Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold124
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: 1034113
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 25 characters in sequence are not A, C, G, or T
File 1 of 7
Found at i:2143 original size:18 final size:15
Alignment explanation
Indices: 2120--2194 Score: 62
Period size: 15 Copynumber: 4.8 Consensus size: 15
2110 CCAAAAAAAA
2120 AAAAAAAAAAACACCT
1 AAAAAAAAAAA-ACCT
2136 GCAAAAAAAGAAAAACCT
1 --AAAAAAA-AAAAACCT
* **
2154 AAAAAAAAACAACGG
1 AAAAAAAAAAAACCT
**
2169 AAAAATGAAAAACC-
1 AAAAAAAAAAAACCT
2183 AAAAAAAAAAAA
1 AAAAAAAAAAAA
2195 AAAACCAAAG
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
14 10 0.21
15 15 0.32
16 7 0.15
18 11 0.23
19 4 0.09
ACGTcount: A:0.76, C:0.13, G:0.07, T:0.04
Consensus pattern (15 bp):
AAAAAAAAAAAACCT
Found at i:2209 original size:18 final size:18
Alignment explanation
Indices: 2154--2212 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
2144 AGAAAAACCT
*
2154 AAAAAAAAA-CAACGGAA
1 AAAAAAAAACCAAAGGAA
* **
2171 AAATGAAAAACCAAAAAAA
1 AAA-AAAAAACCAAAGGAA
2190 AAAAAAAAACCAAAGGAA
1 AAAAAAAAACCAAAGGAA
2208 AAAAA
1 AAAAA
2213 CCATAAAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
17 3 0.09
18 22 0.67
19 8 0.24
ACGTcount: A:0.80, C:0.10, G:0.08, T:0.02
Consensus pattern (18 bp):
AAAAAAAAACCAAAGGAA
Found at i:3742 original size:30 final size:29
Alignment explanation
Indices: 3683--4376 Score: 715
Period size: 30 Copynumber: 24.1 Consensus size: 29
3673 TTCATCACCC
* **
3683 TTCAAAAGTCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACTT
**
3713 TTC-AAAGCCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACTT
*
3742 TTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACTT
*
3772 TTCAAAAGCCCACAAGTCAGTGGCAACCT
1 TTCAAAAGCCCACAAGTCAGTGGCAACTT
* * *
3801 TT-AAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAAGCCCACAAGTCAGTGGCAACTT
*
3829 TTCAAAAGCCCAC-A---AGT-G--A-GT
1 TTCAAAAGCCCACAAGTCAGTGGCAACTT
*
3850 TTCAAAAGCCCACAAG-CAGTGGCAACCT
1 TTCAAAAGCCCACAAGTCAGTGGCAACTT
* * *
3878 TT-AAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAAGCCCACAAGTCAGTGGCAACTT
*
3906 TTCAAAAGCCCACAAGTGAGTGGCATA-TT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACTT
* *
3935 TTCAAAAGCCCACAAGTCAATGGCAACCT
1 TTCAAAAGCCCACAAGTCAGTGGCAACTT
* *
3964 TT-AAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACTT
* * *
3993 TTCAAAAGCCCACAAGTGAATGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACTT
*
4023 TTCAAAAGCCCACAAGTCAGTGGCAACCT
1 TTCAAAAGCCCACAAGTCAGTGGCAACTT
* *
4052 TT-AAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACTT
* *
4081 TTCAAAAGCCCACAAGTGAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACTT
*
4111 TTCAAAAGCCCACAAGTCAGTGGCAACCT
1 TTCAAAAGCCCACAAGTCAGTGGCAACTT
* *
4140 TT-AAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACTT
* *
4169 TTCAAAAGCCCACAAGTGAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACTT
*
4199 TTCAAAAGCCCACAAGTCAGTGGCAACCT
1 TTCAAAAGCCCACAAGTCAGTGGCAACTT
* * *
4228 TT-AAAAGCTCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACTT
* * *
4257 TTCAAAAACCCACAAGTGAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACTT
*
4287 TTCAAAAGCCCACAAGTCAGTGGCAACCT
1 TTCAAAAGCCCACAAGTCAGTGGCAACTT
* *
4316 TT-AAAAGCCCACAAATCAGTGGCACCCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-AC-TT
* * *
4346 TTC-GAAGCCCACAAGTCGGTGGCACCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACTT
4374 TTC
1 TTC
4377 CATCTTTAAG
Statistics
Matches: 570, Mismatches: 70, Indels: 50
0.83 0.10 0.07
Matches are distributed among these distances:
21 14 0.02
22 1 0.00
24 4 0.01
25 4 0.01
27 14 0.02
28 151 0.26
29 125 0.22
30 257 0.45
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.23
Consensus pattern (29 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACTT
Found at i:3959 original size:58 final size:58
Alignment explanation
Indices: 3849--4374 Score: 595
Period size: 58 Copynumber: 9.1 Consensus size: 58
3839 CACAAGTGAG
* * *
3849 TTTCAAAAGCCCACAAG-CAGTGGCAACCTTT-AAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAAGCCCACAAGTCAGTGGCAACTTTTCAAAAGCCCACAAGTCAGTGGCAACC
* *
3905 TTTCAAAAGCCCACAAGTGAGTGGCATA-TTTTCAAAAGCCCACAAGTCAATGGCAACC
1 TTTCAAAAGCCCACAAGTCAGTGGCA-ACTTTTCAAAAGCCCACAAGTCAGTGGCAACC
* * * * **
3963 TTT-AAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTGAATGGCATATT
1 TTTCAAAAGCCCACAAGTCAGTGGCA-ACTTTTCAAAAGCCCACAAGTCAGTGGCA-ACC
* * *
4022 TTTCAAAAGCCCACAAGTCAGTGGCAACCTTT-AAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAAGCCCACAAGTCAGTGGCAACTTTTCAAAAGCCCACAAGTCAGTGGCAACC
* *
4079 TTTTCAAAAGCCCACAAGTGAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACC
1 -TTTCAAAAGCCCACAAGTCAGTGGCA-ACTTTTCAAAAGCCCACAAGTCAGTGGCAACC
* * * **
4139 TTT-AAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTGAGTGGCATATT
1 TTTCAAAAGCCCACAAGTCAGTGGCA-ACTTTTCAAAAGCCCACAAGTCAGTGGCA-ACC
* * * *
4198 TTTCAAAAGCCCACAAGTCAGTGGCAACCTTT-AAAAGCTCACAAGTTAGTGGCACCC
1 TTTCAAAAGCCCACAAGTCAGTGGCAACTTTTCAAAAGCCCACAAGTCAGTGGCAACC
* * *
4255 TTTTCAAAAACCCACAAGTGAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACC
1 -TTTCAAAAGCCCACAAGTCAGTGGCA-ACTTTTCAAAAGCCCACAAGTCAGTGGCAACC
* * * *
4315 TTT-AAAAGCCCACAAATCAGTGGCACCCTTTTTC-GAAGCCCACAAGTCGGTGGC-ACC
1 TTTCAAAAGCCCACAAGTCAGTGGCA-AC-TTTTCAAAAGCCCACAAGTCAGTGGCAACC
4372 TTT
1 TTT
4375 TCCATCTTTA
Statistics
Matches: 401, Mismatches: 54, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
56 17 0.04
57 37 0.09
58 225 0.56
59 35 0.09
60 87 0.22
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (58 bp):
TTTCAAAAGCCCACAAGTCAGTGGCAACTTTTCAAAAGCCCACAAGTCAGTGGCAACC
Found at i:4060 original size:88 final size:88
Alignment explanation
Indices: 3849--4369 Score: 926
Period size: 88 Copynumber: 6.0 Consensus size: 88
3839 CACAAGTGAG
3849 TTTCAAAAGCCCACAAG-CAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCC-TTTCAAA
1 TTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTCAAA
3912 AGCCCACAAGTGAGTGGCATA-T
66 AGCCCACAAGTGAGTGGCATATT
*
3934 TTTCAAAAGCCCACAAGTCAATGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTCAAA
1 TTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTCAAA
*
3999 AGCCCACAAGTGAATGGCATATT
66 AGCCCACAAGTGAGTGGCATATT
4022 TTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTCAAA
1 TTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTCAAA
4087 AGCCCACAAGTGAGTGGCATATT
66 AGCCCACAAGTGAGTGGCATATT
4110 TTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTCAAA
1 TTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTCAAA
4175 AGCCCACAAGTGAGTGGCATATT
66 AGCCCACAAGTGAGTGGCATATT
*
4198 TTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCTCACAAGTTAGTGGCACCCTTTTCAAA
1 TTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTCAAA
*
4263 AACCCACAAGTGAGTGGCATATT
66 AGCCCACAAGTGAGTGGCATATT
* * *
4286 TTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAATCAGTGGCACCCTTTTTC-G
1 TTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCC-TTTTCAA
4350 AAGCCCACAAGTCG-GTGGCA
65 AAGCCCACAAGT-GAGTGGCA
4370 CCTTTTCCAT
Statistics
Matches: 420, Mismatches: 11, Indels: 7
0.96 0.03 0.02
Matches are distributed among these distances:
85 17 0.04
86 38 0.09
87 27 0.06
88 332 0.79
89 6 0.01
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (88 bp):
TTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTCAAA
AGCCCACAAGTGAGTGGCATATT
Found at i:4151 original size:176 final size:176
Alignment explanation
Indices: 3683--4361 Score: 1089
Period size: 176 Copynumber: 3.9 Consensus size: 176
3673 TTCATCACCC
* *** * * ***
3683 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTTTCAAA
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTCAAA
*
3748 AGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCAC
65 AGCCCACAAGTGAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCAC
3813 AAGTTAGTGGCACCC-TTTCAAAAGCCCACAAGTG-A--G------T
130 AAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTGAATGGCATATTT
3850 TTCAAAAGCCCACAAG-CAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCC-TTTCAAAA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAA
*
3913 GCCCACAAGTGAGTGGCATA-TTTTCAAAAGCCCACAAGTCAATGGCAACCTTTAAAAGCCCACA
66 GCCCACAAGTGAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACA
3977 AGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTGAATGGCATATTT
131 AGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTGAATGGCATATTT
4023 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAA
4088 GCCCACAAGTGAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACA
66 GCCCACAAGTGAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACA
*
4153 AGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTGAGTGGCATATTT
131 AGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTGAATGGCATATTT
*
4199 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCTCACAAGTTAGTGGCACCCTTTTCAAAA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAA
*
4264 ACCCACAAGTGAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACA
66 GCCCACAAGTGAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACA
* * *
4329 AATCAGTGGCACCCTTTTTC-GAAGCCCACAAGT
131 AGTTAGTGGCACCC-TTTTCAAAAGCCCACAAGT
4362 CGGTGGCACC
Statistics
Matches: 480, Mismatches: 18, Indels: 19
0.93 0.03 0.04
Matches are distributed among these distances:
163 57 0.12
164 46 0.10
165 24 0.05
166 8 0.02
167 16 0.03
173 17 0.04
174 39 0.08
175 28 0.06
176 240 0.50
177 5 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (176 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAA
GCCCACAAGTGAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACA
AGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTGAATGGCATATTT
Found at i:4426 original size:52 final size:52
Alignment explanation
Indices: 4365--4542 Score: 203
Period size: 52 Copynumber: 3.5 Consensus size: 52
4355 CACAAGTCGG
*
4365 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* *
4417 TGGCA-------C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
*
4460 TGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* * *
4512 TGACATCCTTTTTCTCAGCTTTAAGCCCAAT
1 TGGCA-CC-TTTTC-CATCTTTAAGTCCAAT
4543 ATCGTTAGCC
Statistics
Matches: 104, Mismatches: 10, Indels: 21
0.77 0.07 0.16
Matches are distributed among these distances:
43 39 0.38
45 1 0.01
50 1 0.01
52 43 0.41
53 2 0.02
54 5 0.05
55 13 0.12
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.34
Consensus pattern (52 bp):
TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
Found at i:4441 original size:43 final size:43
Alignment explanation
Indices: 4380--4469 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
4370 CCTTTTCCAT
*
4380 CTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
* *
4423 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
4466 CTTT
1 CTTT
4470 TCCATCTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
Found at i:5394 original size:13 final size:13
Alignment explanation
Indices: 5376--5400 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5366 CATAAAGTGT
5376 TGTATCGATACAA
1 TGTATCGATACAA
5389 TGTATCGATACA
1 TGTATCGATACA
5401 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:5398 original size:33 final size:33
Alignment explanation
Indices: 5356--5422 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
5346 TTCAACGATT
5356 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
5389 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
5422 T
1 T
5423 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:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:5481 original size:13 final size:13
Alignment explanation
Indices: 5463--5487 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5453 ATCACTTAAA
5463 TGTATCGATACAT
1 TGTATCGATACAT
5476 TGTATCGATACA
1 TGTATCGATACA
5488 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:5540 original size:52 final size:51
Alignment explanation
Indices: 5476--5624 Score: 244
Period size: 52 Copynumber: 2.9 Consensus size: 51
5466 ATCGATACAT
**
5476 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
5528 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT-CAATGTATCGATACATGCAGGCAAATTTGCCCAGA
5580 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTA-TCAATGTATCGATACATGCAGGCAAATTT
5625 TCATATTTCG
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
51 2 0.02
52 88 0.97
53 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (51 bp):
TGTATCGATACACTATCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:13923 original size:52 final size:52
Alignment explanation
Indices: 13775--13903 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
13765 CGAAATATGA
*
13775 AAATTTGTCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
* *
13827 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
13879 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
13904 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
Found at i:13930 original size:13 final size:13
Alignment explanation
Indices: 13912--13936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13902 CAAAGATCAG
13912 TGTATCGATACAA
1 TGTATCGATACAA
13925 TGTATCGATACA
1 TGTATCGATACA
13937 TTTGAGTAAT
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:14015 original size:13 final size:13
Alignment explanation
Indices: 13997--14022 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13987 TACAAAACTT
13997 TTGTATCGATACA
1 TTGTATCGATACA
14010 TTGTATCGATACA
1 TTGTATCGATACA
14023 ACACTTATGA
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):
TTGTATCGATACA
Found at i:14058 original size:20 final size:22
Alignment explanation
