Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold188
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: 942289
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.27
Warning! 138643 characters in sequence are not A, C, G, or T
File 1 of 5
Found at i:2012 original size:21 final size:21
Alignment explanation
Indices: 1988--2052 Score: 121
Period size: 21 Copynumber: 3.1 Consensus size: 21
1978 GTGGGGACGA
1988 ATTTGTAGAATGTATCGATAC
1 ATTTGTAGAATGTATCGATAC
2009 ATTTGTAGAATGTATCGATAC
1 ATTTGTAGAATGTATCGATAC
*
2030 ATTTGTGGAATGTATCGATAC
1 ATTTGTAGAATGTATCGATAC
2051 AT
1 AT
2053 CCTACAAATG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.38
Consensus pattern (21 bp):
ATTTGTAGAATGTATCGATAC
Found at i:2063 original size:42 final size:42
Alignment explanation
Indices: 1988--2072 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
1978 GTGGGGACGA
** *
1988 ATTTGTAGAATGTATCGATACATTTGTAGAATGTATCGATAC
1 ATTTGTAGAATGTATCGATACATTCCTAAAATGTATCGATAC
*
2030 ATTTGTGGAATGTATCGATACA-TCCTACAAATGTATCGATAC
1 ATTTGTAGAATGTATCGATACATTCCTA-AAATGTATCGATAC
2072 A
1 A
2073 GGGTCCCAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 3 0.08
42 35 0.92
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (42 bp):
ATTTGTAGAATGTATCGATACATTCCTAAAATGTATCGATAC
Found at i:2132 original size:19 final size:19
Alignment explanation
Indices: 2108--2175 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
2098 AATTCAACAA
2108 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2127 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2142 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
* *
2159 ATTGTATTGATACATAA
1 TTTGTATCGATACATAA
2176 TTAGCTACTG
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 27 0.64
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2147 original size:13 final size:13
Alignment explanation
Indices: 2129--2153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2119 ACATAAGTTT
2129 TGTATCGATACAA
1 TGTATCGATACAA
2142 TGTATCGATACA
1 TGTATCGATACA
2154 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2151 original size:32 final size:32
Alignment explanation
Indices: 2110--2172 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
2100 TTCAACAATT
*
2110 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
2142 TGTATCGATACATAAGTATTGTATTGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2173 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2233 original size:13 final size:13
Alignment explanation
Indices: 2215--2240 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2205 CATTTTTCTG
2215 TGTATCGATACAT
1 TGTATCGATACAT
2228 TGTATCGATACAT
1 TGTATCGATACAT
2241 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2234 original size:33 final size:33
Alignment explanation
Indices: 2195--2261 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2185 GCCAAGGAAA
***
2195 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2228 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2261 T
1 T
2262 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:4655 original size:51 final size:53
Alignment explanation
Indices: 4591--4721 Score: 169
Period size: 51 Copynumber: 2.5 Consensus size: 53
4581 AGTTTCTCAA
* * *
4591 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATAATCCAACTCCGATTTTATTTCCAAAAACACTAAT
* *
4642 TT-TTCTATAATCGGGGATAATCTAACTCCGATTTTATTTCCAAAAAACACTAAT
1 TTCTTC-ACAATCGGGGATAATCCAACTCCGATTTTATTTCC-AAAAACACTAAT
*
4696 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATAATCCAAC
4722 CCCGTTAATC
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
50 2 0.03
51 33 0.49
53 10 0.15
54 19 0.28
55 3 0.04
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATAATCCAACTCCGATTTTATTTCCAAAAACACTAAT
Found at i:4739 original size:27 final size:28
Alignment explanation
Indices: 4705--4780 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
4695 TTTCTTCACA
4705 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
4732 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
4760 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
4781 GTTTTATCGC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 24 0.55
28 20 0.45
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:4856 original size:52 final size:52
Alignment explanation
Indices: 4800--4932 Score: 148
Period size: 52 Copynumber: 2.6 Consensus size: 52
4790 CTAAGACACT
* * *
4800 AATTTTTCCACAATCGGGGATACTCCAA-TCCCGGTTTTATTTTCAAAACGT-C
1 AATTTTTCCACAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAA-ATAC
**
4852 AA-TTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACC
1 AATTTTTCC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATA-C
*
4905 AATTTTT-CACAATCGAGGATACTCCAAC
1 AATTTTTCCACAATCGGGGATACTCCAAC
4933 CTCGTTATTT
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
51 7 0.10
52 52 0.76
53 5 0.07
54 4 0.06
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (52 bp):
AATTTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATAC
Found at i:4952 original size:28 final size:28
Alignment explanation
Indices: 4916--4992 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
4906 ATTTTTCACA
* * *
4916 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
4944 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*** *
4972 CGAGGGGATACTCCAATCCCG
1 ATCGGGGATACTCCAACCCCG
4993 ATTTTTTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:4961 original size:212 final size:212
Alignment explanation
Indices: 4594--4997 Score: 620
Period size: 212 Copynumber: 1.9 Consensus size: 212
4584 TTCTCAATTC
*
4594 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
* *
4659 TAATCTAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGGGGATACTCCAACCC
66 TAATCCAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGAGGATACTCCAACCC
* *
4724 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGATTTTATC
4789 GCTAAGACACTAATTTT
196 GCTAAGACACTAATTTT
* * *
4806 TCCACAATCGGGGATACTCCAA-TCCCGGTTTTATTTTCAAAAC-GTCAATTTTCCTTTAATCGG
1 TCCACAATCGGGGATACTCCAACT-CCGATTTTATTTTCAAAACACT-AATTTT-CTATAATCGG
*
4869 GGATACTCCAACTCCGATTTTATTTCCAAAAATAC-C-AATTT-TTCACAATCGAGGATACTCCA
63 GGATAATCCAACTCCGATTTTATTTCCAAAAA-ACACTAATTTCTTCACAATCGAGGATACTCCA
* * *
4931 ACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAATCCCGATT
127 ACCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGATT
4996 TT
191 TT
4998 TTTTTTCTTC
Statistics
Matches: 175, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
211 30 0.17
212 103 0.59
213 40 0.23
214 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (212 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
TAATCCAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGATTTTATC
GCTAAGACACTAATTTT
Found at i:9768 original size:33 final size:33
Alignment explanation
Indices: 9731--9797 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
9721 TTCAACGATT
9731 TGTATCGATACATAAAATATTGTATCGATACAA
1 TGTATCGATACATAAAATATTGTATCGATACAA
*** *
9764 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATATTGTATCGATACAA
9797 T
1 T
9798 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATATTGTATCGATACAA
Found at i:9769 original size:13 final size:13
Alignment explanation
Indices: 9751--9775 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9741 CATAAAATAT
9751 TGTATCGATACAA
1 TGTATCGATACAA
9764 TGTATCGATACA
1 TGTATCGATACA
9776 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:9857 original size:13 final size:13
Alignment explanation
Indices: 9839--9863 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9829 ATTACTCAAA
9839 TGTATCGATACAT
1 TGTATCGATACAT
9852 TGTATCGATACA
1 TGTATCGATACA
9864 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:9965 original size:52 final size:52
Alignment explanation
Indices: 9872--10047 Score: 318
Period size: 52 Copynumber: 3.4 Consensus size: 52
9862 CACTGATCTT
9872 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
9923 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* *
9975 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
10027 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
10048 CTTTTCATAT
Statistics
Matches: 121, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
51 19 0.16
52 102 0.84
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:21811 original size:9 final size:9
Alignment explanation
Indices: 21797--21879 Score: 62
Period size: 9 Copynumber: 8.9 Consensus size: 9
21787 TCTCTTCAAA
21797 AAAAAAAAG
1 AAAAAAAAG
21806 AAAAAAAAG
1 AAAAAAAAG
21815 AGCAAAAAAA-
1 A--AAAAAAAG
21825 AAAGAAAAA-
1 AAA-AAAAAG
* *
21834 AAACAAAAC
1 AAAAAAAAG
*
21843 AAAAAAAAC
1 AAAAAAAAG
*
21852 AAAACAAAG
1 AAAAAAAAG
*
21861 AAAAAGAGAG
1 AAAAA-AAAG
21871 AAAAGAAAA
1 AAAA-AAAA
21880 AGAACCTGCT
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
8 6 0.10
9 37 0.61
10 10 0.16
11 8 0.13
ACGTcount: A:0.83, C:0.06, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:21813 original size:14 final size:14
Alignment explanation
Indices: 21794--21880 Score: 68
Period size: 14 Copynumber: 6.2 Consensus size: 14
21784 CCTTCTCTTC
*
21794 AAAAAAA-AAAAGA
1 AAAAAAAGAAAAAA
**
21807 AAAAAAAGAGCAAA
1 AAAAAAAGAAAAAA
21821 AAAAAAAGAAAAAA
1 AAAAAAAGAAAAAA
* *
21835 AACAAAACAAAAAA
1 AAAAAAAGAAAAAA
* * *
21849 AACAAAACAAAGAA
1 AAAAAAAGAAAAAA
* *
21863 AAAGAGAGAAAAGAA
1 AAAAAAAGAAAA-AA
21878 AAA
1 AAA
21881 GAACCTGCTT
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
13 7 0.12
14 47 0.80
15 5 0.08
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAA
Found at i:21846 original size:23 final size:22
Alignment explanation
Indices: 21794--21880 Score: 93
Period size: 23 Copynumber: 3.8 Consensus size: 22
21784 CCTTCTCTTC
21794 AAAAAAAAAAAGAAAAAAAAGA
1 AAAAAAAAAAAGAAAAAAAAGA
* *
21816 GCAAAAAAAAAAGAAAAAAAACA
1 -AAAAAAAAAAAGAAAAAAAAGA
* *
21839 AAACAAAAAAAACAAAACAAAGA
1 AAA-AAAAAAAAGAAAAAAAAGA
*
21862 AAAAGAGAGAAAAGAAAAA
1 AAAA-A-AAAAAAGAAAAA
21881 GAACCTGCTT
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
22 3 0.06
23 40 0.77
24 9 0.17
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAAGAAAAAAAAGA
Found at i:21880 original size:1 final size:1
Alignment explanation
Indices: 21794--21865 Score: 54
Period size: 1 Copynumber: 72.0 Consensus size: 1
21784 CCTTCTCTTC
* * ** * * * * *
21794 AAAAAAAAAAAGAAAAAAAAGAGCAAAAAAAAAAGAAAAAAAACAAAACAAAAAAAACAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
