Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008574.1 Hibiscus syriacus cultivar Beakdansim tig00111503_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: 414859
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 2
Found at i:3800 original size:84 final size:83
Alignment explanation
Indices: 3663--3980 Score: 349
Period size: 84 Copynumber: 3.8 Consensus size: 83
3653 CCCCTGAATC
* * *
3663 CCTTGAATTCTGGTGTGGCAGCGTTGCAAAATACCCTGAATCCTGCTACACATTTACAGACTGGG
1 CCTTGAATCCTGGTGTGACAGCGTTGCAAAATCCCCTGAATCCTGCTACACATTTACAGACTGGG
* * *
3728 CAGTTGCAGTTGCAAAAT
66 AAATTGCAGCTGCAAAAT
* *
3746 CCCTTGAATCCTAGTGTGACAGCGTTGCAAAATCCCGTGAATCCTGCTACACATTTACAGACTGG
1 -CCTTGAATCCTGGTGTGACAGCGTTGCAAAATCCCCTGAATCCTGCTACACATTTACAGACTGG
*
3811 GTAACA-T-CAACTGCAACAAT
65 G-AA-ATTGCAGCTGCAA-AAT
*
3831 --TTGATCAGCCTCCTGGTGTCGA-AGCGTTGCAAAATCCCCTGAATCCTGCTACACATTTATAG
1 CCTTGA--A---TCCTGGTGT-GACAGCGTTGCAAAATCCCCTGAATCCTGCTACACATTTACAG
* * * *
3893 ATTGCGTAATTGCAGGTGCAAAAT
60 ACTGGGAAATTGCAGCTGCAAAAT
* * *
3917 CCTCTGAATCTTGGTGTGACAGCGTTGCAAAATCCCCTGATTCCTACTACACATTTACAGACTG
1 CCT-TGAATCCTGGTGTGACAGCGTTGCAAAATCCCCTGAATCCTGCTACACATTTACAGACTG
3981 AGCAACAGCA
Statistics
Matches: 197, Mismatches: 22, Indels: 30
0.79 0.09 0.12
Matches are distributed among these distances:
82 4 0.02
83 2 0.01
84 116 0.59
85 6 0.03
86 5 0.03
87 58 0.29
88 3 0.02
89 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (83 bp):
CCTTGAATCCTGGTGTGACAGCGTTGCAAAATCCCCTGAATCCTGCTACACATTTACAGACTGGG
AAATTGCAGCTGCAAAAT
Found at i:3888 original size:171 final size:171
Alignment explanation
Indices: 3672--4004 Score: 497
Period size: 171 Copynumber: 1.9 Consensus size: 171
3662 CCCTTGAATT
* * * *
3672 CTGGTGTGGCAGCGTTGCAAAATACCCTGAATCCTGCTACACATTTACAGACTGGGCAGTTGCAG
1 CTGGTGTCGAAGCGTTGCAAAATACCCTGAATCCTGCTACACATTTACAGACTGCGCAATTGCAG
* * *
3737 TTGCAAAATCC-CTTGAATCCTAGTGTGACAGCGTTGCAAAATCCCGTGAATCCTGCTACACATT
66 GTGCAAAATCCTC-TGAATCCTAGTGTGACAGCGTTGCAAAATCCCCTGAATCCTACTACACATT
* * *
3801 TACAGACTGGGTAACATCAACTGCAACAATTTGATCAGCCTC
130 TACAGACTGAGCAACAGCAACTGCAACAATTTGATCAGCCTC
* * * *
3843 CTGGTGTCGAAGCGTTGCAAAATCCCCTGAATCCTGCTACACATTTATAGATTGCGTAATTGCAG
1 CTGGTGTCGAAGCGTTGCAAAATACCCTGAATCCTGCTACACATTTACAGACTGCGCAATTGCAG
* * *
3908 GTGCAAAATCCTCTGAATCTTGGTGTGACAGCGTTGCAAAATCCCCTGATTCCTACTACACATTT
66 GTGCAAAATCCTCTGAATCCTAGTGTGACAGCGTTGCAAAATCCCCTGAATCCTACTACACATTT
3973 ACAGACTGAGCAACAGCAACTGCAACAATTTG
131 ACAGACTGAGCAACAGCAACTGCAACAATTTG
4005 GTCAACCCTA
Statistics
Matches: 144, Mismatches: 17, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
171 143 0.99
172 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (171 bp):
CTGGTGTCGAAGCGTTGCAAAATACCCTGAATCCTGCTACACATTTACAGACTGCGCAATTGCAG
GTGCAAAATCCTCTGAATCCTAGTGTGACAGCGTTGCAAAATCCCCTGAATCCTACTACACATTT
ACAGACTGAGCAACAGCAACTGCAACAATTTGATCAGCCTC
Found at i:5333 original size:14 final size:14
Alignment explanation
Indices: 5310--5339 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5300 TATCAATGCA
*
5310 ATTATCTATAATAT
1 ATTATATATAATAT
5324 ATTATATATAATAT
1 ATTATATATAATAT
5338 AT
1 AT
5340 AATTACATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTATATATAATAT
Found at i:13357 original size:98 final size:100
Alignment explanation
Indices: 13187--13385 Score: 316
Period size: 98 Copynumber: 2.0 Consensus size: 100
13177 TCCCCATATT
*
13187 TGGAAAGCTGCTCATTTTCCCTGTATTCAATACAGAAAAAATACAATTACACAACTAGGAAGATT
1 TGGAAAGCTGCTCATTTTCCCTGTATTCAATACAGAAAAAATACAATTACACAACTAGGAAGATA
* * *
13252 TCAGGCATTCATCAGGGTTTGG-TTTACGTTAAAA
66 TCAGGCATTCATCAGGATTCGGTTTTACATTAAAA
13286 TGGAAAGCTGCTCATTTTCCCTGTCA-TCAGA-ACAG-AAAAATACAATTACACAACTAGGAAGA
1 TGGAAAGCTGCTCATTTTCCCTGT-ATTCA-ATACAGAAAAAATACAATTACACAACTAGGAAGA
13348 TATCAGGCATTCATCAGGATTCGGTTTTACATTAAAA
64 TATCAGGCATTCATCAGGATTCGGTTTTACATTAAAA
13385 T
1 T
13386 TAAAGTTTTC
Statistics
Matches: 93, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
98 48 0.52
99 43 0.46
100 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (100 bp):
TGGAAAGCTGCTCATTTTCCCTGTATTCAATACAGAAAAAATACAATTACACAACTAGGAAGATA
TCAGGCATTCATCAGGATTCGGTTTTACATTAAAA
Found at i:20710 original size:21 final size:23
Alignment explanation
Indices: 20683--20735 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
20673 TTTTTTTTCA
20683 AAAAAAAAATGCAAAAAAAAG-G-C
1 AAAAAAAAA--CAAAAAAAAGAGCC
20706 AAAAAAAAACAAAAAAAAGAGCC
1 AAAAAAAAACAAAAAAAAGAGCC
20729 AAAAAAA
1 AAAAAAA
20736 GCCAAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.36
22 1 0.04
23 17 0.61
ACGTcount: A:0.79, C:0.09, G:0.09, T:0.02
Consensus pattern (23 bp):
AAAAAAAAACAAAAAAAAGAGCC
Found at i:20712 original size:23 final size:22
Alignment explanation
Indices: 20683--20735 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
20673 TTTTTTTTCA
20683 AAAAAAAAATGCAAAAAAAAG-GC
1 AAAAAAAAA--CAAAAAAAAGAGC
20706 AAAAAAAAACAAAAAAAAGAGC
1 AAAAAAAAACAAAAAAAAGAGC
*
20728 CAAAAAAA
1 AAAAAAAA
20736 GCCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 10 0.36
22 9 0.32
23 9 0.32
ACGTcount: A:0.79, C:0.09, G:0.09, T:0.02
Consensus pattern (22 bp):
AAAAAAAAACAAAAAAAAGAGC
Found at i:20732 original size:12 final size:11
Alignment explanation
Indices: 20684--20742 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 11
20674 TTTTTTTCAA
20684 AAAAAAAATG-C
1 AAAAAAAA-GCC
*
20695 AAAAAAAAGGC
1 AAAAAAAAGCC
* *
20706 AAAAAAAAACA
1 AAAAAAAAGCC
20717 AAAAAAAGAGCC
1 AAAAAAA-AGCC
20729 -AAAAAAAGCC
1 AAAAAAAAGCC
20739 AAAA
1 AAAA
20743 TTTCAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 5 0.12
11 33 0.82
12 2 0.05
ACGTcount: A:0.76, C:0.12, G:0.10, T:0.02
Consensus pattern (11 bp):
AAAAAAAAGCC
Found at i:29748 original size:22 final size:22
Alignment explanation
Indices: 29722--29770 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
29712 ATGTTGTTAA
29722 AAACTTAAC-ATGTTTAGTACCT
1 AAACTTAACAAT-TTTAGTACCT
*
29744 AAAC-TATCAATTTTAGTACCT
1 AAACTTAACAATTTTAGTACCT
29765 AAACTT
1 AAACTT
29771 TAAAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.37
Consensus pattern (22 bp):
AAACTTAACAATTTTAGTACCT
Found at i:47436 original size:2 final size:2
Alignment explanation
Indices: 47429--47470 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
47419 TCACAATGTC
47429 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
47471 TTATCGTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48354 original size:23 final size:23
Alignment explanation
Indices: 48300--48354 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
48290 TTTATGTTTA
*
48300 GTTTGTTTAACGTTTATAAATAT
1 GTTTGTTTAACGTTCATAAATAT
* ** *
48323 ATTCATTTAACGTTCATGAATAT
1 GTTTGTTTAACGTTCATAAATAT
48346 GTTTGTTTA
1 GTTTGTTTA
48355 TATACTCACG
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.51
Consensus pattern (23 bp):
GTTTGTTTAACGTTCATAAATAT
Found at i:48375 original size:25 final size:26
Alignment explanation
Indices: 48342--48396 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 26
48332 ACGTTCATGA
48342 ATATGTTTGTTTATATACTCACGAAC
1 ATATGTTTGTTTATATACTCACGAAC
* *
48368 ATAT-TTTGTTTATATGCTCACGAAG
1 ATATGTTTGTTTATATACTCACGAAC
48393 ATAT
1 ATAT
48397 CTATTTTCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (26 bp):
ATATGTTTGTTTATATACTCACGAAC
Found at i:60179 original size:2 final size:2
Alignment explanation
Indices: 60172--60196 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60162 TTTATTAATG
60172 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
60197 CTCTTGAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:71295 original size:87 final size:87
Alignment explanation
Indices: 71173--71350 Score: 329
Period size: 87 Copynumber: 2.0 Consensus size: 87
71163 CTGAGTTTAT
*
71173 TAACAAATTTTTAGATATATTAATGTTTTCAATTTTCTTACAAAATTTAACATATTAATTTTGTT
1 TAACAAATTTTTAGATATATTAATGTTTTCAATTTTCTTACAAAATTTAACATATTAATTTTCTT
71238 TTATCACTCAGCCGCTTTTCAC
66 TTATCACTCAGCCGCTTTTCAC
* *
71260 TAACAAATTTTTAGATATATTAATTTTTTCAATTTTCTTACAAAATTTAATATATTAATTTTCTT
1 TAACAAATTTTTAGATATATTAATGTTTTCAATTTTCTTACAAAATTTAACATATTAATTTTCTT
71325 TTATCACTCAGCCGCTTTTCAC
66 TTATCACTCAGCCGCTTTTCAC
71347 TAAC
1 TAAC
71351 GATGTTATAA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.33, C:0.15, G:0.04, T:0.48
Consensus pattern (87 bp):
TAACAAATTTTTAGATATATTAATGTTTTCAATTTTCTTACAAAATTTAACATATTAATTTTCTT
TTATCACTCAGCCGCTTTTCAC
Found at i:72914 original size:20 final size:20
Alignment explanation
Indices: 72881--72919 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
72871 AATAAAGCAA
**
72881 AATCAAAATCAAAACGAAAT
1 AATCAAAAAAAAAACGAAAT
*
72901 AATCAAAAAAAAAAGGAAA
1 AATCAAAAAAAAAACGAAA
72920 AACGAAAGAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.72, C:0.10, G:0.08, T:0.10
Consensus pattern (20 bp):
AATCAAAAAAAAAACGAAAT
Found at i:74543 original size:2 final size:2
Alignment explanation
Indices: 74536--74570 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
74526 ATGTGATAAA
74536 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
74571 TAAACCTATC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:79143 original size:31 final size:31
Alignment explanation
Indices: 79108--79179 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
79098 TCTAATTATG
79108 TTTGGTTTCAAAATCATGTCAAATATTAAGT
1 TTTGGTTTCAAAATCATGTCAAATATTAAGT
79139 TTTGGTTTCAAAATCATGTCAAATATTAAGT
1 TTTGGTTTCAAAATCATGTCAAATATTAAGT
79170 TTTGGTTTCA
1 TTTGGTTTCA
79180 TTTTGATCAC
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:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (31 bp):
TTTGGTTTCAAAATCATGTCAAATATTAAGT
Found at i:79810 original size:19 final size:17
Alignment explanation
Indices: 79786--79832 Score: 60
Period size: 16 Copynumber: 2.7 Consensus size: 17
79776 AAATACTTTT
*
79786 AAAAAATAATTTTTGAAGA
1 AAAAAATAATATTT-AA-A
79805 AAAAAAT-ATATTTAAA
1 AAAAAATAATATTTAAA
79821 AAAAAATAATAT
1 AAAAAATAATAT
79833 CTGACTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 8 0.31
17 6 0.23
18 5 0.19
19 7 0.27
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (17 bp):
AAAAAATAATATTTAAA
Found at i:90648 original size:31 final size:31
