Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008013.1 Hibiscus syriacus cultivar Beakdansim tig00110478_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: 1461402
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:8257 original size:7 final size:7
Alignment explanation
Indices: 8245--8305 Score: 86
Period size: 7 Copynumber: 8.7 Consensus size: 7
8235 ACACAGAACT
*
8245 GCCTATG
1 GCCTATA
*
8252 GCCTATG
1 GCCTATA
* *
8259 GACTATG
1 GCCTATA
8266 GCCTATA
1 GCCTATA
8273 GCCTATA
1 GCCTATA
8280 GCCTATA
1 GCCTATA
8287 GCCTATA
1 GCCTATA
8294 GCCTATA
1 GCCTATA
8301 GCCTA
1 GCCTA
8306 CAGGTGGTGG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 51 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (7 bp):
GCCTATA
Found at i:27299 original size:20 final size:19
Alignment explanation
Indices: 27249--27304 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
27239 AACCAATAAT
27249 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
*
27268 GATGAAAA-AAAATGAAATTG
1 AAT-AAAATAAAAT-AAATTG
27288 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
27305 GAAGATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 15 0.48
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:27448 original size:24 final size:24
Alignment explanation
Indices: 27401--27537 Score: 83
Period size: 24 Copynumber: 5.7 Consensus size: 24
27391 ATATAATGAA
*
27401 AATAAATAAATAGTATAAAT-AAAAT
1 AATAAA-AAATA-TATATATAAAAAT
27426 AATAAAAAATATATATATAAAAAT
1 AATAAAAAATATATATATAAAAAT
* *
27450 -AT-AAAAATATATGTAT-AATAT
1 AATAAAAAATATATATATAAAAAT
* *
27471 AAT--AAAATACTAAATAGTAATAAT
1 AATAAAAAATA-TATATA-TAAAAAT
27495 AATAATAATAATA-ATA-ATAATAAAT
1 AATAA-AA-AATATATATATAA-AAAT
* *
27520 AAATGAAAAATAAATATA
1 -AATAAAAAATATATATA
27538 CATATAATAT
Statistics
Matches: 89, Mismatches: 10, Indels: 25
0.72 0.08 0.20
Matches are distributed among these distances:
21 10 0.11
22 19 0.21
23 9 0.10
24 23 0.26
25 15 0.17
26 7 0.08
27 2 0.02
28 4 0.04
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (24 bp):
AATAAAAAATATATATATAAAAAT
Found at i:27475 original size:22 final size:21
Alignment explanation
Indices: 27386--27520 Score: 79
Period size: 22 Copynumber: 6.4 Consensus size: 21
27376 GCAAAGAAAC
27386 TAAAAATATA-ATGA-AAATAA
1 TAAAAATATATAT-ATAAATAA
* *
27406 -ATAAATAGTATAAATAAAATAA
1 TAAAAATA-TATATAT-AAATAA
*
27428 TAAAAAATATATATATAAAAATA
1 T-AAAAATATATATATAAATA-A
*
27451 TAAAAATATATGTATAATATAA
1 TAAAAATATATATATAA-ATAA
*
27473 T-AAAATACTAAATAGT-AATAA
1 TAAAAATA-TATATA-TAAATAA
*
27494 TAATAATA-ATA-AT-AATAA
1 TAAAAATATATATATAAATAA
27512 TAATAAATA
1 TAA-AAATA
27521 AATGAAAAAT
Statistics
Matches: 91, Mismatches: 12, Indels: 25
0.71 0.09 0.20
Matches are distributed among these distances:
18 9 0.10
19 11 0.12
20 5 0.05
21 12 0.13
22 37 0.41
23 11 0.12
24 6 0.07
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (21 bp):
TAAAAATATATATATAAATAA
Found at i:27478 original size:29 final size:25
Alignment explanation
Indices: 27391--27484 Score: 72
Period size: 24 Copynumber: 3.7 Consensus size: 25
27381 GAAACTAAAA
* *
27391 ATATAATGAAAATA-AATAAATA-GT
1 ATATAAT-AAAATATAAAAAATATAT
27415 ATA-AATAAAATAATAAAAAATATAT
1 ATATAATAAAAT-ATAAAAAATATAT
27440 ATAT-A-AAAATATAAAAATATATGTAT
1 ATATAATAAAATATAAAAA-ATA--TAT
27466 AATATAATAAAATACTAAA
1 -ATATAATAAAATA-TAAA
27485 TAGTAATAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
22 5 0.09
23 11 0.19
24 18 0.32
25 5 0.09
26 3 0.05
27 4 0.07
28 1 0.02
29 6 0.11
30 4 0.07
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (25 bp):
ATATAATAAAATATAAAAAATATAT
Found at i:27494 original size:3 final size:3
Alignment explanation
Indices: 27418--27517 Score: 68
Period size: 3 Copynumber: 33.7 Consensus size: 3
27408 AAATAGTATA
* *
27418 AAT AA- AAT AAT AA- AA- AAT ATAT ATAT AAA AAT -AT AAA AAT ATAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT AAT AAT AAT A-AT
* * *
27462 GTAT AAT -AT AAT AA- AAT ACT AAAT AGT AAT AAT AAT AAT AAT AAT
1 -AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
27507 AAT AAT AAT AA
1 AAT AAT AAT AA
27518 ATAAATGAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
2 12 0.15
3 53 0.68
4 13 0.17
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:27637 original size:13 final size:13
Alignment explanation
Indices: 27619--27644 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27609 TAACGTTAGG
27619 AAAATATAGTAAA
1 AAAATATAGTAAA
27632 AAAATATAGTAAA
1 AAAATATAGTAAA
27645 TAAGTAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (13 bp):
AAAATATAGTAAA
Found at i:27769 original size:15 final size:16
Alignment explanation
Indices: 27746--27795 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 16
27736 AAAAAATTAT
*
27746 AACAAATAAATAAATA
1 AACATATAAATAAATA
*
27762 AA-ATATAATTAAATA
1 AACATATAAATAAATA
27777 TATACATATAAAT-AATA
1 -A-ACATATAAATAAATA
27794 AA
1 AA
27796 GGTTAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
15 12 0.43
16 4 0.14
17 5 0.18
18 7 0.25
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (16 bp):
AACATATAAATAAATA
Found at i:28279 original size:37 final size:37
Alignment explanation
Indices: 28186--28287 Score: 123
Period size: 37 Copynumber: 2.8 Consensus size: 37
28176 ATGTTTGTGG
* * ** * * *
28186 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTAT
* *
28223 ATCATATTTTTAGGAGTTTGAATCCTAGCAAAATTAT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTAT
28260 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
28288 TAGGACGAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTAT
Found at i:29224 original size:106 final size:106
Alignment explanation
Indices: 29039--30207 Score: 1790
Period size: 106 Copynumber: 11.0 Consensus size: 106
29029 AGCATTGTTC
* * * *
29039 CGAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTGTTTGTTGAC
1 CGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGAC
* * *
29103 AACCAGTC-GTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCT
65 AACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
29145 CGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
29210 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
29251 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTATGAAATTGAGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
29316 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
29357 GGAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
29422 ACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
29463 -GTAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGATA-TTGTTTGTTGA
1 CG-AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGA-AGTTGTTTGTTGA
29526 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
64 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
29569 CGAGTCCAATATTCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
29634 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
29675 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
29740 ACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
29781 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * *
29846 ACCAGTGGTCCCTTCGTCATGAAGTTGAACTTGCATTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
29887 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTG--A
* *
29952 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAAGTTGTGTTGTCT
64 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
29995 AGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGGTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
30060 ACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
30101 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATTTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * *
30166 ACCAGTC-GTCCCTTCATTGTGAAGTTGAACTTGTGTTATCT
66 ACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
30207 C
1 C
30208 TAGTGGCACG
Statistics
Matches: 986, Mismatches: 68, Indels: 18
0.92 0.06 0.02
Matches are distributed among these distances:
105 3 0.00
106 886 0.90
107 3 0.00
108 94 0.10
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:31199 original size:22 final size:22
Alignment explanation
Indices: 31173--31228 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
31163 TTGTGTTTGG
*
31173 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
31195 TCAAAGGTTTGACATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
31217 TCAAAGGTTTGA
1 TCAAAGGTTTGA
31229 TGGGGTAGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGACATTTGATGC
Found at i:31847 original size:23 final size:20
Alignment explanation
Indices: 31821--31867 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 20
31811 TGCATGTGCT
31821 TTTTTGTCCCTTTTTCTTTTTG
1 TTTTTGT-CCTTTTT-TTTTTG
*
31843 ATTTTTGTTCTTTTTTTTTTG
1 -TTTTTGTCCTTTTTTTTTTG
31864 TTTT
1 TTTT
31868 CTTCTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 6 0.26
22 6 0.26
23 7 0.30
ACGTcount: A:0.02, C:0.11, G:0.09, T:0.79
Consensus pattern (20 bp):
TTTTTGTCCTTTTTTTTTTG
Found at i:31853 original size:16 final size:14
Alignment explanation
Indices: 31834--31896 Score: 65
Period size: 16 Copynumber: 4.1 Consensus size: 14
31824 TTGTCCCTTT
31834 TTCTTTTTGATTTTTG
1 TTCTTTTT--TTTTTG
31850 TTCTTTTTTTTTTG
1 TTCTTTTTTTTTTG
31864 TT-TTCTTCTTTTTTG
1 TTCTT-TT-TTTTTTG
31879 CTTCTTTTCTTTTTTG
1 -TTCTTTT-TTTTTTG
31895 TT
1 TT
31897 TTTGCCCTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.05
14 10 0.23
15 9 0.21
16 20 0.47
17 2 0.05
ACGTcount: A:0.02, C:0.11, G:0.08, T:0.79
Consensus pattern (14 bp):
TTCTTTTTTTTTTG
Found at i:31867 original size:19 final size:20
Alignment explanation
Indices: 31830--31877 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
31820 TTTTTTGTCC
*
31830 CTTTTTCTTTTTGATTTTTGTT
1 CTTTTT-TTTTTGA-TTTTCTT
31852 CTTTTTTTTTTG-TTTTCTT
1 CTTTTTTTTTTGATTTTCTT
31871 CTTTTTT
1 CTTTTTT
31878 GCTTCTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 13 0.52
21 6 0.24
22 6 0.24
ACGTcount: A:0.02, C:0.10, G:0.06, T:0.81
Consensus pattern (20 bp):
CTTTTTTTTTTGATTTTCTT
Found at i:31886 original size:19 final size:19
Alignment explanation