21859 AGAAAAA
1 AAAAAAA
21866 GAGAGAAAAG
Statistics
Matches: 52, Mismatches: 19, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:22927 original size:55 final size:55
Alignment explanation
Indices: 22849--23521 Score: 1081
Period size: 55 Copynumber: 12.2 Consensus size: 55
22839 TCCGCTTTTT
22849 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTTT-C
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* **
22904 GGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCCTT-C
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* *
22959 AGTCCCCGAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
23014 AATCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
23069 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
23124 AGTCCTCAAAGAGCAGGACACCTTTCACAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
23179 AGTCCTCAAAAAGTAGGCCACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
23234 AGTCCTCAAAAAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
23289 AGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
23344 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCATACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
23399 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * *
23454 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-T
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
23509 AGTCCTCAAAGAG
1 AGTCCTCAAAGAG
23522 TAGAATACAC
Statistics
Matches: 584, Mismatches: 29, Indels: 10
0.94 0.05 0.02
Matches are distributed among these distances:
54 6 0.01
55 573 0.98
56 5 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:23094 original size:27 final size:27
Alignment explanation
Indices: 23064--23149 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
23054 TTGGTGGCAT
23064 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
23091 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
23119 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
23146 TTTC
1 TTTC
23150 ACAGCCCACA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:24174 original size:21 final size:21
Alignment explanation
Indices: 24150--24214 Score: 121
Period size: 21 Copynumber: 3.1 Consensus size: 21
24140 GTGGGGACGA
24150 ATTTGTAGAATGTATCGATAC
1 ATTTGTAGAATGTATCGATAC
24171 ATTTGTAGAATGTATCGATAC
1 ATTTGTAGAATGTATCGATAC
*
24192 ATTTGTGGAATGTATCGATAC
1 ATTTGTAGAATGTATCGATAC
24213 AT
1 AT
24215 CCTACAAATG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.38
Consensus pattern (21 bp):
ATTTGTAGAATGTATCGATAC
Found at i:24225 original size:42 final size:42
Alignment explanation
Indices: 24150--24234 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
24140 GTGGGGACGA
** *
24150 ATTTGTAGAATGTATCGATACATTTGTAGAATGTATCGATAC
1 ATTTGTAGAATGTATCGATACATTCCTAAAATGTATCGATAC
*
24192 ATTTGTGGAATGTATCGATACA-TCCTACAAATGTATCGATAC
1 ATTTGTAGAATGTATCGATACATTCCTA-AAATGTATCGATAC
24234 A
1 A
24235 GGGTCCCAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 3 0.08
42 35 0.92
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (42 bp):
ATTTGTAGAATGTATCGATACATTCCTAAAATGTATCGATAC
Found at i:24294 original size:19 final size:19
Alignment explanation
Indices: 24270--24337 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
24260 AATTCAACAA
24270 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
24289 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
24304 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
24321 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
24338 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:24309 original size:13 final size:13
Alignment explanation
Indices: 24291--24315 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24281 ACATAAGTTT
24291 TGTATCGATACAA
1 TGTATCGATACAA
24304 TGTATCGATACA
1 TGTATCGATACA
24316 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:24313 original size:32 final size:32
Alignment explanation
Indices: 24272--24334 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
24262 TTCAACAATT
*
24272 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
24304 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
24335 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:24395 original size:13 final size:13
Alignment explanation
Indices: 24377--24402 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24367 CATTTTTCTG
24377 TGTATCGATACAT
1 TGTATCGATACAT
24390 TGTATCGATACAT
1 TGTATCGATACAT
24403 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:24399 original size:33 final size:33
Alignment explanation
Indices: 24357--24423 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
24347 GGCAAGGAAA
***
24357 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
24390 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
24423 T
1 T
24424 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:26816 original size:51 final size:53
Alignment explanation
Indices: 26752--27093 Score: 189
Period size: 52 Copynumber: 6.5 Consensus size: 53
26742 AGTTTCTCAA
* * *
26752 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAAT
* *
26803 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACTAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACTAAT
* * * * * **
26857 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAAC-CCCAT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC---CA-A---AAACACTAAT
* * * * *
26915 TAT-TTC-CGA--GGGGATACTCCAACCCCGGTTTTA--TCGCTAAGACACTAAT
1 T-TCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACTAAT
* * * *
26964 TT-TTCCACAATCGGGGATACTCCAA-TCCCGGTTTTATTTTC-AAAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAAACACTAA-T
* * *
27017 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAAT
*
27069 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
27094 CTCGTTATTT
Statistics
Matches: 225, Mismatches: 35, Indels: 61
0.70 0.11 0.19
Matches are distributed among these distances:
48 5 0.02
49 5 0.02
50 6 0.03
51 34 0.15
52 83 0.37
53 25 0.11
54 26 0.12
55 24 0.11
56 1 0.00
57 5 0.02
58 7 0.03
59 4 0.02
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAAT
Found at i:26900 original size:27 final size:28
Alignment explanation
Indices: 26866--26941 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
26856 TTTCTTCACA
26866 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
* *
26893 ATCGGGGATACTCCAACCCCATTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
26921 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
26942 GTTTTATCGC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.25, C:0.34, G:0.20, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:27113 original size:28 final size:28
Alignment explanation
Indices: 27077--27153 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
27067 ATTTTTCACA
* * *
27077 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
27105 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*** *
27133 CGAGGGGATACTCCAATCCCG
1 ATCGGGGATACTCCAACCCCG
27154 ATTTTTTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:27122 original size:212 final size:212
Alignment explanation
Indices: 26755--27158 Score: 627
Period size: 212 Copynumber: 1.9 Consensus size: 212
26745 TTCTCAATTC
* *
26755 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
26820 TACTCTAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGAGGATACTCCAACCC
* *
26885 CGTTAATCATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCGATTTTATC
26950 GCTAAGACACTAATTTT
196 GCTAAGACACTAATTTT
* * *
26967 TCCACAATCGGGGATACTCCAA-TCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACT-CCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
27031 GATACTCCAACTCCGATTTTATTTCCAAAAATAC-C-AATTT-TTCACAATCGAGGATACTCCAA
64 GATACTCCAACTCCGATTTTATTTCCAAAAA-ACACTAATTTCTTCACAATCGAGGATACTCCAA
* * * *
27093 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAATCCCGATTT
128 CCCCGTTA-ATCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCGATTT
27158 T
192 T
27159 TTTTTCTTCT
Statistics
Matches: 175, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
211 29 0.17
212 103 0.59
213 41 0.23
214 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (212 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCGATTTTATC
GCTAAGACACTAATTTT
Found at i:30636 original size:13 final size:13
Alignment explanation
Indices: 30617--30655 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
30607 ACAGCATTCT
30617 CTGTATCGATACA
1 CTGTATCGATACA
*
30630 TTGTATCGATACA
1 CTGTATCGATACA
*
30643 CTGTATCAATACA
1 CTGTATCGATACA
30656 AGGGGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:30824 original size:20 final size:20
Alignment explanation
Indices: 30789--30829 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
30779 CAAAATTCTT
30789 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
30811 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
30830 ATAAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:31134 original size:20 final size:21
Alignment explanation
Indices: 31094--31145 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
31084 CCCTTAGGCA
*
31094 GCACCCACCAGGTCACGACC-G
1 GCACCC-CCAGGTCACAACCGG
*
31115 GCACCCCCAGGTCGCAACCGG
1 GCACCCCCAGGTCACAACCGG
31136 GCAGCCCCCA
1 GCA-CCCCCA
31146 CACTAACCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
21 10 0.37
22 6 0.22
ACGTcount: A:0.21, C:0.50, G:0.25, T:0.04
Consensus pattern (21 bp):
GCACCCCCAGGTCACAACCGG
Found at i:33101 original size:13 final size:13
Alignment explanation
Indices: 33083--33107 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33073 ATGTTGCATA
33083 GTATCGATACATT
1 GTATCGATACATT
33096 GTATCGATACAT
1 GTATCGATACAT
33108 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:33217 original size:13 final size:13
Alignment explanation
Indices: 33199--33223 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33189 ACACACAGTA
33199 TGTATCGATACAT
1 TGTATCGATACAT
33212 TGTATCGATACA
1 TGTATCGATACA
33224 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:33220 original size:32 final size:33
Alignment explanation
Indices: 33179--33246 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
33169 GTAGCCAAAC
**
33179 TTGTATCGATACA-CACAGTATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
33211 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
