Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004608.1 Hibiscus syriacus cultivar Beakdansim tig00010299_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: 91270
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Found at i:5356 original size:91 final size:90
Alignment explanation
Indices: 5193--5533 Score: 513
Period size: 91 Copynumber: 3.8 Consensus size: 90
5183 ATAAATTTTA
* * *
5193 TTTTAAATTTTTATTAATAATCTATTTT-ATTGCTAAAATTTTAAAAGTTTAATTCTAACATAAA
1 TTTTATATTTTTATTAATAATCTATTTTCATTCCTAAAATTTTAAAAGTTTAATCCTAACATAAA
*
5257 ATTTTATTTCATATATTTTAGATTT
66 ATTCTATTTCATATATTTTAGATTT
* * *
5282 TTTTATATTTTTATTAATAATCTATTTTCATTCCTGAAACTTTAAAAAGTTTAATCTTAACATAA
1 TTTTATATTTTTATTAATAATCTATTTTCATTCCT-AAAATTTTAAAAGTTTAATCCTAACATAA
* * *
5347 GAGTCTATTTCATATATTTTAAATTT
65 AATTCTATTTCATATATTTTAGATTT
*
5373 TTTTATATTTTTATTAATAATCTATTTTCATTCCTAAAATATATTAAAATTTTAATCCTAACATA
1 TTTTATATTTTTATTAATAATCTATTTTCATTCCTAAAAT-T-TTAAAAGTTTAATCCTAACATA
5438 AAATTCTATTTCATATATTTTAGATTAT
64 AAATTCTATTTCATATATTTTAGATT-T
** *
5466 TTTTATATTTTTATTAATAATCTATTTTCATTTTTAAAATTTTAAAAGTTTAATCCTAGCATAAA
1 TTTTATATTTTTATTAATAATCTATTTTCATTCCTAAAATTTTAAAAGTTTAATCCTAACATAAA
5531 ATT
66 ATT
5534 TTATGTCCAT
Statistics
Matches: 226, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
89 27 0.12
90 9 0.04
91 108 0.48
92 43 0.19
93 39 0.17
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (90 bp):
TTTTATATTTTTATTAATAATCTATTTTCATTCCTAAAATTTTAAAAGTTTAATCCTAACATAAA
ATTCTATTTCATATATTTTAGATTT
Found at i:5515 original size:183 final size:182
Alignment explanation
Indices: 5184--5529 Score: 536
Period size: 183 Copynumber: 1.9 Consensus size: 182
5174 TAAATTTTTA
* *
5184 TAAATTTTATTTTAAATTTTTATTAATAATCTATTTTATTGCTAAAATTTTAAAAGTTTAATTCT
1 TAAATTTTATTTTAAATTTTTATTAATAATCTATTTTATTCCTAAAATTTTAAAAGTTTAATCCT
*
5249 AACATAAAATTTTATTTCATATATTTTAGATTTTTTTATATTTTTATTAATAATCTATTTTCATT
66 AACATAAAATTCTATTTCATATATTTTAGATTTTTTTATATTTTTATTAATAATCTATTTTCATT
* *
5314 CCTGAAACTTTAAAAAGTTTAATCTTAACATAAGAGTCTATTTCATATATTT
131 CCTGAAAATTTAAAAAGTTTAATCCTAACATAAGAGTCTATTTCATATATTT
* *
5366 TAAA-TTT-TTTTATATTTTTATTAATAATCTATTTTCATTCCTAAAATATATTAAAATTTTAAT
1 TAAATTTTATTTTAAATTTTTATTAATAATCTATTTT-ATTCCTAAAAT-T-TTAAAAGTTTAAT
5429 CCTAACATAAAATTCTATTTCATATATTTTAGATTATTTTTATATTTTTATTAATAATCTATTTT
63 CCTAACATAAAATTCTATTTCATATATTTTAGATT-TTTTTATATTTTTATTAATAATCTATTTT
* * * *
5494 CATT-TTTAAAATTTTAAAAGTTTAATCCTAGCATAA
127 CATTCCTGAAAATTTAAAAAGTTTAATCCTAACATAA
5530 AATTTTATGT
Statistics
Matches: 149, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
180 27 0.18
181 13 0.09
182 5 0.03
183 71 0.48
184 33 0.22
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (182 bp):
TAAATTTTATTTTAAATTTTTATTAATAATCTATTTTATTCCTAAAATTTTAAAAGTTTAATCCT
AACATAAAATTCTATTTCATATATTTTAGATTTTTTTATATTTTTATTAATAATCTATTTTCATT
CCTGAAAATTTAAAAAGTTTAATCCTAACATAAGAGTCTATTTCATATATTT
Found at i:11724 original size:28 final size:28
Alignment explanation
Indices: 11692--11747 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
11682 CTCGTCGGCG
11692 TTCTCAATTCATGCTTCAATCAATCATA
1 TTCTCAATTCATGCTTCAATCAATCATA
11720 TTCTCAATTCATGCTTCAATCAATCATA
1 TTCTCAATTCATGCTTCAATCAATCATA
11748 GTAGGGGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.39
Consensus pattern (28 bp):
TTCTCAATTCATGCTTCAATCAATCATA
Found at i:11742 original size:16 final size:16
Alignment explanation
Indices: 11695--11743 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
11685 GTCGGCGTTC
11695 TCAATTCATGCTTCAA
1 TCAATTCATGCTTCAA
*
11711 TCAA-TCAT-ATTC--
1 TCAATTCATGCTTCAA
11723 TCAATTCATGCTTCAA
1 TCAATTCATGCTTCAA
11739 TCAAT
1 TCAAT
11744 CATAGTAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
12 4 0.15
13 4 0.15
14 6 0.22
15 4 0.15
16 9 0.33
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (16 bp):
TCAATTCATGCTTCAA
Found at i:16394 original size:25 final size:25
Alignment explanation
Indices: 16360--16420 Score: 106
Period size: 25 Copynumber: 2.4 Consensus size: 25
16350 CGGTAGACTC
16360 TCTTTCTCGTTGAAGATGCATTGAT
1 TCTTTCTCGTTGAAGATGCATTGAT
