Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004938.1 Hibiscus syriacus cultivar Beakdansim tig00011107_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: 88094
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Found at i:677 original size:196 final size:194
Alignment explanation
Indices: 266--698 Score: 554
Period size: 193 Copynumber: 2.2 Consensus size: 194
256 TCAGTGCTTT
* * * *
266 CATACTGGA-TAAAAGTATCAATACATATACAAAAAGTATCGATACTTTGTGTTTACTTATTTTG
1 CATACTGGACAAAAAGTATCGATACATATACAAAAAGTATCGATACTTTGTGTTTACATATATTG
* * ** *
330 TCATTTAACTGGTATATTTTAACCAATTACATTGTAAATTTATCTATTACTTTATACTAATCGGT
66 TCACTAAACCAGTATATTTTAACCAATTACATTGTAAATTTACCTATTACTTTATACTAATCGGT
** * *
395 TTTGAAGTTTTAAGAATCTTCTCGTCGTGTATCGATACTTTATGTGTGCATCTAGTTTGGAAAG
131 TTCAAAGTTTTAAGAATCTTCTCGTCATATATCGATACTTTATGTGTGCATCTAGTTTGGAAAG
*
459 CTTACTGGACAAAAAGTATCGATACATATACAAAAAGTATCGATACTTTGTG-TTACATATATTG
1 CATACTGGACAAAAAGTATCGATACATATACAAAAAGTATCGATACTTTGTGTTTACATATATTG
* ** * *
523 TCACTAAACCAGTATATTTTTACCGCTTTCATTGTAAATTTACCTATTACTTTATACTAAT-TGT
66 TCACTAAACCAGTATATTTTAACCAATTACATTGTAAATTTACCTATTACTTTATACTAATCGGT
* *
587 TTCAAAG-TTTAAGAATCGATACATCTCGTACATATATCGATA-TTTCTGTGTGCGTCTAGTTTG
131 TTCAAAGTTTTAAGAATC--T---TCTCGT-CATATATCGATACTTTATGTGTGCATCTAGTTTG
650 GAAAG
190 GAAAG
* * *
655 CATATTGGACAAAAAGTATCGATACAAATATAAAAAGTA-CGATA
1 CATACTGGACAAAAAGTATCGATACATATACAAAAAGTATCGATA
699 TTTATTACCT
Statistics
Matches: 208, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
191 10 0.05
192 7 0.03
193 71 0.34
194 40 0.19
195 5 0.02
196 65 0.31
197 10 0.05
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (194 bp):
CATACTGGACAAAAAGTATCGATACATATACAAAAAGTATCGATACTTTGTGTTTACATATATTG
TCACTAAACCAGTATATTTTAACCAATTACATTGTAAATTTACCTATTACTTTATACTAATCGGT
TTCAAAGTTTTAAGAATCTTCTCGTCATATATCGATACTTTATGTGTGCATCTAGTTTGGAAAG
Found at i:723 original size:12 final size:12
Alignment explanation
Indices: 706--730 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
696 ATATTTATTA
706 CCTTAAATTAAT
1 CCTTAAATTAAT
718 CCTTAAATTAAT
1 CCTTAAATTAAT
730 C
1 C
731 GGTTTCGAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (12 bp):
CCTTAAATTAAT
Found at i:1169 original size:200 final size:196
Alignment explanation
Indices: 738--1220 Score: 643
Period size: 195 Copynumber: 2.5 Consensus size: 196
728 ATCGGTTTCG
* * * * * * * *
738 AGTTTTAAGAATCGATAATT-TACATAAGTGTATCGATACGTTATGCGTGTATCTCGTTTGCAAT
1 AGTTTTAAGAATCGATACTTCT-CATACGTGTATCGATACTTTCTGCGTGCATCTAGTTTGGAAA
* * * *
802 GCATACTGGACAA-AAGTATCGGTACACATACAAAAAGTATCAATACTTTATGTTTACTATCTTG
65 GCATACTGGACAATTAGTATCGATACAAATACAAAAAGTATCAATACTTTATGTTTACTATCTTA
**
866 TCATTAAACCGGTATATTTTACCGCAACATTGTAAATTTACCTATTACTTTATACTAATCGTTTA
130 TCATTAAACCAATATATTTTACCGCAACATTGTAAATTTACCTATTACTTTATACTAATCGTTTA
931 GA
195 GA
*
933 AGTTTTAAGAATCGATACTTCTCATACGTGTATCGATACTTTCTGTGTGCATCTAGTTTGGAAAG
1 AGTTTTAAGAATCGATACTTCTCATACGTGTATCGATACTTTCTGCGTGCATCTAGTTTGGAAAG
* * ** * *
998 CATACTGGACAATTAGTAACGATACAAATACGAAAAGTATTGATACTTTGTGTTTACATATTTTA
66 CATACTGGACAATTAGTATCGATACAAATACAAAAAGTATCAATACTTTATGTTTAC-TATCTTA
* *
1063 TCATTAAACCAATATATTTTTATCGCTTACATTGTAAATTTACCTATTACTTTATACTAATCAGT
130 TCATTAAACCAATATA-TTTTACCGC-AACATTGTAAATTTACCTATTACTTTATACTAATC-GT
*
1128 TTCA-C
192 TT-AGA
* *
1133 AGTTTTAAGAATCGATACTTCTCATACGTTTATCGATACTTTCTGCGTGGATCTAGTTTGG-AAG
1 AGTTTTAAGAATCGATACTTCTCATACGTGTATCGATACTTTCTGCGTGCATCTAGTTTGGAAAG
1197 CATACT-GACAATTAGTATCGATAC
66 CATACTGGACAATTAGTATCGATAC
1221 TTTGTTTACG
Statistics
Matches: 253, Mismatches: 28, Indels: 11
0.87 0.10 0.04
Matches are distributed among these distances:
195 66 0.26
196 37 0.15
197 19 0.08
198 25 0.10
199 43 0.17
200 62 0.25
201 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (196 bp):
AGTTTTAAGAATCGATACTTCTCATACGTGTATCGATACTTTCTGCGTGCATCTAGTTTGGAAAG
CATACTGGACAATTAGTATCGATACAAATACAAAAAGTATCAATACTTTATGTTTACTATCTTAT
CATTAAACCAATATATTTTACCGCAACATTGTAAATTTACCTATTACTTTATACTAATCGTTTAG
A
Found at i:1707 original size:193 final size:196
Alignment explanation
Indices: 1372--1739 Score: 493
Period size: 193 Copynumber: 1.9 Consensus size: 196
1362 AATCGATACA
* * *
1372 TATACAAAGAGTATCGATACTTATGTTTACGTATATTGTCATTAAATCGATATATTTTTACCGCT
1 TATACAAAGAGTATCGATACTTATGTTAACGTATATTATCATTAAATCGATATACTTTTACCGCT
* *
1437 AACATTGTAAATTTACCTATTACCTTCAAAATTGGTTTTAAAGTTTTAAGAATCAATACTTTTCA
66 AACATTGTAAATTTACCTATTACCTTCAAAATCGGTTTCAAAGTTTTAAGAATCAATACTTTTCA
*
1502 TACTTGTATCGATACTTGT-TTTTTACTT-AATTTGGGATGCATACTGTAAAGAAGTATAGATGC
131 TACTTGTATCGATACTT-TCTTTTTACTTCAATTTGGGAAGCATACTGTAAAGAAGTATAGATGC
1565 AC
195 AC
* * *
1567 TATA-AAA-AGTATCGATACTTTATGTTAACGTATTTTATCA-TAAA-CTGGTAT-CTTTTACCT
1 TATACAAAGAGTATCGATAC-TTATGTTAACGTATATTATCATTAAATC-GATATACTTTTACCG
* * * *
1627 CTAACATTGTAAATTTACCTATTA-CTTTAATTAATCGGTTTCAAATTTTTAAGAATCGATTCTT
64 CTAACATTGTAAATTTACCTATTACCTTCAA--AATCGGTTTCAAAGTTTTAAGAATCAATACTT
1691 TTCATA-TCTGTATCGATACTTTCTTTTTACTTCCAATTTGGGAAGCATA
127 TTCATACT-TGTATCGATACTTTCTTTTTACTT-CAATTTGGGAAGCATA
1740 TTGGACAAAA
Statistics
Matches: 152, Mismatches: 13, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
191 5 0.03
192 34 0.22
193 74 0.49
194 21 0.14
195 18 0.12
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (196 bp):
TATACAAAGAGTATCGATACTTATGTTAACGTATATTATCATTAAATCGATATACTTTTACCGCT
AACATTGTAAATTTACCTATTACCTTCAAAATCGGTTTCAAAGTTTTAAGAATCAATACTTTTCA
TACTTGTATCGATACTTTCTTTTTACTTCAATTTGGGAAGCATACTGTAAAGAAGTATAGATGCA
C
Found at i:4467 original size:18 final size:17
Alignment explanation
Indices: 4433--4476 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
4423 TTGCTAATCT
*
4433 CATACATAATTACATTCA
1 CATACA-AATTAAATTCA
4451 CATACAAATTATAATTCA
1 CATACAAATTA-AATTCA
*
4469 TATACAAA
1 CATACAAA
4477 ATTTTGCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (17 bp):
