Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 57 of 204
Found at i:16773410 original size:41 final size:41
Alignment explanation
Indices: 16773321--16773488 Score: 255
Period size: 41 Copynumber: 4.0 Consensus size: 41
16773311 TTTGTACCTT
* * *
16773321 TCAGATCTTTAGCCGCGTTTTTTAAAAAAAGTGCCGCTAATGC
1 TCAGATCTTTAGCGGCG-TTTTT-GAAAAAGCGCCGCTAATGC
*
16773364 TCAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
16773405 TCAGATCTTTAGCGGCGGTTTTGAGAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
16773446 TTAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
16773487 TC
1 TC
16773489 GCCGCTAATG
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
41 95 0.82
42 5 0.04
43 16 0.14
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (41 bp):
TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:16773493 original size:13 final size:13
Alignment explanation
Indices: 16773475--16773501 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16773465 TTTGAAAAAG
16773475 CGCCGCTAATGCT
1 CGCCGCTAATGCT
16773488 CGCCGCTAATGCT
1 CGCCGCTAATGCT
16773501 C
1 C
16773502 AGGGCTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.41, G:0.22, T:0.22
Consensus pattern (13 bp):
CGCCGCTAATGCT
Found at i:16773939 original size:14 final size:15
Alignment explanation
Indices: 16773912--16773943 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
16773902 AGGTTTATAA
16773912 ATTATGGAATTAGGG
1 ATTATGGAATTAGGG
16773927 ATTATGG-ATTAGGG
1 ATTATGGAATTAGGG
16773941 ATT
1 ATT
16773944 CTGATTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (15 bp):
ATTATGGAATTAGGG
Found at i:16773993 original size:14 final size:14
Alignment explanation
Indices: 16773963--16774016 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
16773953 GGGTTGTGAT
* *
16773963 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
*
16773977 TTAGGGGTTAGGGG
1 TTAAGGGTTAGGGG
* *
16773991 TTAAGGGTTAGAGA
1 TTAAGGGTTAGGGG
*
16774005 TTAAGAGTTAGG
1 TTAAGGGTTAGG
16774017 ATTTAGGGTT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.26, C:0.00, G:0.41, T:0.33
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:16774113 original size:7 final size:7
Alignment explanation
Indices: 16774101--16774134 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
16774091 TAAATAATGT
16774101 TTAGGGG
1 TTAGGGG
16774108 TTAGGGG
1 TTAGGGG
16774115 TTAGGGG
1 TTAGGGG
16774122 TTAGGGG
1 TTAGGGG
16774129 TTAGGG
1 TTAGGG
16774135 ATTTGGGGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.56, T:0.29
Consensus pattern (7 bp):
TTAGGGG
Found at i:16774125 original size:21 final size:21
Alignment explanation
Indices: 16774101--16774143 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
16774091 TAAATAATGT
*
16774101 TTAGGGGTTAGGGGTTAGGGG
1 TTAGGGGTTAGGGATTAGGGG
*
16774122 TTAGGGGTTAGGGATTTGGGG
1 TTAGGGGTTAGGGATTAGGGG
16774143 T
1 T
16774144 CGGGTTAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.00, G:0.53, T:0.33
Consensus pattern (21 bp):
TTAGGGGTTAGGGATTAGGGG
Found at i:16774183 original size:103 final size:103
Alignment explanation
Indices: 16774043--16774234 Score: 278
Period size: 103 Copynumber: 1.9 Consensus size: 103
16774033 TTTAGTGTTA
* *
16774043 GGTTAGGGTTTAGGGTTTAGATTAAATAGTGTATTTTAATTTATATATTAAATAAT-GTTTAGGG
1 GGTTAGGGTTTAGGATTTAGATTAAATAGTGTATTTTAATTTATATATTAAAT-ATGGTTTAGAG
*
16774107 GTTAGGGGTTAGGGGTTAGGGGTTAGGGATTTGGGGTCG
65 GTTAGGGGTTAGGGATTAGGGGTTAGGGATTTGGGGTCG
* * * *
16774146 GGTTAGGGTTTATGATTTAGATTAATTAGTGTTTTTTAATTTCTATATTAAATATGGTTTAGAGG
1 GGTTAGGGTTTAGGATTTAGATTAAATAGTGTATTTTAATTTATATATTAAATATGGTTTAGAGG
* * *
16774211 TTAGTGGTTTGGGATTTGGGGTTA
66 TTAGGGGTTAGGGATTAGGGGTTA
16774235 AGAGTTAGTG
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
102 2 0.03
103 76 0.97
ACGTcount: A:0.24, C:0.01, G:0.31, T:0.44
Consensus pattern (103 bp):
GGTTAGGGTTTAGGATTTAGATTAAATAGTGTATTTTAATTTATATATTAAATATGGTTTAGAGG
TTAGGGGTTAGGGATTAGGGGTTAGGGATTTGGGGTCG
Found at i:16774655 original size:17 final size:16
Alignment explanation
Indices: 16774622--16774655 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16774612 ATATTAGATT
*
16774622 TAAAAAAATTAATAAA
1 TAAAAAAATTAACAAA
16774638 TAAAAAAATGTAACAAA
1 TAAAAAAAT-TAACAAA
16774655 T
1 T
16774656 TGAGACAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
TAAAAAAATTAACAAA
Found at i:16775019 original size:75 final size:77
Alignment explanation
Indices: 16774892--16775051 Score: 218
Period size: 75 Copynumber: 2.1 Consensus size: 77
16774882 ATTTGATAAT
* *
16774892 AAAATAATTTTACTTTAAACAAATAGCGCCATTTCATATAGCAAAACATTTAGCGGCGTTTTTAT
1 AAAATAATTTTACTTTAAACAAATA-CGCCATTTCATATAGCAAAACATTTAGCGACGTTTTCAT
16774957 AAAAAACACCACAA
65 -AAAAACACCACAA
* * *
16774971 AAAATAATTTTACTTT-AA-AAATA-GTCATTTTATATAGCAAAACATTTAGTGACGTTTTCATA
1 AAAATAATTTTACTTTAAACAAATACGCCATTTCATATAGCAAAACATTTAGCGACGTTTTCATA
* *
16775033 AAAACGCCGCAA
66 AAAACACCACAA
16775045 AAAATAA
1 AAAATAA
16775052 ATCAATACAA
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
74 18 0.24
75 33 0.45
77 5 0.07
78 2 0.03
79 16 0.22
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.31
Consensus pattern (77 bp):
AAAATAATTTTACTTTAAACAAATACGCCATTTCATATAGCAAAACATTTAGCGACGTTTTCATA
AAAACACCACAA
Found at i:16778236 original size:53 final size:53
Alignment explanation
Indices: 16778155--16778269 Score: 221
Period size: 53 Copynumber: 2.2 Consensus size: 53
16778145 AAGGGATAAT
16778155 TTTCAGTTTAAATCAGAACTTTTAGGTCAAGTCATCATGCTATTGCATTCTCC
1 TTTCAGTTTAAATCAGAACTTTTAGGTCAAGTCATCATGCTATTGCATTCTCC
*
16778208 TTTCAGTTTAAATCAGAACTTTTGGGTCAAGTCATCATGCTATTGCATTCTCC
1 TTTCAGTTTAAATCAGAACTTTTAGGTCAAGTCATCATGCTATTGCATTCTCC
16778261 TTTCAGTTT
1 TTTCAGTTT
16778270 TATTAATTCT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (53 bp):
TTTCAGTTTAAATCAGAACTTTTAGGTCAAGTCATCATGCTATTGCATTCTCC
Found at i:16779301 original size:43 final size:42
Alignment explanation
Indices: 16779228--16779506 Score: 423
Period size: 43 Copynumber: 6.5 Consensus size: 42
16779218 AAATTTTTTT
* * *
16779228 AAGGTCATGGTTTTTAGCGGTGTTTATGGGAAAAGCGCCGCTA
1 AAGGTCTTGG-TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTA
*
16779271 AAGGTCTTGGTCTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTA
1 AAGGTCTTGGT-TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTA
*
16779314 AAGGTCTTGGTTTATAGCGGCGTTTGTGGGAAAAGCGTCGCTA
1 AAGGTCTTGGTTT-TAGCGGCGTTTGTGGGAAAAGCGCCGCTA
16779357 AAGGTCTTGGTTTATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
1 AAGGTCTTGGTTT-TAGCGGCGTTTGTGGGAAAAGCGCCGCTA
* *
16779400 AAGGTCTTGGTTTATAGCGACGTTTGTGGGAAAAGCGCCACTA
1 AAGGTCTTGGTTT-TAGCGGCGTTTGTGGGAAAAGCGCCGCTA
*
16779443 AAGGTCTTGGCCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTA
1 AAGGTCTTGG-TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTA
16779486 AAGGTCTTGGTCTTTAGCGGC
1 AAGGTCTTGGT-TTTAGCGGC
16779507 ATTTTTAGAA
Statistics
Matches: 219, Mismatches: 13, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
42 3 0.01
43 214 0.98
44 2 0.01
ACGTcount: A:0.21, C:0.16, G:0.34, T:0.29
Consensus pattern (42 bp):
AAGGTCTTGGTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTA
Found at i:16780401 original size:29 final size:31
Alignment explanation
Indices: 16780340--16780404 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 31
16780330 GTTAGCGAAC
* * *
16780340 AAATATATATAAATAAATAATTATTTATATA
1 AAATAAATATAAATAAAAAATTATGTATATA
*
16780371 AAATAAATA-AAATAAAAAATT-TGTATTTA
1 AAATAAATATAAATAAAAAATTATGTATATA
16780400 AAATA
1 AAATA
16780405 TCAAATGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 11 0.37
30 11 0.37
31 8 0.27
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (31 bp):
AAATAAATATAAATAAAAAATTATGTATATA
Found at i:16782087 original size:43 final size:43
Alignment explanation
Indices: 16782033--16782303 Score: 255
Period size: 43 Copynumber: 6.3 Consensus size: 43
16782023 TTATGTGAAA
*
16782033 AAACGCCGCTAAAGAACATGATCTTTAGCTGCGCTTTTATCAC
1 AAACGCAGCTAAAGAACATGATCTTTAGCTGCGCTTTTATCAC
* *
16782076 AAACGCAGCTAAAGAACATGATCTTTAG-TGGCGC-CTTACCTAC
1 AAACGCAGCTAAAGAACATGATCTTTAGCT-GCGCTTTTATC-AC
* * *
16782119 AAACGCCA-CTAAAGATCAT-ATTCTTTAGCGGTGCTTTTATCAC
1 AAACG-CAGCTAAAGAACATGA-TCTTTAGCTGCGCTTTTATCAC
* * * * *
16782162 AAACGCCGCTAAAGAAAATGATCTTTAACTGAGCTTTACAT-AC
1 AAACGCAGCTAAAGAACATGATCTTTAGCTGCGCTTT-TATCAC
* * * *
16782205 AAGCGCAGCTAAAGATCATGTTCTTTAGCAGCGCTTTTATCAC
1 AAACGCAGCTAAAGAACATGATCTTTAGCTGCGCTTTTATCAC
* ** * * * *
16782248 AAACGCCGCTAAAGAGGATGACCTCTAACAGCGCTTTTATCAC
1 AAACGCAGCTAAAGAACATGATCTTTAGCTGCGCTTTTATCAC
*
16782291 AAACGCTGCTAAA
1 AAACGCAGCTAAA
16782304 ATAATTTACT
Statistics
Matches: 185, Mismatches: 33, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
42 9 0.05
43 167 0.90
44 9 0.05
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (43 bp):
AAACGCAGCTAAAGAACATGATCTTTAGCTGCGCTTTTATCAC
Found at i:16782284 original size:86 final size:87
Alignment explanation
Indices: 16782033--16782284 Score: 303
Period size: 86 Copynumber: 2.9 Consensus size: 87
16782023 TTATGTGAAA
* * * * *
16782033 AAACGCC-GCTAAAGAACATGATCTTTAGCTGCGCTTTTATCACAAACGCAGCTAAAGAACATGA
1 AAACGCCAGCTAAAGATCATGTTCTTTAGCAGCGCTTTTATCACAAACGCCGCTAAAGAAAATGA
*** * *
16782097 TCTTTAGTGGCGCCTTACCTAC
66 TCTTTAACAGCGCTTTACATAC
* * *
16782119 AAACGCCA-CTAAAGATCATATTCTTTAGCGGTGCTTTTATCACAAACGCCGCTAAAGAAAATGA
1 AAACGCCAGCTAAAGATCATGTTCTTTAGCAGCGCTTTTATCACAAACGCCGCTAAAGAAAATGA
* *
16782183 TCTTTAACTGAGCTTTACATAC
66 TCTTTAACAGCGCTTTACATAC
* **
16782205 AAGCG-CAGCTAAAGATCATGTTCTTTAGCAGCGCTTTTATCACAAACGCCGCTAAAGAGGATGA
1 AAACGCCAGCTAAAGATCATGTTCTTTAGCAGCGCTTTTATCACAAACGCCGCTAAAGAAAATGA
* *
16782269 CCTCTAACAGCGCTTT
66 TCTTTAACAGCGCTTT
16782285 TATCACAAAC
Statistics
Matches: 141, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
85 2 0.01
86 139 0.99
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (87 bp):
AAACGCCAGCTAAAGATCATGTTCTTTAGCAGCGCTTTTATCACAAACGCCGCTAAAGAAAATGA
TCTTTAACAGCGCTTTACATAC
Found at i:16782284 original size:129 final size:129
Alignment explanation
Indices: 16782033--16782303 Score: 314
Period size: 129 Copynumber: 2.1 Consensus size: 129
16782023 TTATGTGAAA
* * * *
16782033 AAACGCCGCTAAAGAACATGATCTTTAGCTGCGCTTTTATCACAAACGCAGCTAAAGAACATGAT
1 AAACGCCGCTAAAGAAAATGATCTTTAACTGAGCTTTCATCACAAACGCAGCTAAAGAACATGAT
** * * * * * *
16782098 CTTTAGTGGCGCCTTACCTACAAACGCCACTAAAGATCATATTCTTTAGCGGTGCTTTTATCAC
66 CTTTAGCAGCGCCTTACCTACAAACGCCACTAAAGAGCATATCCTCTAACAGCGCTTTTATCAC
* * *
16782162 AAACGCCGCTAAAGAAAATGATCTTTAACTGAGCTTTACAT-ACAAGCGCAGCTAAAGATCATGT
1 AAACGCCGCTAAAGAAAATGATCTTTAACTGAGCTTT-CATCACAAACGCAGCTAAAGAACATGA
* * * *
16782226 TCTTTAGCAGCGCTTTTATC-ACAAACGCCGCTAAAGAGGATGA-CCTCTAACAGCGCTTTTATC
65 TCTTTAGCAGCGC-CTTACCTACAAACGCCACTAAAGAGCAT-ATCCTCTAACAGCGCTTTTATC
16782289 AC
128 AC
*
16782291 AAACGCTGCTAAA
1 AAACGCCGCTAAA
16782304 ATAATTTACT
Statistics
Matches: 119, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
129 112 0.94
130 7 0.06
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (129 bp):
AAACGCCGCTAAAGAAAATGATCTTTAACTGAGCTTTCATCACAAACGCAGCTAAAGAACATGAT
CTTTAGCAGCGCCTTACCTACAAACGCCACTAAAGAGCATATCCTCTAACAGCGCTTTTATCAC
Found at i:16790567 original size:42 final size:41
Alignment explanation
Indices: 16790481--16790568 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 41
16790471 GCGTTTTGGA
* ** *
16790481 AAAAACGCCACTATTGCTTGACTTTTAGCGGCGTTTAGACC
1 AAAAACGCCACTATTACTCAACTTTTAGCGGCGTTTAGAAC
* *
16790522 AAAAACGCTACTATTACTCAACTTTTTTGCGGCGTTT-GCAAC
1 AAAAACGCCACTATTACTCAAC-TTTTAGCGGCGTTTAG-AAC
16790564 AAAAA
1 AAAAA
16790569 AACGCCGCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
41 19 0.49
42 20 0.51
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (41 bp):
AAAAACGCCACTATTACTCAACTTTTAGCGGCGTTTAGAAC
Found at i:16790756 original size:19 final size:19
Alignment explanation
Indices: 16790732--16790780 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
16790722 TAAAATTAGA
* *
16790732 ATTTTTAGTTTTTGTGTTTT
1 ATTTTTA-TTTTTGTATTTC
16790752 ATTTTTATTTTTGTATTTC
1 ATTTTTATTTTTGTATTTC
16790771 ATTTTTATTT
1 ATTTTTATTT
16790781 GTTATAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 20 0.74
20 7 0.26
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.76
Consensus pattern (19 bp):
ATTTTTATTTTTGTATTTC
Found at i:16791163 original size:15 final size:15
Alignment explanation
Indices: 16791120--16791165 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 15
16791110 AACTAATTAA
16791120 CCTAAAC-CCTAAAC
1 CCTAAACTCCTAAAC
16791134 CCTAAACTCCT-AAC
1 CCTAAACTCCTAAAC
* *
16791148 CCTCATCTCCTAAAC
1 CCTAAACTCCTAAAC
16791163 CCT
1 CCT
16791166 GAATCATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 19 0.68
15 9 0.32
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.22
Consensus pattern (15 bp):
CCTAAACTCCTAAAC
Found at i:16791229 original size:21 final size:20
Alignment explanation
Indices: 16791188--16791246 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
16791178 ATAAACCATG
* *
16791188 AAACCTAATCCCTCAACTCTT