Indices: 14011--14066 Score: 80
Period size: 23 Copynumber: 2.6 Consensus size: 22
14001 ATCGATACAT
14011 TGTATCGATACAACACTTATGAA
1 TGTATCGATACAACACTTAT-AA
14034 TGTATCGATACAACACTT-T-A
1 TGTATCGATACAACACTTATAA
*
14054 TGTATTGATACAA
1 TGTATCGATACAA
14067 ATCGTTGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 13 0.41
22 1 0.03
23 18 0.56
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (22 bp):
TGTATCGATACAACACTTATAA
Found at i:14995 original size:52 final size:50
Alignment explanation
Indices: 14918--15253 Score: 382
Period size: 52 Copynumber: 7.0 Consensus size: 50
14908 CTTAGGAATG
* *
14918 TTAAAGATG-AAGGTGCCAATGTGCTGATTCAAGGCCAGTGATATTGGAC
1 TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* **
14967 ATAAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATG--AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
15019 TTAAAGATGATAAAGGCGCCAATATGCTGATTCAAGGCTAGCGATATTAGAC
1 TTAAAGATG--AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
15071 -T-----T-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
15114 TTAAAGATGAAA-GTGCCAATATGCTGATTCAGGGCCAGCGATATTGGAC
1 TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
15163 -T-----T-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
15206 TTAAAGATG-AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
15254 GTTGGAGGTG
Statistics
Matches: 243, Mismatches: 26, Indels: 36
0.80 0.09 0.12
Matches are distributed among these distances:
42 3 0.01
43 70 0.29
44 2 0.01
46 1 0.00
48 1 0.00
49 79 0.33
50 3 0.01
51 1 0.00
52 83 0.34
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (50 bp):
TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:15150 original size:49 final size:48
Alignment explanation
Indices: 14918--15285 Score: 361
Period size: 43 Copynumber: 7.8 Consensus size: 48
14908 CTTAGGAATG
* * *
14918 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGTGATATTGGAC
1 TTAAAGATGAA-GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * *
14967 ATAAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATG---AAG-TGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * * *
15019 TTAAAGATGATAAAGGCGCCAATATGCTGATTCAAGGCTAGCGATATTAGAC
1 TTAAAGATG---AA-GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
*
15071 TT-AA-A-G--GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
15114 TTAAAGATGAAAGTGCCAATATGCTGATTCAGGGCCAGCGATATTGGAC
1 TTAAAGATG-AAGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
15163 TT-AA-A-G--GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
15206 TTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAG
1 TTAAAGATGAAG-TGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
15255 TT---G--GAGGTGCCAATGTGCTGATTCAAGGCCA
1 TTAAAGATGAAGTGCCAATATGCTGATTCAAGGCCA
15286 ACTACAGTGG
Statistics
Matches: 276, Mismatches: 26, Indels: 40
0.81 0.08 0.12
Matches are distributed among these distances:
43 92 0.33
44 7 0.03
45 2 0.01
46 4 0.01
47 1 0.00
48 3 0.01
49 79 0.29
50 1 0.00
51 3 0.01
52 83 0.30
53 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (48 bp):
TTAAAGATGAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
Found at i:15176 original size:92 final size:92
Alignment explanation
Indices: 14984--15285 Score: 471
Period size: 92 Copynumber: 3.2 Consensus size: 92
14974 TGACAAAGAC
* * *
14984 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGATAAAGGCGCCAATATGCTGA
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAA-GTGCCAATATGCTGA
* *
15049 TTCAAGGCTAGCGATATTAGACTTAAAGGT
63 TTCAAGGCCAGCGATATTGGACTTAAAGGT
15079 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGCCAATATGCTGATTC
*
15144 AGGGCCAGCGATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
*
15171 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AAGATGCCAATATGCTGATT
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAG-TGCCAATATGCTGATT
* **
15235 CAAGGCCAGCGATATTGGAGTTGGAGGT
65 CAAGGCCAGCGATATTGGACTTAAAGGT
15263 GCCAATGTGCTGATTCAAGGCCA
1 GCCAATGTGCTGATTCAAGGCCA
15286 ACTACAGTGG
Statistics
Matches: 195, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
91 3 0.02
92 147 0.75
93 3 0.02
95 42 0.22
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGGT
Found at i:15812 original size:27 final size:28
Alignment explanation
Indices: 15759--15859 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 28
15749 CACCGAAAGT
*
15759 ACTTGTGTGGGCTTAGAATAGTTTGCCACCG
1 ACTTGTGTGGGCTTA-AAT-G-GTGCCACCG
*
15790 ACTTGTGTGGGCTT-AATGGTGCCACAG
1 ACTTGTGTGGGCTTAAATGGTGCCACCG
*
15817 ACTTGTGT-GGCTTAAGAGGGTTGCCACCG
1 ACTTGTGTGGGCTTAA-ATGG-TGCCACCG
15846 ACTTGTGTGGGCTT
1 ACTTGTGTGGGCTT
15860 TGGGAAGGAG
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
26 5 0.08
27 16 0.26
28 4 0.06
29 18 0.29
30 5 0.08
31 14 0.23
ACGTcount: A:0.17, C:0.19, G:0.33, T:0.32
Consensus pattern (28 bp):
ACTTGTGTGGGCTTAAATGGTGCCACCG
Found at i:15938 original size:31 final size:31
Alignment explanation
Indices: 15875--16513 Score: 449
Period size: 31 Copynumber: 20.2 Consensus size: 31
15865 AGGAGAAAGA
15875 TGCCACGGAGTTGTGGAC-TT-AAAAG--GG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
*
15902 TGCCACGGAATTGTGGACTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
15933 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* *
15964 TGCCACAGAGTCGTGGAC-TT-AAAAG--GG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
*
15991 TGCCACGGAATTGTGGACTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
16022 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* ** * *
16053 TGCCACGAAGTTGTGGACTTAAAAGGAACAAGC
1 TGCCACGGAGTTGTGGACTTTGAA--AAGAAGG
* * *
16086 TGCCACCGAGTTGTGGGC-TT--AAA-CAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* * *
16113 TGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTTGAA--AAGAAG-G
* * *
16147 TGCCACGGAGTTGTGGGCTTTAAAAAGGACAAAGA
1 TGCCACGGAGTTGTGGACTTTGAAAA-G---AAGG
* **
16182 TGCCACAGAGTTGTGGGTTTTGAAAAGAAGGAAAAAAG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAA-G------G
*
16220 ATGCCACAGAGTTGTGGAC-TT-AAAAG--GG
1 -TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* *
16248 TGCCATGGAATTGTGGACTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
*
16279 TGCCACGGAGTTGTGGGCTTT-AAAATGAAAAAGG
1 TGCCACGGAGTTGTGGACTTTGAAAA-G---AAGG
* * *
16313 TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGGG
1 TGCCACGGAGTTGTGGACTTTGAAAAG---AA-GG
* * *
16348 TGCCACGGAGTCGTGGACTTAGAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTTGAA--AAGAAG-G
* *
16382 TGCCACGGAGTTATGGGC-TT--AAA-AAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
*
16409 TGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTTGAAAA--G---AAG-G
* * *
16446 TGCCACAGAGTTGTGGGCTTTGAAAAAAAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* * *
16477 TGCCACGGAGTCGTGGACTTAGAAGAA-AAGA
1 TGCCACGGAGTTGTGGACTTTGAA-AAGAAGG
16508 TGCCAC
1 TGCCAC
16514 TAAATTGAGG
Statistics
Matches: 499, Mismatches: 60, Indels: 102
0.75 0.09 0.15
Matches are distributed among these distances:
27 85 0.17
28 15 0.03
29 22 0.04
30 11 0.02
31 155 0.31
32 11 0.02
33 24 0.05
34 71 0.14
35 48 0.10
36 6 0.01
37 33 0.07
38 2 0.00
39 16 0.03
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.21
Consensus pattern (31 bp):
TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
Found at i:15945 original size:58 final size:61
Alignment explanation
Indices: 15875--16513 Score: 391
Period size: 58 Copynumber: 10.1 Consensus size: 61
15865 AGGAGAAAGA
*
15875 TGCCACGGAGTTGTGGAC-TT-AAAAG-GGTGCCACGGAATTGTGGACTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* *
15933 TGCCACGGAGTTGTGGACTTTGAAAAGAAGGTGCCACAGAGTCGTGGAC-TT-AAAAG--GG
1 TGCCACGGAGTTGTGGACTTTGAAAAG-AGGTGCCACGGAGTTGTGGACTTTGAAAAGAAGG
*
15991 TGCCACGGAATTGTGGACTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAG-AGGTGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* ** * * * * *
16053 TGCCACGAAGTTGTGGACTTAAAAGGAACAAGCTGCCACCGAGTTGTGGGC-TT--AAA-CAGG
1 TGCCACGGAGTTGTGGACTTTGAA--AA-GAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* * * * *
16113 TGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGACA
1 TGCCACGGAGTTGTGGACTTTG-A--AAAGAG-GTGCCACGGAGTTGTGGACTTTGAAAA-G---
*
16178 AAGA
58 AAGG
* ** *
16182 TGCCACAGAGTTGTGGGTTTTGAAAAGAAGGAAAAAAGATGCCACAGAGTTGTGGAC-TT-AAAA
1 TGCCACGGAGTTGTGGACTTTGAAAAG-A-G------G-TGCCACGGAGTTGTGGACTTTGAAAA
16245 G--GG
57 GAAGG
* * *
16248 TGCCATGGAATTGTGGACTTTGAAAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAAATGAAAAAG
1 TGCCACGGAGTTGTGGACTTTGAAAAG-AGGTGCCACGGAGTTGTGGACTTTGAAAA-G---AAG
16312 G
61 G
* * * * * *
16313 TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGGGTGCCACGGAGTCGTGGACTTAGAAGGAAAA
1 TGCCACGGAGTTGTGGACTTTGAAAAG----A-GGTGCCACGGAGTTGTGGACTTTGAA--AAGA
16378 AGAG
59 AG-G
* * *
16382 TGCCACGGAGTTATGGGC-TT-AAAA-AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAGGTGCCACGGAGTTGTGGACTTTGAAAA--G---AAG
16444 AG
61 -G
* * * * * *
16446 TGCCACAGAGTTGTGGGCTTTGAAAAAAAGGTGCCACGGAGTCGTGGACTTAGAAGAA-AAGA
1 TGCCACGGAGTTGTGGACTTTG-AAAAGAGGTGCCACGGAGTTGTGGACTTTGAA-AAGAAGG
16508 TGCCAC
1 TGCCAC
16514 TAAATTGAGG
Statistics
Matches: 468, Mismatches: 57, Indels: 108
0.74 0.09 0.17
Matches are distributed among these distances:
58 82 0.18
59 13 0.03
60 41 0.09
61 48 0.10
62 48 0.10
63 6 0.01
64 44 0.09
65 27 0.06
66 28 0.06
67 9 0.02
68 33 0.07
69 60 0.13
70 2 0.00
71 1 0.00
72 6 0.01
73 4 0.01
74 16 0.03
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.21
Consensus pattern (61 bp):
TGCCACGGAGTTGTGGACTTTGAAAAGAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAGG
Found at i:15992 original size:89 final size:88
Alignment explanation
Indices: 15875--16078 Score: 372
Period size: 89 Copynumber: 2.3 Consensus size: 88
15865 AGGAGAAAGA
15875 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAATTGTGGACTTTGAAAAGAAGGTGCCACG
1 TGCCAC-GAGTTGTGGACTTAAAAGGGTGCCACGGAATTGTGGACTTTGAAAAGAAGGTGCCACG
15940 GAGTTGTGGACTTTGAAAAGAAGG
65 GAGTTGTGGACTTTGAAAAGAAGG
*
15964 TGCCACAGAGTCGTGGACTTAAAAGGGTGCCACGGAATTGTGGACTTTGAAAAGAAGGTGCCACG
1 TGCCAC-GAGTTGTGGACTTAAAAGGGTGCCACGGAATTGTGGACTTTGAAAAGAAGGTGCCACG
16029 GAGTTGTGGACTTTGAAAAGAAGG
65 GAGTTGTGGACTTTGAAAAGAAGG
16053 TGCCACGAAGTTGTGGACTTAAAAGG
1 TGCCACG-AGTTGTGGACTTAAAAGG
16079 AACAAGCTGC
Statistics
Matches: 111, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
88 1 0.01
89 110 0.99
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.22
Consensus pattern (88 bp):
TGCCACGAGTTGTGGACTTAAAAGGGTGCCACGGAATTGTGGACTTTGAAAAGAAGGTGCCACGG
AGTTGTGGACTTTGAAAAGAAGG
Found at i:16230 original size:39 final size:36
Alignment explanation
Indices: 16113--16466 Score: 193
Period size: 34 Copynumber: 10.6 Consensus size: 36
16103 CTTAAACAGG
*
16113 TGCCACAGAGTTGTGGAC-TT--AGAAGGAAAAAGA
1 TGCCACAGAGTTGTGGGCTTTAAAGAAGGAAAAAGA
* *
16146 GTGCCACGGAGTTGTGGGCTTTAAA-AAGGACAAAGA
1 -TGCCACAGAGTTGTGGGCTTTAAAGAAGGAAAAAGA
*
16182 TGCCACAGAGTTGTGGGTTTTGAAAAGAAGGAAAAAAGA
1 TGCCACAGAGTTGTGGGCTTT--AAAGAAGG-AAAAAGA
*
16221 TGCCACAGAGTTGTGGAC-TT-AA-AAGG-----G-
1 TGCCACAGAGTTGTGGGCTTTAAAGAAGGAAAAAGA
** * * * *
16248 TGCCATGGAATTGTGGACTTT---GAA--AAGAAGG
1 TGCCACAGAGTTGTGGGCTTTAAAGAAGGAAAAAGA
* * *
16279 TGCCACGGAGTTGTGGGCTTT-AA-AATGAAAAAGG
1 TGCCACAGAGTTGTGGGCTTTAAAGAAGGAAAAAGA
*
16313 TGCCACAGAGTTGTGGGCTTTAAA-AA-GAAAAAGGG
1 TGCCACAGAGTTGTGGGCTTTAAAGAAGGAAAAA-GA
* * *
16348 TGCCACGGAGTCGTGGAC-TT--AGAAGGAAAAAGA
1 TGCCACAGAGTTGTGGGCTTTAAAGAAGGAAAAAGA
* *
16381 GTGCCACGGAGTTATGGGC-TTAAA-AA-G-----G-
1 -TGCCACAGAGTTGTGGGCTTTAAAGAAGGAAAAAGA
* *
16409 TGCCACGGAGTTGTGGGCTTTGAAA-AGGGAAAAAGA
1 TGCCACAGAGTTGTGGGCTTT-AAAGAAGGAAAAAGA
16445 GTGCCACAGAGTTGTGGGCTTT
1 -TGCCACAGAGTTGTGGGCTTT
16467 GAAAAAAAGG
Statistics
Matches: 258, Mismatches: 26, Indels: 69
0.73 0.07 0.20
Matches are distributed among these distances:
27 34 0.13
28 5 0.02
29 5 0.02
30 2 0.01
31 18 0.07
32 3 0.01
33 3 0.01
34 78 0.30
35 47 0.18
36 11 0.04
37 24 0.09
38 6 0.02
39 22 0.09
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.21
Consensus pattern (36 bp):
TGCCACAGAGTTGTGGGCTTTAAAGAAGGAAAAAGA
Found at i:16252 original size:27 final size:29
Alignment explanation
Indices: 16221--16496 Score: 128
Period size: 34 Copynumber: 8.7 Consensus size: 29
16211 GGAAAAAAGA
*
16221 TGCCACAGAGTTGTGGAC-TTAAAAG-GG
1 TGCCACGGAGTTGTGGACTTTAAAAGAGG
* *
16248 TGCCATGGAATTGTGGACTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGACTTT-AAAAG-AGG
*
16279 TGCCACGGAGTTGTGGGCTTTAAAATGAAAAAGG
1 TGCCACGGAGTTGTGGACTTTAAAA-G----AGG
* *
16313 TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGGG
1 TGCCACGGAGTTGTGGACTTT-AAAAG----A-GG
* * *
16348 TGCCACGGAGTCGTGGACTTAGAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTT--TA--AAAGAG-G
* *
16382 TGCCACGGAGTTATGGGC-TTAAAA-AGG
1 TGCCACGGAGTTGTGGACTTTAAAAGAGG
*
16409 TGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTT-AAAA--G----AG-G
* * *
16446 TGCCACAGAGTTGTGGGCTTTGAAAAAAAGG
1 TGCCACGGAGTTGTGGACTTT--AAAAGAGG
*
16477 TGCCACGGAGTCGTGGACTT
1 TGCCACGGAGTTGTGGACTT
16497 AGAAGAAAAG
Statistics
Matches: 200, Mismatches: 23, Indels: 48
0.74 0.08 0.18
Matches are distributed among these distances:
27 33 0.17
28 6 0.03
29 12 0.06
30 4 0.02
31 40 0.20
32 2 0.01
33 2 0.01
34 47 0.23
35 23 0.12
36 3 0.01
37 21 0.10
38 7 0.04
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (29 bp):
TGCCACGGAGTTGTGGACTTTAAAAGAGG
Found at i:16318 original size:166 final size:162
Alignment explanation
Indices: 16110--16492 Score: 429
Period size: 166 Copynumber: 2.3 Consensus size: 162
16100 GGGCTTAAAC
*
16110 AGGTGCCACAGAGTTGTGGAC-TTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AGGTGCCACAGAGTTGTGGGCTTTAGAA-GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAA-