16385 TCTTTCTCGTTGAAGATGCATTGAT
1 TCTTTCTCGTTGAAGATGCATTGAT
16410 TCTCTT-TCGTT
1 TCT-TTCTCGTT
16421 TTGCAGCTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 33 0.94
26 2 0.06
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.48
Consensus pattern (25 bp):
TCTTTCTCGTTGAAGATGCATTGAT
Found at i:16589 original size:33 final size:33
Alignment explanation
Indices: 16552--16616 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
16542 CCACTGCTTC
*
16552 AATGGTGGAAATCAAA-AATCCCTTTTTTAATCA
1 AATGGTGCAAATCAAACAA-CCCTTTTTTAATCA
16585 AATGGTGCAAATCAAACAACCCTTTTTTAATC
1 AATGGTGCAAATCAAACAACCCTTTTTTAATC
16617 TAATTCATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.32
Consensus pattern (33 bp):
AATGGTGCAAATCAAACAACCCTTTTTTAATCA
Found at i:21518 original size:103 final size:103
Alignment explanation
Indices: 21334--21551 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
21324 GTCGAGGGTC
*
21334 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATATGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGAGACATATATGTATTCTTTGGAACATATGTGAAGTCTGGTGAGACACATAC
* *
21399 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
21437 TATGTGGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGAGACATATATGTATTCTTTGGAACATATGTGAAGTCTGGTGAGACACATAC
*
21502 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
21540 TATGTGGTCCTT
1 TATGTGGTCCTT
21552 ATGGATATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGAGACATATATGTATTCTTTGGAACATATGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:21606 original size:23 final size:23
Alignment explanation
Indices: 21580--21635 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
21570 CACTACAGTA
21580 CAATTCTACGCGGCACTCCGGTG
1 CAATTCTACGCGGCACTCCGGTG
* *
21603 CAATTCTACGTGGCACTTCGGTG
1 CAATTCTACGCGGCACTCCGGTG
* *
21626 TAATTATACG
1 CAATTCTACG
21636 AGCTGTGGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (23 bp):
CAATTCTACGCGGCACTCCGGTG
Found at i:23269 original size:21 final size:21
Alignment explanation
Indices: 23239--23468 Score: 174
Period size: 21 Copynumber: 11.0 Consensus size: 21
23229 GATTTACATA
* *
23239 TTCGCATTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
23260 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
23283 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
23302 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
* *
23325 --CTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
23344 TTCGCGTTGCGATTTATTCGAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
23367 --CTCGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
23386 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
23409 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
23428 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
23451 TT--CGTTACGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
23469 AATCGCAACG
Statistics
Matches: 168, Mismatches: 23, Indels: 38
0.73 0.10 0.17
Matches are distributed among these distances:
19 39 0.23
21 86 0.51
23 43 0.26
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:23296 original size:42 final size:42
Alignment explanation
Indices: 23245--23465 Score: 379
Period size: 42 Copynumber: 5.3 Consensus size: 42
23235 CATATTCGCA
23245 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
*
23287 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGCTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
* *
23329 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCGAAGCTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
* *
23371 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
*
23413 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
*
23455 TTACGATAGTC
1 TTGCGATAGTC
23466 CAAAATCGCA
Statistics
Matches: 171, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 171 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (42 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
Found at i:23564 original size:6 final size:6
Alignment explanation
Indices: 23553--23590 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