33244 TTG
1 TTG
33247 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:40541 original size:27 final size:27
Alignment explanation
Indices: 40511--40566 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
40501 GGGCTAAGAC
40511 ATAGTTTTGTTCGATAATTAATTTCAT
1 ATAGTTTTGTTCGATAATTAATTTCAT
40538 ATAGTTTTGTTCGATAATTAATTTCAT
1 ATAGTTTTGTTCGATAATTAATTTCAT
40565 AT
1 AT
40567 GGAGTGATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (27 bp):
ATAGTTTTGTTCGATAATTAATTTCAT
Found at i:43082 original size:18 final size:18
Alignment explanation
Indices: 43056--43097 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
43046 AAAAAAAGAG
*
43056 GAGGTAGAAGTAAAGGCA
1 GAGGCAGAAGTAAAGGCA
*
43074 GAGGCAGAAGTGAAGGCA
1 GAGGCAGAAGTAAAGGCA
*
43092 AAGGCA
1 GAGGCA
43098 AAGGCAAAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.40, T:0.07
Consensus pattern (18 bp):
GAGGCAGAAGTAAAGGCA
Found at i:43276 original size:20 final size:19
Alignment explanation
Indices: 43253--43295 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
43243 TTTATCATGT
*
43253 TTTTATTTTTGTTATTTTTA
1 TTTTATTTTAGTT-TTTTTA
43273 TTTTATTTTAGTTTTTTTA
1 TTTTATTTTAGTTTTTTTA
43292 TTTT
1 TTTT
43296 TGTCTTGTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (19 bp):
TTTTATTTTAGTTTTTTTA
Found at i:44413 original size:17 final size:18
Alignment explanation
Indices: 44381--44414 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44371 TTAAAGCTTA
*
44381 TAAATTTATTTTATTTTT
1 TAAATTTATATTATTTTT
44399 TAAATTT-TATTATTTT
1 TAAATTTATATTATTTT
44415 GTATTTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TAAATTTATATTATTTTT
Found at i:47642 original size:105 final size:105
Alignment explanation
Indices: 47460--47672 Score: 354
Period size: 105 Copynumber: 2.0 Consensus size: 105
47450 ATATAATGTC
* *
47460 TGCCTGTTTCTTTAAATTTTGGGATACCTACTAACAGTCTGGTAGAGTTTCAAGAAGTGAGAGGA
1 TGCCTGTTTCTGTAAATTTTGGGATACCTACTAACAGTCTGGTAGAGTTTCAAGAAGTGAAAGGA
*
47525 CTAGATATTGCTAAAAGTCTGAAGATTGATTTTCTAGAAA
66 CTAGATATTGCTAAAAGTCTAAAGATTGATTTTCTAGAAA
* * *
47565 TGCCTTTTTCTGTAAATTTTGGTATATCTACTAACAGTCTGGTAGAGTTTCAAGAAGTGAAAGGA
1 TGCCTGTTTCTGTAAATTTTGGGATACCTACTAACAGTCTGGTAGAGTTTCAAGAAGTGAAAGGA
* *
47630 CTTGATATTGCTAAAAGTCTAAAGATTGATTTTCTTGAAA
66 CTAGATATTGCTAAAAGTCTAAAGATTGATTTTCTAGAAA
47670 TGC
1 TGC
47673 TGACTTTATC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
105 100 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (105 bp):
TGCCTGTTTCTGTAAATTTTGGGATACCTACTAACAGTCTGGTAGAGTTTCAAGAAGTGAAAGGA
CTAGATATTGCTAAAAGTCTAAAGATTGATTTTCTAGAAA
Found at i:54600 original size:13 final size:13
Alignment explanation
Indices: 54560--54612 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
54550 TCGTTACAAG
54560 CAATGTATCGATA
1 CAATGTATCGATA
54573 CAA--T-TC-AT-
1 CAATGTATCGATA
54581 C-ATGTATCGATA
1 CAATGTATCGATA
54593 CAATGTATCGATA
1 CAATGTATCGATA
*
54606 CATTGTA
1 CAATGTA
54613 CCATGTATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 20 0.61
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:54600 original size:33 final size:33
Alignment explanation
Indices: 54560--54628 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
54550 TCGTTACAAG
*
54560 CAATGTATCGATACAATT-CATCATGTATCGATA
1 CAATGTATCGATAC-ATTGCACCATGTATCGATA
*
54593 CAATGTATCGATACATTGTACCATGTATCGATA
1 CAATGTATCGATACATTGCACCATGTATCGATA
54626 CAA
1 CAA
54629 ACAGTGCTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACATTGCACCATGTATCGATA
Found at i:55278 original size:22 final size:22
Alignment explanation
Indices: 55253--55294 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
55243 AGATAAACAT
55253 ATTTCTCCCCCTTTATCAAAGC
1 ATTTCTCCCCCTTTATCAAAGC
* *
55275 ATTTTTCCCCCTTTGTCAAA
1 ATTTCTCCCCCTTTATCAAA
55295 TCTTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.33, G:0.05, T:0.40
Consensus pattern (22 bp):
ATTTCTCCCCCTTTATCAAAGC
Found at i:59597 original size:28 final size:28
Alignment explanation
Indices: 59556--59631 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
59546 TGGAGATAAC
* *
59556 AACGGGGCTAGAGTATCCCCTCA-AAAAT
1 AACGGGGTTGGAGTATCCCC-CATAAAAT
* * **
59584 AACGGGGTTGGAGTAGCCCCGATGTAAT
1 AACGGGGTTGGAGTATCCCCCATAAAAT
59612 AACGGGGTTGGAGTATCCCC
1 AACGGGGTTGGAGTATCCCC
59632 GATTGTGAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 1 0.03
28 39 0.98
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (28 bp):
AACGGGGTTGGAGTATCCCCCATAAAAT
Found at i:59632 original size:28 final size:28
Alignment explanation
Indices: 59581--59634 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
59571 TCCCCTCAAA
59581 AATAACGGGGTTGGAGTAGCCCCGATGT
1 AATAACGGGGTTGGAGTAGCCCCGATGT
*
59609 AATAACGGGGTTGGAGTATCCCCGAT
1 AATAACGGGGTTGGAGTAGCCCCGAT
59635 TGTGAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTAGCCCCGATGT
Found at i:59692 original size:51 final size:51
Alignment explanation
Indices: 59622--59733 Score: 170
Period size: 51 Copynumber: 2.2 Consensus size: 51
59612 AACGGGGTTG
* * *
59622 GAGTATCCCCGATTGTGAAAATTTGATGTTTTGGAAATAAAATCGAAGTTA
1 GAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGAAGTTA
* * *
59673 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGAGTTT
1 GAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGAAGTTA
59724 GAGTATCCCC
1 GAGTATCCCC
59734 TTGGAAATAA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.33
Consensus pattern (51 bp):
GAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGAAGTTA
Found at i:59755 original size:79 final size:79
Alignment explanation
Indices: 59669--59969 Score: 313
Period size: 79 Copynumber: 3.8 Consensus size: 79
59659 TAAAATCGAA
* *
59669 GTTAGAGTATCCCTGATTATGAAAAATTGATGTTTT-AGAAATAAAATCGGAGTTTGAGTATCCC
1 GTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGA-AAATAAAATCGGAGTTGGAGTATCCC
*
59733 CTTGGAAATAACGGG
65 CTTGAAAATAACGGG
* *
59748 GTTAGAGTATCCCCGATTAT-AGAAAATT-AGTGTTTTGAAAATAAAATCGGGGTTGGAGTATTC
1 GTTAGAGTATCCCCGATTATGA-AAAATTGA-TGTTTTGAAAATAAAATCGGAGTTGGAGTATCC
** *
59811 CCTCAAAAATAATGGG
64 CCTTGAAAATAACGGG
* * * * * * * ** * * *
59827 TTTGGAGTATCCCTGATTGTGGAAAATCGATGCTTT-AGAAATAAGGTCGGGGCTGGAGTATCTC
1 GTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGA-AAATAAAATCGGAGTTGGAGTATCCC
* *
59891 CGTGAAAATAACAGG
65 CTTGAAAATAACGGG
* * *
59906 GTTGGAGTATCCCCGATTGTGAGAAATTGATGTTTTGAAAATAAAATCGGAGTTGGAGTATCCC
1 GTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGAAAATAAAATCGGAGTTGGAGTATCCC
59970 TGATTGTGAA
Statistics
Matches: 179, Mismatches: 36, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
78 3 0.02
79 173 0.97
80 3 0.02
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (79 bp):
GTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCC
TTGAAAATAACGGG
Found at i:59864 original size:158 final size:157
Alignment explanation
Indices: 59673--59970 Score: 411
Period size: 158 Copynumber: 1.9 Consensus size: 157
59663 ATCGAAGTTA
* * * * * *
59673 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGAGTTTGAGTATCCCCTTGG
1 GAGTATCCCTGATTATGAAAAATCGATGCTTTAGAAATAAAATCGGAGCTGGAGTATCCCCGTGA
* *
59738 AAATAACGGGGTTAGAGTATCCCCGATTAT-AGAAAATT-AGTGTTTTGAAAATAAAATCGGGGT
66 AAATAACAGGGTTAGAGTATCCCCGATTATGAG-AAATTGA-TGTTTTGAAAATAAAATCGGAGT
59801 TGGAGTATTCCCTCAAAAATAATGGGTTTG
129 TGGAGTA-TCCCTCAAAAATAATGGGTTTG
* * ** * *
59831 GAGTATCCCTGATTGTGGAAAATCGATGCTTTAGAAATAAGGTCGGGGCTGGAGTATCTCCGTGA
1 GAGTATCCCTGATTATGAAAAATCGATGCTTTAGAAATAAAATCGGAGCTGGAGTATCCCCGTGA
* *
59896 AAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATTGATGTTTTGAAAATAAAATCGGAGTTG
66 AAATAACAGGGTTAGAGTATCCCCGATTATGAGAAATTGATGTTTTGAAAATAAAATCGGAGTTG
59961 GAGTATCCCT
131 GAGTATCCCT
59971 GATTGTGAAA
Statistics
Matches: 122, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
157 5 0.04
158 114 0.93
159 3 0.02
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (157 bp):
GAGTATCCCTGATTATGAAAAATCGATGCTTTAGAAATAAAATCGGAGCTGGAGTATCCCCGTGA
AAATAACAGGGTTAGAGTATCCCCGATTATGAGAAATTGATGTTTTGAAAATAAAATCGGAGTTG
GAGTATCCCTCAAAAATAATGGGTTTG
Found at i:60021 original size:51 final size:51
Alignment explanation
Indices: 59904--60021 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 51
59894 GAAAATAACA
* * *
59904 GGGTTGGAGTATCCCCGATTGTGAGAAATTGATGTTTTGAAAATAAAATCG
1 GGGTTGGAGTATCCCTGATTGTGAAAAATTGATGTTTAGAAAATAAAATCG
* *
59955 GAGTTGGAGTATCCCTGATTGTGAAAAATTAGTAT-TTTAG-AAATAAAATTG
1 GGGTTGGAGTATCCCTGATTGTGAAAAATT-G-ATGTTTAGAAAATAAAATCG
60006 GGGTTGGAGTATCCCT
1 GGGTTGGAGTATCCCT
60022 TCGAAAATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
51 52 0.88
52 5 0.08
53 2 0.03
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.33
Consensus pattern (51 bp):
GGGTTGGAGTATCCCTGATTGTGAAAAATTGATGTTTAGAAAATAAAATCG
Found at i:60109 original size:108 final size:107
Alignment explanation
Indices: 59957--60157 Score: 285
Period size: 108 Copynumber: 1.9 Consensus size: 107
59947 TAAAATCGGA
* * * * * ** *
59957 GTTGGAGTATCCCTGATTGTGAAAAATTAGTATTTTAGAAATAAAATTGGGGTTGGAGTATCCCT
1 GTTGGAGTACCCCCGATTATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
60022 TCGAAAATAACGGGATTGGAGTATCCCCGATGACATAATGGG
66 TCGAAAATAACGGGATTGGAGTATCCCCGATGACATAATGGG
* *
60064 GTTGGAGTACCCCCGATTATGAAAAAATCAATATTTTAGATATAAAGCCGGGGTTGGAGTATCCC
1 GTTGGAGTACCCCCGATTATG-AAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCC
* *
60129 CTCGTAAATAACGGGGTTGGAGTATCCCC
65 CTCGAAAATAACGGGATTGGAGTATCCCC
60158 AATTGTTAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
107 18 0.22
108 63 0.78
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (107 bp):
GTTGGAGTACCCCCGATTATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
TCGAAAATAACGGGATTGGAGTATCCCCGATGACATAATGGG
Found at i:60193 original size:238 final size:236
Alignment explanation
Indices: 59819--60257 Score: 576
Period size: 238 Copynumber: 1.8 Consensus size: 236
59809 TCCCTCAAAA
* * * * * * * * *
59819 ATAATGGGTTTGGAGTATCCCTGATTGTGGAAAATCGATGCTTTAGAAATAAGGTCGGGGCTGGA
1 ATAATGGGGTTGGAGTACCCCCGATTATGAAAAATCAATACTTTAGAAATAAAGCCGGGGCTGGA
* * * *
59884 GTATCTCCGTGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATTGATGTTTTGAAAATA
66 GTATCTCCCTGAAAATAACAGGGTTGGAGTATCCCCAATTGTGAAAAATTGATATTTTGAAAATA
* * * *
59949 AAATCGGAGTTGGAGTATCCCTGATTGTGAAAAATTAGTAT-TTTAGAAATAAAATTGGGGTTGG
131 AAATCGGAGTTGGAGTATCCCCGATTGCGAAAAA-TAG-ATCTTTAGAAATAAAATCGGAGTTGG
60013 AGTATCCCTTCGAAAATAACGGGATTGGAGTATCCCCGATGAC