* * ** *
16174 GACAAA-GATGCCACAGAGTTGTGGGTTTTGAAAAGAAGGAAAAA-AGATGCCACAGAGTTGTGG
63 GAAAAAGGATGCCACAGAGTCGT-GGACTT----AGAAGGAAAAAGAG-TGCCACAGAGTTATGG
* *
16237 ACTTAAAAGGGTGCCATGGAATTGTGGACTTTGAAAA-G-A
122 ACTTAAAAAGGTGCCACGGAATTGTGGACTTTGAAAAGGAA
* * *
16276 AGGTGCCACGGAGTTGTGGGCTTTAAAATGAAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGA
1 AGGTGCCACAGAGTTGTGGGCTTTAGAA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGA
* * * *
16341 AAAAGGGTGCCACGGAGTCGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTATGGGCTTAAAA
65 AAAAGGATGCCACAGAGTCGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTATGGACTTAAAA
* *
16406 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAA
130 AGGTGCCACGGAATTGTGGACTTTGAAAA-GG--AA
*
16442 AGAGTGCCACAGAGTTGTGGGCTTT-GAA-AAAAAGGTGCCACGGAGTCGTGG
1 AG-GTGCCACAGAGTTGTGGGCTTTAGAAGAAAAAGGTGCCACGGAGTTGTGG
16493 ACTTAGAAGA
Statistics
Matches: 186, Mismatches: 22, Indels: 20
0.82 0.10 0.09
Matches are distributed among these distances:
161 57 0.31
162 2 0.01
163 1 0.01
164 21 0.11
165 9 0.05
166 63 0.34
167 33 0.18
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (162 bp):
AGGTGCCACAGAGTTGTGGGCTTTAGAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
AAAGGATGCCACAGAGTCGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTATGGACTTAAAAA
GGTGCCACGGAATTGTGGACTTTGAAAAGGAA
Found at i:16385 original size:69 final size:65
Alignment explanation
Indices: 16258--16496 Score: 272
Period size: 68 Copynumber: 3.6 Consensus size: 65
16248 TGCCATGGAA
* * * * *
16258 TTGTGGACTTTGAAAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAATGAAAAAG-GTGCCACAGA
1 TTGTGGGCTTT-AAAAAAAGGTGCCACGGAGTCGTGGACTTTAAAAGGAAAAAGAGTGCCACAGA
16322 G
65 G
*
16323 TTGTGGGCTTTAAAAAGAAAAAGGGTGCCACGGAGTCGTGGAC-TTAGAAGGAAAAAGAGTGCCA
1 TTGTGGGCTTT---AA-AAAAA-GGTGCCACGGAGTCGTGGACTTTAAAAGGAAAAAGAGTGCCA
*
16387 CGGAG
61 CAGAG
* * *
16392 TTATGGGC-TT--AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAG
1 TTGTGGGCTTTAAAAAAAGGTGCCACGGAGTCGTGGACTTT-AAAA-GGAAAAAGAGTGCCACAG
16454 AG
64 AG
16456 TTGTGGGCTTTGAAAAAAAGGTGCCACGGAGTCGTGGACTT
1 TTGTGGGCTTT-AAAAAAAGGTGCCACGGAGTCGTGGACTT
16497 AGAAGAAAAG
Statistics
Matches: 146, Mismatches: 16, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
61 18 0.12
62 7 0.05
63 3 0.02
64 26 0.18
65 12 0.08
67 2 0.01
68 43 0.29
69 35 0.24
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (65 bp):
TTGTGGGCTTTAAAAAAAGGTGCCACGGAGTCGTGGACTTTAAAAGGAAAAAGAGTGCCACAGAG
Found at i:16451 original size:37 final size:36
Alignment explanation
Indices: 16402--16471 Score: 122
Period size: 37 Copynumber: 1.9 Consensus size: 36
16392 TTATGGGCTT
*
16402 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGGG
16438 AAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAA
1 AAAAAG-GTGCCACAGAGTTGTGGGCTTTGAAAA
16472 AAAGGTGCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 6 0.19
37 26 0.81
ACGTcount: A:0.34, C:0.11, G:0.34, T:0.20
Consensus pattern (36 bp):
AAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGGG
Found at i:16474 original size:96 final size:94
Alignment explanation
Indices: 16306--16487 Score: 258
Period size: 96 Copynumber: 1.9 Consensus size: 94
16296 CTTTAAAATG
* *
16306 AAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGGGTGCCACGGAGTCGTGGACTTAGA
1 AAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACAGAGTCGTGGACTTAGA
16371 AGGAAAAAGAGTGCCACGGAGTTATGGGCTT
66 A-GAAAAAG-GTGCCACGGAGTTATGGGCTT
* * * * *
16402 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1 AAAAAGGTGCCACAGAGTTGTGGGCTTT-AAAA-AGAAAAAGAGTGCCACAGAGTCGTGGACTTA
16467 GAA-AAAAAGGTGCCACGGAGT
64 GAAGAAAAAGGTGCCACGGAGT
16488 CGTGGACTTA
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
95 12 0.16
96 33 0.43
97 4 0.05
98 28 0.36
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.19
Consensus pattern (94 bp):
AAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACAGAGTCGTGGACTTAGA
AGAAAAAGGTGCCACGGAGTTATGGGCTT
Found at i:16542 original size:129 final size:127
Alignment explanation
Indices: 16139--16558 Score: 385
Period size: 129 Copynumber: 3.2 Consensus size: 127
16129 ACTTAGAAGG
* *
16139 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGACAAAGA-TGCCACAGAGTTGTGGGTTTT
1 AAAAAGA-TGCCACGGAGTTGTGGGCTTT-AAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
* * * * * *
16203 GAAAAGAAGGAAAAAAGATGCCACAGAGTTGTGGACTT---A-AAAGGGTGCCA-TGGAATTGTG
64 ----AG-A--AAAAAAGGTGCCACGGAGTCGTGGACTTAGAAGAAAAGATGCCACT-GAATTGAG
*
16263 GACTTTGA
121 GACTTT-T
* *
16271 AAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAATGAAAAAG-GTGCCACAGAGTTGTGGGCTTTA
1 AAA-AAGATGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-
* * * *
16335 AAAAGAAAAAGGGTGCCACGGAGTCGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTT-ATGGG
64 AGAA-AAAAA-GGTGCCACGGAGTCGTGGACTTAGAA-G-AAAAGA-TGCCACTGAATTGA-GGA
16399 C--TT
123 CTTTT
*
16402 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1 AAAAAGATGCCACGGAGTTGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
*
16467 -GAAAAAAAGGTGCCACGGAGTCGTGGACTTAGAAGAAAAGATGCCACTAAATTGAGGACTTTT
64 AGAAAAAAAGGTGCCACGGAGTCGTGGACTTAGAAGAAAAGATGCCACTGAATTGAGGACTTTT
* * *
16530 AGGAAAGATGCCACTGAGTCGTGGGCTTT
1 A-AAAAGATGCCACGGAGTTGTGGGCTTT
16559 GGGAAAAGAT
Statistics
Matches: 243, Mismatches: 25, Indels: 43
0.78 0.08 0.14
Matches are distributed among these distances:
125 1 0.00
126 17 0.07
127 27 0.11
128 6 0.02
129 49 0.20
130 31 0.13
131 39 0.16
132 32 0.13
133 29 0.12
134 12 0.05
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (127 bp):
AAAAAGATGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAG
AAAAAAAGGTGCCACGGAGTCGTGGACTTAGAAGAAAAGATGCCACTGAATTGAGGACTTTT
Found at i:16567 original size:30 final size:31
Alignment explanation
Indices: 16439--16568 Score: 102
Period size: 31 Copynumber: 4.2 Consensus size: 31
16429 TGAAAAGGGA
* * * *
16439 AAAAGAGTGCCACAGAGTTGTGGGCTTTGAAA
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAAG
* * *
16471 AAAAGGTGCCACGGAGTCGTGGACTTAGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
* * * * *
16502 AAAAGATGCCACTAAATTGAGGACTTT-TAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
* * *
16532 GAAAGATGCCACTGAGTCGTGGGCTTTG-GG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
16562 AAAAGAT
1 AAAAGAT
16569 TTGAAGAATT
Statistics
Matches: 75, Mismatches: 22, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
30 30 0.40
31 40 0.53
32 5 0.07
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.22
Consensus pattern (31 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAAG
Found at i:17515 original size:9 final size:9
Alignment explanation
Indices: 17503--17575 Score: 51
Period size: 9 Copynumber: 7.6 Consensus size: 9
17493 GGTTTTTCCC
17503 TTTTTTTTG
1 TTTTTTTTG
17512 TTTTTTTAT-
1 TTTTTTT-TG
*
17521 TATTTTTATTA
1 T-TTTTT-TTG
17532 TTTTTTTTG
1 TTTTTTTTG
*
17541 TTTTTTTTCT
1 TTTTTTTT-G
17551 TTCTTGTTTTG
1 TT-TT-TTTTG
17562 TTTCTTTTT-
1 TTT-TTTTTG
17571 TTTTT
1 TTTTT
17576 CTCTCTTCTC
Statistics
Matches: 53, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
8 2 0.04
9 21 0.40
10 19 0.36
11 7 0.13
12 4 0.08
ACGTcount: A:0.05, C:0.04, G:0.05, T:0.85
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:17518 original size:12 final size:12
Alignment explanation
Indices: 17502--17575 Score: 60
Period size: 12 Copynumber: 5.9 Consensus size: 12
17492 GGGTTTTTCC
17502 CTTTTTTTTGTTT
1 CTTTTTTTT-TTT
17515 -TTTTATTATTTTT
1 CTTTT-TT-TTTTT
* *
17528 ATTATTTTTTTT
1 CTTTTTTTTTTT
*
17540 GTTTTTTTTCTTT
1 CTTTTTTTT-TTT
* *
17553 CTTGTTTTGTTT
1 CTTTTTTTTTTT
17565 CTTTTTTTTTT
1 CTTTTTTTTTT
17576 CTCTCTTCTC
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
12 28 0.57
13 16 0.33
14 5 0.10
ACGTcount: A:0.05, C:0.05, G:0.05, T:0.84
Consensus pattern (12 bp):
CTTTTTTTTTTT
Found at i:17559 original size:16 final size:15
Alignment explanation
Indices: 17541--17593 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
17531 ATTTTTTTTG
17541 TTTTTTTTCTTTCTT
1 TTTTTTTTCTTTCTT
*
17556 GTTTTGTTTCTTT-TT
1 -TTTTTTTTCTTTCTT
*
17571 TTTTTCTCTCTTCTCTT
1 TTTTT-TTTCTT-TCTT
17588 TTTTTT
1 TTTTTT
17594 GTGTTTGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 4 0.13
15 7 0.23
16 13 0.42
17 7 0.23
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (15 bp):
TTTTTTTTCTTTCTT
Found at i:23071 original size:52 final size:52
Alignment explanation
Indices: 23002--23121 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
22992 AAAATTTATT
*
23002 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
* *
23054 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGTC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
23106 TGCATGTATCGATACA
1 TGCATGTATCGATACA
23122 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
Found at i:23134 original size:52 final size:51
Alignment explanation
Indices: 22993--23141 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 51
22983 CGAAATATGA
* *
22993 AAATTTATTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGTCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* * *
23045 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGTCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
23097 AAATTTGTCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGTCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
23142 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (51 bp):
AAATTTGTCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:23148 original size:13 final size:13
Alignment explanation
Indices: 23130--23154 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23120 CAAAGATCAG
23130 TGTATCGATACAA
1 TGTATCGATACAA
23143 TGTATCGATACA
1 TGTATCGATACA
23155 TGTGAGTAAT
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:23236 original size:33 final size:33
Alignment explanation
Indices: 23194--23263 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
23184 GGCAGTAGCT
23194 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
23227 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
23260 TACA
1 TACA
23264 AATCGTTGAA
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:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:23237 original size:13 final size:13
Alignment explanation
Indices: 23219--23243 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23209 CAAAAAAATA
23219 TGTATCGATACAT
1 TGTATCGATACAT
23232 TGTATCGATACA
1 TGTATCGATACA
23244 ACATTTTATG
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:24272 original size:49 final size:49
Alignment explanation
Indices: 24126--24283 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
24116 AAAAGTGATA
* * * * *
24126 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
24177 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
24230 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-ATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
24278 ATGATG
1 AAGATG
24284 AGAAAAGTGA
Statistics
Matches: 85, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
48 8 0.09
49 37 0.44
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:24343 original size:170 final size:166
Alignment explanation
Indices: 24062--24447 Score: 650
Period size: 170 Copynumber: 2.3 Consensus size: 166
24052 TTTTAGAGAT
*
24062 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT--AAAGATGAAAAAGTGAT
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAAAGATGAAAAAGTGAT
24125 AAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCA
66 AAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCA
24190 ACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 ACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
*
24226 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAATGATGATGAGAAAAG
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAA--A-GATGA-AAAAG
*
24291 TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGAT
62 TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGAT
24356 GTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
127 GTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
24396 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAA
24448 GGTGCCAATG
Statistics
Matches: 208, Mismatches: 5, Indels: 9
0.94 0.02 0.04
Matches are distributed among these distances:
164 44 0.21
166 2 0.01
168 1 0.00
169 5 0.02
170 112 0.54
171 4 0.02
173 40 0.19
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (166 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAAAGATGAAAAAGTGAT
AAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCA
ACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:24505 original size:49 final size:49
Alignment explanation
Indices: 24363--24730 Score: 445
Period size: 49 Copynumber: 7.6 Consensus size: 49
24353 GATGTCAACG
* *
24363 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATA
* *
24415 TGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
24458 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * *
24507 TGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* *
24550 TGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * *
24599 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* *
24648 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATA
* *
24700 TGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTA
24731 GAGGGGTTGC
Statistics
Matches: 275, Mismatches: 26, Indels: 30
0.83 0.08 0.09
Matches are distributed among these distances:
43 70 0.25
44 5 0.02
45 2 0.01
46 3 0.01
47 1 0.00
48 5 0.02
49 118 0.43
50 2 0.01
51 2 0.01
52 67 0.24