1 AAACCTAA-CCCTTAAATCTT
*
16791209 AACCCCTAACCCTTAAATCTT
1 AA-ACCTAACCCTTAAATCTT
16791230 AAACCTCAACCCTTAAA
1 AAACCT-AACCCTTAAA
16791247 CCATAAATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.09
21 24 0.75
22 5 0.16
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.25
Consensus pattern (20 bp):
AAACCTAACCCTTAAATCTT
Found at i:16791241 original size:28 final size:28
Alignment explanation
Indices: 16791209--16791292 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 28
16791199 CTCAACTCTT
* * *
16791209 AACCCCTAACCCTTAAATCTTAAACCTC
1 AACCCCTAAACCATAAATCATAAACCTC
*
16791237 AACCCTTAAACCATAAATCATAAACCAT-
1 AACCCCTAAACCATAAATCATAAACC-TC
* * *
16791265 AATCCATAAACCCATAATTCATAAACCT
1 AACCCCTAAA-CCATAAATCATAAACCT
16791293 TAAAATAGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
28 31 0.66
29 16 0.34
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (28 bp):
AACCCCTAAACCATAAATCATAAACCTC
Found at i:16791258 original size:7 final size:7
Alignment explanation
Indices: 16791243--16791358 Score: 58
Period size: 7 Copynumber: 16.4 Consensus size: 7
16791233 CCTCAACCCT
16791243 TAAACCA
1 TAAACCA
*
16791250 TAAATCA
1 TAAACCA
16791257 TAAACCA
1 TAAACCA
*
16791264 TAATCCA
1 TAAACCA
16791271 TAAACCCA
1 TAAA-CCA
**
16791279 TAATTCA
1 TAAACCA
*
16791286 TAAACCT
1 TAAACCA
16791293 TAAA--A
1 TAAACCA
*
16791298 TAGTAACTCT
1 TA--AAC-CA
*
16791308 TAAACCT
1 TAAACCA
*
16791315 TAAACCC
1 TAAACCA
16791322 TAAA-CA
1 TAAACCA
* *
16791328 TATACCC
1 TAAACCA
*
16791335 TGAACCA
1 TAAACCA
*
16791342 TAAACCT
1 TAAACCA
*
16791349 TAAACTA
1 TAAACCA
16791356 TAA
1 TAA
16791359 TGATAATTAA
Statistics
Matches: 80, Mismatches: 22, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
5 2 0.03
6 4 0.05
7 63 0.79
8 9 0.11
10 2 0.03
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (7 bp):
TAAACCA
Found at i:16791260 original size:14 final size:14
Alignment explanation
Indices: 16791243--16791296 Score: 65
Period size: 14 Copynumber: 3.8 Consensus size: 14
16791233 CCTCAACCCT
16791243 TAAACCATAAATCA
1 TAAACCATAAATCA
16791257 TAAACCAT-AATCCA
1 TAAACCATAAAT-CA
*
16791271 TAAACCCATAATTCA
1 TAAA-CCATAAATCA
*
16791286 TAAACCTTAAA
1 TAAACCATAAA
16791297 ATAGTAACTC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.09
14 19 0.56
15 10 0.29
16 2 0.06
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCATAAATCA
Found at i:16791857 original size:40 final size:40
Alignment explanation
Indices: 16791777--16792248 Score: 392
Period size: 40 Copynumber: 11.9 Consensus size: 40
16791767 TAAATTTTTT
* * * * *
16791777 GCGGCGTTTTTCAAAAAGAGCCGTTAATGTTGGATTTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* ** *
16791817 GCGGTGTTTTTTGAAAAGTGCCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
**
16791857 GAAGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* *
16791897 GTGGCGTCTTTT-AAAAA-CTGCCACTAATGCTCGATCTATA
1 GCGGCGT-TTTTCAAAAAGC-GCCGCTAATGCTCGATCTATA
**
16791937 GAAGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* * *
16791977 GTGGCGTCTTTT-AAAAATCGCCGCTAATGC-C-A-CTAAA
1 GCGGCGT-TTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* **** * * ** ** * * *
16792014 GC-TC-AACAT-AAAACGACGGCG-TTGTGCTTAATTTTTTT
1 GCGGCGTTTTTCAAAAAG-CGCCGCTAATGCTCGA-TCTATA
* * * * *
16792052 GCGCCATTTTCCAAAAAGTGCCGCTAATGTTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* * *
16792092 GCGGCGTTGTTCAAAAAGTGCCACTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* *
16792132 GCGGAGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
** *
16792172 GCGGCGTTGTTT-AAAAAGCATCGCTAAT-CTCAATCTATA
1 GCGGCGTT-TTTCAAAAAGCGCCGCTAATGCTCGATCTATA
*
16792211 GCGGCGTTTTTCAAAAAGCGTCGCTAATGCTCGATCTA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTA
16792249 GAACGGTGTT
Statistics
Matches: 342, Mismatches: 73, Indels: 34
0.76 0.16 0.08
Matches are distributed among these distances:
34 9 0.03
35 4 0.01
36 2 0.01
37 5 0.01
38 7 0.02
39 41 0.12
40 252 0.74
41 22 0.06
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
Found at i:16792156 original size:275 final size:273
Alignment explanation
Indices: 16791665--16792248 Score: 796
Period size: 275 Copynumber: 2.1 Consensus size: 273
16791655 CTTTTTTGTG
* * * * *
16791665 GCGTTTTTGATAAAGCGCCACTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAAGGGCCACTAAT
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCACTAAT
* * * *
16791730 GACACTAAATCTCAACATAAAACGACGGCGTTGTGCTTAAATTTTTTGCGGCGTTTTTCAAAAAG
66 GACACTAAAGCTCAACATAAAACGACGGCGTTGTGCTTAAATTTTTTGCGCCATTTTCCAAAAAG
* * * * * ** *
16791795 AGCCGTTAATGTTGGATTTATAGCGGTGTTTTTTGAAAAGTGCCGCTAATGCTCGATCTATAGAA
131 AGCCGCTAATGTTCGATCTATAGCGGCGTTGTTCAAAAAGTGCCACTAATGCTCGATCTATAGAA
* * *
16791860 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGTGGCGTCT-TTTAAAAACTGC-CACTA
196 GAGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCGT-TGTTTAAAAA--GCACACTA
*
16791923 ATGCTCGATCTATAGAA
258 AT-CTCAATCTATAGAA
* * *
16791940 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGTGGCGTCTTTT-AAAAATCGCCGCTAA
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGT-TTTTCAAAAAGCGCCACTAA
* *
16792004 TGCCACTAAAGCTCAACATAAAACGACGGCGTTGTGCTTAATTTTTTTGCGCCATTTTCCAAAAA
65 TGACACTAAAGCTCAACATAAAACGACGGCGTTGTGCTTAAATTTTTTGCGCCATTTTCCAAAAA
* *
16792069 GTGCCGCTAATGTTCGATCTATAGCGGCGTTGTTCAAAAAGTGCCACTAATGCTCGATCTATAGC
130 GAGCCGCTAATGTTCGATCTATAGCGGCGTTGTTCAAAAAGTGCCACTAATGCTCGATCTATAGA
* *
16792134 GGAGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCGTTGTTTAAAAAGCATCGCTAA
195 AGAGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCGTTGTTTAAAAAGCA-CACTAA
**
16792199 TCTCAATCTATAGCG
259 TCTCAATCTATAGAA
*
16792214 GCGTTTTTCAAAAAGCGTCGCTAATGCTCGATCTA
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTA
16792249 GAACGGTGTT
Statistics
Matches: 272, Mismatches: 33, Indels: 9
0.87 0.11 0.03
Matches are distributed among these distances:
273 2 0.01
274 46 0.17
275 220 0.81
276 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (273 bp):
GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCACTAAT
GACACTAAAGCTCAACATAAAACGACGGCGTTGTGCTTAAATTTTTTGCGCCATTTTCCAAAAAG
AGCCGCTAATGTTCGATCTATAGCGGCGTTGTTCAAAAAGTGCCACTAATGCTCGATCTATAGAA
GAGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCGTTGTTTAAAAAGCACACTAATC
TCAATCTATAGAA
Found at i:16796148 original size:59 final size:59
Alignment explanation
Indices: 16796056--16796176 Score: 242
Period size: 59 Copynumber: 2.1 Consensus size: 59
16796046 AAATTTTGAC
16796056 CTCAAAATTTTACCTGATCAAAACAGATGAGGATATTGCTGTCGCATCGCATCCTCAGG
1 CTCAAAATTTTACCTGATCAAAACAGATGAGGATATTGCTGTCGCATCGCATCCTCAGG
16796115 CTCAAAATTTTACCTGATCAAAACAGATGAGGATATTGCTGTCGCATCGCATCCTCAGG
1 CTCAAAATTTTACCTGATCAAAACAGATGAGGATATTGCTGTCGCATCGCATCCTCAGG
16796174 CTC
1 CTC
16796177 CCACGTGGCC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (59 bp):
CTCAAAATTTTACCTGATCAAAACAGATGAGGATATTGCTGTCGCATCGCATCCTCAGG
Found at i:16805338 original size:60 final size:60
Alignment explanation
Indices: 16805273--16805397 Score: 178
Period size: 60 Copynumber: 2.1 Consensus size: 60
16805263 AGGGACATTG
* * * * * *
16805273 AAGTGTATACAGGGGCATTGGAGTGCGAACATGAGCATAGATGTGAAAATAGAGAGACCA
1 AAGTGTATACAGGGGCATCGAAGTGCGAACAGGAGCACAAATGTGAAAATAGAGACACCA
* *
16805333 AAGTGTATACAGGGGCATCGAAGTGCGAACAGGAGCACAAATGTGCAAATAGAGACACCG
1 AAGTGTATACAGGGGCATCGAAGTGCGAACAGGAGCACAAATGTGAAAATAGAGACACCA
16805393 AAGTG
1 AAGTG
16805398 CGAACAGGGG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.38, C:0.14, G:0.31, T:0.16
Consensus pattern (60 bp):
AAGTGTATACAGGGGCATCGAAGTGCGAACAGGAGCACAAATGTGAAAATAGAGACACCA
Found at i:16805364 original size:20 final size:19
Alignment explanation
Indices: 16805341--16805410 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 19
16805331 CAAAGTGTAT
16805341 ACAGGGGCATCGAAGTGCGA
1 ACAGGGGCA-CGAAGTGCGA
* * *
16805361 ACAGGAGCACAAATGTGCAA
1 ACAGGGGCACGAA-GTGCGA
* * *
16805381 ATAGAGACACCGAAGTGCGA
1 ACAGGGGCA-CGAAGTGCGA
16805401 ACAGGGGCAC
1 ACAGGGGCAC
16805411 AGTTATGCAA
Statistics
Matches: 36, Mismatches: 12, Indels: 5
0.68 0.23 0.09
Matches are distributed among these distances:
19 4 0.11
20 29 0.81
21 3 0.08
ACGTcount: A:0.37, C:0.21, G:0.33, T:0.09
Consensus pattern (19 bp):
ACAGGGGCACGAAGTGCGA
Found at i:16806997 original size:37 final size:37
Alignment explanation
Indices: 16806947--16807025 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
16806937 TTATTACGAA
* * *
16806947 GTCTTACCTGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
16806984 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
16807021 GTCTT
1 GTCTT
16807026 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:16807222 original size:47 final size:47
Alignment explanation
Indices: 16807144--16807741 Score: 1016
Period size: 47 Copynumber: 12.7 Consensus size: 47
16807134 CCCTTCGGGA
* * * * * * * *
16807144 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
16807191 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
16807238 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
16807285 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
16807332 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
16807379 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
16807426 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
16807473 CTTACCACATATATACACTTTCACATTTATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
16807520 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
16807567 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
16807614 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
16807661 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
16807708 CTTATCACATATATACACTTTCACATTCATCACA
1 CTTATCACATATATACACTTTCACATTCATCACA
16807742 CATATATACA
Statistics
Matches: 525, Mismatches: 26, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 525 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:16807398 original size:141 final size:141
Alignment explanation
Indices: 16807144--16807894 Score: 1146
Period size: 141 Copynumber: 5.5 Consensus size: 141
16807134 CCCTTCGGGA
* * * * * * * * * *
16807144 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
*
16807209 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
16807274 GGCCATTAGGC
131 GGCTATTAGGC
*
16807285 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
16807350 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
16807415 GGCTATTAGGC
131 GGCTATTAGGC
* *
16807426 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTACCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
* *
16807491 TTTCACATTTATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
16807556 GGCTATTAGGC
131 GGCTATTAGGC
* *
16807567 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
*
16807632 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
16807697 GGCTATTAGGC
131 GGCTATTAGGC
*
16807708 CTTATCACATATATACACTTTCACATTCATCACA-C--ATA-TA-----TA-CAC-T-T-T-CAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
*
16807759 -AT---A--CATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
16807818 GGCTATTAGGC
131 GGCTATTAGGC
* *
16807829 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
16807894 T
66 T
16807895 GTCTTGGCTG
Statistics
Matches: 566, Mismatches: 29, Indels: 35
0.90 0.05 0.06
Matches are distributed among these distances:
121 99 0.17
122 1 0.00
123 1 0.00
124 1 0.00
125 2 0.00
126 1 0.00
127 3 0.01
128 1 0.00
129 1 0.00
130 3 0.01
131 5 0.01
132 3 0.01
133 1 0.00
134 1 0.00
135 3 0.01
137 2 0.00
138 2 0.00
140 1 0.00
141 435 0.77
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCTATTAGGC
Found at i:16807750 original size:27 final size:27
Alignment explanation
Indices: 16807713--16807768 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
16807703 TAGGCCTTAT
*
16807713 CACATATATACACTTTCACATTCATCA
1 CACATATATACACTTTCACATACATCA
16807740 CACATATATACACTTTCACATACATCA
1 CACATATATACACTTTCACATACATCA
16807767 CA
1 CA
16807769 TCGGCTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.30, G:0.00, T:0.30
Consensus pattern (27 bp):
CACATATATACACTTTCACATACATCA
Found at i:16807757 original size:121 final size:121
Alignment explanation
Indices: 16807620--16807862 Score: 459
Period size: 121 Copynumber: 2.0 Consensus size: 121
16807610 AGGCCTTATT
*
16807620 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCAC
1 ACATATATACACTTTCACATACATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCAC
*
16807685 ATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
66 ATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
*
16807741 ACATATATACACTTTCACATACATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCAC
1 ACATATATACACTTTCACATACATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCAC
16807806 ATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
66 ATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
16807862 A
1 A
16807863 TCGGCCATTA
Statistics
Matches: 119, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 119 1.00
