04, T:0.55
Consensus pattern (26 bp):
TTTTGCTTCCTTTCCTTCTTCAAAAA
Found at i:79815 original size:32 final size:31
Alignment explanation
Indices: 79779--79842 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 31
79769 ATATTTATAT
79779 TATTTAAGT-TATTAATTTTATTTTTTGTATTA
1 TATTTAAGTGTA-TAATTTT-TTTTTTGTATTA
**
79811 TATTTTGGTGTATAATTTTTTTTTTGTATTA
1 TATTTAAGTGTATAATTTTTTTTTTGTATTA
79842 T
1 T
79843 TTATGTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 13 0.45
32 14 0.48
33 2 0.07
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.67
Consensus pattern (31 bp):
TATTTAAGTGTATAATTTTTTTTTTGTATTA
Found at i:79928 original size:27 final size:27
Alignment explanation
Indices: 79889--79955 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
79879 CAATGTAGGG
79889 TTGGTGCAGCCTGCCAAGTAGGCACCT
1 TTGGTGCAGCCTGCCAAGTAGGCACCT
* *
79916 TTGGTGTCA-CCTGGCAGGTAGGCACCT
1 TTGGTG-CAGCCTGCCAAGTAGGCACCT
*
79943 TTGGTGCCGCCTG
1 TTGGTGCAGCCTG
79956 TCAGATAGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.03
27 32 0.91
28 2 0.06
ACGTcount: A:0.13, C:0.28, G:0.33, T:0.25
Consensus pattern (27 bp):
TTGGTGCAGCCTGCCAAGTAGGCACCT
Found at i:79964 original size:27 final size:27
Alignment explanation
Indices: 79889--79966 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
79879 CAATGTAGGG
*
79889 TTGGTGCAGCCTGCCA-AGTAGGCACCT
1 TTGGTGCCGCCTGCCAGA-TAGGCACCT
* * * *
79916 TTGGTGTCACCTGGCAGGTAGGCACCT
1 TTGGTGCCGCCTGCCAGATAGGCACCT
*
79943 TTGGTGCCGCCTGTCAGATAGGCA
1 TTGGTGCCGCCTGCCAGATAGGCA
79967 TCACCTCTTG
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.17, C:0.27, G:0.32, T:0.24
Consensus pattern (27 bp):
TTGGTGCCGCCTGCCAGATAGGCACCT
Found at i:82365 original size:31 final size:31
Alignment explanation
Indices: 82330--82396 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
82320 TTTGTCCAAG
82330 TTAGGCCCTAAACTTGACAATTGTTCCCACA
1 TTAGGCCCTAAACTTGACAATTGTTCCCACA
* * *** *
82361 TTAGGGCCTAAATTTGGTGATTGTTTCCACA
1 TTAGGCCCTAAACTTGACAATTGTTCCCACA
82392 TTAGG
1 TTAGG
82397 GCTTGAACTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (31 bp):
TTAGGCCCTAAACTTGACAATTGTTCCCACA
Found at i:87226 original size:28 final size:28
Alignment explanation
Indices: 87190--87246 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
87180 TAGGCTCAAT
*
87190 ACTCGTCCAACACTGAAGTGCAGTAATA
1 ACTCGTCCAACACCGAAGTGCAGTAATA
* *
87218 ACTCGTCCAGCACCGAAGTGCGGTAATA
1 ACTCGTCCAACACCGAAGTGCAGTAATA
87246 A
1 A
87247 GCGCGCAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.19
Consensus pattern (28 bp):
ACTCGTCCAACACCGAAGTGCAGTAATA
Found at i:88477 original size:27 final size:27
Alignment explanation
Indices: 88425--88478 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
88415 TATTTTTGGG
* * *
88425 TGGTGCCTACCTGATAGACGGTACCAA
1 TGGTGCCTACCTAACAGACGGCACCAA
*
88452 TGGTGCCTACCTAACAGGCGGCACCAA
1 TGGTGCCTACCTAACAGACGGCACCAA
88479 GTCCCAATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.19
Consensus pattern (27 bp):
TGGTGCCTACCTAACAGACGGCACCAA
Found at i:88718 original size:17 final size:17
Alignment explanation
Indices: 88686--88719 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
88676 AAAAAAATTC
*
