Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002386.1 Hibiscus syriacus cultivar Beakdansim tig00004884_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: 101998
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:5873 original size:83 final size:84
Alignment explanation
Indices: 5765--5931 Score: 275
Period size: 83 Copynumber: 2.0 Consensus size: 84
5755 GATGAAAAAA
*
5765 GAAGGGAACAAAGTTGTTAACGATACGACGGGGATGTG-TTCTTTTTTGGTACAAGG-TTTAATT
1 GAAGGGAACAAAGTTGTTAACGATACGACGGGGATGTGTTTC-TTTTTGGTAAAAGGTTTTAATT
*
5828 TTAAAGGAGAAAGGAACTCT
65 TTAAAGGAGAAAGAAACTCT
* *
5848 GAAGGGAACAAAGTTTTTAACGATACGACGGGGCTGTGTTTCTTTTTGGTAAAAGGTTTTAATTT
1 GAAGGGAACAAAGTTGTTAACGATACGACGGGGATGTGTTTCTTTTTGGTAAAAGGTTTTAATTT
5913 TAAAGGAGAAAGAAACTCT
66 TAAAGGAGAAAGAAACTCT
5932 CTGAATAAAC
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
83 49 0.63
84 29 0.37
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (84 bp):
GAAGGGAACAAAGTTGTTAACGATACGACGGGGATGTGTTTCTTTTTGGTAAAAGGTTTTAATTT
TAAAGGAGAAAGAAACTCT
Found at i:6543 original size:48 final size:49
Alignment explanation
Indices: 6471--6566 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 49
6461 ATCGTAACCG
6471 AGTAACTATTTGGAGCAGGTTTTGATGAAGGTAACGGCAAAGGTGCTCA
1 AGTAACTATTTGGAGCAGGTTTTGATGAAGGTAACGGCAAAGGTGCTCA
* *
6520 AGTAATTA-TTGGTGCAGGTTTTGATGAAGGTAACGGCAAAGGTGCTC
1 AGTAACTATTTGGAGCAGGTTTTGATGAAGGTAACGGCAAAGGTGCTC
6567 GAGAACAACG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 38 0.84
49 7 0.16
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.28
Consensus pattern (49 bp):
AGTAACTATTTGGAGCAGGTTTTGATGAAGGTAACGGCAAAGGTGCTCA
Found at i:6917 original size:2 final size:2
Alignment explanation
Indices: 6910--6943 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6900 AAATAATCAA
6910 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6944 CAACAGATAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9178 original size:2 final size:2
Alignment explanation
Indices: 9171--9208 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
9161 ATTTAAACAA
9171 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9209 GACTAAGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10965 original size:76 final size:75
Alignment explanation
Indices: 10760--11674 Score: 1406
Period size: 76 Copynumber: 12.3 Consensus size: 75
10750 GAAATGTTGA
* * * *
10760 AAACATCATGCACTAAAGGGCTT---ATGATCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAA
1 AAACATCATGCACTGAAGGACTTACAATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
*
10822 GGTTTTTTTGG
66 GG-CTTTTTGG
* *
10833 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACA-ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
10898 AGGCTTTTTGG
65 AGGCTTTTTGG
* * **
10909 AAACATCATGCACTGCAGGACTTAC-ATTACCCTAAGGCTTTGAAAACATCAAAAAAAATCCCGA
1 AAACATCATGCACTGAAGGACTTACAATGACCCTAAGGCTTTGAAAACATC-AAAAAGCTCCCGA
10973 AGGCTTTTTGG
65 AGGCTTTTTGG
10984 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACA-ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11049 AGGCTTTTTGG
65 AGGCTTTTTGG
*
11060 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACA-ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11125 AGGCTTTTTGG
65 AGGCTTTTTGG
11136 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACA-ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11201 AGGCTTTTTGG
65 AGGCTTTTTGG
* *
11212 AAACATCATGCACTGAAGGACGTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACA-ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11276 AGGCTTTTTGG
65 AGGCTTTTTGG
* *
11287 AAACATCATGCACTGAATGACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACA-ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11351 AGGC-TTTTGG
65 AGGCTTTTTGG
*
11361 AAACATCATGCACTGAAGGACTTAC-A-GA-TCTAAGGCTTTGAAAACATC-AAAAGCTCCCGAA
1 AAACATCATGCACTGAAGGACTTACAATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
11422 GGCTTTTTGG
66 GGCTTTTTGG
11432 -AACATCATGCACTG-A--ACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAA--TCCCGA
1 AAACATCATGCACTGAAGGACTTACA-ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11491 AGGCTTTTTGG
65 AGGCTTTTTGG
*
11502 -AA-A-CATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACA-ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11564 AGGCTTTTTGG
65 AGGCTTTTTGG
11575 -AACATCATGC-CTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACA-ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11638 AGGCTTTTTGG
65 AGGCTTTTTGG
*
11649 AAACATCATGCACTGAAGGATTTACA
1 AAACATCATGCACTGAAGGACTTACA
11675 GATGTGGGAA
Statistics
Matches: 795, Mismatches: 25, Indels: 41
0.92 0.03 0.05
Matches are distributed among these distances:
67 6 0.01
68 9 0.01
69 4 0.01
70 69 0.09
71 65 0.08
72 5 0.01
73 39 0.05
74 117 0.15
75 149 0.19
76 268 0.34
77 64 0.08
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (75 bp):
AAACATCATGCACTGAAGGACTTACAATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
GGCTTTTTGG
Found at i:11062 original size:151 final size:151
Alignment explanation
Indices: 10760--11674 Score: 1478
Period size: 151 Copynumber: 6.2 Consensus size: 151
10750 GAAATGTTGA
* * * * *
10760 AAACATCATGCACTAAAGGGCTT---ATGATCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAA
1 AAACATCATGCACTGAAGGACTTACAATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAA
* * *