Alignment explanation
Indices: 90612--90670 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
90602 AACTTAAAAG
* *
90612 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
90643 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
90671 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:90721 original size:22 final size:22
Alignment explanation
Indices: 90695--90737 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
90685 TAATAAATTA
90695 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
90717 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
90738 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:90746 original size:22 final size:22
Alignment explanation
Indices: 90697--90745 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
90687 ATAAATTATT
**
90697 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
90719 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
90742 TAAA
1 TAAA
90746 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:90749 original size:54 final size:54
Alignment explanation
Indices: 90685--91091 Score: 333
Period size: 54 Copynumber: 7.6 Consensus size: 54
90675 ACAACTACAA
90685 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
90739 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** ** ** * * * **
90796 TTTTAAAACAAATCAATTCATACTC-ATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAAT-A-AATCAATCCATAT-TTTAAAATAAATCAATCCATAC
* **
90851 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATATATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * * ** * * *
90899 AAATAAATTATTTAAAATAAATTAATCTATACTAATAAATTATTTAAAATAAAGCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATAC
*
90958 T-AT--A-T-TTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
91007 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
91061 TAATAAATTATTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
91092 CAACTACAAT
Statistics
Matches: 278, Mismatches: 45, Indels: 60
0.73 0.12 0.16
Matches are distributed among these distances:
47 3 0.01
48 37 0.13
49 8 0.03
50 3 0.01
51 2 0.01
52 2 0.01
53 7 0.03
54 152 0.55
55 12 0.04
56 1 0.00
57 15 0.05
58 23 0.08
59 5 0.02
60 8 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:90790 original size:80 final size:80
Alignment explanation
Indices: 90700--91497 Score: 968
Period size: 80 Copynumber: 9.8 Consensus size: 80
90690 AATTATTTAA
90700 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
90765 CCATACAACTACAAT
66 CCATACAACTACAAT
* * *
90780 AATAAATCAATCCATATTTTAAAACAAATCAATTCATACTCATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
90845 CCATACAACTACAAT
66 CCATACAACTACAAT
** * *
90860 AATAAATCAATCCATATTTTAAAATAAATCAATATATACAAATAAATTATTTAAAATAAATTAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
90925 CTATACTAA-TAAATTATTT
66 CCATAC-AACTACA--A--T
* *
90944 AAAATAAAGCAATCTATATTTTAAAATAAATCAAT---T-C--AT--A-T-TTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
*
90999 ATCCATACTAA-TAAATTATTT
64 ATCCATAC-AACTACA--A--T
*
91020 AAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
91085 ATCCATACAACTACAAT
64 ATCCATACAACTACAAT
* * *
91102 AATAAATCAAACCATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
91167 CCATACTAA-TAAATTATTT
66 CCATAC-AACTACA--A--T
** **
91186 AAAATAAATCAATCCATATTTTAAAATATTAA--AATAAAT-C-AATCCA-TATTTTAAAATAAA
1 --AATAAATCAATCCATATTTTAAAATA--AATCAATCCATACTAATAAATTA-TTTAAAATAAA
*
91246 TCAATCCATACTAA-TAAATTATTT
61 TCAATCCATAC-AACTACA--A--T
* *
91270 AAAATAAATCAATTCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
91335 ATCCATACAACTACAAT
64 ATCCATACAACTACAAT
91352 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
91417 CCATACAACTACAAT
66 CCATACAACTACAAT
91432 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
91497 C
66 C
91498 TATATTTTAA
Statistics
Matches: 647, Mismatches: 37, Indels: 68
0.86 0.05 0.09
Matches are distributed among these distances:
76 65 0.10
77 1 0.00
78 1 0.00
79 1 0.00
80 361 0.56
81 4 0.01
82 9 0.01
83 3 0.00
84 76 0.12
85 7 0.01
86 115 0.18
87 2 0.00
88 2 0.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:90916 original size:14 final size:14
Alignment explanation
Indices: 90899--90951 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 14
90889 CAATATATAC
90899 AAATAAATTATTTA
1 AAATAAATTATTTA
90913 AAATAAATTAATCTATA
1 AAATAAATT-AT-T-TA
*
90930 CTAATAAATTATTTA
1 -AAATAAATTATTTA
90945 AAATAAA
1 AAATAAA
90952 GCAATCTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 15 0.45
15 4 0.12
16 2 0.06
17 4 0.12
18 8 0.24
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:90918 original size:32 final size:32
Alignment explanation
Indices: 90877--91198 Score: 138
Period size: 32 Copynumber: 9.5 Consensus size: 32
90867 CAATCCATAT
90877 TTTAAAATAAATCAATATATACAAATAAATTA
1 TTTAAAATAAATCAATATATACAAATAAATTA
* * *
90909 TTTAAAATAAATTAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATATATACAAATAAATTA
*
90941 TTTAAAATAAAGCAATCTATATTTTA-AAATAAATCAATTCATA
1 TTTAAAATAAATCAA--TATA---TACAAAT--A--AA-T--TA
** *
90984 TTTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATATATACAAATAAATTA
*
91017 TTTAAAATAAATCAATTCATATTTTA-AAATAAATCAA
1 TTTAAAATAAATCAA-T-ATA---TACAAATAAAT-TA
** * * * * *
91054 TCCATACT-AATAAATTATTTA-AAATAAATCAA
1 TTTAAAATAAATCAA-TATATACAAATAAAT-TA
* * * **
91086 TCCATACAACTACAAT-AATAAAT-CAAA-CCA-TA
1 T--TTA-AAATA-AATCAATATATACAAATAAATTA
*
91118 TTTTAAAATAAATCAATCTATACAAATAAATTA
1 -TTTAAAATAAATCAATATATACAAATAAATTA
** *
91151 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATATATACAAATAAATTA
91183 TTTAAAATAAATCAAT
1 TTTAAAATAAATCAAT
91199 CCATATTTTA
Statistics
Matches: 222, Mismatches: 37, Indels: 62
0.69 0.12 0.19
Matches are distributed among these distances:
29 3 0.01
30 9 0.04
31 6 0.03
32 119 0.54
33 6 0.03
34 6 0.03
35 12 0.05
36 21 0.09
37 12 0.05
38 2 0.01
39 2 0.01
40 5 0.02
41 1 0.00
42 2 0.01
43 2 0.01
44 14 0.06
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATATATACAAATAAATTA
Found at i:90966 original size:22 final size:23
Alignment explanation
Indices: 90941--91005 Score: 100
Period size: 22 Copynumber: 3.0 Consensus size: 23
90931 TAATAAATTA
*
90941 TTTAAAATAAAGCAATCT-ATAT
1 TTTAAAATAAATCAATCTCATAT
90963 TTTAAAATAAATCAAT-TCATAT
1 TTTAAAATAAATCAATCTCATAT
90985 TTTAAAATAAATCAATC-CATA
1 TTTAAAATAAATCAATCTCATA
91006 CTAATAAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
21 1 0.03
22 39 0.98
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.37
Consensus pattern (23 bp):
TTTAAAATAAATCAATCTCATAT
Found at i:90967 original size:134 final size:133
Alignment explanation
Indices: 90829--91565 Score: 553
Period size: 134 Copynumber: 5.5 Consensus size: 133
90819 TCATAAATTA
*
90829 TTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAATCCATATTTTAAAATAAATCAAT
1 TTTAAAATAAATCAATCCATACAA-TAAAATAAATAAATCAATCCATATTTTAAAATAAATCAAT
* * *
90893 ATATACAAATAAATTATTTAAAATAAATTAATCTATACTAATAAATTATTTAAAATAAAGCAATC
65 ATATAC-AATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC
90958 TATAT
129 TATAT
* *** * * *
90963 TTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
1 TTTAAAATAAATCAATCCATACAATAAAATAAATAAATCAAT-C-CAT--A-T-TTTAAAATAAA
91028 TC-A-AT-T-C-AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC
60 TCAATATATACAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC
* *
91084 AATCCATACAAC
125 AAT-C-TA-TAT
** * *** * * *
91096 TACAATAATAAATCAAACCATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAA
1 TTTAA-AATAAATCAATCCATACAATAAAATAAATAAATCAAT-C-CAT--A-T-TTTAAAATAA
** ** *
91161 ATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATA-TTAAAATAAA
59 ATCAATATATAC-AATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
*
91224 TCAATCCATAT
123 TCAATCTATAT
*
91235 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATAC-AATAAA--A--T-AAATAAATCAATCCATATTTTAAAATAAA
*
91300 TCAAT-TCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAA
60 TCAATAT-ATAC-AATAAATTATTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAA
*
91357 ATCAATCCATAT
122 ATCAATCTATAT
* *
91369 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA----CAACTACA
1 TTTAAAATAAATCAATCCATAC-AATAAA--A--T-AAATAAATCAATCCATATTTTAAAATA-A
* **
91430 AT-AATAAAT-CAATCCA-TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
59 ATCAATATATACAATAAATTA-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
91492 TCAATCTATAT
123 TCAATCTATAT
* * ** *
91503 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAT---TATTTTAAAATAAATCAA
1 TTTAAAATAAATCAATCCATAC-AATAAAATAAAT-AAATCAATCCATATTTTAAAATAAATCAA
91565 T
64 T
91566 CCATATTTTA
Statistics
Matches: 501, Mismatches: 56, Indels: 95
0.77 0.09 0.15
Matches are distributed among these distances:
127 4 0.01
128 29 0.06
129 5 0.01
130 66 0.13
131 12 0.02
132 4 0.01
133 9 0.02
134 202 0.40
135 2 0.00
136 4 0.01
137 3 0.01
138 70 0.14
139 14 0.03
140 17 0.03
141 2 0.00
142 18 0.04
143 9 0.02
144 31 0.06
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (133 bp):
TTTAAAATAAATCAATCCATACAATAAAATAAATAAATCAATCCATATTTTAAAATAAATCAATA
TATACAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTA
TAT
Found at i:91012 original size:108 final size:112
Alignment explanation
Indices: 90797--91496 Score: 343
Period size: 112 Copynumber: 6.1 Consensus size: 112
90787 CAATCCATAT
* * *
90797 TTTAAAACAAATCAATTCATACTCATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAGCAATCCATACAACTACAATAA
*
90862 TAAATCAATCCATATTTTAAAATAAATCAATATATACAAATAAATTA
66 TAAATCAATCCATATTTTAAAATAAATCAATACATACAAATAAATTA
* * * **
90909 TTTAAAATAAATTAA-TCTATACTAATAAATTATTTAAAATAAAGCAAT-C-TA-TATTTTAA-A
1 TTTAAAATAAATCAATTC-ATACTAATAAATTATTTAAAATAAAGCAATCCATACAACTACAATA
* * *
90969 ATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTA
65 ATAAATCAATCCATATTTTAAAATAAATCAATACATACAAATAAATTA
* *
91017 TTTAAAATAAATCAA-T--T-C--AT--A-T-TTTAAAATAAATCAATCCATACTAA-TAAATTA
1 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAGCAATCCATAC-AACTACA--A
* * * **
91071 TTTAAAATAAATCAATCCATA----CAACTACAAT-AATAAAT-CAAA-CCA-TA
63 --T--AATAAATCAATCCATATTTTAAAATA-AATCAATACATACAAATAAATTA
