Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005229.1 Hibiscus syriacus cultivar Beakdansim tig00011839_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 91946
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:214 original size:48 final size:49
Alignment explanation
Indices: 132--226 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 49
122 TAGAACTCTC
*
132 TAGAAGCCTGTGAAGAGTGTGGAATCCTCTGGAATATCCTGGAGATGTG
1 TAGAAGCCTGTGAAGAGTGTGGAATCCTCAGGAATATCCTGGAGATGTG
**
181 TAGAAG-CTGTGGAAGAGTG-GGAATCCTCAGGAATATTTTGGAGATG
1 TAGAAGCCTGT-GAAGAGTGTGGAATCCTCAGGAATATCCTGGAGATG
227 AGTGAACCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
48 28 0.67
49 14 0.33
ACGTcount: A:0.28, C:0.12, G:0.34, T:0.26
Consensus pattern (49 bp):
TAGAAGCCTGTGAAGAGTGTGGAATCCTCAGGAATATCCTGGAGATGTG
Found at i:242 original size:48 final size:49
Alignment explanation
Indices: 132--246 Score: 137
Period size: 48 Copynumber: 2.4 Consensus size: 49
122 TAGAACTCTC
* *
132 TAGAAGCCTGT-GAAGAGTGTGGAATCCTCTGGAATATCCTGGAGATGTG
1 TAGAA-CCTGTGGAAGAGTGTGGAATCCTCAGGAATATCCTGGAGATGAG
* **
181 TAGAAGCTGTGGAAGAGTG-GGAATCCTCAGGAATATTTTGGAGATGAG
1 TAGAACCTGTGGAAGAGTGTGGAATCCTCAGGAATATCCTGGAGATGAG
*
229 T-GAACCTATTGGAAGAGT
1 TAGAACCT-GTGGAAGAGT
247 ATGAAGAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
47 5 0.09
48 39 0.68
49 13 0.23
ACGTcount: A:0.30, C:0.11, G:0.33, T:0.26
Consensus pattern (49 bp):
TAGAACCTGTGGAAGAGTGTGGAATCCTCAGGAATATCCTGGAGATGAG
Found at i:3079 original size:29 final size:29
Alignment explanation
Indices: 3037--3092 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
3027 GATTTTATAA
3037 GGTAATATATGTCCAAAAGACTCTTAAAT
1 GGTAATATATGTCCAAAAGACTCTTAAAT
*
3066 GGTAATATATGTCCGAAAGACTCTTAA
1 GGTAATATATGTCCAAAAGACTCTTAA
3093 CTCATTTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (29 bp):
GGTAATATATGTCCAAAAGACTCTTAAAT
Found at i:4079 original size:60 final size:60
Alignment explanation
Indices: 4015--4128 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
4005 AATAGTCCTC
* * * *
4015 TGACTATAGGATATTGTTTTATTAAGTCTCTCGACTA-TTAAAAGTTACAAAATGATCATT
1 TGACTAAAGAATATTGGTTTATTAAGTCCCTCGAC-AGTTAAAAGTTACAAAATGATCATT
* * *
4075 TGACTAAATAATGTTGGTTTGTTAAGTCCCTCGACAGTTAAAAGTTACAAAATG
1 TGACTAAAGAATATTGGTTTATTAAGTCCCTCGACAGTTAAAAGTTACAAAATG
4129 GTTATCATAC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
59 1 0.02
60 45 0.98
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (60 bp):
TGACTAAAGAATATTGGTTTATTAAGTCCCTCGACAGTTAAAAGTTACAAAATGATCATT
Found at i:4948 original size:42 final size:43
Alignment explanation
Indices: 4825--5486 Score: 627
Period size: 43 Copynumber: 15.5 Consensus size: 43
4815 TTGAGTATCC
* * *
4825 TAATTTTTTCAATCACACTTTTTACCTTAATAATT-AAGGCCCC
1 TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAA-GCCCT
* * * *
4868 TAATTTTTTCAATTTCACTTTCTAGCTTTATAATTGAAGTCCT
1 TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAAGCCCT
* * * *
4911 TAATTTTTTAAATCTC-TTTTTTACCTTTGTAACTGAAGCTCC-
1 TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAAGC-CCT
* * * *
4953 TAATTTTTTCAATATCATTTTTTACCTTTATAATTGAAACCCC
1 TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAAGCCCT
* * * * *
4996 TAATTTTTTTATTCTCACTTTCTATCTTTATAATTGAAGACCT
1 TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAAGCCCT
* * * * *
5039 TAATTTTTT-AACCTCACTTATTACCTTTATATTTGAGGTCC-
1 TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAAGCCCT
* * *
5080 TAATATTTTCAAT-TCCGCTTTTTACCTTTATAATTGAAGCCCC
1 TAATTTTTTCAATCT-CACTTTTTACCTTTATAATTGAAGCCCT
* * * *
5123 AAATTTTTTTAATCTCACTTTTTACATTTATAATTGAGGCCCT
1 TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAAGCCCT
* *
5166 TGATTTTTTCAA-CTCACTTTTTTACCTTTATAATTG-AGACTCT
1 TAATTTTTTCAATCTCAC-TTTTTACCTTTATAATTGAAG-CCCT
* **
5209 TAATTTTTTCAATCTCAC-TTTTATCTTTATAATTGAGATACC-
1 TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGA-AGCCCT
* * * * *
5251 TAATTTTTTTAATCTCACGTTCTACATTTATAATTGAAGCCCC
1 TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAAGCCCT
* * *
5294 TAA-TTTTTCTAATCTAACTTTTTTACTTTTATAATTGAGGCCCT
1 TAATTTTTTC-AATCTCAC-TTTTTACCTTTATAATTGAAGCCCT
* *
5338 TAATTTTTTTAATCTCAC-TTTTACCTTTATAATTGAGATCCC-
1 TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGA-AGCCCT
* * **
5380 TAATTTTTTCAATCTCACGTTCTACAGTTATAATTGAAGCCC-
1 TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAAGCCCT
* *
5422 TAATTTTTT-AATCTCACTTTTTAACTTTATAATTGAGGCGCC-
1 TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAAGC-CCT
* *
5464 TAATTTTTCCAATCTAACTTTTT
1 TAATTTTTTCAATCTCACTTTTT
5487 TACTTTTGTA
Statistics
Matches: 504, Mismatches: 93, Indels: 44
0.79 0.15 0.07
Matches are distributed among these distances:
41 33 0.07
42 185 0.37
43 242 0.48
44 39 0.08
45 5 0.01
ACGTcount: A:0.27, C:0.19, G:0.06, T:0.48
Consensus pattern (43 bp):
TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAAGCCCT
Found at i:4955 original size:85 final size:85
Alignment explanation
Indices: 4825--5492 Score: 619
Period size: 85 Copynumber: 7.8 Consensus size: 85
4815 TTGAGTATCC
* * * * *
4825 TAATTTTTTCAATCACACTTTTTACCTTAATAATT-AAGGCCCCTAATTTTTTCAATTTCACTTT
1 TAATTTTTTTAATCTCACTTTTTACCTTTATAATTGAA-GCTCCTAATTTTTTCAATCTCACTTT
* *
4889 CTAGCTTTATAATTGAAGTCCT
65 TTA-CTTTATAATTGAAGCCCT
* * * * * *
4911 TAATTTTTTAAATCTC-TTTTTTACCTTTGTAACTGAAGCTCCTAATTTTTTCAATATCATTTTT
1 TAATTTTTTTAATCTCACTTTTTACCTTTATAATTGAAGCTCCTAATTTTTTCAATCTCACTTTT
* *
4975 TACCTTTATAATTGAAACCCC
66 TA-CTTTATAATTGAAGCCCT
* * * * * *
4996 TAATTTTTTTATTCTCACTTTCTATCTTTATAATTGAAGAC-CTTAATTTTTT-AACCTCACTTA
1 TAATTTTTTTAATCTCACTTTTTACCTTTATAATTGAAG-CTCCTAATTTTTTCAATCTCACTTT
* * *
5059 TTACCTTTATATTTGAGGTCC-
65 TTA-CTTTATAATTGAAGCCCT
* * * * * *
5080 TAATATTTTCAAT-TCCGCTTTTTACCTTTATAATTGAAGCCCCAAATTTTTTTAATCTCACTTT
1 TAATTTTTTTAATCT-CACTTTTTACCTTTATAATTGAAGCTCCTAATTTTTTCAATCTCACTTT
*
5144 TTACATTTATAATTGAGGCCCT
65 TTAC-TTTATAATTGAAGCCCT
* * *
5166 TGATTTTTTCAA-CTCACTTTTTTACCTTTATAATTG-AGACTCTTAATTTTTTCAATCTCAC-T
1 TAATTTTTTTAATCTCAC-TTTTTACCTTTATAATTGAAG-CTCCTAATTTTTTCAATCTCACTT
**
5228 TTTATCTTTATAATTGAGATACC-
64 TTTA-CTTTATAATTGA-AGCCCT
* * * * *
5251 TAATTTTTTTAATCTCACGTTCTACATTTATAATTGAAGCCCCTAA-TTTTTCTAATCTAACTTT
1 TAATTTTTTTAATCTCACTTTTTACCTTTATAATTGAAGCTCCTAATTTTTTC-AATCTCAC-TT
*
5315 TTTACTTTTATAATTGAGGCCCT
64 TTTAC-TTTATAATTGAAGCCCT
* *
5338 TAATTTTTTTAATCTCAC-TTTTACCTTTATAATTG-AGATCCCTAATTTTTTCAATCTCACGTT
1 TAATTTTTTTAATCTCACTTTTTACCTTTATAATTGAAGCT-CCTAATTTTTTCAATCTCACTTT
* *
5401 CTACAGTTATAATTGAAGCCC-
65 TTAC-TTTATAATTGAAGCCCT
* * * * *
5422 TAA-TTTTTTAATCTCACTTTTTAACTTTATAATTGAGGCGCCTAATTTTTCCAATCTAACTTTT
1 TAATTTTTTTAATCTCACTTTTTACCTTTATAATTGAAGCTCCTAATTTTTTCAATCTCAC-TTT
5486 TTACTTT
65 TTACTTT
5493 TGTAATTTAG
Statistics
Matches: 475, Mismatches: 82, Indels: 52
0.78 0.13 0.09
Matches are distributed among these distances:
83 16 0.03
84 86 0.18
85 202 0.43
86 130 0.27
87 41 0.09
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.49
Consensus pattern (85 bp):
TAATTTTTTTAATCTCACTTTTTACCTTTATAATTGAAGCTCCTAATTTTTTCAATCTCACTTTT
TACTTTATAATTGAAGCCCT
Found at i:5027 original size:128 final size:126
Alignment explanation
Indices: 4799--5478 Score: 696
Period size: 128 Copynumber: 5.3 Consensus size: 126