88686 ATTTAAATGTTATTTAA
1 ATTTAAATATTATTTAA
*
88703 ATTTAAATATTGTTTAA
1 ATTTAAATATTATTTAA
88720 TCATGTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
ATTTAAATATTATTTAA
Found at i:91790 original size:26 final size:26
Alignment explanation
Indices: 91735--91810 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
91725 GTTAAACCTC
**
91735 ATTAAATAAATTCAAACATAAAAATT
1 ATTAAATAAATTCAAACATAAAAAGA
** *
91761 ATTAAATAAATTCAAATTTAAACAGA
1 ATTAAATAAATTCAAACATAAAAAGA
* *
91787 ATTAATTCCAAATTCAATCATAAA
1 ATTAAAT--AAATTCAAACATAAA
91811 CTTAATTAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 27 0.69
28 12 0.31
ACGTcount: A:0.57, C:0.11, G:0.01, T:0.32
Consensus pattern (26 bp):
ATTAAATAAATTCAAACATAAAAAGA
Found at i:94600 original size:25 final size:26
Alignment explanation
Indices: 94547--94597 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
94537 TCTGCTAACC
* *
94547 TTTTGTTTCCTTTTCTTCTTCAAAAA
1 TTTTGCTTCCTTTCCTTCTTCAAAAA
94573 TTTTGCTTCCTTTCCTTCTTCAAAA
1 TTTTGCTTCCTTTCCTTCTTCAAAA
94598 TTTGCTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.24, G:0.04, T:0.55
Consensus pattern (26 bp):
TTTTGCTTCCTTTCCTTCTTCAAAAA
Found at i:95057 original size:32 final size:31
Alignment explanation
Indices: 95021--95084 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 31
95011 ATATTTATAT
95021 TATTTAAGT-TATTAATTTTATTTTTTGTATTA
1 TATTTAAGTGTA-TAATTTT-TTTTTTGTATTA
**
95053 TATTTTGGTGTATAATTTTTTTTTTGTATTA
1 TATTTAAGTGTATAATTTTTTTTTTGTATTA
95084 T
1 T
95085 TTATGTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 13 0.45
32 14 0.48
33 2 0.07
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.67
Consensus pattern (31 bp):
TATTTAAGTGTATAATTTTTTTTTTGTATTA
Found at i:95170 original size:27 final size:27
Alignment explanation
Indices: 95131--95197 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
95121 CAATGTAGGG
95131 TTGGTGCAGCCTGCCAAGTAGGCACCT
1 TTGGTGCAGCCTGCCAAGTAGGCACCT
* *
95158 TTGGTGTCA-CCTGGCAGGTAGGCACCT
1 TTGGTG-CAGCCTGCCAAGTAGGCACCT
*
95185 TTGGTGCCGCCTG
1 TTGGTGCAGCCTG
95198 TCAGATAGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.03
27 32 0.91
28 2 0.06
ACGTcount: A:0.13, C:0.28, G:0.33, T:0.25
Consensus pattern (27 bp):
TTGGTGCAGCCTGCCAAGTAGGCACCT
Found at i:95206 original size:27 final size:27
Alignment explanation
Indices: 95131--95208 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
95121 CAATGTAGGG
*
95131 TTGGTGCAGCCTGCCA-AGTAGGCACCT
1 TTGGTGCCGCCTGCCAGA-TAGGCACCT
* * * *
95158 TTGGTGTCACCTGGCAGGTAGGCACCT
1 TTGGTGCCGCCTGCCAGATAGGCACCT
*
95185 TTGGTGCCGCCTGTCAGATAGGCA
1 TTGGTGCCGCCTGCCAGATAGGCA
95209 TCACCTCTTG
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.17, C:0.27, G:0.32, T:0.24
Consensus pattern (27 bp):
TTGGTGCCGCCTGCCAGATAGGCACCT
Found at i:97607 original size:31 final size:31
Alignment explanation
Indices: 97572--97638 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
97562 TTTGTCCAAG
97572 TTAGGCCCTAAACTTGACAATTGTTCCCACA
1 TTAGGCCCTAAACTTGACAATTGTTCCCACA
* * *** *
97603 TTAGGGCCTAAATTTGGTGATTGTTTCCACA
1 TTAGGCCCTAAACTTGACAATTGTTCCCACA
97634 TTAGG
1 TTAGG
97639 GCTTGAACTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (31 bp):