* * *
91118 TTTTAAAATAAATCAA-TCTATACAAATAAATTATTTAAAATAAATCAATCCATACTAA-TAAAT
1 -TTTAAAATAAATCAATTC-ATACTAATAAATTATTTAAAATAAAGCAATCCATAC-AACTACA-
* **
91181 TATTTAAAATAAATCAATCCATATTTTAAAATATTAA--AATAAAT-C-AATCCA-TA
62 -A--T--AATAAATCAATCCATATTTTAAAATA--AATCAATACATACAAATAAATTA
* * * *** *
91234 TTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATA-TTTTAAAATA
1 -TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAGCAATCCATACAACTACAAT-
* * * *
91298 AATCAATTC-ATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAA
64 AAT-AAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATACATACAAATA-AAT--T-A
* * * * * * *
91357 ATCAATCCATATTTTAAAAT-AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
1 TTTAA---A-A---T-AAATCAATTC-ATAC-TAAT-A-AAT-TATTTAAAATAAAGCAATCCAT
* *
91421 ACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
53 ACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATACATACAAATAAATTA
91481 TTTAAAATAAATCAAT
1 TTTAAAATAAATCAAT
91497 CTATATTTTA
Statistics
Matches: 465, Mismatches: 59, Indels: 123
0.72 0.09 0.19
Matches are distributed among these distances:
98 15 0.03
99 2 0.00
100 3 0.01
101 4 0.01
102 20 0.04
103 4 0.01
104 10 0.02
105 5 0.01
106 1 0.00
108 77 0.17
109 4 0.01
110 9 0.02
111 10 0.02
112 96 0.21
113 1 0.00
114 3 0.01
115 7 0.02
116 84 0.18
117 7 0.02
118 2 0.00
119 1 0.00
120 1 0.00
121 1 0.00
122 4 0.01
123 1 0.00
124 4 0.01
125 2 0.00
126 1 0.00
127 3 0.01
128 25 0.05
129 5 0.01
130 8 0.02
131 3 0.01
132 3 0.01
133 7 0.02
134 27 0.06
135 5 0.01
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (112 bp):
TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAGCAATCCATACAACTACAATAA
TAAATCAATCCATATTTTAAAATAAATCAATACATACAAATAAATTA
Found at i:91014 original size:22 final size:22
Alignment explanation
Indices: 90943--91013 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
90933 ATAAATTATT
* * **
90943 TAAAATAAAGCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
* **
90965 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
90987 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
91010 TAAA
1 TAAA
91014 TTATTTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 37 0.88
23 5 0.12
ACGTcount: A:0.54, C:0.11, G:0.01, T:0.34
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:91043 original size:22 final size:22
Alignment explanation
Indices: 91017--91059 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
91007 TAATAAATTA
*
91017 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
91039 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
91060 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:91068 original size:22 final size:22
Alignment explanation
Indices: 91019--91067 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
91009 ATAAATTATT
* **
91019 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
91041 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
91064 TAAA
1 TAAA
91068 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:91144 original size:18 final size:16
Alignment explanation
Indices: 91120--91199 Score: 60
Period size: 14 Copynumber: 5.0 Consensus size: 16
91110 AAACCATATT
91120 TTAAAATAAATCAATC
1 TTAAAATAAATCAATC
*
91136 TATACAAATAAAT-TAT-
1 T-TA-AAATAAATCAATC
91152 TTAAAATAAATCAATCC
1 TTAAAATAAATCAAT-C
* * *
91169 ATACTAATAAAT-TAT-
1 TTA-AAATAAATCAATC
91184 TTAAAATAAATCAATC
1 TTAAAATAAATCAATC
91200 CATATTTTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
14 15 0.31
15 8 0.17
16 2 0.04
17 8 0.17
18 15 0.31
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (16 bp):
TTAAAATAAATCAATC
Found at i:91171 original size:54 final size:54
Alignment explanation
Indices: 91102--91546 Score: 299
Period size: 54 Copynumber: 8.1 Consensus size: 54
91092 CAACTACAAT
*
91102 AATAAATCAAACCATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAA
* * * * * ** * ** **
91156 AATAAATCAATCCATA-CTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATATTAA
1 AATAAATCAATCCATATTTTA-AAATAAATCAATCTATA-CAA---ATAAATTATT----TAA
* *
91218 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAA
* *
91272 AATAAATCAATTCATATTTTAAAATAAATCAAT-TCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCT-ATACAAATAAATTATTTAA
* ** * ** *
91326 AATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTA-AAATAAATCAATCCAT
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAAT-C-TA---TACAAATAAAT-TATTTAA
* * * * *
91389 ACT-AATAAAT---TA-TTTAAAATAAATCAATCCATACAACTACA--A--T--
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAA
* *
91432 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAA
* *
91486 AATAAATCAATCTATATTTTAAAATAAATCAAT-TCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCT-ATACAAATAAATTATTTAA
91540 AATAAAT
1 AATAAAT
91547 TATTTTAAAA
Statistics
Matches: 303, Mismatches: 53, Indels: 70
0.71 0.12 0.16
Matches are distributed among these distances:
43 2 0.01
44 6 0.02
47 3 0.01
48 26 0.09
49 2 0.01
50 6 0.02
52 2 0.01
53 3 0.01
54 163 0.54
55 6 0.02
56 1 0.00
57 4 0.01
58 23 0.08
59 1 0.00
60 1 0.00
61 3 0.01
62 42 0.14
63 9 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAA
Found at i:91240 original size:22 final size:22
Alignment explanation
Indices: 91214--91255 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
91204 TTTTAAAATA
91214 TTAAAATAAATCAATCCATATT
1 TTAAAATAAATCAATCCATATT
91236 TTAAAATAAATCAATCCATA
1 TTAAAATAAATCAATCCATA
91256 CTAATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
TTAAAATAAATCAATCCATATT
Found at i:91264 original size:22 final size:22
Alignment explanation
Indices: 91215--91263 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
91205 TTTAAAATAT
**
91215 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
91237 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
91260 TAAA
1 TAAA
91264 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:91293 original size:22 final size:22
Alignment explanation
Indices: 91267--91309 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
91257 TAATAAATTA
91267 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATTCATAT
91289 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATTCATA
91310 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATTCATAT
Found at i:91315 original size:18 final size:18
Alignment explanation
Indices: 91240--91318 Score: 58
Period size: 22 Copynumber: 4.4 Consensus size: 18
91230 CATATTTTAA
*
91240 AATAAATCAATCCATACT
1 AATAAATCAATTCATACT
* *
91258 AATAAAT-TATT--TA-A
1 AATAAATCAATTCATACT
*
91272 AATAAATCAATTCATATTTT
1 AATAAATCAATTCATA--CT
91292 AAAATAAATCAATTCATACT
1 --AATAAATCAATTCATACT
91312 AATAAAT
1 AATAAAT
91319 TATTTAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 16
0.68 0.09 0.23
Matches are distributed among these distances:
14 7 0.15
15 5 0.11
17 4 0.09
18 14 0.30
20 1 0.02
22 16 0.34
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.35
Consensus pattern (18 bp):
AATAAATCAATTCATACT
Found at i:91318 original size:22 final size:22
Alignment explanation
Indices: 91269--91317 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
91259 ATAAATTATT
**
91269 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATTCATATAA
91291 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATTCATA-TAA
91314 TAAA
1 TAAA
91318 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAATAAATCAATTCATATAA
Found at i:91398 original size:22 final size:23
Alignment explanation
Indices: 91323--91397 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
91313 ATAAATTATT
91323 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
91345 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
91371 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
91394 TAAA
1 TAAA
91398 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:91478 original size:22 final size:23
Alignment explanation
Indices: 91403--91477 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
91393 ATAAATTATT
91403 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
91425 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
91451 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
91474 TAAA
1 TAAA
91478 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:91555 original size:15 final size:15
Alignment explanation
Indices: 91526--91673 Score: 190
Period size: 15 Copynumber: 9.5 Consensus size: 15
91516 AATTCATACT
91526 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
91540 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
91555 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
91577 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
91592 AGTAAATTATTTTAA
1 AATAAATTATTTTAA
91607 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
91622 AATAAATTATTTTAT
1 AATAAATTATTTTAA
91637 AATAAATTATTTTAA
1 AATAAATTATTTTAA
91652 AATAAATTATTTTAA
1 AATAAATTATTTTAA
91667 AATAAAT
1 AATAAAT
91674 AACCTTATTA
Statistics
Matches: 118, Mismatches: 8, Indels: 15
0.84 0.06 0.11
Matches are distributed among these distances:
14 9 0.08
15 92 0.78
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
22 10 0.08
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:91572 original size:69 final size:67
Alignment explanation
Indices: 91472--91628 Score: 212
Period size: 67 Copynumber: 2.3 Consensus size: 67
91462 AATCCATACT
*
91472 AATAAATTA-TTTAAAATAAATCAATCTATATTTTAAAATAAATCAATTCATACTAA-TAAATTA
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAAT-AATCAATT-ATA--AAGTAAATTA
91535 -TTTAA
62 TTTTAA
* ** *
91540 AATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTTAAAGTAAATTATTTT
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAATCAATTATAAAGTAAATTATTTT
91605 AA
66 AA
91607 AATAAATTATTTTAAAATAAAT
1 AATAAATTATTTTAAAATAAAT
91629 TATTTTATAA
Statistics
Matches: 81, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
65 2 0.02
66 7 0.09
67 29 0.36
68 15 0.19
69 28 0.35
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.43
Consensus pattern (67 bp):
AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAATCAATTATAAAGTAAATTATTTT
AA
Found at i:91585 original size:47 final size:49