Indices: 31845--31893 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
31835 TCTTTTTGAT
* ** *
31845 TTTTGTTCTTTTTTTTTTG
1 TTTTCTTCTTTTTTGCTTC
31864 TTTTCTTCTTTTTTGCTTC
1 TTTTCTTCTTTTTTGCTTC
31883 TTTTCTT-TTTT
1 TTTTCTTCTTTT
31894 GTTTTTGCCC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (19 bp):
TTTTCTTCTTTTTTGCTTC
Found at i:35376 original size:20 final size:20
Alignment explanation
Indices: 35351--35396 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
35341 TCGAGATCTC
35351 CTTGCCGGTGCCCCCTTGGG
1 CTTGCCGGTGCCCCCTTGGG
*
35371 CTTGCCGGTGCCCTCTTGGG
1 CTTGCCGGTGCCCCCTTGGG
35391 CTTGCC
1 CTTGCC
35397 AGACCCTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.00, C:0.39, G:0.33, T:0.28
Consensus pattern (20 bp):
CTTGCCGGTGCCCCCTTGGG
Found at i:36261 original size:20 final size:19
Alignment explanation
Indices: 36211--36266 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
36201 AAGCAATAAT
36211 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
*
36230 GATGAAAA-AAAATGAAATTG
1 AAT-AAAATAAAAT-AAATTG
36250 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
36267 GAAGATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 15 0.48
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:36372 original size:26 final size:25
Alignment explanation
Indices: 36318--36378 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
36308 GTGTTTTTTT
*
36318 TAAAAAATAAAAATAATAATAAGAG
1 TAAAAAATAAAAATAATAATAAGAA
36343 TAAAGAAACTAAAAAT-ATAATGAA-AA
1 TAAA-AAA-TAAAAATAATAAT-AAGAA
36369 TAAATAAATA
1 TAAA-AAATA
36379 GTATAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 6 0.19
26 16 0.52
27 9 0.29
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (25 bp):
TAAAAAATAAAAATAATAATAAGAA
Found at i:36395 original size:17 final size:16
Alignment explanation
Indices: 36366--36490 Score: 59
Period size: 16 Copynumber: 7.9 Consensus size: 16
36356 AATATAATGA
36366 AAATAAATAAATAGTAT
1 AAATAAATAAATA-TAT
36383 AAATAAA-ATAATATAT
1 AAATAAATA-AATATAT
* * *
36399 ATATATATATATATAT
1 AAATAAATAAATATAT
* ** *
36415 ATATAAATGTATGTAT
1 AAATAAATAAATATAT
36431 -AATATAATAAA-ATATT
1 AAATA-AATAAATATA-T
36447 AAATAGTAAT-AATA-AT
1 AAATA--AATAAATATAT
*
36463 -AAT-AATAAATAAAT
1 AAATAAATAAATATAT
*
36477 GAA-AAATAAATATA
1 AAATAAATAAATATA
36491 CATATAATAT
Statistics
Matches: 86, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
12 3 0.03
13 4 0.05
14 2 0.02
15 19 0.22
16 34 0.40
17 19 0.22
18 5 0.06
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (16 bp):
AAATAAATAAATATAT
Found at i:36400 original size:2 final size:2
Alignment explanation
Indices: 36393--36419 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36383 AAATAAAATA
36393 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
36420 AATGTATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36405 original size:22 final size:22
Alignment explanation
Indices: 36352--36405 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
36342 GTAAAGAAAC
*
36352 TAAAAATAT-AATGAAAATAAA
1 TAAATATATAAATGAAAATAAA
36373 TAAATAGTATAAAT-AAAATAATA
1 TAAATA-TATAAATGAAAATAA-A
*
36396 TATATATATA
1 TAAATATATA
36406 TATATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 5 0.18
22 14 0.50
23 9 0.32
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (22 bp):
TAAATATATAAATGAAAATAAA
Found at i:36475 original size:26 final size:23
Alignment explanation
Indices: 36430--36476 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 23
36420 AATGTATGTA
*
36430 TAATATAATAAAATATTAAATAG
1 TAATATAATAAAATAATAAATAG
36453 TAATAATAATAATAATAAATAAAT
1 TAAT-ATAATAA-AAT-AATAAAT
36477 GAAAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 7 0.35
25 3 0.15
26 6 0.30
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
TAATATAATAAAATAATAAATAG
Found at i:36642 original size:13 final size:11
Alignment explanation
Indices: 36615--36663 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
36605 ATAGATAAAA
36615 ATAATAATAAT
1 ATAATAATAAT
36626 ATAATATATATAT
1 ATAATA-ATA-AT
36639 ATAATAATAA-
1 ATAATAATAAT
36649 A-AA-AATAAT
1 ATAATAATAAT
36658 ATAATA
1 ATAATA
36664 TAACGCAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
8 5 0.15
9 3 0.09
10 3 0.09
11 8 0.24
12 6 0.18
13 8 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:36666 original size:21 final size:24
Alignment explanation
Indices: 36615--36666 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
36605 ATAGATAAAA
* *
36615 ATAATAATAATATAATATATATAT
1 ATAATAATAAAAAAATATATATAT
36639 ATAATAATAAAAAAATA-ATATAAT
1 ATAATAATAAAAAAATATATAT-AT
36663 ATAA
1 ATAA
36667 CGCAAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
ATAATAATAAAAAAATATATATAT
Found at i:36712 original size:23 final size:23
Alignment explanation
Indices: 36686--36732 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
36676 AAATGAACAA
36686 AAAATTATAA-CAAATAAATAAAT
1 AAAA-TATAATCAAATAAATAAAT
* *
36709 AAAATATAATTAAATATATAAAT
1 AAAATATAATCAAATAAATAAAT
36732 A
1 A
36733 TATATACATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
AAAATATAATCAAATAAATAAAT
Found at i:37191 original size:37 final size:37
Alignment explanation
Indices: 37150--37238 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 37
37140 GGATCCTATC
* *
37150 TTTAAGAGTTTAAATAATAGTAGAATTCTATCATATT
1 TTTAAGAGTTTAAATAATAATAAAATTCTATCATATT
* ** * *
37187 TTTAAGAGTTTGAATCCTAATAAAATTTTATCCTATT
1 TTTAAGAGTTTAAATAATAATAAAATTCTATCATATT
*
37224 TTTAAGAATTTAAAT
1 TTTAAGAGTTTAAAT
37239 TTTAGTAGGA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (37 bp):
TTTAAGAGTTTAAATAATAATAAAATTCTATCATATT
Found at i:37425 original size:3 final size:3
Alignment explanation
Indices: 37417--37481 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
37407 ATTTCTCCAA
37417 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
37465 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
37482 CAATTATAGT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:37552 original size:13 final size:14
Alignment explanation
Indices: 37521--37553 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
37511 AGGATATATC
37521 AAAATATTGTTTTT
1 AAAATATTGTTTTT
37535 AAAATATT-TTTTT
1 AAAATATTGTTTTT
*
37548 GAAATA
1 AAAATA
37554 ATTTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
AAAATATTGTTTTT
Found at i:42475 original size:19 final size:20
Alignment explanation
Indices: 42448--42485 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
42438 ATTTTTTTTT
*
42448 AATTTTCATATCA-ACATTA
1 AATTATCATATCACACATTA
42467 AATTATCATATCACACATT
1 AATTATCATATCACACATT
42486 TTCAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (20 bp):
AATTATCATATCACACATTA
Found at i:49672 original size:12 final size:12
Alignment explanation
Indices: 49655--49686 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
49645 TTATGTTCCT
49655 AGGAAAGGATAG
1 AGGAAAGGATAG
*
49667 AGGAAAAGATAG
1 AGGAAAGGATAG
49679 AGGAAAGG
1 AGGAAAGG
49687 TTGGCAGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.41, T:0.06
Consensus pattern (12 bp):
AGGAAAGGATAG
Found at i:50597 original size:23 final size:23
Alignment explanation
Indices: 50535--50607 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 23
50525 ATACTTTACA
* * *
50535 ATATAACCACTACCTATTATATT
1 ATATAAACGCTACCTATTACATT
* *
50558 ATATAAACGATATCTATTACATT
1 ATATAAACGCTACCTATTACATT
** *
50581 ATATAAGTGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
50604 ATAT
1 ATAT
50608 TTTTACCTAT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:50991 original size:21 final size:22
Alignment explanation
Indices: 50966--51017 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
50956 ATACTTTACA
*
50966 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
50989 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
51012 ATATAA
1 ATATAA
51018 GCGCTACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:51002 original size:23 final size:23
Alignment explanation
Indices: 50976--51038 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
50966 ATATAACCAC
50976 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
50999 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
* *
51022 TACATATTACATCATAT
1 TACCTATTACATTATAT
51039 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:51322 original size:432 final size:431
Alignment explanation
Indices: 50344--52098 Score: 3186
Period size: 432 Copynumber: 4.1 Consensus size: 431
50334 GTAAAAAATA
* *
50344 ATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATAGTAACGTAAAAAAT
1 ATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAT
50409 AAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAA
66 AAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAA
* *
50474 TTAATGTTTTCCACAGTAAAAAAAGTATGGACACTTTTATAAAAATGATAGATACTTTACAATAT
131 TTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATAT
* *
50539 AACCACTACCTATTATATTATATAAACGATATC-TATTACATTATATAAGTGCTACCTATTACAT
196 AACCACTACCTATTACATTATATAAACGATA-CATATTACATTATATAAGCGCTACCTATTACAT
* *
50603 CATATTTTTACCTATTATATTGAAAGTGTTCATACTTTTTATAAAAATGATCGATACTTCTTTTA
260 CATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTA
50668 AAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAA
325 AAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAA
50733 TTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTG
390 TTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTG
*
50775 ATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCATAACGTAAAAAAT
1 ATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAT
*
50840 AAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACCTTAAA
66 AAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAA
* *
50905 TTAATGTTTTACACAGTGAAAAAAGTATGGACACTTTTATAAAAATGATAGATACTTTACAATAT
131 TTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATAT
* *
50970 AACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACATATTACATC
196 AACCACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTACATC
*
51035 ATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAA
261 ATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTT-A
* *