CATACAAATTAAATTCA
Found at i:6360 original size:9 final size:9
Alignment explanation
Indices: 6346--6374 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
6336 TACATTCTCT
6346 TCTTCCTTC
1 TCTTCCTTC
6355 TCTTCCTTC
1 TCTTCCTTC
6364 TCTTCCTTC
1 TCTTCCTTC
6373 TC
1 TC
6375 CTCTGCCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (9 bp):
TCTTCCTTC
Found at i:14213 original size:2 final size:2
Alignment explanation
Indices: 14206--14239 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14196 CATGCACAAC
14206 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
14240 TTCACATCAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:15746 original size:12 final size:12
Alignment explanation
Indices: 15729--15762 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
15719 AATTTAAATC
15729 AATTATAATGAT
1 AATTATAATGAT
15741 AATTATAATGAT
1 AATTATAATGAT
15753 AATTA-AATGA
1 AATTATAATGA
15763 ATTTAATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (12 bp):
AATTATAATGAT
Found at i:17362 original size:82 final size:82
Alignment explanation
Indices: 17263--17700 Score: 551
Period size: 82 Copynumber: 5.3 Consensus size: 82
17253 ATCACTAAAT
* * *
17263 AGTTACAGAAGATGATAATGCACCACTATTTCACCTGTTTTCTGAAAAGTTTTTTAAATTATGCA
1 AGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTTTCTGAAAAGTTGTTTAAATTATGCA
*
17328 TTGAATGGCCTCTGAAA
66 TTGAATGACCTCTGAAA
***
17345 AGTTATTGAAGATGATAATGCACCACTATTTCACCCGTTTTCTGAAAAGTTGTTTAAA-TATGCA
1 AGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTTTCTGAAAAGTTGTTTAAATTATGCA
*
17409 TTGAATGACATCTGAAA
66 TTGAATGACCTCTGAAA
* * * * *
17426 AGTTGTAGAAGATGATAATACACCATTATTTCACCCGTTTTTTGAAAATTTGTTTAAATTATGCA
1 AGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTTTCTGAAAAGTTGTTTAAATTATGCA
* *
17491 TTGAATGACATTTGAAA
66 TTGAATGACCTCTGAAA
* * ** * *
17508 AGTTACAGAAGATTATAAT-CTATTATTATTTCA-CCGTTTTCTGGAAAGTTGTTTAAATTATGC
1 AGTTGCAGAAGATGATAATGC-ACCACTATTTCACCCGTTTTCTGAAAAGTTGTTTAAATTATGC
*
17571 ATTGAATGAATGACCTTTGAAA
65 A-T---TGAATGACCTCTGAAA
* **
17593 CA-TTGCAGAAGATTATAATGCACCACTATTTCACCTATTTTCTGAAAAGTTGTTTAAATTATGC
1 -AGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTTTCTGAAAAGTTGTTTAAATTATGC
*
17657 ATTGAATGACCTCAGAAA
65 ATTGAATGACCTCTGAAA
*
17675 ACTTGCAGAAGATGATAATGCACCAC
1 AGTTGCAGAAGATGATAATGCACCAC
17701 AATTATTTGG
Statistics
Matches: 314, Mismatches: 32, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
81 103 0.33
82 140 0.45
85 41 0.13
86 30 0.10
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (82 bp):
AGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTTTCTGAAAAGTTGTTTAAATTATGCA
TTGAATGACCTCTGAAA
Found at i:17540 original size:163 final size:164
Alignment explanation
Indices: 17268--17700 Score: 563
Period size: 163 Copynumber: 2.6 Consensus size: 164
17258 TAAATAGTTA
17268 CAGAAGATGATAATGCACCACTATTTCACCTGTTTTCTGAAAAGTTT-TTTAAATTATGCATTGA
1 CAGAAGATGATAATGCACCACTATTTCACCTGTTTTCTGAAAA-TTTGTTTAAATTATGCATTGA
* **
17332 ATGGCCTCTGAAAAGTTATTGAAGATGATAATGCACCACTATTTCACCCGTTTTCTGAAAAGTTG
65 ATGACCTCTGAAAAGTTACAGAAGATGATAATGCACCACTATTTCA-CCGTTTTCTGAAAAGTTG
17397 TTTAAA-TATGCATTGAATGACAT-C-TGAAA-AGTTG
129 TTTAAATTATGCATTGAATGA-ATACTTGAAACA-TTG
* * * * *
17431 TAGAAGATGATAATACACCATTATTTCACCCGTTTTTTGAAAATTTGTTTAAATTATGCATTGAA
1 CAGAAGATGATAATGCACCACTATTTCACCTGTTTTCTGAAAATTTGTTTAAATTATGCATTGAA
* * * ** * *
17496 TGACATTTGAAAAGTTACAGAAGATTATAAT-CTATTATTATTTCACCGTTTTCTGGAAAGTTGT
66 TGACCTCTGAAAAGTTACAGAAGATGATAATGC-ACCACTATTTCACCGTTTTCTGAAAAGTTGT
17560 TTAAATTATGCATTGAATGAATGACCTTTGAAACATTG
130 TTAAATTATGCATTGAATGAAT-A-C-TTGAAACATTG
* * *
17598 CAGAAGATTATAATGCACCACTATTTCACCTATTTTCTGAAAAGTTGTTTAAATTATGCATTGAA
1 CAGAAGATGATAATGCACCACTATTTCACCTGTTTTCTGAAAATTTGTTTAAATTATGCATTGAA
* * *
17663 TGACCTCAGAAAACTTGCAGAAGATGATAATGCACCAC
66 TGACCTCTGAAAAGTTACAGAAGATGATAATGCACCAC
17701 AATTATTTGG
Statistics
Matches: 228, Mismatches: 32, Indels: 16
0.83 0.12 0.06
Matches are distributed among these distances:
162 29 0.13
163 104 0.46
165 1 0.00
167 92 0.40
168 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (164 bp):
CAGAAGATGATAATGCACCACTATTTCACCTGTTTTCTGAAAATTTGTTTAAATTATGCATTGAA
TGACCTCTGAAAAGTTACAGAAGATGATAATGCACCACTATTTCACCGTTTTCTGAAAAGTTGTT
TAAATTATGCATTGAATGAATACTTGAAACATTG
Found at i:19212 original size:35 final size:34
Alignment explanation
Indices: 19147--19215 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 34
19137 ATTAAGATAG
*
19147 AAATAAAAAAATAAAAGGAATGAAAAAAAATTCA
1 AAATAAAAAAATAAAAGGAAAGAAAAAAAATTCA
* * **
19181 AAATAAAAAATTAAATTGGAAAGAATTAAAATTCA
1 AAATAAAAAAATAAA-AGGAAAGAAAAAAAATTCA
19216 TGGATCAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.68, C:0.03, G:0.09, T:0.20
Consensus pattern (34 bp):
AAATAAAAAAATAAAAGGAAAGAAAAAAAATTCA
Found at i:23013 original size:17 final size:18
Alignment explanation
Indices: 22993--23034 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
22983 ATTTTTAAAA
22993 TATTA-AAATAAT-TTATT
1 TATTATAAA-AATATTATT
23010 TATTATAAAAATATTATT
1 TATTATAAAAATATTATT
23028 T-TTATAA
1 TATTATAA
23035 TTTTATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TATTATAAAAATATTATT
Found at i:23035 original size:31 final size:33
Alignment explanation
Indices: 23000--23089 Score: 93
Period size: 29 Copynumber: 2.8 Consensus size: 33
22990 AAATATTAAA
23000 ATAATTTATTTATTATAAAAATATTAT-TT-TT
1 ATAATTTATTTATTATAAAAATATTATATTGTT
23031 ATAA--T-TTTATTAATAAAAATATTAATATTGTT
1 ATAATTTATTTATT-ATAAAAATATT-ATATTGTT
* * *
23063 ATATTTTATTGA-AATAAAAATATTATA
1 ATAATTTATTTATTATAAAAATATTATA
23090 AACTATATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
28 6 0.12
29 12 0.24
30 2 0.04
31 6 0.12
32 8 0.16
33 11 0.22
34 1 0.02
35 3 0.06
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (33 bp):
ATAATTTATTTATTATAAAAATATTATATTGTT
Found at i:23126 original size:93 final size:86