10822 GGTTTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAA
66 GG-CTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
10887 AAAGCTCCCGAAGGCTTTTTGG
130 AAAGCTCCCGAAGGCTTTTTGG
* * *
10909 AAACATCATGCACTGCAGGACTTAC-ATTACCCTAAGGCTTTGAAAACATCAAAAAAAATCCCGA
1 AAACATCATGCACTGAAGGACTTACAATGACCCTAAGGCTTTGAAAACATC-AAAAAGATCCCGA
10973 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
65 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
11038 AAAGCTCCCGAAGGCTTTTTGG
130 AAAGCTCCCGAAGGCTTTTTGG
11060 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACA-ATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGA
11125 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
65 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
11190 AAAGCTCCCGAAGGCTTTTTGG
130 AAAGCTCCCGAAGGCTTTTTGG
*
11212 AAACATCATGCACTGAAGGACGTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACA-ATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGA
*
11276 AGGCTTTTTGGAAACATCATGCACTGAATGACTTACAGATGACCCTAAGGCTTTGAAAACATC-A
65 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
*
11340 AAAGATCCCGAAGGC-TTTTGG
130 AAAGCTCCCGAAGGCTTTTTGG
* *
11361 AAACATCATGCACTGAAGGACTTAC-A-GA-TCTAAGGCTTTGAAAACATC-AAAAGCTCCCGAA
1 AAACATCATGCACTGAAGGACTTACAATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAA
11422 GGCTTTTTGG-AACATCATGCACTG-A--ACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
66 GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
11483 AA--TCCCGAAGGCTTTTTGG
131 AAGCTCCCGAAGGCTTTTTGG
11502 -AA-A-CATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACA-ATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGA
11564 AGGCTTTTTGG-AACATCATGC-CTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
65 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
11627 AAAGCTCCCGAAGGCTTTTTGG
130 AAAGCTCCCGAAGGCTTTTTGG
*
11649 AAACATCATGCACTGAAGGATTTACA
1 AAACATCATGCACTGAAGGACTTACA
11675 GATGTGGGAA
Statistics
Matches: 723, Mismatches: 23, Indels: 39
0.92 0.03 0.05
Matches are distributed among these distances:
138 19 0.03
139 1 0.00
140 13 0.02
141 41 0.06
142 26 0.04
143 34 0.05
144 14 0.02
145 79 0.11
146 2 0.00
147 18 0.02
148 2 0.00
149 51 0.07
150 34 0.05
151 201 0.28
152 164 0.23
153 24 0.03
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (151 bp):
AAACATCATGCACTGAAGGACTTACAATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAA
GGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
AAGCTCCCGAAGGCTTTTTGG
Found at i:11276 original size:227 final size:228
Alignment explanation
Indices: 10760--11678 Score: 1492
Period size: 227 Copynumber: 4.1 Consensus size: 228
10750 GAAATGTTGA
* * * * *
10760 AAACATCATGCACTAAAGGGCTT----ATGATCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGA
* * *
10821 AGGTTTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCA
66 AGG-CTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCA
* * *
10886 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTAC--ATTACCCTAAGGCTT
130 AAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTT
**
10949 TGAAAACATCAAAAAAAATCCCGAAGGCTTTTTGG
195 TGAAAACATC-AAAAAGCTCCCGAAGGCTTTTTGG
*
10984 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGA
11049 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
11114 AAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
131 AAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
11179 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
196 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
*
11212 AAACATCATGCACTGAAGGACGTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGA
*
11276 AGGCTTTTTGGAAACATCATGCACTGAATGACTTACAGATGACCCTAAGGCTTTGAAAACATC-A
66 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
11340 AAAGATCCCGAAGGC-TTTTGGAAACATCATGCACTGAAGGACTTACAGAT----CTAAGGCTTT
131 AAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
11400 GAAAACATC-AAAAGCTCCCGAAGGCTTTTTGG
196 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
11432 -AACATCATGCACTG-A--ACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAA-ATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGA
11491 AGGCTTTTTGG-AA-A-CATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
11553 AAAGATCCCGAAGGCTTTTTGG-AACATCATGC-CTGAAGGACTTACAGATGACCCTAAGGCTTT
131 AAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
11616 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
196 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
*
11649 AAACATCATGCACTGAAGGATTTACAGATG
1 AAACATCATGCACTGAAGGACTTACAGATG
11679 TGGGAAATAG
Statistics
Matches: 660, Mismatches: 18, Indels: 37
0.92 0.03 0.05
Matches are distributed among these distances:
212 62 0.09
213 27 0.04
214 8 0.01
215 18 0.03
216 55 0.08
217 23 0.03
218 15 0.02
219 15 0.02
220 23 0.03
221 29 0.04
224 21 0.03
225 35 0.05
226 16 0.02
227 177 0.27
228 112 0.17
229 24 0.04
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.23
Consensus pattern (228 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGA
AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
AAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
Found at i:12848 original size:54 final size:54
Alignment explanation
Indices: 12766--12921 Score: 233
Period size: 54 Copynumber: 2.9 Consensus size: 54
12756 AGAATAGCAG
* * * *
12766 GTTCGTAAAACATTTGA-CAGCTCATTCATCCTCTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACCA-CACATTCATCCTTTCTTGTGGCTTCTGCTCAGAC