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
Found at i:24536 original size:92 final size:93
Alignment explanation
Indices: 24362--24730 Score: 553
Period size: 92 Copynumber: 3.9 Consensus size: 93
24352 GGATGTCAAC
* * *
24362 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAGA--TGCCAATATGCTGATTCAAG
*
24427 GCCAGCTATATTGGACTTAAAGGTGCCAAT
64 GCCAGCGATATTGGACTTAAAGGTGCCAAT
*
24457 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGATGCCAATATGCTGATTCAAGGC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAGATGCCAATATGCTGATTCAAGGC
24521 CAGCGATATTGGACTTAAAGGTGCCAAT
66 CAGCGATATTGGACTTAAAGGTGCCAAT
*
24549 GTGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGAT-GAAGATGCCAATATGCTGATTCAAGGC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAGATGCCAATATGCTGATTCAAGGC
24613 CAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
66 CAGCGATATTGGACTT----A--AAGGTGCCAAT
*
24647 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGG--AAGATGCCAATATGCTGATTCAAG
* *
24712 GCCAGCTATATTGGGCTTA
64 GCCAGCGATATTGGACTTA
24731 GAGGGGTTGC
Statistics
Matches: 256, Mismatches: 9, Indels: 16
0.91 0.03 0.06
Matches are distributed among these distances:
92 127 0.50
94 4 0.02
95 36 0.14
96 1 0.00
97 1 0.00
98 47 0.18
99 1 0.00
101 39 0.15
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (93 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAGATGCCAATATGCTGATTCAAGGC
CAGCGATATTGGACTTAAAGGTGCCAAT
Found at i:24923 original size:33 final size:33
Alignment explanation
Indices: 24802--25040 Score: 261
Period size: 35 Copynumber: 7.2 Consensus size: 33
24792 TTGGGAAGGA
* *
24802 AAAAAGATGCCACAGAGTTGTGGAC-TTAAAAGGG
1 AAAAAGGTGCCACAGAGTTGTGGGCTTTAAAA--G
24836 AAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAG
1 AAAAAG-GTGCCACAGAGTTGTGGGCTTTAAAAG
24870 AAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAAG
1 -AAAAAG-GTGCCACAGAGTTGTGGGCTTTAAAAG
*
24905 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGGCTTT-AAAAG
*
24939 AAAAAGTGTGCCACAGAGTTGTGGGCTTT-GAAG
1 AAAAAG-GTGCCACAGAGTTGTGGGCTTTAAAAG
* * *
24972 AAAAA-ATGCCACTGAGTCGTGGGCTTT-AAAG
1 AAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAG
* * * * * * *
25003 GAAAAGATGCTACTGAGTCGTGGACTTAAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAG
25036 AAAAA
1 AAAAA
25041 TGTTCAACTA
Statistics
Matches: 183, Mismatches: 15, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
31 26 0.14
32 19 0.10
33 37 0.20
34 24 0.13
35 71 0.39
36 6 0.03
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (33 bp):
AAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAG
Found at i:24927 original size:68 final size:68
Alignment explanation
Indices: 24800--25007 Score: 273
Period size: 68 Copynumber: 3.1 Consensus size: 68
24790 CTTTGGGAAG
* *
24800 GAAAAAAG-ATGCCACAGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCT
1 GAAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAA--GAAAAAG-GTGCCACAGAGTTGTGGGCT
24863 TTAAAA
63 TTAAAA
*
24869 GAAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTA
1 GAAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTA
24934 AAA
66 AAA
* * * *
24937 -AGAAAAAGTGTGCCACAGAGTTGTGGGCTTT-GAAGAAAAA-ATGCCACTGAGTCGTGGGCTTT
1 GA-AAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTT
*
24999 AAAG
65 AAAA
25003 GAAAA
1 GAAAA
25008 GATGCTACTG
Statistics
Matches: 127, Mismatches: 8, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
66 25 0.20
67 10 0.08
68 54 0.43
69 15 0.12
70 17 0.13
71 6 0.05
ACGTcount: A:0.38, C:0.12, G:0.30, T:0.21
Consensus pattern (68 bp):
GAAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTA
AAA
Found at i:24927 original size:103 final size:97
Alignment explanation
Indices: 24802--25040 Score: 307
Period size: 103 Copynumber: 2.4 Consensus size: 97
24792 TTGGGAAGGA
*
24802 AAAAAGATGCCACAGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AAAAAGATGCCACAGAGTTGTGGACTTAAAA-AGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-A
*
24867 AAGAAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAAG
64 AAGAAAAAA---TGCCACAGAGTCGTGGGCTTT-AAAG
* * * * *
24905 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGA
1 AAAAAGATGCCACAGAGTTGTGGAC-TTAAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
*
24970 AGAAAAAATGCCACTGAGTCGTGGGCTTTAAAG
65 AGAAAAAATGCCACAGAGTCGTGGGCTTTAAAG
* * * *
25003 GAAAAGATGCTACTGAGTCGTGGACTTAAAAAGAAAAA
1 AAAAAGATGCCACAGAGTTGTGGACTTAAAAAGAAAAA
25041 TGTTCAACTA
Statistics
Matches: 121, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
97 13 0.11
98 23 0.19
99 19 0.16
102 9 0.07
103 51 0.42
104 6 0.05
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (97 bp):
AAAAAGATGCCACAGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAA
GAAAAAATGCCACAGAGTCGTGGGCTTTAAAG
Found at i:26226 original size:1 final size:1
Alignment explanation
Indices: 26220--26314 Score: 55
Period size: 1 Copynumber: 95.0 Consensus size: 1
26210 ACCTTTGCAC
* * * * * * * * * *
26220 TTTTTTTTTGTGTTTGTTTTTTTTTTTGTTTTTTGTTTTTTGTGTTTTTTGTTGTTTTTTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
26285 GTGTTTTTTTTGTTTGTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
26315 CATCACTTCT
Statistics
Matches: 64, Mismatches: 30, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (1 bp):
T
Found at i:26239 original size:16 final size:16
Alignment explanation
Indices: 26220--26314 Score: 109
Period size: 17 Copynumber: 5.6 Consensus size: 16
26210 ACCTTTGCAC
*
26220 TTTTTTTTTGTGTTTG
1 TTTTTTTTTTTGTTTG
*
26236 TTTTTTTTTTTGTTTT
1 TTTTTTTTTTTGTTTG
*
26252 TTGTTTTTTGTGTTTTTTG
1 TT-TTTTTT-T-TTGTTTG
*
26271 TTGTTTTTTTTTGTGTG
1 TT-TTTTTTTTTGTTTG
26288 TTTTTTTTGTTTGTTTG
1 TTTTTTTT-TTTGTTTG
26305 TTTTTTTTTT
1 TTTTTTTTTT
26315 CATCACTTCT
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
16 24 0.35
17 28 0.41
18 2 0.03
19 14 0.21
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (16 bp):
TTTTTTTTTTTGTTTG
Found at i:26251 original size:26 final size:26
Alignment explanation
Indices: 26222--26308 Score: 95
Period size: 26 Copynumber: 3.3 Consensus size: 26
26212 CTTTGCACTT
26222 TTTTTTTGTGTTTGTTTTTTTTTTTG
1 TTTTTTTGTGTTTGTTTTTTTTTTTG
* * *
26248 -TTTTTTGTTTTTTGTGTTTTTTGTTG
1 TTTTTTTG-TGTTTGTTTTTTTTTTTG
* *
26274 TTTTTTTTTGTGTGTTTTTTTTGTTTG
1 TTTTTTTGTGTTTGTTTTTTTT-TTTG
26301 TTTGTTTT
1 TTT-TTTT
26309 TTTTTTCATC
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
25 7 0.14
26 26 0.53
27 12 0.24
28 4 0.08
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (26 bp):
TTTTTTTGTGTTTGTTTTTTTTTTTG
Found at i:29981 original size:21 final size:21
Alignment explanation
Indices: 29957--29999 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
29947 ATCAAAATGA
29957 CATTCATTGCATGACGAGATG
1 CATTCATTGCATGACGAGATG
29978 CATTCATTGCATGACGAGATG
1 CATTCATTGCATGACGAGATG
29999 C
1 C
30000 TCCTGACATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (21 bp):
CATTCATTGCATGACGAGATG
Found at i:33301 original size:52 final size:52
Alignment explanation
Indices: 33232--33351 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
33222 AAAATTTATT
*
33232 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
* *
33284 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGTC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
33336 TGCATGTATCGATACA
1 TGCATGTATCGATACA
33352 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
Found at i:33364 original size:52 final size:51
Alignment explanation
Indices: 33223--33371 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 51
33213 CGAAATATGA
* *
33223 AAATTTATTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGTCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* * *
33275 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGTCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
33327 AAATTTGTCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGTCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
33372 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (51 bp):
AAATTTGTCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:33378 original size:13 final size:13
Alignment explanation
Indices: 33360--33384 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33350 CAAAGATCAG
33360 TGTATCGATACAA
1 TGTATCGATACAA
33373 TGTATCGATACA
1 TGTATCGATACA
33385 TGTGAGTAAT
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:33466 original size:33 final size:33
Alignment explanation
Indices: 33424--33493 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
33414 GGCAGTAGCT
33424 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
33457 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
33490 TACA
1 TACA
33494 AATCGTTGAA
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:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:33467 original size:13 final size:13
Alignment explanation
Indices: 33449--33473 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33439 CAAAAAAATA
33449 TGTATCGATACAT
1 TGTATCGATACAT
33462 TGTATCGATACA
1 TGTATCGATACA
33474 ACATTTTATG
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:36176 original size:13 final size:13
Alignment explanation
Indices: 36158--36182 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36148 CATAAAGTGT
36158 TGTATCGATACAA
1 TGTATCGATACAA
36171 TGTATCGATACA
1 TGTATCGATACA
36183 TGTTTTTTTG
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:36307 original size:52 final size:52
Alignment explanation
Indices: 36265--36445 Score: 344
Period size: 52 Copynumber: 3.5 Consensus size: 52
36255 CACTGATCTT
36265 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
36317 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
36369 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
36421 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
36446 TCATATTTCG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 127 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:40775 original size:10 final size:10
Alignment explanation
Indices: 40760--40784 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
40750 TACCAGTAGG
40760 AACAGAGCAA
1 AACAGAGCAA
40770 AACAGAGCAA
1 AACAGAGCAA
40780 AACAG
1 AACAG
40785 GGGACTGGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.20, G:0.20, T:0.00
Consensus pattern (10 bp):
AACAGAGCAA
Found at i:42274 original size:52 final size:52
Alignment explanation
Indices: 42126--42254 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
42116 TGAAATATGA
* * *
42126 AAATTTGTCTGCATGTATCGATACATTTTATAATGTATTGATATATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
42178 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
42230 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
42255 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
Found at i:42281 original size:13 final size:13
Alignment explanation
Indices: 42263--42287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42253 CAAAGATCAG
42263 TGTATCGATACAA
1 TGTATCGATACAA
42276 TGTATCGATACA
1 TGTATCGATACA
42288 TTTGAGTAAT
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:42354 original size:19 final size:18
Alignment explanation
Indices: 42330--42427 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
42320 TAGCTTAAAT
42330 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
42349 TGTATCGATAC--A-TT-
1 TGTATCGATACAAACTTA
42363 T-TATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
42381 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
42394 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
42414 TGTATCGATACAAA
1 TGTATCGATACAAA
42428 TCATTGAATT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 20 0.30
14 2 0.03
15 2 0.03
16 4 0.06
17 2 0.03
18 1 0.02
19 22 0.33
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:42373 original size:32 final size:32
Alignment explanation
Indices: 42328--42425 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
42318 AGTAGCTTAA
*
42328 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
*
42360 ATTTTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
42392 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
42425 A
1 A
42426 AATCATTGAA
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 47 0.76
33 15 0.24
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:48339 original size:1 final size:1
Alignment explanation
Indices: 48335--48388 Score: 63
Period size: 1 Copynumber: 54.0 Consensus size: 1
48325 ATTCTTTTTT
* * * * *
48335 AAAAAAAACAAAAAAACAAAAAAAAACAAAAAAACAAAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
48389 GAGAGAAAAG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:48350 original size:10 final size:10
Alignment explanation
Indices: 48335--48388 Score: 80
Period size: 10 Copynumber: 5.8 Consensus size: 10
48325 ATTCTTTTTT
48335 AAAAAAAAC-
1 AAAAAAAACA
48344 -AAAAAAACA
1 AAAAAAAACA
48353 AAAAAAAAC-
1 AAAAAAAACA
48362 -AAAAAAACA
1 AAAAAAAACA
48371 AAAAAAAACA
1 AAAAAAAACA
48381 AAAAAAAA
1 AAAAAAAA
48389 GAGAGAAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
8 16 0.39
10 25 0.61
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:48358 original size:18 final size:18
Alignment explanation
Indices: 48335--48386 Score: 104
Period size: 18 Copynumber: 2.9 Consensus size: 18
48325 ATTCTTTTTT
48335 AAAAAAAACAAAAAAACA
1 AAAAAAAACAAAAAAACA
48353 AAAAAAAACAAAAAAACA
1 AAAAAAAACAAAAAAACA
48371 AAAAAAAACAAAAAAA
1 AAAAAAAACAAAAAAA
48387 AAGAGAGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAAACAAAAAAACA
Found at i:49629 original size:62 final size:62
Alignment explanation
Indices: 49495--49926 Score: 523
Period size: 62 Copynumber: 7.0 Consensus size: 62