194 AGTATCCCTTCGAAAATAACGGGATTGGAGTATCCCCGATGAC
* * *
60056 ATAATGGGGTTGGAGTACCCCCGATTATGAAAAAATCAATATTTTAGATATAAAGCCGGGGTTGG
1 ATAATGGGGTTGGAGTACCCCCGATTATG-AAAAATCAATACTTTAGAAATAAAGCCGGGGCTGG
* * * *
60121 AGTATC-CCCTCGTAAATAACGGGGTTGGAGTATCCCCAATTGTTAAAAATTGGTATTTTGAAAA
65 AGTATCTCCCT-GAAAATAACAGGGTTGGAGTATCCCCAATTGTGAAAAATTGATATTTTGAAAA
** *
60185 TAAAATCGGAGTTGGAGTATCCCCGATTGCGGTAAATCGATGCTTTAGAAATAAAATCGGAGTTG
129 TAAAATCGGAGTTGGAGTATCCCCGATTGCGAAAAATAGAT-CTTTAGAAATAAAATCGGAGTTG
60250 GAGTATCC
193 GAGTATCC
60258 TAGATTAAGA
Statistics
Matches: 171, Mismatches: 27, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
236 2 0.01
237 30 0.18
238 139 0.81
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (236 bp):
ATAATGGGGTTGGAGTACCCCCGATTATGAAAAATCAATACTTTAGAAATAAAGCCGGGGCTGGA
GTATCTCCCTGAAAATAACAGGGTTGGAGTATCCCCAATTGTGAAAAATTGATATTTTGAAAATA
AAATCGGAGTTGGAGTATCCCCGATTGCGAAAAATAGATCTTTAGAAATAAAATCGGAGTTGGAG
TATCCCTTCGAAAATAACGGGATTGGAGTATCCCCGATGAC
Found at i:60207 original size:51 final size:51
Alignment explanation
Indices: 60144--60257 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 51
60134 AAATAACGGG
** * * *
60144 GTTGGAGTATCCCCAATTGTTAAAAATTGGTA-TTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCAATTGCGAAAAATCGATACTTTAG-AAATAAAATCGGA
* ** *
60195 GTTGGAGTATCCCCGATTGCGGTAAATCGATGCTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCAATTGCGAAAAATCGATACTTTAGAAATAAAATCGGA
60246 GTTGGAGTATCC
1 GTTGGAGTATCC
60258 TAGATTAAGA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 49 0.92
52 4 0.08
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCAATTGCGAAAAATCGATACTTTAGAAATAAAATCGGA
Found at i:62602 original size:20 final size:21
Alignment explanation
Indices: 62577--62635 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
62567 AAAATGCCTG
*
62577 AATGTATCGATACATTGTA-A
1 AATGTATCGATACAATGTAGA
*
62597 AATGTATCGATACAATG-AGC
1 AATGTATCGATACAATGTAGA
62617 AATGTATCGATACAATGTA
1 AATGTATCGATACAATGTA
62636 TCGACACAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 1 0.03
20 33 0.94
21 1 0.03
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.31
Consensus pattern (21 bp):
AATGTATCGATACAATGTAGA
Found at i:62639 original size:33 final size:33
Alignment explanation
Indices: 62597--62666 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
62587 TACATTGTAA
* **
62597 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGACACAACAAGCAATGTATCGATAC
*
62630 AATGTATCGACACAACAAGTAATGTATCGATAC
1 AATGTATCGACACAACAAGCAATGTATCGATAC
62663 AATG
1 AATG
62667 CAAAATGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (33 bp):
AATGTATCGACACAACAAGCAATGTATCGATAC
Found at i:62673 original size:20 final size:20
Alignment explanation
Indices: 62577--62681 Score: 77
Period size: 20 Copynumber: 5.6 Consensus size: 20
62567 AAAATGCCTG
* *
62577 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATGCAA
*
62597 AATGTATCGATACAATG-AGC
1 AATGTATCGATACAATGCA-A
62617 AATGTATCGAT---A--C--
1 AATGTATCGATACAATGCAA
*
62630 AATGTATCGACACAA--CAA
1 AATGTATCGATACAATGCAA
62648 GTAATGTATCGATACAATGCAA
1 --AATGTATCGATACAATGCAA
62670 AATGTATCGATA
1 AATGTATCGATA
62682 AATCTAGGTA
Statistics
Matches: 70, Mismatches: 4, Indels: 22
0.73 0.04 0.23
Matches are distributed among these distances:
13 10 0.14
16 2 0.03
17 1 0.01
19 1 0.01
20 53 0.76
22 3 0.04
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGCAA
Found at i:62737 original size:20 final size:20
Alignment explanation
Indices: 62709--62747 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
62699 AATGTATAAA
*
62709 TGAATAATGTATCGATACAG
1 TGAACAATGTATCGATACAG
62729 TGAACAATGTATCGATACA
1 TGAACAATGTATCGATACA
62748 AATTATGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (20 bp):
TGAACAATGTATCGATACAG
Found at i:67259 original size:19 final size:19
Alignment explanation
Indices: 67215--67270 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
67205 CTGCCAATTT
**
67215 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
67235 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
67254 CATGTATTGATACAATG
1 CATGTATCGATACAATG
67271 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:68077 original size:2 final size:2
Alignment explanation
Indices: 68070--68101 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
68060 AAAATGTCAA
68070 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
68102 TAGTAATGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72427 original size:1 final size:1
Alignment explanation
Indices: 72421--72447 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
72411 CCAAAGCCAG
72421 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
72448 CCCTGTTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:76919 original size:2 final size:2
Alignment explanation
Indices: 76907--76941 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
76897 TTGAAGTAAC
*
76907 AT AT GT AT AT 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 A
76942 GCAAAATTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:79602 original size:2 final size:2
Alignment explanation
Indices: 79595--79622 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
79585 GATCCTGCAA
79595 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
79623 GAAAACTTGC
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:82360 original size:41 final size:41
Alignment explanation
Indices: 82303--82384 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
82293 TCCTCATATT
82303 TAACTATGTTAAATGAAAATTTTAAAGGAGAAAAGTGTAAA
1 TAACTATGTTAAATGAAAATTTTAAAGGAGAAAAGTGTAAA
82344 TAACTATGTTAAATGAAAATTTTAAAGGAGAAAAGTGTAAA
1 TAACTATGTTAAATGAAAATTTTAAAGGAGAAAAGTGTAAA
82385 AAGAAAGATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.51, C:0.02, G:0.17, T:0.29
Consensus pattern (41 bp):
TAACTATGTTAAATGAAAATTTTAAAGGAGAAAAGTGTAAA
Found at i:85948 original size:23 final size:21
Alignment explanation
Indices: 85922--85971 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 21
85912 GATAGAACCT
85922 CTTAATTCCCTTAAG-AATTATA
1 CTTAATT--CTTAAGTAATTATA
85944 CCTTAAATTCTTAAGTAATTATA
1 -CTT-AATTCTTAAGTAATTATA
85967 CTTAA
1 CTTAA
85972 GGTTGCACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 2 0.08
22 9 0.36
23 10 0.40
24 4 0.16
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.42
Consensus pattern (21 bp):
CTTAATTCTTAAGTAATTATA
Found at i:86518 original size:13 final size:13
Alignment explanation
Indices: 86500--86524 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86490 CATTGCAAGG
86500 TGTATCGATACAA
1 TGTATCGATACAA
86513 TGTATCGATACA
1 TGTATCGATACA
86525 TTGCAATATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:86524 original size:33 final size:33
Alignment explanation
Indices: 86478--86544 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
86468 ACTTTCACAT
* *
86478 AATGTATCTATACATTGCAAGGTGTATCGATAC
1 AATGTATCGATACATTGCAAGATGTATCGATAC
*
86511 AATGTATCGATACATTGCAATATGTATCGATAC
1 AATGTATCGATACATTGCAAGATGTATCGATAC
86544 A
1 A
86545 TTTTCATGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (33 bp):
AATGTATCGATACATTGCAAGATGTATCGATAC
Found at i:87955 original size:9 final size:9
Alignment explanation
Indices: 87943--87968 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
87933 TAGTCTAGAA
87943 TATCTAAAT
1 TATCTAAAT
87952 TATCTAAAT
1 TATCTAAAT
87961 TATCTAAA
1 TATCTAAA
87969 ATGTGAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (9 bp):
TATCTAAAT
Found at i:88525 original size:17 final size:18
Alignment explanation
Indices: 88503--88541 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
88493 TACAGTTAGC
88503 TTTGCC-TATAGTTAACT
1 TTTGCCTTATAGTTAACT
* *
88520 TTTGCCTTTTTGTTAACT
1 TTTGCCTTATAGTTAACT
88538 TTTG
1 TTTG
88542 ATCATGACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.15, C:0.15, G:0.13, T:0.56
Consensus pattern (18 bp):
TTTGCCTTATAGTTAACT
Found at i:89334 original size:65 final size:62
Alignment explanation
Indices: 89256--89443 Score: 159
Period size: 62 Copynumber: 3.0 Consensus size: 62
89246 ACCTGTCTTC
*
89256 TGCCTAACCAACTAGA-GTGGATTTAACAAG-GAAAAATTAAAAAGGTGCCAACTTTAT-TAGTC
1 TGCCTAACCAACTA-ATGTGGACTTAA-AAGAG-AAAA-T-AAAAGGTGCCAACTTT-TCTAGTC
89318 TAA
60 TAA
* **
89321 TGCCTAACCAACTAATGTGGACTTAAAAGAGAAAATAAAAGGTGCTAACTTTTCTAGTCTTC
1 TGCCTAACCAACTAATGTGGACTTAAAAGAGAAAATAAAAGGTGCCAACTTTTCTAGTCTAA
* * * * * * ** *
89383 TACCTAACCAAATAAAGCT-AATTTAATAAGAAAAAATAAAAGAAGCCAACTTTACTAGTCT
1 TGCCTAACCAACTAATG-TGGACTTAA-AAGAGAAAATAAAAGGTGCCAACTTTTCTAGTCT
89444 TTTGCCAAAG
Statistics
Matches: 104, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
61 1 0.01
62 40 0.38
63 31 0.30
64 8 0.08
65 24 0.23
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (62 bp):
TGCCTAACCAACTAATGTGGACTTAAAAGAGAAAATAAAAGGTGCCAACTTTTCTAGTCTAA
Found at i:89389 original size:62 final size:65
Alignment explanation
Indices: 89250--89393 Score: 174
Period size: 62 Copynumber: 2.3 Consensus size: 65
89240 AGCTCTACCT
*
89250 GTCTTCTGCCTAACCAACTAGAGTGGATTTAACAAGGAAAAATTAAAAAGGTGCCAACTTTATTA
1 GTCTTCTGCCTAACCAACTAGAGTGGACTTAACAAGGAAAAATTAAAAAGGTGCCAACTTTATTA
** *
89315 GTCTAATGCCTAACCAACTA-ATGTGGACTTAA-AA-GAGAAAA-T-AAAAGGTGCTAACTTT-T
1 GTCTTCTGCCTAACCAACTAGA-GTGGACTTAACAAGGA-AAAATTAAAAAGGTGCCAACTTTAT
89374 CTA
64 -TA
*
89377 GTCTTCTACCTAACCAA
1 GTCTTCTGCCTAACCAA
89394 ATAAAGCTAA
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
61 1 0.01
62 31 0.45
63 3 0.04
64 7 0.10
65 27 0.39
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (65 bp):
GTCTTCTGCCTAACCAACTAGAGTGGACTTAACAAGGAAAAATTAAAAAGGTGCCAACTTTATTA
Found at i:89434 original size:63 final size:62
Alignment explanation
Indices: 89343--89463 Score: 152
Period size: 63 Copynumber: 1.9 Consensus size: 62
89333 TAATGTGGAC
* ** * * *
89343 TTAAAAGAGAAAATAAAAGGTGCTAACTTTTCTAGTCTTCTACCTAACCAAATAAAGCTAAT
1 TTAAAAGAAAAAATAAAAGAAGCCAACTTTACTAGTCTTCTACCAAACCAAATAAAGCTAAT
* * *
89405 TTAATAAGAAAAAATAAAAGAAGCCAACTTTACTAGTCTTTTGCCAAAGCAAATAAAGC
1 TTAA-AAGAAAAAATAAAAGAAGCCAACTTTACTAGTCTTCTACCAAACCAAATAAAGC
89464 AGACTTAAGA
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
62 4 0.08
63 45 0.92
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.26
Consensus pattern (62 bp):
TTAAAAGAAAAAATAAAAGAAGCCAACTTTACTAGTCTTCTACCAAACCAAATAAAGCTAAT
Found at i:89493 original size:47 final size:46