*
12820 GTTCGTAAAACATTTGACCACACATTCATCCTTTCTTGTGGTTTCTGCTCAGAC
1 GTTCGTAAAACATTTGACCACACATTCATCCTTTCTTGTGGCTTCTGCTCAGAC
* *
12874 GTTCGTAAGACATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGC
1 GTTCGTAAAACATTTGACCACACATTCATCCTTTCTTGTGGCTTCTGC
12922 CAAGATTTCT
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 91 0.98
55 2 0.02
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACCACACATTCATCCTTTCTTGTGGCTTCTGCTCAGAC
Found at i:19303 original size:21 final size:21
Alignment explanation
Indices: 19262--19307 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
19252 GTATGAATGA
19262 AAAATGAAAAATGCAAATATG
1 AAAATGAAAAATGCAAATATG
**
19283 TAAAATG-AAAATGCATGTATG
1 -AAAATGAAAAATGCAAATATG
19304 AAAA
1 AAAA
19308 GATGTTTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 12 0.55
22 6 0.27
ACGTcount: A:0.59, C:0.04, G:0.15, T:0.22
Consensus pattern (21 bp):
AAAATGAAAAATGCAAATATG
Found at i:22408 original size:2 final size:2
Alignment explanation
Indices: 22401--22430 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22391 ATTTAAACAA
22401 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22431 GACTAAGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23826 original size:3 final size:3
Alignment explanation
Indices: 23818--23865 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
23808 ATTTATTTAT
*
23818 ATA ATA ATA ATA ATA ATA TATA TTA ATA ATA ATA ATA A-A ATTA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA A-TA ATA
23864 AT
1 AT
23866 TTTAATTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.82
4 5 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:23837 original size:19 final size:19
Alignment explanation
Indices: 23815--23854 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
23805 GTAATTTATT
23815 TATATAATAATAATAATAA
1 TATATAATAATAATAATAA
*
23834 TATATATTAATAATAATAA
1 TATATAATAATAATAATAA
23853 TA
1 TA
23855 AAATTAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TATATAATAATAATAATAA
Found at i:27452 original size:22 final size:22
Alignment explanation
Indices: 27421--27462 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
27411 AGGTTTGTTC
*
27421 TTTATTTAAAT-TTAACAATAAA
1 TTTATATAAATATT-ACAATAAA
27443 TTTATATAAATATTACAATA
1 TTTATATAAATATTACAATA
27463 TACTAGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTATATAAATATTACAATAAA
Found at i:31371 original size:6 final size:6
Alignment explanation
Indices: 31355--31450 Score: 92
Period size: 6 Copynumber: 15.3 Consensus size: 6
31345 TTCATTTAAA
31355 TATTA- TATTAT TATTAT TATTAT ATATTA- TATATAT ATATATAT TATTA-
1 TATTAT TATTAT TATTAT TATTAT -TATTAT TAT-TAT -TAT-TAT TATTAT
31404 TATATAT TATTA- TATATAT TATTAT ATATATAT TATTAT TATTAT TA
1 TAT-TAT TATTAT TAT-TAT TATTAT -TAT-TAT TATTAT TATTAT TA
31451 AAAAAAATTT
Statistics
Matches: 80, Mismatches: 0, Indels: 21
0.79 0.00 0.21
Matches are distributed among these distances:
5 14 0.17
6 36 0.45
7 20 0.25
8 10 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (6 bp):
TATTAT
Found at i:31374 original size:14 final size:14
Alignment explanation
Indices: 31355--31448 Score: 104
Period size: 14 Copynumber: 6.4 Consensus size: 14
31345 TTCATTTAAA
31355 TATTATATTATTAT
1 TATTATATTATTAT
31369 TA-T-TATTATATAT
1 TATTATATTAT-TAT
31382 TATATATATATATATAT
1 TAT-TATAT-TAT-TAT
31399 TATTATATATATTAT
1 TATTATAT-TATTAT
31414 TATATATATTATTA-
1 TAT-TATATTATTAT
31428 TATATATATTATTAT
1 TAT-TATATTATTAT
31443 TATTAT
1 TATTAT
31449 TAAAAAAAAT
Statistics
Matches: 73, Mismatches: 0, Indels: 14
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.08
13 6 0.08
14 19 0.26
15 15 0.21
16 17 0.23
17 10 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTATATTATTAT
Found at i:31377 original size:12 final size:13
Alignment explanation
Indices: 31354--31450 Score: 125
Period size: 12 Copynumber: 7.7 Consensus size: 13
31344 TTTCATTTAA
31354 ATATTA-TATTAT
1 ATATTATTATTAT
31366 -TATTATTATTAT
1 ATATTATTATTAT
31378 ATATTA-TATATAT
1 ATATTATTAT-TAT
31391 ATATATATTATTAT
1 ATAT-TATTATTAT
31405 ATA-TATTATTAT
1 ATATTATTATTAT
31417 ATA-TATTATTAT
1 ATATTATTATTAT
31429 ATATATATTATTAT
1 ATAT-TATTATTAT
31443 -TATTATTA
1 ATATTATTA
31451 AAAAAAATTT
Statistics
Matches: 78, Mismatches: 0, Indels: 14
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.06
12 38 0.49
13 15 0.19
14 17 0.22
15 3 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATTATTATTAT
Found at i:31387 original size:2 final size:2
Alignment explanation
Indices: 31375--31436 Score: 75
Period size: 2 Copynumber: 34.5 Consensus size: 2
31365 TTATTATTAT
31375 TA TA TA T- TA TA TA TA TA TA TA TA T- TA T- TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31413 T- TA TA TA TA T- TA T- TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
31437 TATTATTATT
Statistics
Matches: 53, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
1 7 0.13
2 46 0.87
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:32854 original size:26 final size:23
Alignment explanation
Indices: 32825--32877 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
32815 ATATAAATAT
*
32825 AATAAATAATAATTTATATTTTTTTC
1 AATAAAT--TAATTTA-ATATTTTTC
*
32851 AATAAATTATTTTAATATTTTTC
1 AATAAATTAATTTAATATTTTTC
32874 AATA
1 AATA
32878 TCGAAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.48