Alignment explanation
Indices: 91394--91658 Score: 178
Period size: 47 Copynumber: 5.4 Consensus size: 49
91384 TCCATACTAA
** *
91394 TAAATTA-TTTAAAATAAATCAATCCATAC-AACTACAATAATAAATCAA-
1 TAAATTATTTTAAAATAAATCAATCCATACTAA-TA-AATAATTTATAAAG
** *
91442 TCCA-TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA-
1 TAAATTATTTTAAAATAAATCAATCCATACTAATAAATAATTT---ATAAAG
* * *
91492 TCAATCTATATTTTAAAATAAATCAATTCATACTAATAAATTATTTA-AAA-
1 T-AA-AT-TATTTTAAAATAAATCAATCCATACTAATAAATAATTTATAAAG
**
91542 TAAATTATTTTAAAATAAATCAATCCATA-TTTTATAATAATTTATTTTAAAG
1 TAAATTATTTTAAAATAAATCAATCCATACTAATA-AATAATTTA---TAAAG
* ** * *
91594 TAAATTATTTTAAAATAAAT-TAT-TTTA-AAATAAATTATTT-TATAA-
1 TAAATTATTTTAAAATAAATCAATCCATACTAATAAATAATTTATA-AAG
91639 TAAATTATTTTAAAATAAAT
1 TAAATTATTTTAAAATAAAT
91659 TATTTTAAAA
Statistics
Matches: 179, Mismatches: 22, Indels: 35
0.76 0.09 0.15
Matches are distributed among these distances:
45 22 0.12
46 5 0.03
47 38 0.21
48 27 0.15
49 11 0.06
50 13 0.07
51 6 0.03
52 20 0.11
54 37 0.21
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.40
Consensus pattern (49 bp):
TAAATTATTTTAAAATAAATCAATCCATACTAATAAATAATTTATAAAG
Found at i:91585 original size:101 final size:97
Alignment explanation
Indices: 91446--91658 Score: 243
Period size: 101 Copynumber: 2.2 Consensus size: 97
91436 AATCAATCCA
* *
91446 TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA-TCAATCTATATTTTAAAA
1 TATTTTAAAATAAATCAATCCATACTAATAAATAATTTAAAATAAAGT-AA-AT-TATTTTAAAA
*
91510 TAAATCAATTCATACTAATAAATTA-TTTAAAATAAAT
63 TAAAT-AATT-ATA-AAATAAATTATTTTAAAATAAAT
** ***
91547 TATTTTAAAATAAATCAATCCATA-TTTTATAATAATTTATTTTAAAGTAAATTATTTTAAAATA
1 TATTTTAAAATAAATCAATCCATACTAATA-AATAATTTAAAATAAAGTAAATTATTTTAAAATA
* * *
91611 AATTATTTTAAAATAAATTATTTTATAATAAAT
65 AATAATTATAAAATAAATTATTTTAAAATAAAT
91644 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
91659 TATTTTAAAA
Statistics
Matches: 98, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
96 9 0.09
97 28 0.29
98 3 0.03
99 15 0.15
100 4 0.04
101 38 0.39
102 1 0.01
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (97 bp):
TATTTTAAAATAAATCAATCCATACTAATAAATAATTTAAAATAAAGTAAATTATTTTAAAATAA
ATAATTATAAAATAAATTATTTTAAAATAAAT
Found at i:97429 original size:2 final size:2
Alignment explanation
Indices: 97418--97449 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
97408 TTGAGTCAAT
97418 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
97450 TACATATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:101218 original size:21 final size:20
Alignment explanation
Indices: 101185--101225 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
101175 TACATATCAC
101185 ATATAAGAAAATATAAATATT
1 ATATAAGAAAATA-AAATATT
* *
101206 ATATATGATAATAAAATATT
1 ATATAAGAAAATAAAATATT
101226 GTTTAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (20 bp):
ATATAAGAAAATAAAATATT
Found at i:101397 original size:24 final size:23
Alignment explanation
Indices: 101361--101418 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
101351 TTTTTTATGT
* *
101361 TTTTTTATTAATGATTTAATTTTA
1 TTTTTTA-AAATGATTTAATTTAA
* *
101385 TATTTTTAAAATGTTTTACTTTAA
1 T-TTTTTAAAATGATTTAATTTAA
101409 TTTTTTAAAA
1 TTTTTTAAAA
101419 GGTAAAAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 9 0.31
24 14 0.48
25 6 0.21
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (23 bp):
TTTTTTAAAATGATTTAATTTAA
Found at i:105161 original size:23 final size:23
Alignment explanation
Indices: 105126--105179 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
105116 TAAAATCTAT
* *
105126 TTCGTTTATGTTCATTTATTGTG
1 TTCGTTTACGTTCATTTATTATG
* *
105149 TTCGTTTGCGTTCGTTTATTATG
1 TTCGTTTACGTTCATTTATTATG
105172 TTCGTTTA
1 TTCGTTTA
105180 TCATTTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.11, C:0.11, G:0.19, T:0.59
Consensus pattern (23 bp):
TTCGTTTACGTTCATTTATTATG
Found at i:116025 original size:53 final size:53
Alignment explanation
Indices: 115945--116052 Score: 135
Period size: 53 Copynumber: 2.0 Consensus size: 53
115935 TTAGAGGTAG
** * ** * *
115945 GTAGAGGTGTTATCTATACACTATAGCTGGCTCTGAGGCTATAATACTCGTAT
1 GTAGAGGTCATATCTATACAATATAGCTGGCTAGGAGGCTATAACACTCGAAT
* *
115998 GTAGAGGTCATATCTATGCAATATAGCTGGCTAGGAGGTTATAACACTCGAAT
1 GTAGAGGTCATATCTATACAATATAGCTGGCTAGGAGGCTATAACACTCGAAT
116051 GT
1 GT
116053 CCAGAGGATA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (53 bp):
GTAGAGGTCATATCTATACAATATAGCTGGCTAGGAGGCTATAACACTCGAAT
Found at i:118371 original size:14 final size:15
Alignment explanation
Indices: 118337--118375 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
118327 ATATATATTT
*
118337 AAAAATCAATTGATTG
1 AAAAAT-AATTGATAG
118353 AAAAATAATT-ATAG
1 AAAAATAATTGATAG
118367 AAAAATAAT
1 AAAAATAAT
118376 AAATAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.55
15 4 0.18
16 6 0.27
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.28
Consensus pattern (15 bp):
AAAAATAATTGATAG
Found at i:120110 original size:2 final size:2
Alignment explanation
Indices: 120103--120132 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
120093 GTGGATCCTA
120103 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
120133 GACAGATGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:134424 original size:3 final size:3
Alignment explanation
Indices: 134416--134448 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
134406 AATTCCATAT
134416 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
134449 ATCTAAGGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:153180 original size:20 final size:20
Alignment explanation
Indices: 153141--153180 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
153131 GAGGATGAGG
*
153141 GGAAGAAAGAAAAGGGAAAA
1 GGAAGAAAGAAAAGGAAAAA
*
153161 GGAAGAAAGTAAAGGAAAAA
1 GGAAGAAAGAAAAGGAAAAA
153181 AAGAAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.03
Consensus pattern (20 bp):
GGAAGAAAGAAAAGGAAAAA
Found at i:153787 original size:34 final size:34
Alignment explanation
Indices: 153744--153846 Score: 188
Period size: 34 Copynumber: 3.0 Consensus size: 34
153734 GGACGGATTA
* *
153744 GGTCTCGAATGGAGGATTCCTTGATTTCTGGTCG
1 GGTCTCGAATGAAGGATTCCTTGATTTCGGGTCG
153778 GGTCTCGAATGAAGGATTCCTTGATTTCGGGTCG
1 GGTCTCGAATGAAGGATTCCTTGATTTCGGGTCG
153812 GGTCTCGAATGAAGGATTCCTTGATTTCGGGTCG
1 GGTCTCGAATGAAGGATTCCTTGATTTCGGGTCG
153846 G
1 G
153847 ATCGAGTGGA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (34 bp):
GGTCTCGAATGAAGGATTCCTTGATTTCGGGTCG
Found at i:169565 original size:125 final size:123
Alignment explanation
Indices: 169246--169548 Score: 455
Period size: 123 Copynumber: 2.4 Consensus size: 123
169236 AAGTTGTGAT
* * * *
169246 ATGTTGGGGCGCGACTGAACCCACATCATGTTGAGAAGACAAGATTCAGACCAAGGAGGTATTAA
1 ATGTTGGGGCGAGACTGAACCCACGTCATGTTGAGATGAAAAGATTCAGACCAAGGAGGTATTAA
* * *
169311 GAATGAGCCTTACAATTTGAGGTGTTGGGGCATTTGATGCCCGTACCAGTATAAGATA
66 GAATGAGCCTCACAATTTGAGGTGATGGGGCATTTGAGGCCCGTACCAGTATAAGATA
* *
169369 ATGTTGGGGC-ATGACTGAACCCACGTCATGTTGAGATGAAAAGATTCAGACCAAGGAGGCATAA
1 ATGTTGGGGCGA-GACTGAACCCACGTCATGTTGAGATGAAAAGATTCAGACCAAGGAGGTATTA
* *
169433 AGAATGAGCCTCACAATTTGAGGTGATGGGGCATTTTGAAGGCCCTTACCAGTGTAAGATA
65 AGAATGAGCCTCACAATTTGAGGTGATGGGGCA-TTTG-AGGCCCGTACCAGTATAAGATA
**
169494 ATGTTGGGGCGAGACCAAACCCACGTCATGTTGAGATGAAAAGATTCAGACCAAG
1 ATGTTGGGGCGAGACTGAACCCACGTCATGTTGAGATGAAAAGATTCAGACCAAG
169549 AAATTATTGA
Statistics
Matches: 163, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
123 88 0.54
124 4 0.02
125 70 0.43
126 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (123 bp):
ATGTTGGGGCGAGACTGAACCCACGTCATGTTGAGATGAAAAGATTCAGACCAAGGAGGTATTAA
GAATGAGCCTCACAATTTGAGGTGATGGGGCATTTGAGGCCCGTACCAGTATAAGATA
Found at i:170315 original size:36 final size:36
Alignment explanation
Indices: 170275--170429 Score: 231
Period size: 36 Copynumber: 4.3 Consensus size: 36
170265 AGTCAATCCT
170275 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
* *
170311 AAGCCTTCACCGGAGAATAGTGAAGCAATCAATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
170347 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCAT-
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATC-TG
* * * *
170383 AAGTCTTCACCAGAGAGTAGTGAAGCAAACCATCTT
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
*
170419 AAGTCTTCACC
1 AAGCCTTCACC
170430 AAAAAGTAGT
Statistics
Matches: 110, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
35 1 0.01
36 108 0.98
37 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (36 bp):
AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
Found at i:170909 original size:51 final size:51
Alignment explanation
Indices: 170844--171192 Score: 368
Period size: 51 Copynumber: 6.8 Consensus size: 51
170834 GAAGATTATT
170844 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTATGAAGATGTC
1 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTATGAAGATGTC
* * *
170895 TGAGTTCCCTACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATC
1 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTATGAAGATGTC
* * * * *
170946 CGAGTTCCATACTCCTTA-ATGAAAGAAGGAGCGAACCCGTTTGAAGATATC
1 TGAGTTCCATACTCCCTAGA-GAAAGAGGGAGCGAACCCGTATGAAGATGTC
* * * *
170997 CGAGTTCCATACTCCTTA-ATGAAAGAAGGAGCGAACCCGTTTGAAGATGT-
1 TGAGTTCCATACTCCCTAGA-GAAAGAGGGAGCGAACCCGTATGAAGATGTC
* ** * * ** * * *
171047 TCGAGTTCTATACTCTTTAAAGAGAGAATGAGCGAACCCGTAAGAAGAAGATTTT
1 T-GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT---ATGAAGATGTC
*
171102 TGAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAACCCAGT-TGAAGATGT-
1 TGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCC-GTATGAAGATGTC
171152 TCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT
1 T-GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT
171193 GAAGAGACCA
Statistics
Matches: 261, Mismatches: 26, Indels: 23
0.84 0.08 0.07
Matches are distributed among these distances:
50 4 0.02
51 215 0.82
52 2 0.01
54 37 0.14
55 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (51 bp):
TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTATGAAGATGTC
Found at i:171323 original size:20 final size:20