TTAGGCCCTAAACTTGACAATTGTTCCCACA
Found at i:105034 original size:26 final size:27
Alignment explanation
Indices: 105000--105054 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
104990 GTTATTAGGT
*
105000 TAATGATTT-A-ATATAAATATATATAA
1 TAATGATTTAACATATAATTA-ATATAA
*
105026 TAATTATTTAACATATAATTAATATAA
1 TAATGATTTAACATATAATTAATATAA
105053 TA
1 TA
105055 TTTTTATAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.32
27 9 0.36
28 8 0.32
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
TAATGATTTAACATATAATTAATATAA
Found at i:111348 original size:31 final size:30
Alignment explanation
Indices: 111290--111348 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
111280 GGGAGAGGGA
** **
111290 TAAAAGTTTTGGGGGAAAAGTGGAAAGGAG
1 TAAAAGTTTTGGGAAAAAAGTAAAAAGGAG
111320 TAAAAGTTTTTGGGAAAAAAGTAAAAAGG
1 TAAAAG-TTTTGGGAAAAAAGTAAAAAGG
111349 TTTGGGGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 6 0.25
31 18 0.75
ACGTcount: A:0.46, C:0.00, G:0.32, T:0.22
Consensus pattern (30 bp):
TAAAAGTTTTGGGAAAAAAGTAAAAAGGAG
Found at i:111360 original size:22 final size:23
Alignment explanation
Indices: 111321--111368 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
111311 GGAAAGGAGT
* *
111321 AAAAGTTTTTGGGAAAAAA-GTA
1 AAAAGGTTTGGGGAAAAAATGTA
*
111343 AAAAGGTTTGGGGTAAAAATGTA
1 AAAAGGTTTGGGGAAAAAATGTA
111366 AAA
1 AAA
111369 TATTATAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (23 bp):
AAAAGGTTTGGGGAAAAAATGTA
Found at i:115261 original size:31 final size:30
Alignment explanation
Indices: 115173--115253 Score: 112
Period size: 29 Copynumber: 2.7 Consensus size: 30
115163 AAAGAGATCC
*
115173 AAAATTTT-TAGTTTTTAAGGGATCTAAAA
1 AAAATTTTCTAGTTTTTAAGGGATCAAAAA
*
115202 AAAA-TTTCCAGTTTTTAAGGGATCCAAAAA
1 AAAATTTTCTAGTTTTTAAGGGAT-CAAAAA
*
115232 AAAATTTTCTAGCTTTTAAGGG
1 AAAATTTTCTAGTTTTTAAGGG
115254 GCTCAAAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
28 3 0.07
29 18 0.40
30 9 0.20
31 15 0.33
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.37
Consensus pattern (30 bp):
AAAATTTTCTAGTTTTTAAGGGATCAAAAA
Found at i:116297 original size:29 final size:30
Alignment explanation
Indices: 116242--116321 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 30
116232 AAATTAGATC
116242 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
* * * *
116272 AAATCAAAGTTT-ATTTATACATTTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
* * *
116301 ATAAACCAAAGTTCATGTATA
1 A-AATCAAAATTTCATGTATA
116322 GTTTTGAGAT
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
29 15 0.38
30 18 0.46
31 6 0.15
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.33
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTACACA
Found at i:120961 original size:30 final size:30
Alignment explanation
Indices: 120927--120991 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
120917 TAACTTAATA
* *
120927 AACAAATGCCTCTAAAATAGTAACAAAATT
1 AACAAATGCCGCTAAAATAATAACAAAATT
*
120957 AACAAGTGCCGCTAAAATAATAACAAAATT
1 AACAAATGCCGCTAAAATAATAACAAAATT
120987 AACAA
1 AACAA
120992 TAAAATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.55, C:0.17, G:0.08, T:0.20
Consensus pattern (30 bp):
AACAAATGCCGCTAAAATAATAACAAAATT
Done.