Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000313.1 Hibiscus syriacus cultivar Beakdansim tig00000590_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: 122592
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:7310 original size:15 final size:15
Alignment explanation
Indices: 7290--7322 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
7280 TATTTAGCTA
*
7290 GGCGGGCGGATGCGG
1 GGCGGGCAGATGCGG
7305 GGCGGGCAGATGCGG
1 GGCGGGCAGATGCGG
7320 GGC
1 GGC
7323 AGGTAAGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.21, G:0.64, T:0.06
Consensus pattern (15 bp):
GGCGGGCAGATGCGG
Found at i:10680 original size:22 final size:22
Alignment explanation
Indices: 10655--10696 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10645 ATCGTTACCA
* *
10655 CAAGATCAATATTGATACTATT
1 CAAGAACAATATCGATACTATT
10677 CAAGAACAATATCGATACTA
1 CAAGAACAATATCGATACTA
10697 CTTACCTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.29
Consensus pattern (22 bp):
CAAGAACAATATCGATACTATT
Found at i:14406 original size:31 final size:30
Alignment explanation
Indices: 14371--14439 Score: 93
Period size: 31 Copynumber: 2.3 Consensus size: 30
14361 TCGGGGATCA
*
14371 TATTGCAAATAGACTAAATGTTGGGGGACTG
1 TATTGCAAACAGACTAAATGTT-GGGGACTG
* * *
14402 TATTGTAAACGGACTAAATGTTGGGGATTG
1 TATTGCAAACAGACTAAATGTTGGGGACTG
14432 TATTGCAA
1 TATTGCAA
14440 GTTTTAAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 14 0.42
31 19 0.58
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.32
Consensus pattern (30 bp):
TATTGCAAACAGACTAAATGTTGGGGACTG
Found at i:14733 original size:28 final size:29
Alignment explanation
Indices: 14677--14742 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
14667 ATTAATTAAA
14677 TAGAAAAATAATCATCAAACAATATTTTT
1 TAGAAAAATAATCATCAAACAATATTTTT
*
14706 TAGAAAAATAATTCA-CAATCAAT-TTTTT
1 TAGAAAAATAA-TCATCAAACAATATTTTT
14734 TAGAAAAAT
1 TAGAAAAAT
14743 GACTCTCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
28 14 0.40
29 18 0.51
30 3 0.09
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.35
Consensus pattern (29 bp):
TAGAAAAATAATCATCAAACAATATTTTT
Found at i:26967 original size:6 final size:6
Alignment explanation
Indices: 26956--26986 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
26946 TCGTTAACCC
26956 CCTTCT CCTTCT CCTTCT CCTTCT CCTTCT C
1 CCTTCT CCTTCT CCTTCT CCTTCT CCTTCT C
26987 ATCCTCCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (6 bp):
CCTTCT
Found at i:26993 original size:18 final size:18
Alignment explanation
Indices: 26956--26994 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
26946 TCGTTAACCC
* *
26956 CCTTCTCCTTCTCCTTCT
1 CCTTCTCCTTCTCATCCT
26974 CCTTCTCCTTCTCATCCT
1 CCTTCTCCTTCTCATCCT
26992 CCT
1 CCT
26995 CATCTATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.03, C:0.51, G:0.00, T:0.46
Consensus pattern (18 bp):
CCTTCTCCTTCTCATCCT
Found at i:28533 original size:31 final size:31
Alignment explanation
Indices: 28498--28556 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
28488 TATAATTTGA
28498 ATACTTATTTAGGTATTAAACCTTAAAAGTT
1 ATACTTATTTAGGTATTAAACCTTAAAAGTT
* *
28529 ATACTTATTTATGTATTAAGCCTTAAAA
1 ATACTTATTTAGGTATTAAACCTTAAAA
28557 AATGTAAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.42
Consensus pattern (31 bp):
ATACTTATTTAGGTATTAAACCTTAAAAGTT
Found at i:32825 original size:229 final size:229
Alignment explanation
Indices: 32424--33142 Score: 1318
Period size: 227 Copynumber: 3.1 Consensus size: 229
32414 GTTATATTGT
* * * *
32424 AAAGTATCTATCCTTTTTATAAAAGTGTTCATACTTATTTCACTGT-GAAAATATATTAATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAATATATTTATTATT
32488 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAA-AATCAA
* * *
32553 ATAATTTTGTGTATAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTA
130 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
32618 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
*
32653 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAATATATTTATTATT
32718 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
32783 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT--
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
*
32846 AAAAAATTGAAACATAAATTACATAACTTAAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
32880 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAATATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAATATATTTATTATT
32945 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
*
33010 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
33075 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
33109 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
1 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
33143 GTATAAAAGT
Statistics
Matches: 475, Mismatches: 12, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
227 224 0.47
229 177 0.37
230 74 0.16
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (229 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAATATATTTATTATT
ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
AAAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:33214 original size:20 final size:19
Alignment explanation
Indices: 33191--33237 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
33181 CGATATACCA
*
33191 GGTAAAAATATGATAAAATC
1 GGTAAAAA-ATGATAAAACC
33211 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
33231 GGTAAAA
1 GGTAAAA
33238 CGTTACCGGA
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:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:33396 original size:20 final size:19
Alignment explanation
Indices: 33373--33419 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
33363 CGATATAACA
33373 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
33393 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
33413 GGTAAAA
1 GGTAAAA
33420 TGATACCGGA
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:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:33421 original size:17 final size:19
Alignment explanation
Indices: 33382--33424 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
33372 AGGTAAAAAT
33382 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