Alignment explanation
Indices: 171300--171351 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
171290 AACGCGATCC
171300 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
171320 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
171340 CCAAAATCGCAA
1 CCAGAATCGCAA
171352 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:171368 original size:21 final size:20
Alignment explanation
Indices: 171342--171439 Score: 65
Period size: 21 Copynumber: 4.8 Consensus size: 20
171332 ATCAGTTTCC
171342 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTG
* * **
171363 AAAATCGCGATGCGATAGT-
1 AAAATCGCAACGCGATTTTG
**
171382 ACAAATTCGCATTGCGATTTT-
1 A-AAA-TCGCAACGCGATTTTG
* *
171403 ACATAATCGCAACGCGAATATG
1 A-A-AATCGCAACGCGATTTTG
171425 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
171440 ACACATAAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
19 1 0.02
20 17 0.28
21 40 0.66
22 3 0.05
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTG
Found at i:171501 original size:20 final size:20
Alignment explanation
Indices: 171407--171815 Score: 486
Period size: 20 Copynumber: 20.4 Consensus size: 20
171397 GATTTTACAT
* ** *
171407 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
171427 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
171447 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
171467 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
171487 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
171507 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
171527 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
171547 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
171567 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
171587 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
171607 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
171627 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
171647 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
171667 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
171687 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
171707 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
171727 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
171747 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
171767 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
171787 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
171807 AATCACAAC
1 AATCGCAAC
171816 ACTGAAATTT
Statistics
Matches: 337, Mismatches: 42, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
19 3 0.01
20 331 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:172541 original size:24 final size:24
Alignment explanation
Indices: 172497--172543 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
172487 AAATTTGGTC
*
172497 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCAGACTTTGATA
*
172521 TTGGTCAATA-CACAGATTTTGAT
1 TTGGTCAATATC-CAGACTTTGAT
172544 GATGTTTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCAGACTTTGATA
Found at i:172735 original size:12 final size:12
Alignment explanation
Indices: 172718--172742 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
172708 ATATAATCCT
172718 GAAGAAGAAAAA
1 GAAGAAGAAAAA
172730 GAAGAAGAAAAA
1 GAAGAAGAAAAA
172742 G
1 G
172743 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:175043 original size:19 final size:19
Alignment explanation
Indices: 175021--175327 Score: 385
Period size: 19 Copynumber: 17.4 Consensus size: 19
175011 CGGAAAATAC
*
175021 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
175040 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
175054 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
175074 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
175088 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
175107 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
175126 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
175140 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
175159 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
175178 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
175192 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
175211 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
175230 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
175249 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
175268 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
175282 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
175301 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
175320 AATCGCAA
1 AATCGCAA
175328 CGAGATAATC
Statistics
Matches: 254, Mismatches: 8, Indels: 52
0.81 0.03 0.17
Matches are distributed among these distances:
14 49 0.19
15 2 0.01
16 16 0.06
17 14 0.06
18 3 0.01
19 157 0.62
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:175108 original size:33 final size:36
Alignment explanation
Indices: 175021--175349 Score: 344
Period size: 33 Copynumber: 9.4 Consensus size: 36
175011 CGGAAAATAC
* *
175021 AATCGCAACGCGAAATGAAAATCCCAA-C--ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAAGCGAATGAA
*
175054 AATCGCAATGCGGAAATGAAAATCGCAA-CG-A-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAAGCGAATGAA
175088 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAA
175126 AATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAA
175159 AATCGCAATGCGAAATGAAAATCGCAA-CGACA-G--
1 AATCGCAATGCGAAATGAAAATCGCAAGCGA-ATGAA
*
175192 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAA
175230 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAA
175268 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAA
*
175301 AATCGCAATGCGAAATGAAAATCGCAA-CG-A-GAT
1 AATCGCAATGCGAAATGAAAATCGCAAGCGAATGAA
175334 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
175350 TATAAACGCA
Statistics
Matches: 265, Mismatches: 7, Indels: 48
0.83 0.02 0.15
Matches are distributed among these distances:
33 127 0.48
34 31 0.12
35 16 0.06
36 15 0.06
37 2 0.01
38 74 0.28
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (36 bp):
AATCGCAATGCGAAATGAAAATCGCAAGCGAATGAA
Found at i:175136 original size:52 final size:52
Alignment explanation
Indices: 175049--175327 Score: 388
Period size: 52 Copynumber: 5.2 Consensus size: 52
175039 AAATCCCAAC
*
175049 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAAAATCGCAATGCGAA
175102 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAA
* *
175154 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAA
*
175206 ATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAA
175263 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAA
175315 ATGAAAATCGCAA
1 ATGAAAATCGCAA
175328 CGAGATAATC
Statistics
Matches: 214, Mismatches: 7, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
52 162 0.76
53 16 0.07
54 3 0.01
55 5 0.02
56 1 0.00
57 27 0.13
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAA
Found at i:175172 original size:71 final size:70
Alignment explanation
Indices: 175088--175327 Score: 364
Period size: 71 Copynumber: 3.4 Consensus size: 70
175078 GCAACGAGAG
175088 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGA-AAAATCGCAATGCGA
175153 AATGAA
65 AATGAA
*
175159 AATCGCAATGCGAAATGAAAATCGCAA--CGACA-G--AATCGCAATGCGAAATTAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A--AAAATCGCAA
175219 TGCGAAATGAA
60 TGCGAAATGAA
175230 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAA-AATCGCAATGCGA
175295 AATGAA
65 AATGAA
175301 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
175328 CGAGATAATC
Statistics
Matches: 155, Mismatches: 3, Indels: 22
0.86 0.02 0.12
Matches are distributed among these distances:
66 8 0.05
68 3 0.02
69 4 0.03
70 3 0.02
71 121 0.78
72 1 0.01
73 4 0.03
74 3 0.02
76 8 0.05
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (70 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAAATCGCAATGCGAA
ATGAA
Found at i:175328 original size:52 final size:55
Alignment explanation
Indices: 175021--175349 Score: 341
Period size: 52 Copynumber: 6.3 Consensus size: 55
175011 CGGAAAATAC
* *
175021 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GC-GAAATG-A
*
175074 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
175126 AATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
* *
175178 AATCGCAA--CGACA-G--AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
175230 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAAA-G-
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
*
175282 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAT--
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
175334 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
175350 TATAAACGCA
Statistics
Matches: 256, Mismatches: 7, Indels: 27
0.88 0.02 0.09
Matches are distributed among these distances:
48 9 0.04
49 1 0.00
50 1 0.00
51 2 0.01
52 180 0.70
53 24 0.09
54 7 0.03
55 6 0.02
57 26 0.10
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (55 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
Found at i:175365 original size:71 final size:70
Alignment explanation
Indices: 175021--175365 Score: 358
Period size: 71 Copynumber: 4.9 Consensus size: 70
175011 CGGAAAATAC
* *
175021 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAA--C
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAAAATCGCAATGC-GAAAT-AAAA-CGCAATGC
*
175083 G--A-GAG
63 GAAATGAA
* *
175088 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAGA-AAATCGCAATG
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAAAATCGCAATGCGAAATAAAACGCAATG
175150 CGAAATGAA
62 CGAAATGAA
* *
175159 AATCGCAATGCGAAATGAAAATCGCAACGA-CAGAATCGCAATGCGAAATTAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAAAATCGCAATGCGAAA-TAAAA-CGCAATGCG
175223 AAATGAA
64 AAATGAA
* *
175230 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAAA-GAATCGCAATG
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAAAATCGCAATGCGAAATAAAACGCAATG
175292 CGAAATGAA
62 CGAAATGAA
* *
175301 AATCGCAATGCGAAATGAAAATCGCAACGA-GATAATCGCAATGCGAAATTATAAACGCATTGCG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAAAATCGCAATGCGAAA-TA-AAACGCAATGCG