23543 AGACACGTAT
23553 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GA
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GA
23591 GACGAGACGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.34, C:0.47, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:24095 original size:6 final size:6
Alignment explanation
Indices: 24079--24128 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
24069 GTCCGTCTCG
** *
24079 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTAAT AGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
24126 GGT
1 GGT
24129 AATACGTGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
5 5 0.13
6 33 0.87
ACGTcount: A:0.06, C:0.14, G:0.48, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:24132 original size:18 final size:18
Alignment explanation
Indices: 24097--24132 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
24087 CGTGGTCGTG
24097 GTCGTGGTCGTGGTAATA
1 GTCGTGGTCGTGGTAATA
24115 GTCGTGGTCGTGGTAATA
1 GTCGTGGTCGTGGTAATA
24133 CGTGTCTTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.39, T:0.33
Consensus pattern (18 bp):
GTCGTGGTCGTGGTAATA
Found at i:24313 original size:20 final size:20
Alignment explanation
Indices: 24288--24421 Score: 166
Period size: 20 Copynumber: 6.6 Consensus size: 20
24278 TAGTCGACTA
24288 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
24308 TCGCATTACGATTTACATAT
1 TCGCATTGCGATTTACATAT
24328 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
* *
24348 TCGCATTGCGATAGTCCA-AGT
1 TCGCATTGCGAT-TTACATA-T
*
24369 TCGCATTGCGATAGT-CGACTA-
1 TCGCATTGCGAT-TTAC-A-TAT
24390 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
24410 TCGCATTGCGAT
1 TCGCATTGCGAT
24422 AGTCCAAGTT
Statistics
Matches: 102, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.02
20 66 0.65
21 33 0.32
23 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.36
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:24401 original size:62 final size:62
Alignment explanation
Indices: 24328--24448 Score: 242
Period size: 62 Copynumber: 2.0 Consensus size: 62
24318 ATTTACATAT
24328 TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTA
1 TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTA
24390 TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGA
1 TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGA
24449 AGTTCGCGTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.32
Consensus pattern (62 bp):
TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTA
Found at i:24413 original size:41 final size:41
Alignment explanation
Indices: 24308--24442 Score: 136
Period size: 41 Copynumber: 3.3 Consensus size: 41
24298 ATTTACATAT
* *
24308 TCGCATTACGATTTACATATTCGCATTGCGAT--T-TACATA
1 TCGCATTGCGATTTACATATTCGCATTGCGATAGTCAAC-TA
* * *
24347 TTCGCATTGCGATAGTCCA-AGTTCGCATTGCGATAGTCGACTA
1 -TCGCATTGCGAT-TTACATA-TTCGCATTGCGATAGTCAACTA
*
24390 TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGT-
1 TCGCATTGCGATTTACATATTCGCATTGCGATAGT-CAACTA
24431 TCGCATTGCGAT
1 TCGCATTGCGAT
24443 AGTCGAAGTT
Statistics
Matches: 80, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
40 12 0.15
41 47 0.59
42 16 0.20
43 3 0.04
44 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (41 bp):
TCGCATTGCGATTTACATATTCGCATTGCGATAGTCAACTA
Found at i:24446 original size:21 final size:20
Alignment explanation
Indices: 24246--24445 Score: 160
Period size: 21 Copynumber: 9.8 Consensus size: 20
24236 AATATGTAAA
* *
24246 TCGCAATGCGATAGTCCAAGT
1 TCGCATTGCGATAGTACAA-T
*
24267 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTAC-AAT
*
24287 ATCGCATTGCGAT-TTACATAT
1 -TCGCATTGCGATAGTACA-AT
* *
24308 TCGCATTACGAT-TTACATAT
1 TCGCATTGCGATAGTACA-AT
*
24328 TCGCATTGCGAT-TTACATAT
1 TCGCATTGCGATAGTACA-AT
*
24348 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTACAA-T
*
24369 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTAC-AAT
*
24389 ATCGCATTGCGAT-TTACATAT
1 -TCGCATTGCGATAGTACA-AT
*
24410 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTACAA-T
24431 TCGCATTGCGATAGT
1 TCGCATTGCGATAGT