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.33
Consensus pattern (121 bp):
ACATATATACACTTTCACATACATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCAC
ATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
Found at i:16807758 original size:74 final size:74
Alignment explanation
Indices: 16807666--16807815 Score: 282
Period size: 74 Copynumber: 2.0 Consensus size: 74
16807656 TAGGCCTTAT
*
16807666 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
1 CACACATATACACTTTCACATACATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
16807731 CATTCATCA
66 CATTCATCA
*
16807740 CACATATATACACTTTCACATACATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
1 CACACATATACACTTTCACATACATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
16807805 CATTCATCA
66 CATTCATCA
16807814 CA
1 CA
16807816 TCGGCTATTA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.32
Consensus pattern (74 bp):
CACACATATACACTTTCACATACATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
CATTCATCA
Found at i:16807772 original size:168 final size:168
Alignment explanation
Indices: 16807572--16807894 Score: 610
Period size: 168 Copynumber: 1.9 Consensus size: 168
16807562 TAGGCCTTAT
* *
16807572 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATACACTTTCA
1 CACACATATACACTTTCACATACATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
*
16807637 CATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTA
66 CATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCA
16807702 TTAGGCCTTATCACATATATACACTTTCACATTCATCA
131 TTAGGCCTTATCACATATATACACTTTCACATTCATCA
*
16807740 CACATATATACACTTTCACATACATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
1 CACACATATACACTTTCACATACATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
16807805 CATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCA
66 CATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCA
16807870 TTAGGCCTTATCACATATATACACT
131 TTAGGCCTTATCACATATATACACT
16807895 GTCTTGGCTG
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
168 151 1.00
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (168 bp):
CACACATATACACTTTCACATACATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
CATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCA
TTAGGCCTTATCACATATATACACTTTCACATTCATCA
Found at i:16807793 original size:47 final size:47
Alignment explanation
Indices: 16807740--16807894 Score: 283
Period size: 47 Copynumber: 3.3 Consensus size: 47
16807730 ACATTCATCA
*
16807740 CACATATATACACTTTCACATACATCACATCGGCTATTAGGCCTTAT
1 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
16807787 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
1 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
* *
16807834 CACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
16807881 CACATATATACACT
1 CACATATATACACT
16807895 GTCTTGGCTG
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 104 1.00
ACGTcount: A:0.32, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
Found at i:16811330 original size:40 final size:40
Alignment explanation
Indices: 16811273--16811455 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
16811263 CCAGCATGAT
* *
16811273 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
16811313 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
16811353 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
16811394 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
16811434 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
16811456 CATCATTCGA
Statistics
Matches: 119, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.03
40 96 0.81
41 20 0.17
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:16811802 original size:29 final size:29
Alignment explanation
Indices: 16811763--16811841 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
16811753 CTTAATAATC
*
16811763 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
16811793 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
16811822 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
16811842 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:16813794 original size:37 final size:37
Alignment explanation
Indices: 16813744--16813822 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
16813734 TTATTACGAA
* *
16813744 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
16813781 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
16813818 GTCTT
1 GTCTT
16813823 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:16814019 original size:47 final size:47
Alignment explanation
Indices: 16813941--16814593 Score: 1065
Period size: 47 Copynumber: 13.7 Consensus size: 47
16813931 CCCTTCGGGA
* * * * * * * *
16813941 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
16813988 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
16814035 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
16814082 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
16814129 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
16814176 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
16814223 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
16814270 CTTATCATATATCATACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATC----A-CAT----ATATACACTTTCACATTCATCACATCGGCTATTAGGC
16814326 CTTA-CACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
16814372 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
16814419 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
16814466 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
16814513 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
16814560 CTTATCACATATATACACTTTCACATTCATCACA
1 CTTATCACATATATACACTTTCACATTCATCACA
16814594 CATATATACA
Statistics
Matches: 574, Mismatches: 22, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
46 40 0.07
47 485 0.84
50 3 0.01
51 2 0.00
52 3 0.01
55 1 0.00
56 40 0.07
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:16814195 original size:141 final size:141
Alignment explanation
Indices: 16813941--16814746 Score: 1197
Period size: 141 Copynumber: 5.8 Consensus size: 141
16813931 CCCTTCGGGA
* * * * * * * * * *
16813941 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
16814006 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
16814071 GGCCATTAGGC
131 GGCTATTAGGC
*
16814082 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
*
16814147 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
16814212 GGCTATTAGGC
131 GGCTATTAGGC
16814223 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCATATATCATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC----A-CAT---
16814288 CATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA-CACATATATACACTTTCACATT
58 -ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
16814352 CATCACATCGGCTATTAGGC
122 CATCACATCGGCTATTAGGC
*
16814372 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
* *
16814437 TTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
16814502 GGCTATTAGGC
131 GGCTATTAGGC
*
16814513 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
*
16814578 TTTCACATTCATCACA-----CA-TA-----TAT-ACACT-T-T-CAC-AT-----TCATCACAT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-TATATACACTTTCACATTCATCACAT
16814622 CGGCTATTAGGC
130 CGGCTATTAGGC
*
16814634 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
16814699 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
16814747 GTCTTGGCTG
Statistics
Matches: 616, Mismatches: 22, Indels: 59
0.88 0.03 0.08
Matches are distributed among these distances:
121 100 0.16
126 3 0.00
127 5 0.01
128 1 0.00
129 4 0.01
130 4 0.01
132 4 0.01
133 4 0.01
134 1 0.00
135 5 0.01
136 1 0.00
140 40 0.06
141 302 0.49
144 3 0.00
145 2 0.00
146 3 0.00
149 94 0.15
150 40 0.06
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCTATTAGGC
Found at i:16814602 original size:27 final size:27
Alignment explanation
Indices: 16814565--16814620 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
16814555 TAGGCCTTAT
16814565 CACATATATACACTTTCACATTCATCA
1 CACATATATACACTTTCACATTCATCA
16814592 CACATATATACACTTTCACATTCATCA
1 CACATATATACACTTTCACATTCATCA
16814619 CA
1 CA
16814621 TCGGCTATTA
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:0.30, G:0.00, T:0.32
Consensus pattern (27 bp):
CACATATATACACTTTCACATTCATCA
Found at i:16814610 original size:74 final size:74
Alignment explanation
Indices: 16814518--16814667 Score: 291
Period size: 74 Copynumber: 2.0 Consensus size: 74
16814508 TAGGCCTTAT
16814518 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
1 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
16814583 CATTCATCA
66 CATTCATCA
*
16814592 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
1 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
16814657 CATTCATCA
66 CATTCATCA
16814666 CA
1 CA
16814668 TCGGCTATTA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (74 bp):
CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
CATTCATCA
Found at i:16814610 original size:121 final size:121
Alignment explanation
Indices: 16814472--16814714 Score: 468
Period size: 121 Copynumber: 2.0 Consensus size: 121
16814462 AGGCCTTATT
16814472 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCAC
1 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCAC
*
16814537 ATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
66 ATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
*
16814593 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCAC
1 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCAC
16814658 ATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
66 ATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
16814714 A
1 A
16814715 TCGGCCATTA
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 120 1.00
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.33
Consensus pattern (121 bp):
ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCAC
ATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
Found at i:16814645 original size:47 final size:47
Alignment explanation
Indices: 16814592--16814746 Score: 292
Period size: 47 Copynumber: 3.3 Consensus size: 47
16814582 ACATTCATCA
16814592 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
1 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
16814639 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
1 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
* *
16814686 CACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
16814733 CACATATATACACT
1 CACATATATACACT
16814747 GTCTTGGCTG
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 105 1.00
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
Found at i:16814702 original size:168 final size:168
Alignment explanation
Indices: 16814424--16814746 Score: 628
Period size: 168 Copynumber: 1.9 Consensus size: 168
16814414 TAGGCCTTAT
*
16814424 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATACACTTTCA
1 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
*
16814489 CATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTA
66 CATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCA
16814554 TTAGGCCTTATCACATATATACACTTTCACATTCATCA
131 TTAGGCCTTATCACATATATACACTTTCACATTCATCA
16814592 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
1 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
16814657 CATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCA
66 CATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCA
16814722 TTAGGCCTTATCACATATATACACT
131 TTAGGCCTTATCACATATATACACT
16814747 GTCTTGGCTG
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
168 153 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.33
Consensus pattern (168 bp):
CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
CATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCA
TTAGGCCTTATCACATATATACACTTTCACATTCATCA
Found at i:16818679 original size:5 final size:5
Alignment explanation
Indices: 16818665--16818897 Score: 315
Period size: 5 Copynumber: 46.6 Consensus size: 5
16818655 TTTCATAACG
* * * *
16818665 TATCA GATCA TATCA TA-CTA TATCA TATCA TAACA TATCG GATCA TATCA
1 TATCA TATCA TATCA TATC-A TATCA TATCA TATCA TATCA TATCA TATCA
* * * ** *
16818715 GATCA TATCA CACCA TATCA TATCA TATTG GATCA TATCA TATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
* * * * *
16818765 TGTCA TGTCA TGTCA TGTCA TGTCA TATCA TATCA TATCA TATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
16818815 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
16818865 TATCA TATCA TATCA TATCA TATCA TATCA TAT
1 TATCA TATCA TATCA TATCA TATCA TATCA TAT
16818898 AATGTCCTAC
Statistics
Matches: 204, Mismatches: 22, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
4 1 0.00
5 202 0.99
6 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (5 bp):
TATCA
Found at i:16821469 original size:18 final size:18
Alignment explanation
Indices: 16821448--16821488 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
16821438 TTAATTAGGG
*
16821448 TTTAGGTAAGGGTGTTTA
1 TTTAAGTAAGGGTGTTTA