175365 A
64 A
175366 TTTTCATTTC
Statistics
Matches: 236, Mismatches: 17, Indels: 46
0.79 0.06 0.15
Matches are distributed among these distances:
66 24 0.10
67 30 0.13
68 11 0.05
69 8 0.03
70 5 0.02
71 126 0.53
72 15 0.06
73 2 0.01
74 5 0.02
75 1 0.00
76 9 0.04
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (70 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAAAATCGCAATGCGAAATAAAACGCAATGCGAA
ATGAA
Found at i:175465 original size:19 final size:19
Alignment explanation
Indices: 175356--175457 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
175346 AAATTATAAA
175356 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
175375 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
175395 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
175411 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
175428 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
175447 CGCATTGCGAT
1 CGCATTGCGAT
175458 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:175583 original size:14 final size:14
Alignment explanation
Indices: 175564--175600 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
175554 CATCAATTAC
175564 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
175578 ACAAATCATCTTTT
1 ACAAATCAACTTTT
175592 ACAAATCAA
1 ACAAATCAA
175601 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:176694 original size:14 final size:14
Alignment explanation
Indices: 176675--176731 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
176665 GCGAAATGAA
*
176675 AATCGCAACGACAG
1 AATCGCAACGAAAG
176689 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
176706 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
176722 AATCGCAACG
1 AATCGCAACG
176732 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:176702 original size:33 final size:33
Alignment explanation
Indices: 176656--176748 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
176646 GCGAAACCAA
*
176656 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
176689 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
176722 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
176749 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:176713 original size:19 final size:19
Alignment explanation
Indices: 176619--176753 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
176609 TAGTTTACTT
* *
176619 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
176639 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
176658 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
176677 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
176691 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
176710 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
176724 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
176743 TCGCAATGCGA
1 TCGCAACGCGA
176754 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:176771 original size:19 final size:19
Alignment explanation
Indices: 176749--176877 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
176739 AAAATCGCAA
176749 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
176768 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
176782 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
176801 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
176815 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
176834 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
176853 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
176873 TGCGA
1 TGCGA
176878 AAGTAAAACT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:176791 original size:33 final size:33
Alignment explanation
Indices: 176749--176840 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
176739 AAAATCGCAA
176749 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
176782 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
176815 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
176841 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:177212 original size:92 final size:93
Alignment explanation
Indices: 176922--177299 Score: 726
Period size: 93 Copynumber: 4.1 Consensus size: 93
176912 TTGAATGGAT
176922 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
176987 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
177015 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
177080 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
177108 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
177172 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
177200 AAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTA-TTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
177263 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
177291 AAATTTACT
1 AAATTTACT
177300 AAGCAATCTA
Statistics
Matches: 283, Mismatches: 1, Indels: 4
0.98 0.00 0.01
Matches are distributed among these distances:
91 73 0.26
92 78 0.28
93 132 0.47
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:179023 original size:14 final size:14
Alignment explanation
Indices: 179004--179093 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
178994 TTGAAATGAA
179004 AATCGCAACGAGAG
1 AATCGCAACGAGAG
179018 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
179035 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
179051 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
179070 AATCGCAACGAGAG
1 AATCGCAACGAGAG
179084 AATCGCAACG
1 AATCGCAACG
179094 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:179041 original size:33 final size:33
Alignment explanation
Indices: 178996--179110 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
178986 TCTTTTGGTT
178996 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
179029 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
179062 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
179095 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
179111 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:179042 original size:19 final size:18
Alignment explanation
Indices: 179003--179115 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
178993 GTTGAAATGA
179003 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
179018 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
179035 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
179051 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
179068 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
179084 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
179101 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
179116 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:179146 original size:14 final size:14
Alignment explanation
Indices: 179127--179181 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
179117 TTTGGTTTCG
179127 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
179141 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
179160 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
179174 CGTTGCGA
1 CGTTGCGA
179182 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:179159 original size:33 final size:33
Alignment explanation
Indices: 179111--179181 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
179101 AAAATCGCAA
**
179111 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
179144 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
179177 TGCGA
1 TGCGA
179182 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:179189 original size:33 final size:33
Alignment explanation
Indices: 179122--179203 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
179112 GCGATTTTGG
***
179122 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
179155 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
179188 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
179204 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:179208 original size:20 final size:20
Alignment explanation
Indices: 179134--179222 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
179124 TCGCGTTGCG
179134 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
179154 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
179167 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
179187 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
179207 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
179223 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:179344 original size:32 final size:32
Alignment explanation
Indices: 179305--179373 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
179295 ACTAACTTGA
*
179305 AAATCGCAACGAGAGAATAGCAACGCGAAATG
1 AAATCGCAACGACAGAATAGCAACGCGAAATG
* *
179337 AAATCGCAACGACAGAATCGTAACGCGAAATG
1 AAATCGCAACGACAGAATAGCAACGCGAAATG
179369 AAATC
1 AAATC
179374 TAAGTGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (32 bp):
AAATCGCAACGACAGAATAGCAACGCGAAATG
Found at i:179347 original size:18 final size:18
Alignment explanation
Indices: 179324--179373 Score: 54
Period size: 16 Copynumber: 3.0 Consensus size: 18
179314 CGAGAGAATA
179324 GCAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
*
179342 GCAA--CGACA-G-AATC
1 GCAACGCGAAATGAAATC
*
179356 GTAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
179374 TAAGTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
14 7 0.28
15 1 0.04
16 8 0.32
17 1 0.04
18 8 0.32
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (18 bp):
GCAACGCGAAATGAAATC
Found at i:179604 original size:22 final size:22
Alignment explanation
Indices: 179552--179606 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
179542 TGGTTGTGAG
**
179552 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
179574 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
179596 GGATTTCTTCG
1 GGATTTCTTCG
179607 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:179777 original size:20 final size:20
Alignment explanation
Indices: 179752--179944 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
179742 CTTTAAATAT
179752 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
179772 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