49485 AAGCAGGATG
*
49495 CCTTTCAAAGCCCACACAAGTTGGTGGCAACC--TTTAGTCCTCAAAAAGCAGGATGCCTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGC-ACCTTTTTAGTCCTCAAAGAGCAGGATGCCTTTT
* ** * * * * *
49556 CCTTTTAAAGCCCACATGAGCTGGTGGCACCTTTTTAGACCTTAAAGAGTAGGACGCCTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTTAGTCCTCAAAGAGCAGGATGCCTTTT
* * * * * *
49618 CCTTTCGAAGCCTACACAAGTTGGTGGCACCTTTCTAATCCTCAAAGAGGAGGATACCTTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTTAGTCCTCAAAGAGCAGGATGCC-TTTT
* * *
49681 CTTTTCAAAGCCCACACAAGCTGGTGGCA-CTCTTTAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTTAGTCCTCAAAGAGCAGGATGCCTTTT
** * * **
49742 CCTTTTGAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGTAGGACACCTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTTAGTCCTCAAAGAGCAGGATGCCTTTT
* * *
49804 TCTTTGCAAAGCCCATACAAGTTGGTGGCACC-TTTTAGTCCTCAAAGAGTAGGATGCCTTTT
1 CCTTT-CAAAGCCCACACAAGTTGGTGGCACCTTTTTAGTCCTCAAAGAGCAGGATGCCTTTT
* * * *
49866 CTTTTCAAAGCCCACACGAGTTGGTGGCA-CTTTTTAGTCCTTAAAGAGCAGGACGCCTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTTAGTCCTCAAAGAGCAGGATGCCTTTT
49927 TTTTTCTCCT
Statistics
Matches: 311, Mismatches: 54, Indels: 12
0.82 0.14 0.03
Matches are distributed among these distances:
60 4 0.01
61 102 0.33
62 153 0.49
63 52 0.17
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.30
Consensus pattern (62 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTTAGTCCTCAAAGAGCAGGATGCCTTTT
Found at i:49848 original size:186 final size:185
Alignment explanation
Indices: 49497--49926 Score: 630
Period size: 186 Copynumber: 2.3 Consensus size: 185
49487 GCAGGATGCC
*
49497 TTTCAAAGCCCACACAAGTTGGTGGCAAC-CTTTAGTCCTCAAAAAGCAGGATGCCTTTTCCTTT
1 TTTCAAAGCCCACACAAGTTGGTGGC-ACTCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTT
** * * * *
49561 TAAAGCCCACATGAGCTGGTGGCACCTTTTTAGACCTTAAAGAGTAGGACGCCTTTTCCTTTCGA
65 TAAAGCCCACACAAGCTGGTGGCACCTTTCTAGACCTCAAAGAGTAGGACACCTTTTCCTTTCAA
*
49626 AGCCTACACAAGTTGGTGGCACCTTTCTAATCCTCAAAGAGGAGGATACCTTTTTCT
130 AGCCCACACAAGTTGGTGGCACCTTTCTAATCCTCAAAGAGGAGGATACC-TTTTCT
*
49683 TTTCAAAGCCCACACAAGCTGGTGGCACTCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
1 TTTCAAAGCCCACACAAGTTGGTGGCACTCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
* * * *
49748 GAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTGCAA
66 AAAGCCCACACAAGCTGGTGGCACCTTTCTAGACCTCAAAGAGTAGGACACCTTTTCCTTT-CAA
* * * *
49813 AGCCCATACAAGTTGGTGGCACCTTT-TAGTCCTCAAAGAGTAGGATGCCTTTTCT
130 AGCCCACACAAGTTGGTGGCACCTTTCTAATCCTCAAAGAGGAGGATACCTTTTCT
* * * *
49868 TTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTTAAAGAGCAGGACGCCTTTT
1 TTTCAAAGCCCACACAAGTTGGTGGCACTCTTTAGTCCTCAAAGAGCAGGATGCCTTTT
49927 TTTTTCTCCT
Statistics
Matches: 220, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
185 62 0.28
186 132 0.60
187 26 0.12
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (185 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACTCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
AAAGCCCACACAAGCTGGTGGCACCTTTCTAGACCTCAAAGAGTAGGACACCTTTTCCTTTCAAA
GCCCACACAAGTTGGTGGCACCTTTCTAATCCTCAAAGAGGAGGATACCTTTTCT
Found at i:50006 original size:42 final size:42
Alignment explanation
Indices: 49960--50285 Score: 200
Period size: 41 Copynumber: 7.7 Consensus size: 42
49950 CATGATGCTT
* *
49960 TTTCCTTTTCTCCTTTGCCCTCAAAGAGCAGGACACATTTCA
1 TTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
* **
50002 TTTCCTTCTTTTTCCTTTTGTCCTCAAAGAGCAGGATAC-TTTTT
1 TTTCC-T-TTTTTCC-TTTGTCCTCAAAGAGCAGGACACATTTCA
* * * * ** *
50046 TTTTCTTTTTTCATGTGTCCTCAAAGAGTAGGATGCACTTCA
1 TTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
* * *
50088 TTTCCTTCTTTTCCCTTCTAGTTCTCAAAGAGCAAGACGCACTTT-A
1 TTTCCTT-TTTT-CCTT-T-GTCCTCAAAGAGCAGGACACA-TTTCA
* * * *
50134 TTCTCC-TTTTTCATTTGTCCTCAAAAAGCAAGACACATTTAA
1 TT-TCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
* * * ** *
50176 TTT-CATGTTTCCTTTGTCTTCAAA-AGGCAGGATGCATTTTA
1 TTTCCTTTTTTCCTTTGTCCTCAAAGA-GCAGGACACATTTCA
* * * *
50217 TTTCCTTTTTTCCTTAGTCC-CTAAGGATCAGGACCCATTTC-
1 TTTCCTTTTTTCCTTTGTCCTC-AAAGAGCAGGACACATTTCA
* **
50258 TTT-CTCCTTTTCCTTAATCCTCAAAGAG
1 TTTCCT-TTTTTCCTTTGTCCTCAAAGAG
50286 TAAGATGCCC
Statistics
Matches: 221, Mismatches: 45, Indels: 37
0.73 0.15 0.12
Matches are distributed among these distances:
40 4 0.02
41 74 0.33
42 65 0.29
43 8 0.04
44 18 0.08
45 26 0.12
46 21 0.10
47 5 0.02
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (42 bp):
TTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
Found at i:50027 original size:45 final size:44
Alignment explanation
Indices: 49964--50179 Score: 162
Period size: 45 Copynumber: 4.9 Consensus size: 44
49954 ATGCTTTTTC
*
49964 CTTTTCTCC-TTTGCCCTCAAAGAGCAGGACACATTTCATTTCCTT
1 CTTTT-TCCATTTGTCCTCAAAGAGCAGGACACATTT-ATTTCCTT
* * *
50009 CTTTTTCCTTTTGTCCTCAAAGAGCAGGATAC-TTT-TTT-TTT
1 CTTTTTCCATTTGTCCTCAAAGAGCAGGACACATTTATTTCCTT
* * * *
50050 CTTTTTTCATGTGTCCTCAAAGAGTAGGATGCAC-TTCATTTCCTT
1 CTTTTTCCATTTGTCCTCAAAGAGCAGGA--CACATTTATTTCCTT
* * * * *
50095 C-TTTTCCCTTCTAGTTCTCAAAGAGCAAGACGCACTTTA-TT-CTC
1 CTTTTTCCATT-T-GTCCTCAAAGAGCAGGACACA-TTTATTTCCTT
* *
50139 CTTTTT-CATTTGTCCTCAAAAAGCAAGACACATTTAATTTC
1 CTTTTTCCATTTGTCCTCAAAGAGCAGGACACATTT-ATTTC
50180 ATGTTTCCTT
Statistics
Matches: 135, Mismatches: 23, Indels: 27
0.73 0.12 0.15
Matches are distributed among these distances:
41 30 0.22
42 22 0.16
43 7 0.05
44 23 0.17
45 36 0.27
46 17 0.13
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (44 bp):
CTTTTTCCATTTGTCCTCAAAGAGCAGGACACATTTATTTCCTT
Found at i:50068 original size:86 final size:87
Alignment explanation
Indices: 49978--50179 Score: 228
Period size: 88 Copynumber: 2.3 Consensus size: 87
49968 TCTCCTTTGC
* * * *
49978 CCTCAAAGAGCAGGACACATTTCATTTCCTTCTTTTTCCTT-TTGTCCTCAAAGAGCAGGA-TAC
1 CCTCAAAGAGCAGGACACATTTCATTTCCTTCTTTTCCCTTCTAGTCCTCAAAGAGCAAGACCAC
* * *
50041 TTTTTTTTTCTTTTTTCATGTGT
66 -TTTATTCTCCTTTTTCATGTGT
* ** * *
50064 CCTCAAAGAGTAGGATGCACTTCATTTCCTTCTTTTCCCTTCTAGTTCTCAAAGAGCAAGACGCA
1 CCTCAAAGAGCAGGACACATTTCATTTCCTTCTTTTCCCTTCTAGTCCTCAAAGAGCAAGAC-CA
*
50129 CTTTATTCTCCTTTTTCATTTGT
65 CTTTATTCTCCTTTTTCATGTGT
* * *
50152 CCTCAAAAAGCAAGACACATTTAATTTC
1 CCTCAAAGAGCAGGACACATTTCATTTC
50180 ATGTTTCCTT
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
86 36 0.39
87 16 0.17
88 39 0.42
89 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (87 bp):
CCTCAAAGAGCAGGACACATTTCATTTCCTTCTTTTCCCTTCTAGTCCTCAAAGAGCAAGACCAC
TTTATTCTCCTTTTTCATGTGT
Found at i:50942 original size:13 final size:13
Alignment explanation
Indices: 50924--50953 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
50914 ATACATTATT
50924 CATTGTATCGATA
1 CATTGTATCGATA
50937 CATTGTATCGATA
1 CATTGTATCGATA
50950 CATT
1 CATT
50954 CTGGGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:50993 original size:62 final size:63
Alignment explanation
Indices: 50874--51002 Score: 206
Period size: 62 Copynumber: 2.1 Consensus size: 63
50864 ATACATTGTT
* * * *
50874 CATTGTATCGATACATTTTGGGTTTTACCTAGATGTATTGATACATTATTCATTGTATCGATA
1 CATTGTATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTATTCAATGTATCGATA
*
50937 CATTGTATCGATACATTCTGGG-TTTACCCAGATGTATCGATACATTTTTCAATGTATCGATA
1 CATTGTATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTATTCAATGTATCGATA
50999 CATT
1 CATT
51003 CAGGCATTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
62 40 0.66
63 21 0.34
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (63 bp):
CATTGTATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTATTCAATGTATCGATA
Found at i:53482 original size:79 final size:79
Alignment explanation
Indices: 53350--53503 Score: 177
Period size: 79 Copynumber: 1.9 Consensus size: 79
53340 TCATTCATGT
* * ***
53350 TTTTATTTCCAAAACACCAATTTCTTAAAATCGGGGATACTCCAACCTTGTTATTTTTGAGGGGA
1 TTTTATTTCCAAAACACCAATTTCTTAAAATCGGGGAAACTCCAACCTCGTTATTTCCAAGGGGA
*
53415 TACTCTAACCTCGA
66 TACTCCAACCTCGA
** * * *
53429 TTTTATTTTTAAAACACCAATTT-TTCATAGTCGGGGAAACTCTAACGC-CGTTATTTCCAAGGG
1 TTTTATTTCCAAAACACCAATTTCTT-AAAATCGGGGAAACTCCAAC-CTCGTTATTTCCAAGGG
53492 GATACTCCAACC
64 GATACTCCAACC
53504 CCGTTATTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
78 2 0.03
79 59 0.95
80 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (79 bp):
TTTTATTTCCAAAACACCAATTTCTTAAAATCGGGGAAACTCCAACCTCGTTATTTCCAAGGGGA
TACTCCAACCTCGA
Found at i:53507 original size:28 final size:28
Alignment explanation
Indices: 53461--53564 Score: 111
Period size: 28 Copynumber: 3.7 Consensus size: 28
53451 TTTCATAGTC
* * * *
53461 GGGGAAACTCTAACGCCGTTATTTCCAA
1 GGGGATACTCCAACCCCGTTATTTCTAA
*
53489 GGGGATACTCCAACCCCGTTATTT-TATC
1 GGGGATACTCCAACCCCGTTATTTCTA-A
* *
53517 GGGGATACTCCAACCCTGTTATTTCTGA
1 GGGGATACTCCAACCCCGTTATTTCTAA
* *
53545 GGGGATACTCTAGCCCCGTT
1 GGGGATACTCCAACCCCGTT
53565 GTTATCTCCA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
27 1 0.02
28 61 0.97
29 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCTAA
Found at i:53539 original size:56 final size:56
Alignment explanation
Indices: 53459--53564 Score: 142
Period size: 56 Copynumber: 1.9 Consensus size: 56
53449 TTTTTCATAG
*
53459 TCGGGGAAACTCTAACGCCGTTATTTCCAAGGGGATACTCCAACCCCGTTATTTTA
1 TCGGGGAAACTCCAACGCCGTTATTTCCAAGGGGATACTCCAACCCCGTTATTTTA
* ** * *
53515 TCGGGGATACTCCAAC-CCTGTTATTTCTGAGGGGATACTCTAGCCCCGTT
1 TCGGGGAAACTCCAACGCC-GTTATTTCCAAGGGGATACTCCAACCCCGTT
53565 GTTATCTCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
55 2 0.05
56 41 0.95
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (56 bp):
TCGGGGAAACTCCAACGCCGTTATTTCCAAGGGGATACTCCAACCCCGTTATTTTA
Found at i:69659 original size:13 final size:13
Alignment explanation
Indices: 69643--69705 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
69633 GGTGTCTACA
*
69643 GTTGGTGCTTGGT
1 GTTGCTGCTTGGT
*
69656 GTTGCTGC-TGCT
1 GTTGCTGCTTGGT
* * *
69668 GGTTGTTGATTGTT
1 -GTTGCTGCTTGGT
*
69682 GTTGTTGCTTGGT
1 GTTGCTGCTTGGT
69695 GTTGCTGCTTG
1 GTTGCTGCTTG
69706 CTTGCTTCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 3 0.08
13 34 0.85
14 3 0.08
ACGTcount: A:0.02, C:0.11, G:0.38, T:0.49
Consensus pattern (13 bp):
GTTGCTGCTTGGT
Found at i:69690 original size:23 final size:23
Alignment explanation
Indices: 69655--69698 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
69645 TGGTGCTTGG
69655 TGTTGCTGCTGC-TGGTTGTTGAT
1 TGTTGCTGCTGCTTGG-TGTTGAT
* *
69678 TGTTGTTGTTGCTTGGTGTTG
1 TGTTGCTGCTGCTTGGTGTTG
69699 CTGCTTGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.02, C:0.09, G:0.36, T:0.52
Consensus pattern (23 bp):
TGTTGCTGCTGCTTGGTGTTGAT
Found at i:70244 original size:3 final size:3
Alignment explanation
Indices: 70236--70276 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
70226 AGCCTTCCTT
70236 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
70277 TATTTTTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:78239 original size:30 final size:30
Alignment explanation
Indices: 78205--78363 Score: 214
Period size: 30 Copynumber: 5.4 Consensus size: 30
78195 GGAGCATCAT
*
78205 TTTTCAAAGCCCCCAAGTTAGTGGCATCCC
1 TTTTCAAAGCCCACAAGTTAGTGGCATCCC
78235 TTTTCAAAGCCCACAAGTTAGTGGCATCCC
1 TTTTCAAAGCCCACAAGTTAGTGGCATCCC
* **
78265 TTTTCAAAGCTCACAAGTTAGTGGCATCTT
1 TTTTCAAAGCCCACAAGTTAGTGGCATCCC
* **
78295 TTTTCAAAGCTCACAAGTTAGTGGCATCTT
1 TTTTCAAAGCCCACAAGTTAGTGGCATCCC
* * *
78325 TTTTCAAAGCTCATAAGTTAGTAGCA-CCC
1 TTTTCAAAGCCCACAAGTTAGTGGCATCCC
78354 TTTT-AAAGCC
1 TTTTCAAAGCC
78364 TCTTTATAAT
Statistics
Matches: 120, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
28 5 0.04
29 5 0.04
30 110 0.92
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (30 bp):
TTTTCAAAGCCCACAAGTTAGTGGCATCCC
Found at i:84715 original size:33 final size:33
Alignment explanation
Indices: 84673--84739 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
84663 CGAGAGTTGA
* * *
84673 TCACTTCACTTTCGCAGTGCATAGATGAGCACT
1 TCACTTCACTTTCGAAGCGCATAGATGAGAACT
*
84706 TCACTTCACTTTCGAAGCGCATGGATGAGAACT
1 TCACTTCACTTTCGAAGCGCATAGATGAGAACT
84739 T
1 T
84740 TAGTTCTCTT
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:0.25, G:0.19, T:0.30
Consensus pattern (33 bp):
TCACTTCACTTTCGAAGCGCATAGATGAGAACT
Found at i:88645 original size:129 final size:129
Alignment explanation
Indices: 88412--88648 Score: 336
Period size: 129 Copynumber: 1.8 Consensus size: 129
88402 TCAAAATATG
* *
88412 TCATTTCGTACCTTAATGAAAACCCACAAAGATATGAAAAGTTTTTAAAATCTTTTAATGCCCCT
1 TCATTTCGTACCTTAATGAAAACCCACAAAGATACGAAAACTTTTTAAAATCTTTTAATGCCCCT
**
88477 ACGGATACCCATAAGAATATAAAAGATTAAAAATTATTAATATCTATTTATGTTTGGAAAAAAA
66 ACGGATACCCATAAGAATATAAAAGATTAAAAACGATTAATATCTATTTATGTTTGGAAAAAAA
* * * *
88541 TCATTTCGTACCTTAAT-AGATACCCGA-AAGGATACGAAAACTTTTTCAAAATCTTTT-ATTCT
1 TCATTTCGTACCTTAATGA-AAACCC-ACAAAGATACGAAAACTTTTT-AAAATCTTTTAATGCC
* *
88603 CCTACGGATACCCATAGGAATATAAAAGATTGAAAACGATTAATAT
63 CCTACGGATACCCATAAGAATATAAAAGATTAAAAACGATTAATAT
88649 TTGTTGTAAT
Statistics
Matches: 95, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
128 1 0.01
129 83 0.87
130 11 0.12
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (129 bp):
TCATTTCGTACCTTAATGAAAACCCACAAAGATACGAAAACTTTTTAAAATCTTTTAATGCCCCT
ACGGATACCCATAAGAATATAAAAGATTAAAAACGATTAATATCTATTTATGTTTGGAAAAAAA
Found at i:88981 original size:27 final size:27
Alignment explanation
Indices: 88944--88999 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
88934 TCCAATACAT
88944 CATCCACTCATCACGTCAACCTCAAAA
1 CATCCACTCATCACGTCAACCTCAAAA
88971 CATCCACTCATCACGTCAACCTCAAAA
1 CATCCACTCATCACGTCAACCTCAAAA
88998 CA
1 CA
89000 ACATGCAAAT
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:0.38, C:0.41, G:0.04, T:0.18