51100 AAGTTATGTAATTTATGTTTCAATTTTTTTTCATAGTATTTCATGTTTTCCACCTACAATATTAA
325 AAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAA
51165 TTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTG
390 TTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTG
**
51207 ATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAACC
1 ATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAT
*
51272 AAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACCTTAAA
66 AAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAA
51337 TTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATAT
131 TTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATAT
51402 AACCACTACCTATTACATTATATAAACGATACATATTACATTATA-AAGCGCTACCTATTACATC
196 AACCACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTACATC
51466 ATA-TTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAA
261 ATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAA
**
51530 AGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATATCT
326 AGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATAT-TAA
51595 TTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTG
390 TTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTG
*
51637 ATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAAT-A-ATATATCGTAATGT-AAAAAT
1 ATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAT
*
51699 -AATCATTAGACGCCTATAATTACTAAATTAATATCATAAAACTCACTCAAAAGATAACCTTAAA
66 AAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAA
51763 TTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATAT
131 TTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATAT
51828 AACCACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTACATC
196 AACCACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTACATC
51893 ATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAA
261 ATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAA
*
51958 AGTTATGTAATTTATGTTTCAA-TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAAT
326 AGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAAT
52022 TTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTG
391 TTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTG
*
52063 ATATTTTATAAAATATTATTTAGAA-TTTAAATTTAA
1 ATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
52099 CAACATTAAC
Statistics
Matches: 1284, Mismatches: 35, Indels: 16
0.96 0.03 0.01
Matches are distributed among these distances:
425 10 0.01
426 240 0.19
427 63 0.05
428 96 0.07
429 62 0.05
430 143 0.11
431 330 0.26
432 340 0.26
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (431 bp):
ATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAT
AAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAA
TTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATAT
AACCACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTACATC
ATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAA
AGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAAT
TTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTG
Found at i:51438 original size:23 final size:23
Alignment explanation
Indices: 51412--51469 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
51402 AACCACTACC
51412 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
51435 TATTACATTATA-AAGCGCTACC
1 TATTACATTATATAAACGATACA
*
51457 TATTACATCATAT
1 TATTACATTATAT
51470 TTTACCTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 18 0.60
23 12 0.40
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:51463 original size:22 final size:23
Alignment explanation
Indices: 51398--51469 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
51388 ATACTTTACA
* *
51398 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
51421 ATATAAACGATACATATTACATT
1 ATATAAACGCTACCTATTACATT
* *
51444 ATA-AAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
51466 ATAT
1 ATAT
51470 TTTACCTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 18 0.45
23 22 0.55
ACGTcount: A:0.42, C:0.21, G:0.04, T:0.33
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:51864 original size:23 final size:23
Alignment explanation
Indices: 51838--51896 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
51828 AACCACTACC
51838 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
51861 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
51884 TATTACATCATAT
1 TATTACATTATAT
51897 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:52371 original size:39 final size:39
Alignment explanation
Indices: 52317--52403 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
52307 TCAAGTTGTA
*
52317 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
52356 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
52395 GATTTTGAT
1 GATTTTGAT
52404 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:52685 original size:18 final size:18
Alignment explanation
Indices: 52662--52698 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
52652 CGAAATATAT
52662 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
52680 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
52698 A
1 A
52699 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:53143 original size:25 final size:25
Alignment explanation
Indices: 53085--53133 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
53075 ATTATTTTCT
* *
53085 AAATAATGTACCCATAACAATGTTC
1 AAATAATTTACCCACAACAATGTTC
53110 AAATAATTTACCCACAACAATGTT
1 AAATAATTTACCCACAACAATGTT
53134 TAATTGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (25 bp):
AAATAATTTACCCACAACAATGTTC
Found at i:53470 original size:23 final size:23
Alignment explanation
Indices: 53407--53479 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
53397 ATACTTTACA
* *
53407 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* **
53430 ATATAAACGATAAATATTACATT
1 ATATAAACGCTACCTATTACATT
* *
53453 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
53476 ATAT
1 ATAT
53480 TTTTACCTAT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:53878 original size:25 final size:25
Alignment explanation
Indices: 53821--53886 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
53811 CACTCAAAAG
*
53821 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
53846 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
53871 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
53887 TTAATGATAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:56877 original size:183 final size:183
Alignment explanation
Indices: 56352--56844 Score: 916
Period size: 183 Copynumber: 2.7 Consensus size: 183
56342 TTAAAATTAC
*
56352 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATAGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* *
56417 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
56482 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
56535 CGACACTTTTTTAAATAGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATAGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
56600 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
56665 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
* * *
56718 CGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGAAATAAAGTACCAACACAA
1 CGACACTTTTTTA-AATAGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
56782 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
65 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
56845 ATAGCATTGC
Statistics
Matches: 303, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
183 300 0.99
184 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (183 bp):
CGACACTTTTTTAAATAGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:58300 original size:9 final size:9
Alignment explanation
Indices: 58286--58365 Score: 61
Period size: 9 Copynumber: 8.6 Consensus size: 9
58276 CTTGTTTGGA
58286 TCATCATCT
1 TCATCATCT
58295 TCATCATCAT
1 TCATCATC-T
*
58305 CATCATCATCG
1 --TCATCATCT
58316 TCATCATCT
1 TCATCATCT
* *
58325 TCATCGTCA
1 TCATCATCT
* * *
58334 GCTTCATCG
1 TCATCATCT
*
58343 TCATCATCA
1 TCATCATCT
*
58352 TCGTCATCT
1 TCATCATCT
58361 TCATC
1 TCATC
58366 GTCAGCTTCA
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
9 45 0.83
10 1 0.02
12 8 0.15
ACGTcount: A:0.23, C:0.34, G:0.06, T:0.38
Consensus pattern (9 bp):
TCATCATCT
Found at i:58302 original size:12 final size:12
Alignment explanation
Indices: 58289--58377 Score: 97
Period size: 12 Copynumber: 7.4 Consensus size: 12
58279 GTTTGGATCA
* *
58289 TCATCTTCATCA
1 TCATCGTCATCT
* *
58301 TCATCATCATCA
1 TCATCGTCATCT
* *
58313 TCGTCATCATCT
1 TCATCGTCATCT
*
58325 TCATCGTCAGCT
1 TCATCGTCATCT
*
58337 TCATCGTCATCA
1 TCATCGTCATCT
58349 TCATCGTCATCT
1 TCATCGTCATCT
*
58361 TCATCGTCAGCT
1 TCATCGTCATCT
58373 TCATC
1 TCATC
58378 TTCTGCGACC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 67 1.00
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.37
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:58304 original size:6 final size:6
Alignment explanation
Indices: 58285--58365 Score: 81
Period size: 6 Copynumber: 13.5 Consensus size: 6
58275 ACTTGTTTGG
* * * *
58285 ATCATC ATCTTC ATCATC ATCATC ATCATC GTCATC ATCTTC ATCGTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * * * *
58333 AGCTTC ATCGTC ATCATC ATCGTC ATCTTC ATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATC
58366 GTCAGCTTCA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.23, C:0.33, G:0.06, T:0.37
Consensus pattern (6 bp):
ATCATC
Found at i:58341 original size:36 final size:36
Alignment explanation
Indices: 58301--58377 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
58291 ATCTTCATCA
*
58301 TCATCATCATCATCGTCATCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
* *
58337 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
58373 TCATC
1 TCATC
58378 TTCTGCGACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.21, C:0.34, G:0.09, T:0.36
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGTCAGCT
Found at i:58380 original size:6 final size:6
Alignment explanation
Indices: 58289--58380 Score: 76
Period size: 6 Copynumber: 15.3 Consensus size: 6
58279 GTTTGGATCA
* * * * * * *