179794 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
179813 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
179833 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
179853 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
179873 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
179893 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
179913 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
179933 CGCGTTGCGATT
1 CGCGTTGCGATT
179945 ATTGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:179939 original size:60 final size:60
Alignment explanation
Indices: 179752--179944 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
179742 CTTTAAATAT
**
179752 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
179813 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
179873 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
179933 CGCGTTGCGATT
1 CGCGTTGCGATT
179945 ATTGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:180025 original size:20 final size:20
Alignment explanation
Indices: 180000--180051 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
179990 AAGAATCGCG
*
180000 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
180020 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
180040 TTGCGATTCTGG
1 TTGCGATTCTGG
180052 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:195429 original size:90 final size:90
Alignment explanation
Indices: 195276--195465 Score: 353
Period size: 90 Copynumber: 2.1 Consensus size: 90
195266 ATATTTATTT
*
195276 TCCACATTTAACCTATTTAGTGATGTAAGAGTATAAGATTATATCACATGACACAATCTTAGAGT
1 TCCACATTTAACCTATTTAGTGATGTAAGACTATAAGATTATATCACATGACACAATCTTAGAGT
195341 ACCAAGACATCAAAATGAACAAAAA
66 ACCAAGACATCAAAATGAACAAAAA
*
195366 TCCACATTTAACCTCTTTAGTGATGTAAGACTATAAGATTATATCACATGACACAATCTTAGAGT
1 TCCACATTTAACCTATTTAGTGATGTAAGACTATAAGATTATATCACATGACACAATCTTAGAGT
195431 ACCAAGACATCAAAATGAACAAAAA
66 ACCAAGACATCAAAATGAACAAAAA
*
195456 TCCAAATTTA
1 TCCACATTTA
195466 GGGACTAATA
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 97 1.00
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (90 bp):
TCCACATTTAACCTATTTAGTGATGTAAGACTATAAGATTATATCACATGACACAATCTTAGAGT
ACCAAGACATCAAAATGAACAAAAA
Found at i:197759 original size:30 final size:30
Alignment explanation
Indices: 197725--197804 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
197715 ATTTAGTCAC
***
197725 TCAATTTTAATTTTATTTCTGTTTGATTAT
1 TCAATTTTAATTTTATTTAAATTTGATTAT
* * *
197755 TCAATCTTAATTTTTTTTAAATTTTATTAT
1 TCAATTTTAATTTTATTTAAATTTGATTAT
*
197785 TCAAATTTTTATTTTTATTT
1 TC-AA-TTTTAATTTTATTT
197805 TCTTCACCTA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
30 26 0.67
31 2 0.05
32 11 0.28
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (30 bp):
TCAATTTTAATTTTATTTAAATTTGATTAT
Found at i:200043 original size:16 final size:16
Alignment explanation
Indices: 199993--200043 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
199983 TTATAAAGTA
*
199993 TAAATCATATATATTT
1 TAAATAATATATATTT
* *
200009 TAGATGAAAATA-ATTT
1 TAAAT-AATATATATTT
*
200025 TAAATAATATATATAT
1 TAAATAATATATATTT
200041 TAA
1 TAA
200044 TTCTAAAGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
15 5 0.19
16 18 0.67
17 4 0.15
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (16 bp):
TAAATAATATATATTT
Found at i:201135 original size:10 final size:10
Alignment explanation
Indices: 201122--201149 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
201112 CTATACAAAG
201122 TCATCTGAGA
1 TCATCTGAGA
201132 TCATCTGAGA
1 TCATCTGAGA
201142 TCATCTGA
1 TCATCTGA
201150 TCAATAGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (10 bp):
TCATCTGAGA
Found at i:213683 original size:21 final size:21
Alignment explanation
Indices: 213659--213698 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
213649 CCCAAACCCG
* *
213659 ACCCATTTAAACCCGAATTCA
1 ACCCACTTAAACCCAAATTCA
*
213680 ACCCACTTAACCCCAAATT
1 ACCCACTTAAACCCAAATT
213699 GGCCTCTTGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.38, G:0.03, T:0.23
Consensus pattern (21 bp):
ACCCACTTAAACCCAAATTCA
Found at i:214642 original size:20 final size:20
Alignment explanation
Indices: 214617--214656 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
214607 ATTGTTTGTT
*
214617 TCTCACGTCTAAATGATTCA
1 TCTCACATCTAAATGATTCA
*
214637 TCTCACATCTGAATGATTCA
1 TCTCACATCTAAATGATTCA
214657 GTGTTGATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (20 bp):
TCTCACATCTAAATGATTCA
Found at i:220597 original size:21 final size:21
Alignment explanation
Indices: 220571--220610 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
220561 GCAATACAAG
220571 TTCCAAAATCACAACGCGATT
1 TTCCAAAATCACAACGCGATT
*
220592 TTCCAAAATCGCAACGCGA
1 TTCCAAAATCACAACGCGA
220611 ATAGGTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.30, G:0.12, T:0.20
Consensus pattern (21 bp):
TTCCAAAATCACAACGCGATT
Found at i:220622 original size:20 final size:20
Alignment explanation
Indices: 220597--220672 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
220587 CGATTTTCCA
220597 AAATCGCAACGCGAATAGGT
1 AAATCGCAACGCGAATAGGT
*
220617 AAATCGCAACGCGAATAGAT
1 AAATCGCAACGCGAATAGGT
** *
220637 AAATCGCAACGATAATATGT
1 AAATCGCAACGCGAATAGGT
*
220657 AAATCGCAACTCGAAT
1 AAATCGCAACGCGAAT
220673 TTAAATATGA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGCGAATAGGT
Found at i:221023 original size:20 final size:20
Alignment explanation
Indices: 220998--221043 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
220988 TAAACGTTTT
*
220998 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTATGTG
221018 TTGCGAATTTGACTTATGTG
1 TTGCGAATTTGACTTATGTG
221038 TTGCGA
1 TTGCGA
221044 TTTACAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.17, C:0.13, G:0.26, T:0.43
Consensus pattern (20 bp):
TTGCGAATTTGACTTATGTG
Found at i:221060 original size:20 final size:20
Alignment explanation
Indices: 221037--221126 Score: 117
Period size: 20 Copynumber: 4.5 Consensus size: 20
221027 TGACTTATGT
*
221037 GTTGCGATTTACAAATTCGC
1 GTTGCGATTTACATATTCGC
*
221057 GTTGCAATTTACATATTCGC
1 GTTGCGATTTACATATTCGC
**
221077 GTTGCGATTTACATATTATC
1 GTTGCGATTTACATATTCGC
* *
221097 ATTGCGATTTACATATTCGA
1 GTTGCGATTTACATATTCGC
*
221117 GTTGTGATTT
1 GTTGCGATTT
221127 TGGAACCTGT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (20 bp):
GTTGCGATTTACATATTCGC
Found at i:225076 original size:12 final size:12
Alignment explanation
Indices: 225061--225090 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
225051 TTATAAATTT
*
225061 ATTTATTGGCAC
1 ATTTATTGACAC
225073 ATTTATTGACAC
1 ATTTATTGACAC
225085 ATTTAT
1 ATTTAT
225091 AAGTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (12 bp):
ATTTATTGACAC
Found at i:227993 original size:12 final size:12
Alignment explanation
Indices: 227976--228060 Score: 91
Period size: 12 Copynumber: 6.8 Consensus size: 12
227966 GACCAAATTC
227976 CTCATCATCAAA
1 CTCATCATCAAA
227988 CTCATCATCATCGAA
1 CTCATCATCA---AA
228003 CTCATCATCAAA
1 CTCATCATCAAA
* *
228015 TTCATCATCGAA
1 CTCATCATCAAA
*
228027 CTCATCGTCAAA
1 CTCATCATCAAA
228039 CTCATCATCGAAA
1 CTCATCATC-AAA
*
228052 -TCACCATCA
1 CTCATCATCA
228061 CTTCCATCAT
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
11 1 0.02
12 46 0.74
13 3 0.05
15 12 0.19
ACGTcount: A:0.36, C:0.33, G:0.05, T:0.26
Consensus pattern (12 bp):
CTCATCATCAAA
Found at i:227995 original size:15 final size:15
Alignment explanation
Indices: 227977--228012 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
227967 ACCAAATTCC
227977 TCATCATCAAACTCA
1 TCATCATCAAACTCA
*
227992 TCATCATCGAACTCA
1 TCATCATCAAACTCA
228007 TCATCA
1 TCATCA
228013 AATTCATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.36, C:0.33, G:0.03, T:0.28
Consensus pattern (15 bp):
TCATCATCAAACTCA
Found at i:228019 original size:24 final size:24
Alignment explanation
Indices: 227976--228060 Score: 107
Period size: 24 Copynumber: 3.4 Consensus size: 24
227966 GACCAAATTC
227976 CTCATCATCAAACTCATCATCATCGAA
1 CTCATCATCAAA-T--TCATCATCGAA
228003 CTCATCATCAAATTCATCATCGAA
1 CTCATCATCAAATTCATCATCGAA
* *
228027 CTCATCGTCAAACTCATCATCGAA
1 CTCATCATCAAATTCATCATCGAA
* *
228051 ATCACCATCA
1 CTCATCATCA
228061 CTTCCATCAT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
24 40 0.75
26 1 0.02
27 12 0.23
ACGTcount: A:0.36, C:0.33, G:0.05, T:0.26
Consensus pattern (24 bp):
CTCATCATCAAATTCATCATCGAA
Found at i:228022 original size:15 final size:15
Alignment explanation
Indices: 227969--228023 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 15
227959 TGTCCGTGAC
*
227969 CAAATTCCTCATCAT
1 CAAATTCATCATCAT
*
227984 CAAACTCATCATCAT
1 CAAATTCATCATCAT
*
227999 CGAA--C-TCATCAT
1 CAAATTCATCATCAT
228011 CAAATTCATCATC
1 CAAATTCATCATC
228024 GAACTCATCG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 10 0.30
13 1 0.03
14 1 0.03
15 21 0.64
ACGTcount: A:0.36, C:0.33, G:0.02, T:0.29
Consensus pattern (15 bp):
CAAATTCATCATCAT
Found at i:231570 original size:14 final size:14
Alignment explanation
Indices: 231551--231583 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
231541 ACAGTTTATA
231551 TTTTAATCACATAC
1 TTTTAATCACATAC
231565 TTTTAATCACATAC
1 TTTTAATCACATAC
231579 TTTTA
1 TTTTA
231584 TACTTAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTTAATCACATAC
Found at i:232037 original size:105 final size:105
Alignment explanation
Indices: 231816--232038 Score: 252
Period size: 105 Copynumber: 2.1 Consensus size: 105
231806 GATTGTCCAT
* * * * *
231816 AAGGACCACATA-TAAATTCCTTAAGAACCATATACATATACCAAGGATCAAGTAAGTGTCTCAA
1 AAGGACCACGTAGAAAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCGCAA
*
231880 AAGACCTCATACATGCTCCAAAGAATACATATACGTCTCG
66 AAGACCTCATACATGCTCCAAAGAATACATATACGTCCCG
* * * * * *
231920 AATGACCACGTAGAAAATTCCTTAAGAATCATATACATATGCTAATGACCAAATATGTGTCGCAA
1 AAGGACCACGTAGAAAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCGCAA
* * * * * *
231985 AGGACCTCATAGATGTTCCATAA-TATACCTATATGTCCCG
66 AAGACCTCATACATGCTCCA-AAGAATACATATACGTCCCG
*
232025 AAGGACCGCGTAGA
1 AAGGACCACGTAGA
232039 CCCTCGACTC
Statistics
Matches: 97, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