4789 ACAATGATGA
* * *
4799 TTTTTTACAC-TTATAATTG-AGTATCCTAATTTTTTCAATCACACTTTTTACCTTAATAATT-A
1 TTTTTTAC-CTTTATAATTGAAG-CTCCTAATTTTTTCAATCTCA-TTTTTACCTTTATAATTGA
* * * *
4861 AGGCCCCTAATTTTTTCAATTTCACTTTCTAGC-TTTATAATTGAAGTCCTTAATTTTTTAAATC
63 A-ACCCCTAATTTTTTTAATCTCACTTTCTA-CATTTATAATTGAAGCCCTTAATTTTTT-AATC
4925 TC
125 TC
* * *
4927 TTTTTTACCTTTGTAACTGAAGCTCCTAATTTTTTCAATATCATTTTTTACCTTTATAATTGAAA
1 TTTTTTACCTTTATAATTGAAGCTCCTAATTTTTTCAATCTCA-TTTTTACCTTTATAATTGAAA
* * *
4992 CCCCTAATTTTTTTATTCTCACTTTCTATC-TTTATAATTGAAGACCTTAATTTTTTAACCTC
65 CCCCTAATTTTTTTAATCTCACTTTCTA-CATTTATAATTGAAGCCCTTAATTTTTTAATCTC
* * * * * *
5054 ACTTATTACCTTTATATTTG-AGGTCCTAATATTTTCAAT-TCCGCTTTTTACCTTTATAATTGA
1 -TTTTTTACCTTTATAATTGAAGCTCCTAATTTTTTCAATCT-C-ATTTTTACCTTTATAATTGA
* * * * * *
5117 AGCCCCAAATTTTTTTAATCTCACTTTTTACATTTATAATTGAGGCCCTTGATTTTTTCAACTCA
63 AACCCCTAATTTTTTTAATCTCACTTTCTACATTTATAATTGAAGCCCTTAATTTTTT-AA-TCT
5182 C
126 C
* * * *
5183 TTTTTTACCTTTATAATTG-AGACTCTTAATTTTTTCAATCTCACTTTTATCTTTATAATTGAGA
1 TTTTTTACCTTTATAATTGAAG-CTCCTAATTTTTTCAATCTCATTTTTACCTTTATAATTGAAA
** * *
5247 TACCTAATTTTTTTAATCTCACGTTCTACATTTATAATTGAAGCCCCTAATTTTTCTAATCTAAC
65 CCCCTAATTTTTTTAATCTCACTTTCTACATTTATAATTGAAGCCCTTAATTTTT-TAATCT--C
* * * * *
5312 TTTTTTACTTTTATAATTGAGGC-CCTTAATTTTTTTAATCTCACTTTTACCTTTATAATTGAGA
1 TTTTTTACCTTTATAATTGAAGCTCC-TAATTTTTTCAATCTCATTTTTACCTTTATAATTGAAA
* * * *
5376 TCCCTAATTTTTTCAATCTCACGTTCTACAGTTATAATTGAAGCCC-TAATTTTTTAATCTC
65 CCCCTAATTTTTTTAATCTCACTTTCTACATTTATAATTGAAGCCCTTAATTTTTTAATCTC
* * * * *
5437 ACTTTTTAACTTTATAATTGAGGCGCCTAATTTTTCCAATCT
1 -TTTTTTACCTTTATAATTGAAGCTCCTAATTTTTTCAATCT
5479 AACTTTTTTA
Statistics
Matches: 470, Mismatches: 64, Indels: 38
0.82 0.11 0.07
Matches are distributed among these distances:
125 1 0.00
126 35 0.07
127 102 0.22
128 209 0.44
129 121 0.26
130 2 0.00
ACGTcount: A:0.27, C:0.19, G:0.06, T:0.48
Consensus pattern (126 bp):
TTTTTTACCTTTATAATTGAAGCTCCTAATTTTTTCAATCTCATTTTTACCTTTATAATTGAAAC
CCCTAATTTTTTTAATCTCACTTTCTACATTTATAATTGAAGCCCTTAATTTTTTAATCTC
Found at i:6356 original size:38 final size:38
Alignment explanation
Indices: 6304--6480 Score: 164
Period size: 38 Copynumber: 4.6 Consensus size: 38
6294 TGCTAATATT
* * *
6304 TTTATTAATAAAATAGGTTGCGCCTAAGAATGTTATGA
1 TTTACTAAGAAAATAGGTTGCGCCCAAGAATGTTATGA
6342 TTTACTAAGAAAATAGGTTGCGCCCAAGAATGTTATGA
1 TTTACTAAGAAAATAGGTTGCGCCCAAGAATGTTATGA
* ** *
6380 TTCACTAAGAAAATAGGTTGCGATCTGTAATGTAAAGTTAAT-A
1 TTTACTAAGAAAATAGGTTGCG--C-CCAA-G-AATGTT-ATGA
* * * *
6423 TTT-TTAATAAAATATGTTGCGCCCAAGAATGTCATG-
1 TTTACTAAGAAAATAGGTTGCGCCCAAGAATGTTATGA
6459 TTTCACTAAG-AAATAGGTTGCG
1 TTT-ACTAAGAAAATAGGTTGCG
6481 ATATGTTATG
Statistics
Matches: 112, Mismatches: 18, Indels: 19
0.75 0.12 0.13
Matches are distributed among these distances:
36 5 0.04
37 15 0.13
38 60 0.54
39 2 0.02
40 2 0.02
41 2 0.02
42 16 0.14
43 8 0.07
44 2 0.02
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.33
Consensus pattern (38 bp):
TTTACTAAGAAAATAGGTTGCGCCCAAGAATGTTATGA
Found at i:12979 original size:27 final size:27
Alignment explanation
Indices: 12949--13016 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
12939 GAAGATGAAG
* *
12949 AAATGAGAGAGAAAAAGAAAATGTTAC
1 AAATGAGAGAGAAAAAGAAAAAGTTAA
*
12976 AAATGAAAGAGAAAAAGAAAAAGTTAA
1 AAATGAGAGAGAAAAAGAAAAAGTTAA
*
13003 AAATAAGAGAGAAA
1 AAATGAGAGAGAAA
13017 TGGGTGATAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.66, C:0.01, G:0.21, T:0.12
Consensus pattern (27 bp):
AAATGAGAGAGAAAAAGAAAAAGTTAA
Found at i:15311 original size:55 final size:55
Alignment explanation
Indices: 15246--15353 Score: 207
Period size: 55 Copynumber: 2.0 Consensus size: 55
15236 TAAGTCTTTG
*
15246 ATAAATCTTCTATAGAATCCAACATGTCCAAGAAAACTTCTTATACCCTTGATTA
1 ATAAAACTTCTATAGAATCCAACATGTCCAAGAAAACTTCTTATACCCTTGATTA
15301 ATAAAACTTCTATAGAATCCAACATGTCCAAGAAAACTTCTTATACCCTTGAT
1 ATAAAACTTCTATAGAATCCAACATGTCCAAGAAAACTTCTTATACCCTTGAT
15354 CGAAATTGGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.31
Consensus pattern (55 bp):
ATAAAACTTCTATAGAATCCAACATGTCCAAGAAAACTTCTTATACCCTTGATTA
Found at i:15339 original size:30 final size:30
Alignment explanation
Indices: 15252--15341 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 30
15242 TTTGATAAAT
15252 CTTCTATAGAATCCAACATGTCCAAGAAAA
1 CTTCTATAGAATCCAACATGTCCAAGAAAA
* * * *
15282 CTTCT-TA-TA-CC--CTTGAT-TAATAAAA
1 CTTCTATAGAATCCAACATG-TCCAAGAAAA
15307 CTTCTATAGAATCCAACATGTCCAAGAAAA
1 CTTCTATAGAATCCAACATGTCCAAGAAAA
15337 CTTCT
1 CTTCT
15342 TATACCCTTG
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
25 14 0.31
26 3 0.07
27 3 0.07
28 3 0.07
29 3 0.07
30 19 0.42
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (30 bp):
CTTCTATAGAATCCAACATGTCCAAGAAAA
Found at i:24906 original size:22 final size:23
Alignment explanation
Indices: 24881--24929 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
24871 AAGATATAGT
* *
24881 AAAAAAC-ACACACAAAAAGAAA
1 AAAAAACAAAACAAAAAAAGAAA
*
24903 AAAAAACAAAAGAAAAAAAGAAA
1 AAAAAACAAAACAAAAAAAGAAA
24926 AAAA
1 AAAA
24930 GAAAGAAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.84, C:0.10, G:0.06, T:0.00
Consensus pattern (23 bp):
AAAAAACAAAACAAAAAAAGAAA
Found at i:24913 original size:8 final size:8
Alignment explanation
Indices: 24894--24933 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
24884 AAACACACAC
24894 AAAAAGAA
1 AAAAAGAA
24902 AAAAA-AA
1 AAAAAGAA
*
24909 CAAAAGAA
1 AAAAAGAA
24917 AAAAAGAA
1 AAAAAGAA
24925 AAAAAGAA
1 AAAAAGAA
24933 A
1 A
24934 GAAGAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 6 0.21
8 23 0.79
ACGTcount: A:0.88, C:0.03, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:24915 original size:15 final size:16
Alignment explanation
Indices: 24894--24933 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
24884 AAACACACAC
24894 AAAAAGAAAAAAA-AA
1 AAAAAGAAAAAAAGAA
*
24909 CAAAAGAAAAAAAGAA
1 AAAAAGAAAAAAAGAA
24925 AAAAAGAAA
1 AAAAAGAAA
24934 GAAGAAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.88, C:0.03, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAAAGAA
Found at i:24938 original size:15 final size:15
Alignment explanation
Indices: 24895--24945 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
24885 AACACACACA
*
24895 AAAAGAAAAAAAAAC
1 AAAAGAAAAAGAAAC
24910 AAAAGAAAAAAAGAAA-
1 AAAAG--AAAAAGAAAC
*
24926 AAAAGAAAGAAGAAAG
1 AAAAGAAA-AAGAAAC
24942 AAAA
1 AAAA
24946 CAAATCTGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 3 0.10
15 11 0.35
16 9 0.29
17 8 0.26
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAGAAAC
Found at i:27427 original size:232 final size:233
Alignment explanation
Indices: 26734--27710 Score: 1438
Period size: 233 Copynumber: 4.2 Consensus size: 233
26724 GGGTCATCTG
* * *
26734 TAAGTCTTTCGAGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATC-AAATATGA
1 TAAGTCCTTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCGAAAAATGA
* *
26798 GAAAGGTTTCTCATTTAAATCTGAAAATTCAAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTA
66 GAAAGGTTTCTCATTCAAATCTGAAAATT-GAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTA
* * *
26863 TTAAACTATTTCTAAAATTTATAAGTCCTTCGGGCCATTAGTAAGTCTTTCGAGCATGATGCTTA