58289 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG TCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * *
58337 TCATCG TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
58381 TGCGACCGCT
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.38
Consensus pattern (6 bp):
TCATCT
Found at i:60745 original size:86 final size:86
Alignment explanation
Indices: 60600--60774 Score: 350
Period size: 86 Copynumber: 2.0 Consensus size: 86
60590 CGACACATTA
60600 TTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTAC
1 TTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTAC
60665 ATTATACTTTTGGGTTCGATG
66 ATTATACTTTTGGGTTCGATG
60686 TTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTAC
1 TTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTAC
60751 ATTATACTTTTGGGTTCGATG
66 ATTATACTTTTGGGTTCGATG
60772 TTT
1 TTT
60775 TTGGGATCGA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 89 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (86 bp):
TTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTAC
ATTATACTTTTGGGTTCGATG
Found at i:61029 original size:199 final size:199
Alignment explanation
Indices: 60686--62025 Score: 2306
Period size: 199 Copynumber: 6.7 Consensus size: 199
60676 GGGTTCGATG
60686 TTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTAC
1 TTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTAC
60751 ATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGG
66 ATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGG
*
60816 TTGCACCATGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAACTAAAATAGTGTCGACAC
131 TTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAACTAAAATAGTGTCGACAC
60881 ATTA
196 ATTA
*
60885 TTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTATATATTAC
1 TTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTAC
60950 ATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGG
66 ATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGG
* **** * *
61015 CTGCACCCTGTTTTCCATTCATTCT-GAACCAAAAATATCGACACTTTTTTAAATGGTGTCGACA
131 TTGCACCCTGTTTTCCATTCATTCTGGAA-CAAAAATATCGACACAAACTAAAATAGTGTCGACA
61079 CATTA
195 CATTA
*
61084 TTTAGACATATTCTCTCATAAAACCGGTATACATGTACCGGTTAGATTGAAAAATTACATATTAC
1 TTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTAC
*
61149 ATTATACTTTTGGGTTCGATGTTTTTGGGATCGATACTTTTTATATATGGATCGACACTTTATGG
66 ATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGG
* **** * *
61214 CTGCACCCTGTTTTCCATTCATTCT-GAACCAAAAATATCGACACTTTTTTAAATTGTGTCGACA
131 TTGCACCCTGTTTTCCATTCATTCTGGAA-CAAAAATATCGACACAAACTAAAATAGTGTCGACA
61278 CATTA
195 CATTA
61283 TTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTAC
1 TTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTAC
61348 ATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGG
66 ATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGG
* * *
61413 TTGCACCCTGTTTTCCATTCATTCTGAAACAAAAATATCGACACAAACTAAAATAGTATCAACAC
131 TTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAACTAAAATAGTGTCGACAC
61478 ATTA
196 ATTA
61482 TTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTAC
1 TTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTAC
*** * *
61547 ATTATACTTTTAATTTTCGTTGTTTTTTGGGATCGACACTCTTTATATATGGATCGACACTTTAT
66 ATTATACTTTT-GGGTTCGATG-TTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTAT
*
61612 GGTTGCATCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAACTAAAATAGTGTCGAC
129 GGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAACTAAAATAGTGTCGAC
61677 ACATTA
194 ACATTA
* *
61683 TTTAGACATATTCTCTCATAAAACTGGTATATTTGTACCGGTTAGATTGAAAAATTACATATTAC
1 TTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTAC
61748 ATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGG
66 ATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGG
61813 TTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAACTAAAATAGTGTCGACAC
131 TTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAACTAAAATAGTGTCGACAC
61878 ATTA
196 ATTA
*
61882 TTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCAGTTAGATTGAAAAATTACATATTAC
1 TTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTAC
*** *
61947 ATTATACTTTTAATTTTCGATGTTTTTTGGGATCGACACTCTTTATATATGGATCGACACTTTAT
66 ATTATACTTTT-GGGTTCGATG-TTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTAT
62012 GGTTGCACCCTGTT
129 GGTTGCACCCTGTT
62026 GGCCATATTG
Statistics
Matches: 1086, Mismatches: 49, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
198 3 0.00
199 825 0.76
200 21 0.02
201 237 0.22
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (199 bp):
TTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTAC
ATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGG
TTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAACTAAAATAGTGTCGACAC
ATTA
Found at i:62190 original size:19 final size:19
Alignment explanation
Indices: 62144--62192 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
62134 TTATATTCAC
*
62144 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
62163 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
62182 ATACAAAATTA
1 ATACAAAATTA
62193 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:64024 original size:33 final size:33
Alignment explanation
Indices: 63987--64052 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
63977 CATCTTAATA
*
63987 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
64020 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
64053 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:64111 original size:21 final size:21
Alignment explanation
Indices: 64086--64129 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
64076 CCCCTTATGC
64086 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
64107 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
64128 CT
1 CT
64130 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:66368 original size:17 final size:18
Alignment explanation
Indices: 66346--66388 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
66336 ATATATCTGG
66346 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
66363 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
66383 TATCAT
1 TATCAT
66389 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:66406 original size:20 final size:19
Alignment explanation
Indices: 66351--66397 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
66341 TCTGGTATCA
66351 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
66370 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
66391 TTTTACC
1 TTTTACC
66398 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:66559 original size:20 final size:20
Alignment explanation
Indices: 66532--66578 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
66522 TCCGGTAACG
*
66532 TTTTACCGGTTTTATCAT-T
1 TTTTACCGATTTTATCATAT
66551 TTGTTACCGATTTTATCATAT
1 TT-TTACCGATTTTATCATAT
66572 TTTTACC
1 TTTTACC
66579 TGGTATATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTTACCGATTTTATCATAT
Found at i:67372 original size:11 final size:11
Alignment explanation
Indices: 67356--67380 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
67346 ATCCGATACT
67356 ACCGTATATTA
1 ACCGTATATTA
67367 ACCGTATATTA
1 ACCGTATATTA
67378 ACC
1 ACC
67381 TGCCTTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (11 bp):
ACCGTATATTA
Found at i:77765 original size:15 final size:14
Alignment explanation
Indices: 77740--77773 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
77730 CTCTATTCAT
77740 AATTTAAATTTTAA
1 AATTTAAATTTTAA
77754 AATTTAAAATTTTAA
1 AATTT-AAATTTTAA
*
77769 TATTT
1 AATTT
77774 CACCTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTTAAATTTTAA
Found at i:90564 original size:27 final size:27
Alignment explanation
Indices: 90534--90587 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
90524 AAAGCCACAT
90534 ACCCCACACCATGCTGCCCACGTGAAG
1 ACCCCACACCATGCTGCCCACGTGAAG
** *
90561 ACCCCATGCCATGCTTCCCACGTGAAG
1 ACCCCACACCATGCTGCCCACGTGAAG
90588 CGCCTCAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.24, C:0.43, G:0.19, T:0.15
Consensus pattern (27 bp):
ACCCCACACCATGCTGCCCACGTGAAG
Found at i:93807 original size:137 final size:137
Alignment explanation
Indices: 93535--93800 Score: 338
Period size: 137 Copynumber: 1.9 Consensus size: 137
93525 TAGATCGAGT
*
93535 AACTAGAAGAAGTCTACCTACCAAGAAGACGAGTCAGACACCTGCCTACTGAGGTAACGAGTTGG
1 AACTAGAAGAAGTCTACCTACCAAGAAGACGAGTCAGACACCTGCCTACTGAGGTAACAAGTTGG
* * ** *
93600 ACTCGAGACGATTCGACGCTGAAGCCAGTAGTTGAAGATCATGAACCAACTCAAAGGATTTCTGG
66 ACTCGAGACGATTCAACGCAGAAGCCAACAGTTGAAGATCACGAACCAACTCAAAGGATTTCTGG
93665 AAGTAGG
131 AAGTAGG
* * * * * ** **
93672 AACTAGAGGGAGTCTATCTACCAAGGAGACGA-TCCAGGCATTTGCCTGTTGAGGTAACAAGTTG
1 AACTAGAAGAAGTCTACCTACCAAGAAGACGAGT-CAGACACCTGCCTACTGAGGTAACAAGTTG
* * *
93736 GACTCGAGACGATTCAATGCAGAAGCCAACAGTTGAAGATCGCGAACCAGCTCGAAA-GATTTCT
65 GACTCGAGACGATTCAACGCAGAAGCCAACAGTTGAAGATCACGAACCAACTC-AAAGGATTTCT
93800 G
129 G
93801 AGAGTAGAAG
Statistics
Matches: 109, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
136 1 0.01
137 105 0.96
138 3 0.03
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (137 bp):
AACTAGAAGAAGTCTACCTACCAAGAAGACGAGTCAGACACCTGCCTACTGAGGTAACAAGTTGG
ACTCGAGACGATTCAACGCAGAAGCCAACAGTTGAAGATCACGAACCAACTCAAAGGATTTCTGG
AAGTAGG
Found at i:94050 original size:29 final size:28
Alignment explanation
Indices: 93999--94053 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
93989 CACTCCCATT
*
93999 TTTGCATCTTTGCATTTTCATATACATC
1 TTTGCATCTTTGCATTGTCATATACATC
94027 TTTGCATCTTTTGCATTAGT-ATATACA
1 TTTGCATC-TTTGCATT-GTCATATACA
94054 CATTGTGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 8 0.33
29 15 0.62
30 1 0.04
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.49
Consensus pattern (28 bp):
TTTGCATCTTTGCATTGTCATATACATC
Found at i:96250 original size:74 final size:75
Alignment explanation
Indices: 96160--96371 Score: 214
Period size: 75 Copynumber: 2.8 Consensus size: 75
96150 CAATATAAAT
* ** * * **
96160 TTTGTCTCGCTTGAGACAGTTTCA-TTTAATACAAAAGATTT-ATCTCATTGGAGATTGTTTTTC