Alignment explanation
Indices: 89442--89577 Score: 134
Period size: 46 Copynumber: 2.9 Consensus size: 46
89432 CTTTACTAGT
* * ** *
89442 CTTTTGCCAAAGCAAATAAAGCA-GACTTAAGAAAAACCCTT-ACTGAC
1 CTTTTGCCTAATCAAATAAAG-ATGACAAAAGAAAAA--CTTCACTAAC
* *
89489 CTTTTGCTTAATCAGATAAAGATGACAAAAGAAAAACTTCACTAAC
1 CTTTTGCCTAATCAAATAAAGATGACAAAAGAAAAACTTCACTAAC
* *
89535 CTTTTGCCTAATCAAATAAAG-TAAACAAAATAAAAACTTCACT
1 CTTTTGCCTAATCAAATAAAGAT-GACAAAAGAAAAACTTCACT
89578 GATTTTCTAC
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
45 4 0.05
46 43 0.57
47 28 0.37
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.25
Consensus pattern (46 bp):
CTTTTGCCTAATCAAATAAAGATGACAAAAGAAAAACTTCACTAAC
Found at i:90163 original size:22 final size:22
Alignment explanation
Indices: 90138--90181 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
90128 GTGGCAATTT
*
90138 TATCGATCT-TCTACTTGACTAA
1 TATCGATCTCT-TACCTGACTAA
90160 TATCGATCTCTTACCTGACTAA
1 TATCGATCTCTTACCTGACTAA
90182 CTAAACTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.39
Consensus pattern (22 bp):
TATCGATCTCTTACCTGACTAA
Found at i:99422 original size:56 final size:56
Alignment explanation
Indices: 99349--99603 Score: 176
Period size: 59 Copynumber: 4.4 Consensus size: 56
99339 AAAGATAATC
* *
99349 GAAATGAAA-CAATGGTTCTAAGAAATGGCTTGAATAAAACTAGC-CTAAAAACTACTT
1 GAAA-GAAACCAA-GGTT-TAAGAAATGGCTTGAACAAAACTAGCACTAAAAACAACTT
* * * * * * *
99406 GAAAGAAACTAAGGTTCAAAGAAATTGTTTGGACAAAACTAGCAATCGAAAGACAACTT
1 GAAAGAAACCAAGGTT-TAAGAAATGGCTTGAACAAAACTAGC-A-CTAAAAACAACTT
* * * * * * *
99465 GGAAGAAACCAAGGTTTTGAGAAATTGCCTGGACGAAACTAGCAACATAAAGACAACTT
1 GAAAGAAACCAAGG-TTTAAGAAATGGCTTGAACAAAACTAGC-AC-TAAAAACAACTT
* * * *
99524 -AGATGAAACCAAGGTTTAAAGAAATGACTTTAACAAAACTAGC-CTAAAAACTACTT
1 GA-AAGAAACCAAGGTTT-AAGAAATGGCTTGAACAAAACTAGCACTAAAAACAACTT
* *
99580 GGACGAAACCAAGGTTTAAAGAAA
1 GAAAGAAACCAAGGTTT-AAGAAA
99604 CGACCCAAAC
Statistics
Matches: 159, Mismatches: 30, Indels: 19
0.76 0.14 0.09
Matches are distributed among these distances:
56 61 0.38
57 7 0.04
58 4 0.03
59 85 0.53
60 2 0.01
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.21
Consensus pattern (56 bp):
GAAAGAAACCAAGGTTTAAGAAATGGCTTGAACAAAACTAGCACTAAAAACAACTT
Found at i:99479 original size:59 final size:58
Alignment explanation
Indices: 99384--99603 Score: 209
Period size: 59 Copynumber: 3.8 Consensus size: 58
99374 TGGCTTGAAT
* * * * *
99384 AAAACTAGC--CTAAAAACTACTTGAAAGAAACTAAGGTTCAAAGAAATTGTTTGGAC
1 AAAACTAGCAACTAAAGACAACTTGGAAGAAACCAAGGTTTAAAGAAATTGTTTGGAC
* ** **
99440 AAAACTAGCAATCGAAAGACAACTTGGAAGAAACCAAGGTTTTGAGAAATTGCCTGGAC
1 AAAACTAGCAA-CTAAAGACAACTTGGAAGAAACCAAGGTTTAAAGAAATTGTTTGGAC
* * * *
99499 GAAACTAGCAACATAAAGACAACTTAGATGAAACCAAGGTTTAAAGAAA-TGACTTT-AAC
1 AAAACTAGCAAC-TAAAGACAACTTGGAAGAAACCAAGGTTTAAAGAAATTG--TTTGGAC
* * *
99558 AAAACTAGC--CTAAAAACTACTTGGACGAAACCAAGGTTTAAAGAAA
1 AAAACTAGCAACTAAAGACAACTTGGAAGAAACCAAGGTTTAAAGAAA
99604 CGACCCAAAC
Statistics
Matches: 134, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
56 41 0.31
57 1 0.01
58 3 0.02
59 88 0.66
60 1 0.01
ACGTcount: A:0.47, C:0.16, G:0.17, T:0.20
Consensus pattern (58 bp):
AAAACTAGCAACTAAAGACAACTTGGAAGAAACCAAGGTTTAAAGAAATTGTTTGGAC
Found at i:99656 original size:55 final size:55
Alignment explanation
Indices: 99528--99732 Score: 171
Period size: 55 Copynumber: 3.7 Consensus size: 55
99518 CAACTTAGAT
* * * * * * * * * *
99528 GAAACCAAGGTTTAAAGAAATGACTTTAACAAAACTAGCCTAAAAACTACTTGGAC
1 GAAACCAAGGTTCAAAGAAACGACCTAAACGAAACCAGCCT-AAAACAACCTCGAG
* * *
99584 GAAACCAAGGTTTAAAGAAACGACCCAAACGAAACCAGCTTAAAACAACCT-GAAG
1 GAAACCAAGGTTCAAAGAAACGACCTAAACGAAACCAGCCTAAAACAACCTCG-AG
* ** * *
99639 GAAACCAAGGTTCAAAGAAATC-ACTTGGACAAAACCAGCCTAAAACAACCTCGAT
1 GAAACCAAGGTTCAAAGAAA-CGACCTAAACGAAACCAGCCTAAAACAACCTCGAG
* * * *
99694 GAAACCAATGTTCAAAGAAATGGCCTAAATGAAACCAGC
1 GAAACCAAGGTTCAAAGAAACGACCTAAACGAAACCAGC
99733 ATGAAGACGA
Statistics
Matches: 119, Mismatches: 26, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
54 1 0.01
55 82 0.69
56 36 0.30
ACGTcount: A:0.47, C:0.22, G:0.16, T:0.16
Consensus pattern (55 bp):
GAAACCAAGGTTCAAAGAAACGACCTAAACGAAACCAGCCTAAAACAACCTCGAG
Found at i:99673 original size:111 final size:110
Alignment explanation
Indices: 99528--99732 Score: 266
Period size: 110 Copynumber: 1.9 Consensus size: 110
99518 CAACTTAGAT
* * * * * * *
99528 GAAACCAAGGTTTAAAGAAATGACTTTAACAAAACTAGCCTAAAAACTACTTGGACGAAACCAAG
1 GAAACCAAGGTTCAAAGAAATCACTTGAACAAAACCAGCCT-AAAACAACCTCGACGAAACCAAG
*
99593 GTTTAAAGAAACGACCCAAACGAAACCAGCTTAAAACAACCTGAAG
65 GTTCAAAGAAACGACCCAAACGAAACCAGCTTAAAACAACCTGAAG
* * *
99639 GAAACCAAGGTTCAAAGAAATCACTTGGACAAAACCAGCCTAAAACAACCTCGATGAAACCAATG
1 GAAACCAAGGTTCAAAGAAATCACTTGAACAAAACCAGCCTAAAACAACCTCGACGAAACCAAGG
* * * *
99704 TTCAAAGAAATGGCCTAAATGAAACCAGC
66 TTCAAAGAAACGACCCAAACGAAACCAGC
99733 ATGAAGACGA
Statistics
Matches: 79, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
110 43 0.54
111 36 0.46
ACGTcount: A:0.47, C:0.22, G:0.16, T:0.16
Consensus pattern (110 bp):
GAAACCAAGGTTCAAAGAAATCACTTGAACAAAACCAGCCTAAAACAACCTCGACGAAACCAAGG
TTCAAAGAAACGACCCAAACGAAACCAGCTTAAAACAACCTGAAG
Found at i:101682 original size:17 final size:17
Alignment explanation
Indices: 101660--101692 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
101650 CTAATGCTCT
101660 ATTTTTT-TCATTTTTTA
1 ATTTTTTCTC-TTTTTTA
101677 ATTTTTTCTCTTTTTT
1 ATTTTTTCTCTTTTTT
101693 CTTTATGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (17 bp):
ATTTTTTCTCTTTTTTA
Found at i:102373 original size:16 final size:16
Alignment explanation
Indices: 102334--102378 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
102324 TGATGCTGCA
* *
102334 TTCAAATTTGATTTTT
1 TTCAATTTTCATTTTT
102350 TTCAATTTTCATTTCTT
1 TTCAATTTTCATTT-TT
*
102367 TTCATTTTTCAT
1 TTCAATTTTCAT
102379 GCCCCAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.20, C:0.13, G:0.02, T:0.64
Consensus pattern (16 bp):
TTCAATTTTCATTTTT
Found at i:104370 original size:169 final size:161
Alignment explanation
Indices: 103949--104387 Score: 395
Period size: 169 Copynumber: 2.7 Consensus size: 161
103939 AAATTACTAC
* * * * * *
103949 TTTTTCTACTTCGTAAAT-TTTTTTGGGAGCTTTTTTCTTAGTTTTTAA-TTTTAAAATTCTTCA
1 TTTTT-TACTTCGTAAATATTTTTGGGGAG-ATTTTTCTTA-ATTTAAATTTTTAAAATTCATCT
* * * * * **
104012 AATATTATTATTTGATTCATATTATAAT-AGTTTTGAAAATTTATTTCATTTTCATGAGTTTTGG
63 AATATTATTATTTAATCCA-ATTA-AATCAATTTTGAAAATTTAATTCATTTTCACGAGGATTGG
*
104076 ATTTTTTTTGAAATCCTTTTTTCCCAAAAAACTGAG
126 ATTTTCTTTGAAATCCTTTTTTCCCAAAAAACTGAG
* * * * **
104112 TTTTCTA-TTCTATAAATATTTTCGGGGGGA-TTTTCTTTGGTTTAAAATTTTTAAAATGT-ATC
1 TTTTTTACTTC-GTAAATATTTTTGGGGAGATTTTTC-TTAATTT-AAATTTTTAAAAT-TCATC
* * * ** *
104174 TAATAATGTCATGGAATTCCTATTAAATCAATTTTGAAAATTTAATTCATTTTCACGAGGATTGG
62 TAATATTATTATTTAA-TCCAATTAAATCAATTTTGAAAATTTAATTCATTTTCACGAGGATTGG
* *
104239 AATTTTCACTTTGAAATGCCCATTTTTTTCTAAAAAACTGAG
126 -ATTTT--CTTTGAAAT--CC-TTTTTTCCCAAAAAACTGAG
*
104281 TTTTTTACTTCGTAAATATTTTTGGGGAGATTTTTCTTAATTTAAATTTTTTTAAATTCATCTAA
1 TTTTTTACTTCGTAAATATTTTTGGGGAGATTTTTCTTAATTTAAA-TTTTTAAAATTCATCTAA
* *
104346 TATTATTATTTAACTCCAATTAAATCATTTTTGAAAAATTAA
65 TATTATTATTTAA-TCCAATTAAATCAATTTTGAAAATTTAA
104388 ATTTATATTA
Statistics
Matches: 215, Mismatches: 43, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
161 11 0.05
162 14 0.07
163 67 0.31
164 8 0.04
166 8 0.04
168 6 0.03
169 93 0.43
170 8 0.04
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.49
Consensus pattern (161 bp):
TTTTTTACTTCGTAAATATTTTTGGGGAGATTTTTCTTAATTTAAATTTTTAAAATTCATCTAAT
ATTATTATTTAATCCAATTAAATCAATTTTGAAAATTTAATTCATTTTCACGAGGATTGGATTTT
CTTTGAAATCCTTTTTTCCCAAAAAACTGAG
Found at i:104755 original size:11 final size:10
Alignment explanation
Indices: 104740--104777 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
104730 AAAACTCAGC
104740 AAAAAAAGAG
1 AAAAAAAGAG
104750 AGAAAAAAGAG
1 A-AAAAAAGAG
104761 AAAAAAAGCA-
1 AAAAAAAG-AG
104771 AAAAAAA
1 AAAAAAA
104778 ATGGAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 11 0.42
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:107634 original size:13 final size:13
Alignment explanation
Indices: 107616--107640 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107606 ACATTATGCT
107616 TTGTATCGATACA
1 TTGTATCGATACA
107629 TTGTATCGATAC
1 TTGTATCGATAC
107641 CTGTTCATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:107735 original size:33 final size:32
Alignment explanation
Indices: 107691--107760 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 32
107681 CTAGCACTGT
107691 TTGTATCGATACATG-GCACATTGTATCAATACA
1 TTGTATCGATACATGAG-A-ATTGTATCAATACA
*
107724 TTGTATTGATACATGAAGAATTGTATCAATACA
1 TTGTATCGATACATG-AGAATTGTATCAATACA
107757 TTGT
1 TTGT
107761 CCCAAACGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
33 32 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TTGTATCGATACATGAGAATTGTATCAATACA
Found at i:109378 original size:15 final size:15
Alignment explanation
Indices: 109355--109385 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
109345 ATCAAAGATA
109355 ATGAAGATAATGATG
1 ATGAAGATAATGATG
*
109370 ATGATGATAATGATG
1 ATGAAGATAATGATG
109385 A
1 A
109386 AGTTGACTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (15 bp):
ATGAAGATAATGATG
Found at i:112831 original size:20 final size:19
Alignment explanation
Indices: 112806--112919 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 19
112796 TTTTACCCAG
112806 ATGTATCGATACATCTTCCA
1 ATGTATCGATACATCTT-CA
* *
112826 ATGTATCGATGCAT-TACCA
1 ATGTATCGATACATCT-TCA
112845 GATGTATCGATACATCTTTCA
1 -ATGTATCGATACATC-TTCA
* *
112866 ATGTATCGATACATGTATGA
1 ATGTATCGATACATCT-TCA
112886 ATGTATCGATACATTCTTCA
1 ATGTATCGATACA-TCTTCA
*
112906 ATGTTTCGATACAT
1 ATGTATCGATACAT
112920 TCTGTTATTT
Statistics
Matches: 79, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
19 5 0.06
20 69 0.87
21 4 0.05
22 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGTATCGATACATCTTCA
Found at i:112854 original size:40 final size:39
Alignment explanation
Indices: 112802--112920 Score: 159
Period size: 40 Copynumber: 3.0 Consensus size: 39
112792 ACATTTTTAC
*
112802 CCAGATGTATCGATACATCTTCCAATGTATCGATGCATTA
1 CCAGATGTATCGATACATCTT-CAATGTATCGATACATTA
112842 CCAGATGTATCGATACATCTTTCAATGTATCGATACATGTA
1 CCAGATGTATCGATACATC-TTCAATGTATCGATACAT-TA