24 6 0.24
26 7 0.28
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
AATAAATTAATTTAATATTTTTC
Found at i:33558 original size:18 final size:20
Alignment explanation
Indices: 33535--33581 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 20
33525 TTCTTTTCAA
33535 ATTTTTTATA-TATTTAT-T
1 ATTTTTTATAGTATTTATAT
33553 A-TTTTTATAGTATTTATAT
1 ATTTTTTATAGTATTTATAT
33572 ATTTTCTTAT
1 ATTTT-TTAT
33582 TAATATTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.32
18 8 0.32
19 2 0.08
20 3 0.12
21 4 0.16
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
ATTTTTTATAGTATTTATAT
Found at i:36905 original size:15 final size:15
Alignment explanation
Indices: 36885--36916 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
36875 ATCAATACCT
36885 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
36900 TTTTGCATACATTCA
1 TTTTGCATACATGCA
36915 TT
1 TT
36917 ATTCATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:44258 original size:17 final size:17
Alignment explanation
Indices: 44238--44283 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
44228 ATTATGCTTG
*
44238 AAGAGAAAAAGAA-AAGA
1 AAGA-AAAAAAAAGAAGA
44255 AAGAAAAAAAAAGAAGA
1 AAGAAAAAAAAAGAAGA
44272 AA-AAAAAGAAAA
1 AAGAAAAA-AAAA
44284 AATGGGGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAGAAGA
Found at i:44265 original size:13 final size:13
Alignment explanation
Indices: 44244--44282 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
44234 CTTGAAGAGA
44244 AAAAGAAAAGAAAG
1 AAAA-AAAAGAAAG
44258 AAAAAAAA-AGAAG
1 AAAAAAAAGA-AAG
44271 AAAAAAAAGAAA
1 AAAAAAAAGAAA
44283 AAATGGGGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 17 0.74
14 5 0.22
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:44283 original size:9 final size:9
Alignment explanation
Indices: 44244--44285 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
44234 CTTGAAGAGA
44244 AAAAGAAAAG
1 AAAA-AAAAG
*
44254 AAAGAAAA-
1 AAAAAAAAG
*
44262 AAAAAGAAG
1 AAAAAAAAG
44271 AAAAAAAAG
1 AAAAAAAAG
44280 AAAAAA
1 AAAAAA
44286 TGGGGTCAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
8 6 0.22
9 18 0.67
10 3 0.11
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:45459 original size:93 final size:93
Alignment explanation
Indices: 45150--45526 Score: 592
Period size: 93 Copynumber: 4.0 Consensus size: 93
45140 TAGACCCAAG
*
45150 AGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATATGGTTTGATATGAACCCCAAAAAACCAAT
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGATATGAA-CCCAAAAAACCAAT
45215 CATTGAATTTGAAAGATGAATGTGCTCAT
65 CATTGAATTTGAAAGATGAATGTGCTCAT
* *
45244 AGCATCTTCTGGAAGTGTTCTTTGAGTTATATGATCTGGTTTGATATGAACCCAAAAAAAACCAA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGATATGAACCC--AAAAAACCAA
45309 TCATTGAATTTGAAAGATGAATGTGCTCAT
64 TCATTGAATTTGAAAGATGAATGTGCTCAT
* * *
45339 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAACCAATC
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGATATGAACCCAAAAAACCAATC
* *
45404 ATTAAATTTGGAAGATGAATGTGCTCAT
66 ATTGAATTTGAAAGATGAATGTGCTCAT
* * * *
45432 AGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATATGGTTTGATATGAAACCACAGAACCAATC
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGATATGAACCCAAAAAACCAATC
* * *
45497 ATTGGATTTGAAATATGAATTTGCTCAT
66 ATTGAATTTGAAAGATGAATGTGCTCAT
45525 AG
1 AG
45527 TAGAAATAAG
Statistics
Matches: 262, Mismatches: 19, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
93 123 0.47
94 48 0.18
95 91 0.35
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (93 bp):
AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGATATGAACCCAAAAAACCAATC
ATTGAATTTGAAAGATGAATGTGCTCAT
Found at i:45474 original size:188 final size:187
Alignment explanation
Indices: 45150--45526 Score: 594
Period size: 188 Copynumber: 2.0 Consensus size: 187
45140 TAGACCCAAG
*
45150 AGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATATGGTTTGATATGAACCCCAAAAAACCAAT
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGATATGAACCCCAAAAAACCAAT
* * *
45215 CATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATATGATC
66 CATTAAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTATATGATA
*
45280 TGGTTTGATATGAACCCAAAAAAAACCAATCATTGAATTTGAAAGATGAATGTGCTCAT
131 TGGTTTGATATGAAACC--AAAAAACCAATCATTGAATTTGAAAGATGAATGTGCTCAT
* * *
45339 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAA-CCCTAAAAACCAAT
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGATATGAACCCCAAAAAACCAAT
* *
45403 CATTAAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATA
66 CATTAAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTATATGATA
* * * * *
45468 TGGTTTGATATGAAACCACAGAACCAATCATTGGATTTGAAATATGAATTTGCTCAT
131 TGGTTTGATATGAAACCAAAAAACCAATCATTGAATTTGAAAGATGAATGTGCTCAT
45525 AG
1 AG
45527 TAGAAATAAG
Statistics
Matches: 173, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
186 37 0.21
188 89 0.51
189 47 0.27
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (187 bp):
AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGATATGAACCCCAAAAAACCAAT
CATTAAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTATATGATA
TGGTTTGATATGAAACCAAAAAACCAATCATTGAATTTGAAAGATGAATGTGCTCAT
Found at i:46563 original size:116 final size:113
Alignment explanation
Indices: 46318--46769 Score: 500
Period size: 113 Copynumber: 4.0 Consensus size: 113
46308 GCAAAGATTT
* * * *