1 TTTGTCTCACTTGAGACAGTTTCACTCGAA-ACAAAACATTTCATCTCACTCAAGATTGTTTTTC
96223 TTAAAAC-AGA
65 TTAAAACAAGA
* * * * * *
96233 CTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGACATTTCATTTGACTCAAGATTGTTTTTC
1 -TTTGTCTCACTTGAGACAGTTTCACTCGAAACAAAACATTTCATCTCACTCAAGATTGTTTTTC
96298 TTAAAACAAGA
65 TTAAAACAAGA
* * * * *
96309 TTTGTCTCTCTTGAGACAGTTTTTACTCGAAAGAATACATTTCATTTCACTCAAGATTGTTTT
1 TTTGTCTCACTTGAGACAG-TTTCACTCGAAACAAAACATTTCATCTCACTCAAGATTGTTTT
96372 AAAGAATATT
Statistics
Matches: 117, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
74 29 0.25
75 44 0.38
76 44 0.38
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (75 bp):
TTTGTCTCACTTGAGACAGTTTCACTCGAAACAAAACATTTCATCTCACTCAAGATTGTTTTTCT
TAAAACAAGA
Found at i:96255 original size:36 final size:36
Alignment explanation
Indices: 96202--96332 Score: 88
Period size: 36 Copynumber: 3.6 Consensus size: 36
96192 AAAAGATTTA
*
96202 TCTCA-TTGGAGATTGTTTTTCTTAAAACAGACTTTG
1 TCTCACTT-GAGACTGTTTTTCTTAAAACAGACTTTG
* * *
96238 TCTCACTTGAGACTGTTTTACTCGAAAGA-AGACATTTCA
1 TCTCACTTGAGACTGTTTTTCT-TAAA-ACAGAC-TTT-G
* * ** *
96277 TTTGACTCAAGATTGTTTTTCTTAAAACAAGA-TTTG
1 TCTCACTTGAGACTGTTTTTCTTAAAAC-AGACTTTG
* *
96313 TCTCTCTTGAGACAGTTTTT
1 TCTCACTTGAGACTGTTTTT
96333 ACTCGAAAGA
Statistics
Matches: 69, Mismatches: 19, Indels: 14
0.68 0.19 0.14
Matches are distributed among these distances:
36 30 0.43
37 13 0.19
38 7 0.10
39 19 0.28
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (36 bp):
TCTCACTTGAGACTGTTTTTCTTAAAACAGACTTTG
Found at i:96301 original size:75 final size:76
Alignment explanation
Indices: 96211--96371 Score: 263
Period size: 76 Copynumber: 2.1 Consensus size: 76
96201 ATCTCATTGG
*
96211 AGATTGTTTTTCTTAAAAC-AGACTTTGTCTCACTTGAGACTG-TTTTACTCGAAAGAAGACATT
1 AGATTGTTTTTCTTAAAACAAGA-TTTGTCTCACTTGAGACAGTTTTTACTCGAAAGAAGACATT
*
96274 TCATTTGACTCA
65 TCATTTCACTCA
* *
96286 AGATTGTTTTTCTTAAAACAAGATTTGTCTCTCTTGAGACAGTTTTTACTCGAAAGAATACATTT
1 AGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACAGTTTTTACTCGAAAGAAGACATTT
96351 CATTTCACTCA
66 CATTTCACTCA
96362 AGATTGTTTT
1 AGATTGTTTT
96372 AAAGAATATT
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
75 36 0.45
76 44 0.55
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (76 bp):
AGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACAGTTTTTACTCGAAAGAAGACATTT
CATTTCACTCA
Found at i:96432 original size:39 final size:40
Alignment explanation
Indices: 96376--96492 Score: 146
Period size: 39 Copynumber: 3.0 Consensus size: 40
96366 TGTTTTAAAG
* *
96376 AATATTGTATCTTGCTTGAGATAGTTTCCCTTGAAACA-A
1 AATATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACATA
* *
96415 AATATTTTATCTCGCTTGAGATAGTTTCCCTGGAAACATG
1 AATATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACATA
* * * **
96455 AAGATTTTGTCTCTCTTGAGGCAGTTTCCCTTGAAACA
1 AATATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACA
96493 CCAATCTTTG
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 35 0.52
40 32 0.48
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (40 bp):
AATATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACATA
Found at i:96546 original size:66 final size:68
Alignment explanation
Indices: 96430--96557 Score: 188
Period size: 66 Copynumber: 1.9 Consensus size: 68
96420 TTTATCTCGC
* *
96430 TTGAGATAGTTTCCCTGGAAACATGAAGATTTTGTCTCTCTTGAGGCAGTTTCCCTTGAAACACC
1 TTGAGATAGTTTCCCTGGAAACA--AAGATTTTGTCTCACTTGAGACAGTTTCCCTTGAAACACC
96495 AATCT
64 AATCT
* *
96500 TTGAGATTGTTTCCCTTGAAAC-AA-ATTTTGTCTCACTTGAGACAGTTTCCCTTGAAAC
1 TTGAGATAGTTTCCCTGGAAACAAAGATTTTGTCTCACTTGAGACAGTTTCCCTTGAAAC
96558 GAGTTTTGTC
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
66 32 0.59
67 2 0.04
70 20 0.37
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (68 bp):
TTGAGATAGTTTCCCTGGAAACAAAGATTTTGTCTCACTTGAGACAGTTTCCCTTGAAACACCAA
TCT
Found at i:96548 original size:36 final size:36
Alignment explanation
Indices: 96390--96736 Score: 309
Period size: 36 Copynumber: 9.7 Consensus size: 36
96380 TTGTATCTTG
* * *
96390 CTTGAGATAGTTTCCCTTGAAACAAAATATTTTATCTCG
1 CTTGAGACAGTTTCCCTTGAAAC--AA-ATTTTGTCTCT
* *
96429 CTTGAGATAGTTTCCCTGGAAACATGAAGATTTTGTCTCT
1 CTTGAGACAGTTTCCCTTGAAAC---AA-ATTTTGTCTCT
*
96469 CTTGAGGCAGTTTCCCTTGAAACACCAA-------TCT
1 CTTGAGACAGTTTCCCTTGAAACA--AATTTTGTCTCT
** *
96500 -TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCA
1 CTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCT
* *
96535 CTTGAGACAGTTTCCCTTGAAACGAGTTTTGTCTCT
1 CTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCT
* * * *
96571 CTTGAGACAGCTTCTCTTGAAACGAGTTTTGTCTCT
1 CTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCT
* * *
96607 CTTGAGACAGCTTCTCTTGAAACAAGTTTTGTCTCT
1 CTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCT
* *
96643 CTTGAGACAGTTTCCCTTGAAACAAGTTTTGTCTAT
1 CTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCT
* *** *
96679 CTTGAGACAATTTCCCTTG-AA-TTTTTTTGTCTCA
1 CTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCT
*
96713 CTTGAGACAGTTTCTCTTGAAACA
1 CTTGAGACAGTTTCCCTTGAAACA
96737 CAAAATCTTT
Statistics
Matches: 262, Mismatches: 33, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
28 2 0.01
30 20 0.08
31 3 0.01
34 25 0.10
35 6 0.02
36 150 0.57
37 1 0.00
38 1 0.00
39 23 0.09
40 31 0.12
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (36 bp):
CTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCT
Found at i:96608 original size:21 final size:20
Alignment explanation
Indices: 96514--96683 Score: 74
Period size: 21 Copynumber: 9.2 Consensus size: 20
96504 GATTGTTTCC
* *
96514 CTTGAAACAAATTTTGTCTCA
1 CTTGAAAC-AGTTTTGTCTCT
*
96535 CTTGAGACAG--TT-TC-C-
1 CTTGAAACAGTTTTGTCTCT
96550 CTTGAAACGAGTTTTGTCTCT
1 CTTGAAAC-AGTTTTGTCTCT
* *
96571 CTTGAGACAG----CT-TCT
1 CTTGAAACAGTTTTGTCTCT
96586 CTTGAAACGAGTTTTGTCTCT
1 CTTGAAAC-AGTTTTGTCTCT
* *
96607 CTTGAGACAG----CT-TCT
1 CTTGAAACAGTTTTGTCTCT
96622 CTTGAAACAAGTTTTGTCTCT
1 CTTGAAAC-AGTTTTGTCTCT
*
96643 CTTGAGACAG--TT-TC-C-
1 CTTGAAACAGTTTTGTCTCT
*
96658 CTTGAAACAAGTTTTGTCTAT
1 CTTGAAAC-AGTTTTGTCTCT
96679 CTTGA
1 CTTGA
96684 GACAATTTCC
Statistics
Matches: 111, Mismatches: 14, Indels: 48
0.64 0.08 0.28
Matches are distributed among these distances:
15 34 0.31
16 12 0.11
17 4 0.04
18 8 0.07
19 4 0.04
20 10 0.09
21 39 0.35
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (20 bp):
CTTGAAACAGTTTTGTCTCT
Found at i:96799 original size:67 final size:67
Alignment explanation
Indices: 96703--96874 Score: 210
Period size: 66 Copynumber: 2.6 Consensus size: 67
96693 CCTTGAATTT
*
96703 TTTTGTCTCACTTGAGACAGTTTCTCTTGAAACACAAAATCTTTGA-AT-ATGTTTCTCTTGAA-
1 TTTTGTCTCACTTGAGACAGTTTCTCTTGAAACACAAAATCTTTGAGATCGT-TTTC-CTTGAAC
96765 AAGAA
64 AA-AA
* * ** *
96770 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAC-CGATCTTTGAGATCGTTTTCCTTGAACTA
1 TTTTGTCTCACTTGAGACAGTTTCTCTTGAAACACAAAATCTTTGAGATCGTTTTCCTTGAACAA
96834 AA
66 AA
*
96836 TTTTGTCTCGA-TGGAGACAGTTTCTCTTGAAACACAAAA
1 TTTTGTCTC-ACTTGAGACAGTTTCTCTTGAAACACAAAA
96875 ACTTGGATTG
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
66 47 0.53
67 41 0.46
68 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (67 bp):
TTTTGTCTCACTTGAGACAGTTTCTCTTGAAACACAAAATCTTTGAGATCGTTTTCCTTGAACAA
AA
Found at i:97442 original size:91 final size:91
Alignment explanation
Indices: 97277--97650 Score: 520
Period size: 91 Copynumber: 4.1 Consensus size: 91
97267 CCAATCAACA
* * *
97277 TTCCAGCGGAGAGTTCATAATGAGAAGAACTCGTCCAAGGAGGGAGAAGAAGTTCATAATGAGAA
1 TTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAA
97342 GAACTTGTTCAACCTTATCTCAGCAT
66 GAACTTGTTCAACCTTATCTCAGCAT
*
97368 TTCCTGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAA
1 TTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAA
* * *
97433 TAACATGTTCAACCTT-TACTCAGTAT
66 GAACTTGTTCAACCTTAT-CTCAGCAT
* * * *
97459 TTCCACTTGAGAGTTCATAATGAGAATAACTCATCCAACGAGGGAGAATAAGTTCATAATGAGAA
1 TTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAA
* *
97524 GAACTTATTCAACCTTGGT-TCAAG-AT
66 GAACTTGTTCAACCTT-ATCTC-AGCAT
* * *
97550 TTCCAGTGGAGAGTTCATAATGAGAAAAACTCATCCAACGAGGGAGAAGAATTTCATATTGAGAA
1 TTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAA
* ** *
97615 GAACTTCTTCAACCTTAGATCATCAT
66 GAACTTGTTCAACCTTATCTCAGCAT
97641 TTCCAGTGGA
1 TTCCAGTGGA
97651 AAAACTAGGA
Statistics
Matches: 252, Mismatches: 25, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
90 2 0.01
91 247 0.98
92 2 0.01
93 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (91 bp):
TTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAA
GAACTTGTTCAACCTTATCTCAGCAT
Found at i:100688 original size:24 final size:22
Alignment explanation
Indices: 100661--100735 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 22
100651 TAGTAAGTAA
*
100661 AAAAACAAATAATAAAATATATAT
1 AAAAACAAATAAGAAAATA-A-AT
*
100685 AAAAA-AGAAAAAGAAAATAAAT
1 AAAAACA-AATAAGAAAATAAAT
100707 -AAAACAAATAA-ACAAAT-AAT
1 AAAAACAAATAAGA-AAATAAAT
*
100727 AATAACAAA
1 AAAAACAAA
100736 GTACGAATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
20 4 0.09
21 19 0.44
22 3 0.07
23 2 0.05
24 15 0.35
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (22 bp):
AAAAACAAATAAGAAAATAAAT
Found at i:101084 original size:2 final size:2
Alignment explanation
Indices: 101030--101068 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
101020 CTTGTGTAGA
101030 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
101069 GTAAAATGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:101088 original size:14 final size:14
Alignment explanation
Indices: 101029--101088 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
101019 ACTTGTGTAG
*
101029 AATATATATATATA
1 AATATATATATAAA
* *
101043 TATATATATATATA
1 AATATATATATAAA
*
101057 TATATATATATAGTAA
1 AATATATATATA--AA
*
101073 AATGTATATATAAA
1 AATATATATATAAA
101087 AA
1 AA
101089 CAATAATATC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
14 29 0.73
16 11 0.28
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (14 bp):
AATATATATATAAA
Found at i:101306 original size:12 final size:11
Alignment explanation