24446 CGAAGTTCGC
Statistics
Matches: 154, Mismatches: 13, Indels: 24
0.81 0.07 0.13
Matches are distributed among these distances:
20 72 0.47
21 82 0.53
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (20 bp):
TCGCATTGCGATAGTACAAT
Found at i:27696 original size:24 final size:24
Alignment explanation
Indices: 27669--27849 Score: 110
Period size: 24 Copynumber: 7.4 Consensus size: 24
27659 TGTGCCGGTT
*
27669 GTCGGTGTTGTTGGAGTCCCCATG
1 GTCGGTGTTGTTGGAGTCCCCGTG
* * *
27693 GTCGGCGTTGTTGAAGGAATACCCGTG
1 GTCGGTGTTGTT---GGAGTCCCCGTG
* * *
27720 CTCGGTGTTGTTGGAGTCCCGGTT
1 GTCGGTGTTGTTGGAGTCCCCGTG
* * * **
27744 GTCGGTGTTGTCGGAGTACCGGAC
1 GTCGGTGTTGTTGGAGTCCCCGTG
* * * * *
27768 GTCGGCGTTGTTGGAATTCCGGTC
1 GTCGGTGTTGTTGGAGTCCCCGTG
* * * * *
27792 GTCGGCGTTGTCGGAGTACCGGTC
1 GTCGGTGTTGTTGGAGTCCCCGTG
* * *
27816 GTCGGCGTTGTTGGAGTTCCGGTG
1 GTCGGTGTTGTTGGAGTCCCCGTG
27840 GTCGGTGTTG
1 GTCGGTGTTG
27850 AGCTTGAGCC
Statistics
Matches: 127, Mismatches: 27, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
24 108 0.85
27 19 0.15
ACGTcount: A:0.09, C:0.20, G:0.40, T:0.31
Consensus pattern (24 bp):
GTCGGTGTTGTTGGAGTCCCCGTG
Found at i:27782 original size:48 final size:48
Alignment explanation
Indices: 27721--27849 Score: 195
Period size: 48 Copynumber: 2.7 Consensus size: 48
27711 ATACCCGTGC
* * *
27721 TCGGTGTTGTTGGAGTCCCGGTTGTCGGTGTTGTCGGAGTACCGGACG
1 TCGGCGTTGTTGGAGTTCCGGTCGTCGGTGTTGTCGGAGTACCGGACG
* * *
27769 TCGGCGTTGTTGGAATTCCGGTCGTCGGCGTTGTCGGAGTACCGGTCG
1 TCGGCGTTGTTGGAGTTCCGGTCGTCGGTGTTGTCGGAGTACCGGACG
*
27817 TCGGCGTTGTTGGAGTTCCGGTGGTCGGTGTTG
1 TCGGCGTTGTTGGAGTTCCGGTCGTCGGTGTTG
27850 AGCTTGAGCC
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.07, C:0.19, G:0.42, T:0.32
Consensus pattern (48 bp):
TCGGCGTTGTTGGAGTTCCGGTCGTCGGTGTTGTCGGAGTACCGGACG
Found at i:27844 original size:72 final size:73
Alignment explanation
Indices: 27663--27849 Score: 198
Period size: 72 Copynumber: 2.5 Consensus size: 73
27653 GGTGGTTGTG
* ** *
27663 CCGGTTGTCGGTGTTGTTGGAGTCCCCATGGTCGGCGTTGTTGAAGGAATACCCGTGCTCGGTGT
1 CCGGTTGTCGGTGTTGTTGGAGTACCGGTGGTCGGCGTTGTT--AGGAATACCCGTGCTCGGCGT
* *
27728 TGTTGGAGTC
64 TGTCGGAGTA
* ** * *
27738 CCGGTTGTCGGTGTTGTCGGAGTACCGGACGTCGGCGTTGTT-GGAATTCCGGT-CGTCGGCGTT
1 CCGGTTGTCGGTGTTGTTGGAGTACCGGTGGTCGGCGTTGTTAGGAATACCCGTGC-TCGGCGTT
27801 GTCGGAGTA
65 GTCGGAGTA
* * * *
27810 CCGGTCGTCGGCGTTGTTGGAGTTCCGGTGGTCGGTGTTG
1 CCGGTTGTCGGTGTTGTTGGAGTACCGGTGGTCGGCGTTG
27850 AGCTTGAGCC
Statistics
Matches: 93, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
71 1 0.01
72 56 0.60
75 36 0.39
ACGTcount: A:0.09, C:0.20, G:0.40, T:0.31
Consensus pattern (73 bp):
CCGGTTGTCGGTGTTGTTGGAGTACCGGTGGTCGGCGTTGTTAGGAATACCCGTGCTCGGCGTTG
TCGGAGTA
Found at i:29448 original size:30 final size:30
Alignment explanation
Indices: 29412--29471 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
29402 GTAGTTCCAT
*
29412 AGGTCGCCGTGTGCTCCTAGAAACCTATGG
1 AGGTCGCCATGTGCTCCTAGAAACCTATGG
* *
29442 AGGTCGCCATGTGCTCGTAGAGACCTATGG
1 AGGTCGCCATGTGCTCCTAGAAACCTATGG
29472 TTGTCACTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (30 bp):
AGGTCGCCATGTGCTCCTAGAAACCTATGG
Found at i:31216 original size:21 final size:21
Alignment explanation
Indices: 31174--31225 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
31164 TTATCGAAAA
31174 TATTATTATTTCTACCGATTT
1 TATTATTATTTCTACCGATTT
* * * *
31195 TGTTATTTTTTCTACTGGTTT
1 TATTATTATTTCTACCGATTT
31216 TATTATTATT
1 TATTATTATT
31226 GGGTACTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.10, G:0.08, T:0.63
Consensus pattern (21 bp):
TATTATTATTTCTACCGATTT
Found at i:31925 original size:29 final size:28
Alignment explanation
Indices: 31816--31914 Score: 166
Period size: 29 Copynumber: 3.5 Consensus size: 28
31806 GAACGCTTGG
31816 ATGAGAATTGGA-CT-TTTTTTTAATTA
1 ATGAGAATTGGACCTCTTTTTTTAATTA
31842 ATGAGAATTGGACTCTCTTTTTTTAATTA
1 ATGAGAATTGGAC-CTCTTTTTTTAATTA
31871 ATGAGAATTGGACCCTCTTTTTTTAATTA
1 ATGAGAATTGGA-CCTCTTTTTTTAATTA
31900 ATGAGAATTGGACCT
1 ATGAGAATTGGACCT
31915 AATTATATTA