46318 AAATCCATCAATTGATGGATCAGCATTACCAGATAGAGTTCATAATGAGAAGAACTCATCATCTG
1 AAATCCATCATTTGATGGATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACT--TCATCTG
* * * * *
46383 -A-AGAAGGAAGAAGTTCATAATAAGAAGAATTTGTTTAACCTTTTGTTT
64 AAGAGAAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTC
* * * * *
46431 GAATTCATCATTTGATGGATTAAAATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCATTTG
1 AAATCCATCATTTGATGGATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACT--TCATCTG
* *
46496 AAGGAGAAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGCTC
64 AA-GAGAAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTC
* * * *
46547 AAATCCATCATTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAA-TTCATCTGAA
1 AAATCCATCATTTGATGGATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTTCATCTGAA
* * * *
46611 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGTTC
66 G-AGAAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTC
* * * * *
46660 AAATTCATCACTTGTTGGATCAACATTTCCAGAG-AAAGTTCATAATGGGAAGAACTT-ATCTGA
1 AAATCCATCATTTGATGGATCAACATTTCCAG-GTAGAGTTCATAATGAGAAGAACTTCATCTGA
* * * * *
46723 AGAGGAAGAAGAAGTTCACAATGAGAAGAGCTTATTCAACCTTTTGC
65 AGAGAAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGC
46770 ATAATTCTAT
Statistics
Matches: 290, Mismatches: 43, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
112 41 0.14
113 157 0.54
114 3 0.01
115 1 0.00
116 88 0.30
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (113 bp):
AAATCCATCATTTGATGGATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTTCATCTGAA
GAGAAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTC
Found at i:46637 original size:24 final size:23
Alignment explanation
Indices: 46594--46638 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
46584 GTTCATAATG
*
46594 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
46617 AGAAGAAGTTCATAATG-AGAAG
1 AGAAGAA-TTCAT-ATGAAGAAG
46639 AACTTGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 10 0.53
25 2 0.11
ACGTcount: A:0.49, C:0.07, G:0.27, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:46894 original size:120 final size:122
Alignment explanation
Indices: 46678--47031 Score: 514
Period size: 120 Copynumber: 2.9 Consensus size: 122
46668 CACTTGTTGG
* * * *
46678 ATCAACATTTCCAGAGAAAGTTCATAATGGGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACA
1 ATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATC--AAGAAGAAGAAGAAGTTCACA
46743 ATGAGAAGAGCTTATTCAACCTTTTGCATAATTCTATCACAGAAGCAGA-TAGATTAGC
64 ATGAGAAGAGCTTATTCAACCTTTTGCATAATTCTATCACAGAAGCAGATTAGATTAGC
*** *
46801 ATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATC-ATCTGAAGAAAAAGTTCACAAT
1 ATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCAAGAAGAAGAAGAAGTTCACAAT
46865 GAGAAGAGCTTATTCAACCTTTTGCATAATTCTATCACAGAAGCAGATTAGATTAGC
66 GAGAAGAGCTTATTCAACCTTTTGCATAATTCTATCACAGAAGCAGATTAGATTAGC
* *
46922 ATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCAT
1 ATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATC--AAGAAG-AAGAAGAAGTTCAC
* * * * *
46987 AATGAGAAGAACTTATTCAATCTTTTGAATGACTCTATCACAGAA
63 AATGAGAAGAGCTTATTCAACCTTTTGCATAATTCTATCACAGAA
47032 AGAAATAGGT
Statistics
Matches: 209, Mismatches: 17, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
120 65 0.31
121 51 0.24
123 39 0.19
124 2 0.01
125 52 0.25
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (122 bp):
ATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCAAGAAGAAGAAGAAGTTCACAAT
GAGAAGAGCTTATTCAACCTTTTGCATAATTCTATCACAGAAGCAGATTAGATTAGC
Found at i:47247 original size:3 final size:3
Alignment explanation
Indices: 47234--47309 Score: 86
Period size: 3 Copynumber: 24.7 Consensus size: 3
47224 TTCATTTAAA
47234 TAT TA- TAT TAT TAT TAT TAT TAT TA- TAT ATAT ATAT ATAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT -TAT TAT TAT
47279 TAT TAT TAT ATAT ATAT TAT TAT TAT TAT TA
1 TAT TAT TAT -TAT -TAT TAT TAT TAT TAT TA
47310 AAAAAAATTT
Statistics
Matches: 68, Mismatches: 0, Indels: 10
0.87 0.00 0.13
Matches are distributed among these distances:
2 6 0.09
3 44 0.65
4 18 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:47259 original size:20 final size:22
Alignment explanation
Indices: 47234--47309 Score: 115
Period size: 20 Copynumber: 3.6 Consensus size: 22
47224 TTCATTTAAA
47234 TATTATATTATTAT-TAT-TAT
1 TATTATATTATTATATATATAT
47254 TATTATA-TA-TATATATATAT
1 TATTATATTATTATATATATAT
47274 TATTATATTATTATATATATAT
1 TATTATATTATTATATATATAT
47296 TATTATTATTATTA
1 TATTA-TATTATTA
47310 AAAAAAATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.06
19 5 0.10
20 17 0.33
21 2 0.04
22 16 0.31
23 8 0.16
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TATTATATTATTATATATATAT
Found at i:47264 original size:2 final size:2
Alignment explanation
Indices: 47257--47295 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
47247 TTATTATTAT
47257 TA TA TA TA TA TA TA TA T- TA T- TA TA T- TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47295 T
1 T
47296 TATTATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
1 4 0.12
2 29 0.88
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:48705 original size:26 final size:23
Alignment explanation
Indices: 48676--48728 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
48666 ATATAAATAT
*
48676 AATAAATAATAATTTATATTTTTTTC
1 AATAAAT--TAATTTA-ATATTTTTC
*