16821466 TTTAAGTAAGGGTGTTTA
1 TTTAAGTAAGGGTGTTTA
16821484 TTTAA
1 TTTAA
16821489 TAATTATACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (18 bp):
TTTAAGTAAGGGTGTTTA
Found at i:16822325 original size:20 final size:20
Alignment explanation
Indices: 16822300--16822344 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
16822290 TCTTCTACTT
16822300 AGCTCAAATCTGATCATCCC
1 AGCTCAAATCTGATCATCCC
* *
16822320 AGCTCAAATTTGATCATCCT
1 AGCTCAAATCTGATCATCCC
16822340 AGCTC
1 AGCTC
16822345 GGTTTAACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.29, C:0.31, G:0.11, T:0.29
Consensus pattern (20 bp):
AGCTCAAATCTGATCATCCC
Found at i:16832533 original size:43 final size:43
Alignment explanation
Indices: 16832451--16832535 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
16832441 TTATCCTAGA
* *
16832451 AAAAAATAATTTAAAAAGAGGAGAAGATAATCTTAGGTTGTTG
1 AAAAAATAATTTAAAAAGAGGAGAAGATAAACATAGGTTGTTG
*
16832494 AAAAAATAATTTAAAAAGAGGAGAAGATAAACATGGGTTGTT
1 AAAAAATAATTTAAAAAGAGGAGAAGATAAACATAGGTTGTT
16832536 CGATTTACCC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.51, C:0.02, G:0.21, T:0.26
Consensus pattern (43 bp):
AAAAAATAATTTAAAAAGAGGAGAAGATAAACATAGGTTGTTG
Found at i:16835994 original size:15 final size:15
Alignment explanation
Indices: 16835974--16836003 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16835964 AACCACAATC
16835974 GGAAAAAATAAAAGA
1 GGAAAAAATAAAAGA
*
16835989 GGAAAAAGTAAAAGA
1 GGAAAAAATAAAAGA
16836004 AGAAGAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (15 bp):
GGAAAAAATAAAAGA
Found at i:16841863 original size:30 final size:30
Alignment explanation
Indices: 16841829--16842007 Score: 198
Period size: 30 Copynumber: 5.9 Consensus size: 30
16841819 GTGTGCTAAA
*
16841829 CGATGGTCG-AAGCCATCCCTTTTCATTAAC
1 CGATGGTCGTAA-CCATCCCTTTTCATTAAT
* * *
16841859 CGATGGTCGTCACCATCACTTTTAATTAAT
1 CGATGGTCGTAACCATCCCTTTTCATTAAT
* * * *
16841889 CGATGGTCGTCACTATCCCTTTTCGTAAAAT
1 CGATGGTCGTAACCATCCCTTTTCAT-TAAT
* *
16841920 CGGTGGTCGAAACCATCCCTTTTCATTAAT
1 CGATGGTCGTAACCATCCCTTTTCATTAAT
* * *
16841950 CGATGGTCGTCACCATCCCTTTTAATAAAT
1 CGATGGTCGTAACCATCCCTTTTCATTAAT
**
16841980 CGATGGTCAAAACCATCCCTTTTCATTA
1 CGATGGTCGTAACCATCCCTTTTCATTA
16842008 TTTGATGATC
Statistics
Matches: 122, Mismatches: 25, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
30 97 0.80
31 25 0.20
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.34
Consensus pattern (30 bp):
CGATGGTCGTAACCATCCCTTTTCATTAAT
Found at i:16841998 original size:91 final size:91
Alignment explanation
Indices: 16841832--16842003 Score: 272
Period size: 91 Copynumber: 1.9 Consensus size: 91
16841822 TGCTAAACGA
* *
16841832 TGGTCGAAGCCATCCCTTTTCATTAACCGATGGTCGTCACCATCACTTTTAATTAATCGATGGTC
1 TGGTCGAAACCATCCCTTTTCATTAACCGATGGTCGTCACCATCACTTTTAATAAATCGATGGTC
*** *
16841897 GTCACTATCCCTTTTCGTAAAATCGG
66 AAAACCATCCCTTTTCGTAAAATCGG
* *
16841923 TGGTCGAAACCATCCCTTTTCATTAATCGATGGTCGTCACCATCCCTTTTAATAAATCGATGGTC
1 TGGTCGAAACCATCCCTTTTCATTAACCGATGGTCGTCACCATCACTTTTAATAAATCGATGGTC
16841988 AAAACCATCCCTTTTC
66 AAAACCATCCCTTTTC
16842004 ATTATTTGAT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 73 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (91 bp):
TGGTCGAAACCATCCCTTTTCATTAACCGATGGTCGTCACCATCACTTTTAATAAATCGATGGTC
AAAACCATCCCTTTTCGTAAAATCGG
Found at i:16843794 original size:40 final size:41
Alignment explanation
Indices: 16843735--16843942 Score: 246
Period size: 40 Copynumber: 5.2 Consensus size: 41
16843725 CATTTGAATG
* *
16843735 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * * * *
16843775 TTATCCAGGCCAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * *
16843815 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* *
16843855 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * *
16843895 ATATCCGGGCTAAGACCCGAGGGCATTTGTGCTTG-TGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
16843935 ATATCCGG
1 ATATCCGG
16843943 TTAAATTCCG
Statistics
Matches: 139, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
39 4 0.03
40 130 0.94
41 5 0.04
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
Found at i:16843872 original size:80 final size:80
Alignment explanation
Indices: 16843739--16843942 Score: 309
Period size: 80 Copynumber: 2.5 Consensus size: 80
16843729 TGAATGATAT
* *
16843739 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCAGGCCAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCATTTG
*
16843804 TGCGAGTTGCTATAC
66 TGCGAGTTGATATAC
* *
16843819 CCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCATTTG
*
16843884 TGCGAGTTGATATAT
66 TGCGAGTTGATATAC
* * * * *
16843899 CCGGGCTAAGACCCGAGGGCATTTGTGCTTGTGGTTATATCCGG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGG
16843943 TTAAATTCCG
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 112 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCATTTG
TGCGAGTTGATATAC
Found at i:16845334 original size:30 final size:30
Alignment explanation
Indices: 16845300--16845405 Score: 140
Period size: 30 Copynumber: 3.5 Consensus size: 30
16845290 TGTTACAGTC
*
16845300 ACCATCCCTTTTCATAAATCAATGGTCAAA
1 ACCATCCCTTTTCATAAATCAATGGTCGAA
* ** **
16845330 ACCATCCCTTTTCATTAATTGATGGTCGTC
1 ACCATCCCTTTTCATAAATCAATGGTCGAA
*
16845360 ACCATCCCTTTTCATAAACCAATGGTCGAA
1 ACCATCCCTTTTCATAAATCAATGGTCGAA
*
16845390 GCCATCCCTTTTCATA
1 ACCATCCCTTTTCATA
16845406 TTCAATAGTC
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (30 bp):
ACCATCCCTTTTCATAAATCAATGGTCGAA
Found at i:16849284 original size:43 final size:43
Alignment explanation
Indices: 16849154--16849505 Score: 247
Period size: 43 Copynumber: 8.2 Consensus size: 43
16849144 TTAGTGGAAG
** *** * *
16849154 CGCCGCTAAAGACCCTGATCTTTAGCGGCATTTTTGGGAGAAG
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTTACCACAAA
* * ** * * **
16849197 TGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTTTATTTA-AAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTTA-CCACAAA
*
16849240 CGCCGC-AATAGACCCTGATCTATAGCGGCG-TTTATACCACAAA
1 CGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTT-TACCACAAA
* * * *
16849283 CGCCACTAAAGAACCT-ATTCTTTAGCAGCGCTTTGACC-CTAAA
1 CGCCGCTAAAGACCCTGA-TCTTTAGCGGCGCTTTTACCAC-AAA
* ** *
16849326 CGCCACTAAAGA-CCT-ATTCTTTAGCGGCGCTTTCCCCTCAAA
1 CGCCGCTAAAGACCCTGA-TCTTTAGCGGCGCTTTTACCACAAA
* * *
16849368 CGCCGC-AATAGACTCTGATCTATAGCGGCAC-TTT-CTCACAAA
1 CGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTTTAC-CACAAA
* * * *
16849410 CGCCGCTAAAGACCATGATCTTTAGTGGCACTTTTTCCACAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTTACCACAAA
* * *
16849453 CGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTTACCACAAA
*
16849496 CGCCACTAAA
1 CGCCGCTAAA
16849506 AAGGCCAACA
Statistics
Matches: 249, Mismatches: 44, Indels: 32
0.77 0.14 0.10
Matches are distributed among these distances:
41 3 0.01
42 72 0.29
43 166 0.67
44 8 0.03
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (43 bp):
CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTTACCACAAA
Found at i:16849432 original size:85 final size:84
Alignment explanation
Indices: 16849323--16849505 Score: 201
Period size: 85 Copynumber: 2.2 Consensus size: 84
16849313 CTTTGACCCT
* * *
16849323 AAACGCCACTAAAGACCTATTCTTTAGCGGCGCTTTCCCCTCAAACGCCGC-AATAGACTCTGAT
1 AAACGCCACTAAAGACCTATTCTTTAGCGGCACTTTCCCCACAAACGCCGCTAA-AGACCCTGAT
16849387 CTATAGCGGCACTTTCTCAC
65 CTATAGCGGCACTTTCTCAC
* * ** *
16849407 AAACGCCGCTAAAGACC-ATGATCTTTAGTGGCACTTTTTCCACAAACGCCGCTAAAGACCCTTA
1 AAACGCCACTAAAGACCTAT--TCTTTAGCGGCACTTTCCCCACAAACGCCGCTAAAGACCCTGA
* * *
16849471 TCTTTAGCGGCGCTTTGAC-CAA
64 TCTATAGCGGCACTTT--CTCAC
16849493 AAACGCCACTAAA
1 AAACGCCACTAAA
16849506 AAGGCCAACA
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
83 2 0.02
84 16 0.20
85 47 0.57
86 16 0.20
87 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (84 bp):
AAACGCCACTAAAGACCTATTCTTTAGCGGCACTTTCCCCACAAACGCCGCTAAAGACCCTGATC
TATAGCGGCACTTTCTCAC
Found at i:16849923 original size:21 final size:21
Alignment explanation
Indices: 16849863--16849933 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
16849853 TTTGACGCTG
* *
16849863 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCTCTCGCTGCCGC
* *
16849884 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCTCTCGCTGCCGC
* *
16849905 CTCTGCTTCTCTTGCTGCCAC
1 CTCTGCTTCTCTCGCTGCCGC
*
16849926 ATCTGCTT
1 CTCTGCTT
16849934 TAAGCTGCTG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.06, C:0.42, G:0.17, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCTCTCGCTGCCGC
Found at i:16849981 original size:66 final size:66
Alignment explanation
Indices: 16849904--16850050 Score: 199
Period size: 66 Copynumber: 2.2 Consensus size: 66
16849894 CTCGCTGCCG
* * *
16849904 CCTCTGCTTCTCTTGCTGCCACATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCACATCCGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
16849967 GAA
64 GAA
** * *
16849970 CCTCAGCTTCTCTCGCTGCTGCATCCGCTTTCAGCTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCACATCCGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
16850035 A
66 A
16850036 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
16850051 ATGTTGCCTC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 1 0.01
66 67 0.93
67 4 0.06
ACGTcount: A:0.13, C:0.31, G:0.18, T:0.39
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCACATCCGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:16850063 original size:66 final size:66
Alignment explanation
Indices: 16849925--16850069 Score: 204
Period size: 66 Copynumber: 2.2 Consensus size: 66
16849915 CTTGCTGCCA
* *
16849925 CATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCT
1 CATCCGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCT
16849990 G
66 G
* *
16849991 CATCCGCTTTCAGCTG-TAGCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATG
1 CATCCGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATG
*
16850054 TTG
64 CTG
*
16850057 CCTCCGCTTTAAG
1 CATCCGCTTTAAG
16850070 TTGTGTAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
65 1 0.01
66 65 0.93
67 4 0.06
ACGTcount: A:0.14, C:0.28, G:0.19, T:0.39
Consensus pattern (66 bp):
CATCCGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCT
G
Found at i:16855546 original size:9 final size:9
Alignment explanation
Indices: 16855534--16855598 Score: 50
Period size: 9 Copynumber: 7.8 Consensus size: 9
16855524 TTTATGAAAA
16855534 TTATGTAAG
1 TTATGTAAG
*
16855543 TTATGTAAT
1 TTATGTAAG
*
16855552 TTACG-AA-
1 TTATGTAAG
* *
16855559 TAAT-TAAA
1 TTATGTAAG
*
16855567 ATATGTAAG
1 TTATGTAAG
16855576 TTATGTAAG
1 TTATGTAAG
16855585 -T-TGTAAG
1 TTATGTAAG
16855592 TTATGTA
1 TTATGTA
16855599 TAATATTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
7 10 0.23
8 6 0.14
9 27 0.63
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (9 bp):
TTATGTAAG
Found at i:16855713 original size:31 final size:31
Alignment explanation
Indices: 16855672--16856608 Score: 858
Period size: 31 Copynumber: 31.3 Consensus size: 31
16855662 AAATAACTAG
* *
16855672 GTTATGTAATTTCTGTATAATATTAATGTAT
1 GTTATGTAATTTATGTATAATATTAATGTAA
* *
16855703 GTTATATAATTTATGTATAATTAACTAAT-TAA
1 GTTATGTAATTTATGTATAA-T-ATTAATGTAA
* *
16855735 GTTATGTAATTTATGTAT-AT-TAAATAATAA
1 GTTATGTAATTTATGTATAATATTAAT-GTAA
* * *
16855765 GTTATGTAATTTATGTATATTAACTAAT-TAT
1 GTTATGTAATTTATGTATAAT-ATTAATGTAA
* * *
16855796 GTTATGCAATTTATGTATATTAACTAAT-TAA
1 GTTATGTAATTTATGTATAAT-ATTAATGTAA
16855827 GTTATGTAATTTATGTATAATATTAATGTAA
1 GTTATGTAATTTATGTATAATATTAATGTAA
* * *
16855858 GTTATGT-A-TAATAT-TAA-A-TAA-CTAA
1 GTTATGTAATTTATGTATAATATTAATGTAA
16855883 GTTATGTAATTTATGTATAATATTAATGTAA
1 GTTATGTAATTTATGTATAATATTAATGTAA
* * *
16855914 GTTATGT-A-TAATAT-TAA-A-TAA-CTAA
1 GTTATGTAATTTATGTATAATATTAATGTAA
* *
16855939 GTTATGTAATTTCTGTATAATATTAATGTAT
1 GTTATGTAATTTATGTATAATATTAATGTAA
*
16855970 GTTATGTAATTTATGTATAATTAACTAAT-TAA
1 GTTATGTAATTTATGTATAA-T-ATTAATGTAA
16856002 GTTATGTAATTTATGTATAATATTAATGTAA
1 GTTATGTAATTTATGTATAATATTAATGTAA
* * *
16856033 GTTATGT-A-TAATAT-TAA-A-TAA-CTAA
1 GTTATGTAATTTATGTATAATATTAATGTAA
16856058 GTTATGTAATTTATGTATAATATTAATGTAA
1 GTTATGTAATTTATGTATAATATTAATGTAA
* * *
16856089 GTTATGT-A-TAATAT-TAA-A-TAA-CTAA
1 GTTATGTAATTTATGTATAATATTAATGTAA
* * *
16856114 GTTATGTAATTTCTATATAATATTAATGTAT
1 GTTATGTAATTTATGTATAATATTAATGTAA
*
16856145 GTTATGTAATTTATGTATAATTAACTAAT-TAA
1 GTTATGTAATTTATGTATAA-T-ATTAATGTAA
* *
16856177 GTTATGTAATTTATGTATATTAACTAAT-TAA
1 GTTATGTAATTTATGTATAAT-ATTAATGTAA
* *
16856208 GTTATGTAATTTATGTATATTAACTAAT-TAA
1 GTTATGTAATTTATGTATAAT-ATTAATGTAA
* * *
16856239 GTTATGTAATTTATGTATATTAACTAAT-TAT
1 GTTATGTAATTTATGTATAAT-ATTAATGTAA
* *
16856270 GTTATGTAATTTATGTATATTAACTAAT-TAA
1 GTTATGTAATTTATGTATAAT-ATTAATGTAA
16856301 GTTATGTAATTTATGTATAATATTAATGTAA
1 GTTATGTAATTTATGTATAATATTAATGTAA
* * *
16856332 GTTATGT-A--TA-ATATTA-ATTAA-CTAA
1 GTTATGTAATTTATGTATAATATTAATGTAA
* * *
16856357 GTTATGTAATTTCTATATAATATTAATGTAT
1 GTTATGTAATTTATGTATAATATTAATGTAA
* * *
16856388 GTTATGTAATTTATGTATATTAACTAAT-TAT