Indices: 101278--101325 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
101268 TAACAAAATA
* *
101278 AATAATATAAA
1 AATAATACAAG
101289 AATAATACAAG
1 AATAATACAAG
101300 TAATAATACAAG
1 -AATAATACAAG
*
101312 AATAATAAAAG
1 AATAATACAAG
101323 AAT
1 AAT
101326 GAGAAAGTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
11 22 0.67
12 11 0.33
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (11 bp):
AATAATACAAG
Found at i:101376 original size:22 final size:23
Alignment explanation
Indices: 101335--101382 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
101325 TGAGAAAGTA
101335 AAAAAATATAATAATAATAATAT
1 AAAAAATATAATAATAATAATAT
101358 AAAAAATATACAT-AT-ATAATAT
1 AAAAAATATA-ATAATAATAATAT
101380 AAA
1 AAA
101383 TAAGTAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 10 0.42
23 12 0.50
24 2 0.08
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (23 bp):
AAAAAATATAATAATAATAATAT
Found at i:101421 original size:12 final size:12
Alignment explanation
Indices: 101399--101443 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
101389 GAATAAAAGG
101399 AAAATATAATAGT
1 AAAA-ATAATAGT
*
101412 AAAAATAATAAT
1 AAAAATAATAGT
*
101424 AAATATAATAGT
1 AAAAATAATAGT
*
101436 AATAATAA
1 AAAAATAA
101444 AAATGCAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 23 0.85
13 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (12 bp):
AAAAATAATAGT
Found at i:101455 original size:24 final size:24
Alignment explanation
Indices: 101400--101447 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
101390 AATAAAAGGA
*
101400 AAATATAATAGTAAAAATAATAAT
1 AAATATAATAGTAAAAATAAAAAT
*
101424 AAATATAATAGTAATAATAAAAAT
1 AAATATAATAGTAAAAATAAAAAT
101448 GCAAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (24 bp):
AAATATAATAGTAAAAATAAAAAT
Found at i:102040 original size:37 final size:37
Alignment explanation
Indices: 101999--102104 Score: 158
Period size: 37 Copynumber: 2.9 Consensus size: 37
101989 AGTGCTTGTG
* * *
101999 TATCCTATCTTTAGGAGTTTAAATCATAGTAGAATTC
1 TATCCTATTTTTAGGAGTTTGAATCCTAGTAGAATTC
* * *
102036 TATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTT
1 TATCCTATTTTTAGGAGTTTGAATCCTAGTAGAATTC
102073 TATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 TATCCTATTTTTAGGAGTTTGAATCCTAGTAG
102105 GACGAAAAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (37 bp):
TATCCTATTTTTAGGAGTTTGAATCCTAGTAGAATTC
Found at i:110594 original size:15 final size:15
Alignment explanation
Indices: 110574--110616 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
110564 GGGTCCAGGT
110574 GGACTGATATTAGGC
1 GGACTGATATTAGGC
*
110589 GGACTGATATTAGGT
1 GGACTGATATTAGGC
110604 GGACTGATATTAG
1 GGACTGATATTAG
110617 ATGCCGGGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.30
Consensus pattern (15 bp):
GGACTGATATTAGGC
Found at i:118606 original size:37 final size:32
Alignment explanation
Indices: 118524--118635 Score: 136
Period size: 32 Copynumber: 3.4 Consensus size: 32
118514 CTAAACTCGA
*
118524 ACCCAACCCGAATATCACACTTAAAAAACCCG
1 ACCCGACCCGAATATCACACTTAAAAAACCCG
* * *
118556 ACCCGACCTGAATATTACACTTAAAAACCCCG
1 ACCCGACCCGAATATCACACTTAAAAAACCCG
118588 ATCCGACTCGACCCGAATATCACACTTAAAAAA-CCG
1 A--C--C-CGACCCGAATATCACACTTAAAAAACCCG
118624 ACCCGACCCGAA
1 ACCCGACCCGAA
118636 CAAAATAAAG
Statistics
Matches: 68, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
31 9 0.13
32 30 0.44
34 2 0.03
36 5 0.07
37 22 0.32
ACGTcount: A:0.39, C:0.37, G:0.10, T:0.14
Consensus pattern (32 bp):
ACCCGACCCGAATATCACACTTAAAAAACCCG
Found at i:136329 original size:2 final size:2
Alignment explanation
Indices: 136322--136356 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
136312 GGACATTACA
136322 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
136357 AACTAATTCA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:137098 original size:265 final size:265
Alignment explanation
Indices: 136625--137198 Score: 1148
Period size: 265 Copynumber: 2.2 Consensus size: 265
136615 TCTGCCATAG
136625 CCATCATTAAAATTAAGAAGAATTAGGAGAAAAAATTAAGAAGTAATAATTATTATTATTATTAT
1 CCATCATTAAAATTAAGAAGAATTAGGAGAAAAAATTAAGAAGTAATAATTATTATTATTATTAT
136690 CTTACAAATGCTTCTACAGGTGAGTTGCTTAGACCAAGATCATTGGCTCTGTGCTGCCTTCTACC
66 CTTACAAATGCTTCTACAGGTGAGTTGCTTAGACCAAGATCATTGGCTCTGTGCTGCCTTCTACC
136755 CATCTCTTTTATCAGCTTCCTTTCTATACCTAAATTATTACTTCCATGTGAAATCCAGCTTTGAA
131 CATCTCTTTTATCAGCTTCCTTTCTATACCTAAATTATTACTTCCATGTGAAATCCAGCTTTGAA
136820 AGCCCTGCAGACATCTCTCAACTATTTAGAGATTAATTCATCAACCTTAAAAGCAAGAGAAGTGT
196 AGCCCTGCAGACATCTCTCAACTATTTAGAGATTAATTCATCAACCTTAAAAGCAAGAGAAGTGT
136885 TTTTT
261 TTTTT
136890 CCATCATTAAAATTAAGAAGAATTAGGAGAAAAAATTAAGAAGTAATAATTATTATTATTATTAT
1 CCATCATTAAAATTAAGAAGAATTAGGAGAAAAAATTAAGAAGTAATAATTATTATTATTATTAT
136955 CTTACAAATGCTTCTACAGGTGAGTTGCTTAGACCAAGATCATTGGCTCTGTGCTGCCTTCTACC
66 CTTACAAATGCTTCTACAGGTGAGTTGCTTAGACCAAGATCATTGGCTCTGTGCTGCCTTCTACC
137020 CATCTCTTTTATCAGCTTCCTTTCTATACCTAAATTATTACTTCCATGTGAAATCCAGCTTTGAA
131 CATCTCTTTTATCAGCTTCCTTTCTATACCTAAATTATTACTTCCATGTGAAATCCAGCTTTGAA
137085 AGCCCTGCAGACATCTCTCAACTATTTAGAGATTAATTCATCAACCTTAAAAGCAAGAGAAGTGT
196 AGCCCTGCAGACATCTCTCAACTATTTAGAGATTAATTCATCAACCTTAAAAGCAAGAGAAGTGT
137150 TTTTT
261 TTTTT
137155 CCATCATTAAAATTAAGAAGAATTAGGAGAAAAAATTAAGAAGT
1 CCATCATTAAAATTAAGAAGAATTAGGAGAAAAAATTAAGAAGT
137199 TTTAAGGATG
Statistics
Matches: 309, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
265 309 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (265 bp):
CCATCATTAAAATTAAGAAGAATTAGGAGAAAAAATTAAGAAGTAATAATTATTATTATTATTAT
CTTACAAATGCTTCTACAGGTGAGTTGCTTAGACCAAGATCATTGGCTCTGTGCTGCCTTCTACC
CATCTCTTTTATCAGCTTCCTTTCTATACCTAAATTATTACTTCCATGTGAAATCCAGCTTTGAA
AGCCCTGCAGACATCTCTCAACTATTTAGAGATTAATTCATCAACCTTAAAAGCAAGAGAAGTGT
TTTTT
Found at i:139757 original size:17 final size:17
Alignment explanation
Indices: 139717--139755 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
139707 TTAATATTTT
*
139717 GTATTTAATTTATTTAA
1 GTATTTAATTTATGTAA
139734 GTATTTAATTTATGTAA
1 GTATTTAATTTATGTAA
139751 -TATTT
1 GTATTT
139756 TACTTATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (17 bp):
GTATTTAATTTATGTAA
Found at i:141068 original size:14 final size:14
Alignment explanation
Indices: 141043--141079 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
141033 ATTTTAAGAT
141043 TTTTGAAA-TCAAG
1 TTTTGAAATTCAAG
141056 TTTTGAAATTCAAG
1 TTTTGAAATTCAAG
141070 TTTTGAAATT
1 TTTTGAAATT
141080 ACTCCCCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (14 bp):
TTTTGAAATTCAAG
Found at i:141147 original size:26 final size:26
Alignment explanation
Indices: 141114--141165 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
141104 TCAATTTATC
141114 ATGTAAAACTTTAAACACTTATTCTT
1 ATGTAAAACTTTAAACACTTATTCTT
141140 ATGTAAAACTTTAAACACTTATTCTT
1 ATGTAAAACTTTAAACACTTATTCTT
141166 CTCCCCCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.42
Consensus pattern (26 bp):
ATGTAAAACTTTAAACACTTATTCTT
Found at i:143457 original size:21 final size:21
Alignment explanation
Indices: 143375--143458 Score: 64
Period size: 21 Copynumber: 3.9 Consensus size: 21
143365 CAGAACCCCA
*
143375 GGGGGGTATCGATTCCC-C-T
1 GGGGGGGATCGATTCCCTCAT
* *
143394 GTGGGGGGAATCGGTTCCCCTTCAA
1 G-GGGGGG-ATCGATT-CCC-TCAT
* * *
143419 AGGGGGAATCGGTTCCCTCAT
1 GGGGGGGATCGATTCCCTCAT
143440 GGGGGGGATCGATTCCCTC
1 GGGGGGGATCGATTCCCTC
143459 TGCACCAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
19 1 0.02
20 5 0.10
21 25 0.50
22 6 0.12
23 7 0.14
24 6 0.12
ACGTcount: A:0.14, C:0.25, G:0.37, T:0.24
Consensus pattern (21 bp):
GGGGGGGATCGATTCCCTCAT
Found at i:147304 original size:22 final size:21
Alignment explanation
Indices: 147262--147301 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
147252 GAGTTTGTTT
*
147262 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
147283 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
147302 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:155573 original size:36 final size:34
Alignment explanation
Indices: 155510--155586 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 34
155500 AAAAAAAATC
* *
155510 TTAAACATATATTTTTTTATAATTATTTAGATTATT
1 TTAAAAATATATATTTTTATAATTATTTA-ATT-TT
155546 TTAAAAATATTATATTTTTATAA-TATTTAATTTT
1 TTAAAAATA-TATATTTTTATAATTATTTAATTTT
*
155580 ATAAAAA
1 TTAAAAA
155587 AAAATATGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 8 0.22
35 3 0.08
36 14 0.38
37 12 0.32
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (34 bp):
TTAAAAATATATATTTTTATAATTATTTAATTTT
Found at i:155581 original size:15 final size:16
Alignment explanation
Indices: 155551--155583 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
155541 TTATTTTAAA
*
155551 AATATTATATTTTTAT
1 AATATTATAATTTTAT
155567 AATATT-TAATTTTAT
1 AATATTATAATTTTAT
155582 AA
1 AA
155584 AAAAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATATTATAATTTTAT
Found at i:155726 original size:17 final size:17
Alignment explanation
Indices: 155704--155741 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
155694 TATCAAATAA
*
155704 ATTTATCAA-ATTTATAT
1 ATTTAT-AATATTTAAAT
155721 ATTTATAATATTTAAAT
1 ATTTATAATATTTAAAT
155738 ATTT
1 ATTT
155742 TAGTAATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTATAATATTTAAAT
Found at i:161717 original size:20 final size:20
Alignment explanation
Indices: 161687--161855 Score: 117
Period size: 20 Copynumber: 8.3 Consensus size: 20
161677 GTTTCCAGAT
*
161687 TCGCAACGCGATTCTGACTA
1 TCGCAATGCGATTCTGACTA
* ** *
161707 TCGCATTGCGATT-TTCCAAA
1 TCGCAATGCGATTCTGAC-TA
* * *
161727 TTCACATTGCGATTTTCCGACTA
1 -TCGCAATGCGA--TTCTGACTA
* * *
161750 TCGCAATGCGAATATGTA-AA
1 TCGCAATGCGATTCTG-ACTA
*
161770 TCGCAATGCGATTATGACTA
1 TCGCAATGCGATTCTGACTA
*
161790 TCGCAATGCGATTATGACTA
1 TCGCAATGCGATTCTGACTA
*
161810 TCGCAACGCGATTCTGACTA
1 TCGCAATGCGATTCTGACTA
* * * *
161830 TCTCAACGAGATTCTGACTG
1 TCGCAATGCGATTCTGACTA
161850 TCGCAA
1 TCGCAA
161856 CACTGAATTT
Statistics
Matches: 118, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
19 3 0.03
20 91 0.77
21 11 0.09
22 9 0.08
23 3 0.03
24 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (20 bp):