48702 AATAAATTATTTTAATATTTTTC
1 AATAAATTAATTTAATATTTTTC
48725 AATA
1 AATA
48729 TCGAAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.48
24 6 0.24
26 7 0.28
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
AATAAATTAATTTAATATTTTTC
Found at i:52823 original size:16 final size:16
Alignment explanation
Indices: 52802--52835 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
52792 TTACTATTCA
*
52802 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
52818 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
52834 CG
1 CG
52836 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:57359 original size:23 final size:23
Alignment explanation
Indices: 57329--57376 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
57319 CTAACACTCA
57329 ATTCAAGCTCAATATTGAGCTCG
1 ATTCAAGCTCAATATTGAGCTCG
* *
57352 ATTCAAGCTCGATATTGTGCTCG
1 ATTCAAGCTCAATATTGAGCTCG
57375 AT
1 AT
57377 ATTGAGCTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (23 bp):
ATTCAAGCTCAATATTGAGCTCG
Found at i:57375 original size:12 final size:12
Alignment explanation
Indices: 57334--57388 Score: 67
Period size: 12 Copynumber: 4.7 Consensus size: 12
57324 ACTCAATTCA
*
57334 AGCTCAATATTG
1 AGCTCGATATTG
**
57346 AGCTCGAT-TCA
1 AGCTCGATATTG
57357 AGCTCGATATTG
1 AGCTCGATATTG
*
57369 TGCTCGATATTG
1 AGCTCGATATTG
57381 AGCTCGAT
1 AGCTCGAT
57389 TCAAGCCACT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
11 9 0.26
12 26 0.74
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (12 bp):
AGCTCGATATTG
Found at i:59002 original size:7 final size:7
Alignment explanation
Indices: 58990--59103 Score: 102
Period size: 7 Copynumber: 16.3 Consensus size: 7
58980 TGGATTAAGT
58990 GTTTAGG
1 GTTTAGG
58997 GTTTAGG
1 GTTTAGG
*
59004 ATTTAGG
1 GTTTAGG
* **
59011 ATTTATA
1 GTTTAGG
59018 GTTTAGG
1 GTTTAGG
*
59025 GTTTATG
1 GTTTAGG
**
59032 ACTTAGG
1 GTTTAGG
59039 GTTTAGG
1 GTTTAGG
59046 GTTTAGG
1 GTTTAGG
*
59053 GTTTATG
1 GTTTAGG
**
59060 ACTTAGG
1 GTTTAGG
*
59067 ATTTAGG
1 GTTTAGG
*
59074 GTTTAAG
1 GTTTAGG
*
59081 GTTTAGA
1 GTTTAGG
*
59088 GTTTAGA
1 GTTTAGG
59095 GTTTAGG
1 GTTTAGG
59102 GT
1 GT
59104 GTAATCTAAC
Statistics
Matches: 85, Mismatches: 22, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 85 1.00
ACGTcount: A:0.22, C:0.02, G:0.32, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:59093 original size:28 final size:28
Alignment explanation
Indices: 58981--59085 Score: 138
Period size: 28 Copynumber: 3.8 Consensus size: 28
58971 TCACATAATT
* * * *
58981 GGATTAAGTGTTTAGGGTTTAGGATTTA
1 GGATTTAGGGTTTAGGGTTTATGACTTA
**
59009 GGATTTATAGTTTAGGGTTTATGACTTA
1 GGATTTAGGGTTTAGGGTTTATGACTTA
*
59037 GGGTTTAGGGTTTAGGGTTTATGACTTA
1 GGATTTAGGGTTTAGGGTTTATGACTTA
*
59065 GGATTTAGGGTTTAAGGTTTA
1 GGATTTAGGGTTTAGGGTTTA
59086 GAGTTTAGAG
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.23, C:0.02, G:0.31, T:0.44
Consensus pattern (28 bp):
GGATTTAGGGTTTAGGGTTTATGACTTA
Found at i:59225 original size:7 final size:7
Alignment explanation
Indices: 59174--59227 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
59164 AATTGGATTA
59174 AGGGTTT
1 AGGGTTT
*
59181 AGAGTTT
1 AGGGTTT
*
59188 ATGGTTT
1 AGGGTTT
59195 -GGGATTT
1 AGGG-TTT
*
59202 GGGGTTT
1 AGGGTTT
*
59209 AGAGTTT
1 AGGGTTT
59216 AGGGTTT
1 AGGGTTT
59223 AGGGT
1 AGGGT
59228 GTAATCTAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
6 2 0.05
7 33 0.87
8 3 0.08
ACGTcount: A:0.17, C:0.00, G:0.41, T:0.43
Consensus pattern (7 bp):
AGGGTTT
Found at i:60981 original size:32 final size:32
Alignment explanation
Indices: 60944--61018 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
60934 AAATTAATCA
*
60944 ATTTGATATTGCCTTGAATCGAAAA-TTGACTG
1 ATTTGATATTACCTTGAAT-GAAAATTTGACTG
* * *
60976 GTTTGATATTATCTTGAATTAAAATTTGACTG
1 ATTTGATATTACCTTGAATGAAAATTTGACTG
*
61008 ATCTGATATTA
1 ATTTGATATTA
61019 ATTCGAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
31 4 0.11
32 32 0.89
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (32 bp):
ATTTGATATTACCTTGAATGAAAATTTGACTG
Found at i:61030 original size:31 final size:31
Alignment explanation
Indices: 60965--61031 Score: 73
Period size: 32 Copynumber: 2.1 Consensus size: 31
60955 CCTTGAATCG
* * *
60965 AAAATTGACTGGTTTGATATTATCTTGAATT
1 AAAATTGACTGATCTGATATTATCTCGAATT
*
60996 AAAATTTGACTGATCTGATATTAAT-TCGAATA
1 AAAA-TTGACTGATCTGATATT-ATCTCGAATT
61028 AAAA
1 AAAA
61032 ATTAATCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
31 4 0.13
32 24 0.80
33 2 0.07
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.39
Consensus pattern (31 bp):
AAAATTGACTGATCTGATATTATCTCGAATT
Found at i:61539 original size:30 final size:30
Alignment explanation
Indices: 61472--61539 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
61462 AATCATAAAC
** *
61472 TGGTCACTAATTTTATCATTTGTTACAAAT
1 TGGTCACTAACGTTATCATTTGTCACAAAT
** *
61502 TAATCACTAACGTTATCGTTTGTCACAAAT
1 TGGTCACTAACGTTATCATTTGTCACAAAT
61532 TGGTCACT
1 TGGTCACT
61540 CATCGTTAAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (30 bp):
TGGTCACTAACGTTATCATTTGTCACAAAT
Found at i:62097 original size:43 final size:43
Alignment explanation
Indices: 62033--62115 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
62023 ATGTGAAAAT
*
62033 GAAAGGTTGAGAATAGAGAGATTTGGATTTGGAGAGAATTCAA
1 GAAAGGTTGAGAATAGAGAGATTTGGACTTGGAGAGAATTCAA
* *
62076 GAAAGGTTGAGAATGGGGAGATTTGGACTTGGAGAGAATT