1 GTTATGTAATTTATGTATAAT-ATTAATGTAA
* *
16856419 GTTATGTAATTTATGTATATTAACTAAT-TAA
1 GTTATGTAATTTATGTATAAT-ATTAATGTAA
16856450 GTTATGTAATTTATGTATAATATTAATGTAA
1 GTTATGTAATTTATGTATAATATTAATGTAA
* * *
16856481 GTTATGT-A--TA-ATATTA-ATTAA-CTAA
1 GTTATGTAATTTATGTATAATATTAATGTAA
* *
16856506 GTTATGTAATTTCTGTATAATATTAATGTAT
1 GTTATGTAATTTATGTATAATATTAATGTAA
* *
16856537 GTTATGTAATTTATGTATATTAACTAAT-TAA
1 GTTATGTAATTTATGTATAAT-ATTAATGTAA
16856568 GTTATGTAATTTATGTATAATATTAATGTAA
1 GTTATGTAATTTATGTATAATATTAATGTAA
16856599 GTTATGTAAT
1 GTTATGTAAT
16856609 ATCTTATATT
Statistics
Matches: 768, Mismatches: 84, Indels: 108
0.80 0.09 0.11
Matches are distributed among these distances:
25 60 0.08
26 28 0.04
27 27 0.04
28 33 0.04
29 29 0.04
30 75 0.10
31 423 0.55
32 75 0.10
33 18 0.02
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.48
Consensus pattern (31 bp):
GTTATGTAATTTATGTATAATATTAATGTAA
Found at i:16855855 original size:22 final size:22
Alignment explanation
Indices: 16855830--16855874 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
16855820 TAATTAAGTT
*
16855830 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
16855852 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
16855874 A
1 A
16855875 ATAACTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:16855889 original size:56 final size:56
Alignment explanation
Indices: 16855751--16856457 Score: 722
Period size: 56 Copynumber: 12.0 Consensus size: 56
16855741 TAATTTATGT
* * * * *
16855751 ATATTAAATAA-TAAGTTATGTAATTTATGTATATTAACTAAT-TATGTTATGCAATTTATGT
1 ATATTAACTAATTAAGTTATGTAATTTATGTATAAT-ATTAATGTAAGTTATG-----TAT-A
16855812 ATATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
1 ATATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
* *
16855868 ATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
1 ATATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
* * * *
16855924 ATATTAAATAACTAAGTTATGTAATTTCTGTATAATATTAATGTATGTTATGTAATTTA
1 ATATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT-A--TA
16855983 TGTATAATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
1 ---AT-ATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
* *
16856043 ATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
1 ATATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
* * * * *
16856099 ATATTAAATAACTAAGTTATGTAATTTCTATATAATATTAATGTATGTTATGTAATTTA
1 ATATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT-A--TA
* *
16856158 TGTATAATTAACTAATTAAGTTATGTAATTTATGTATATTAACTAAT-TAAGTTATGTAATTTA
1 ---AT-ATTAACTAATTAAGTTATGTAATTTATGTATAAT-ATTAATGTAAGTTATGT-A--TA
* * *
16856221 TGTATATTAACTAATTAAGTTATGTAATTTATGTATATTAACTAAT-TATGTTATGTAATTTA
1 ---ATATTAACTAATTAAGTTATGTAATTTATGTATAAT-ATTAATGTAAGTTATGT-A--TA
16856283 TGTATATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
1 ---ATATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
* * * * *
16856342 ATATTAATTAACTAAGTTATGTAATTTCTATATAATATTAATGTATGTTATGTAATTTA
1 ATATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT-A--TA
* * *
16856401 TGTATATTAACTAATTATGTTATGTAATTTATGTATATTAACTAAT-TAAGTTATGTA
1 ---ATATTAACTAATTAAGTTATGTAATTTATGTATAAT-ATTAATGTAAGTTATGTA
16856458 ATTTATGTAT
Statistics
Matches: 579, Mismatches: 42, Indels: 50
0.86 0.06 0.07
Matches are distributed among these distances:
56 255 0.44
57 8 0.01
59 8 0.01
60 2 0.00
61 22 0.04
62 178 0.31
63 101 0.17
64 5 0.01
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (56 bp):
ATATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
Found at i:16855918 original size:22 final size:22
Alignment explanation
Indices: 16855886--16855930 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
16855876 TAACTAAGTT
*
16855886 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
16855908 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
16855930 A
1 A
16855931 ATAACTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:16856024 original size:175 final size:176
Alignment explanation
Indices: 16855703--16856575 Score: 941
Period size: 175 Copynumber: 4.9 Consensus size: 176
16855693 ATTAATGTAT
*
16855703 GTTATATAATTTATGTATAATTAACTAATTAAGTTATGTAATTTATGTATATTAAATAATAAGTT
1 GTTATGTAATTTATGTATAA-TAACTAATTAAGTTATGT-A--TA---ATATTAAATAATAAGTT
* * *
16855768 ATGTAATTTATGTATATTAACTAAT-TATGTTATGCAATTTATGTAT-ATTAACTAATTAAGTTA
59 ATGTAATTTATGTATAAT-ATTAATGTATGTTATGTAATTTATGTATAATTAACTAATTAAGTTA
16855831 TGTAATTTATGTATAATATTAATGTAAGTTATGTA-TA-ATATTAAATAACTAA
123 TGTAATTTATGTATAATATTAATGTAAGTTATGTATTATATATTAAATAACTAA
*
16855883 GTTATGTAATTTATGTATAAT-ATTAATGTAAGTTATGTATAATATTAAATAACTAAGTTATGTA
1 GTTATGTAATTTATGTATAATAACTAAT-TAAGTTATGTATAATATTAAATAA-TAAGTTATGTA
*
16855947 ATTTCTGTATAATATTAATGTATGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAAT
64 ATTTATGTATAATATTAATGTATGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAAT
16856012 TTATGTATAATATTAATGTAAGTTATGTA-TA-ATATTAAATAACTAA
129 TTATGTATAATATTAATGTAAGTTATGTATTATATATTAAATAACTAA
*
16856058 GTTATGTAATTTATGTATAAT-ATTAATGTAAGTTATGTATAATATTAAATAACTAAGTTATGTA
1 GTTATGTAATTTATGTATAATAACTAAT-TAAGTTATGTATAATATTAAATAA-TAAGTTATGTA
* *
16856122 ATTTCTATATAATATTAATGTATGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAAT
64 ATTTATGTATAATATTAATGTATGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAAT
* * * *
16856187 TTATGTATATTAACTAAT-TAAGTTATGTAATTTATGTATATTAACTAATTAA
129 TTATGTATAAT-ATTAATGTAAGTTATGT-A-TTA--TATATTAAATAACTAA
* * *
16856239 GTTATGTAATTTATGTATATTAACTAATTATGTTATGTAATTTATGTATATTAACTAATTAAGTT
1 GTTATGTAATTTATGTATAATAACTAATTAAGTTATGT-A--TA---ATATTAAATAA-TAAGTT
* * *
16856304 ATGTAATTTATGTATAATATTAATGTAAGTTATGT-A--TA---AT-ATTAATTAACTAAGTTAT
59 ATGTAATTTATGTATAATATTAATGTATGTTATGTAATTTATGTATAATTAACTAATTAAGTTAT
* * * * * *
16856362 GTAATTTCTATATAATATTAATGTATGTTATGTAATTTATGTATATTAACTAATTAT
124 GTAATTTATGTATAATATTAATGTAAGTTATGT-A-TTA--TATATTAAATAACTAA
* *
16856419 GTTATGTAATTTATGTATATTAACTAATTAAGTTATG--TAAT-TTATGTATAAT-A-TTAATGT
1 GTTATGTAATTTATGTATAATAACTAATTAAGTTATGTATAATATTA--AATAATAAGTT-ATGT
* * * *
16856479 AAGTTATGTATAATATTAAT-TAACTAAGTTATGTAATTTCTGTATAA-T-ATTAATGTATGTTA
63 AATTTATGTATAATATTAATGT-A-T--GTTATGTAATTTATGTATAATTAACTAAT-TAAGTTA
* *
16856541 TGTAATTTATGTATATTAACTAAT-TAAGTTATGTA
123 TGTAATTTATGTATAAT-ATTAATGTAAGTTATGTA
16856576 ATTTATGTAT
Statistics
Matches: 618, Mismatches: 40, Indels: 71
0.85 0.05 0.10
Matches are distributed among these distances:
170 3 0.00
171 28 0.05
172 3 0.00
173 19 0.03
174 49 0.08
175 220 0.36
176 8 0.01
177 1 0.00
178 8 0.01
179 22 0.04
180 148 0.24
181 50 0.08
182 6 0.01
184 4 0.01
186 1 0.00
187 48 0.08
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.48
Consensus pattern (176 bp):
GTTATGTAATTTATGTATAATAACTAATTAAGTTATGTATAATATTAAATAATAAGTTATGTAAT
TTATGTATAATATTAATGTATGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAATTT
ATGTATAATATTAATGTAAGTTATGTATTATATATTAAATAACTAA
Found at i:16856032 original size:22 final size:22
Alignment explanation
Indices: 16856005--16856049 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
16855995 TAATTAAGTT
*
16856005 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
16856027 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
16856049 A
1 A
16856050 ATAACTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:16856093 original size:22 final size:22
Alignment explanation
Indices: 16856061--16856105 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
16856051 TAACTAAGTT
*
16856061 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
16856083 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
16856105 A
1 A
16856106 ATAACTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:16856244 original size:22 final size:22
Alignment explanation
Indices: 16856218--16856308 Score: 59
Period size: 22 Copynumber: 4.3 Consensus size: 22
16856208 GTTATGTAAT
16856218 TTATGTATATTAACTAATTAAG
1 TTATGTATATTAACTAATTAAG
** *
16856240 TTATGTA-ATTTATGTATATTAAC
1 TTATGTATA-TTAACTA-ATTAAG
* * * *
16856263 TAAT-TATGTT-A-T--GTAAT
1 TTATGTATATTAACTAATTAAG
16856280 TTATGTATATTAACTAATTAAG
1 TTATGTATATTAACTAATTAAG
16856302 TTATGTA
1 TTATGTA
16856309 ATTTATGTAT
Statistics
Matches: 49, Mismatches: 12, Indels: 16
0.64 0.16 0.21
Matches are distributed among these distances:
17 6 0.12
18 5 0.10
19 1 0.02
20 2 0.04
21 1 0.02
22 26 0.53
23 8 0.16
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.49
Consensus pattern (22 bp):
TTATGTATATTAACTAATTAAG
Found at i:16856329 original size:22 final size:22
Alignment explanation
Indices: 16856304--16856349 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
16856294 TAATTAAGTT
*
16856304 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
16856326 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
16856348 AT
1 AT
16856350 TAACTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:16856363 original size:25 final size:22
Alignment explanation
Indices: 16856311--16856364 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 22
16856301 GTTATGTAAT
*
16856311 TTATGTATAATATTAATGTAAG
1 TTATGTATAATATTAATCTAAG
16856333 TTATGTATAATATTAATTAACTAAG
1 TTATGTATAATATTAA-T--CTAAG
16856358 TTATGTA
1 TTATGTA
16856365 ATTTCTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 16 0.57
23 1 0.04
25 11 0.39
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (22 bp):
TTATGTATAATATTAATCTAAG
Found at i:16856478 original size:22 final size:22
Alignment explanation
Indices: 16856453--16856498 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
16856443 TAATTAAGTT
*
16856453 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
16856475 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
16856497 AT
1 AT
16856499 TAACTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:16856512 original size:25 final size:22
Alignment explanation
Indices: 16856460--16856513 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 22
16856450 GTTATGTAAT
*
16856460 TTATGTATAATATTAATGTAAG
1 TTATGTATAATATTAATCTAAG
16856482 TTATGTATAATATTAATTAACTAAG
1 TTATGTATAATATTAA-T--CTAAG
16856507 TTATGTA
1 TTATGTA
16856514 ATTTCTGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 16 0.57
23 1 0.04
25 11 0.39
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (22 bp):
TTATGTATAATATTAATCTAAG
Found at i:16856536 original size:149 final size:149
Alignment explanation
Indices: 16855908--16856608 Score: 938
Period size: 149 Copynumber: 4.7 Consensus size: 149
16855898 TATAATATTA
* * * * *
16855908 ATGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTCTGTATAAT-ATTAATGTATGT
1 ATGTAATTTATGTATAATATT-AAT--GTAAGTTATGTAATTTATGTATATTAACTAAT-TATGT
16855972 TATGTAATTTATGTATAATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTA
62 TATGTAATTTATGTAT-ATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTA
*
16856037 TGTATAATATTAAATAACTAAGTT
126 TGTATAATATTAATTAACTAAGTT
* * *
16856061 ATGTAATTTATGTATAATATTAATGTAAGTTATGT-A--TA---ATATTAAATAACTAAGTTATG
1 ATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATATTAACTAATTATGTTATG
* * * * * *
16856120 TAATTTCTATATAAT-ATTAATGTATGTTATGTAATTTATGTATAATTAACTAAT-TAAGTTATG
66 TAATTTATGTATATTAACTAAT-TAAGTTATGTAATTTATGTATAA-T-ATTAATGTAAGTTATG
* *
16856183 TAATTTATGTATATTAACTAATTAAGTT
128 T-A--TA---ATATTAATTAACTAAGTT
* *
16856211 ATGTAATTTATGTATATTAACTAAT-TAAGTTATGTAATTTATGTATATTAACTAATTATGTTAT
1 ATGTAATTTATGTATAAT-ATTAATGTAAGTTATGTAATTTATGTATATTAACTAATTATGTTAT
16856275 GTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTA
65 GTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTA
16856340 TAATATTAATTAACTAAGTT
130 TAATATTAATTAACTAAGTT
* * *
16856360 ATGTAATTTCTATATAATATTAATGTATGTTATGTAATTTATGTATATTAACTAATTATGTTATG
1 ATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATATTAACTAATTATGTTATG
16856425 TAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAT
66 TAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAT
16856490 AATATTAATTAACTAAGTT
131 AATATTAATTAACTAAGTT
* * *
16856509 ATGTAATTTCTGTATAATATTAATGTATGTTATGTAATTTATGTATATTAACTAATTAAGTTATG
1 ATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATATTAACTAATTATGTTATG
* *
16856574 TAATTTATGTATAAT-ATTAATGTAAGTTATGTAAT
66 TAATTTATGTATATTAACTAAT-TAAGTTATGTAAT
16856609 ATCTTATATT
Statistics
Matches: 490, Mismatches: 37, Indels: 46
0.86 0.06 0.08
Matches are distributed among these distances:
142 5 0.01
143 24 0.05
144 33 0.07
145 10 0.02
147 3 0.01
148 10 0.02
149 245 0.50
150 53 0.11
151 6 0.01
152 5 0.01
153 22 0.04
154 6 0.01
155 11 0.02
156 52 0.11
157 5 0.01
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.48
Consensus pattern (149 bp):
ATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATATTAACTAATTATGTTATG
TAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAT
AATATTAATTAACTAAGTT
Found at i:16856544 original size:22 final size:21
Alignment explanation
Indices: 16856519--16856606 Score: 51
Period size: 22 Copynumber: 4.2 Consensus size: 21
16856509 ATGTAATTTC
16856519 TGTATAATATTAATGTATGTTA
1 TGTATAATATT-ATGTATGTTA
*
16856541 TG--TAAT-TTATGTATATTA