** *
112883 TGA-ATGTATCGATACATTCTTCAATGTTTCGATACATT
1 CCAGATGTATCGATACA-TCTTCAATGTATCGATACATT
112921 CTGTTATTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
39 1 0.01
40 64 0.89
41 7 0.10
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.36
Consensus pattern (39 bp):
CCAGATGTATCGATACATCTTCAATGTATCGATACATTA
Found at i:120571 original size:6 final size:6
Alignment explanation
Indices: 120570--120602 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
120560 TAAAAATTAA
120570 AAATTC AAATTC AAATTC AAATTC AAATTC AAA
1 AAATTC AAATTC AAATTC AAATTC AAATTC AAA
120603 AAATAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTC
Found at i:120874 original size:50 final size:50
Alignment explanation
Indices: 120731--120893 Score: 274
Period size: 50 Copynumber: 3.3 Consensus size: 50
120721 AATAGAAAAT
*
120731 GCATGCATGGGAAAGCATAAAGATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
* * *
120781 GCATGCATGGGAAAACA-CAAAATTGCAATTGGAGACAAAACATGCGGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
120830 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
*
120880 ACATGCATGGGAAA
1 GCATGCATGGGAAA
120894 TGAAAAAAGC
Statistics
Matches: 104, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
49 45 0.43
50 59 0.57
ACGTcount: A:0.43, C:0.15, G:0.27, T:0.15
Consensus pattern (50 bp):
GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
Found at i:121312 original size:24 final size:20
Alignment explanation
Indices: 121285--121339 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 20
121275 ACAAGAAGAC
121285 AACAGCAAGCATCAACGAAGGAA
1 AACAGCAAGCAT-AA-G-AGGAA
*
121308 GAACAGCGAGCA-AAGAGGAA
1 -AACAGCAAGCATAAGAGGAA
121328 AACAGCAAGCAT
1 AACAGCAAGCAT
121340 TAAAGGGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 10 0.36
20 5 0.18
21 1 0.04
22 2 0.07
24 10 0.36
ACGTcount: A:0.51, C:0.20, G:0.25, T:0.04
Consensus pattern (20 bp):
AACAGCAAGCATAAGAGGAA
Found at i:121494 original size:18 final size:18
Alignment explanation
Indices: 121471--121539 Score: 77
Period size: 18 Copynumber: 3.8 Consensus size: 18
121461 GCAACAACAG
121471 CAGCAACTCCAGCAACGA
1 CAGCAACTCCAGCAACGA
* *
121489 CTGCAACTCCAGCAAGCAA
1 CAGCAACTCCAGCAA-CGA
* *
121508 CAGCAGCTCCAGCGA-GA
1 CAGCAACTCCAGCAACGA
121525 GCAGCAACTCCAGCA
1 -CAGCAACTCCAGCA
121540 GGTAGCAATT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
17 1 0.02
18 26 0.63
19 14 0.34
ACGTcount: A:0.35, C:0.38, G:0.20, T:0.07
Consensus pattern (18 bp):
CAGCAACTCCAGCAACGA
Found at i:121518 original size:37 final size:39
Alignment explanation
Indices: 121440--121539 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 39
121430 CTCCAGTAGC
121440 CAACGACTGCAACTCCAGCACGCAACAACAGCAGCAACTCCAG
1 CAACGACTGCAACTCCAGCA--CAACAACAGCAG--ACTCCAG
*
121483 CAACGACTGCAACTCCAGCA-AGCAACAGCAG-CTCCAG
1 CAACGACTGCAACTCCAGCACAACAACAGCAGACTCCAG
* *
121520 CGA-GAGCAGCAACTCCAGCA
1 CAACGA-CTGCAACTCCAGCA
121540 GGTAGCAATT
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
36 2 0.04
37 21 0.40
40 10 0.19
43 20 0.38
ACGTcount: A:0.36, C:0.38, G:0.19, T:0.07
Consensus pattern (39 bp):
CAACGACTGCAACTCCAGCACAACAACAGCAGACTCCAG
Found at i:122520 original size:51 final size:50
Alignment explanation
Indices: 122465--122591 Score: 150
Period size: 53 Copynumber: 2.5 Consensus size: 50
122455 CAATTGCTCG
122465 TAATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTCCTT-
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACCAATTT--TTA
* **
122516 TAATCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCA
1 TAATC--GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTT-A
*
122569 CAATCGGGGATACTCCAACCCCG
1 TAATCGGGGATACTCCAACCCCG
122592 TTATTTCCGA
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
51 25 0.37
53 41 0.61
54 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (50 bp):
TAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTA
Found at i:122653 original size:79 final size:79
Alignment explanation
Indices: 122520--122990 Score: 773
Period size: 79 Copynumber: 6.0 Consensus size: 79
122510 TTCCTTTAAT
* * *
122520 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
122585 AACCCCGTTATTTC
66 AACCCCGTTATTTC
*
122599 CGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
* *
122664 AATCCCATTATTTC
66 AACCCCGTTATTTC
* *
122678 TGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
*
122743 AACCCCGTTATTTT
66 AACCCCGTTATTTC
* * *
122757 CGAGGGGATACTCCAACCCCGG-TTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
*
122821 AACCCCGTTATTTT
66 AACCCCGTTATTTC
* * *
122835 CGAGGGGATACTCCAACCCCGGTTTTATTTTTAAAATATTAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
122900 AACCCCGTTATTTC
66 AACCCCGTTATTTC
* *
122914 CGAGGGAATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCT
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
122979 AACCCCGTTATT
66 AACCCCGTTATT
122991 ATCTCCAAAA
Statistics
Matches: 366, Mismatches: 25, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
78 74 0.20
79 292 0.80
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
AACCCCGTTATTTC
Found at i:122933 original size:236 final size:237
Alignment explanation
Indices: 122519--122990 Score: 838
Period size: 236 Copynumber: 2.0 Consensus size: 237
122509 TTTCCTTTAA
122519 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
122584 CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCAT
66 CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCAT
* * *
122649 AATCGGGGATACTCCAATCCCATTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
131 AATCGGGGATACTCCAACCCCATTATTTCCGAGGGAATACTCCAACCCCGGTTTTATTTCTAAAA
122714 CACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT
196 CACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT
122756 TCGAGGGGATACTCCAACCCCGG-TTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
* * * * *
122820 CAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTTTAAAATATTAATTTTTCAT
66 CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCAT
*
122885 AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGAATACTCCAACCCCGGTTTTATTTCTAAAA
131 AATCGGGGATACTCCAACCCCATTATTTCCGAGGGAATACTCCAACCCCGGTTTTATTTCTAAAA
* *
122950 CATCAATTTTTCATAATCGGGGATACTCTAACCCCGTTATT
196 CACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATT
122991 ATCTCCAAAA
Statistics
Matches: 224, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
236 201 0.90
237 23 0.10
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (237 bp):
TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCAT
AATCGGGGATACTCCAACCCCATTATTTCCGAGGGAATACTCCAACCCCGGTTTTATTTCTAAAA
CACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT
Found at i:136694 original size:62 final size:61
Alignment explanation
Indices: 136384--137167 Score: 1054
Period size: 60 Copynumber: 12.9 Consensus size: 61
136374 GAGTAGGACG
* ** *
136384 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCCTCAAAGAGTAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACGCCTTTT
* * *
136446 CCTTTTAAAGCCCACACAAGCTAGTGGCACC-TTCAGTCTTCAAAGAGCAGGACG-CTTTCG
1 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTT-T
136506 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* *
136566 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTT-AGTCTTCAAAGAGCAGGACG-CTTTCG
1 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTT-T
* * * *
136626 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCCGGTCCTCAAAGAGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTT
* * * **
136688 CCTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTCAGTCCTCAAAAAGCAGGACACCTTCG
1 CCTTTTAAAGCCCACACAAGCTGGTGGCACC-TTTCAGTCCTCAAAGAGCAGGACGCCTTTT
136750 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * **
136810 CC-TTTAAAGCCCACACAAGCTGGTGGCACC-TTCAGTCCTCAAAAAGCAGGACACCTTCG
1 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
*
136869 CCTTTTTAAGCCCACACAAGCTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
136929 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTT-AGTCTTCAAAGAGCAGGAC-ACTTTCG
1 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTT-T
* * *
136989 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGCTGGTGGCAC-CTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
137051 -CTTTTCAAAGCCCACGCAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
1 CCTTTT-AAAGCCCACACAAGCTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACGCCTTTT
* * *
137113 -CTTTTCAAAAAGCCCACACGAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGA
1 CCTTTT---AAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA
137168 TACACTTTAT
Statistics
Matches: 647, Mismatches: 56, Indels: 37
0.87 0.08 0.05
Matches are distributed among these distances:
58 2 0.00
59 64 0.10
60 303 0.47
61 26 0.04
62 198 0.31
63 29 0.04
64 25 0.04
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:137884 original size:12 final size:12
Alignment explanation
Indices: 137867--137893 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
137857 TAAAAATTAA
137867 AAATTCAAATTC
1 AAATTCAAATTC
137879 AAATTCAAATTC
1 AAATTCAAATTC
137891 AAA
1 AAA
137894 AAATAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATTCAAATTC
Found at i:138163 original size:50 final size:50
Alignment explanation
Indices: 138020--138182 Score: 274
Period size: 50 Copynumber: 3.3 Consensus size: 50
138010 AATAGAAAAT
*
138020 GCATGCATGGGAAAGCATAAAGATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
* * *
138070 GCATGCATGGGAAAACA-CAAAATTGCAATTGGAGACAAAACATGCGGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
138119 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
*
138169 ACATGCATGGGAAA
1 GCATGCATGGGAAA
138183 TGAAAAAAGC
Statistics
Matches: 104, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
49 45 0.43
50 59 0.57
ACGTcount: A:0.43, C:0.15, G:0.27, T:0.15
Consensus pattern (50 bp):
GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
Found at i:138804 original size:37 final size:39
Alignment explanation
Indices: 138726--138825 Score: 116
Period size: 43 Copynumber: 2.5 Consensus size: 39
138716 CTCCAGTAGC
138726 CAACGACTGCAACTCCAGCACGCAACAACAGCAGCAACTCCAG
1 CAACGACTGCAACTCCAGCACG--ACAACAGCAG--ACTCCAG
138769 CAACGACTGCAACTCCAGCACG-CAACAGCAG-CTCCAG
1 CAACGACTGCAACTCCAGCACGACAACAGCAGACTCCAG
* *
138806 CGA-GAGCAGCAACTCCAGCA
1 CAACGA-CTGCAACTCCAGCA
138826 GGTAGCAATT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