130 GTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTA
* * * *
26928 AATCCTTCAGGTCATCTTTAAGACTTTCGAGCAATATGA
195 AATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGA
* ** * * * * *
26967 TAAGTTCTTCTAGACATCCATAAGACCTTTCGGAAGGATGTTTTCACATGTATATCGAAATATGA
1 TAAGTCCTTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCGAAAAATGA
* * * * *
27032 GAAATGTTTCTCATTTAAATCTGAAATTTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTGCCTAG
66 GAAAGGTTTCTCATTCAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTAG
* * * *
27097 TAAACTATTTCCAAAATTTATAAGTCATACGAGCCA-CTAGTAAGTCTTTCGATCATGATGCTTA
131 TAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATC-AGTAAGTCTTTCGAGCATGATGCTTA
27161 AATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGA
195 AATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGA
** * *
27200 TAAGTTTTTCGGGCCATCCATAAGACCTTTGTGCAGGATGTTTTCACATGTCTCTCGAAAAATGA
1 TAAGTCCTTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCGAAAAATGA
* *
27265 GAAAGGTTTCTCATTCAAATCTAAAAATTGAAATTTTTAAAAAGTAAGAAA-GTTTCTTACCTAG
66 GAAAGGTTTCTCATTCAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTAG
* *
27329 TAAACTATTTCCAAAATCTATAAGTCTTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAA
131 TAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAA
* * *
27394 ATCCTTCGTGTCATCTATAAGTCTTTTGAGCAAGATGA
196 ATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGA
* * *
27432 TAAGTCCTTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACACGTCTCTCAAAAAATGA
1 TAAGTCCTTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCGAAAAATGA
* ** * * *
27497 GAAATGTTTCTTGTTCAAATTTGAAAATTGAGATTTTTGAAAAGTAAGAAAGGTTTCTTACATAG
66 GAAAGGTTTCTCATTCAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTAG
*
27562 TAAACTATTTCTAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAA
131 TAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAA
27627 ATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGA
196 ATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGA
* **
27665 TAAGTCCTTCGGGCCATCCATAAGACCTTTAGGCAAAATGTTTTCA
1 TAAGTCCTTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCA
27711 TAGGTCCCTA
Statistics
Matches: 671, Mismatches: 69, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
232 209 0.31
233 427 0.64
234 35 0.05
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (233 bp):
TAAGTCCTTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCGAAAAATGA
GAAAGGTTTCTCATTCAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTAG
TAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAA
ATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGA
Found at i:27621 original size:465 final size:466
Alignment explanation
Indices: 26734--27710 Score: 1476
Period size: 465 Copynumber: 2.1 Consensus size: 466
26724 GGGTCATCTG
* *
26734 TAAGTCTTTCGAGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCAAATATGAG
1 TAAGTCTTTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCAAAAATGAG
* * * *
26799 AAAGGTTTCTCATTTAAATCTGAAAATTCAAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTAT
66 AAAGGTTTCTCATTCAAATCTAAAAATTCAAAATTTTTAAAAAGTAAGAAAGGTTTCTTACCTAG
* * *
26864 TAAACTATTTCTAAAATTTATAAGTCCTTCGGGCCATTAGTAAGTCTTTCGAGCATGATGCTTAA
131 TAAACTATTTCCAAAATCTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAA
* * * *
26929 ATCCTTCAGGTCATCTTTAAGACTTTCGAGCAATATGATAAGTTCTTCTAGACATCCATAAGACC
196 ATCCTTCAGGTCATCTATAAGACTTTCGAGCAAGATGATAAGTCCTTCGAGACATCCATAAGACC
* * * * *
26994 TTTCGGAAGGATGTTTTCACATGTATATCGAAATATGAGAAATGTTTCTCATTTAAATCTGAAAT
261 TTTCGGAAGGATGTTTTCACACGTATATCAAAAAATGAGAAATGTTTCTCATTCAAATCTGAAAA
* *
27059 TTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTGCCTAGTAAACTATTTCCAAAATTTATAAGTCA
326 TTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACATAGTAAACTATTTCCAAAATTTATAAGTCA
*
27124 TACGAGCCACTAGTAAGTCTTTCGATCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTC
391 TACGAGCCACTAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTC
27189 GAGCAAGATGA
456 GAGCAAGATGA
* * *
27200 TAAGTTTTTCGGGCCATCCATAAGACCTTTGTGCAGGATGTTTTCACATGTCTCTCGAAAAATGA
1 TAAGTCTTTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATC-AAAAATGA
*
27265 GAAAGGTTTCTCATTCAAATCTAAAAATT-GAAATTTTTAAAAAGTAAGAAA-GTTTCTTACCTA
65 GAAAGGTTTCTCATTCAAATCTAAAAATTCAAAATTTTTAAAAAGTAAGAAAGGTTTCTTACCTA
*
27328 GTAAACTATTTCCAAAATCTATAAGTCTTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTA
130 GTAAACTATTTCCAAAATCTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTA
* * * *
27393 AATCCTTC-GTGTCATCTATAAGTCTTTTGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGA
195 AATCCTTCAG-GTCATCTATAAGACTTTCGAGCAAGATGATAAGTCCTTCGAGACATCCATAAGA
* * * * ** *
27457 CCTTTGGGCAGGATGTTTTCACACGTCTCTCAAAAAATGAGAAATGTTTCTTGTTCAAATTTGAA
259 CCTTTCGGAAGGATGTTTTCACACGTATATCAAAAAATGAGAAATGTTTCTCATTCAAATCTGAA
* * *
27522 AATTGAGATTTTTGAAAAGTAAGAAAGGTTTCTTACATAGTAAACTATTTCTAAAATTTATAAGT
324 AATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACATAGTAAACTATTTCCAAAATTTATAAGT
* * *
27587 CCTTCGGGCCA-TCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCT
389 CATACGAGCCACT-AGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCT
27651 TTCGAGCAAGATGA
453 TTCGAGCAAGATGA
* * **
27665 TAAGTCCTTCGGGCCATCCATAAGACCTTTAGGCAAAATGTTTTCA
1 TAAGTCTTTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCA
27711 TAGGTCCCTA
Statistics
Matches: 459, Mismatches: 49, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
464 2 0.00
465 351 0.76
466 72 0.16
467 34 0.07
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (466 bp):
TAAGTCTTTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCAAAAATGAG
AAAGGTTTCTCATTCAAATCTAAAAATTCAAAATTTTTAAAAAGTAAGAAAGGTTTCTTACCTAG
TAAACTATTTCCAAAATCTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAA
ATCCTTCAGGTCATCTATAAGACTTTCGAGCAAGATGATAAGTCCTTCGAGACATCCATAAGACC
TTTCGGAAGGATGTTTTCACACGTATATCAAAAAATGAGAAATGTTTCTCATTCAAATCTGAAAA
TTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACATAGTAAACTATTTCCAAAATTTATAAGTCA
TACGAGCCACTAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTC
GAGCAAGATGA
Found at i:27633 original size:42 final size:41
Alignment explanation
Indices: 27581--27682 Score: 141
Period size: 42 Copynumber: 2.5 Consensus size: 41
27571 TCTAAAATTT
* *
27581 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAGATG
* * *
27622 CTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAGATG
*
27664 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
27683 CATAAGACCT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 16 0.31
42 36 0.69
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAGATG
Found at i:27895 original size:3 final size:3
Alignment explanation
Indices: 27887--27925 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
27877 AATATTACCC
27887 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27926 AATACATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:28696 original size:21 final size:21
Alignment explanation
Indices: 28670--28717 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
28660 TTTTCAATTA
28670 TTTTGCGACAAATGGAGCTCC
1 TTTTGCGACAAATGGAGCTCC
*
28691 TTTTGCGTCAAATGGAGCTCC
1 TTTTGCGACAAATGGAGCTCC
28712 TTTTGC
1 TTTTGC