Alignment explanation
Indices: 22989--23159 Score: 189
Period size: 93 Copynumber: 1.9 Consensus size: 86
22979 TATTATTTTT
* * * * * *
22989 AAAATATTAAAATAATTTATTTATTATAAAAATATTATTTTTATAATTTTATTAATAAAAATATT
1 AAAATATTAAAATAATTAATTAATTATAAAAATAATAGTGTTAT-ATTATATT-ATAAAAATATT
*
23054 AATATTGTTATATTTTATTGAAATA
64 AAT-TAG-TATATTTTATTGAAATA
* * *
23079 AAAATATTATAAACTATATTAATTAATTATTAAAATAATAGTGTTATATTATATTTTTAAAATAT
1 AAAATATTA-AAA-TA-ATTAATTAATTATAAAAATAATAGTGTTATATTATATTATAAAAATAT
23144 TAATTAGTATATTTTA
63 TAATTAGTATATTTTA
23160 AATATATTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
89 9 0.13
90 11 0.16
91 15 0.22
92 9 0.13
93 24 0.35
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (86 bp):
AAAATATTAAAATAATTAATTAATTATAAAAATAATAGTGTTATATTATATTATAAAAATATTAA
TTAGTATATTTTATTGAAATA
Found at i:23157 original size:23 final size:23
Alignment explanation
Indices: 23128--23172 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
23118 AGTGTTATAT
23128 TATATTTTTAAA-ATATTAATTAG
1 TATA-TTTTAAATATATTAATTAG
*
23151 TATATTTTAAATATATTTATTA
1 TATATTTTAAATATATTAATTA
23173 AAATATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TATATTTTAAATATATTAATTAG
Found at i:23178 original size:23 final size:22
Alignment explanation
Indices: 23133--23179 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
23123 TATATTATAT
**
23133 TTTTAAAATATTAATTAGTATA
1 TTTTAAAATATTAATTAAAATA
*
23155 TTTTAAATATATTTATTAAAATA
1 TTTTAAA-ATATTAATTAAAATA
23178 TT
1 TT
23180 ATTTGATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTTAAAATATTAATTAAAATA
Found at i:23201 original size:34 final size:34
Alignment explanation
Indices: 23122--23201 Score: 78
Period size: 34 Copynumber: 2.4 Consensus size: 34
23112 AATAATAGTG
23122 TTATATT-ATATTTTTAAAATATTAATTAGTATA
1 TTATATTAATATTTTTAAAATATTAATTAGTATA
* * *
23155 TTTTA-AATATATTTATTAAAATATT-ATTTG-ATTA
1 TTATATTA-ATATTT-TTAAAATATTAATTAGTA-TA
23189 TTATATTAATATT
1 TTATATTAATATT
23202 AAATATATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
33 5 0.14
34 21 0.57
35 11 0.30
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (34 bp):
TTATATTAATATTTTTAAAATATTAATTAGTATA
Found at i:23235 original size:19 final size:19
Alignment explanation
Indices: 23167--23235 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
23157 TTAAATATAT
*
23167 TTATTAA-AATATTATTTGA
1 TTATTAATAATATTA-TTAA
23186 TTATTATATTAATATTA--AA
1 TTATTA-A-TAATATTATTAA
* *
23205 TATATAAATAATATTATTCA
1 T-TATTAATAATATTATTAA
23225 TTATTAATAAT
1 TTATTAATAAT
23236 TTAATAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
18 8 0.20
19 18 0.45
20 7 0.17
22 7 0.17
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (19 bp):
TTATTAATAATATTATTAA
Found at i:29363 original size:18 final size:18
Alignment explanation
Indices: 29340--29377 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
29330 CATTGCAGTG
29340 TTGATTGTATTGATAGCC
1 TTGATTGTATTGATAGCC
29358 TTGATTGTATTGATAGCC
1 TTGATTGTATTGATAGCC
29376 TT
1 TT
29378 CTAACCAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.11, G:0.21, T:0.47
Consensus pattern (18 bp):
TTGATTGTATTGATAGCC
Found at i:32007 original size:17 final size:17
Alignment explanation
Indices: 31981--32041 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 17
31971 TTTATGTTTT
*
31981 TTAATTTTATTTTTTCA
1 TTAATATTATTTTTTCA
31998 TTAATATTA-TTTTT-A
1 TTAATATTATTTTTTCA
*
32013 --AATTTTATTTTTTCA
1 TTAATATTATTTTTTCA
*
32028 TTACTATTATTTTT
1 TTAATATTATTTTT
32042 AAATTATCCC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 5 0.14
15 2 0.06
16 5 0.14
17 18 0.50
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (17 bp):
TTAATATTATTTTTTCA
Found at i:32017 original size:30 final size:30
Alignment explanation
Indices: 31977--32046 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
31967 TTTATTTATG
*
31977 TTTTTTAATTTTATTTTTTCATTAATATTA
1 TTTTTAAATTTTATTTTTTCATTAATATTA
*
32007 TTTTTAAATTTTATTTTTTCATTACTATTA
1 TTTTTAAATTTTATTTTTTCATTAATATTA
32037 TTTTTAAATT
1 TTTTTAAATT
32047 ATCCCATTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (30 bp):
TTTTTAAATTTTATTTTTTCATTAATATTA
Found at i:34599 original size:16 final size:16
Alignment explanation
Indices: 34578--34619 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 16
34568 GGGTGGCTCT
34578 AGAGATTTGTCTTACC
1 AGAGATTTGTCTTACC
34594 AGAGATCTATGTCTTACC
1 AGAGAT-T-TGTCTTACC
34612 AGAGATTT
1 AGAGATTT
34620 ATCGGATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.29
17 2 0.08
18 15 0.62
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (16 bp):
AGAGATTTGTCTTACC
Found at i:34845 original size:23 final size:26
Alignment explanation
Indices: 34804--34869 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 26
34794 GGGCTCCTTT
*
34804 AAAAAAAAATCAATGTTAAGAC-T-TAA
1 AAAAAAAAAT-AA-GTTAAAACATCTAA
34830 AAAAAAAAATAA-TTAAAACATCGTAA
1 AAAAAAAAATAAGTTAAAACATC-TAA
34856 AATAAAAAAATAAG
1 AA-AAAAAAATAAG
34870 GCACCAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
23 6 0.18
24 1 0.03
25 2 0.06
26 15 0.44
27 10 0.29
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.20
Consensus pattern (26 bp):
AAAAAAAAATAAGTTAAAACATCTAA
Found at i:35869 original size:59 final size:59
Alignment explanation
Indices: 35792--35912 Score: 226
Period size: 59 Copynumber: 2.1 Consensus size: 59
35782 CTGTTTGCTG
35792 AGTCAGGCGAGCTTACACTGTTGGGTCTCCCTTATATTGGTTTGCTGGGTCAGGCATGCC
1 AGTCAGGCGAGCTTACACTGTTGGGTCTCCCTTATATT-GTTTGCTGGGTCAGGCATGCC
35852 AGTC-GGCGAGCTTACACTGTTGGGTCTCCCTTATATTGTTTGCTGGGTCAGGCATGCC
1 AGTCAGGCGAGCTTACACTGTTGGGTCTCCCTTATATTGTTTGCTGGGTCAGGCATGCC
35910 AGT
1 AGT
35913 TCAGTTAGGC
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
58 24 0.39
59 33 0.54
60 4 0.07
ACGTcount: A:0.15, C:0.23, G:0.30, T:0.32
Consensus pattern (59 bp):