104 10 0.10
105 85 0.88
106 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (105 bp):
AAGGACCACGTAGAAAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCGCAA
AAGACCTCATACATGCTCCAAAGAATACATATACGTCCCG
Found at i:235224 original size:619 final size:619
Alignment explanation
Indices: 234044--235256 Score: 2183
Period size: 619 Copynumber: 2.0 Consensus size: 619
234034 TCTCATGTAC
*
234044 ATTTTGGTAATTCTATTCAACCTAAACACATGTACATTTTATGGTAATTTGGTAAGGTATGTTAT
1 ATTTTGGTAATTCTATCCAACCTAAACACATGTACATTTTATGGTAATTTGGTAAGGTATGTTAT
*
234109 TTCAAGGTTATTTTTCACTTTCAGGGGCAATCTTGGTCTTCTCACAGTACAATGGCATTTTCTTA
66 TTCAAGGTTATTTTTCACTTTCAGGGGCAATCTTGGTCTTCTCACAGTACAATGACATTTTCTTA
*
234174 ATTTTTCTCCATAGGACTACTTTTGTAATTTCTTATCCAAGTATTCCAGACATTTAACCTTTAAA
131 ATTTTTCTCCATAGAACTACTTTTGTAATTTCTTATCCAAGTATTCCAGACATTTAACCTTTAAA
*
234239 GAATTTAATAAAAAATTTACAGATCTTAAGGTCAATTTATTTACTAATTAATTACTAAACTTAGA
196 GAATTTAATAAAAAATTTACAGATCCTAAGGTCAATTTATTTACTAATTAATTACTAAACTTAGA
*
234304 ATGGTTTCTGATTAGTCTTTTAATTTTTATACGAGCCATCTGGGTCTTATAAAGTGTTATGCTTT
261 ATGGTTTCTGATCAGTCTTTTAATTTTTATACGAGCCATCTGGGTCTTATAAAGTGTTATGCTTT
*
234369 TATAAAAAATTCAATTCGAGTCCAACAATAATTAAATGCATCTAATTGACCAATCATTTCCATTC
326 TATAAAAAATTCAATTCAAGTCCAACAATAATTAAATGCATCTAATTGACCAATCATTTCCATTC
*
234434 ATGCATTTACTAATTATTAATGAGTTTCGAAAAGCATACAACAGGTAGTAGTGTATTACCTTAGT
391 ATGCATTTACTAATTATTAACGAGTTTCGAAAAGCATACAACAGGTAGTAGTGTATTACCTTAGT
* *
234499 TTTTTAGCTACACCAATCGATCATTTAATCTCCATTTGATCGCCCTTGACCTTTAATTCAACGTC
456 TTTTTAGCTACACCAATCAATCATTTAATCTCCATTTGATCGCCCTTGACCTTCAATTCAACGTC
* *
234564 CCACAATACCTCGTAGTTATAGCGAAAGAAATTATGTCATAAACGAAACTTAATCGAAAAATAAA
521 CCACAATACCTCGTAGTTATAGCGAAAGAAATTACGTCATAAAAGAAACTTAATCGAAAAATAAA
234629 AAGTGAATCAAAAGTTATTTTGTAGCTCTGGGAT
586 AAGTGAATCAAAAGTTATTTTGTAGCTCTGGGAT
* *
234663 ATTTTGGTTATTCTGTCCAACCTAAACACATGTACATTTTATGGTAATTTGGTAAGGTATGTTAT
1 ATTTTGGTAATTCTATCCAACCTAAACACATGTACATTTTATGGTAATTTGGTAAGGTATGTTAT
234728 TTCAAGGTTATTTTTCACTTTCAGGGGCAATCTTGGTCTTCTCACAGTACAATGACATTTTCTTA
66 TTCAAGGTTATTTTTCACTTTCAGGGGCAATCTTGGTCTTCTCACAGTACAATGACATTTTCTTA
*
234793 ATTTTTCTCCATAGAACTATTTTTGTAATTTCTTATCCAAGTATTCCAGACATTTAACCTTTAAA
131 ATTTTTCTCCATAGAACTACTTTTGTAATTTCTTATCCAAGTATTCCAGACATTTAACCTTTAAA
* * * * *
234858 TAATTTAATCAAAAATTTACGGATCCTAAGGTCAATTTATTTACTTATTAATTACTGAACTTAGA
196 GAATTTAATAAAAAATTTACAGATCCTAAGGTCAATTTATTTACTAATTAATTACTAAACTTAGA
* *
234923 ATGGTTTTTGATCAGTCTTTTAATTTTTATATGAGCCATCTGGGTCTTATAAAGTGTTATGCTTT
261 ATGGTTTCTGATCAGTCTTTTAATTTTTATACGAGCCATCTGGGTCTTATAAAGTGTTATGCTTT
** *
234988 TATACCAAATTCAGTTCAAGTCCAACAATAATTAAATGCATCTAATTGACCAATCATTTCCATTC
326 TATAAAAAATTCAATTCAAGTCCAACAATAATTAAATGCATCTAATTGACCAATCATTTCCATTC
235053 ATGCATTTACTAATTATTAACGAGTTTCGAAAAGCATACAACAGGTAGTAGTGTATTACCTTAGT
391 ATGCATTTACTAATTATTAACGAGTTTCGAAAAGCATACAACAGGTAGTAGTGTATTACCTTAGT
*
235118 TTTTTAGCTACACCAATCAATCATTTAATCTCCATTTGATTGCCCTTGACCTTCAATTCAACGTC
456 TTTTTAGCTACACCAATCAATCATTTAATCTCCATTTGATCGCCCTTGACCTTCAATTCAACGTC
* *
235183 CCACAATACCTCGTAGTTATAGTGAAAGAAATTACGTCATAAAAGAAACTTAATCGAAAAATCAA
521 CCACAATACCTCGTAGTTATAGCGAAAGAAATTACGTCATAAAAGAAACTTAATCGAAAAATAAA
235248 AAGTGAATC
586 AAGTGAATC
235257 TAAATATGAA
Statistics
Matches: 567, Mismatches: 27, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
619 567 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.38
Consensus pattern (619 bp):
ATTTTGGTAATTCTATCCAACCTAAACACATGTACATTTTATGGTAATTTGGTAAGGTATGTTAT
TTCAAGGTTATTTTTCACTTTCAGGGGCAATCTTGGTCTTCTCACAGTACAATGACATTTTCTTA
ATTTTTCTCCATAGAACTACTTTTGTAATTTCTTATCCAAGTATTCCAGACATTTAACCTTTAAA
GAATTTAATAAAAAATTTACAGATCCTAAGGTCAATTTATTTACTAATTAATTACTAAACTTAGA
ATGGTTTCTGATCAGTCTTTTAATTTTTATACGAGCCATCTGGGTCTTATAAAGTGTTATGCTTT
TATAAAAAATTCAATTCAAGTCCAACAATAATTAAATGCATCTAATTGACCAATCATTTCCATTC
ATGCATTTACTAATTATTAACGAGTTTCGAAAAGCATACAACAGGTAGTAGTGTATTACCTTAGT
TTTTTAGCTACACCAATCAATCATTTAATCTCCATTTGATCGCCCTTGACCTTCAATTCAACGTC
CCACAATACCTCGTAGTTATAGCGAAAGAAATTACGTCATAAAAGAAACTTAATCGAAAAATAAA
AAGTGAATCAAAAGTTATTTTGTAGCTCTGGGAT
Found at i:235442 original size:20 final size:21
Alignment explanation
Indices: 235413--235452 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
235403 AGTCAATTGG
*
235413 TCAACGGGTCT-GGTCAACGA
1 TCAACAGGTCTAGGTCAACGA
235433 TCAACAGGTCTAGGTCAACG
1 TCAACAGGTCTAGGTCAACG
235453 GGTTGAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.20
Consensus pattern (21 bp):
TCAACAGGTCTAGGTCAACGA
Found at i:237378 original size:52 final size:53
Alignment explanation
Indices: 237299--237400 Score: 143
Period size: 52 Copynumber: 1.9 Consensus size: 53
237289 GATTAGTAAT
* *
237299 TTAAGTATGAATTATGAGGCGTGTAAGTTTAACGAACAAAGTATT-TTTCCAG
1 TTAAGTATGAATTACGAGACGTGTAAGTTTAACGAACAAAGTATTGTTTCCAG
* * * *
237351 TTAATTATGAATTACGAGACGTGTAAGTTTTATGATCAAAGTATTGTTTC
1 TTAAGTATGAATTACGAGACGTGTAAGTTTAACGAACAAAGTATTGTTTC
237401 TTAGGATCCC
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 39 0.91
53 4 0.09
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (53 bp):
TTAAGTATGAATTACGAGACGTGTAAGTTTAACGAACAAAGTATTGTTTCCAG
Found at i:238070 original size:2 final size:2
Alignment explanation
Indices: 238063--238091 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
238053 TTAACTTAAT
238063 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
238092 CAAAATAAAT
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:238315 original size:2 final size:2
Alignment explanation
Indices: 238297--238333 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
238287 ATACAAGCGA
* *
238297 AT AT GT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
238334 AAGTATGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:244233 original size:18 final size:18
Alignment explanation
Indices: 244210--244258 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
244200 AAATTGTCCT
*
244210 TATTATATATTTTTATAA
1 TATTATATATTTTTAAAA
* *
244228 TATTATA-AATTGTAAAA
1 TATTATATATTTTTAAAA
244245 TATTTATATATTTT
1 TA-TTATATATTTT
244259 CTTTAAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 9 0.38
18 12 0.50
19 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTATATATTTTTAAAA
Found at i:245079 original size:2 final size:2
Alignment explanation
Indices: 245074--245103 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
245064 AAAAAAATTC
245074 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
245104 TTTGATCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:246367 original size:2 final size:2
Alignment explanation
Indices: 246362--246386 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
246352 ACACACACAC
246362 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
246387 CAAAAACAAC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:249290 original size:15 final size:15
Alignment explanation
Indices: 249270--249300 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
249260 ATCATGCATA
249270 TAAAATTTCAAATTT
1 TAAAATTTCAAATTT
249285 TAAAATTTCAAATTT
1 TAAAATTTCAAATTT
249300 T
1 T
249301 TTAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAAATTTCAAATTT
Found at i:254372 original size:2 final size:2
Alignment explanation
Indices: 254365--254392 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
254355 TTACATTAGG
254365 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
254393 CAAAACTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:257158 original size:26 final size:26
Alignment explanation
Indices: 257129--257178 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
257119 CGTTAAAAAT
*
257129 TTAACGCGTTTAGTACATAAACTAAC
1 TTAACGCATTTAGTACATAAACTAAC
257155 TTAACGCATTTAGTACATAAACTA
1 TTAACGCATTTAGTACATAAACTA
257179 TCATTTTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (26 bp):
TTAACGCATTTAGTACATAAACTAAC
Found at i:272493 original size:26 final size:26
Alignment explanation
Indices: 272441--272491 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
272431 CATAGATTTA
272441 AGATAGTTGAACGAGTGAAAATAAAT
1 AGATAGTTGAACGAGTGAAAATAAAT
*
272467 AGATGAGTTTAAC-AGTAGAAAATAA
1 AGAT-AGTTGAACGAGT-GAAAATAA
272492 TAATATATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.51, C:0.04, G:0.22, T:0.24
Consensus pattern (26 bp):
AGATAGTTGAACGAGTGAAAATAAAT
Found at i:273840 original size:17 final size:19
Alignment explanation
Indices: 273802--273848 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
273792 TAATTATCAA
273802 TAAAA-ATATAAAAATATG
1 TAAAATATATAAAAATATG
*
273820 TAAAATATATAATAAT-T-
1 TAAAATATATAAAAATATG
273837 TAAAATAT-TAAA
1 TAAAATATATAAA
273849 GAGGTAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 3 0.12
17 8 0.31
18 6 0.23
19 9 0.35
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
TAAAATATATAAAAATATG
Found at i:274982 original size:17 final size:17
Alignment explanation
Indices: 274948--274982 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
274938 TACCCCATAT
* *
274948 ATATATATATATATGTA
1 ATATATATACATAGGTA
274965 ATATATATACATAGGTA
1 ATATATATACATAGGTA
274982 A
1 A
274983 AATACACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.40
Consensus pattern (17 bp):
ATATATATACATAGGTA
Found at i:280414 original size:96 final size:95
Alignment explanation
Indices: 280216--280418 Score: 255
Period size: 95 Copynumber: 2.1 Consensus size: 95
280206 GAAATCACTT
* * * * * * *
280216 ATTTACTGATTTATGAACTATGGTTACTTGAAATATGTTCTCTGGTTACTGTTTTCACTATAAAA
1 ATTTACTGGTTAATGAACTATGGTTACCTAAAATATGTTATATGGTTACTGTTTTCACTAAAAAA
* *
280281 TATGATCGTTCATGATTTATGAATCATTGA
66 TATGATCATTCATGATTTATGAATCATGGA
* * * *
280311 ATCTACTGGTTAATGAATTATGGTTACCTAAAATGTGTTATATGGTTACATGTTTTCATTGAAAA
1 ATTTACTGGTTAATGAACTATGGTTACCTAAAATATGTTATATGGTTAC-TGTTTTCACT-AAAA
*
280376 AATATGATCATTC-TGATTTATGGATCATGGA
64 AATATGATCATTCATGATTTATGAATCATGGA
280407 ATTTACTGGTTA
1 ATTTACTGGTTA
280419 CTACTTGAAT
Statistics
Matches: 91, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
95 40 0.44
96 36 0.40
97 15 0.16
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (95 bp):
ATTTACTGGTTAATGAACTATGGTTACCTAAAATATGTTATATGGTTACTGTTTTCACTAAAAAA
TATGATCATTCATGATTTATGAATCATGGA
Done.