TCGCAATGCGATTCTGACTA
Found at i:161760 original size:43 final size:40
Alignment explanation
Indices: 161694--161804 Score: 114
Period size: 43 Copynumber: 2.7 Consensus size: 40
161684 GATTCGCAAC
* * * *
161694 GCGATTCTGACTATCGCATTGCGATTTTCCAAATTCACATT
1 GCGATTATGACTATCGCAATGCGATTATCCAAA-TCACAAT
* * ** *
161735 GCGATTTTCCGACTATCGCAATGCGAATATGTAAATCGCAAT
1 GCGATTAT--GACTATCGCAATGCGATTATCCAAATCACAAT
161777 GCGATTATGACTATCGCAATGCGATTAT
1 GCGATTATGACTATCGCAATGCGATTAT
161805 GACTATCGCA
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
40 19 0.33
41 7 0.12
42 12 0.21
43 20 0.34
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (40 bp):
GCGATTATGACTATCGCAATGCGATTATCCAAATCACAAT
Found at i:161856 original size:20 final size:20
Alignment explanation
Indices: 161745--161856 Score: 118
Period size: 20 Copynumber: 5.6 Consensus size: 20
161735 GCGATTTTCC
* *
161745 GACTATCGCAATGCGAATAT
1 GACTATCGCAACGCGATTAT
* *
161765 GTA-AATCGCAATGCGATTAT
1 G-ACTATCGCAACGCGATTAT
*
161785 GACTATCGCAATGCGATTAT
1 GACTATCGCAACGCGATTAT
*
161805 GACTATCGCAACGCGATTCT
1 GACTATCGCAACGCGATTAT
* * *
161825 GACTATCTCAACGAGATTCT
1 GACTATCGCAACGCGATTAT
*
161845 GACTGTCGCAAC
1 GACTATCGCAAC
161857 ACTGAATTTC
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
19 1 0.01
20 79 0.98
21 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (20 bp):
GACTATCGCAACGCGATTAT
Found at i:162699 original size:24 final size:24
Alignment explanation
Indices: 162672--162718 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
162662 AGTCAGTATT
*
162672 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTAATCTTGGTCAATACC
*
162696 CGAACTTTAATCTTGGTCAATAC
1 CGAAATTTAATCTTGGTCAATAC
162719 TCGGATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (24 bp):
CGAAATTTAATCTTGGTCAATACC
Found at i:165325 original size:140 final size:140
Alignment explanation
Indices: 165073--165342 Score: 486
Period size: 140 Copynumber: 1.9 Consensus size: 140
165063 AAACGTTGTA
165073 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
* *
165138 TGATTTGTTCAGTTATTATCACTTATTACACATTCATCTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTATTATCACTTATTACACATTCATCTGAATATCGCAACGCAAATTTGACTAT
165203 TATGTGTATT
131 TATGTGTATT
*
165213 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATTTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
* * *
165278 TGATATGTTTAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCAAATTTGACTAT
66 TGATATGTTCAGTTATTATCACTTATTACACATTCATCTGAATATCGCAACGCAAATTTGACTAT
165343 CGCAACACGA
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 124 1.00
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.43
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
TGATATGTTCAGTTATTATCACTTATTACACATTCATCTGAATATCGCAACGCAAATTTGACTAT
TATGTGTATT
Found at i:165338 original size:20 final size:20
Alignment explanation
Indices: 165313--165481 Score: 163
Period size: 20 Copynumber: 8.8 Consensus size: 20
165303 TTACACATTC
* *
165313 ATTTGAATATCGCAACGCAA
1 ATTTGACTATCGCAACGCGA
*
165333 ATTTGACTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
*
165353 ATATGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
165373 ATTTGTCTATCGCAACG-GCT
1 ATTTGACTATCGCAACGCG-A
*
165393 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
165413 A----A--ATTGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* * *
165427 ATTTGAGTATCGCAATGCAA
1 ATTTGACTATCGCAACGCGA
*
165447 ATTTGATTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
165467 ATTTGACTATCGCAA
1 ATTTGACTATCGCAA
165482 TGAGAAAATC
Statistics
Matches: 121, Mismatches: 20, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
14 11 0.09
16 1 0.01
18 1 0.01
19 1 0.01
20 106 0.88
21 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:165431 original size:34 final size:34
Alignment explanation
Indices: 165393--165517 Score: 108
Period size: 34 Copynumber: 3.5 Consensus size: 34
165383 CGCAACGGCT
* *
165393 ATTTGACTATCGCAACGAGAAAATTGCAACGTGA
1 ATTTGACTATCGCAACGAGAAAATCGCAACGCGA
* *
165427 ATTTGAGTATCGCAATGCA-AATTTGATTATCGCAACGCGA
1 ATTTGACTATCGCAACG-AGAA----A--ATCGCAACGCGA
* * *
165467 ATTTGACTATCGCAATGAGAAAATCGCAAAGCGT
1 ATTTGACTATCGCAACGAGAAAATCGCAACGCGA
*
165501 ATTAGACTATCGCAACG
1 ATTTGACTATCGCAACG
165518 CTAATTGACT
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
34 42 0.57
35 1 0.01
36 1 0.01
38 1 0.01
39 1 0.01
40 28 0.38
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (34 bp):
ATTTGACTATCGCAACGAGAAAATCGCAACGCGA
Found at i:165450 original size:74 final size:74
Alignment explanation
Indices: 165341--165523 Score: 203
Period size: 74 Copynumber: 2.5 Consensus size: 74
165331 AAATTTGACT
** * *
165341 ATCGCAACACGAATATGACTATCGCAACGCGAATTTG-TCTATCGCAACG-GCTATTTGACTATC
1 ATCGCAACGTGAATATGACTATCGCAACGCAAATTTGAT-TATCGCAACGCG-AATTTGACTATC
165404 GCAACGAGAAA
64 GCAACGAGAAA
* * * *
165415 ATTGCAACGTGAATTTGAGTATCGCAATGCAAATTTGATTATCGCAACGCGAATTTGACTATCGC
1 ATCGCAACGTGAATATGACTATCGCAACGCAAATTTGATTATCGCAACGCGAATTTGACTATCGC
*
165480 AATGAGAAA
66 AACGAGAAA
* *
165489 ATCGCAAAGCGT-ATTA-GACTATCGCAACGCTAATT
1 ATCGC-AA-CGTGAATATGACTATCGCAACGCAAATT
165524 GACTTTCGCG
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
74 81 0.90
75 6 0.07
76 3 0.03
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (74 bp):
ATCGCAACGTGAATATGACTATCGCAACGCAAATTTGATTATCGCAACGCGAATTTGACTATCGC
AACGAGAAA
Found at i:165577 original size:20 final size:20
Alignment explanation
Indices: 165522--165579 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
165512 GCAACGCTAA
* *
165522 TTGACTTTCGCGTTGTGATT
1 TTGACTTTAGCGTTGCGATT
* * *
165542 TTGTCTTTCGCATTGCGATT
1 TTGACTTTAGCGTTGCGATT
*
165562 TTGAGTTTAGCGTTGCGA
1 TTGACTTTAGCGTTGCGA
165580 AAGTGTACCT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.12, C:0.16, G:0.26, T:0.47
Consensus pattern (20 bp):
TTGACTTTAGCGTTGCGATT
Found at i:167089 original size:21 final size:21
Alignment explanation
Indices: 167065--167130 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
167055 GAATGTTGGG
*
167065 AGGGACCTCTTCAACGATGAC
1 AGGGACCTCTTGAACGATGAC
*
167086 AGGGGCCTCTTGAACGAT-A-
1 AGGGACCTCTTGAACGATGAC
*
167105 GGGGAGGCCTCTTGAACGATGAC
1 AGGGA--CCTCTTGAACGATGAC
167128 AGG
1 AGG
167131 TGAGTCGGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 3 0.08
20 1 0.03
21 29 0.81
22 1 0.03
23 2 0.06
ACGTcount: A:0.26, C:0.23, G:0.33, T:0.18
Consensus pattern (21 bp):
AGGGACCTCTTGAACGATGAC
Found at i:168222 original size:21 final size:20
Alignment explanation
Indices: 168198--168272 Score: 57
Period size: 21 Copynumber: 3.8 Consensus size: 20
168188 GTGACATAAT
168198 AGGTGATGGCTCTCGTTGTGG
1 AGGTGATGGCTCTCGTTGT-G
* ** *
168219 AGGTGTATAG-TCGGGTTGATC
1 AGGTG-ATGGCTCTCGTTG-TG
*
168240 AGGTGATGGCTCT-G-GGTG
1 AGGTGATGGCTCTCGTTGTG
168258 AGGTGATGGCTCTCG
1 AGGTGATGGCTCTCG
168273 AAGTGAAGGC
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
18 14 0.33
19 2 0.05
20 4 0.10
21 18 0.43
22 4 0.10
ACGTcount: A:0.13, C:0.13, G:0.43, T:0.31
Consensus pattern (20 bp):
AGGTGATGGCTCTCGTTGTG
Found at i:169652 original size:20 final size:20
Alignment explanation
Indices: 169606--169646 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
169596 TCTGAAACTT
*
169606 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACAAAAATG
169626 AAAATCGCAACACAAAAATG
1 AAAATCGCAACACAAAAATG
169646 A
1 A
169647 CTATCGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.59, C:0.20, G:0.12, T:0.10
Consensus pattern (20 bp):
AAAATCGCAACACAAAAATG
Found at i:170105 original size:22 final size:23
Alignment explanation
Indices: 170076--170128 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
170066 GGAGATAGAT
170076 GGATTTCGCT-GGAGATGGGGAC
1 GGATTTCGCTCGGAGATGGGGAC
*
170098 TGATTTCG-TCGGAGATGGGGAC
1 GGATTTCGCTCGGAGATGGGGAC
*
170120 GGATGTCGC
1 GGATTTCGC
170129 CTTAGAGAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.17, C:0.15, G:0.43, T:0.25
Consensus pattern (23 bp):
GGATTTCGCTCGGAGATGGGGAC
Found at i:170322 original size:20 final size:20
Alignment explanation
Indices: 170292--170405 Score: 138
Period size: 20 Copynumber: 5.7 Consensus size: 20
170282 GCGCTTTGAA
*
170292 AATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* *
170312 CATCGCGTTGCGACAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
170332 AATTGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* *
170352 AATCTCGTTGCGACAGTCAG
1 AATCGCGTTGCGATAGTCAG
* *
170372 AATCGCATTGCGATAGTCAT
1 AATCGCGTTGCGATAGTCAG
* *
170392 ATTCGCATTGCGAT
1 AATCGCGTTGCGAT
170406 TTACATATTC
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 80 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:170361 original size:40 final size:40
Alignment explanation
Indices: 170292--170404 Score: 163
Period size: 40 Copynumber: 2.8 Consensus size: 40
170282 GCGCTTTGAA
*
170292 AATCGCATTGCGATAGTCAGCATCGCGTTGCGACAGTCAG
1 AATCGCATTGCGATAGTCAGAATCGCGTTGCGACAGTCAG
* * *
170332 AATTGCGTTGCGATAGTCAGAATCTCGTTGCGACAGTCAG
1 AATCGCATTGCGATAGTCAGAATCGCGTTGCGACAGTCAG
* * *
170372 AATCGCATTGCGATAGTCATATTCGCATTGCGA
1 AATCGCATTGCGATAGTCAGAATCGCGTTGCGA
170405 TTTACATATT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
AATCGCATTGCGATAGTCAGAATCGCGTTGCGACAGTCAG
Found at i:170412 original size:20 final size:20
Alignment explanation
Indices: 170294--170429 Score: 107
Period size: 20 Copynumber: 6.8 Consensus size: 20
170284 GCTTTGAAAA
*
170294 TCGCATTGCGATAGTCAGCA-
1 TCGCATTGCGATAGTCA-TAT
* * *
170314 TCGCGTTGCGACAGTCAGAAT
1 TCGCATTGCGATAGTCA-TAT
* * *
170335 T-GCGTTGCGATAGTCAGAA
1 TCGCATTGCGATAGTCATAT
* * * * *
170354 TCTCGTTGCGACAGTCAGAA
1 TCGCATTGCGATAGTCATAT
170374 TCGCATTGCGATAGTCATAT
1 TCGCATTGCGATAGTCATAT
*
170394 TCGCATTGCGAT-TTACATAT
1 TCGCATTGCGATAGT-CATAT
170414 TCGCATTGCGATAGTC
1 TCGCATTGCGATAGTC
170430 GGAAAATCGC
Statistics
Matches: 97, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
19 3 0.03
20 92 0.95
21 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (20 bp):
TCGCATTGCGATAGTCATAT
Found at i:171155 original size:60 final size:60
Alignment explanation