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
26 12 0.17
28 5 0.07
29 51 0.74
30 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.44
Consensus pattern (28 bp):
ATGAGAATTGGACCTCTTTTTTTAATTA
Found at i:32446 original size:19 final size:20
Alignment explanation
Indices: 32422--32462 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
32412 TTTATCACAC
*
32422 TAAA-TTCTCTCAAATTCTT
1 TAAATTTCTCTCAAATACTT
32441 TAAATTTCTCTCAAATACTT
1 TAAATTTCTCTCAAATACTT
32461 TA
1 TA
32463 TCTTTTTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAATTTCTCTCAAATACTT
Found at i:32782 original size:111 final size:111
Alignment explanation
Indices: 32588--32919 Score: 574
Period size: 111 Copynumber: 3.0 Consensus size: 111
32578 TGGAAATCAT
* *
32588 ATATCTCTACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
32653 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAAAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
32699 ATATCTCGACACTTTGCTGATATGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
32764 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
* * *
32810 ATATCTCGATACTTTACTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
32875 TAATTAATTGATTTATTTAATGCATGATTATTAGAGTAAGAATTA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTA
32920 GTTTTTGTAA
Statistics
Matches: 210, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 210 1.00
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:35589 original size:18 final size:18
Alignment explanation
Indices: 35566--35611 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
35556 AACATTCCCA
35566 GTAATCTTATTCCCACCG
1 GTAATCTTATTCCCACCG
* *
35584 GTAATCTCATTCCCACTG
1 GTAATCTTATTCCCACCG
35602 GTAATCTTAT
1 GTAATCTTAT
35612 ATTCCGTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.11, T:0.37
Consensus pattern (18 bp):
GTAATCTTATTCCCACCG
Found at i:35829 original size:22 final size:22
Alignment explanation
Indices: 35803--35846 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
35793 ATGGAAAATA
35803 GAAATTCATATCGAAAAAGACT
1 GAAATTCATATCGAAAAAGACT
35825 GAAATTCATATCGAAAAAGACT
1 GAAATTCATATCGAAAAAGACT
35847 CTTTGTAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.23
Consensus pattern (22 bp):
GAAATTCATATCGAAAAAGACT
Found at i:37378 original size:3 final size:3
Alignment explanation
Indices: 37370--37395 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37360 TACTGTACTT
37370 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
37396 TTTGCTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:43101 original size:23 final size:22
Alignment explanation
Indices: 43069--43112 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
43059 CAAATTTTAA
*
43069 AAAATTTTATTTTTAAAAAATT
1 AAAATTTTATTATTAAAAAATT
43091 AAAATTATTATTATTAAAAAAT
1 AAAATT-TTATTATTAAAAAAT
43113 CCTAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAAATTTTATTATTAAAAAATT
Found at i:46709 original size:2 final size:2
Alignment explanation
Indices: 46702--46739 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
46692 AATCACCAGG
46702 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46740 GGTACATTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46821 original size:16 final size:16
Alignment explanation
Indices: 46800--46842 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
46790 GATTAAGCGT
46800 TGAATGATTCAAATCG
1 TGAATGATTCAAATCG
*
46816 TGAATGATTCAAATCT
1 TGAATGATTCAAATCG
46832 TGAATGATTCA
1 TGAATGATTCA
46843 GAGACTCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (16 bp):
TGAATGATTCAAATCG
Found at i:46898 original size:31 final size:31
Alignment explanation
Indices: 46863--46930 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
46853 ATGGTTTCTT
* *
46863 TGAATGTGACATTATGTTTGATAATTGGCTC
1 TGAATGTGACATGATGTTTGATAACTGGCTC
46894 TGAATGTGACATGATGTTTGATAACTGGCTC
1 TGAATGTGACATGATGTTTGATAACTGGCTC
46925 TGAATG
1 TGAATG
46931 ATTCAGAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.26, C:0.10, G:0.25, T:0.38
Consensus pattern (31 bp):
TGAATGTGACATGATGTTTGATAACTGGCTC