28718 AAAACTAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (21 bp):
TTTTGCGACAAATGGAGCTCC
Found at i:36962 original size:17 final size:18
Alignment explanation
Indices: 36924--36962 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
36914 ATGTAAAGTA
*
36924 GTATCAGTATCCCTTTGG
1 GTATCAGTATCCATTTGG
*
36942 GTATCAGTA-CCATTTGT
1 GTATCAGTATCCATTTGG
36959 GTAT
1 GTAT
36963 TCTGGAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (18 bp):
GTATCAGTATCCATTTGG
Found at i:38339 original size:20 final size:18
Alignment explanation
Indices: 38302--38351 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
38292 ATCTAAATCA
*
38302 TTTTTCAAAGATTCATTTT
1 TTTTTCAAA-AATCATTTT
38321 GTTTTTCAAAAATCAATTTT
1 -TTTTTCAAAAATC-ATTTT
38341 TTCTTTCAAAA
1 TT-TTTCAAAA
38352 CCAAATCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.32, C:0.12, G:0.04, T:0.52
Consensus pattern (18 bp):
TTTTTCAAAAATCATTTT
Found at i:41494 original size:19 final size:18
Alignment explanation
Indices: 41458--41506 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
41448 CTCTAAATCA
**
41458 TTTTTCAAAGATTCATTTT
1 TTTTTCAAA-ATAAATTTT
41477 GTTTTTCAAAATAAATTTT
1 -TTTTTCAAAATAAATTTT
41496 TTCTTTCAAAA
1 TT-TTTCAAAA
41507 CCAAATCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.58
20 9 0.35
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.53
Consensus pattern (18 bp):
TTTTTCAAAATAAATTTT
Found at i:46717 original size:21 final size:22
Alignment explanation
Indices: 46677--46717 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
46667 GGCCATTTCT
46677 AGCCGTTAGGGGAGTGATTTGG
1 AGCCGTTAGGGGAGTGATTTGG
*
46699 AGCCGTTTGGGGA-TGATTT
1 AGCCGTTAGGGGAGTGATTT
46718 CTCTAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.10, G:0.41, T:0.32
Consensus pattern (22 bp):
AGCCGTTAGGGGAGTGATTTGG
Found at i:46855 original size:20 final size:20
Alignment explanation
Indices: 46830--46877 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
46820 ATTAGGTCTG
46830 ATGGTATCAAT-TCTAAGCCT
1 ATGGTATCAATAT-TAAGCCT
* *
46850 ATGGTATCGATATTATGCCT
1 ATGGTATCAATATTAAGCCT
46870 ATGGTATC
1 ATGGTATC
46878 GATACTACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (20 bp):
ATGGTATCAATATTAAGCCT
Found at i:47589 original size:77 final size:77
Alignment explanation
Indices: 47362--47600 Score: 284
Period size: 77 Copynumber: 3.1 Consensus size: 77
47352 TTCGCAACCC
* * * *
47362 ATTTTA-TAATAAAAATATTGACATTCCATATCTTAACATATTTCTTAACGAACCATGACATTCT
1 ATTTTATTAATAAAAATATTAACATTCCATATCATAACATATTTCTTAATGAACCATGACATTAT
* * *
47426 TGGGAGAAAACC
66 TGGGAGCAATCT
* * ** *
47438 ATTTTATTAACAAAAATATTAACATTCCAGATTGTAACATATTTCTTAGTGAACCATGACATTAT
1 ATTTTATTAATAAAAATATTAACATTCCATATCATAACATATTTCTTAATGAACCATGACATTAT
*
47503 TGGGCGCAATCT
66 TGGGAGCAATCT
* * * *
47515 ATTTTATTATTAAAAATATTAACATTCCATATCACAACCTATTTCTTAATGAACCATGACATTTT
1 ATTTTATTAATAAAAATATTAACATTCCATATCATAACATATTTCTTAATGAACCATGACATTAT
* *
47580 TAGGTGCAATCGT
66 TGGGAGCAATC-T
47593 A-TTTATTA
1 ATTTTATTA
47601 TATATACTCA
Statistics
Matches: 138, Mismatches: 23, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
76 6 0.04
77 130 0.94
78 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (77 bp):
ATTTTATTAATAAAAATATTAACATTCCATATCATAACATATTTCTTAATGAACCATGACATTAT
TGGGAGCAATCT
Found at i:48303 original size:24 final size:25
Alignment explanation
Indices: 48276--48322 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
48266 TATATAATTT
*
48276 TTTAATTAAAGAT-TAAAATATTAA
1 TTTAATTAAAAATATAAAATATTAA
*
48300 TTTATTTAAAAATATAAAATATT
1 TTTAATTAAAAATATAAAATATT
48323 TTTTTTAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
TTTAATTAAAAATATAAAATATTAA
Found at i:49224 original size:22 final size:23
Alignment explanation
Indices: 49193--49238 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
49183 TACTGCATTG
*
49193 ATAACTTTTTCAGTTCCG-TTTT
1 ATAACATTTTCAGTTCCGCTTTT
**
49215 ATAACATTTTGTGTTCCGCTTTT
1 ATAACATTTTCAGTTCCGCTTTT
49238 A
1 A
49239 ACTTGTACGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.52
Consensus pattern (23 bp):
ATAACATTTTCAGTTCCGCTTTT
Found at i:52033 original size:101 final size:100
Alignment explanation
Indices: 51891--52143 Score: 321
Period size: 101 Copynumber: 2.5 Consensus size: 100
51881 TAAAAAATTA
* * * *
51891 AAGAATTCAAGAACAAGAAAAGCCCATATTTGCAATCACTAAAATCAAATAATACCAAGAAAAAT
1 AAGAAATCAAGAACAAGAAAAACCCAGATTTGCAATCACTAAAATCAAATAATACCAAGAAAAAC
** *
51956 ATAAATA-CTCTGAGTATCATTAAAAAGTTGAAACATC
66 ATAAATAGCTCT-ACAATC--TAAAAAGTTGAAAAATC
* *
51993 AAGAAATCAAGAACAA-AAAAACCCAGATTTGCAATCACTAAAATCGAATAGTACCAAGAAAAAC
1 AAGAAATCAAGAACAAGAAAAACCCAGATTTGCAATCACTAAAATCAAATAATACCAAGAAAAAC
* * *
52057 ATAATTAGTTCTACAATCTACAAAGTTGAAAAATC
66 ATAAATAGCTCTACAATCTAAAAAGTTGAAAAATC
* * * *
52092 AAGAAACCAAGAACAAGAAAACCCCAGATTTGCAATCACGAAAATCAGATAA
1 AAGAAATCAAGAACAAGAAAAACCCAGATTTGCAATCACTAAAATCAAATAA
52144 AATAATGTAT
Statistics
Matches: 131, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
99 30 0.23
100 30 0.23
101 53 0.40
102 18 0.14
ACGTcount: A:0.53, C:0.17, G:0.11, T:0.19
Consensus pattern (100 bp):
AAGAAATCAAGAACAAGAAAAACCCAGATTTGCAATCACTAAAATCAAATAATACCAAGAAAAAC
ATAAATAGCTCTACAATCTAAAAAGTTGAAAAATC
Found at i:53298 original size:32 final size:30
Alignment explanation
Indices: 53241--53299 Score: 73
Period size: 32 Copynumber: 1.9 Consensus size: 30
53231 TTCTTTATTG
*
53241 GATTTTTTAATGTTTTAAATATTTTTATGA
1 GATTTTTTAAAGTTTTAAATATTTTTATGA
* *
53271 GATTCTTTTAAAGATTTTATATTTTTTTA
1 GATT-TTTTAAAG-TTTTAAATATTTTTA
53300 GTTTTTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.17
31 7 0.29
32 13 0.54
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.61
Consensus pattern (30 bp):
GATTTTTTAAAGTTTTAAATATTTTTATGA
Found at i:53421 original size:18 final size:19
Alignment explanation
Indices: 53398--53434 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
53388 ATATTACATG
53398 AAAGTAAATGAGAA-AAAA
1 AAAGTAAATGAGAATAAAA
*
53416 AAAGTATATGAGAATAAAA
1 AAAGTAAATGAGAATAAAA
53435 TAATAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (19 bp):
AAAGTAAATGAGAATAAAA
Found at i:53542 original size:17 final size:17
Alignment explanation
Indices: 53516--53548 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
53506 TTGTATTAAT
53516 ATATATTATAT-TTTTC
1 ATATATTATATATTTTC
53532 ATATGATTATATATTTT
1 ATAT-ATTATATATTTT
53549 TTAATAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
ATATATTATATATTTTC
Found at i:55059 original size:23 final size:23
Alignment explanation
Indices: 55033--55078 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
55023 TTCTTCTCCG
*
55033 TTATGACATGTTTTTCT-TTATTT
1 TTATGACATATTTTT-TATTATTT
*
55056 TTATGGCATATTTTTTATTATTT
1 TTATGACATATTTTTTATTATTT
55079 GATTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.20, C:0.07, G:0.09, T:0.65
Consensus pattern (23 bp):
TTATGACATATTTTTTATTATTT
Found at i:61655 original size:76 final size:76
Alignment explanation
Indices: 61531--61732 Score: 309
Period size: 76 Copynumber: 2.7 Consensus size: 76
61521 CCGTTATGAG
*
61531 ATGGGGGTATCGGTA-CCTCTT-GGGGGTATCGGTACCCTCCAAGCAATCTGTTATTTCTCGGAG
1 ATGGGGGTATCGGTACCCTCTTGGGGGGTATCGGTACCCTCCGAGCAATCTGTTATTTCTCGGAG
61594 CCAAATCTTAA
66 CCAAATCTTAA