1 TGTATAATATTATGTATGTTA
** *
16856559 ACTAATTAA-GTTATGTAAT-TTA
1 TGT-A-TAATATTATGT-ATGTTA
*
16856581 TGTATAATATTAATGTAAGTTA
1 TGTATAATATT-ATGTATGTTA
16856603 TGTA
1 TGTA
16856607 ATATCTTATA
Statistics
Matches: 50, Mismatches: 7, Indels: 18
0.67 0.09 0.24
Matches are distributed among these distances:
18 9 0.18
19 2 0.04
20 7 0.14
21 4 0.08
22 26 0.52
23 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.12, T:0.49
Consensus pattern (21 bp):
TGTATAATATTATGTATGTTA
Found at i:16856554 original size:18 final size:18
Alignment explanation
Indices: 16856382--16856436 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
16856372 TATAATATTA
16856382 ATGTATGTTATGTAATTT
1 ATGTATGTTATGTAATTT
* *
16856400 ATGTA---TAT-TAACTA
1 ATGTATGTTATGTAATTT
16856414 AT-TATGTTATGTAATTT
1 ATGTATGTTATGTAATTT
16856431 ATGTAT
1 ATGTAT
16856437 ATTAACTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 10
0.67 0.10 0.24
Matches are distributed among these distances:
13 2 0.07
14 6 0.21
15 3 0.11
16 3 0.11
17 6 0.21
18 8 0.29
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.53
Consensus pattern (18 bp):
ATGTATGTTATGTAATTT
Found at i:16856576 original size:118 final size:116
Alignment explanation
Indices: 16855675--16856608 Score: 667
Period size: 118 Copynumber: 7.9 Consensus size: 116
16855665 TAACTAGGTT
* * * *
16855675 ATGTAATTTCTGTATAATATTAATGT-AT-GTTATATAATTTATGTATAATTAACTAATTAAGTT
1 ATGTAAGTTATGTATAATATTAAT-TAATAGTTATGTAATTTATGTAT-ATTAACTAATTATGTT
* * *
16855738 ATGTAATTTATGTATATTAAATAA-TAAGTTATGTAATTTATGTATATTAACTA
64 ATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATAAT-ATTA
* * * * *
16855791 AT-TATGTTATGCAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATAAT-ATTAAT
1 ATGTAAGTTATG-----TAT-AATATTAATTAA-T-AGTTATGTAATTTATGTATATTAACTAAT
* * *
16855854 GTAAGTTATGT-A--TA---ATATTAAATAACTAAGTTATGTAATTTATGTATAATATTA
58 -TATGTTATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATAATATTA
* * * *
16855908 ATGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTCTGTATAAT-ATTAATGTATGT
1 ATGTAAGTTATGTATAATATTAATTAA-T-AGTTATGTAATTTATGTATATTAACTAAT-TATGT
16855972 TATGTAATTTATGTATAATTAACTAATTAAGTTATGTAATTTATGTATAATATTA
63 TATGTAATTTATGTAT-ATTAACTAATTAAGTTATGTAATTTATGTATAATATTA
* * * *
16856027 ATGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTATGTATAAT-ATTAATGTAAGT
1 ATGTAAGTTATGTATAATATTAATTAA-T-AGTTATGTAATTTATGTATATTAACTAAT-TATGT
* * * *
16856091 TATGT-A--TA---ATATTAAATAACTAAGTTATGTAATTTCTATATAATATTA
63 TATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATAATATTA
* *
16856139 ATGTATGTTATGTAATTTATGTATAATTAACTAATTAAGTTATGTAATTTATGTATATTAACTAA
1 ATGTAAGTTATGT-A--TA---AT-ATTAATTAA-T-AGTTATGTAATTTATGTATATTAACTAA
* * *
16856204 TTAAGTTATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATATTAACTA
57 TTATGTTATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATAAT-ATTA
* * * *
16856265 AT-TATGTTATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATAAT-ATTAAT
1 ATGTAAGTTATGT-A--TA---ATATTAATTAA-T-AGTTATGTAATTTATGTATATTAACTAAT
* * * * *
16856328 GTAAGTTATGT-A--TA---ATATTAATTAACTAAGTTATGTAATTTCTATATAATATTA
58 -TATGTTATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATAATATTA
* *
16856382 ATGTATGTTATGTAATTTATGTATATTAACTAATTATGTTATGTAATTTATGTATATTAACTAAT
1 ATGTAAGTTATGT-A--TA---ATATTAATTAA-TA-GTTATGTAATTTATGTATATTAACTAAT
* * * *
16856447 TAAGTTATGTAATTTATGTATAAT-ATTAATGTAAGTTATGTATAATATTAAT-TAACTAA-GTT
58 TATGTTATGTAATTTATGTATATTAACTAAT-TAAGTTATG--TAAT-TT-ATGT-A-TAATATT
16856509 -
116 A
* * *
16856509 ATGTAATTTCTGTATAATATTAATGT-AT-GTTATGTAATTTATGTATATTAACTAATTAAGTTA
1 ATGTAAGTTATGTATAATATTAAT-TAATAGTTATGTAATTTATGTATATTAACTAATTATGTTA
* *
16856572 TGTAATTTATGTATAAT-ATTAATGTAAGTTATGTAAT
65 TGTAATTTATGTATATTAACTAAT-TAAGTTATGTAAT
16856609 ATCTTATATT
Statistics
Matches: 712, Mismatches: 53, Indels: 106
0.82 0.06 0.12
Matches are distributed among these distances:
112 95 0.13
113 7 0.01
115 10 0.01
116 8 0.01
117 22 0.03
118 197 0.28
119 150 0.21
120 13 0.02
121 20 0.03
122 10 0.01
123 23 0.03
124 75 0.11
125 52 0.07
126 10 0.01
127 13 0.02
128 4 0.01
129 3 0.00
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.48
Consensus pattern (116 bp):
ATGTAAGTTATGTATAATATTAATTAATAGTTATGTAATTTATGTATATTAACTAATTATGTTAT
GTAATTTATGTATATTAACTAATTAAGTTATGTAATTTATGTATAATATTA
Found at i:16859503 original size:34 final size:36
Alignment explanation
Indices: 16859456--16859524 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
16859446 CAACTTTTAA
*
16859456 TTTGTAATATTATAATATTT-ATTTT-TTGTATAAAG
1 TTTGAAATATTATAATATTTAATTTTATTG-ATAAAG
16859491 TTTGAAAT-TTATAATATTTAATTTTATTGATAAA
1 TTTGAAATATTATAATATTTAATTTTATTGATAAA
16859525 TAAATAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 11 0.35
35 17 0.55
36 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (36 bp):
TTTGAAATATTATAATATTTAATTTTATTGATAAAG
Found at i:16861096 original size:15 final size:15
Alignment explanation
Indices: 16861076--16861113 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
16861066 TTCAAATTAA
16861076 CCCTAAATCTCAAAC
1 CCCTAAATCTCAAAC
* *
16861091 CCCTAAACCTCTAAC
1 CCCTAAATCTCAAAC
16861106 CCCTAAAT
1 CCCTAAAT
16861114 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCTCAAAC
Found at i:16861137 original size:16 final size:17
Alignment explanation
Indices: 16861111--16861142 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
16861101 CTAACCCCTA
16861111 AATTAACCTTAAATCTC
1 AATTAACCTTAAATCTC
16861128 AATT-ACCTTAAATCT
1 AATTAACCTTAAATCT
16861143 ATACCCCGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.38
Consensus pattern (17 bp):
AATTAACCTTAAATCTC
Found at i:16861680 original size:41 final size:40
Alignment explanation
Indices: 16861635--16861951 Score: 221
Period size: 41 Copynumber: 7.8 Consensus size: 40
16861625 AGGTAAATAC
* * *
16861635 ATTAGCGACGCTTAGATACAAACGCCGCTAAAGACAAGCGA
1 ATTAGCGACGCTTAGATAAAAACGCCGCTAAAGAC-CGAGA
* * * *
16861676 ATTAGTGACGCTCAGTTAGAAACGCCGCTAAAGATCCGAGA
1 ATTAGCGACGCTTAGATAAAAACGCCGCTAAAGA-CCGAGA
* *
16861717 ATTAGCGGCGCTT-GTATAAAAACGCCGCTAAAGACCCGAGT
1 ATTAGCGACGCTTAG-ATAAAAACGCCGCTAAAGA-CCGAGA
* * * **
16861758 ATTAGCGGCGCATAGACAAAAACGCCGCTAAAGACCCGACC
1 ATTAGCGACGCTTAGATAAAAACGCCGCTAAAGA-CCGAGA
** * *
16861799 ATTAGCG--GCACA-ACAAAAACGCCGCTAAAGATTCGAGA
1 ATTAGCGACGCTTAGATAAAAACGCCGCTAAAGA-CCGAGA
* * * * * * *
16861837 ATTAGTGGCGCATAGACAAAAACGCCGCTAAAGATCGGGGC
1 ATTAGCGACGCTTAGATAAAAACGCCGCTAAAGA-CCGAGA
* * * * *
16861878 ATTAGCGGCGCATT-CACAAAAACGCCGCTAAAGATCGGAGC
1 ATTAGCGACGC-TTAGATAAAAACGCCGCTAAAGA-CCGAGA
* * *
16861919 ATTAGCGGCGCTTACACAAAAACGCCGCTAAAG
1 ATTAGCGACGCTTAGATAAAAACGCCGCTAAAG
16861952 GTTTAAAAAA
Statistics
Matches: 236, Mismatches: 32, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
38 28 0.12
39 4 0.02
40 7 0.03
41 194 0.82
42 3 0.01
ACGTcount: A:0.36, C:0.25, G:0.24, T:0.15
Consensus pattern (40 bp):
ATTAGCGACGCTTAGATAAAAACGCCGCTAAAGACCGAGA
Found at i:16861762 original size:82 final size:80
Alignment explanation
Indices: 16861634--16861951 Score: 309
Period size: 82 Copynumber: 3.9 Consensus size: 80
16861624 AAGGTAAATA
* * * * * ** *
16861634 CATTAGCGACGCTTAGATACAAACGCCGCTAAAGACAAGCGAATTAGTGACGC-TCAGTTAGAAA
1 CATTAGCGGCGCTTACA-A-AAACGCCGCTAAAGACACGAGAATTAGTGGCGCAT-AGACAAAAA
16861698 CGCCGCTAAAGATCCGAG
63 CGCCGCTAAAGATCCGAG
* * * * *
16861716 AATTAGCGGCGCTTGTATAAAAACGCCGCTAAAGACCCGAGTATTAGCGGCGCATAGACAAAAAC
1 CATTAGCGGCGC-T-TACAAAAACGCCGCTAAAGACACGAGAATTAGTGGCGCATAGACAAAAAC
* *
16861781 GCCGCTAAAGACCCGAC
64 GCCGCTAAAGATCCGAG
* * **
16861798 CATTAGCGGCAC-AACAAAAACGCCGCTAAAGATTCGAGAATTAGTGGCGCATAGACAAAAACGC
1 CATTAGCGGCGCTTACAAAAACGCCGCTAAAGACACGAGAATTAGTGGCGCATAGACAAAAACGC
* *
16861862 CGCTAAAGATCGGGG
66 CGCTAAAGATCCGAG
* * * * *
16861877 CATTAGCGGCGCATTCACAAAAACGCCGCTAAAGATC-GGAGCATTAGCGGCGCTTACACAAAAA
1 CATTAGCGGCGC-TT-ACAAAAACGCCGCTAAAGA-CACGAGAATTAGTGGCGCATAGACAAAAA
16861941 CGCCGCTAAAG
63 CGCCGCTAAAG
16861952 GTTTAAAAAA
Statistics
Matches: 195, Mismatches: 34, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
79 68 0.35
82 121 0.62
83 3 0.02
84 3 0.02
ACGTcount: A:0.36, C:0.25, G:0.24, T:0.15
Consensus pattern (80 bp):
CATTAGCGGCGCTTACAAAAACGCCGCTAAAGACACGAGAATTAGTGGCGCATAGACAAAAACGC
CGCTAAAGATCCGAG
Found at i:16861866 original size:120 final size:122
Alignment explanation
Indices: 16861695--16861951 Score: 349
Period size: 120 Copynumber: 2.1 Consensus size: 122
16861685 GCTCAGTTAG
* * *
16861695 AAACGCCGCTAAAGATCCGAGAATTAGCGGCGCTTGTATAAAAACGCCGCTAAAGACCCGAGTAT
1 AAACGCCGCTAAAGATCCGAGAATTAGCGGCGCTAGTACAAAAACGCCGCTAAAGACCCGAGCAT
*
16861760 TAGCGGCGCATAGACAAAAACGCCGCTAAAGACCCGACCATTAGCGGCAC-A-ACAA
66 TAGCGGCGCATACACAAAAACGCCGCTAAAGACCCGACCATTAGCGGCACTACACAA
* * * * *
16861815 AAACGCCGCTAAAGATTCGAGAATTAGTGGCGCATAG-ACAAAAACGCCGCTAAAGATCGGGGCA
1 AAACGCCGCTAAAGATCCGAGAATTAGCGGCGC-TAGTACAAAAACGCCGCTAAAGACCCGAGCA
* * * * *
16861879 TTAGCGGCGCATTCACAAAAACGCCGCTAAAGATCGGAGCATTAGCGGCGCTTACACAA
65 TTAGCGGCGCATACACAAAAACGCCGCTAAAGACCCGACCATTAGCGGCAC-TACACAA
16861938 AAACGCCGCTAAAG
1 AAACGCCGCTAAAG
16861952 GTTTAAAAAA
Statistics
Matches: 119, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
120 98 0.82
121 2 0.02
122 1 0.01
123 18 0.15
ACGTcount: A:0.36, C:0.26, G:0.24, T:0.14
Consensus pattern (122 bp):
AAACGCCGCTAAAGATCCGAGAATTAGCGGCGCTAGTACAAAAACGCCGCTAAAGACCCGAGCAT
TAGCGGCGCATACACAAAAACGCCGCTAAAGACCCGACCATTAGCGGCACTACACAA
Found at i:16868538 original size:17 final size:16
Alignment explanation
Indices: 16868518--16868549 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
16868508 TCAAAACTTT
16868518 CTCTTTCTTCTCTCATG
1 CTCTTTCTTC-CTCATG
16868535 CTCTTTCTTCCTCAT
1 CTCTTTCTTCCTCAT
16868550 TCTTTCCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.06, C:0.38, G:0.03, T:0.53
Consensus pattern (16 bp):
CTCTTTCTTCCTCATG
Found at i:16868868 original size:10 final size:9
Alignment explanation
Indices: 16868854--16869037 Score: 77
Period size: 9 Copynumber: 19.2 Consensus size: 9
16868844 ATGAGAAAAA
16868854 ATAAAAATT
1 ATAAAAATT
**
16868863 AGTAAATGTT
1 A-TAAAAATT
16868873 ATAAAAATT
1 ATAAAAATT
**
16868882 ATTAAATTTT
1 A-TAAAAATT
*
16868892 AATAAAAACT
1 -ATAAAAATT
16868902 ATAAAAATAT
1 ATAAAAAT-T
* *
16868912 TTAAAATTT
1 ATAAAAATT
*
16868921 ATAAAAAAAT
1 AT-AAAAATT
*
16868931 ATATAAATT
1 ATAAAAATT
16868940 ATATAGAAATTT
1 ATA-A-AAA-TT
* *
16868952 AGAAAAAAT
1 ATAAAAATT
16868961 ATAAAAATT
1 ATAAAAATT
*
16868970 -TATAAGATCGT
1 ATA-AAAAT--T
16868981 A-AGAAAATT
1 ATA-AAAATT
*
16868990 ATAAAAAAT
1 ATAAAAATT
* *
16868999 GTAAAGAAAT
1 ATAAA-AATT
16869009 AT-AAAATT
1 ATAAAAATT
*
16869017 CATAAAAAAT
1 -ATAAAAATT
16869027 ATAAAAATT
1 ATAAAAATT
16869036 AT
1 AT
16869038 CGTTTTAAAG
Statistics
Matches: 128, Mismatches: 31, Indels: 32
0.67 0.16 0.17
Matches are distributed among these distances:
8 5 0.04
9 62 0.48
10 46 0.36
11 11 0.09
12 4 0.03
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:16868904 original size:29 final size:27
Alignment explanation
Indices: 16868872--16868969 Score: 99
Period size: 30 Copynumber: 3.4 Consensus size: 27
16868862 TAGTAAATGT
16868872 TATAAAAATTATTAAATTTTAATAAAAA
1 TATAAAAATTATTAAATTTTAA-AAAAA
16868900 CTATAAAAA-TATTTAAAATTTATAAAAAAA
1 -TATAAAAATTA-TT-AAATTT-TAAAAAAA
* *
16868930 TATATAAATTATATAGAAATTTAGAAAAAA
1 TATAAAAATTAT-TA-AATTTTA-AAAAAA
16868960 TATAAAAATT
1 TATAAAAATT
16868970 TATAAGATCG
Statistics
Matches: 59, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
28 2 0.03
29 21 0.36
30 33 0.56
31 3 0.05
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (27 bp):
TATAAAAATTATTAAATTTTAAAAAAA
Found at i:16868906 original size:19 final size:20
Alignment explanation
Indices: 16868853--16868899 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
16868843 AATGAGAAAA
16868853 AATAAAAATTAGTAAATGTT
1 AATAAAAATTAGTAAATGTT
* *
16868873 -ATAAAAATTATTAAATTTT
1 AATAAAAATTAGTAAATGTT
16868892 AATAAAAA
1 AATAAAAA
16868900 CTATAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (20 bp):
AATAAAAATTAGTAAATGTT
Found at i:16868941 original size:19 final size:19
Alignment explanation
Indices: 16868904--16869037 Score: 56
Period size: 19 Copynumber: 6.9 Consensus size: 19
16868894 TAAAAACTAT
*
16868904 AAAAATATTTAAAATTTATAA
1 AAAAATATAT-AAA-TTATAA
*
16868925 AAAAATATATAAATTATAT
1 AAAAATATATAAATTATAA
* * * ** *
16868944 AGAAATTTAGAAAAAATAT
1 AAAAATATATAAATTATAA
* **
16868963 AAAAATTTATAAGATCGTAA
1 AAAAATATATAA-ATTATAA
* * * *
16868983 GAAAATTATAAAAAATGTAA
1 -AAAAATATATAAATTATAA
*
16869003 AGAAATATA-AAATTCAT-A
1 AAAAATATATAAATT-ATAA
*
16869021 AAAAATATAAAAATTAT
1 AAAAATATATAAATTAT
16869038 CGTTTTAAAG
Statistics
Matches: 86, Mismatches: 23, Indels: 11
0.72 0.19 0.09
Matches are distributed among these distances:
18 15 0.17
19 42 0.49
20 11 0.13
21 18 0.21
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (19 bp):
AAAAATATATAAATTATAA
Found at i:16868967 original size:38 final size:37
Alignment explanation
Indices: 16868925--16869026 Score: 91