Indices: 171062--171174 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 60
171052 GCTCTTTAAC
* * *
171062 TATAAGGTAGTGTTTTATTGAGTCATCCAACTATTAAAATTTATAAAATGATCATATGAT
1 TATAAGGTAGTGTTATATTGAGTCATCCAACTATTAAAAATTACAAAATGATCATATGAT
* *
171122 TATAAGGTAGTGTTATGTTGAGTC-CCTCAACTATTAAAAATTACAAAATGATC
1 TATAAGGTAGTGTTATATTGAGTCATC-CAACTATTAAAAATTACAAAATGATC
171175 TCTCAATTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 1 0.02
60 46 0.98
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (60 bp):
TATAAGGTAGTGTTATATTGAGTCATCCAACTATTAAAAATTACAAAATGATCATATGAT
Found at i:180840 original size:38 final size:38
Alignment explanation
Indices: 180789--180868 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
180779 AAATTAAACC
*
180789 ACAAGCTTACAACAAGCACTCGCATTTACTACGGCTTT
1 ACAAGCTTACAACAAGCACTCGCATTTACTACGGCTAT
180827 ACAAGCTTACAACAAGCACTCGCATTTACTACGGCTAT
1 ACAAGCTTACAACAAGCACTCGCATTTACTACGGCTAT
180865 ACAA
1 ACAA
180869 TATTACAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (38 bp):
ACAAGCTTACAACAAGCACTCGCATTTACTACGGCTAT
Found at i:181257 original size:63 final size:64
Alignment explanation
Indices: 181143--181279 Score: 213
Period size: 63 Copynumber: 2.2 Consensus size: 64
181133 TTAAAGTCGC
* *
181143 GTTTGGTTTACATGAATCCCTTAGAATTAGAGGGAATTGAAATTCAATTCCACCATTTTTCCAT
1 GTTTGGTTCACATAAATCCCTTAGAATTAGAGGGAATTGAAATTCAATTCCACCATTTTTCCAT
* * *
181207 GTTTGGTTCACATAAATTCCTTAGAATTAG-GGGAATTGGAATTCAATTCCATCATTTTTCCAT
1 GTTTGGTTCACATAAATCCCTTAGAATTAGAGGGAATTGAAATTCAATTCCACCATTTTTCCAT
*
181270 GTTTTGTTCA
1 GTTTGGTTCA
181280 AATTTTTCAA
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
63 40 0.60
64 27 0.40
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (64 bp):
GTTTGGTTCACATAAATCCCTTAGAATTAGAGGGAATTGAAATTCAATTCCACCATTTTTCCAT
Found at i:181871 original size:183 final size:183
Alignment explanation
Indices: 181529--181869 Score: 509
Period size: 183 Copynumber: 1.9 Consensus size: 183
181519 CGGGTCGAGT
*
181529 TCGGGTTTAGGGTGAAAAATACCCGACCCGAAAATATATATAATTTTACTTTATATATTTAGGAA
1 TCGGGTTTAGGGTGAAAAATACCCGACCCGAAAATATATATAATATTACTTTATATATTTAGGAA
* **
181594 TAATTACAATAATACCCCTCTATATATAATTTTTTTTAATTAAGTCATTGTTTTTATTGAATAAA
66 TAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCACAGTTTTTATTGAAT---
181659 AATACTTTTTATTATTATTTTGGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGG
128 AATACTTTTTATTATTATTTTGGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGG
181715 TCGGGTTTAGGGTGAAAAATACCCGACCCGACCAAA-A-A-A-AA-ATTACTTTATATATTTAGG
1 TCGGGTTTAGGGTGAAAAATACCCGACCCGA--AAATATATATAATATTACTTTATATATTTAGG
*
181775 AATAATTACAATAATACCCCTCTCTATATATATTTTTTTCAATTAAGTCACAGTTTTTATTGAAT
64 AATAATTACAATAATACCCCTCTATATATA-ATTTTTTTCAATTAAGTCACAGTTTTTATTGAAT
**
181840 -A-A-TTTTTATTATTATTTCAGGTCGGGTCGG
128 AATACTTTTTATTATTATTTTGGGTCGGGTCGG
181870 GTGAAACTTT
Statistics
Matches: 145, Mismatches: 7, Indels: 14
0.87 0.04 0.08
Matches are distributed among these distances:
178 26 0.18
179 1 0.01
180 1 0.01
183 47 0.32
184 33 0.23
185 1 0.01
186 32 0.22
187 1 0.01
188 3 0.02
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.41
Consensus pattern (183 bp):
TCGGGTTTAGGGTGAAAAATACCCGACCCGAAAATATATATAATATTACTTTATATATTTAGGAA
TAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCACAGTTTTTATTGAATAAT
ACTTTTTATTATTATTTTGGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGG
Found at i:182773 original size:21 final size:21
Alignment explanation
Indices: 182749--182799 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
182739 ATTACACAAT
182749 AAACCCTAAACTATAAATCGC
1 AAACCCTAAACTATAAATCGC
*
182770 AAACCCTAAACTCTAAATCGC
1 AAACCCTAAACTATAAATCGC
182791 AAACCCTAA
1 AAACCCTAA
182800 GCATAATCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.47, C:0.31, G:0.04, T:0.18
Consensus pattern (21 bp):
AAACCCTAAACTATAAATCGC
Found at i:182944 original size:27 final size:28
Alignment explanation
Indices: 182906--182977 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
182896 GATTACACCT
* * * *
182906 TAAACCCTAAACTCTAAATTATAAACTA
1 TAAACCTTAAACTCTAAATCACAAACCA
* *
182934 TAAA-CTTAAACCCTAAATCACAAACCC
1 TAAACCTTAAACTCTAAATCACAAACCA
182961 TAAACCTTAAACTCTAA
1 TAAACCTTAAACTCTAA
182978 GCCTTAAGCC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 21 0.58
28 15 0.42
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (28 bp):
TAAACCTTAAACTCTAAATCACAAACCA
Found at i:182972 original size:14 final size:14
Alignment explanation
Indices: 182934--183024 Score: 58
Period size: 14 Copynumber: 6.6 Consensus size: 14
182924 TTATAAACTA
182934 TAAA-CTTAAACCC
1 TAAACCTTAAACCC
* **
182947 TAAATCACAAACCC
1 TAAACCTTAAACCC
*
182961 TAAACCTTAAACTC
1 TAAACCTTAAACCC
* *
182975 TAAGCCTTAAGCCC
1 TAAACCTTAAACCC
* * *
182989 TGAGCCATAAACCC
1 TAAACCTTAAACCC
** * *
183003 TAAGTCATAAATCC
1 TAAACCTTAAACCC
183017 TAAACCTT
1 TAAACCTT
183025 TAATCTGATT
Statistics
Matches: 59, Mismatches: 18, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
13 4 0.07
14 55 0.93
ACGTcount: A:0.41, C:0.31, G:0.05, T:0.23
Consensus pattern (14 bp):
TAAACCTTAAACCC
Found at i:184386 original size:11 final size:11
Alignment explanation
Indices: 184366--184459 Score: 62
Period size: 11 Copynumber: 8.4 Consensus size: 11
184356 AAGTAACCTG
184366 TTGAGCTTGAA
1 TTGAGCTTGAA
*
184377 TTGAGTTTGAA
1 TTGAGCTTGAA
** *
184388 TCAAGCTTGAT
1 TTGAGCTTGAA
* **
184399 TTAAGCTCAAAA
1 TTGAGCT-TGAA
* *
184411 TCGAGCTTAAA
1 TTGAGCTTGAA
184422 TTGAGCTTGAA
1 TTGAGCTTGAA
* * *
184433 TCGAGTTTAAAA
1 TTGAGCTT-GAA
184445 TTGAGCTTGAA
1 TTGAGCTTGAA
184456 TTGA
1 TTGA
184460 ACTTAAAATT
Statistics
Matches: 61, Mismatches: 20, Indels: 4
0.72 0.24 0.05
Matches are distributed among these distances:
11 47 0.77
12 14 0.23
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (11 bp):
TTGAGCTTGAA
Found at i:184477 original size:23 final size:23
Alignment explanation
Indices: 184409--184477 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
184399 TTAAGCTCAA
*
184409 AATCGAGCTT-AAATTGAGCTTG
1 AATCGAACTTAAAATTGAGCTTG
**
184431 AATCGAGTTTAAAATTGAGCTTG
1 AATCGAACTTAAAATTGAGCTTG
* *
184454 AATTGAACTTAAAATTGAGTTTG
1 AATCGAACTTAAAATTGAGCTTG
184477 A
1 A
184478 GTTTTGAGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 9 0.22
23 32 0.78
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (23 bp):
AATCGAACTTAAAATTGAGCTTG
Found at i:187853 original size:10 final size:10
Alignment explanation
Indices: 187840--187881 Score: 68
Period size: 10 Copynumber: 4.3 Consensus size: 10
187830 TATATATGTA
187840 TATATTTAAT
1 TATATTTAAT
187850 TATATTTAAT
1 TATATTTAAT
187860 TATATTTAAT
1 TATATTTAAT
*
187870 T-TATTTATT
1 TATATTTAAT
187879 TAT
1 TAT
187882 TATACTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TATATTTAAT
Found at i:188107 original size:4 final size:4
Alignment explanation
Indices: 188088--188280 Score: 52
Period size: 4 Copynumber: 48.2 Consensus size: 4
188078 ATTATATGTA
* *
188088 TATT TATT T-TT CATT TATT TA-T TA-T TA-T TATT ACTATT TA-G TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT --TATT TATT TATT
* * * *
188133 T-TAT TATA TGTT TATT TATT T-TT TAGT TA-A TATT ATATGT ATATT
1 TAT-T TATT TATT TATT TATT TATT TATT TATT TATT -TAT-T -TATT
* * * *
188178 TATT T-TT CATT TATT TA-T TATT ATATT ATATT T-TAT TA-T TATA CATA
1 TATT TATT TATT TATT TATT TATT -TATT -TATT TAT-T TATT TATT TATT
* * * *
188225 CATT TATAT ATATA TATA TATT TATT TA-T TATTT TATT TATAC TATT
1 TATT TAT-T -TATT TATT TATT TATT TATT TA-TT TATT TAT-T TATT
188272 TATT TATT T
1 TATT TATT T
188281 TCATTATATT
Statistics
Matches: 146, Mismatches: 21, Indels: 44
0.69 0.10 0.21
Matches are distributed among these distances:
3 31 0.21
4 82 0.56
5 21 0.14
6 12 0.08
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (4 bp):
TATT
Found at i:188126 original size:23 final size:20
Alignment explanation
Indices: 188100--188294 Score: 89
Period size: 22 Copynumber: 9.2 Consensus size: 20
188090 TTTATTTTTC
188100 ATTTATTTATTATTATTATTACT
1 ATTTATTTATT-TTATTA-TA-T
*
188123 ATTTA-GTATTTTATTATAT
1 ATTTATTTATTTTATTATAT
*
188142 GTTTATTTATTTT-TTAGTTAAT
1 ATTTATTTATTTTATTA--T-AT
* *
188164 ATTATATGTATATTTATT-TTT
1 ATT-TATTTAT-TTTATTATAT
188185 CATTTATTTA--TTATTATAT
1 -ATTTATTTATTTTATTATAT
* * *
188204 -TATATTT-TATTATTATAC
1 ATTTATTTATTTTATTATAT
** *
188222 ATACATTTATATATATATATAT
1 ATTTATTTAT-TTTAT-TATAT
188244 ATTTATTTATTATTTTATTTATACT
1 ATTTA--T-TTATTTTA-TTATA-T
188269 ATTTATTTATTTTCATTATAT
1 ATTTATTTATTTT-ATTATAT
*
188290 TTTTA
1 ATTTA
188295 GTTTCTTTGC
Statistics
Matches: 133, Mismatches: 18, Indels: 44
0.68 0.09 0.23
Matches are distributed among these distances:
17 6 0.05
18 13 0.10
19 16 0.12
20 9 0.07
21 21 0.16
22 31 0.23
23 13 0.10
24 11 0.08
25 13 0.10
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (20 bp):
ATTTATTTATTTTATTATAT
Found at i:188195 original size:27 final size:28
Alignment explanation
Indices: 188076--188211 Score: 122
Period size: 29 Copynumber: 4.8 Consensus size: 28
188066 TATTTAGTTA
188076 ATATTATATGTATATTTATTTTTCATTT
1 ATATTATATGTATATTTATTTTTCATTT
*
188104 AT-TTATTAT-TATTATTACTATTTAGT-ATTT
1 ATATTA-TATGTA-TATT--TATTT-TTCATTT
* * *
188134 -TATTATATGTTTATTTATTTTTTAGTTA
1 ATATTATATGTATATTTATTTTTCA-TTT
188162 ATATTATATGTATATTTATTTTTCATTT
1 ATATTATATGTATATTTATTTTTCATTT
188190 AT-TTATTAT-TATATTATATTTT
1 ATATTA-TATGTATATT-TATTTT
188212 ATTATTATAC
Statistics
Matches: 89, Mismatches: 7, Indels: 24
0.74 0.06 0.20
Matches are distributed among these distances:
26 1 0.01
27 20 0.22
28 24 0.27
29 30 0.34
30 13 0.15
31 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (28 bp):
ATATTATATGTATATTTATTTTTCATTT
Found at i:189275 original size:20 final size:20
Alignment explanation
Indices: 189250--189293 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
189240 AAGGGTCTGG
189250 CAAGCCCAAGGGGGCACCAA
1 CAAGCCCAAGGGGGCACCAA
* *
189270 CAAGCCCAATGGGGCACCGA
1 CAAGCCCAAGGGGGCACCAA
189290 CAAG
1 CAAG
189294 GAGAACTCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.34, G:0.30, T:0.02
Consensus pattern (20 bp):
CAAGCCCAAGGGGGCACCAA
Done.