AGTCAGGCGAGCTTACACTGTTGGGTCTCCCTTATATTGTTTGCTGGGTCAGGCATGCC
Found at i:36011 original size:27 final size:28
Alignment explanation
Indices: 35938--36018 Score: 128
Period size: 28 Copynumber: 2.9 Consensus size: 28
35928 TTCTGGACCT
*
35938 TTGGACATGGATGTGTGTTGGACCTTTG
1 TTGGACATGGATGTGTATTGGACCTTTG
35966 TTGGACATGGATGTGTATTGGACCTTTG
1 TTGGACATGGATGTGTATTGGACCTTTG
* *
35994 TTGGAC-TGGATTTGTATTTGACCTT
1 TTGGACATGGATGTGTATTGGACCTT
36019 GACTATTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
27 17 0.34
28 33 0.66
ACGTcount: A:0.16, C:0.11, G:0.31, T:0.42
Consensus pattern (28 bp):
TTGGACATGGATGTGTATTGGACCTTTG
Found at i:36117 original size:15 final size:14
Alignment explanation
Indices: 36097--36149 Score: 58
Period size: 15 Copynumber: 3.9 Consensus size: 14
36087 TAAGATATAT
36097 AATATATATTTTCAA
1 AATATATATTTT-AA
36112 AATATATA---TAA
1 AATATATATTTTAA
*
36123 TATATATATTTTAA
1 AATATATATTTTAA
36137 AACTATATATTTT
1 AA-TATATATTTT
36150 CATAAGGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
11 9 0.28
12 1 0.03
14 4 0.12
15 18 0.56
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (14 bp):
AATATATATTTTAA
Found at i:36123 original size:24 final size:26
Alignment explanation
Indices: 36091--36146 Score: 89
Period size: 24 Copynumber: 2.2 Consensus size: 26
36081 TATACATAAG
36091 ATATATAATATATAT-TTTCAAAA-T
1 ATATATAATATATATATTTCAAAACT
*
36115 ATATATAATATATATATTTTAAAACT
1 ATATATAATATATATATTTCAAAACT
36141 ATATAT
1 ATATAT
36147 TTTCATAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 15 0.52
25 7 0.24
26 7 0.24
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
ATATATAATATATATATTTCAAAACT
Found at i:36127 original size:26 final size:24
Alignment explanation
Indices: 36091--36146 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 24
36081 TATACATAAG
36091 ATATATAATATATATTTTCAAAA-T
1 ATATATAATATATATTTT-AAAACT
36115 ATATATAATATATATATTTTAAAACT
1 ATATAT-A-ATATATATTTTAAAACT
36141 ATATAT
1 ATATAT
36147 TTTCATAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.21
25 5 0.17
26 18 0.62
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
ATATATAATATATATTTTAAAACT
Found at i:36147 original size:41 final size:41
Alignment explanation
Indices: 36099--36269 Score: 193
Period size: 41 Copynumber: 4.1 Consensus size: 41
36089 AGATATATAA
*
36099 TATATATTTTCAAAATATATATAATATATATATTTTAAAAC
1 TATATATTTTCAAAACATATATAATATATATATTTTAAAAC
* ** *
36140 TATATATTTTCATAAGGTATATAATATATATATTTAGAAAAC
1 TATATATTTTCAAAACATATATAATATATATATTT-TAAAAC
* * * *
36182 TATATGTTTTGTAAAACATATA-ATATATATAGATTTCAAAAC
1 TATATATTTT-CAAAACATATATA-ATATATATATTTTAAAAC
* *
36224 TATATGTTTTCAAAACATATATAATATATGT-TTTTAAAACC
1 TATATATTTTCAAAACATATATAATATATATATTTTAAAA-C
36265 TATAT
1 TATAT
36270 TATATATATA
Statistics
Matches: 110, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
40 7 0.06
41 54 0.49
42 31 0.28
43 18 0.16
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (41 bp):
TATATATTTTCAAAACATATATAATATATATATTTTAAAAC
Found at i:36210 original size:84 final size:85
Alignment explanation
Indices: 36113--36269 Score: 210
Period size: 84 Copynumber: 1.9 Consensus size: 85
36103 TATTTTCAAA
* * * **
36113 ATATATATAATATATATATTTTAAAACTATATATTTTCATAAGGTATATAATATATATATTTAGA
1 ATATATATAATATATAGATTTCAAAACTATATATTTTCAAAACATATATAATATATATATTTA-A
36178 AAACTATATGTTTTGTAAAAC
65 AAACTATATGTTTTGTAAAAC
* * *
36199 ATATA-AT-ATATATAGATTTCAAAACTATATGTTTTCAAAACATATATAATATATGTTTTTAAA
1 ATATATATAATATATAGATTTCAAAACTATATATTTTCAAAACATATATAATATATATATTTAAA
*
36262 ACCTATAT
66 AACTATAT
36270 TATATATATA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
83 9 0.15
84 46 0.74
85 2 0.03
86 5 0.08
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.43
Consensus pattern (85 bp):
ATATATATAATATATAGATTTCAAAACTATATATTTTCAAAACATATATAATATATATATTTAAA
AACTATATGTTTTGTAAAAC
Found at i:36278 original size:26 final size:24
Alignment explanation
Indices: 36224--36276 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
36214 ATTTCAAAAC
36224 TATATGTTTTCAAAACATATATAA
1 TATATGTTTTCAAAACATATATAA
* * *
36248 TATATGTTTTTAAAACCTATATTA
1 TATATGTTTTCAAAACATATATAA
36272 TATAT
1 TATAT
36277 ATATATATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.47
Consensus pattern (24 bp):
TATATGTTTTCAAAACATATATAA
Found at i:36303 original size:34 final size:33
Alignment explanation
Indices: 36240--36312 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 33
36230 TTTTCAAAAC
36240 ATATATAATATATGTTTTTAAAACCTATATTAT-
1 ATATATAATATATGTTTTTAAAACCTATA-TATG
*
36273 ATATATATATATACT-TATTTTAAAA-TTATATATG
1 ATATATA-ATATA-TGT-TTTTAAAACCTATATATG
36307 ATATAT
1 ATATAT
36313 CTACAAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
33 10 0.29
34 16 0.46
35 9 0.26
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (33 bp):
ATATATAATATATGTTTTTAAAACCTATATATG
Found at i:36331 original size:3 final size:3
Alignment explanation
Indices: 36323--36362 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
36313 CTACAAAATG
36323 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
36363 GACAATATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:37794 original size:18 final size:20
Alignment explanation
Indices: 37771--37814 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
37761 TTATAATACT
*
37771 TTTTAAAA-ATATTTTAT-A
1 TTTTAAAATATATTTAATCA
37789 TTTTAAAATATATTTAATCA
1 TTTTAAAATATATTTAATCA
37809 TTTTAA
1 TTTTAA
37815 GATCAAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.35
19 8 0.35
20 7 0.30
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTAAAATATATTTAATCA
Found at i:45212 original size:23 final size:23
Alignment explanation
Indices: 45178--45240 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
45168 CATCTTATAT
* *
45178 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCAATTATACGC
* *
45201 GGCACTTAGGTGCAATTATACGT