Found at i:65883 original size:2 final size:2
Alignment explanation
Indices: 65876--65911 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
65866 GTCTCAAGTA
*
65876 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65912 TATTTTTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69825 original size:18 final size:18
Alignment explanation
Indices: 69786--69825 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
69776 AAAAGTGATT
*
69786 ATAAAATAATATTTGTAT
1 ATAAAATAATATTTGTAA
69804 ATAAAATATATATTT-TAA
1 ATAAAATA-ATATTTGTAA
69822 ATAA
1 ATAA
69826 GCTGATTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
ATAAAATAATATTTGTAA
Found at i:84208 original size:16 final size:15
Alignment explanation
Indices: 84183--84212 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
84173 TGTTGTGGCC
84183 GGTCATCCCGGGATG
1 GGTCATCCCGGGATG
84198 GGTCAATCCCGGGAT
1 GGTC-ATCCCGGGAT
84213 TTTCGGTCGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.17, C:0.27, G:0.37, T:0.20
Consensus pattern (15 bp):
GGTCATCCCGGGATG
Found at i:84455 original size:14 final size:14
Alignment explanation
Indices: 84433--84466 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
84423 AATGAAAGTA
*
84433 AAATTAATAAAAAT
1 AAATAAATAAAAAT
84447 AAATAAATAAAAAT
1 AAATAAATAAAAAT
84461 AAATAA
1 AAATAA
84467 CAACGATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATAAATAAAAAT
Found at i:84551 original size:34 final size:36
Alignment explanation
Indices: 84506--84581 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
84496 TTCTACAAAC
*
84506 TATATAATATATA-TTTTC-AAAA-GTATTTTAAAAT
1 TATATAATATATATTTTTCTAAAACGT-TTTCAAAAT
*
84540 TATATATTATATATTTTTCTAAAACGTTTTCAAAAT
1 TATATAATATATATTTTTCTAAAACGTTTTCAAAAT
84576 TATATA
1 TATATA
84582 GTTTTCAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
34 12 0.32
35 5 0.14
36 18 0.49
37 2 0.05
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (36 bp):
TATATAATATATATTTTTCTAAAACGTTTTCAAAAT
Found at i:84578 original size:29 final size:30
Alignment explanation
Indices: 84545--84613 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
84535 AAAATTATAT
*
84545 ATTATATATTTTTCTAAAACG-TTTTCAAA
1 ATTATATATTTTTCAAAAACGTTTTTCAAA
* * *
84574 ATTATATAGTTTTCAAAAATGTTTTTTAAA
1 ATTATATATTTTTCAAAAACGTTTTTCAAA
*
84604 ACTATATATT
1 ATTATATATT
84614 ATAAGTTTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 18 0.55
30 15 0.45
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.49
Consensus pattern (30 bp):
ATTATATATTTTTCAAAAACGTTTTTCAAA
Found at i:84626 original size:100 final size:103
Alignment explanation
Indices: 84488--84670 Score: 243
Period size: 100 Copynumber: 1.8 Consensus size: 103
84478 ATAATAATAT
* *
84488 AAAATATTTTCTACAAACTATATAATATATATTTTCAAAA-GTATTTTAAAATTATAT-AT-TAT
1 AAAATATTTTCTACAAACTATATAATATATATTTTCAAAATG-ATTTAAAAACTATATAATATAT
84550 ATAT-TTTTCTAAAACGTTTTCAAAATTATATAGTTTTCA
65 ATATGTTTTC-AAAACGTTTTCAAAATTATATAGTTTTCA
* * *
84589 AAAATGTTTTTTA-AAACTATATATTATA-AGTTTTCAAAATGATTTAAAAACTATATAATATAT
1 AAAATATTTTCTACAAACTATATAATATATA-TTTTCAAAATGATTTAAAAACTATATAATATAT
*
84652 ATATGTTTTCAAAATGTTT
65 ATATGTTTTCAAAACGTTT
84671 CTTTTTAAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
99 1 0.01
100 36 0.51
101 14 0.20
102 15 0.21
103 5 0.07
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (103 bp):
AAAATATTTTCTACAAACTATATAATATATATTTTCAAAATGATTTAAAAACTATATAATATATA
TATGTTTTCAAAACGTTTTCAAAATTATATAGTTTTCA
Found at i:84644 original size:64 final size:63
Alignment explanation
Indices: 84513--84645 Score: 162
Period size: 64 Copynumber: 2.1 Consensus size: 63
84503 AACTATATAA
* * * * *
84513 TATATATTTTCAAAAGTATTTTAAAATTATATATTATATATTTTTCTAAAACGTTTTCAAAAT
1 TATATATTTTCAAAAGTATTTTAAAACTATATATTATATAGTTTTCTAAAACGATTTAAAAAC
* *
84576 TATATAGTTTTCAAAAATGTTTTTTAAAACTATATATTATA-AGTTTTC-AAAATGATTTAAAAA
1 TATATA-TTTTC-AAAA-GTATTTTAAAACTATATATTATATAGTTTTCTAAAACGATTTAAAAA
84639 C
63 C
84640 TATATA
1 TATATA
84646 ATATATATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
63 6 0.10
64 23 0.38
65 10 0.17
66 21 0.35