36 2 0.04
37 21 0.39
40 9 0.17
43 22 0.41
ACGTcount: A:0.35, C:0.39, G:0.19, T:0.07
Consensus pattern (39 bp):
CAACGACTGCAACTCCAGCACGACAACAGCAGACTCCAG
Found at i:138821 original size:18 final size:18
Alignment explanation
Indices: 138755--138825 Score: 74
Period size: 18 Copynumber: 3.9 Consensus size: 18
138745 ACGCAACAAC
138755 AGCAGCAACTCCAGCAACG
1 AGCAGCAACTCCAGC-ACG
*
138774 A-CTGCAACTCCAGCACG
1 AGCAGCAACTCCAGCACG
* *
138791 CAACAGCAGCTCCAGCGA-G
1 -AGCAGCAACTCCAGC-ACG
138810 AGCAGCAACTCCAGCA
1 AGCAGCAACTCCAGCA
138826 GGTAGCAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.09
18 26 0.59
19 13 0.30
20 1 0.02
ACGTcount: A:0.34, C:0.38, G:0.21, T:0.07
Consensus pattern (18 bp):
AGCAGCAACTCCAGCACG
Found at i:139806 original size:51 final size:50
Alignment explanation
Indices: 139751--139877 Score: 150
Period size: 53 Copynumber: 2.5 Consensus size: 50
139741 CAATTGCTCG
139751 TAATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTCCTT-
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACCAATTT--TTA
* **
139802 TAATCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCA
1 TAATC--GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTT-A
*
139855 CAATCGGGGATACTCCAACCCCG
1 TAATCGGGGATACTCCAACCCCG
139878 TTATTTCCGA
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
51 25 0.37
53 41 0.61
54 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (50 bp):
TAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTA
Found at i:139939 original size:79 final size:79
Alignment explanation
Indices: 139806--140276 Score: 791
Period size: 79 Copynumber: 6.0 Consensus size: 79
139796 TTCCTTTAAT
* * *
139806 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
139871 AACCCCGTTATTTC
66 AACCCCGTTATTTC
*
139885 CGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
*
139950 AATCCCGTTATTTC
66 AACCCCGTTATTTC
* *
139964 TGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
*
140029 AACCCCGTTATTTT
66 AACCCCGTTATTTC
* * *
140043 CGAGGGGATACTCCAACCCCGG-TTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
*
140107 AACCCCGTTATTTT
66 AACCCCGTTATTTC
* * *
140121 CGAGGGGATACTCCAACCCCGGTTTTATTTTTAAAATATTAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
140186 AACCCCGTTATTTC
66 AACCCCGTTATTTC
*
140200 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCT
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
140265 AACCCCGTTATT
66 AACCCCGTTATT
140277 ATCTCCAAAA
Statistics
Matches: 369, Mismatches: 22, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
78 74 0.20
79 295 0.80
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
AACCCCGTTATTTC
Found at i:140219 original size:236 final size:237
Alignment explanation
Indices: 139805--140276 Score: 856
Period size: 236 Copynumber: 2.0 Consensus size: 237
139795 TTTCCTTTAA
139805 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
139870 CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCAT
66 CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCAT
* *
139935 AATCGGGGATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
131 AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
140000 CACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT
196 CACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT
140042 TCGAGGGGATACTCCAACCCCGG-TTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
* * * * *
140106 CAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTTTAAAATATTAATTTTTCAT
66 CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCAT
140171 AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
131 AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
* *
140236 CATCAATTTTTCATAATCGGGGATACTCTAACCCCGTTATT
196 CACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATT
140277 ATCTCCAAAA
Statistics
Matches: 226, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
236 203 0.90
237 23 0.10
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (237 bp):
TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCAT
AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
CACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT
Found at i:153814 original size:60 final size:60
Alignment explanation
Indices: 153681--154466 Score: 979
Period size: 60 Copynumber: 12.9 Consensus size: 60
153671 AGAGTAGGAC
* ** *
153681 GCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCCTCAAAGAGTAGGACGCCTTT
1 GCCTTTTAAAGCCCACACAAGCTGGTGGCA-CCTTC-AGTCCTCAAAGAGCAGGACGCCTTT
* * *
153743 TCCTTTTAAAGCCCACACAAGCTAGTGGCACCTTCAGTCTTCAAAGAGCAGGACG-CTTT
1 GCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTT
*
153802 CGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTT
1 -GCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTT
* * *
153863 TCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACG-CTTT
1 GCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTT
* * * *
153922 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCCGGTCCTCAAAGAGCAGGACGCCTTT
1 -GCCTTTTAAAGCCCACACAAGCTGGTGGCAC-CTT-CAGTCCTCAAAGAGCAGGACGCCTTT
* * * * *
153985 TCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTCAGTCCTCAAAAAGCAGGACACCTTC
1 GCCTTTTAAAGCCCACACAAGCTGGTGGCACC--TTCAGTCCTCAAAGAGCAGGACGCCTTT
*
154047 GCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTT
1 GCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTT
* * * *
154107 TCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGCAGGACACCTTC
1 GCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTT
* *
154167 GCCTTTTTAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTT
1 GCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTT
* * * *
154227 TCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGAC-ACTTT
1 GCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTT
* * * *
154286 CACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGCAGGACGCCTTT
1 -GCCTTTTAAAGCCCACACAAGCTGGTGGCAC--CTTCAGTCCTCAAAGAGCAGGACGCCTTT
* * * * *
154349 -TCTTTTCAAAGCCCACGCAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTT
1 GCCTTTT-AAAGCCCACACAAGCTGGTGGCAC-CTTC-AGTCCTCAAAGAGCAGGACGCCTTT
* * * *
154411 -TCTTTTCAAAAAGCCCACACGAGTTGGTGGCACCTTCCAGTCTTCAAAGAGCAGGA
1 GCCTTTT---AAAGCCCACACAAGCTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGA
154467 TACACTTTAT
Statistics
Matches: 643, Mismatches: 64, Indels: 33
0.87 0.09 0.04
Matches are distributed among these distances:
59 12 0.02
60 362 0.56
61 18 0.03
62 199 0.31
63 29 0.05
64 23 0.04
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (60 bp):
GCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTT
Found at i:153876 original size:120 final size:120
Alignment explanation
Indices: 153680--154466 Score: 1096
Period size: 120 Copynumber: 6.5 Consensus size: 120
153670 AAGAGTAGGA
** *
153680 CGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCCTCAAAGAGTAGGACGCCTTTTC
1 CGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTC
* * *
153745 CTTTTAAAGCCCACACAAGCTAGTGGCACCTTCAGTCTTCAAAGAGCAGGACGCTTT
64 CTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACTTT
*
153802 CGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
1 CGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
* * *
153867 TTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACGCTTT
66 TTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACTTT
* * *
153922 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCCGGTCCTCAAAGAGCAGGACGCCTTTTC
1 CGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT--AGTCCTCAAAGAGCAGGACGCCTTTTC
* * *
153987 CTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTCAGTCCTCAAAAAGCAGGACACCTT
64 CTTTTAAAGCCCACACAAGCTGGTGGCACC--TTCAGTCCTCAAAGAGCAGGACACTTT
*
154046 CGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
1 CGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
* *
154111 TTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGCAGGACACCTT
66 TTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACTTT
* *
154166 CGCCTTTTTAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
1 CGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
* *
154231 TTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACACTTT
66 TTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACTTT
* * *
154286 CACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT-
1 CGCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTT-AGTCCTCAAAGAGCAGGACGCCTTTTC
* * *
154350 CTTTTCAAAGCCCACGCAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGC-CTTT
64 CTTTT-AAAGCCCACACAAGCTGGTGGCAC-CTTC-AGTCCTCAAAGAGCAGGA--CACTTT
* * * *
154411 --TCTTTTCAAAAAGCCCACACGAGTTGGTGGCACCTTCCAGTCTTCAAAGAGCAGGA
1 CGCCTTTT---AAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTCAAAGAGCAGGA
154467 TACACTTTAT
Statistics
Matches: 608, Mismatches: 42, Indels: 27
0.90 0.06 0.04
Matches are distributed among these distances:
120 285 0.47
121 10 0.02
122 188 0.31
123 6 0.01
124 72 0.12
125 23 0.04
126 24 0.04
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (120 bp):
CGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
TTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACTTT
Found at i:154392 original size:364 final size:365
Alignment explanation
Indices: 153680--154466 Score: 1283
Period size: 364 Copynumber: 2.2 Consensus size: 365
153670 AAGAGTAGGA
** *
153680 CGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCCTCAAAGAGTAGGACGCCTTTTC
1 CGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTC
* * * *
153745 CTTTTAAAGCCCACACAAGCTAGTGGCACCTTCAGTCTTCAAAGAGCAGGACGCTTTCGCCTTTT
65 CTTTTAAAGCCCACACAAGCTAGTGGCACCTTCAGTCCTCAAAAAGCAGGACACCTTCGCCTTTT
153810 AAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGC
130 AAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGC
* *
153875 CCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACGCTTTCGCCTTTCAAAGCCCACA
195 CCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACACTTTCACCTTTCAAAGCCCACA
*
153940 CAAGTTGGTGGCACTTTTCCGGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAA
260 CAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAA
154005 GCTGGTGGCACCTTTTCAGTCCTCAAAAAGCAGGACACCTT
325 GCTGGTGGCACCTTTTCAGTCCTCAAAAAGCAGGACACCTT
*
154046 CGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCC
1 CGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCC
* *