Period size: 38 Copynumber: 2.7 Consensus size: 37
16868915 AAATTTATAA
* *
16868925 AAAAATATATAAATTATATAGAAATTTAGAAAAAATAT
1 AAAAATATATAAATCATA-AGAAAATTAGAAAAAATAT
* * * *
16868963 AAAAATTTATAAGATCGTAAGAAAATTATAAAAAATGT
1 AAAAATATATAA-ATCATAAGAAAATTAGAAAAAATAT
16869001 AAAGAA-ATATAAAATTCATAA-AAAAT
1 AAA-AATATAT-AAA-TCATAAGAAAAT
16869027 ATAAAAATTA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
38 39 0.75
39 13 0.25
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (37 bp):
AAAAATATATAAATCATAAGAAAATTAGAAAAAATAT
Found at i:16869238 original size:19 final size:19
Alignment explanation
Indices: 16869203--16869331 Score: 83
Period size: 19 Copynumber: 6.9 Consensus size: 19
16869193 ATCGTCAAGG
*
16869203 ATTTTTTTATGCA-TTTTAT
1 ATTTTTTTAT-AATTTTTAT
16869222 ATTTTTTTATAATTTTTAT
1 ATTTTTTTATAATTTTTAT
* *
16869241 AATTTTTAATAATTTTTA-
1 ATTTTTTTATAATTTTTAT
*
16869259 ATAATTTTTAT-ATTTTTAT
1 AT-TTTTTTATAATTTTTAT
* *
16869278 -TTATATTTAATATTTTTTAT
1 ATT-T-TTTTATAATTTTTAT
** *
16869298 A-ACTTTTATTGATTTTT-T
1 ATTTTTTTA-TAATTTTTAT
16869316 A-TTTTTTATAATTTTT
1 ATTTTTTTATAATTTTT
16869332 TGTCACATGT
Statistics
Matches: 85, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
17 7 0.08
18 22 0.26
19 49 0.58
20 7 0.08
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
ATTTTTTTATAATTTTTAT
Found at i:16869286 original size:10 final size:9
Alignment explanation
Indices: 16869216--16869332 Score: 76
Period size: 10 Copynumber: 12.4 Consensus size: 9
16869206 TTTTTATGCA
16869216 TTTTATATTT
1 TTTTATA-TT
*
16869226 TTTTATAAT
1 TTTTATATT
16869235 TTTTATAATT
1 TTTTAT-ATT
*
16869245 TTTAATAATT
1 TTTTAT-ATT
* *
16869255 TTTAATAAT
1 TTTTATATT
16869264 TTTTATATT
1 TTTTATATT
* *
16869273 TTTATTTATA
1 TTT-TATATT
*
16869283 TTTAATATT
1 TTTTATATT
**
16869292 TTTTATAAC
1 TTTTATATT
16869301 TTTTAT-TGAT
1 TTTTATAT--T
16869311 TTTT-TATT
1 TTTTATATT
16869319 TTTTATAATT
1 TTTTAT-ATT
16869329 TTTT
1 TTTT
16869333 GTCACATGTC
Statistics
Matches: 84, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
8 5 0.06
9 36 0.43
10 43 0.51
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.70
Consensus pattern (9 bp):
TTTTATATT
Found at i:16869330 original size:37 final size:37
Alignment explanation
Indices: 16869226--16869332 Score: 112
Period size: 37 Copynumber: 2.9 Consensus size: 37
16869216 TTTTATATTT
* *
16869226 TTTTATA-ATTTTTATAATTTTTAATAATTTTTAATAAT
1 TTTTATATATTTTT-T-ATTTTTAATAATTTTTTATAAC
* *
16869264 TTTTATATTTTTATTTATATTTAAT-ATTTTTTATAAC
1 TTTTATATATTT-TTTATTTTTAATAATTTTTTATAAC
*
16869301 TTTTAT-TGATTTTTTATTTTTTATAATTTTTT
1 TTTTATAT-ATTTTTTATTTTTAATAATTTTTT
16869333 GTCACATGTC
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
36 11 0.19
37 26 0.45
38 15 0.26
39 4 0.07
40 2 0.03
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.69
Consensus pattern (37 bp):
TTTTATATATTTTTTATTTTTAATAATTTTTTATAAC
Found at i:16869631 original size:90 final size:90
Alignment explanation
Indices: 16869437--16869670 Score: 273
Period size: 90 Copynumber: 2.6 Consensus size: 90
16869427 CATTTAATAT
* * *
16869437 TTCAAGTATCCAATTGAGTGCAAAAAAAAAAATTAAGGGCTTAATTGC-TTTTTCTGAAAAAAGT
1 TTCAAGTACCCAATTGAGTG--AAAAAAAAAA-TAGGGGCTTAATTGCATTTTTTTGAAAAAAG-
16869501 TTGAAGGACTTTTTGATGCATTTCGAAAG
62 TTGAAGGACTTTTTGATGCATTTCGAAAG
*
16869530 TTCAAGTACCCAATTGAGTGAAAAAAAAAAGTAGGGGCTTAATTGCATTTTTTTTAAAAAA-TTG
1 TTCAAGTACCCAATTGAGTGAAAAAAAAAA-TAGGGGCTTAATTGCATTTTTTTGAAAAAAGTTG
* * *
16869594 -AGAGTCTTTTTTATGTAGTTT-GAAAG
65 AAG-GACTTTTTGATGCA-TTTCGAAAG
* * *
16869620 TTCAAGTACCCAATTGAATGTAAAAGAAAATAGGGGCTTAATT--ATTTTTTT
1 TTCAAGTACCCAATTGAGTGAAAAAAAAAATAGGGGCTTAATTGCATTTTTTT
16869671 AAATGTTTGA
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
87 8 0.06
89 15 0.12
90 46 0.36
91 27 0.21
92 12 0.09
93 19 0.15
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.35
Consensus pattern (90 bp):
TTCAAGTACCCAATTGAGTGAAAAAAAAAATAGGGGCTTAATTGCATTTTTTTGAAAAAAGTTGA
AGGACTTTTTGATGCATTTCGAAAG
Found at i:16873015 original size:17 final size:17
Alignment explanation
Indices: 16872976--16873035 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
16872966 TTTACGTTTA
*
16872976 ATAACTAAAATTAAATT
1 ATAATTAAAATTAAATT
*
16872993 ATAATTAAATTTAAA-T
1 ATAATTAAAATTAAATT
16873009 ATCAATTAATAGATATAAATT
1 AT-AATTAA-A-AT-TAAATT
16873030 A-AATTA
1 ATAATTA
16873036 TGATAATACT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
16 3 0.09
17 19 0.54
18 1 0.03
19 6 0.17
20 4 0.11
21 2 0.06
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (17 bp):
ATAATTAAAATTAAATT
Found at i:16874868 original size:25 final size:24
Alignment explanation
Indices: 16874838--16874897 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
16874828 TGTATGCAAA
*
16874838 ATATCATAATC-AATCATAGTCATAC
1 ATATCATAAGCAAATC--AGTCATAC
16874863 ATATCATAGAGCAAATCAGTCATAC
1 ATATCATA-AGCAAATCAGTCATAC
*
16874888 ATAACATAAG
1 ATATCATAAG
16874898 ACCATAACAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 2 0.06
25 23 0.74
26 2 0.06
27 4 0.13
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.27
Consensus pattern (24 bp):
ATATCATAAGCAAATCAGTCATAC
Found at i:16882311 original size:27 final size:27
Alignment explanation
Indices: 16882274--16882417 Score: 186
Period size: 27 Copynumber: 5.3 Consensus size: 27
16882264 TGCGATTCTT
*
16882274 GGGTAAAATGACT-ACAATACCCTCGAT
1 GGGTAAAATGACTGA-AATACCCTCGAA
* *
16882301 GGGTAAAATGA-TGGAAATACCCTTGAT
1 GGGTAAAATGACT-GAAATACCCTCGAA
16882328 GGGTAAAATGA-TCGAAATACCCTCGAA
1 GGGTAAAATGACT-GAAATACCCTCGAA
*
16882355 GGGTAAAATAACTGAAATACCCTCGAA
1 GGGTAAAATGACTGAAATACCCTCGAA
* *
16882382 GGGCAAAATGACTGAAATACCCTTGAA
1 GGGTAAAATGACTGAAATACCCTCGAA
16882409 GGGTAAAAT
1 GGGTAAAAT
16882418 AACTTTTATA
Statistics
Matches: 105, Mismatches: 9, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
26 1 0.01
27 102 0.97
28 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGTAAAATGACTGAAATACCCTCGAA
Found at i:16882688 original size:26 final size:26
Alignment explanation
Indices: 16882653--16882755 Score: 100
Period size: 26 Copynumber: 4.0 Consensus size: 26
16882643 TTGCCACATA
* *
16882653 TACTGTTACTGGCAGCTTTGCTGTGT
1 TACTGATACTGGCAGCTTTGCTGCGT
* * * * *
16882679 TACTGATACTGGTAGCTCTGGTACAT
1 TACTGATACTGGCAGCTTTGCTGCGT
* * *
16882705 TACTGTTACTGGTAGCTTTGTTGCGT
1 TACTGATACTGGCAGCTTTGCTGCGT
16882731 TACT-ATTACTGGCAGCTTTGCTGCG
1 TACTGA-TACTGGCAGCTTTGCTGCG
16882756 ATATTGGTGT
Statistics
Matches: 61, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 61 1.00
ACGTcount: A:0.16, C:0.19, G:0.25, T:0.40
Consensus pattern (26 bp):
TACTGATACTGGCAGCTTTGCTGCGT
Found at i:16882715 original size:52 final size:53
Alignment explanation
Indices: 16882648--16882747 Score: 141
Period size: 52 Copynumber: 1.9 Consensus size: 53
16882638 TGGCTTTGCC
* *
16882648 ACATATACTGTTACTGGCAGCTTTGCTGTGTTACTGA-TACTGGTAGCTCTGGT
1 ACATATACTGTTACTGGCAGCTTTGCTGCGTTACT-ATTACTGGCAGCTCTGGT
* *
16882701 ACAT-TACTGTTACTGGTAGCTTTGTTGCGTTACTATTACTGGCAGCT
1 ACATATACTGTTACTGGCAGCTTTGCTGCGTTACTATTACTGGCAGCT
16882748 TTGCTGCGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
51 1 0.02
52 37 0.88
53 4 0.10
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (53 bp):
ACATATACTGTTACTGGCAGCTTTGCTGCGTTACTATTACTGGCAGCTCTGGT
Found at i:16882900 original size:30 final size:30
Alignment explanation
Indices: 16882866--16882978 Score: 120
Period size: 30 Copynumber: 3.8 Consensus size: 30
16882856 ATTTGCACTG
*
16882866 TTACTGTATTAGGCTAAGGCCCACACTCTA
1 TTACTATATTAGGCTAAGGCCCACACTCTA
*
16882896 TTACTATATTAGGCTAAGGCCCACACTCTG
1 TTACTATATTAGGCTAAGGCCCACACTCTA
* * * * *
16882926 TTATTATATTGGGCTATGACCCACACACTA
1 TTACTATATTAGGCTAAGGCCCACACTCTA
* * *
16882956 CTACTGTA-TAGGGCTCAGGCCCA
1 TTACTATATTA-GGCTAAGGCCCA
16882979 AATTGATTCT
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
29 1 0.01
30 66 0.99
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (30 bp):
TTACTATATTAGGCTAAGGCCCACACTCTA
Found at i:16891856 original size:13 final size:13
Alignment explanation
Indices: 16891838--16891864 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16891828 CATGGGTAAA
16891838 ATATAGATTTGGT
1 ATATAGATTTGGT
16891851 ATATAGATTTGGT
1 ATATAGATTTGGT
16891864 A
1 A
16891865 ATAAACTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (13 bp):
ATATAGATTTGGT
Found at i:16894660 original size:3 final size:3
Alignment explanation
Indices: 16894642--16894675 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
16894632 GAATATAAAA
*
16894642 AAT AAG AAT AAAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
16894676 GATACAAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:16895176 original size:19 final size:19
Alignment explanation
Indices: 16895152--16895205 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
16895142 AATCATATCT
16895152 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
16895171 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
16895190 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
16895206 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:16902691 original size:33 final size:33
Alignment explanation
Indices: 16902654--16902720 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
16902644 AGCATTAATC
16902654 TTCCATAGATTTTCAATTAATAGTCAGAGGAAA
1 TTCCATAGATTTTCAATTAATAGTCAGAGGAAA
16902687 TTCCATAGATTTTCAATTAATAGTCAGAGGAAA
1 TTCCATAGATTTTCAATTAATAGTCAGAGGAAA
16902720 T
1 T
16902721 CAAGTGAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (33 bp):
TTCCATAGATTTTCAATTAATAGTCAGAGGAAA
Found at i:16902904 original size:53 final size:55
Alignment explanation
Indices: 16902846--16902988 Score: 164
Period size: 53 Copynumber: 2.5 Consensus size: 55
16902836 AGGGGTCTTT
*
16902846 TTTTTTTTAACTACGGTTTATAATTTGGGCAAACCAAAAT-ATTAAAATTT-GAA
1 TTTTTTTTAACTACGGTTTATAATTTGGGCAAACCAAAATAATCAAAATTTAGAA
* * * *
16902899 TTTTTTTTAATTACCGTTTATAATTTGGGTAAACTAAAATAATCAAAATTTGAAAAGAA
1 TTTTTTTTAACTACGGTTTATAATTTGGGCAAACCAAAATAATCAAAATTT----AGAA
*
16902958 TTCTTTTTTAAACTACGGTTTAAAATTTGGG
1 TT-TTTTTT-AACTACGGTTTATAATTTGGG
16902989 ACTAGAAATT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
53 36 0.49
54 9 0.12
59 5 0.07
60 6 0.08
61 18 0.24
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (55 bp):
TTTTTTTTAACTACGGTTTATAATTTGGGCAAACCAAAATAATCAAAATTTAGAA
Found at i:16908719 original size:16 final size:16
Alignment explanation
Indices: 16908698--16908745 Score: 87
Period size: 16 Copynumber: 3.0 Consensus size: 16
16908688 TATTGTGTCT
16908698 ATGGAACACTATTTAG
1 ATGGAACACTATTTAG
16908714 ATGGAACACTATTTAG
1 ATGGAACACTATTTAG
*
16908730 ATGGAACACAATTTAG
1 ATGGAACACTATTTAG
16908746 TGTGAAAGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGGAACACTATTTAG
Found at i:16919023 original size:45 final size:45
Alignment explanation
Indices: 16918959--16919053 Score: 140
Period size: 45 Copynumber: 2.1 Consensus size: 45
16918949 TAACATATAC
*
16918959 TCGGTGGATTCAGCACATAGCAACCACCTTA-TCAATCAATGTTGT
1 TCGGTGGATTCAGCACATAGCAACCACCTTACT-AATCAATGATGT
*
16919004 TCGGTGGAATT-AGCACATAGCAACCACCTTACTAATGAATGATGT
1 TCGGTGG-ATTCAGCACATAGCAACCACCTTACTAATCAATGATGT
16919049 TCGGT
1 TCGGT
16919054 TCTCATAGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
45 42 0.91
46 4 0.09
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (45 bp):
TCGGTGGATTCAGCACATAGCAACCACCTTACTAATCAATGATGT
Found at i:16929995 original size:23 final size:23
Alignment explanation
Indices: 16929970--16930012 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
16929960 AAATATAAAA
16929970 AAAAAAAGAAA-AAAAAAGAGTG
1 AAAAAAAGAAAGAAAAAAGAGTG
* *
16929992 AAAAGAAGAAAGAAAATAGAG
1 AAAAAAAGAAAGAAAAAAGAG
16930013 AGGCCAAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (23 bp):
AAAAAAAGAAAGAAAAAAGAGTG
Found at i:16931360 original size:88 final size:88
Alignment explanation
Indices: 16931211--16931870 Score: 827
Period size: 88 Copynumber: 7.5 Consensus size: 88
16931201 GTGAAGATAA
* * * *
16931211 CAGATCTGGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTACCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
16931276 GCA-TCAGAGCAGGTTAAAAATAG
66 GCAGT-GGAGCAGGTTAAAAATAG
* * * * *
16931299 CAGATCTTGCCTTCCTGCACCGACAGCAAAGTAGATTGAAGATACCAGCCTTGCCTTCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* * *
16931364 ACAGCGGAGTAGGTTAAAAATAG
66 GCAGTGGAGCAGGTTAAAAATAG
* * * * * ** *
16931387 CAGATCTTGCCTTCCTACACCAAAAACGAAGCAGATCGAAGACACTAAACTTGCCTCCCTGCGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
16931452 GCAGTGGAGCAGGTTAAAAATAG
66 GCAGTGGAGCAGGTTAAAAATAG
* * * * *
16931475 CAGATCTTGCCTTCCTGCACCGCCAGTGAAGTAGATCGAAGACACTAGCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
16931540 GCAGTGGAGCAAGTTAAAAATTG
66 GCAGTGGAGCAGGTTAAAAATAG
*
16931563 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
16931628 GCAGCGGAGCAGGTTAAAAATAG
66 GCAGTGGAGCAGGTTAAAAATAG
* *
16931651 CAGATCTTGCCTTTCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
16931716 ACAGTGGAGCACGTTAAAAATAG
66 GCAGTGGAGCAGGTTAAAAATAG
* * * * ** * **