*
61605 ATGGGGGTATCAGTACCCTCTTGGGGGGTATCGGTACCCTCCGAGCAATCTGTTATTTCTCGGAG
1 ATGGGGGTATCGGTACCCTCTTGGGGGGTATCGGTACCCTCCGAGCAATCTGTTATTTCTCGGAG
*
61670 CCAAATCTTAT
66 CCAAATCTTAA
* * * * * *
61681 ATGAGAGTATCGGTACCTTCTTGGGGGGTATCGATACCCTCTGGGCAATCTG
1 ATGGGGGTATCGGTACCCTCTTGGGGGGTATCGGTACCCTCCGAGCAATCTG
61733 GTTTTTCAGT
Statistics
Matches: 116, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
74 14 0.12
75 6 0.05
76 96 0.83
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (76 bp):
ATGGGGGTATCGGTACCCTCTTGGGGGGTATCGGTACCCTCCGAGCAATCTGTTATTTCTCGGAG
CCAAATCTTAA
Found at i:62390 original size:76 final size:76
Alignment explanation
Indices: 62266--62456 Score: 305
Period size: 76 Copynumber: 2.5 Consensus size: 76
62256 CCGTTATGAG
62266 ATGGGGGTATCGGTA-CCTCTT-GGGGGTATCGGTACCCTCCAAGCAATCTGTTATTTCTCGGAG
1 ATGGGGGTATCGGTACCCTCTTGGGGGGTATCGGTACCCTCCAAGCAATCTGTTATTTCTCGGAG
62329 CCAAATCTTAA
66 CCAAATCTTAA
* * *
62340 ATGGGGGTATCAGTACCCTCTTGGGGGGTATCAGTACCCTCCGAGCAATCTGTTATTTCTCGGAG
1 ATGGGGGTATCGGTACCCTCTTGGGGGGTATCGGTACCCTCCAAGCAATCTGTTATTTCTCGGAG
*
62405 CCAAATCTTAT
66 CCAAATCTTAA
* * *
62416 ATGAGAGTATCGGTACCTTCTTGGGGGGTATCGGTACCCTC
1 ATGGGGGTATCGGTACCCTCTTGGGGGGTATCGGTACCCTC
62457 TGGGTAATCT
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
74 14 0.13
75 6 0.06
76 86 0.81
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (76 bp):
ATGGGGGTATCGGTACCCTCTTGGGGGGTATCGGTACCCTCCAAGCAATCTGTTATTTCTCGGAG
CCAAATCTTAA
Found at i:63135 original size:18 final size:18
Alignment explanation
Indices: 63112--63150 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
63102 TAAATAAGTA
*
63112 CAAACATCCAAGATAAAT
1 CAAACATCCAAAATAAAT
*
63130 CAAACATCCAAAATAGAT
1 CAAACATCCAAAATAAAT
63148 CAA
1 CAA
63151 TCCATAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.23, G:0.05, T:0.15
Consensus pattern (18 bp):
CAAACATCCAAAATAAAT
Found at i:65196 original size:23 final size:22
Alignment explanation
Indices: 65154--65230 Score: 79
Period size: 23 Copynumber: 3.6 Consensus size: 22
65144 ACACCGTGGA
65154 GGGTATCGGTA-CC-CTC-AGG
1 GGGTATCGGTACCCACTCAAGG
65173 GGGTATCGGTACCCACTCAAAGG
1 GGGTATCGGTACCCACTC-AAGG
* * * *
65196 GGGGATTGGTATCCATTCAAGG
1 GGGTATCGGTACCCACTCAAGG
*
65218 GGGTATCGATACC
1 GGGTATCGGTACC
65231 TCCTGCACTA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
19 11 0.24
20 2 0.04
21 3 0.07
22 13 0.28
23 17 0.37
ACGTcount: A:0.22, C:0.22, G:0.34, T:0.22
Consensus pattern (22 bp):
GGGTATCGGTACCCACTCAAGG
Found at i:71902 original size:37 final size:37
Alignment explanation
Indices: 71844--72298 Score: 379
Period size: 37 Copynumber: 12.1 Consensus size: 37
71834 ACTATAATAT
* *
71844 AAATATTTTTTAAAAACTATATAATATATATATTTTCA
1 AAATA-TTTTCAAAAACTATATATTATATATATTTTCA
* *
71882 AAATGTTTTCAAAAATTATATATTATATATATTTTCA
1 AAATATTTTCAAAAACTATATATTATATATATTTTCA
* * *
71919 AAATGTTTTCAAAAACTATTTATTATTTATATTTTCA
1 AAATATTTTCAAAAACTATATATTATATATATTTTCA
71956 AAATATTTTCAAAAACTATATATTATATATATTTTTTCA
1 AAATATTTTCAAAAACTATATATTATATATA--TTTTCA
*
71995 AAATGTTTTCAAAAACTATATATATATATATATATATAT-A
1 AAATATTTTCAAAAACTATATAT-TATATATAT-T-T-TCA
* *
72035 TATATATATATTCAAAATATTTTCAAAAATTATATATTATATATATTTTTA
1 -A-A-ATAT-TT----------TCAAAAACTATATATTATATATATTTTCA
72086 AAA-ATGATTTCAAAAAC--TATA-TATATATA--TTCA
1 AAATAT--TTTCAAAAACTATATATTATATATATTTTCA
*
72119 AAATATTTTCAGAAACTATATATTATATATATTTTCA
1 AAATATTTTCAAAAACTATATATTATATATATTTTCA
*** *
72156 AAA-AAAATCACAAA-TATATA-T-TATATA---T--
1 AAATATTTTCAAAAACTATATATTATATATATTTTCA
72184 --ATATTTTCAAAAACTATATATTATATATATTTTCA
1 AAATATTTTCAAAAACTATATATTATATATATTTTCA
* *
72219 AAATATTTTAAAAAAAACTATATATTATATATGTTTTCA
1 AAATATTTT--CAAAAACTATATATTATATATATTTTCA
** *
72258 AAACGTTTTCAAAAACTATATATTATATATGTTTTCA
1 AAATATTTTCAAAAACTATATATTATATATATTTTCA
72295 AAAT
1 AAAT
72299 TTTATATATA
Statistics
Matches: 346, Mismatches: 30, Indels: 83
0.75 0.07 0.18
Matches are distributed among these distances:
26 1 0.00
27 7 0.02
28 6 0.02
29 1 0.00
30 7 0.02
32 9 0.03
33 13 0.04
34 7 0.02
35 22 0.06
36 11 0.03
37 135 0.39
38 12 0.03
39 62 0.18
40 10 0.03
41 2 0.01
42 1 0.00
43 3 0.01
44 2 0.01
47 2 0.01
48 4 0.01
49 1 0.00
50 2 0.01
51 2 0.01
52 1 0.00
53 9 0.03
54 14 0.04
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (37 bp):
AAATATTTTCAAAAACTATATATTATATATATTTTCA
Found at i:71963 original size:11 final size:11
Alignment explanation
Indices: 71873--71969 Score: 52
Period size: 11 Copynumber: 8.1 Consensus size: 11
71863 TATAATATAT
71873 ATATTTTCAAA
1 ATATTTTCAAA
*
71884 ATGTTTTCAAAA
1 ATATTTTC-AAA
*
71896 ATTATATATT-ATAT
1 A-TAT-T-TTCA-AA
71910 ATATTTTCAAA
1 ATATTTTCAAA
*
71921 ATGTTTTCAAAA
1 ATATTTTC-AAA
* **
71933 ACTATTTATTATTT
1 A-TATTT-TCA-AA
71947 ATATTTTCAAA
1 ATATTTTCAAA
71958 ATATTTTCAAA
1 ATATTTTCAAA
71969 A
1 A
71970 ACTATATATT
Statistics
Matches: 64, Mismatches: 12, Indels: 20
0.67 0.12 0.21
Matches are distributed among these distances:
11 29 0.45
12 12 0.19
13 16 0.25
14 5 0.08
15 2 0.03
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.48
Consensus pattern (11 bp):
ATATTTTCAAA
Found at i:72018 original size:2 final size:2
Alignment explanation
Indices: 72011--72045 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
72001 TTTCAAAAAC
72011 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
72046 TCAAAATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:72058 original size:54 final size:52
Alignment explanation
Indices: 71972--72080 Score: 164
Period size: 54 Copynumber: 2.1 Consensus size: 52
71962 TTTCAAAAAC
* * *
71972 TATATATTATATATATTTTTTCAAAATGTTTTCAAAAACTATATATATATATA
1 TATATATTATATATATATATTCAAAATATTTTCAAAAACTATATAT-TATATA
*
72025 TATATATATATATATATATATTCAAAATATTTTCAAAAATTATATATTATATA
1 TATATAT-TATATATATATATTCAAAATATTTTCAAAAACTATATATTATATA
72078 TAT
1 TAT
72081 TTTTAAAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
53 16 0.31
54 35 0.69
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.49
Consensus pattern (52 bp):
TATATATTATATATATATATTCAAAATATTTTCAAAAACTATATATTATATA
Found at i:72068 original size:26 final size:25
Alignment explanation
Indices: 72038--72159 Score: 80
Period size: 26 Copynumber: 5.0 Consensus size: 25
72028 ATATATATAT
72038 ATATATATTCAAAATATTTTCAAAA
1 ATATATATTCAAAATATTTTCAAAA
* *
72063 ATTATATATT-ATATATATTTTTAAAA
1 A-TATATATTCA-AAATATTTTCAAAA
* * * *
72089 AT-GAT-TTCAAAA-A--CT-ATAT
1 ATATATATTCAAAATATTTTCAAAA
72108 ATATATATTCAAAATATTTTCAGAAA
1 ATATATATTCAAAATATTTTCA-AAA
* *
72134 CTATATATT-ATATATATTTTCAAAA
1 ATATATATTCA-AAATATTTTCAAAA
72159 A
1 A
72160 AAATCACAAA
Statistics
Matches: 72, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
19 4 0.06
20 3 0.04
21 7 0.10
22 2 0.03
23 4 0.06
24 4 0.06
25 8 0.11
26 40 0.56
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (25 bp):
ATATATATTCAAAATATTTTCAAAA
Found at i:72069 original size:93 final size:92
Alignment explanation
Indices: 71946--72115 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 92
71936 ATTTATTATT
* * *
71946 TATATTTTCAAAATATTTTCAAAAACTATATATTATATATATTTTTTCAAAATGTTTTCAAAAAC
1 TATATATTCAAAATATTTTCAAAAACTATATATTATATATA-TTTTTAAAAATGATTTCAAAAAC
72011 TATATATATATATATATATATATATATA
65 TATATATATATATATATATATATATATA
*