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.47
Consensus pattern (63 bp):
TATATATTTTCAAAAGTATTTTAAAACTATATATTATATAGTTTTCTAAAACGATTTAAAAAC
Found at i:84756 original size:30 final size:29
Alignment explanation
Indices: 84673--84777 Score: 115
Period size: 29 Copynumber: 3.5 Consensus size: 29
84663 AAATGTTTCT
84673 TTTTAAAAATTATATTTATTTT-AAAATG
1 TTTTAAAAATTATATTTATTTTCAAAATG
* *
84701 TTTTTAAAACCA-TATAATATATTTTCAAAAACG
1 -TTTTAAAA--ATTAT-ATTTATTTTC-AAAATG
*
84734 TTTTAAAAATTATATTTATTTTCAAAGTG
1 TTTTAAAAATTATATTTATTTTCAAAATG
*
84763 TTTTAAAAACTATAT
1 TTTTAAAAATTATAT
84778 AATATATAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
29 26 0.41
30 13 0.20
31 12 0.19
32 8 0.12
33 5 0.08
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.48
Consensus pattern (29 bp):
TTTTAAAAATTATATTTATTTTCAAAATG
Found at i:84910 original size:13 final size:13
Alignment explanation
Indices: 84892--84917 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84882 TTTGTCCTTT
84892 TTCGTGGAACGAA
1 TTCGTGGAACGAA
84905 TTCGTGGAACGAA
1 TTCGTGGAACGAA
84918 AAATAGGACA
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:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (13 bp):
TTCGTGGAACGAA
Found at i:85585 original size:84 final size:83
Alignment explanation
Indices: 85478--86178 Score: 739
Period size: 84 Copynumber: 8.5 Consensus size: 83
85468 TCGGGGGTCT
* * *
85478 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAGCTGATCGTAGT
85543 CGAACTCAAAGGTCTTTTG
66 CGAACTCAAAGGTC-TTTG
* * * * * *
85562 TTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTT-GAGCTGATCGTAG
* *
85626 TCGAACTCGAAGGTCTTGG
65 TCGAACTCAAAGGTCTTTG
*
85645 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGT-GTA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTG-AGCTGA-TCGTA
* ***
85709 ATCGAACTCGGGGGTC--T-
64 GTCGAACTCAAAGGTCTTTG
* * * *
85726 TTGGCATATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAGCTGATCGTAGT
85791 CGAACTCAAAGGTCTTTTG
66 CGAACTCAAAGGTC-TTTG
* * * * * *
85810 TTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTT-GAGCTGATCGTAG
*
85874 TCGAACTCGAAGGTCTTTGG
65 TCGAACTCAAAGGTCTTT-G
*
85894 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGT-GTA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTG-AGCTGA-TCGTA
* **
85958 ATCGAACTC-GGGGTC--T-
64 GTCGAACTCAAAGGTCTTTG
* * *
85974 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAGCTGATCGTAGT
86039 CGAACTCAAAGGTCTTTTG
66 CGAACTCAAAGGTC-TTTG
* ** * * * * * * *
86058 GTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATAATGTACCCTCGAAGCTGAGT-GTA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTG-AGCTGA-TCGTA
* **
86122 ATCGAACTCAGGGGTC--T-
64 GTCGAACTCAAAGGTCTTTG
* * *
86139 TTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAAT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
86179 AGTTTGTTTA
Statistics
Matches: 512, Mismatches: 83, Indels: 47
0.80 0.13 0.07
Matches are distributed among these distances:
78 1 0.00
79 18 0.04
80 73 0.14
81 79 0.15
82 2 0.00
83 56 0.11
84 240 0.47
85 42 0.08
86 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (83 bp):
TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAGCTGATCGTAGT
CGAACTCAAAGGTCTTTG
Found at i:85720 original size:248 final size:248
Alignment explanation
Indices: 85433--86178 Score: 1214
Period size: 248 Copynumber: 3.0 Consensus size: 248
85423 GCTATGTTGT
* * *
85433 AAATGATATGACCTCGAAGTTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
1 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
85498 ACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGT
66 ACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGT
85563 TGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTC
131 TGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTC
85628 GAACTCGAAGGTCTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
196 GAACTCGAAGGTCTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
*
85681 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCATATAGCCCTTCTCG
1 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