1 GGCACTTCGGTGCAATTATACGC
45224 GGCACTTCGGTGCAATT
1 GGCACTTCGGTGCAATT
45241 GAACTAATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTATACGC
Found at i:45716 original size:30 final size:29
Alignment explanation
Indices: 45677--45735 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
45667 GAGAATTTAC
* *
45677 ATGAACTACGTGATTAAATGTATATGTGA
1 ATGAACTACGAGATTAAATGAATATGTGA
* *
45706 ATGAAGCTACGAGTTTATATGAATATGTGA
1 ATGAA-CTACGAGATTAAATGAATATGTGA
45736 TATGTTTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (29 bp):
ATGAACTACGAGATTAAATGAATATGTGA
Found at i:45984 original size:788 final size:788
Alignment explanation
Indices: 44461--46023 Score: 2894
Period size: 788 Copynumber: 2.0 Consensus size: 788
44451 GGAAACTATG
*
44461 TAAATATATTAAATTAGTATATATAGATCAATTATGTAAGTGAAAGGGGAAATGAGATAAGATAA
1 TAAATAGATTAAATTAGTATATATAGATCAATTATGTAAGTGAAAGGGGAAATGAGATAAGATAA
*
44526 GTAGAAATTATTTATAGGATAGAATGAGACTATTTGAACATGTATTATAAACTTTATAAAGGATA
66 GTAGAAATTATTTATAGGATAGAATGAGACTATTTGAACATATATTATAAACTTTATAAAGGATA
*
44591 ACTTAGATTAAATCATTATATGATATAAATATAGGGCATTACTATGTAAATTACATTAAAGAGAC
131 ACTTAGATTAAAACATTATATGATATAAATATAGGGCATTACTATGTAAATTACATTAAAGAGAC
*
44656 ATGTTTACACGATTACAAGATATGATACAGGACATTAGATATATGAAAGAGAAAGTATATGTGAT
196 ATGTTTACACGATTACAAGATATGATACAAGACATTAGATATATGAAAGAGAAAGTATATGTGAT
44721 ATGAGAAAGTGAAACAAGTTAAATGATATTGAATCAGGTGAATATAAGAGATTAAAGCATAAATT
261 ATGAGAAAGTGAAACAAGTTAAATGATATTGAATCAGGTGAATATAAGAGATTAAAGCATAAATT
*
44786 ATACGAAAAGATATAAGTCATAGGATATGACATGGTTATAGGAACACATGAGAAGTGTTATATGC
326 ATACGAAAAGATATAAGTCATAGGATATGACATGGTTATAGGAACACATGAGAAGTGTAATATGC
*
44851 CATGTGATACATTAATACGAAATGATATAAGAATTTACATGAACTACGTGATTAAATGTATATGT
391 CATGTGATACATGAATACGAAATGATATAAGAATTTACATGAACTACGTGATTAAATGTATATGT
* *
44916 GAATGAAGCAACGAGTTTATATGAATATGTGATATGTTTACATGAATATTAACAAGGATATAAAA
456 GAATGAAGCAACGAGTTTATATGAATATGTGATATGTTTACATGAATATGAAAAAGGATATAAAA
44981 GATAATGCCCATGATATGTGTCATGAGAGCTAGGGGTATAGTTGGCATGCCAAGAGTCGAGGGTC
521 GATAATGCCCATGATATGTGTCATGAGAGCTAGGGGTATAGTTGGCATGCCAAGAGTCGAGGGTC
*
45046 TACGCGGTCCTTCGAGACATATATGTATCCTTTAGAACATCTATGAGGTCTTTTGAGACACATAC
586 TACGCGGTCCTTCGAGACATATATGTATCATTTAGAACATCTATGAGGTCTTTTGAGACACATAC
**
45111 TTGGTCCTTGGAATATGTATATGGATCTAAAGGAATTTTCTACGTGGTCCTCTAGGACATCTTAT
651 TTGGTCCTTGGAATATGTATATGGATCTAAAGGAATTTTCTACGTAATCCTCTAGGACATCTTAT
*
45176 ATGGCACTTCGGTGCATTTCTACGCGGCACTTAGGTGCAATTATACGTGGCACTTCGGTGCAATT
716 ATGGAACTTCGGTGCATTTCTACGCGGCACTTAGGTGCAATTATACGTGGCACTTCGGTGCAATT
45241 GAACTAAT
781 GAACTAAT
*
45249 TAAATAGATTAAATTAGTATATATAGATGAATTATGTAAGTGAAAGGGGAAATGAGATAAGATAA
1 TAAATAGATTAAATTAGTATATATAGATCAATTATGTAAGTGAAAGGGGAAATGAGATAAGATAA
45314 GTAGAAATTATTTATAGGATAGAATGAGACTATTTGAACATATATTATAAACTTTATAAAGGATA
66 GTAGAAATTATTTATAGGATAGAATGAGACTATTTGAACATATATTATAAACTTTATAAAGGATA
* * *
45379 ACTTAGGTTAAAACATTATATGATATAAATATAGGGCGTTACTATGTAAATTACATTATAGAGAC
131 ACTTAGATTAAAACATTATATGATATAAATATAGGGCATTACTATGTAAATTACATTAAAGAGAC
45444 ATGTTTACACGATTACAAGATATGATACAAGACATTAGATATATGAAAGAGAAAGTATATGTGAT
196 ATGTTTACACGATTACAAGATATGATACAAGACATTAGATATATGAAAGAGAAAGTATATGTGAT
45509 ATGAGAAAGTGAAACAAGTTAAATGATATTGAATCAGGTGAATATAAGAGATTAAAGCATAAATT
261 ATGAGAAAGTGAAACAAGTTAAATGATATTGAATCAGGTGAATATAAGAGATTAAAGCATAAATT
45574 ATACGAAAAGATATAAGTCATAGGATATGACATGGTTATAGGAACACATGAGAAGTGTAATATGC
326 ATACGAAAAGATATAAGTCATAGGATATGACATGGTTATAGGAACACATGAGAAGTGTAATATGC
*
45639 CATGTGATACATGAATACGAAATGATATGAGAATTTACATGAACTACGTGATTAAATGTATATGT
391 CATGTGATACATGAATACGAAATGATATAAGAATTTACATGAACTACGTGATTAAATGTATATGT
*
45704 GAATGAAGCTACGAGTTTATATGAATATGTGATATGTTTACATGAATATGAAAAAGGATATAAAA
456 GAATGAAGCAACGAGTTTATATGAATATGTGATATGTTTACATGAATATGAAAAAGGATATAAAA
*
45769 GATAATGCCCATGATATGTGTCATGAGAGCTAGTGGTATAGTTGGCATGCCAAGAGTCGAGGGTC
521 GATAATGCCCATGATATGTGTCATGAGAGCTAGGGGTATAGTTGGCATGCCAAGAGTCGAGGGTC
*
45834 TACGCGGTCCTTCGAGACATATATGTATCATTTGGAACATCTATGAGGTCTTTTGAGACACATAC
586 TACGCGGTCCTTCGAGACATATATGTATCATTTAGAACATCTATGAGGTCTTTTGAGACACATAC
*
45899 TTGGTCCTTGGAATATGTATATGGATCTAAAGGAATTTTCTACGTAATCCTC-AGGGACTTCTTA
651 TTGGTCCTTGGAATATGTATATGGATCTAAAGGAATTTTCTACGTAATCCTCTA-GGACATCTTA
* * *
45963 TATGGAACTTCGGTGCATTTCTACGCGGCATTTAGGTGCAATTCTACGTGGCACTTTGGTG
715 TATGGAACTTCGGTGCATTTCTACGCGGCACTTAGGTGCAATTATACGTGGCACTTCGGTG
46024 TATTTATACG
Statistics
Matches: 750, Mismatches: 24, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
787 1 0.00
788 749 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (788 bp):
TAAATAGATTAAATTAGTATATATAGATCAATTATGTAAGTGAAAGGGGAAATGAGATAAGATAA
GTAGAAATTATTTATAGGATAGAATGAGACTATTTGAACATATATTATAAACTTTATAAAGGATA
ACTTAGATTAAAACATTATATGATATAAATATAGGGCATTACTATGTAAATTACATTAAAGAGAC
ATGTTTACACGATTACAAGATATGATACAAGACATTAGATATATGAAAGAGAAAGTATATGTGAT
ATGAGAAAGTGAAACAAGTTAAATGATATTGAATCAGGTGAATATAAGAGATTAAAGCATAAATT
ATACGAAAAGATATAAGTCATAGGATATGACATGGTTATAGGAACACATGAGAAGTGTAATATGC
CATGTGATACATGAATACGAAATGATATAAGAATTTACATGAACTACGTGATTAAATGTATATGT
GAATGAAGCAACGAGTTTATATGAATATGTGATATGTTTACATGAATATGAAAAAGGATATAAAA
GATAATGCCCATGATATGTGTCATGAGAGCTAGGGGTATAGTTGGCATGCCAAGAGTCGAGGGTC
TACGCGGTCCTTCGAGACATATATGTATCATTTAGAACATCTATGAGGTCTTTTGAGACACATAC
TTGGTCCTTGGAATATGTATATGGATCTAAAGGAATTTTCTACGTAATCCTCTAGGACATCTTAT
ATGGAACTTCGGTGCATTTCTACGCGGCACTTAGGTGCAATTATACGTGGCACTTCGGTGCAATT
GAACTAAT
Found at i:46000 original size:23 final size:23
Alignment explanation
Indices: 45969--46033 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
45959 CTTATATGGA
*
45969 ACTTCGGTGCATTTCTACGCGGC
1 ACTTTGGTGCATTTCTACGCGGC
* *
45992 A-TTTAGGTGCAATTCTACGTGGC
1 ACTTT-GGTGCATTTCTACGCGGC
* *
46015 ACTTTGGTGTATTTATACG
1 ACTTTGGTGCATTTCTACG
46034 AACTATGGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 2 0.06
23 29 0.85
24 3 0.09
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (23 bp):