Consensus pattern (27 bp):
CATCCACTCATCACGTCAACCTCAAAA
Found at i:89649 original size:24 final size:24
Alignment explanation
Indices: 89622--89667 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
89612 TTTTCACTAT
*
89622 TTTCTCTATTTT-TTCTCTCTTTTC
1 TTTCTCT-TTTTCTTCTCCCTTTTC
89646 TTTCTCTTTTTCTTCTCCCTTT
1 TTTCTCTTTTTCTTCTCCCTTT
89668 GCTAGCTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTCTCTTTTTCTTCTCCCTTTTC
Found at i:90325 original size:166 final size:166
Alignment explanation
Indices: 90050--90767 Score: 833
Period size: 166 Copynumber: 4.3 Consensus size: 166
90040 ACAACATTAG
* ** * * * * * * *
90050 ATGAGTTTTAAAAATTCTAAACCAAGAAAAATCTCC-CAAAAAAATTTATAAAGAAGAAAACTCA
1 ATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAATTTACAGAGTAGAAAACACT
*** * *
90114 GT-TTCTCGGAAAAAGGAGAATTTCAA-CAAAAACATCCAAAACTCATGAAAATGAATTAATTTT
66 GTATT-TTAAAAAAAGGAGAATTTCAAGGAAAAA-ATCAAAAACTCATGAAAATGAATTAATTTT
* ** * *
90177 TTAAAACTAAACCAGTATGAGATAAATAATAATGTTTG
129 TGAAAACTAAATTAATATGAGATAAATAATAATGTTTA
*
90215 ATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTGGAAAAAATTTACAGAGTAGAAAACACT
1 ATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAATTTACAGAGTAGAAAACACT
* * * *
90280 GTATTTTAATAAAAGGAAAATTTCAAGGAAAAAATCAAAAACTCATGAAACTGAATGAATTTTTG
66 GTATTTTAAAAAAAGGAGAATTTCAAGGAAAAAATCAAAAACTCATGAAAATGAATTAATTTTTG
*
90345 AAAACTAAATTAATATGAGATAAATAATGATGTTTA
131 AAAACTAAATTAATATGAGATAAATAATAATGTTTA
*
90381 AGGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAATTTAC-GTAGTAGAAAACAC
1 ATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAATTTACAG-AGTAGAAAACAC
* * * * * *
90445 CGTATTTCGAAAAAAAAG-GAATTTCAAGGAAAAAATCAACAA-TGAATGAAAATGAA-TGATTT
65 TGTATTT-TAAAAAAAGGAGAATTTCAAGGAAAAAATCAAAAACT-CATGAAAATGAATTAATTT
* * *
90507 TTGAAAACTAAAATACTATGAGATAAATAATAATGTTTG
128 TTGAAAACTAAATTAATATGAGATAAATAATAATGTTTA
* * **
90546 ATGAATTTTAGAAATTTAAAACCAAG-AAAATCCCCTCGAAAAAATTTACAGAGTAGAAAATGCT
1 ATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAATTTACAGAGTAGAAAACACT
* *
90610 ATA-TTTAAAAAAAAGAGAATTTCAAGGAAAAAAATCAAAAACTCATGAAAATGAATTAATTTTT
66 GTATTTTAAAAAAAGGAGAATTTCAAGG-AAAAAATCAAAAACTCATGAAAATGAATTAATTTTT
* * * *
90674 TAAAACTGAATTAATATGAGATAAATAAAAATATTTA
130 GAAAACTAAATTAATATGAGATAAATAATAATGTTTA
* ** ** * *
90711 ATGAATTTTTAAAAATTAAAAATTAAGAAAAATCTTCTCAAAAAAATTTACGGAGTA
1 ATGAA-TTTTAAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAATTTACAGAGTA
90768 AAAGAACCTC
Statistics
Matches: 472, Mismatches: 68, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
162 9 0.02
163 13 0.03
164 58 0.12
165 140 0.30
166 213 0.45
167 39 0.08
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (166 bp):
ATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAATTTACAGAGTAGAAAACACT
GTATTTTAAAAAAAGGAGAATTTCAAGGAAAAAATCAAAAACTCATGAAAATGAATTAATTTTTG
AAAACTAAATTAATATGAGATAAATAATAATGTTTA
Found at i:90719 original size:330 final size:333
Alignment explanation
Indices: 90055--90767 Score: 924
Period size: 331 Copynumber: 2.2 Consensus size: 333
90045 ATTAGATGAG
** * *** * * *
90055 TTTTAAAAATTCTAAACCAAGAAAAATCTCC-CAAAAAAATTTATAAAGAAGAAAACTCAGT-TT
1 TTTTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTTACGGAGTAGAAAACACCGTATT
* * * * *
90118 CTCG-GAAAAAGGAGAATTTCAA-CAAAAACATCCAA-AACT-CATGAAAATGAATTAATTTTTT
66 -TCGAAAAAAAAG-GAATTTCAAGGAAAAA-AT-CAACAA-TGAATGAAAATGAATTAATTTTTG
* *
90179 AAAACTAAACCAGTATGAGATAAATAATAATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAA
126 AAAACTAAAACACTATGAGATAAATAATAATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAA
* * * *
90244 AATCCCCTGGAAAAAATTTACAGAGTAGAAAACACTGTATTTTAATAAAAGGAAAATTTCAAGGA
191 AATCCCCTCGAAAAAATTTACAGAGTAGAAAACACTATATTTTAAAAAAAAGAAAATTTCAAGGA
* **
90309 AAAAATCAAAAACTCATGAAACTGAATGAATTTTTGAAAACTAAATTAATATGAGATAAATAATG
256 AAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAAATTAATATGAGATAAATAAAA
*
90374 ATGTTTAAGGAA-
321 ATATTTAAGGAAT
* * *
90386 TTTTAAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAATTTACGTAGTAGAAAACACCGTATT
1 TTTTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTTACGGAGTAGAAAACACCGTATT
*
90451 TCGAAAAAAAAGGAATTTCAAGGAAAAAATCAACAATGAATGAAAATGAA-TGATTTTTGAAAAC
66 TCGAAAAAAAAGGAATTTCAAGGAAAAAATCAACAATGAATGAAAATGAATTAATTTTTGAAAAC
* * *
90515 TAAAATACTATGAGATAAATAATAATGTTTGATGAATTTTAGAAATTTAAAACCAAG-AAAATCC
131 TAAAACACTATGAGATAAATAATAATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCC
** *
90579 CCTCGAAAAAATTTACAGAGTAGAAAATGCTATA-TTTAAAAAAAAGAGAATTTCAAGGAAAAAA
196 CCTCGAAAAAATTTACAGAGTAGAAAACACTATATTTTAAAAAAAAGAAAATTTCAAGG-AAAAA
* * *
90643 ATCAAAAACTCATGAAAATGAATTAATTTTTTAAAACTGAATTAATATGAGATAAATAAAAATAT
260 ATCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAAATTAATATGAGATAAATAAAAATAT
*
90708 TTAATGAAT
325 TTAAGGAAT
** **
90717 TTTTAAAAATTAAAAATTAAGAAAAATCTTCTCAAAAAAATTTACGGAGTA
1 TTTTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTTACGGAGTA
90768 AAAGAACCTC
Statistics
Matches: 331, Mismatches: 43, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
329 21 0.06
330 107 0.32
331 140 0.42
332 50 0.15
333 13 0.04
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (333 bp):
TTTTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTTACGGAGTAGAAAACACCGTATT
TCGAAAAAAAAGGAATTTCAAGGAAAAAATCAACAATGAATGAAAATGAATTAATTTTTGAAAAC
TAAAACACTATGAGATAAATAATAATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCC
CCTCGAAAAAATTTACAGAGTAGAAAACACTATATTTTAAAAAAAAGAAAATTTCAAGGAAAAAA
TCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAAATTAATATGAGATAAATAAAAATATT
TAAGGAAT
Found at i:94304 original size:156 final size:151
Alignment explanation
Indices: 93898--94399 Score: 476
Period size: 155 Copynumber: 3.2 Consensus size: 151
93888 GCGTAAAAGC
* * * * * * *
93898 GACAACCTAAGACT-TGATTCTAAAAATTACAAAAATG-CTCGTAGAGGGTATCTTCGACGTAGA
1 GACAACCTCAGACTCAGGTTCTAAAAATTACGAAAATGCCTC-TA-AGGATACCTTTGACGTAGA
* * * *
93961 AGTGCTTGATACCCTTAAAGGACTTAAAAAGGATTATAGATGGGGTGAACCTATTCTAAATACCC
64 AGTGCCTGATACCCCTAAAGGACTTAAAAAGGATTATAGAT-GGATGAACCTATCCTAAATACCC
* * *
94026 AACTTCGGCATAACAATGGATTCAGT
128 AACTTCAGCATAA-AA-GAAATCAGT
* * * * * *
94052 GACAACCTCAGACTCAGGTTCTAGAAAATTATGAAAGTGCCCCTAAGGATACCTTTGATGAAAAA
1 GACAACCTCAGACTCAGGTTCTA-AAAATTACGAAAATGCCTCTAAGGATACCTTTGACGTAGAA
* * * * * *
94117 GTTCCCGATATCCCTAAAGGACTTAAAAAGGATAATAGACGAGATGAACCTATCCTAAATACCTA
65 GTGCCTGATACCCCTAAAGGACTTAAAAAGGATTATAGATG-GATGAACCTATCCTAAATACCCA
* *
94182 CCTTCAGCAGTAAAAGCAAATCCGAT
129 ACTTCAGCA-TAAAAG-AAATCAG-T
*
94208 GATAACCT-AGGACTCA-GTTCTAAAGAATTACGAAAATGCCTCTAAGTGATACCTTTGACGTAG
1 GACAACCTCA-GACTCAGGTTCTAAA-AATTACGAAAATGCCTCTAAG-GATACCTTTGACGTAG
* * *
94271 ACGTGCCTGATACCCCTAGAGGACTTAAAAAGGATTATAGATGGAATAAACCTATCCTAAATACC
63 AAGTGCCTGATACCCCTAAAGGACTTAAAAAGGATTATAGATGG-ATGAACCTATCCTAAATACC
* **
94336 CAACTTCAGCATAAAAGTGAACTTGGT
127 CAACTTCAGCATAAAA--GAAATCAGT
*
94363 GACAACCT-AGGACTC-GGTTCTAAAATATTATGAAAAT
1 GACAACCTCA-GACTCAGGTTCTAAAA-ATTACGAAAAT
94400 AGCCCTATAG
Statistics
Matches: 283, Mismatches: 50, Indels: 29
0.78 0.14 0.08
Matches are distributed among these distances:
154 18 0.06
155 150 0.53
156 112 0.40
157 3 0.01
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (151 bp):
GACAACCTCAGACTCAGGTTCTAAAAATTACGAAAATGCCTCTAAGGATACCTTTGACGTAGAAG
TGCCTGATACCCCTAAAGGACTTAAAAAGGATTATAGATGGATGAACCTATCCTAAATACCCAAC
TTCAGCATAAAAGAAATCAGT
Found at i:95980 original size:14 final size:13
Alignment explanation
Indices: 95943--96000 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 13
95933 AATTATACCG
95943 TAAAAATT-AATA
1 TAAAAATTAAATA
*
95955 AAAAAGATTAAATTA
1 TAAAA-ATTAAA-TA
*
95970 TAAAAATTAAAGA
1 TAAAAATTAAATA
*
95983 TTAAAAATTAAATT
1 -TAAAAATTAAATA
95997 TAAA
1 TAAA
96001 TTTTATATGA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
12 4 0.11
13 8 0.22
14 19 0.51
15 6 0.16
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
TAAAAATTAAATA
Found at i:95994 original size:21 final size:19
Alignment explanation
Indices: 95943--95994 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
95933 AATTATACCG
95943 TAAAAATTAATAAAAAAGAT
1 TAAAAATTAA-AAAAAAGAT
*
95963 T-AAATTATAAAAATTAAAGAT
1 TAAAAAT-TAAAAA--AAAGAT
95984 TAAAAATTAAA
1 TAAAAATTAAA
95995 TTTAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
19 7 0.27
20 4 0.15
21 11 0.42
22 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (19 bp):
TAAAAATTAAAAAAAAGAT
Found at i:96375 original size:167 final size:165
Alignment explanation
Indices: 96189--96836 Score: 594
Period size: 167 Copynumber: 3.9 Consensus size: 165
96179 ATGAGAGTTT
* * * *
96189 AATAACAAT-ATTAGATAAATTTTAAAAATTCTAAA-CAGAGAAAAATTCTTTCGAAAATATTTA
1 AATAATAATAATT-GATAAATTTTAAAAATTATAAATCA-AGAAAAA-TCTTTCCAAAAAATTTA
* * * *
96252 TGGGGTAGAAAATTTTGTTTTTCGAAAATAAAAGGGTTTTAAAGAAAAAAATTCAA-AACTCATG
63 TGGGGTAGAAAACTTCGTATTTCGAAAATAAAAGGGTTTT-AAGAAGAAAA-TCAATAACTCATG
** *
96316 AAAATAAATTAATTTTTCAAAACTGATTTAAT-ATGAATTA
126 AAAATAAAAGAATTTTTCAAAACTGATCTAATGATG-ATTA
* * * * * ** * **
96356 AATGATAATATTTGATAAATTTTAAAAATTAAAAAACATGAAAAATCCCTCTGAAAACCTTTATG
1 AATAATAATAATTGATAAATTTTAAAAATTATAAATCAAGAAAAATCTTTC-CAAAAAATTTATG
* * * ** *
96421 GAGTAGAAAACTTCGTATTTCGGAAATAGGAAGAATTCT-AGAAGAAAATCAATAACTCATGAAA
65 GGGTAGAAAACTTCGTATTTCGAAAATA-AAAGGGTTTTAAGAAGAAAATCAATAACTCATGAAA
* * *
96485 AAAAAAGAATTTTTCAAAATTGATCTAATGGTGATTA
129 ATAAAAGAATTTTTCAAAACTGATCTAATGATGATTA
* *
96522 AATAATAATAATTGATGAATTTTAAAATTTATAAATCAAGAAAAATCTTTCCAAAAAATTTTAT-
1 AATAATAATAATTGATAAATTTTAAAAATTATAAATCAAGAAAAATCTTTCCAAAAAA-TTTATG
* ** * * * * ** *
96586 AGACAAAAAACTTCATATTTCAAAAATAAAGGGGAATTCCAA-AAGAAAATCAATAACTAATGAA
65 GGGTAGAAAACTTCGTATTTCGAAAATAAAAGGG--TTTTAAGAAGAAAATCAATAACTCATGAA
*
96650 AATAAAAAGAATTTTTCAAAACTGATCTAATGGTGATTA
128 AAT-AAAAGAATTTTTCAAAACTGATCTAATGATGATTA
* *
96689 AATAATAATAATTGATGAATTTTAAAATTTATAAATCAAGAAAAATCTTTCCAAAAAATTTTAT-
1 AATAATAATAATTGATAAATTTTAAAAATTATAAATCAAGAAAAATCTTTCCAAAAAA-TTTATG
* ** * * * * ** *
96753 AGACAAAAAACTTCATATTTCAAAAATAAAGGGGAATTCCAA-AAGAAAATCAATAACTAATGAA
65 GGGTAGAAAACTTCGTATTTCGAAAATAAAAGGG--TTTTAAGAAGAAAATCAATAACTCATGAA
96817 AATAAAAAGAATTTTTCAAA
128 AAT-AAAAGAATTTTTCAAA
96837 CACTATTTGA
Statistics
Matches: 416, Mismatches: 54, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
164 2 0.00
165 28 0.07
166 124 0.30
167 252 0.61
168 10 0.02
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (165 bp):
AATAATAATAATTGATAAATTTTAAAAATTATAAATCAAGAAAAATCTTTCCAAAAAATTTATGG
GGTAGAAAACTTCGTATTTCGAAAATAAAAGGGTTTTAAGAAGAAAATCAATAACTCATGAAAAT
AAAAGAATTTTTCAAAACTGATCTAATGATGATTA
Found at i:96878 original size:167 final size:167
Alignment explanation
Indices: 96299--96836 Score: 737
Period size: 167 Copynumber: 3.2 Consensus size: 167
96289 TTTAAAGAAA
* ** * * *
96299 AAAATTCAA-AACTCATGAAAAT-AAATTAATTTTTCAAAACTGATTTAAT-ATGAATTAAATGA
1 AAAA-TCAATAACTAATGAAAATAAAAAGAATTTTTCAAAACTGATCTAATGGTG-ATTAAATAA
* * * * * * ** ** ** * *
96361 TAATATTTGATAAATTTTAAAAATTAAAAAACATGAAAAATCCCTCTGAAAACCTTTATGGAGTA
64 TAATAATTGATGAATTTTAAAATTTATAAATCAAGAAAAATCTTTCCAAAAAATTTTATAGA-CA
* * ** * * *
96426 GAAAACTTCGTATTTCGGAAAT--AGGAAGAATTCTAGAAG
128 AAAAACTTCATATTTCAAAAATAAAGG-GGAATTCCAAAAG
* *
96465 AAAATCAATAACTCATGAAAA-AAAAAGAATTTTTCAAAATTGATCTAATGGTGATTAAATAATA
1 AAAATCAATAACTAATGAAAATAAAAAGAATTTTTCAAAACTGATCTAATGGTGATTAAATAATA
96529 ATAATTGATGAATTTTAAAATTTATAAATCAAGAAAAATCTTTCCAAAAAATTTTATAGACAAAA
66 ATAATTGATGAATTTTAAAATTTATAAATCAAGAAAAATCTTTCCAAAAAATTTTATAGACAAAA
96594 AACTTCATATTTCAAAAATAAAGGGGAATTCCAAAAG
131 AACTTCATATTTCAAAAATAAAGGGGAATTCCAAAAG
96631 AAAATCAATAACTAATGAAAATAAAAAGAATTTTTCAAAACTGATCTAATGGTGATTAAATAATA
1 AAAATCAATAACTAATGAAAATAAAAAGAATTTTTCAAAACTGATCTAATGGTGATTAAATAATA
96696 ATAATTGATGAATTTTAAAATTTATAAATCAAGAAAAATCTTTCCAAAAAATTTTATAGACAAAA
66 ATAATTGATGAATTTTAAAATTTATAAATCAAGAAAAATCTTTCCAAAAAATTTTATAGACAAAA
96761 AACTTCATATTTCAAAAATAAAGGGGAATTCCAAAAG
131 AACTTCATATTTCAAAAATAAAGGGGAATTCCAAAAG
96798 AAAATCAATAACTAATGAAAATAAAAAGAATTTTTCAAA
1 AAAATCAATAACTAATGAAAATAAAAAGAATTTTTCAAA
96837 CACTATTTGA
Statistics
Matches: 337, Mismatches: 29, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
165 23 0.07
166 126 0.37
167 188 0.56
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.30
Consensus pattern (167 bp):
AAAATCAATAACTAATGAAAATAAAAAGAATTTTTCAAAACTGATCTAATGGTGATTAAATAATA
ATAATTGATGAATTTTAAAATTTATAAATCAAGAAAAATCTTTCCAAAAAATTTTATAGACAAAA
AACTTCATATTTCAAAAATAAAGGGGAATTCCAAAAG
Found at i:101311 original size:20 final size:20
Alignment explanation
Indices: 101286--101362 Score: 154
Period size: 20 Copynumber: 3.9 Consensus size: 20
101276 GTTAAAAGAC
101286 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
101306 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
101326 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
101346 AGAATGTATCGATACAT
1 AGAATGTATCGATACAT
101363 CTGGGTACTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:101960 original size:3 final size:3
Alignment explanation
Indices: 101952--101988 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
101942 AGAATATCTA
101952 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
101989 GCAAGTCTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:111460 original size:77 final size:77
Alignment explanation
Indices: 111323--111480 Score: 178
Period size: 77 Copynumber: 2.1 Consensus size: 77
111313 AAAGTGACTA
* * **
111323 TAATGAACATGTATCGATATAAAAATGCCAACATGATCCTAAACTCCATTGTGATGTGAAAATCA
1 TAATGAACATGCATCGATATAAAAATGCCAACATGATCCTAAACTCCATTGTAACATGAAAATCA
* *
111388 CTAAAATGTCCT
66 CCAAAATGACCT
* * *