85746 ACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGT
66 ACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGT
85811 TGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTC
131 TGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTC
85876 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
196 GAACTCGAAGGTC-TTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
85930 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC-GGGGTCTTTGGCAGATAGCCCTTCTCG
1 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
*
85994 ACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGG
66 ACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGT
** * * * * * * * * * * * * *
86059 TCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATAATGTACCCTCGAAGCTGAGTGTAAT
131 TGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATAT-GCCTTGGAGCTGAGCGTAGT
* * * *
86124 CGAACTC-AGGGGTC-T--TTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGC
195 CGAACTCGA-AGGTCTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
86175 AAAT
1 AAAT
86179 AGTTTGTTTA
Statistics
Matches: 470, Mismatches: 25, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
245 37 0.08
247 1 0.00
248 329 0.70
249 103 0.22
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (248 bp):
AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
ACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGT
TGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTC
GAACTCGAAGGTCTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
Found at i:85791 original size:164 final size:163
Alignment explanation
Indices: 85462--86178 Score: 719
Period size: 164 Copynumber: 4.4 Consensus size: 163
85452 TTGAGTGTAA
** *
85462 TCGAACTCGGGGGTC-T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
1 TCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
* * * * *
85525 CGTTGAGCTGA-TCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAAG
66 CCTTGAGCTGAGT-GTAGTCGAACTCGAAGGTC--TTGTTGGCAGATAACCCTTCTCGACTTAAG
* * *
85589 TTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAG
128 TTATGCTGCAAATGATGTGCCTT-GAGCTGATCGTAG
*
85626 TCGAACTCGAAGGTCTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
1 TCGAACTCGAAGGTCTT-GTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
* * ** * * *
85691 CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-T-TTGGCATATAGCCCTTCTCGACTTAAGC
65 CCCTTG-AGCTGAGTGTAGTCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTCTCGACTTAAGT
85754 TATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAG
129 TATGCTGCAAATGATGTGCC-TTGAGCTGATCGTAG
* * * * * * *
85790 TCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATAT
1 TCGAACTCGAAGGTC--TTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
*
85855 G-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
64 GCCCTT-GAGCTGAGTGTAGTCGAACTCGAAGGTC-TT-GTTGGCAGATAACCCTTCTCGACTTA
* *
85919 AGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGT-GTAA
126 AGTTATGCTGCAAATGATGTG-CCTTG-AGCTGA-TCGTAG
* *
85959 TCGAACTCG-GGGTC-T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
1 TCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
* * * * *
86021 CGTTGAGCTGA-TCGTAGTCGAACTCAAAGGTCTT-TTGGTCACAGATAACCCTTCTAGCCTTGA
66 CCTTGAGCTGAGT-GTAGTCGAACTCGAAGGTCTTGTTGG---CAGATAACCCTTCTCGACTTAA
* * * * *
86084 GTTATGCTGTAAATAATGTACCCTCGAAGCTGAGT-GTAA
127 GTTATGCTGCAAATGATGT-GCCTTG-AGCTGA-TCGTAG
* * *
86123 TCGAACTC-AGGGGTC-T-TTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAAT
1 TCGAACTCGA-AGGTCTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAAT
86179 AGTTTGTTTA
Statistics
Matches: 475, Mismatches: 54, Indels: 47
0.82 0.09 0.08
Matches are distributed among these distances:
161 4 0.01
163 2 0.00
164 231 0.49
165 96 0.20
166 3 0.01
167 48 0.10
168 70 0.15
169 20 0.04
170 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (163 bp):
TCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
CCTTGAGCTGAGTGTAGTCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTCTCGACTTAAGTTA
TGCTGCAAATGATGTGCCTTGAGCTGATCGTAG
Done.