1 GAAAGGTTGAGAATAGAGAGATTTGGACTTGGAGAGAATT
62116 AAACGATGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.36, C:0.02, G:0.36, T:0.25
Consensus pattern (43 bp):
GAAAGGTTGAGAATAGAGAGATTTGGACTTGGAGAGAATTCAA
Found at i:63706 original size:30 final size:30
Alignment explanation
Indices: 63636--63694 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
63626 ATAATGAGTG
* *
63636 ACCAATTTATAACAAACGATAATGTTAGTA
1 ACCAATTTGTAACAAACGATAACGTTAGTA
*
63666 ACCAATTTGTAACAAATGATAACGTTAGT
1 ACCAATTTGTAACAAACGATAACGTTAGT
63695 GACCTCTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.31
Consensus pattern (30 bp):
ACCAATTTGTAACAAACGATAACGTTAGTA
Found at i:68228 original size:21 final size:22
Alignment explanation
Indices: 68189--68236 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
68179 CAAAAGTTTG
68189 TAGATTTTCAGGGGAAGGACAT
1 TAGATTTTCAGGGGAAGGACAT
*
68211 TAGATTTTCA-GTGAAGGACAT
1 TAGATTTTCAGGGGAAGGACAT
*
68232 AAGAT
1 TAGAT
68237 GCTGGAATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.29
Consensus pattern (22 bp):
TAGATTTTCAGGGGAAGGACAT
Found at i:75901 original size:156 final size:158
Alignment explanation
Indices: 75648--75944 Score: 409
Period size: 156 Copynumber: 1.9 Consensus size: 158
75638 GTCTATGATT
* * *
75648 TCATTATTTCTTCAATTCCTCCTTTATTTTAAGTTTATTTTTTTACCAAATTTGAACCACATGCT
1 TCATTATTTCTTCAATTCATCATTTATTTTAAGTATATTTTTTTACCAAATTTGAACCACATGCT
* * * ** * ** *
75713 CCTAAACCATAATAGAATTCATGTGTACTTTCAATTC-CTTTTTTATAGTATTTTTTTTTATTTT
66 CCTAAACCATAACAAAATACACATGTACTTTCAATTCTCTTTTTAATAACAATTTTTTTTATTTT
* *
75777 TCAATTTAGTTATTAATTTTTCATAATA
131 TAAATGTAGTTATTAATTTTTCATAATA
* *
75805 TCATTATTTCTTCAATTCATCATTTATTTTAAGTAT-TTTTTTTATCAAATTTGAGCCACATGCT
1 TCATTATTTCTTCAATTCATCATTTATTTTAAGTATATTTTTTTACCAAATTTGAACCACATGCT
* *
75869 CCTAAACCATAGCAAAATACACATGTATTTTCAATTCTTCTTTTTAATAACAATTTTTTTTATTT
66 CCTAAACCATAACAAAATACACATGTACTTTCAATTC-TCTTTTTAATAACAATTTTTTTTATTT
75934 TTAAATGTAGT
130 TTAAATGTAGT
75945 CCTTCAATTT
Statistics
Matches: 120, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
156 56 0.47
157 33 0.28
158 31 0.26
ACGTcount: A:0.29, C:0.15, G:0.05, T:0.51
Consensus pattern (158 bp):
TCATTATTTCTTCAATTCATCATTTATTTTAAGTATATTTTTTTACCAAATTTGAACCACATGCT
CCTAAACCATAACAAAATACACATGTACTTTCAATTCTCTTTTTAATAACAATTTTTTTTATTTT
TAAATGTAGTTATTAATTTTTCATAATA
Found at i:84156 original size:19 final size:19
Alignment explanation
Indices: 84132--84169 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
84122 GCGATTTTGA
*
84132 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGAGAGTT
84151 AAAATGTGTTGCGAGAGTT
1 AAAATGTGTTGCGAGAGTT
84170 TGAAAAACGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (19 bp):
AAAATGTGTTGCGAGAGTT
Found at i:84721 original size:53 final size:53
Alignment explanation
Indices: 84641--84914 Score: 329
Period size: 53 Copynumber: 5.0 Consensus size: 53
84631 CGACTATCGC
*
84641 AACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCACAACGCGAACTTCG
1 AACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCG
*
84694 AACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAATGCGAACTTCGACTATCG
1 AACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCG-A-----ACT-TCG
84754 CAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCG
1 -AACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCG
* * *
84808 AACGTGAACTTGGACTATCGCAACGAATTTGAAAAATCGCAACTCGAACTTGG
1 AACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCG
* * *
84861 ACTATCGCAATGAATTTGGACTAACG-TA--AATTTGGAAAATCGCAACGCGAACTT
1 A--A-CG---TGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTT
84915 GGACTATCGC
Statistics
Matches: 196, Mismatches: 11, Indels: 25
0.84 0.05 0.11
Matches are distributed among these distances:
53 95 0.48
54 4 0.02
55 4 0.02
56 26 0.13
58 1 0.01
59 17 0.09
60 4 0.02
61 45 0.23
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.23
Consensus pattern (53 bp):
AACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCG
Found at i:84753 original size:21 final size:20
Alignment explanation
Indices: 84615--84926 Score: 121
Period size: 21 Copynumber: 16.4 Consensus size: 20
84605 ATTTTAAAAA
*
84615 ATCGCAACGCGAACTTCGACT
1 ATCGCAA-GCGAACTTGGACT
*
84636 ATCGCAACGTGAACTTGGACT
1 ATCGCAA-GCGAACTTGGACT
* **
84657 ATCGCAA-CGAATTTGGAAA
1 ATCGCAAGCGAACTTGGACT
* *
84676 ATCACAA-CG--C--GAACT
1 ATCGCAAGCGAACTTGGACT
*
84691 -TCG-AACGTGAACTTGGACT
1 ATCGCAA-GCGAACTTGGACT
* **
84710 ATCGCAA-CGAATTTGGAAA
1 ATCGCAAGCGAACTTGGACT
*
84729 ATCGCAATGCGAACTTCGACT
1 ATCGCAA-GCGAACTTGGACT
*
84750 ATCGCAACGTGAACTTGGACT
1 ATCGCAA-GCGAACTTGGACT
* **
84771 ATCGCAA-CGAATTTGGAAA
1 ATCGCAAGCGAACTTGGACT
*
84790 ATCGCAA-CG--C--GAACT
1 ATCGCAAGCGAACTTGGACT
*
84805 -TCG-AACGTGAACTTGGACT
1 ATCGCAA-GCGAACTTGGACT
* * **
84824 ATCGCAA-CGAATTTGAAAA
1 ATCGCAAGCGAACTTGGACT
*
84843 ATCGCAACTCGAACTTGGACT
1 ATCGCAA-GCGAACTTGGACT
* *
84864 ATCGCAA-TGAATTTGGACT
1 ATCGCAAGCGAACTTGGACT
* * * **
84883 AACG-TA---AATTTGGAAA
1 ATCGCAAGCGAACTTGGACT
84899 ATCGCAACGCGAACTTGGACT
1 ATCGCAA-GCGAACTTGGACT
84920 ATCGCAA
1 ATCGCAA
84927 AATCGCGTTG
Statistics
Matches: 211, Mismatches: 55, Indels: 50
0.67 0.17 0.16
Matches are distributed among these distances:
13 4 0.02
14 5 0.02
15 6 0.03
16 11 0.05
17 3 0.01
18 1 0.00
19 83 0.39
20 6 0.03
21 92 0.44
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (20 bp):
ATCGCAAGCGAACTTGGACT