72039 TATATATTCAAAATATTTTCAAAAATTATATATTATATATATTTTTAAAAATGATTTCAAAAACT
1 TATATATTCAAAATATTTTCAAAAACTATATATTATATATATTTTTAAAAATGATTTCAAAAACT
72104 ATATATATATAT
66 ATATATATATAT
72116 TCAAAATATT
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 34 0.47
93 39 0.53
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.46
Consensus pattern (92 bp):
TATATATTCAAAATATTTTCAAAAACTATATATTATATATATTTTTAAAAATGATTTCAAAAACT
ATATATATATATATATATATATATATA
Found at i:72129 original size:32 final size:32
Alignment explanation
Indices: 72072--72148 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
72062 AATTATATAT
*
72072 TATATATAT-TTTTAAAAATGATTTCAAAAAC
1 TATATATATATATTAAAAATGATTTCAAAAAC
* *
72103 TATATATATATATTCAAAAT-ATTTTCAGAAAC
1 TATATATATATATTAAAAATGA-TTTCAAAAAC
72135 TATATATTATATAT
1 TATATA-TATATAT
72149 ATTTTCAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
31 10 0.25
32 23 0.57
33 7 0.17
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (32 bp):
TATATATATATATTAAAAATGATTTCAAAAAC
Found at i:72201 original size:28 final size:26
Alignment explanation
Indices: 72170--72221 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 26
72160 AAATCACAAA
72170 TATATATTATATATATATTTTCAAAAAC
1 TATATA-T-TATATATATTTTCAAAAAC
72198 TATATATTATATATATTTTCAAAA
1 TATATATTATATATATTTTCAAAA
72222 TATTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 17 0.71
27 1 0.04
28 6 0.25
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (26 bp):
TATATATTATATATATTTTCAAAAAC
Found at i:72304 original size:25 final size:26
Alignment explanation
Indices: 72262--72314 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
72252 TTTTCAAAAC
72262 GTTTTCAAAAACTATATAT-TATATAT
1 GTTTTCAAAAACTATATATATAT-TAT
* *
72288 GTTTTC-AAAATTTTATATATATTAT
1 GTTTTCAAAAACTATATATATATTAT
72313 GT
1 GT
72315 ATATTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.51
Consensus pattern (26 bp):
GTTTTCAAAAACTATATATATATTAT
Found at i:73071 original size:123 final size:122
Alignment explanation
Indices: 72931--73164 Score: 378
Period size: 123 Copynumber: 1.9 Consensus size: 122
72921 ATGGATGGGA
* *
72931 TCCTTCACTGTGAAGTTGAGCTTTGAATTGGATGTCTTTCGTTGTGAAGTTGAAATCCAATCTTG
1 TCCTTCACTGTGAAGTTGAGCTTTGAATTGGATGTCCTTCGTTGTAAAGTTGAAATCCAATCTTG
* *
72996 TAAATTGCATCGCCTCAAGTTTAATATCTTTCGTTGTGAAGTTGAAAATGTGGATAGC
66 TAAATTGCATCGCCTCAAGTTCAATATCTTTCGCTGT-AAGTTGAAAATGTGGATAGC
* *
73054 TCCTTCACTGTGAAGTTGATCTTTGAATTGGGTGTCCTTCGTTGTAAAGTTGAAATCCAATCTTG
1 TCCTTCACTGTGAAGTTGAGCTTTGAATTGGATGTCCTTCGTTGTAAAGTTGAAATCCAATCTTG
* * *
73119 TAAATTGCATCGCTTCGAGTTCAATATCTTTCGCTGTTAGTTGAAA
66 TAAATTGCATCGCCTCAAGTTCAATATCTTTCGCTGTAAGTTGAAA
73165 TTGACTCTAA
Statistics
Matches: 102, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
122 8 0.08
123 94 0.92
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (122 bp):
TCCTTCACTGTGAAGTTGAGCTTTGAATTGGATGTCCTTCGTTGTAAAGTTGAAATCCAATCTTG
TAAATTGCATCGCCTCAAGTTCAATATCTTTCGCTGTAAGTTGAAAATGTGGATAGC
Found at i:73555 original size:3 final size:3
Alignment explanation
Indices: 73547--73632 Score: 83
Period size: 3 Copynumber: 29.7 Consensus size: 3
73537 TCCGAGTTGA
* * *
73547 TAT TAT TA- TAT TAT TAC TAT TAT TA- TAT TAT TAC TA- TAT TAC TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
73591 TAT TAT TAT TAT TAT ATAT TAT ATAT TAA TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TAT -TAT TAT -TAT TAT TAT TAT TAT TAT TA
73633 CAAATATTAA
Statistics
Matches: 70, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
2 10 0.14
3 54 0.77
4 6 0.09
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:73559 original size:8 final size:8
Alignment explanation
Indices: 73546--73632 Score: 101
Period size: 8 Copynumber: 10.8 Consensus size: 8
73536 GTCCGAGTTG
73546 ATATTATT
1 ATATTATT
73554 ATATTATT
1 ATATTATT
73562 ACTATTATT
1 A-TATTATT
73571 ATATTATT
1 ATATTATT
73579 ACTA-TATT
1 A-TATTATT
73587 ACTA-TATT
1 A-TATTATT
73595 ATTATTATT
1 A-TATTATT
73604 ATA-TATT
1 ATATTATT
73611 ATA-TATT
1 ATATTATT
73618 AATATTATT
1 -ATATTATT
73627 ATATTA
1 ATATTA
73633 CAAATATTAA
Statistics
Matches: 73, Mismatches: 1, Indels: 10
0.87 0.01 0.12
Matches are distributed among these distances:
7 11 0.15
8 43 0.59
9 19 0.26
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.57
Consensus pattern (8 bp):
ATATTATT
Found at i:73629 original size:14 final size:14
Alignment explanation
Indices: 73546--73632 Score: 79
Period size: 14 Copynumber: 6.0 Consensus size: 14
73536 GTCCGAGTTG
73546 ATATTATTATATTA
1 ATATTATTATATTA
* *
73560 TTACTATTAT-TATA
1 ATATTATTATAT-TA
* *
73574 TTATTACTATATTA
1 ATATTATTATATTA
73588 CTATATTATTATTATTA
1 --ATATTATTA-TATTA
73605 TATATTA-TATATTA
1 -ATATTATTATATTA
73619 ATATTATTATATTA
1 ATATTATTATATTA
73633 CAAATATTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
13 7 0.11
14 32 0.52
15 3 0.05
16 14 0.23
17 5 0.08
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.57
Consensus pattern (14 bp):
ATATTATTATATTA
Found at i:74516 original size:23 final size:23
Alignment explanation
Indices: 74487--74539 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
74477 TTTAGAGAGA
74487 AGAGAGAGCTTCTCCCTCCTTTG
1 AGAGAGAGCTTCTCCCTCCTTTG
74510 AGAGAGAGCTTCTCCCTCCTTTG
1 AGAGAGAGCTTCTCCCTCCTTTG
*
74533 GGAGAGA
1 AGAGAGA
74540 AGCAAAATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
AGAGAGAGCTTCTCCCTCCTTTG
Found at i:74778 original size:2 final size:2
Alignment explanation
Indices: 74771--74806 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
74761 TAGTCACTAT
74771 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
74807 ATTACGTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:75726 original size:93 final size:92
Alignment explanation
Indices: 75458--75749 Score: 268
Period size: 91 Copynumber: 3.2 Consensus size: 92
75448 TGTCGACAGT
* * * * *
75458 ATGATGAGCTCAT-GGGGATGAGGGTCTGGGGTTGGATAAGCACATTTCACTTCTGGAACATAAT
1 ATGATGAGCTCATGGGGGATGAGGGTCTGGGGTAGAATGAGC-CAGTTCACCTCTGGAACATAAT
* *
75522 TTCCCCAAT-GAGCTGGAGGATCTGGGTG
65 GTCCCC-ATGGAGCTGGAGGATCTGAGTG
* * * * * * * * *
75550 ATGATGAGCTCATGAGTGAGGA-GGTCTGGCGCAAAATGAACCAGTTCACCTATGGAACATAGTG
1 ATGATGAGCTCATGGGGGATGAGGGTCTGGGGTAGAATGAGCCAGTTCACCTCTGGAACATAATG
* * * *
75614 TCCCCAAGAACCCGGAGGATCTGAGTG
66 TCCCCATGGAGCTGGAGGATCTGAGTG
* * * *
75641 ATGATGAGCTCATGGGGGATAAGGGTTTGGGGTAGAATGAGCCTAGTTCACCTCTAGAACATAAA
1 ATGATGAGCTCATGGGGGATGAGGGTCTGGGGTAGAATGAGCC-AGTTCACCTCTGGAACATAAT
** *
75706 GTCCCCATGGAGCTTAAGGATCT-AGGGG
65 GTCCCCATGGAGCTGGAGGATCTGA-GTG
*
75734 ATGATGTGCTCATGGG
1 ATGATGAGCTCATGGG
75750 AAGAAGGATC
Statistics
Matches: 154, Mismatches: 41, Indels: 9
0.75 0.20 0.04
Matches are distributed among these distances:
90 1 0.01
91 56 0.36
92 41 0.27
93 56 0.36
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (92 bp):
ATGATGAGCTCATGGGGGATGAGGGTCTGGGGTAGAATGAGCCAGTTCACCTCTGGAACATAATG
TCCCCATGGAGCTGGAGGATCTGAGTG
Found at i:76505 original size:3 final size:3
Alignment explanation
Indices: 76497--76591 Score: 145
Period size: 3 Copynumber: 31.0 Consensus size: 3
76487 AAATTTAAAT
**
76497 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
76545 TTA TTA TTA TTA TTA TTA TTA TTA TTA ATA TTA TATA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA -TTA TTA