111400 TAATGAACATGCATTGATATGAAAATGCC-A-ATGATCCTAAGGACT-CAGTTTTAACATGAAAA
1 TAATGAACATGCATCGATATAAAAATGCCAACATGATCCTAA--ACTCCA-TTGTAACATGAAAA
*
111462 TTACCAAAATGACCT
63 TCACCAAAATGACCT
111477 TAAT
1 TAAT
111481 AGGTGTATTC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
75 10 0.15
76 3 0.04
77 55 0.81
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.28
Consensus pattern (77 bp):
TAATGAACATGCATCGATATAAAAATGCCAACATGATCCTAAACTCCATTGTAACATGAAAATCA
CCAAAATGACCT
Found at i:114974 original size:79 final size:78
Alignment explanation
Indices: 114845--115142 Score: 337
Period size: 79 Copynumber: 3.8 Consensus size: 78
114835 AACGGGGCTG
* * *
114845 GAGTATCCCCGATTATGGAAAATCGGTGTTTTGGAAATAAAATCGAGGTTGGAGTATCCCCTCGA
1 GAGTATCCCCGATTATGAAAAATCGATATTTTGGAAATAAAATCGAGGTTGGAGTATCCCCTCGA
*
114910 AAATAATAAGGTTG
66 AAATAA-AAGGTTA
* * * *
114924 GAGTATCTCTGATTAT-AGAAAATCGATATTTTGAAAATAAAATCGAGGTTGAAGTATCCCCTCG
1 GAGTATCCCCGATTATGA-AAAATCGATATTTTGGAAATAAAATCGAGGTTGGAGTATCCCCTCG
** *
114988 AAAATGACGAGGTCA
65 AAAAT-AAAAGGTTA
* * * * * * **
115003 GAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGGAATAAAATCGGGGTTGGAGTATCCCCTTAA
1 GAGTATCCCCGATTATGAAAAATCGATATTTTGGAAATAAAATCGAGGTTGGAGTATCCCCTCGA
* *
115068 AAATAACAGAATTA
66 AAATAAAAG-GTTA
* * *
115082 GAGTATCCCCGATTATGAAAAATTGATATTTTGGAAATAAAATCGGGGTTAGAGTATCCCC
1 GAGTATCCCCGATTATGAAAAATCGATATTTTGGAAATAAAATCGAGGTTGGAGTATCCCC
115143 AAGATGAAAA
Statistics
Matches: 183, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
78 3 0.02
79 178 0.97
80 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (78 bp):
GAGTATCCCCGATTATGAAAAATCGATATTTTGGAAATAAAATCGAGGTTGGAGTATCCCCTCGA
AAATAAAAGGTTA
Found at i:115138 original size:158 final size:158
Alignment explanation
Indices: 114845--115142 Score: 413
Period size: 158 Copynumber: 1.9 Consensus size: 158
114835 AACGGGGCTG
* *
114845 GAGTATCCCCGATTATGGAAAATCGGTGTTTTGGAAATAAAATCGAGGTTGGAGTATCCCCTCGA
1 GAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGAGGTTGGAGTATCCCCTCAA
* * * * *
114910 AAATAATAAGGTTGGAGTATCTCTGATTATAGAAAATCGATATTTTGAAAATAAAATCGAGGTTG
66 AAATAACAAGATTAGAGTATCCCCGATTATAGAAAATCGATATTTTGAAAATAAAATCGAGGTTG
114975 AAGTATCCCCTCGAAAATGACGAGGTCA
131 AAGTATCCCCTCGAAAATGACGAGGTCA
* * * * *
115003 GAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGGAATAAAATCGGGGTTGGAGTATCCCCTTAA
1 GAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGAGGTTGGAGTATCCCCTCAA
* * *
115068 AAATAAC-AGAATTAGAGTATCCCCGATTAT-GAAAAATTGATATTTTGGAAATAAAATCGGGGT
66 AAATAACAAG-ATTAGAGTATCCCCGATTATAG-AAAATCGATATTTTGAAAATAAAATCGAGGT
115131 T-AGAGTATCCCC
129 TGA-AGTATCCCC
115143 AAGATGAAAA
Statistics
Matches: 122, Mismatches: 15, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
157 4 0.03
158 118 0.97
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (158 bp):
GAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGAGGTTGGAGTATCCCCTCAA
AAATAACAAGATTAGAGTATCCCCGATTATAGAAAATCGATATTTTGAAAATAAAATCGAGGTTG
AAGTATCCCCTCGAAAATGACGAGGTCA
Found at i:117423 original size:20 final size:20
Alignment explanation
Indices: 117398--117500 Score: 89
Period size: 20 Copynumber: 4.8 Consensus size: 20
117388 AAAATGCCTG
117398 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
117418 AATGTATCGATACATCTGGTAAACCCA
1 AATGTATCGATACAT-T-G--AA---A
* *
117445 GAATGTATCGATACAATGAAC
1 -AATGTATCGATACATTGAAA
* * *
117466 CATGTATCGATACAATGAAT
1 AATGTATCGATACATTGAAA
117486 AATGTATCGATACAT
1 AATGTATCGATACAT
117501 GGGGTAAAAC
Statistics
Matches: 69, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
20 46 0.67
21 1 0.01
22 1 0.01
24 4 0.06
26 1 0.01
27 2 0.03
28 14 0.20
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:117508 original size:68 final size:69
Alignment explanation
Indices: 117398--117549 Score: 234
Period size: 69 Copynumber: 2.2 Consensus size: 69
117388 AAAATGCCTG
* *
117398 AATGTATCGATACATTGAAAAATGTATCGATACATCTGGT-AAACCCAGAATGTATCGATACAAT
1 AATGTATCGATACAATGAAAAATGTATCGATACATCGGGTAAAACCCAGAATGTATCGATACAAT
117462 GAAC
66 GAAC
* * * *
117466 CATGTATCGATACAATGAATAATGTATCGATACATGGGGTAAAACCCAGAATGTGTCGATACAAT
1 AATGTATCGATACAATGAAAAATGTATCGATACATCGGGTAAAACCCAGAATGTATCGATACAAT
117531 GAAC
66 GAAC
*
117535 AATATATCGATACAA
1 AATGTATCGATACAA
117550 ATTGTGAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
68 35 0.47
69 40 0.53
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (69 bp):
AATGTATCGATACAATGAAAAATGTATCGATACATCGGGTAAAACCCAGAATGTATCGATACAAT
GAAC
Found at i:118283 original size:41 final size:41
Alignment explanation
Indices: 118134--118482 Score: 219
Period size: 41 Copynumber: 8.3 Consensus size: 41
118124 AAGGAAGGGG
* *
118134 GTGTCCTGCTCTTTAAGGACAAAGG-AAAAGGAGAATGAAAT
1 GTGTCCTGCTCTTTGAGGACAAAGGAAAAAGGA-AATAAAAT
* * * *
118175 GGGTCCTACTCCTTGAGGACAAAGGAAAAAAATGAAATAAAAT
1 GTGTCCTGCTCTTTGAGGACAAAGG--AAAAAGGAAATAAAAT
** ** * * *
118218 GCATCCCACCCTTTGTA-GATAAAGGAAAAAGGAAATTAAAT
1 GTGTCCTGCTCTTTG-AGGACAAAGGAAAAAGGAAATAAAAT
* * *
118259 GTGTCCTGCTTTTTTAGGACAAAGGAAAAAAGAGAATAAAAT
1 GTGTCCTGCTCTTTGAGGACAAAGGAAAAAGGA-AATAAAAT
* * ** *
118301 GCGTCATGCTCTTTGAAAACTAGAAGGGAAAAGAAGGAAATAAAGT
1 GTGTCCTGCTCTTTGAGGAC-A-AA-GG-AAA-AAGGAAATAAAAT
* *
118347 GTGTCCTACTCTTTGAGGACAAAGGAAAAAAGAAA-AAAA-
1 GTGTCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAAT
*** * * * *
118386 ACATCCTGTTTTTTGAGGATAAAAGGGAAAAGAAGGAAATGAAAT
1 GTGTCCTGCTCTTTGAGGA-CAAA-GG-AAA-AAGGAAATAAAAT
* *
118431 GTGTCCTGCTCTTTGAGGGCAAAAGAGAAAAGG--A-AAAA-
1 GTGTCCTGCTCTTTGAGGACAAAGGA-AAAAGGAAATAAAAT
118469 GTGTCCTGCTCTTT
1 GTGTCCTGCTCTTT
118483 AGGGACTAAA
Statistics
Matches: 233, Mismatches: 57, Indels: 39
0.71 0.17 0.12
Matches are distributed among these distances:
38 14 0.06
39 16 0.07
40 8 0.03
41 65 0.28
42 32 0.14
43 36 0.15
44 17 0.07
45 16 0.07
46 25 0.11
47 4 0.02
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (41 bp):
GTGTCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAAT
Found at i:118437 original size:84 final size:85
Alignment explanation
Indices: 118161--118482 Score: 295
Period size: 84 Copynumber: 3.8 Consensus size: 85
118151 GACAAAGGAA
* * **
118161 AAGGAGAATGAAATGGGTCCTACTCCTTGAGGACAAAGGAAAAAAATGAAATAAAATGCATCCCA
1 AAGGA-AATGAAATGTGTCCTACTCTTTGAGGACAAAGG-AAAAAA-GAAATAAAATGCATCCTG
*
118226 CCCTTTGTAGAT-AAA-GG-AAA-
63 CTCTTTG-AGATAAAAGGGAAAAG
* * * * * *
118246 AAGGAAATTAAATGTGTCCTGCTTTTTTAGGACAAAGGAAAAAAGAGAATAAAATGCGTCATGCT
1 AAGGAAATGAAATGTGTCCTACTCTTTGAGGACAAAGGAAAAAAGA-AATAAAATGCATCCTGCT
* *
118311 CTTTGAAAACTAGAAGGGAAAAG
65 CTTTG-AGA-TAAAAGGGAAAAG
* *
118334 AAGGAAAT-AAAGTGTGTCCTACTCTTTGAGGACAAAGGAAAAAAGAAA-AAAA-ACATCCTGTT
1 AAGGAAATGAAA-TGTGTCCTACTCTTTGAGGACAAAGGAAAAAAGAAATAAAATGCATCCTGCT
*
118396 TTTTGAGGATAAAAGGGAAAAG
65 CTTTGA-GATAAAAGGGAAAAG
* * * * * *
118418 AAGGAAATGAAATGTGTCCTGCTCTTTGAGGGCAAAAGAGAAAAGGAA-AAAGTG--TCCTGCTC
1 AAGGAAATGAAATGTGTCCTACTCTTTGAGGACAAAGGAAAAAAGAAATAAAATGCATCCTGCTC
118480 TTT
66 TTT
118483 AGGGACTAAA
Statistics
Matches: 194, Mismatches: 33, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
82 2 0.01
83 35 0.18
84 83 0.43
85 21 0.11
86 6 0.03
87 8 0.04
88 39 0.20
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (85 bp):
AAGGAAATGAAATGTGTCCTACTCTTTGAGGACAAAGGAAAAAAGAAATAAAATGCATCCTGCTC
TTTGAGATAAAAGGGAAAAG
Found at i:118714 original size:63 final size:62
Alignment explanation
Indices: 118457--118926 Score: 545
Period size: 62 Copynumber: 7.6 Consensus size: 62
118447 GGGCAAAAGA
* * *
118457 GAAAAGGAAAAA-GTGTCCTGCTCTTT-AGGGACTAAAATGTGCCACCAACTCGTGTGGGCTTT
1 GAAAA-GAAAAAGGCGTCCTGCTCTTTGA-GGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
118519 GAATA-AAAAATGTGTCCTGCTCTTTGAGGACAAAAAGGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * *
118580 GAAAAGAAGAAGGTGCCCTGTTCTTTGAGGACTAAGAA-GTGCCACCAACTTGTATGGGCTAT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAA-AAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
118642 GAAAAGAAAAAGGTGTCCTGCTCTTTGTGGACTAGAAAGGTGCCACCAATTTGTATGGGC-TT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * * *
118704 CAAAAGGAAAAGGCATCTTGCTCTTTGAGGACTAAATGGTGCCACAAACATGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
118766 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAGCTTGTGTGGGCTTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGC-TTT
* * * *
118829 AAAAAGAAAATGGCGCCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
118891 TAAAAGGAAAAGGCGTCCTGCTTTTTAAGGACTAAA
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAA
118927 GGGTCAAAGG
Statistics
Matches: 350, Mismatches: 50, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
60 5 0.01
61 70 0.20
62 196 0.56
63 79 0.23
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (62 bp):
GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:119051 original size:62 final size:62
Alignment explanation
Indices: 118946--119207 Score: 283
Period size: 60 Copynumber: 4.3 Consensus size: 62
118936 GCAGAGAGTG
* ** *
118946 TCCTGCTC-TTTGAGGATTGGGAGGTGCCACCAACTTGTGTGGGCTTTGTAAGGAGAAA-GCA
1 TCCTGCTCTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGA-AAAGGCA
* * * * *
119007 TCCTGCCCTTTTGAGGACTGGAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCA
* * *
119069 TCCTACTC--TTGAGTACTAGAAAAGTGCCA-CAACTTGTGTGGGCTTTGAAAGGAAAAGGCA
1 TCCTGCTCTTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCA
* *
119129 TCCTG-TTTTTTGAGGACT-AAAGG-GTCCACCAA-TATGTGTGGGCTTTGAAAAGAAAAAGGCA
1 TCCTGCTCTTTTGAGGACTGAAAGGTG-CCACCAACT-TGTGTGGGCTTTG-AAAGGAAAAGGCA
119190 TCCTGCTC-TTTGAGGACT
1 TCCTGCTCTTTTGAGGACT
119208 AAATAATGTA
Statistics
Matches: 170, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
58 1 0.01
59 9 0.05
60 56 0.33
61 54 0.32
62 50 0.29
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (62 bp):
TCCTGCTCTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCA
Found at i:119109 original size:122 final size:123
Alignment explanation
Indices: 118969--119208 Score: 312
Period size: 122 Copynumber: 2.0 Consensus size: 123
118959 GGATTGGGAG
* *
118969 GTGCCACCAACTTGTGTGGGCTTTGTAAGGAGAAA-GCATCCTGCCCTTTTGAGGACTGGAA-GG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAGGA-AAAGGCATCCTG-CCTTTTGAGGACT-AAAGGG
* * *
119032 TGCCACCAACT-TATGTGGGCTTT-AAAAGGAAAAGGCGTCCTACTC-TTGAGTACTAGAAAA
63 T-CCACCAA-TATATGTGGGCTTTGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAGAAAA
**
119092 GTGCCA-CAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTGTTTTTTGAGGACTAAAGGGTCC
1 GTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTGCCTTTTGAGGACTAAAGGGTCC
* *
119156 ACCAATATGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTA
66 ACCAATATATGTGGGCTTTGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTA
119209 AATAATGTAT
Statistics
Matches: 103, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
119 1 0.01
120 20 0.19
121 36 0.35
122 40 0.39
123 6 0.06
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (123 bp):
GTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTGCCTTTTGAGGACTAAAGGGTCC
ACCAATATATGTGGGCTTTGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAGAAAA
Found at i:119271 original size:20 final size:20
Alignment explanation
Indices: 119248--119343 Score: 66
Period size: 20 Copynumber: 4.3 Consensus size: 20
119238 GTAATGTTTT
*
119248 GATACAATGAACCATGTATC
1 GATACAATGAACAATGTATC
* *
119268 GATACAATGAATAATGTATT
1 GATACAATGAACAATGTATC
*
119288 GATACATTGGGTAAAACCTAGAATGTATC
1 GATACAAT--G---AA-C---AATGTATC
*
119317 GATACAATGAACAATATATC
1 GATACAATGAACAATGTATC
119337 GATACAA
1 GATACAA
119344 ATTGTGAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 18
0.69 0.09 0.21
Matches are distributed among these distances:
20 38 0.64
22 1 0.02
23 1 0.02
24 2 0.03
25 2 0.03
27 1 0.02
29 14 0.24
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.27
Consensus pattern (20 bp):
GATACAATGAACAATGTATC
Found at i:120114 original size:45 final size:41
Alignment explanation
Indices: 120052--120168 Score: 128
Period size: 46 Copynumber: 2.7 Consensus size: 41
120042 TGTCCTGTTT
* *
120052 TTTGAGGACAAAGGAAAAAAGACAATAAAGTGCGTCATGCTC
1 TTTGAGAACAAAGGAAAAAAGA-AATAAAGTGCGTCATACTC
*
120094 TTTGAGAACTAAAAGGGAAAAGAAGGAAATAAAGTGCGTCCTACTC
1 TTTGAGAAC--AAA-GGAAAA-AA-GAAATAAAGTGCGTCATACTC
*
120140 TTTGAGGACAAAGGAAAAAAGGAAA-AAAG
1 TTTGAGAACAAAGGAAAAAA-GAAATAAAG
120169 CATCCTGCTT
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
41 4 0.06
42 15 0.23
43 6 0.09
44 6 0.09
45 6 0.09
46 27 0.41
47 2 0.03
ACGTcount: A:0.47, C:0.11, G:0.25, T:0.17
Consensus pattern (41 bp):
TTTGAGAACAAAGGAAAAAAGAAATAAAGTGCGTCATACTC
Found at i:120126 original size:46 final size:45
Alignment explanation
Indices: 120028--120230 Score: 160
Period size: 42 Copynumber: 4.7 Consensus size: 45
120018 CTAAAGGAAA
* * * *
120028 AAGGAAATTAAATGTGTCCTGTTTTTTGAGGAC--AAA-GGAAAA-
1 AAGGAAA-TAAATGCGTCATGCTCTTTGAGGACTAAAAGGGAAAAG
*
120070 AA-GACAATAAAGTGCGTCATGCTCTTTGAGAACTAAAAGGGAAAAG
1 AAGGA-AATAAA-TGCGTCATGCTCTTTGAGGACTAAAAGGGAAAAG
* *
120116 AAGGAAATAAAGTGCGTCCTACTCTTTGAGGAC--AAA-GGAAAA-
1 AAGGAAATAAA-TGCGTCATGCTCTTTGAGGACTAAAAGGGAAAAG
* * * *
120158 AAGGAAA-AAA-GCATCCTGCTTTTTTAGGA-TAAAAGGGAAAAG
1 AAGGAAATAAATGCGTCATGCTCTTTGAGGACTAAAAGGGAAAAG
**
120200 AAGGAAATGAAATATGTCATGCTCTTTGAGG
1 AAGGAAAT-AAATGCGTCATGCTCTTTGAGG
120231 GCAAAAAAGA
Statistics
Matches: 129, Mismatches: 18, Indels: 25
0.75 0.10 0.15
Matches are distributed among these distances:
39 15 0.12
40 3 0.02
41 15 0.12
42 34 0.26
43 6 0.05
44 9 0.07
45 18 0.14
46 27 0.21
47 2 0.02
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (45 bp):
AAGGAAATAAATGCGTCATGCTCTTTGAGGACTAAAAGGGAAAAG