ACTTTGGTGCATTTCTACGCGGC
Found at i:46468 original size:2 final size:2
Alignment explanation
Indices: 46461--46487 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
46451 AAGGAAATTG
46461 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
46488 TTATGTTTGG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47510 original size:30 final size:29
Alignment explanation
Indices: 47471--47529 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
47461 GAGAATTTAC
* *
47471 ATGAACTACGTGATTAAATGTATATGTGA
1 ATGAACTACGAGATTAAATGAATATGTGA
* *
47500 ATGAAGCTACGAGTTTATATGAATATGTGA
1 ATGAA-CTACGAGATTAAATGAATATGTGA
47530 TATGTTTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (29 bp):
ATGAACTACGAGATTAAATGAATATGTGA
Found at i:47794 original size:23 final size:23
Alignment explanation
Indices: 47760--47821 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
47750 CATCTTATAT
47760 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * *
47783 GGCACTTAGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
47806 GGCACTTCGGTGCATT
1 GGCACTTCGGTGCATT
47822 ATACGAGCTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.16, C:0.26, G:0.27, T:0.31
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:49305 original size:30 final size:29
Alignment explanation
Indices: 49266--49324 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
49256 AAGAATTTAC
* *
49266 ATGAACTACGTGATTAAATGTATATGTGA
1 ATGAACTACGAGATTAAATGAATATGTGA
* *
49295 ATGAAGCTACGAGTTTATATGAATATGTGA
1 ATGAA-CTACGAGATTAAATGAATATGTGA
49325 TATGTTTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (29 bp):
ATGAACTACGAGATTAAATGAATATGTGA
Found at i:49645 original size:23 final size:23
Alignment explanation
Indices: 49554--49637 Score: 141
Period size: 23 Copynumber: 3.7 Consensus size: 23
49544 ACATCTTATA
*
49554 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
49577 CGGCACTTAGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
49600 TGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
49623 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
49638 TTTATACGAG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.17, C:0.26, G:0.27, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:51386 original size:23 final size:23
Alignment explanation
Indices: 51360--51421 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
51350 CATCTTATAT
**
51360 GGCACTTCGGTGCATTTCTATGC
1 GGCACTTCGGTGCATTTCTACAC
* * * * *
51383 GGCACTTAGCTGTAATTCTACAT
1 GGCACTTCGGTGCATTTCTACAC
51406 GGCACTTCGGTGCATT
1 GGCACTTCGGTGCATT
51422 ATACGAGCTG
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACAC
Found at i:51861 original size:2 final size:2
Alignment explanation
Indices: 51854--51882 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
51844 ACGGAAATTG
51854 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
51883 TATGTTTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:53243 original size:23 final size:23
Alignment explanation
Indices: 53152--53235 Score: 141
Period size: 23 Copynumber: 3.7 Consensus size: 23
53142 ACATCTTATA
*
53152 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
53175 CGGCACTTAGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
53198 TGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
53221 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
53236 TTTATACGAG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.17, C:0.26, G:0.27, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:54705 original size:30 final size:29
Alignment explanation
Indices: 54666--54724 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
54656 AAGAATTTAC
* *
54666 ATGAACTACGTGATTAAATGTATATGTGA
1 ATGAACTACGAGATTAAATGAATATGTGA
* *
54695 ATGAAGCTACGAGTTTATATGAATATGTGA
1 ATGAA-CTACGAGATTAAATGAATATGTGA
54725 TATGTTTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (29 bp):
ATGAACTACGAGATTAAATGAATATGTGA
Found at i:54988 original size:23 final size:23
Alignment explanation
Indices: 54953--55029 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
54943 ACATCTTATA
* *
54953 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTAGGTGCAATTCTACG
*
54976 CGGCACTTAGGTGCAATTCTACG
1 TGGCACTTAGGTGCAATTCTACG
*
54999 TGGCACTTCGGTGCAATTCTACG
1 TGGCACTTAGGTGCAATTCTACG
*
55022 TGGAACTT
1 TGGCACTT
55030 TAGTGCATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.31
Consensus pattern (23 bp):
TGGCACTTAGGTGCAATTCTACG
Found at i:56514 original size:30 final size:29
Alignment explanation
Indices: 56475--56533 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
56465 GAGAATTTAC
* *
56475 ATGAACTACGTGATTAAATGTATATGTGA
1 ATGAACTACGAGATTAAATGAATATGTGA
* *
56504 ATGAAGCTACGAGTTTATATGAATATGTGA
1 ATGAA-CTACGAGATTAAATGAATATGTGA
56534 TATGTTTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (29 bp):
ATGAACTACGAGATTAAATGAATATGTGA
Found at i:56798 original size:23 final size:23
Alignment explanation
Indices: 56763--56845 Score: 114
Period size: 23 Copynumber: 3.7 Consensus size: 23
56753 ACATCTTATA
*
56763 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
56786 CGGCACTTAGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
56809 TGGCACTTCGGTGTAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
56832 TGGAAC-TCGGTGCA
1 TGGCACTTCGGTGCA
56846 TTTATACGAG
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
22 7 0.13
23 45 0.87
ACGTcount: A:0.18, C:0.24, G:0.28, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:57289 original size:2 final size:2
Alignment explanation
Indices: 57282--57326 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
57272 AAGAAAATTG
57282 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57324 TA T
1 TA T
57327 TTATGTTTGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:58643 original size:23 final size:23
Alignment explanation