76592 AATATTACAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
3 78 0.93
4 6 0.07
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:81007 original size:42 final size:42
Alignment explanation
Indices: 80959--81255 Score: 143
Period size: 42 Copynumber: 7.2 Consensus size: 42
80949 TAAAAATGTT
*
80959 GCAATAGAGTTGACATATAGCGGCGTTTTTACAACAAACGTC
1 GCAATAGAGTTGACATATAGCGGCGTTTTTACAACAAACGCC
* ** * * *
81001 GTAATAGAGGGGTAAAT-TAGCGGCGTTTATACCACAAACGCC
1 GCAATAGAGTTG-ACATATAGCGGCGTTTTTACAACAAACGCC
* * * *
81043 GCAATAGA-TTAACATATAGTGGCG-TTTTAGCCA-AAATGCC
1 GCAATAGAGTTGACATATAGCGGCGTTTTTA-CAACAAACGCC
* * * * *
81083 ACAATAGA-TCGGTAAAT-TAGCGGCGTTTATACCACAAACGCC
1 GCAATAGAGT-TG-ACATATAGCGGCGTTTTTACAACAAACGCC
* * * *
81125 GCAATAGA-TTATACATATAGTGGCATTTATT-CTTA-AAACGCC
1 GCAATAGAGTT-GACATATAGCGGCGTTT-TTAC-AACAAACGCC
** * * * * *
81167 GCAATA-TTTATAATAAATAGTGGCGTTTTTA-GACAAACGCC
1 GCAATAGAGT-TGACATATAGCGGCGTTTTTACAACAAACGCC
* * * *
81208 ACAATAGTGTTAATCA-ATAGTGGCGTTTTTACAA-AAACGCC
1 GCAATAGAGTTGA-CATATAGCGGCGTTTTTACAACAAACGCC
81249 GCAATAG
1 GCAATAG
81256 TTTTAATCAA
Statistics
Matches: 196, Mismatches: 41, Indels: 37
0.72 0.15 0.14
Matches are distributed among these distances:
40 22 0.11
41 68 0.35
42 100 0.51
43 6 0.03
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (42 bp):
GCAATAGAGTTGACATATAGCGGCGTTTTTACAACAAACGCC
Found at i:81108 original size:41 final size:41
Alignment explanation
Indices: 80976--81133 Score: 171
Period size: 42 Copynumber: 3.8 Consensus size: 41
80966 AGTTGACATA
* * * * *
80976 TAGCGGCGTTTTTACAACAAACGTCGTAATAGAGGGGTAAAT
1 TAGCGGCGTTTATACCACAAACGCCGCAATAGA-TGGTAAAT
81018 TAGCGGCGTTTATACCACAAACGCCGCAATAGAT--TAACAT
1 TAGCGGCGTTTATACCACAAACGCCGCAATAGATGGTAA-AT
* * *
81058 ATAGTGGCGTTT-TAGCCA-AAATGCCACAATAGATCGGTAAAT
1 -TAGCGGCGTTTATA-CCACAAACGCCGCAATAGAT-GGTAAAT
81100 TAGCGGCGTTTATACCACAAACGCCGCAATAGAT
1 TAGCGGCGTTTATACCACAAACGCCGCAATAGAT
81134 TATACATATA
Statistics
Matches: 97, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
39 3 0.03
40 18 0.19
41 26 0.27
42 47 0.48
43 3 0.03
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (41 bp):
TAGCGGCGTTTATACCACAAACGCCGCAATAGATGGTAAAT
Found at i:81205 original size:41 final size:40
Alignment explanation
Indices: 81160--81313 Score: 177
Period size: 41 Copynumber: 3.8 Consensus size: 40
81150 TTTATTCTTA
* *
81160 AAACGCCGCAATA-TTTATAATAAATAGTGGCGTTTTTAGAC
1 AAACGCCACAATAGTTT-TAATCAATAGTGGCGTTTTTA-AC
* *
81201 AAACGCCACAATAGTGTTAATCAATAGTGGCGTTTTTACAA
1 AAACGCCACAATAGTTTTAATCAATAGTGGCGTTTTTA-AC
* *
81242 AAACGCCGCAATAGTTTTAATCAATAATGGCGTTTTTTTAAC
1 AAACGCCACAATAGTTTTAATCAATAGTGGCG--TTTTTAAC
* *
81284 AAACGCCACAATA-ATGTAATCAATAGTGGC
1 AAACGCCACAATAGTTTTAATCAATAGTGGC
81314 ATTTATTTGT
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
41 76 0.78
42 15 0.15
43 6 0.06
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (40 bp):
AAACGCCACAATAGTTTTAATCAATAGTGGCGTTTTTAAC
Found at i:81228 original size:83 final size:83
Alignment explanation
Indices: 81116--81320 Score: 244
Period size: 83 Copynumber: 2.5 Consensus size: 83
81106 CGTTTATACC
* * *
81116 ACAAACGCCGCAATAG-ATT-ATACATATAGTGGCATTTATT-CTTAAAACGCCGCAATA-TTTA
1 ACAAACGCCACAATAGTGTTAAT-CA-ATAGTGGCATTTATTAC-AAAAACGCCGCAATAGTTT-
*
81177 TAATAAATAGTGGCG-TTTTTA
62 TAATAAATAATGGCGTTTTTTA
*
81198 GACAAACGCCACAATAGTGTTAATCAATAGTGGCGTTT-TTACAAAAACGCCGCAATAGTTTTAA
1 -ACAAACGCCACAATAGTGTTAATCAATAGTGGCATTTATTACAAAAACGCCGCAATAGTTTTAA
*
81262 TCAATAATGGCGTTTTTTTA
65 TAAATAATGGCG-TTTTTTA
*
81282 ACAAACGCCACAATAATG-TAATCAATAGTGGCATTTATT
1 ACAAACGCCACAATAGTGTTAATCAATAGTGGCATTTATT
81321 TGTATAAACG
Statistics
Matches: 107, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
82 46 0.43
83 49 0.46
84 10 0.09
85 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.32
Consensus pattern (83 bp):
ACAAACGCCACAATAGTGTTAATCAATAGTGGCATTTATTACAAAAACGCCGCAATAGTTTTAAT
AAATAATGGCGTTTTTTA
Found at i:81277 original size:82 final size:81
Alignment explanation
Indices: 81159--81313 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
81149 ATTTATTCTT
* *
81159 AAAACGCCGCAATATTTATAATAAATAGTGGCG-TTTTTAGACAAACGCCACAATAGTGTTAATC
1 AAAACGCCGCAATATTTATAATAAATAATGGCGTTTTTTA-ACAAACGCCACAATAATG-TAATC
81223 AATAGTGGCGTTTTTACA
64 AATAGTGGCGTTTTTACA
*
81241 AAAACGCCGCAATAGTTT-TAATCAATAATGGCGTTTTTTTAACAAACGCCACAATAATGTAATC
1 AAAACGCCGCAATA-TTTATAATAAATAATGGCG-TTTTTTAACAAACGCCACAATAATGTAATC
81305 AATAGTGGC
64 AATAGTGGC
81314 ATTTATTTGT
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
82 41 0.61
83 20 0.30
84 6 0.09
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (81 bp):
AAAACGCCGCAATATTTATAATAAATAATGGCGTTTTTTAACAAACGCCACAATAATGTAATCAA
TAGTGGCGTTTTTACA
Found at i:81430 original size:41 final size:41
Alignment explanation
Indices: 81385--81728 Score: 359
Period size: 41 Copynumber: 8.3 Consensus size: 41
81375 CCTAAAATCA
* *
81385 TTTAGTGGGGTTTTTATACAAACGCTGCTAAAGACTCGTAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
* * * * *
81426 TTTAGTGGCATTTTTTGTACAAACGCCGCTAAA-AATGAGTTC
1 TTTAGTGGC-GTTTTTATACAAACGCCGCTAAAGACT-CGTAC
* * * * *
81468 ATTAGTGGCGTTTTTGTACAAATGCCGCTAAAAACTAGTTA-
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCG-TAC
* *
81509 TTTAGTGGCATTTTTATACAAACGCCGCTAACGACTCGTAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
* * * *
81550 TTTAGTGGCGTTTGTGTTTACAAACGCTGCTAAAGACTTGTAA
1 TTTAGTGGCGTTT-T-TATACAAACGCCGCTAAAGACTCGTAC
* * * *
81593 TTCAGTGGCGTTTTTATATAAACGCCGCTATAGACTCATAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
* * * *
81634 TTCAATGGCGTTTTTATACAAGCGTCGCTAAAGACTCGTAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
* * **
81675 TTCAGTGGCATTTTTATACAAACGCCGCTAAAGACTTTTAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
81716 TTTAGTGGCGTTT
1 TTTAGTGGCGTTT
81729 GTAAACACAA
Statistics
Matches: 249, Mismatches: 47, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
40 2 0.01
41 177 0.71
42 36 0.14
43 34 0.14
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
Found at i:81684 original size:166 final size:166
Alignment explanation
Indices: 81385--81730 Score: 414
Period size: 166 Copynumber: 2.1 Consensus size: 166
81375 CCTAAAATCA
* * * * *
81385 TTTAGTGGGGTTT-TTATACAAACGCTGCTAAAGACTCGTACTTTAGTGGCATTTTTTGTACAAA
1 TTTAGTGGCGTTTGTTATACAAACGCTGCTAAAGACTCGTAATTCAGTGGCAGTTTTTATACAAA
* * * * * *
81449 CGCCGCTAAAAATGAGTTCATTAGTGGCGTTTTTGTACAAATGCCGCTAAAAACTAGTTATTTAG
66 CGCCGCTAAAAATCAGTACATTAATGGCGTTTTTATACAAACGCCGCTAAAAACTAGTTATTCAG
*
81514 TGGCATTTTTATACAAACGCCGCTAACGACTCGTAC
131 TGGCATTTTTATACAAACGCCGCTAAAGACTCGTAC
* * *
81550 TTTAGTGGCGTTTGTGTTTACAAACGCTGCTAAAGACTTGTAATTCAGTGGC-GTTTTTATATAA
1 TTTAGTGGCGTTTGT-TATACAAACGCTGCTAAAGACTCGTAATTCAGTGGCAGTTTTTATACAA
* * * * * *
81614 ACGCCGCTATAGACTCA-TAC-TTCAATGGCGTTTTTATACAAGCGTCGCTAAAGACTCG-TACT
65 ACGCCGCTA-AAAATCAGTACATT-AATGGCGTTTTTATACAAACGCCGCTAAAAACTAGTTA-T
**
81676 TCAGTGGCATTTTTATACAAACGCCGCTAAAGACTTTTAC
127 TCAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTAC
81716 TTTAGTGGCGTTTGT
1 TTTAGTGGCGTTTGT
81731 AAACACAAAC
Statistics
Matches: 153, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
165 16 0.10
166 101 0.66
167 36 0.24