Found at i:84812 original size:114 final size:114
Alignment explanation
Indices: 84611--84914 Score: 494
Period size: 114 Copynumber: 2.7 Consensus size: 114
84601 TGCGATTTTA
*
84611 AAAAATCGCAACGCGAACTTCGACTATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAA
1 AAAAATCGCAATGCGAACTTCGACTATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAA
*
84676 ATCACAACGCGAACTTCGAACGTGAACTTGGACTATCGCAACGAATTTG
66 ATCGCAACGCGAACTTCGAACGTGAACTTGGACTATCGCAACGAATTTG
*
84725 GAAAATCGCAATGCGAACTTCGACTATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAA
1 AAAAATCGCAATGCGAACTTCGACTATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAA
84790 ATCGCAACGCGAACTTCGAACGTGAACTTGGACTATCGCAACGAATTTG
66 ATCGCAACGCGAACTTCGAACGTGAACTTGGACTATCGCAACGAATTTG
* * * *
84839 AAAAATCGCAACT-CGAACTTGGACTATCGCAA--TGAATTTGGACTAACG-TA--AATTTGGAA
1 AAAAATCGCAA-TGCGAACTTCGACTATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAA
84898 AATCGCAACGCGAACTT
65 AATCGCAACGCGAACTT
84915 GGACTATCGC
Statistics
Matches: 181, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
109 26 0.14
111 1 0.01
112 14 0.08
114 139 0.77
115 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (114 bp):
AAAAATCGCAATGCGAACTTCGACTATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAA
ATCGCAACGCGAACTTCGAACGTGAACTTGGACTATCGCAACGAATTTG
Found at i:84868 original size:40 final size:39
Alignment explanation
Indices: 84699--84880 Score: 155
Period size: 40 Copynumber: 4.7 Consensus size: 39
84689 CTTCGAACGT
84699 GAACTTGGACTATCGCAACGAATTTGGAAAATCGCAATGC
1 GAACTTGGACTATCGCAACGAATTTGGAAAATCGCAAT-C
* * **
84739 GAACTTCGACTATCGCAACGTGAACTTGGACTATCGCAA-C
1 GAACTTGGACTATCGCAAC--GAATTTGGAAAATCGCAATC
* ** * *
84779 GAATTTGGAAAATCGCAACGCGAACTTCG--AA-CG---T-
1 GAACTTGGACTATCGCAA--CGAATTTGGAAAATCGCAATC
*
84813 GAACTTGGACTATCGCAACGAATTTGAAAAATCGCAACTC
1 GAACTTGGACTATCGCAACGAATTTGGAAAATCGCAA-TC
*
84853 GAACTTGGACTATCGCAATGAATTTGGA
1 GAACTTGGACTATCGCAACGAATTTGGA
84881 CTAACGTAAA
Statistics
Matches: 111, Mismatches: 18, Indels: 26
0.72 0.12 0.17
Matches are distributed among these distances:
32 6 0.05
34 17 0.15
35 2 0.02
37 2 0.02
38 1 0.01
39 1 0.01
40 66 0.59
42 16 0.14
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (39 bp):
GAACTTGGACTATCGCAACGAATTTGGAAAATCGCAATC
Found at i:90197 original size:33 final size:32
Alignment explanation
Indices: 90137--90198 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
90127 GATGAATTTT
** *
90137 TCGCAGAGGCAAGCTTGGGGGAGAAGAAGATA
1 TCGCAGAGGCAAGCTACGGGGAAAAGAAGATA
90169 TCGCAGAGGCAAGCTCACGGGGAAAAGAAG
1 TCGCAGAGGCAAGCT-ACGGGGAAAAGAAG
90199 GGTATTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 15 0.58
33 11 0.42
ACGTcount: A:0.35, C:0.16, G:0.39, T:0.10
Consensus pattern (32 bp):
TCGCAGAGGCAAGCTACGGGGAAAAGAAGATA
Found at i:91142 original size:20 final size:20
Alignment explanation
Indices: 91117--91156 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
91107 ATCTCATATC
*
91117 GGATCTAGACGTTGCAATCA
1 GGATCTAGACGTTACAATCA
*
91137 GGATCTAGATGTTACAATCA
1 GGATCTAGACGTTACAATCA
91157 AGTTATAACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (20 bp):
GGATCTAGACGTTACAATCA
Found at i:96059 original size:26 final size:24
Alignment explanation
Indices: 96029--96096 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
96019 AATCATTCAA
96029 ACAAACCAAATATTCAAAATAAAC
1 ACAAACCAAATATTCAAAATAAAC
* * *
96053 AATCAAACTAAATA-TCCAAACAAAC
1 -A-CAAACCAAATATTCAAAATAAAC
*
96078 A-AAGCCAAATATTCAAAAT
1 ACAAACCAAATATTCAAAAT
96097 GTTTAAACAC
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
22 8 0.24
23 5 0.15
24 1 0.03
25 10 0.29
26 10 0.29
ACGTcount: A:0.60, C:0.21, G:0.01, T:0.18
Consensus pattern (24 bp):
ACAAACCAAATATTCAAAATAAAC
Found at i:96073 original size:21 final size:22
Alignment explanation
Indices: 96049--96094 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
96039 TATTCAAAAT
* *
96049 AAACAATCAAA-CTAAATATCC
1 AAACAAACAAAGCCAAATATCC
*
96070 AAACAAACAAAGCCAAATATTC
1 AAACAAACAAAGCCAAATATCC
96092 AAA
1 AAA
96095 ATGTTTAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.61, C:0.22, G:0.02, T:0.15
Consensus pattern (22 bp):
AAACAAACAAAGCCAAATATCC
Found at i:97859 original size:38 final size:38
Alignment explanation
Indices: 97808--97885 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
97798 CCTTGAAAAG
97808 TTTCGGATTGAGTGGAATGTAGTGATGATTGCAGGATT
1 TTTCGGATTGAGTGGAATGTAGTGATGATTGCAGGATT
97846 TTTCGGATTGAGTGGAATGTAGTGATGATTGCAGGATT
1 TTTCGGATTGAGTGGAATGTAGTGATGATTGCAGGATT
97884 TT
1 TT
97886 GTTGATGCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.23, C:0.05, G:0.33, T:0.38
Consensus pattern (38 bp):
TTTCGGATTGAGTGGAATGTAGTGATGATTGCAGGATT
Found at i:98176 original size:44 final size:44
Alignment explanation
Indices: 98064--98176 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 44
98054 AGTGTATCGA
* * * **
98064 TGCACTGT-ATAGTGTATCGATGCACATTCAAGGAATGTATTGG
1 TGCACTGTCATAGTGTATCGATGCATATTCAAAGAATGCATCAG
98107 TGCATCT-TCATAGTGTATCGATGCATATTCAAA-AGATGCATCAG
1 TGCA-CTGTCATAGTGTATCGATGCATATTCAAAGA-ATGCATCAG
98151 TGCACTGTCATAGTGTATCGATGCAT
1 TGCACTGTCATAGTGTATCGATGCAT
98177 TGCGCATAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
43 8 0.13
44 53 0.87
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (44 bp):
TGCACTGTCATAGTGTATCGATGCATATTCAAAGAATGCATCAG
Done.