Found at i:120225 original size:84 final size:86
Alignment explanation
Indices: 119943--120249 Score: 240
Period size: 84 Copynumber: 3.6 Consensus size: 86
119933 GACAAAGGAA
* * * * * * **
119943 AAGGAGAATGAAATGGGTCCTACTCCTTGAGGACAAAGGAAAAAAATGAAATAAAATGCAACCCG
1 AAGGA-AAT-AAATGTGTCCTGCTCTTTGAGGACAAAGG-AAAAAAGGAAAT-AAAGGCATCATG
*
120008 CCCTTTGTAG--CT-AAA-GG-AAA-
62 CTCTTTG-AGAACTAAAAGGGAAAAG
* * *
120028 AAGGAAATTAAATGTGTCCTGTTTTTTGAGGACAAAGGAAAAAA-GACAATAAAGTGCGTCATGC
1 AAGGAAA-TAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGA-AATAAAG-GCATCATGC
120092 TCTTTGAGAACTAAAAGGGAAAAG
63 TCTTTGAGAACTAAAAGGGAAAAG
* * * *
120116 AAGGAAATAAAGTGCGTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAA-AAA-GCATCCTGCTT
1 AAGGAAATAAA-TGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGGCATCATGCTC
* *
120179 TTTTAGGA-TAAAAGGGAAAAG
65 TTTGAGAACTAAAAGGGAAAAG
* * * *
120200 AAGGAAATGAAATATGTCATGCTCTTTGAGGGCAAA-AAAGAAAAGGAAAT
1 AAGGAAAT-AAATGTGTCCTGCTCTTTGAGGACAAAGGAA-AAAAGGAAAT
120250 GGTGTCCTAC
Statistics
Matches: 182, Mismatches: 26, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
82 7 0.04
83 21 0.12
84 77 0.42
85 26 0.14
86 2 0.01
87 10 0.05
88 37 0.20
89 2 0.01
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (86 bp):
AAGGAAATAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGGCATCATGCTCT
TTGAGAACTAAAAGGGAAAAG
Found at i:120390 original size:62 final size:62
Alignment explanation
Indices: 120239--120669 Score: 555
Period size: 62 Copynumber: 7.0 Consensus size: 62
120229 GGGCAAAAAA
* * * * * **
120239 GAAAAGGAAATGGTGTCCTACTCTTT-AGGGACTAAAATGTGCCACCAACTCATGT-GGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGA-GGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
120300 GAAAAG-AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGCGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
120361 GAAAAGAAAAAGGCGTCCTGCTTTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
120423 GAAAAGAAAAAGGTGTCTTGCTCTTTGTGGACTAGAAGGGTGCCACCAATTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * *** * * *
120486 GAAAAG-AAAAGGCATCTTGCTCTTTGAGGACTAAATCTTGCCACAAACATGTGTGAGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
120547 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAGCTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
120609 AAAAAGAAAAAGGCGCCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTT
120670 ATTTAAGGAG
Statistics
Matches: 322, Mismatches: 43, Indels: 9
0.86 0.11 0.02
Matches are distributed among these distances:
60 39 0.12
61 45 0.14
62 207 0.64
63 31 0.10
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (62 bp):
GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:121023 original size:62 final size:61
Alignment explanation
Indices: 120702--121342 Score: 790
Period size: 62 Copynumber: 10.4 Consensus size: 61
120692 GGAGAGAGCA
* *** **
120702 TCCTACTCTTTGAGGACTTGGAGGTGCCACCAACTTGTGTGGG-TGTTGTAAGGAGAAA-GCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCT-TTAAAAGGA-AAAGGCG
* * ** *
120763 TCCTGCTTTTTTAGGACTGGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* *
120824 TCCTGCTCTTTGAGGACTAGAAAAGTGCCA-CAACTTGTGTGGGCTTTGAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * *
120885 TCATGTTCTTTGAGGACT-AAAGGTGCCACCAACATGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * *
120945 TCCTACTTTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGTTTTCAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCG
* * *
121007 TCCTAG-TCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTG
1 TCCT-GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCG
* * * *
121069 TCCTGCTCTTTGAGGACTAAAAAAGTGTCACCAACTTGTGTGGGCTTCGAAAAGAAAAAGGCG
1 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTT-TAAAAGGAAAAGGCG
* * *
121132 TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* *
121193 TCCTGCTCTTTGTGGACTGGAAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * *
121255 TCTTGCTCTTTGAGGACTAGACGGTACCACCAACTTGTGTGGGCTTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGC-TTTAAAAGGAAAAGGCG
* *
121317 TCCTACTCTTTGAGGACTAAAGGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTG
121343 AAAGGAAAGA
Statistics
Matches: 503, Mismatches: 63, Indels: 27
0.85 0.11 0.05
Matches are distributed among these distances:
59 9 0.02
60 47 0.09
61 183 0.36
62 204 0.41
63 60 0.12
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
Found at i:121525 original size:62 final size:62
Alignment explanation
Indices: 121379--121925 Score: 671
Period size: 61 Copynumber: 8.9 Consensus size: 62
121369 GGATTGGGAA
* * * * *
121379 GTGCCACCAACTTGTATGGGCTTTGCAAGGAGAAA-GCATCCTGCTCTTTGAGGACTGAAAG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAG
* * * *
121440 ATGCCACCAACTTGTGTGAGCTTT-AAAAGAAAAAGGCATCCTGCTCTTTAAGGACTAGAAAA
1 GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTA-AAAG
* * * **
121502 GTGCCACCAACTTGTGTGGGCTTTGCAAGGAGAAA-GCATCCTGCTCTTTGAGGACTGGAAG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAG
* * *
121563 GTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAA-GAATCCTACTTTTTGAGGACTAAAAG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAAGGCATCCTGCTCTTTGAGGACTAAAAG
* * **
121624 GTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAAAAG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAG
* ** *
121686 GTACCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAA
1 GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTA-AAAG
** * *
121749 GTGCCACCAACTTGTGTGGGCTTCAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAG
* * *
121811 GTGCCA-CAGCTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAG
* * * * *
121872 GTGCTACCAACTTTTTTGGGCTTTG-AAA-AAAAA-GCGTCTTGCTCTTTGAGGACT
1 GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACT
121926 GAAGGTGAAA
Statistics
Matches: 426, Mismatches: 52, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
59 19 0.04
60 14 0.03
61 181 0.42
62 148 0.35
63 64 0.15
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (62 bp):
GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAG
Found at i:121604 original size:123 final size:121
Alignment explanation
Indices: 121377--121932 Score: 697
Period size: 123 Copynumber: 4.5 Consensus size: 121
121367 GAGGATTGGG
* * * * *
121377 AAGTGCCACCAACTTGTATGGGCTTTGCAAGGAGAAAGCATCCTGCTCTTTGAGGACTGAAAGAT
1 AAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCGTCCTGCTCTTTGAGGACT-AAAGGT
* *
121442 GCCACCAACTTGTGTGAGCTTTAAAAGAAAAAGGCATCCTGCTCTTTAAGGACTAGAA
65 GCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTA-AA
* * * *
121500 AAGTGCCACCAACTTGTGTGGGCTTTGCAAGGAGAAAGCATCCTGCTCTTTGAGGACTGGAAGGT
1 AAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCGTCCTGCTCTTTGAGGACT-AAAGGT
* * *
121565 GCCACCAACTTGTGTGGGCTTTAAAAGGAAAAA-GAATCCTACTTTTTGAGGACTAAA
65 GCCACCAACTTGTGTGGGCTTTAAAA-GAAAAAGGCATCCTGCTCTTTGAGGACTAAA
* * * *
121622 AGGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGG
1 AAGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAAAGCGTCCTGCTCTTTGAGGACT-AAAGG
* **
121687 TACCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAGAA
64 TGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGGCATCCTGCTCTTTGAGGACTA-AA
** *
121747 AAGTGCCACCAACTTGTGTGGGCTTCAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGG
1 AAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAA-GCGTCCTGCTCTTTGAGGACTAAA-GG
*
121812 TGCCA-CAGCTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAA
64 TGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAA
** * * * * *
121870 GGGTGCTACCAACTTTTTTGGGCTTTGAAA--AAAAAGCGTCTTGCTCTTTGAGGACTGAAGGTG
1 AAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAAAGGTG
121933 AAAAGAGAAA
Statistics
Matches: 383, Mismatches: 43, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
119 4 0.01
120 22 0.06
121 5 0.01
122 27 0.07
123 188 0.49
124 86 0.22
125 51 0.13
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (121 bp):
AAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTAAAGGTG
CCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAA
Found at i:122935 original size:7 final size:7
Alignment explanation
Indices: 122923--122947 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
122913 TATTTCTTTG
122923 TTTTGTT
1 TTTTGTT
122930 TTTTGTT
1 TTTTGTT
122937 TTTTGTT
1 TTTTGTT
122944 TTTT
1 TTTT
122948 TTCTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTGTT
Found at i:133034 original size:4 final size:4
Alignment explanation
Indices: 133025--133051 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
133015 ACAAAAAACA
133025 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
133052 CACCTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:135412 original size:13 final size:13
Alignment explanation
Indices: 135393--135431 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
135383 ACTATTTATG
135393 ATGTATCGATACA
1 ATGTATCGATACA
*
135406 CTGTATCGATACA
1 ATGTATCGATACA
135419 ATGTATCGATACA
1 ATGTATCGATACA
135432 TGAATAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:135511 original size:10 final size:10
Alignment explanation
Indices: 135480--135528 Score: 73
Period size: 10 Copynumber: 5.0 Consensus size: 10
135470 TTGTTATACG
135480 TGAACAGTG-
1 TGAACAGTGA
*
135489 TGAACAGTAA
1 TGAACAGTGA
*
135499 TGAATAGTGA
1 TGAACAGTGA
135509 TGAACAGTGA
1 TGAACAGTGA
135519 TGAACAGTGA
1 TGAACAGTGA
135529 AAATTTGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
9 8 0.23
10 27 0.77
ACGTcount: A:0.41, C:0.08, G:0.29, T:0.22
Consensus pattern (10 bp):
TGAACAGTGA
Found at i:135609 original size:53 final size:53
Alignment explanation
Indices: 135552--135688 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
135542 CTACTTCCAA
135552 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
135605 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
135658 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
135689 TATGCAATCT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:135721 original size:20 final size:20
Alignment explanation
Indices: 135658--135728 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
135648 GCCAATGTCC
**
135658 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
135678 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
135698 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
135718 TGTATCGATAC
1 TGTATCGATAC
135729 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:135794 original size:21 final size:21
Alignment explanation
Indices: 135768--135808 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
135758 GTCAACCTTG
135768 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
135789 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
135809 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:136646 original size:79 final size:77
Alignment explanation
Indices: 136545--136840 Score: 305
Period size: 79 Copynumber: 3.8 Consensus size: 77
136535 ACGGGGCTGA
* * *
136545 AGTATCCCCAATTATGGAAAATCAGTGTTCTGGAAATAAAATCGGGGTTGGAGTATCCCCTTAGA
1 AGTATCCCCGATTATGAAAAATCAGTGTT-TGGAAATAAAATCGAGGTTGGAGTATCCCCTTAGA
136610 AATAACAGGGTTGG
65 AATAAC-GGGTTGG
* * * * *
136624 AGTATTCCTGATTAT-AGAAAATCGACGT-TTTGAAAATAAAATTG-GGTTTGGAGTATCCCCTC
1 AGTATCCCCGATTATGA-AAAATC-A-GTGTTTGGAAATAAAATCGAGG-TTGGAGTATCCCCTT
* *
136686 AAAAATGACGAGGTTGG
62 AGAAATAACG-GGTTGG
* * *
136703 AGTATCCCCGATTATGAAAAAT-TGATGTTTTGAGAATAAAATCGAGGTTGGAGTATCCCC-TCG
1 AGTATCCCCGATTATGAAAAATCAG-TGTTTGGA-AATAAAATCGAGGTTGGAGTATCCCCTTAG
136766 AAAATAACGGGATTGG
64 -AAATAACGGG-TTGG
* * *
136782 AGTATCCCCGATTATGAAAAATTAATGTTTTGGAAATAAAATCGAGGTTTGAGTATCCC
1 AGTATCCCCGATTATGAAAAATCAGTG-TTTGGAAATAAAATCGAGGTTGGAGTATCCC
136841 TGAGATGAAA
Statistics
Matches: 180, Mismatches: 23, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
76 1 0.01
77 1 0.01
78 9 0.05
79 156 0.87
80 11 0.06
81 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (77 bp):
AGTATCCCCGATTATGAAAAATCAGTGTTTGGAAATAAAATCGAGGTTGGAGTATCCCCTTAGAA
ATAACGGGTTGG
Found at i:136836 original size:158 final size:158
Alignment explanation
Indices: 136545--136840 Score: 379
Period size: 158 Copynumber: 1.9 Consensus size: 158
136535 ACGGGGCTGA
* * *
136545 AGTATCCCCAATTATGGAAAATCAGTGTTCTGGAAATAAAATCGGGGTTGGAGTATCCCCTTAGA
1 AGTATCCCCAATTATGAAAAATCAGTGTTCTGGAAATAAAATCGAGGTTGGAGTATCCCCTGAGA
* * * *
136610 AATAACAGGGTTGGAGTATTCCTGATTATAGAAAATCGACGTTTTGAAAATAAAATTGGGTTTGG
66 AATAACAGGGTTGGAGTATCCCCGATTATAGAAAATCAACGTTTTGAAAATAAAATCGGGTTTGG
136675 AGTATCCCCTCAAAAATGACGAGGTTGG
131 AGTATCCCCTCAAAAATGACGAGGTTGG
* * *
136703 AGTATCCCCGATTATGAAAAAT-TGATGTT-TTGAGAATAAAATCGAGGTTGGAGTATCCCCTCG
1 AGTATCCCCAATTATGAAAAATCAG-TGTTCTGGA-AATAAAATCGAGGTTGGAGTATCCCCT-G
* * *
136766 A-AAATAAC-GGGATTGGAGTATCCCCGATTAT-GAAAAATTAATGTTTTGGAAATAAAATCGAG
63 AGAAATAACAGGG-TTGGAGTATCCCCGATTATAG-AAAATCAACGTTTTGAAAATAAAATCG-G
136828 GTTT-GAGTATCCC
125 GTTTGGAGTATCCC
136841 TGAGATGAAA
Statistics
Matches: 119, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
157 8 0.07
158 105 0.88
159 6 0.05
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (158 bp):
AGTATCCCCAATTATGAAAAATCAGTGTTCTGGAAATAAAATCGAGGTTGGAGTATCCCCTGAGA
AATAACAGGGTTGGAGTATCCCCGATTATAGAAAATCAACGTTTTGAAAATAAAATCGGGTTTGG
AGTATCCCCTCAAAAATGACGAGGTTGG
Found at i:139205 original size:13 final size:13
Alignment explanation
Indices: 139187--139216 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
139177 GGTAACCCAG
139187 AATGTATCAATAC
1 AATGTATCAATAC
*
139200 AATGTATCGATAC
1 AATGTATCAATAC
139213 AATG
1 AATG
139217 AACCATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (13 bp):
AATGTATCAATAC
Done.