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (166 bp):
TTTAGTGGCGTTTGTTATACAAACGCTGCTAAAGACTCGTAATTCAGTGGCAGTTTTTATACAAA
CGCCGCTAAAAATCAGTACATTAATGGCGTTTTTATACAAACGCCGCTAAAAACTAGTTATTCAG
TGGCATTTTTATACAAACGCCGCTAAAGACTCGTAC
Found at i:84680 original size:43 final size:43
Alignment explanation
Indices: 84425--84699 Score: 248
Period size: 43 Copynumber: 6.4 Consensus size: 43
84415 TATAGATATA
* ** * * *
84425 ACCTTTTGCGGCGTTTGTTTTAAAAAACGCAGCTATATA-CAAG
1 ACCTATTGCGGCGTTTG-TTGGAAAAACGCCGCTAAATATCAAC
* * * * * * *
84468 ATCTTTTGCGGCGTTTGTGGGAAAAATGCCGCAAAATCTCAAG
1 ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAAC
* * ** * * * *
84511 ACATATTGCGGTGTTTGTGTAAAAAAAAGCTGCTAAATCTCAAT
1 ACCTATTGCGGCGTTTGT-TGGAAAAACGCCGCTAAATATCAAC
*
84555 ACCTATTGCGGCGTTTG-TGGAAAAAACGCCGCTAAATCTCAAC
1 ACCTATTGCGGCGTTTGTTGG-AAAAACGCCGCTAAATATCAAC
84598 ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAAC
1 ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAAC
* * * ***
84641 ACCTATTGCAGCGTTTGTTGGACAAACGCCGCTATATATCGTT
1 ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAAC
*
84684 ACCTGTTGCGGCGTTT
1 ACCTATTGCGGCGTTT
84700 TTTGTTACCA
Statistics
Matches: 192, Mismatches: 36, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
42 14 0.07
43 142 0.74
44 36 0.19
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (43 bp):
ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAAC
Found at i:84987 original size:33 final size:33
Alignment explanation
Indices: 84935--84997 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
84925 ATTATACTAT
* *
84935 GTTGATACTTACCAATGTAATCATGTGAATTAG
1 GTTGATACTTACCAATGTAAGCATGGGAATTAG
*
84968 GTTGATACTTA-CAGGTGTAAGCATGGGAAT
1 GTTGATACTTACCA-ATGTAAGCATGGGAAT
84998 CAAGATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 2 0.08
33 24 0.92
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (33 bp):
GTTGATACTTACCAATGTAAGCATGGGAATTAG
Found at i:85465 original size:11 final size:11
Alignment explanation
Indices: 85451--85476 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
85441 AATATAAATT
85451 AATTATAGTAG
1 AATTATAGTAG
85462 AATTATAGTAG
1 AATTATAGTAG
85473 AATT
1 AATT
85477 CAACTTGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (11 bp):
AATTATAGTAG
Found at i:85896 original size:33 final size:33
Alignment explanation
Indices: 85854--85935 Score: 137
Period size: 33 Copynumber: 2.5 Consensus size: 33
85844 GCCATCAGGT
*
85854 TGATACTTACAAGTGTAATCTAGGGAATTAGTG
1 TGATACTTACAAGTGTAATCTAGGAAATTAGTG
*
85887 TGATACTTACAAGTGTAATCTTGGAAATTAGTG
1 TGATACTTACAAGTGTAATCTAGGAAATTAGTG
*
85920 TTATACTTACAAGTGT
1 TGATACTTACAAGTGT
85936 GTAATCTTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.37
Consensus pattern (33 bp):
TGATACTTACAAGTGTAATCTAGGAAATTAGTG
Found at i:85961 original size:35 final size:32
Alignment explanation
Indices: 85850--85972 Score: 133
Period size: 33 Copynumber: 3.7 Consensus size: 32
85840 CGGAGCCATC
*
85850 AGGTTGATACTTACAAGTGTAATCTAGGGAATT
1 AGGTTGATACTTACAAGTGTAATCT-TGGAATT
85883 A-GTGTGATACTTACAAGTGTAATCTTGGAAATT
1 AGGT-TGATACTTACAAGTGTAATCTTGG-AATT
*
85916 AGTGTT-ATACTTACAAGTGTGTAATCTTGAGAATA
1 AG-GTTGATACTTACAA--GTGTAATCTTG-GAATT
* *
85951 AGGTTGATACTTAAAAGCGTAA
1 AGGTTGATACTTACAAGTGTAA
85973 CATGGGAATC
Statistics
Matches: 78, Mismatches: 4, Indels: 16
0.80 0.04 0.16
Matches are distributed among these distances:
32 4 0.05
33 42 0.54
34 4 0.05
35 27 0.35
36 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (32 bp):
AGGTTGATACTTACAAGTGTAATCTTGGAATT
Found at i:87584 original size:3 final size:3
Alignment explanation
Indices: 87578--87612 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
87568 TTCAAATTAC
87578 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
87613 AAAGCTTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:90006 original size:86 final size:87
Alignment explanation
Indices: 89825--90072 Score: 439
Period size: 86 Copynumber: 2.9 Consensus size: 87
89815 AATGTTATAT
*
89825 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTATCGCTTATAT-ATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
89889 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
*
89911 CATTTAACCGGAAATATTATCAAGTGCAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
*
89976 AGCACTTATATAAT-AAA-AGG
66 AGCGCTTATATAATAAAATAGG
89996 CATTTAAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGG
1 CATTT-AACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGG
90061 TAGCGCTTATAT
65 TAGCGCTTATAT
90073 TGACCTATTT
Statistics
Matches: 155, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
85 8 0.05
86 123 0.79
87 24 0.15
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
AGCGCTTATATAATAAAATAGG
Found at i:90770 original size:196 final size:197
Alignment explanation
Indices: 90067--90774 Score: 686
Period size: 195 Copynumber: 3.6 Consensus size: 197
90057 TAGGTAGCGC
* * * * * * *
90067 TTATATTGACCTATTTTATAAGTAAACCGGTATATTTATACCGATAACATTGCAAATTTACCTAT
1 TTATGTTGACCTATTTTCTCA-TAAAACGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
90132 TACATTATAATTATCGGTTTC-ATTTTTTTGGATCGATACA---AATTGAAATGTATCGACACTT
65 TACATTATAATTATCGGTTTCGATTTTTTTGGATCGATACATTTAA-T-AAATGTATCGACACTT
* * *
90193 TATGC--GCACCTCG-TTGGAATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAAAGTGTCG
128 TATGCGTGCACCTCGTTTGGCATTCATTCTGGACAAAAGTATCGACACAAACTTAACAAGTGTCG
90255 ATACA
193 ATACA
* * *
90260 TTAT-TCAGACCTATTTTCTCATAAAACCGGTATATTCCAT--CGGGTACATTGTAAATTTACCT
1 TTATGT-TGACCTATTTTCTCATAAAA-CGGTATATT-TATACCGGTTACATTGTAAATTTACCT
* * * * * * *
90322 ATCACATTGTAATGATCGATTTCGATGTTTTTGGGATTGATACTTTTAATAAATGTATCGACACT
63 ATTACATTATAATTATCGGTTTCGAT-TTTTTTGGATCGATACATTTAATAAATGTATCGACACT
* * * * * * *
90387 TTATGTGTGCAAC-CGTTTGGCA-TCATTATGGACAAAATGTAGC-A-ACAAATTTAACAAATGC
127 TTATGCGTGCACCTCGTTTGGCATTCATTCTGGACAAAA-GTATCGACACAAACTTAACAAGTGT
*
90448 CGATACT
191 CGATACA
* * *
90455 TTATGCTGACCTATTTTTTCATAAAACGGTATATTTATACCGGTTACATTGTAAATTTACATATT
1 TTATGTTGACCTATTTTCTCATAAAACGGTATATTTATACCGGTTACATTGTAAATTTACCTATT
* * *** * * *
90520 ATA-TACAAATTTAAAAGTATCGATTTTATTGAGATCGATACTTTTAATAAATGTATCGACACTT
66 ACATTA-TAA-TTATCGGTTTCGATTTTTTTG-GATCGATACATTTAATAAATGTATCGACACTT
90584 TATGCGTGCACCTCGTTTGGGCATTCATTCTGGACAATAAGTATCGACACAAA-TTACACAAGTG
128 TATGCGTGCACCTCGTTT-GGCATTCATTCTGGACAA-AAGTATCGACACAAACTTA-ACAAGTG
90648 TCGATACA
190 TCGATACA
* * * * * *
90656 TTATGTTGACCT-GTTTCTAAT-TAACTGTTATATTTATACCGGTTGCATTGTTAATTTACCTAT
1 TTATGTTGACCTATTTTCTCATAAAAC-GGTATATTTATACCGGTTACATTGTAAATTTACCTAT
* *
90719 TACA-T-TAATTATTGGTTTCGATGTTTTTTGGGTCGATAC-TTTAGA-AAATGTATCGA
65 TACATTATAATTATCGGTTTCGAT-TTTTTTGGATCGATACATTTA-ATAAATGTATCGA
90775 TACATACTTA
Statistics
Matches: 417, Mismatches: 70, Indels: 53
0.77 0.13 0.10
Matches are distributed among these distances:
192 42 0.10
193 29 0.07
194 26 0.06
195 92 0.22
196 81 0.19
197 39 0.09
198 12 0.03
199 19 0.05
200 49 0.12
201 28 0.07
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (197 bp):
TTATGTTGACCTATTTTCTCATAAAACGGTATATTTATACCGGTTACATTGTAAATTTACCTATT
ACATTATAATTATCGGTTTCGATTTTTTTGGATCGATACATTTAATAAATGTATCGACACTTTAT
GCGTGCACCTCGTTTGGCATTCATTCTGGACAAAAGTATCGACACAAACTTAACAAGTGTCGATA
CA
Done.