Indices: 58607--58666 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
58597 ATGACATTTT
58607 GGTGAATTTATACGTGGCACTTA
1 GGTGAATTTATACGTGGCACTTA
*
58630 GGTGCAATTT-TACGTGGCACTTT
1 GGTG-AATTTATACGTGGCACTTA
* *
58653 GATGCATTTATACG
1 GGTGAATTTATACG
58667 AGCTGTGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 4 0.12
23 23 0.72
24 5 0.16
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (23 bp):
GGTGAATTTATACGTGGCACTTA
Found at i:59926 original size:18 final size:19
Alignment explanation
Indices: 59900--59936 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
59890 AAGACATTAG
59900 ATATATGATA-GAGAAAGT
1 ATATATGATATGAGAAAGT
*
59918 ATATGTGATATGAGAAAGT
1 ATATATGATATGAGAAAGT
59937 GAAACAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (19 bp):
ATATATGATATGAGAAAGT
Found at i:60134 original size:30 final size:29
Alignment explanation
Indices: 60095--60153 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
60085 GAGAATTTAC
* *
60095 ATGAACTACGTGATTAAATGTATATGTGA
1 ATGAACTACGAGATTAAATGAATATGTGA
* *
60124 ATGAAGCTACGAGTTTATATGAATATGTGA
1 ATGAA-CTACGAGATTAAATGAATATGTGA
60154 TATGTTTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (29 bp):
ATGAACTACGAGATTAAATGAATATGTGA
Found at i:60474 original size:23 final size:23
Alignment explanation
Indices: 60383--60466 Score: 105
Period size: 23 Copynumber: 3.7 Consensus size: 23
60373 ACATCATATA
*
60383 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* * * * *
60406 CGGCAATTAGGTGAAATTCTACA
1 TGGCACTTCGGTGCAATTCTACG
*
60429 TGGCACTTTGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
60452 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
60467 TTTATACGAG
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:62737 original size:21 final size:21
Alignment explanation
Indices: 62711--62767 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
62701 TTTTACACTT
62711 AGGGAACCGATTCCCTATGAG
1 AGGGAACCGATTCCCTATGAG
62732 AGGGAACCGATTCCCTATGAG
1 AGGGAACCGATTCCCTATGAG
*
62753 AGGGTACCGATTCCC
1 AGGGAACCGATTCCC
62768 CCACGCTCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.19
Consensus pattern (21 bp):
AGGGAACCGATTCCCTATGAG
Found at i:62984 original size:13 final size:13
Alignment explanation
Indices: 62963--63017 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
62953 AAGTTCGATA
*
62963 AATTCAAATACTT
1 AATTGAAATACTT
62976 AATTGAAATACTT
1 AATTGAAATACTT
* *
62989 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
63003 AATTGAAATACTT
1 AATTGAAATACTT
63016 AA
1 AA
63018 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:63099 original size:32 final size:33
Alignment explanation
Indices: 63003--63101 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
62993 AACTCAACAT
* * *
63003 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
63036 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
63069 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
63101 A
1 A
63102 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:63120 original size:21 final size:21
Alignment explanation
Indices: 63096--63137 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
63086 ACTTCAAGTT
*
63096 CGATAATTGAAACAAAGTTTA
1 CGATAATTAAAACAAAGTTTA
*
63117 CGATAATTAAAATAAAGTTTA
1 CGATAATTAAAACAAAGTTTA
63138 AAAATAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.31
Consensus pattern (21 bp):
CGATAATTAAAACAAAGTTTA
Found at i:65804 original size:23 final size:23
Alignment explanation
Indices: 65770--65831 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
65760 CATCTTATAT
*
65770 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTAGGTGCATTTCTACGC
* * *
65793 GGCACTTAGGTGCAATTCTATGT
1 GGCACTTAGGTGCATTTCTACGC
*
65816 GGCACTTTGGTGCATT
1 GGCACTTAGGTGCATT
65832 ATACGAGCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.16, C:0.23, G:0.27, T:0.34
Consensus pattern (23 bp):
GGCACTTAGGTGCATTTCTACGC
Found at i:67587 original size:23 final size:23
Alignment explanation
Indices: 67553--67645 Score: 132
Period size: 23 Copynumber: 4.0 Consensus size: 23
67543 CATCTTATAT
*
67553 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
* *
67576 GGCACTTAGGTGCAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGC
*
67599 GGCACTTCGGTGCAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGC
* *
67622 GGCACTTCGGTGCATTTATACGC
1 GGCACTTCGGTGCAATTCTACGC
67645 G
1 G
67646 CTGTGGTCAC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.17, C:0.26, G:0.27, T:0.30
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:69393 original size:23 final size:23
Alignment explanation
Indices: 69358--69426 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
69348 ACATTTTATA
*
69358 TGGCATTTTGGTGAATTTATACG
1 TGGCACTTTGGTGAATTTATACG
* *
69381 TGGCACTTAGGTGCAATTT-TATG
1 TGGCACTTTGGTG-AATTTATACG
* *
69404 TGGCACTTTGATGCATTTATACG
1 TGGCACTTTGGTGAATTTATACG
69427 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 4 0.11
23 28 0.76
24 5 0.14
ACGTcount: A:0.22, C:0.13, G:0.25, T:0.41
Consensus pattern (23 bp):
TGGCACTTTGGTGAATTTATACG
Found at i:74649 original size:23 final size:22
Alignment explanation
Indices: 74616--74677 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
74606 ATCTTATATG
74616 GCACTTCGGTGCATTTTAACGTA
1 GCACTTCGGTGCATTTT-ACGTA
* * *
74639 GCACTTAGGTGCAATTCTACGTG
1 GCACTTCGGTGC-ATTTTACGTA
*
74662 GCGCTTCGGTGCATTT
1 GCACTTCGGTGCATTT
74678 ATATGAGATG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 3 0.09
23 25 0.78
24 4 0.12
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.34
Consensus pattern (22 bp):
GCACTTCGGTGCATTTTACGTA
Found at i:80211 original size:68 final size:68
Alignment explanation
Indices: 80138--80274 Score: 229
Period size: 68 Copynumber: 2.0 Consensus size: 68
80128 TAGTCTTTTA
* * * *
80138 CTCAAAGGCATTTAGCCTTTCATCTAACTGACATAATTGACATCTTTCTGTCAAATGCACAGCTA