154110 TTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGCAGGACACCTTCGCCTTTTT
66 TTTTAAAGCCCACACAAGCTAGTGGCACCTTCAGTCCTCAAAAAGCAGGACACCTTCGCCTTTTA
154175 AAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCC
131 AAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCC
154240 CACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACACTTTCACCTTTCAAAGCCCACAC
196 CACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACACTTTCACCTTTCAAAGCCCACAC
* * *
154305 AAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACGCAAG
261 AAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAG
* * **
154370 TTGGTGGCA-CTTTTCTAGTCCTCAAAGAGCAGGATGCCTT
326 CTGGTGGCACCTTTTC-AGTCCTCAAAAAGCAGGACACCTT
** * * *
154410 -TTCTTTTCAAAAAGCCCACACGAGTTGGTGGCACCTTCCAGTCTTCAAAGAGCAGGA
1 CGCCTTTT---AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGA
154467 TACACTTTAT
Statistics
Matches: 390, Mismatches: 26, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
363 11 0.03
364 305 0.78
365 2 0.01
366 55 0.14
367 17 0.04
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (365 bp):
CGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCC
TTTTAAAGCCCACACAAGCTAGTGGCACCTTCAGTCCTCAAAAAGCAGGACACCTTCGCCTTTTA
AAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCC
CACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACACTTTCACCTTTCAAAGCCCACAC
AAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAG
CTGGTGGCACCTTTTCAGTCCTCAAAAAGCAGGACACCTT
Found at i:155190 original size:12 final size:12
Alignment explanation
Indices: 155173--155199 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
155163 TAAAAATTAA
155173 AAATTCAAATTC
1 AAATTCAAATTC
155185 AAATTCAAATTC
1 AAATTCAAATTC
155197 AAA
1 AAA
155200 AAATAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATTCAAATTC
Found at i:155471 original size:50 final size:50
Alignment explanation
Indices: 155328--155490 Score: 265
Period size: 50 Copynumber: 3.3 Consensus size: 50
155318 AATAGAAAAT
*
155328 GCATGCATGGGAAAGCATAAAGATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
* * * *
155378 GCATGCATGGGAAAACA-CAAAATTGCAATTAGAGACAAAACATGCGGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
155427 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
*
155477 ACATGCATGGGAAA
1 GCATGCATGGGAAA
155491 TGAAAAAAGC
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
49 44 0.43
50 58 0.57
ACGTcount: A:0.44, C:0.15, G:0.26, T:0.15
Consensus pattern (50 bp):
GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
Found at i:155740 original size:6 final size:6
Alignment explanation
Indices: 155729--155760 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
155719 AGCAAGGTGA
155729 AGCAAC AGCAAC AGCAAC AGCAACC AGCAAC A
1 AGCAAC AGCAAC AGCAAC AGCAA-C AGCAAC A
155761 TCAAACACCG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.50, C:0.34, G:0.16, T:0.00
Consensus pattern (6 bp):
AGCAAC
Found at i:156119 original size:37 final size:39
Alignment explanation
Indices: 156041--156140 Score: 116
Period size: 43 Copynumber: 2.5 Consensus size: 39
156031 CTCCAGTAGC
156041 CAACGACTGCAACTCCAGCACGCAACAACAGCAGCAACTCCAG
1 CAACGACTGCAACTCCAGCACG--ACAACAGCAG--ACTCCAG
156084 CAACGACTGCAACTCCAGCACG-CAACAGCAG-CTCCAG
1 CAACGACTGCAACTCCAGCACGACAACAGCAGACTCCAG
* *
156121 CGA-GAGCAGCAACTCCAGCA
1 CAACGA-CTGCAACTCCAGCA
156141 GGTAGCAATT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
36 2 0.04
37 21 0.39
40 9 0.17
43 22 0.41
ACGTcount: A:0.35, C:0.39, G:0.19, T:0.07
Consensus pattern (39 bp):
CAACGACTGCAACTCCAGCACGACAACAGCAGACTCCAG
Found at i:156136 original size:18 final size:18
Alignment explanation
Indices: 156070--156140 Score: 74
Period size: 18 Copynumber: 3.9 Consensus size: 18
156060 ACGCAACAAC
156070 AGCAGCAACTCCAGCAACG
1 AGCAGCAACTCCAGC-ACG
*
156089 A-CTGCAACTCCAGCACG
1 AGCAGCAACTCCAGCACG
* *
156106 CAACAGCAGCTCCAGCGA-G
1 -AGCAGCAACTCCAGC-ACG
156125 AGCAGCAACTCCAGCA
1 AGCAGCAACTCCAGCA
156141 GGTAGCAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.09
18 26 0.59
19 13 0.30
20 1 0.02
ACGTcount: A:0.34, C:0.38, G:0.21, T:0.07
Consensus pattern (18 bp):
AGCAGCAACTCCAGCACG
Found at i:157175 original size:53 final size:50
Alignment explanation
Indices: 157067--157192 Score: 139
Period size: 53 Copynumber: 2.4 Consensus size: 50
157057 AATTGCTCGT
* *
157067 AATCGGAGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTT-CTTC
* **
157118 AATCGAGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAATATTAATTT-TTCAC
1 AATC--GGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCTT--C
157171 AATCGGGGATACTCCAACCCCG
1 AATCGGGGATACTCCAACCCCG
157193 TTATTTCCGA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
51 24 0.37
52 4 0.06
53 37 0.57
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.31
Consensus pattern (50 bp):
AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTTC
Found at i:157254 original size:79 final size:79
Alignment explanation
Indices: 157121--157591 Score: 773
Period size: 79 Copynumber: 6.0 Consensus size: 79
157111 TTCCTTTAAT
* * *
157121 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
157186 AACCCCGTTATTTC
66 AACCCCGTTATTTC
*
157200 CGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
*
157265 AATCCCGTTATTTC
66 AACCCCGTTATTTC
* *
157279 TGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
*
157344 AACCCCGTTATTTT
66 AACCCCGTTATTTC
* * *
157358 CGAGGGGATACTCCAACCCCGG-TTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
* *
157422 AACCTCGTTATTTT
66 AACCCCGTTATTTC
* * * *
157436 TGAGGGGATACTCCAACCCCGGTTTTATTTTTAAAATATTAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
157501 AACCCCGTTATTTC
66 AACCCCGTTATTTC
*
157515 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCT
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
157580 AACCCCGTTATT
66 AACCCCGTTATT
157592 ATCTCCAAAA
Statistics
Matches: 365, Mismatches: 26, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
78 72 0.20
79 293 0.80
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (79 bp):
CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
AACCCCGTTATTTC
Found at i:157480 original size:157 final size:157
Alignment explanation
Indices: 157122--157591 Score: 798
Period size: 157 Copynumber: 3.0 Consensus size: 157
157112 TCCTTTAATC
*
157122 GAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCCA
1 GAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCA
157187 ACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCATAA
66 ACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCATAA
157252 TCGGGGATACTCCAATCCCGTTATTTCT
131 TCGGGGATACTCCAA-CCCGTTATTTCT
* **
157280 GAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCA
1 GAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCA
* * * *
157345 ACCCCGTTATTTTCGAGGGGATACTCCAACCCCGG-TTTATTTCTAAAATATTAATTTTTCACAA
66 ACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCATAA
*
157409 TCGGGGATACTCCAACCTCGTTATTTTT
131 TCGGGGATACTCCAACC-CGTTATTTCT
*
157437 GAGGGGATACTCCAACCCCGGTTTTATTTTTAAAATATTAATTTTTCATAATCGGGGATACTCCA
1 GAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCA
*
157502 ACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAA
66 ACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCATAA
*
157567 TCGGGGATACTCTAACCCCGTTATT
131 TCGGGGATACTCCAA-CCCGTTATT
157592 ATCTCCAAAA
Statistics
Matches: 291, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
156 2 0.01
157 145 0.50
158 142 0.49
159 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (157 bp):
GAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCA
ACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCATAA
TCGGGGATACTCCAACCCGTTATTTCT
Found at i:157534 original size:236 final size:237
Alignment explanation
Indices: 157120--157591 Score: 838
Period size: 236 Copynumber: 2.0 Consensus size: 237
157110 TTTCCTTTAA
157120 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
157185 CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCAT
66 CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCAT
* *
157250 AATCGGGGATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
131 AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
157315 CACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT
196 CACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT
157357 TCGAGGGGATACTCCAACCCCGG-TTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
* ** * * * *
157421 CAACCTCGTTATTTTTGAGGGGATACTCCAACCCCGGTTTTATTTTTAAAATATTAATTTTTCAT
66 CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCAT
157486 AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
131 AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
* *
157551 CATCAATTTTTCATAATCGGGGATACTCTAACCCCGTTATT
196 CACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATT
157592 ATCTCCAAAA
Statistics
Matches: 224, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
236 201 0.90
237 23 0.10
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (237 bp):
TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCAT
AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
CACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT
Found at i:163155 original size:13 final size:13
Alignment explanation
Indices: 163137--163163 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
163127 AGATTATGCT
163137 TTGTATCGATACA
1 TTGTATCGATACA
163150 TTGTATCGATACA
1 TTGTATCGATACA
163163 T
1 T
163164 GTTCATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:163175 original size:19 final size:20
Alignment explanation
Indices: 163148--163203 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
163138 TGTATCGATA
*
163148 CATTGTATCGATACATG-TT
1 CATTGTATCGATACATGCAT
*
163167 CATTATATCGATACATGCAT
1 CATTGTATCGATACATGCAT
*
163187 AATTGTATCGATACATG
1 CATTGTATCGATACATG
163204 AAACCGACAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (20 bp):
CATTGTATCGATACATGCAT
Found at i:163197 original size:20 final size:19
Alignment explanation
Indices: 163144--163204 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 19
163134 GCTTTGTATC
163144 GATACATTGTATCGATACAT
1 GATA-ATTGTATCGATACAT
* * *
163164 GTTCATTATATCGATACAT
1 GATAATTGTATCGATACAT
163183 GCATAATTGTATCGATACAT
1 G-ATAATTGTATCGATACAT
163203 GA
1 GA
163205 AACCGACAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (19 bp):
GATAATTGTATCGATACAT
Done.