16931739 CAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATCGATGACCCCAGCCCTATCTCCCTGAGCA
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* * * * *
16931804 ACAATGGAGTATGTTGAAAATAG
66 GCAGTGGAGCAGGTTAAAAATAG
* * * * *
16931827 CAAATCTTGCCTTCCTGTACTGGCAGTGAAGCAGATCGAAGACA
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACA
16931871 TTAGTCTTAT
Statistics
Matches: 495, Mismatches: 76, Indels: 2
0.86 0.13 0.00
Matches are distributed among these distances:
88 495 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGTGGAGCAGGTTAAAAATAG
Found at i:16931396 original size:44 final size:44
Alignment explanation
Indices: 16931268--16931402 Score: 128
Period size: 44 Copynumber: 3.1 Consensus size: 44
16931258 GCCTTACCTC
* * *
16931268 CCTGGGTTGCATCAGAGCAGGTTAAAAATAGCAGATCTTGCCTT
1 CCTGGGTTACAGCAGAGTAGGTTAAAAATAGCAGATCTTGCCTT
**** * * * * * *
16931312 CCTGCACCGACAGCAAAGTAGATTGAAGATACCAG-CCTTGCCTT
1 CCTG-GGTTACAGCAGAGTAGGTTAAAAATAGCAGATCTTGCCTT
*
16931356 CCTGGGTTACAGCGGAGTAGGTTAAAAATAGCAGATCTTGCCTT
1 CCTGGGTTACAGCAGAGTAGGTTAAAAATAGCAGATCTTGCCTT
16931400 CCT
1 CCT
16931403 ACACCAAAAA
Statistics
Matches: 65, Mismatches: 24, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
43 20 0.31
44 27 0.42
45 18 0.28
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (44 bp):
CCTGGGTTACAGCAGAGTAGGTTAAAAATAGCAGATCTTGCCTT
Found at i:16931684 original size:45 final size:45
Alignment explanation
Indices: 16931283--16931769 Score: 174
Period size: 44 Copynumber: 11.0 Consensus size: 45
16931273 GTTGCATCAG
*
16931283 AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCAA
1 AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGA
* * * * * * **** *
16931328 AGTAGATTGAAGATACCAG-CCTTGCCTTCCTG-GGTTACAGCGG
1 AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGA
* * * * *
16931371 AGTAGGTTAAAAATAGCAGATCTTGCCTTCCTACACCAAAAACGA
1 AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGA
* ** * * * * *** * *
16931416 AGCAGATCGAAGACA-CTA-AACTTGCCTCCCTGCGTTG-CAGTGG
1 AGCAGGTTAAAAATAGC-AGATCTTGCCTTCCTGCACCGACAGCGA
* *
16931459 AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGCCAGTGA
1 AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGA
* * ** * * * * *** * *
16931504 AGTAGATCGAAGACA-CTAG-CCTTGCCTCCCTAG-GTTG-CAGTGG
1 AGCAGGTTAAAAATAGC-AGATCTTGCCTTCCT-GCACCGACAGCGA
* *
16931547 AGCAAGTTAAAAATTGCAGATCTTGCCTTCCTGCACCGACAGCGA
1 AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGA
* ** * * * * **** *
16931592 AGCAGATCGAAGACA-CTAG-CCTTGCCTCCCTGGGTTG-CAGCGG
1 AGCAGGTTAAAAATAGC-AGATCTTGCCTTCCTGCACCGACAGCGA
*
16931635 AGCAGGTTAAAAATAGCAGATCTTGCCTTTCTGCACCGACAGCGA
1 AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGA
* ** * * * * * **** * *
16931680 AGCAGATCGAAGACACCA-ACCTTGCCTCCCTG-GGTTACAGTGG
1 AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGA
*
16931723 AGCACGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGA
1 AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGA
16931768 AG
1 AG
16931770 TAGATCGATG
Statistics
Matches: 287, Mismatches: 137, Indels: 36
0.62 0.30 0.08
Matches are distributed among these distances:
43 81 0.28
44 123 0.43
45 83 0.29
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.21
Consensus pattern (45 bp):
AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGA
Found at i:16932253 original size:44 final size:44
Alignment explanation
Indices: 16932185--16932470 Score: 191
Period size: 44 Copynumber: 6.6 Consensus size: 44
16932175 GAAGATGGTG
* *
16932185 AATCTTATCTCCCTGAAGCTGCAGTGGAGAAGATTAAAGCCGGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGGT
* * *
16932229 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGG-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCC--GGT
* * * * *
16932274 -ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CG-C-AT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGGT
* * ** *
16932311 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAA-CAAGC
1 -AA-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGGT
* ** *
16932356 AAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGTAGACTGAAA-ATGGAA
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GTAGA-TTAAAGCCGG-T
* * *
16932402 AATCTTATCTCCCTGTAGTTGCAGTGGAGTAGATTAAAGTCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGGT
* *
16932446 AATCCTATCTCTCTGAAGTTGCAGT
1 AATCTTATCTCCCTGAAGTTGCAGT
16932471 AAAGCGGATT
Statistics
Matches: 188, Mismatches: 35, Indels: 38
0.72 0.13 0.15
Matches are distributed among these distances:
39 2 0.01
40 21 0.11
41 7 0.04
42 2 0.01
43 8 0.04
44 111 0.59
45 30 0.16
46 7 0.04
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGGT
Found at i:16932550 original size:217 final size:217
Alignment explanation
Indices: 16932170--16932567 Score: 645
Period size: 217 Copynumber: 1.8 Consensus size: 217
16932160 GCAATTTAAA
* ** *
16932170 AGACTGAAGATGGTGAATCTTATCTCCCTGAAGCTGCAGTGGAGAAGATTAAAGCCGGTAATCCT
1 AGACTGAAAATGGAAAATCTTATCTCCCTGAAGCTGCAGTGGAGAAGATTAAAGCCGATAATCCT
** *
16932235 ATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGA
66 ATCTCCCTGAAGTTGCAGTAAAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGA
16932300 GCAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAACAAGCAAGTCTTAT
131 GCAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAACAAGCAAGTCTTAT
16932365 CCTCCTGAAGTTGCAGTGAGGT
196 CCTCCTGAAGTTGCAGTGAGGT
* * * *
16932387 AGACTGAAAATGGAAAATCTTATCTCCCTGTAGTTGCAGTGGAGTAGATTAAAGTCGATAATCCT
1 AGACTGAAAATGGAAAATCTTATCTCCCTGAAGCTGCAGTGGAGAAGATTAAAGCCGATAATCCT
* *
16932452 ATCTCTCTGAAGTTGCAGTAAAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGTAGAGA
66 ATCTCCCTGAAGTTGCAGTAAAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGA
* *
16932517 GCAGATCGCATCTAGTCTTATCT-TCTCGAAGTTGCAGTGGAGCAGACTAAA
131 GCAGATCGCATCAAGTCTTATCTCCCT-GAAGTTGCAGTGGAGCAGACTAAA
16932568 TAAACAAATC
Statistics
Matches: 165, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
216 2 0.01
217 163 0.99
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (217 bp):
AGACTGAAAATGGAAAATCTTATCTCCCTGAAGCTGCAGTGGAGAAGATTAAAGCCGATAATCCT
ATCTCCCTGAAGTTGCAGTAAAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGA
GCAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAACAAGCAAGTCTTAT
CCTCCTGAAGTTGCAGTGAGGT
Found at i:16936528 original size:45 final size:45
Alignment explanation
Indices: 16936464--16936557 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
16936454 AATAGATACT
* * *
16936464 CGGTGGATTCAACACATAGCATCCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
* *
16936509 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
16936554 CGGT
1 CGGT
16936558 TCACATAGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:16936621 original size:51 final size:51
Alignment explanation
Indices: 16936563--16936749 Score: 209
Period size: 51 Copynumber: 3.7 Consensus size: 51
16936553 TCGGTTCACA
* *
16936563 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATATACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGATACACG
* * * * * *
16936614 TAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATCCGCTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATTACCATCCGATACACG
** * * *
16936665 TAGTAGCCTGCACATAGTACTACACTTGCGA-C-TTATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCA-TCCGATACACG
*
16936715 TAGTAGCCTGCATATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
16936750 CACTTTCACT
Statistics
Matches: 109, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
49 2 0.02
50 35 0.32
51 69 0.63
52 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGATACACG
Found at i:16936739 original size:101 final size:102
Alignment explanation
Indices: 16936561--16936745 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
16936551 GTTCGGTTCA
* *
16936561 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATATACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATTACCATCCGATACACGTAGTAGCCTGCA
16936626 CATAGTACTACACACGTGATCGAAACTATCCGCTACG
66 CATAGTACTACACACGTGATCGAAACTATCCGCTACG
* * *
16936663 CATAGTAGCCTGCACATAGTACTACACTTGCGA-C-TTATCATTCCGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATTACCA-TCCGATACACGTAGTAGCCTGC
*
16936726 ATATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
16936746 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 5 0.07
101 40 0.53
102 31 0.41
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATTACCATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAACTATCCGCTACG
Found at i:16941753 original size:21 final size:20
Alignment explanation
Indices: 16941706--16941758 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
16941696 CTAAATGAAC
*
16941706 AAATTCAATTCAATTCAATA
1 AAATTCTATTCAATTCAATA
*
16941726 ATTATTCTATTCAATTCAATCA
1 A-AATTCTATTCAATTCAAT-A
16941748 AAATTCATATT
1 AAATTC-TATT
16941759 TTATCAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 20 0.74
22 6 0.22
ACGTcount: A:0.43, C:0.15, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATTCTATTCAATTCAATA
Found at i:16942550 original size:237 final size:238
Alignment explanation
Indices: 16942030--16942747 Score: 1165
Period size: 238 Copynumber: 3.0 Consensus size: 238
16942020 TGGCAAAACC
* *
16942030 CTAACCTT-TTAACAGGTTTGCAAATTAGTCGCCAGGCTAGCTAGGTTAAGCTACAACAATTCTA
1 CTAA-CTTATTAACAGGTTTGCAAATTAGTC-CCAGGCTAGCTAGATTAAGCTACAACGATTCTA
16942094 AAAACATAGAAATCATT-AAAATCAGGACGAAAAATACTCACATGCAAGCAAAATAAGGATGGCC
64 AAAACATAGAAATCATTAAAAAT-AGGACGAAAAATACTCACATGCAAGCAAAATAAGGATGGCC
* * * *
16942158 GAATGTTCAAGCTTCT-TGGTTTCTTTTCCTTCAACTTTCGGTGGTGTTTAACAAATTAAAAAAG
128 GAATGTTCAAGCTTCTATGGTTTCTTTTCGTTCAATTTTTGGTGGTGTTTAACAAATTAAAGAAG
* * *
16942222 ATGATATATTATTCCTTTTATTTTAATTCACTTATTAACTAATTTA
193 ATGATACATTATTTCTTTTGTTTTAATTCACTTATTAACTAATTTA
* * * *
16942268 CTAACTTATTAATAGGTTAGCAAATTAGTCCCAGGGCTTGCTAGATTAAGCTACAATGATTCTAA
1 CTAACTTATTAACAGGTTTGCAAATTAGTCCCA-GGCTAGCTAGATTAAGCTACAACGATTCTAA
* *
16942333 AAATATA-AAATCATTAAAAATAGGACGAAAAATATTCACATGCAAGCAAAATAAGGATGGCCGA
65 AAACATAGAAATCATTAAAAATAGGACGAAAAATACTCACATGCAAGCAAAATAAGGATGGCCGA
* *
16942397 ATGTTCAAGCTTCTATGGTTTATTTTCGTTCAATTTTTGGTGGTGTTTAACAAATTAAAGACGAT
130 ATGTTCAAGCTTCTATGGTTTCTTTTCGTTCAATTTTTGGTGGTGTTTAACAAATTAAAGAAGAT
*
16942462 GATACATTATTTCTTTTGTTTTAATTCACTTATTAACTAAATTA
195 GATACATTATTTCTTTTGTTTTAATTCACTTATTAACTAATTTA
*
16942506 CTAACTTATTAACATGTTTGCAAATTAGTCCCAGGCTAGCTAGATTAAGCTACAACGATTCTAAA
1 CTAACTTATTAACAGGTTTGCAAATTAGTCCCAGGCTAGCTAGATTAAGCTACAACGATTCTAAA
* *
16942571 AACATAGAAATCATTAAAAACAAGACGAAAAATACTCACATGCAAGCAAAATAAGGATGGCCGAA
66 AACATAGAAATCATTAAAAATAGGACGAAAAATACTCACATGCAAGCAAAATAAGGATGGCCGAA
* *
16942636 TGTTCAAGCTTCTATGGTTTCTTTTCGTTCAATTTTTCGCGGTGTTTAACAAATTAAAGAAGATG
131 TGTTCAAGCTTCTATGGTTTCTTTTCGTTCAATTTTTGGTGGTGTTTAACAAATTAAAGAAGATG
16942701 ATACATTATTTCTTTTGTTTTAATTCACTTATTAACTAATTTA
196 ATACATTATTTCTTTTGTTTTAATTCACTTATTAACTAATTTA
16942744 CTAA
1 CTAA
16942748 TTTAACCTTA
Statistics
Matches: 443, Mismatches: 32, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
237 105 0.24
238 338 0.76
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.34
Consensus pattern (238 bp):
CTAACTTATTAACAGGTTTGCAAATTAGTCCCAGGCTAGCTAGATTAAGCTACAACGATTCTAAA
AACATAGAAATCATTAAAAATAGGACGAAAAATACTCACATGCAAGCAAAATAAGGATGGCCGAA
TGTTCAAGCTTCTATGGTTTCTTTTCGTTCAATTTTTGGTGGTGTTTAACAAATTAAAGAAGATG
ATACATTATTTCTTTTGTTTTAATTCACTTATTAACTAATTTA
Found at i:16947395 original size:79 final size:81
Alignment explanation
Indices: 16947259--16947443 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
16947249 TTGAATGATG
*
16947259 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
16947323 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
16947338 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
16947400 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
16947418 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16947444 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:16947457 original size:40 final size:40
Alignment explanation
Indices: 16947260--16947443 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
16947250 TGAATGATGT
* * * *
16947260 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
16947300 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
16947340 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
16947378 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
16947419 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
16947444 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:16947465 original size:79 final size:79
Alignment explanation
Indices: 16947312--16947476 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
16947302 GGACTAAGAT
* **
16947312 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
16947377 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
16947391 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
16947454 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
16947470 CCGAAGG
1 CCGAAGG
16947477 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Done.