1 CTCAAAGACACTTAGCCTTTCATCTAACTGACATAATTGACACCTTTCTGTCAAATGCACAACTA
80203 GGC
66 GGC
*
80206 CTCAAAGACACTTAGCCTTTCATCTAACTGACATAATTGACACCTTTTTGTCAAATGCACAACTA
1 CTCAAAGACACTTAGCCTTTCATCTAACTGACATAATTGACACCTTTCTGTCAAATGCACAACTA
80271 GGC
66 GGC
80274 C
1 C
80275 ATTAATCTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (68 bp):
CTCAAAGACACTTAGCCTTTCATCTAACTGACATAATTGACACCTTTCTGTCAAATGCACAACTA
GGC
Found at i:80619 original size:55 final size:55
Alignment explanation
Indices: 80490--81154 Score: 870
Period size: 55 Copynumber: 12.1 Consensus size: 55
80480 GATGCGCACG
* * * * * *
80490 TAGTGCCTATACGG-TAGTTCATCAACTCATAATGAATTTCGTGG-GTTGCACACA
1 TAGTGCTTGTACGGTTA-TTCATCAACTCATGATGAATTCCATGGATTTGCACACA
* * * * * *
80544 TCGTGCATGTACGGTTATTCATCAAGTCATAATGAATTCCATGAATTTGGACACA
1 TAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCCATGGATTTGCACACA
80599 TAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCCATGGATTTGCACACA
1 TAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCCATGGATTTGCACACA
* * * *
80654 TAGTGCATGTACGGTTATTCATCAACTCATGATTAATTCTATTGATTTGCACACA
1 TAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCCATGGATTTGCACACA
* * *
80709 TAGTGCTTGTACGGTTATTCATCAACTCATGATAAATTCCGTGGATTTGTACACA
1 TAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCCATGGATTTGCACACA
* * *
80764 TAGTGCTTGTATGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCATACA
1 TAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCCATGGATTTGCACACA
* * *
80819 TAGTGCCTCTACGGTTATTCATCCACTCATGATGAATT-CATTGGATTTGCACACA
1 TAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCCA-TGGATTTGCACACA
* ** *
80874 TAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATTTGCAGACA
1 TAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCCATGGATTTGCACACA
* * ***
80929 TAGTGCATGTACGGTTATTCATCAATTCATGATGAATTTTGTGGATTTGCACACA
1 TAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCCATGGATTTGCACACA
* * * * *
80984 TAGTGCCTGTAAGGTTATTCATCAACTCATGATGAATTTCATGGATTTTCACACC
1 TAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCCATGGATTTGCACACA
*** * *
81039 TAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCTGCGGATTTGCATACT
1 TAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCCATGGATTTGCACACA
*
81094 TAGTG-TCTGTACGGTTATTCATCAACTCATGATGAATTCAATGGATTTGCACACA
1 TAGTGCT-TGTACGGTTATTCATCAACTCATGATGAATTCCATGGATTTGCACACA
81149 TAGTGC
1 TAGTGC
81155 CTATTTGGTA
Statistics
Matches: 540, Mismatches: 65, Indels: 10
0.88 0.11 0.02
Matches are distributed among these distances:
54 36 0.07
55 504 0.93
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (55 bp):
TAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCCATGGATTTGCACACA
Found at i:81593 original size:20 final size:20
Alignment explanation
Indices: 81570--81641 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
81560 CATCTTTATA
81570 GTATCGATACTCCCCTCTTG
1 GTATCGATACTCCCCTCTTG
* * * *
81590 GTATCGATAC-CACTTAAATCG
1 GTATCGATACTCCCCT--CTTG
81611 GTATCGATACTCCCCTCTTG
1 GTATCGATACTCCCCTCTTG
81631 GTATCGATACT
1 GTATCGATACT
81642 ACTTGAATCG
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
19 3 0.07
20 23 0.56
21 12 0.29
22 3 0.07
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.33
Consensus pattern (20 bp):
GTATCGATACTCCCCTCTTG
Found at i:81624 original size:41 final size:40
Alignment explanation
Indices: 81548--81662 Score: 169
Period size: 41 Copynumber: 2.8 Consensus size: 40
81538 TTGTTAACAA
* *
81548 TGGTATCGATACCATCTTTAT-AGTATCGATACTCCCCTCT
1 TGGTATCGATACCA-CTTAATCGGTATCGATACTCCCCTCT
81588 TGGTATCGATACCACTTAAATCGGTATCGATACTCCCCTCT
1 TGGTATCGATACCACTT-AATCGGTATCGATACTCCCCTCT
*
81629 TGGTATCGATACTACTTGAATCGGTATCGATACT
1 TGGTATCGATACCACTT-AATCGGTATCGATACT
81663 ACTGAGCGAA
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
39 3 0.04
40 16 0.23
41 50 0.72
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (40 bp):
TGGTATCGATACCACTTAATCGGTATCGATACTCCCCTCT
Found at i:81662 original size:21 final size:20
Alignment explanation
Indices: 81589--81665 Score: 75
Period size: 21 Copynumber: 3.8 Consensus size: 20
81579 CTCCCCTCTT
*
81589 GGTATCGATACCACTTAAATC
1 GGTATCGATACTACTT-AATC
* * * *
81610 GGTATCGATACTCCCCT-CTT
1 GGTATCGATACT-ACTTAATC
81630 GGTATCGATACTACTTGAATC
1 GGTATCGATACTACTT-AATC
81651 GGTATCGATACTACT
1 GGTATCGATACTACT
81666 GAGCGAATTC
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
19 2 0.05
20 13 0.30
21 27 0.61
22 2 0.05
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (20 bp):
GGTATCGATACTACTTAATC
Found at i:85346 original size:24 final size:24
Alignment explanation
Indices: 85306--85373 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
85296 TAAAGTTGAA
*
85306 TTATAAATT-GGGTAATTCAACTG
1 TTATGAATTAGGGTAATTCAACTG
85329 TTATGAATTAGGGTAATTCAACTG
1 TTATGAATTAGGGTAATTCAACTG
*
85353 TT-TCGAATTAGGATAATTCAA
1 TTAT-GAATTAGGGTAATTCAA
85374 TGCTGCGTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
23 9 0.22
24 32 0.78
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (24 bp):
TTATGAATTAGGGTAATTCAACTG
Found at i:85568 original size:2 final size:2
Alignment explanation
Indices: 85561--85602 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
85551 TCATCTTTAG
85561 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA 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
85601 TA
1 TA
85603 ATTCTAGTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:87513 original size:26 final size:26
Alignment explanation
Indices: 87483--87538 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
87473 TGGTCATGAA
87483 ATTACTAAGGCACATAATCTGAAAAG
1 ATTACTAAGGCACATAATCTGAAAAG
87509 ATTACTAAGGCACATAATCTGAAAAG
1 ATTACTAAGGCACATAATCTGAAAAG
87535 ATTA
1 ATTA
87539 TCAGATCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (26 bp):
ATTACTAAGGCACATAATCTGAAAAG
Done.