33402 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
33419 ATGATA
1 ATGATA
33425 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:34585 original size:23 final size:23
Alignment explanation
Indices: 34554--34617 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
34544 ATAGGTAAAA
*
34554 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
34577 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
34600 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
34618 TTGTAAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:34925 original size:480 final size:481
Alignment explanation
Indices: 34025--35501 Score: 2733
Period size: 480 Copynumber: 3.1 Consensus size: 481
34015 CAATTGCTTC
*
34025 AAAATGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG
1 AAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG
*
34090 TAATAGGTAGCGGTTATATAATG---TA---ATCGTTTATATAATGTAATAGGTAGTTGTAAAGT
66 TAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGT
*
34149 ATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTTATC
131 ATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
*
34214 TTTTGAGTGAGTTTTAAGATATTAATTTAATAATTATAGGCGTCTAATGATTTATTTTTTACGTT
196 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
34279 ACG--ATATA-TATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
261 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
34341 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
326 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
*
34406 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
391 TTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAAAAAAA
34471 TTGAAACATAAATTACATAACTTTAA
456 TTGAAACATAAATTACATAACTTTAA
34497 AAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG
1 AAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG
34562 TAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGT
66 TAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGT
*
34627 ATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATC
131 ATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
34692 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTT
196 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
34756 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
261 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
34821 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
326 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
34886 TTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTTAAAAAA
391 TTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTA-TTAAAAAA
34951 ATTGAAACATAAATTACATAACTTT-A
455 ATTGAAACATAAATTACATAACTTTAA
34977 AAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG
1 AAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG
*
35042 TAATAGGTAGCGCTTATATAATGTAATGGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGT
66 TAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGT
*
35107 ATCTATCCTTTTTATAAAAGTGTTCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
131 ATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
35172 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
196 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
*
35237 ACAATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
261 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
*
35302 GGTTAATATTGTTAAATTTAAATTCCAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
326 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
* *
35367 TTTTGTGCAAATGAAATTATTAAATTAATATTATAGGTGAAAAACATGAAACACTATTAAAAAAA
391 TTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATT-AAAAAA
35432 ATTGAAACATAAATTACATAACTTTAA
455 ATTGAAACATAAATTACATAACTTTAA
* *
35459 AAAAATTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAA
1 AAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
35502 CATATTATAA
Statistics
Matches: 977, Mismatches: 15, Indels: 16
0.97 0.01 0.02
Matches are distributed among these distances:
472 86 0.09
475 2 0.00
477 13 0.01
478 150 0.15
479 5 0.01
480 423 0.43
481 256 0.26
482 42 0.04
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (481 bp):
AAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG
TAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGT
ATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
TTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAAAAAAA
TTGAAACATAAATTACATAACTTTAA
Found at i:35065 original size:23 final size:23
Alignment explanation
Indices: 35034--35097 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
35024 ATAGGTAAAA
*
35034 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
35057 ATATAATGTAATGGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
35080 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
35098 TTGTAAAGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:44864 original size:2 final size:2
Alignment explanation
Indices: 44857--44895 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
44847 TTTTAATCGA
44857 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
44896 CACATCTACG
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:48389 original size:2 final size:2
Alignment explanation
Indices: 48384--48423 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
48374 CCCCCCTTGT
* *
48384 TC TC TC TC TC TC TC TC GC TC TC TC TC GC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
48424 GCTTATGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.05, T:0.45
Consensus pattern (2 bp):
TC
Found at i:51995 original size:4 final size:4
Alignment explanation
Indices: 51986--52019 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
51976 AATATTTTTA
51986 ATTT ATTT ATCTTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT A--TTT ATTT ATTT ATTT ATTT ATTT
52020 TATTCTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 24 0.86
6 4 0.14
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:54250 original size:17 final size:17
Alignment explanation
Indices: 54214--54252 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
54204 GAGAGAAAAC
* *
54214 TATTTTTTTGATATTTT
1 TATTTTTTTGAAATTCT
*
54231 TATTTTTTTTAAATTCT
1 TATTTTTTTGAAATTCT
54248 TATTT
1 TATTT
54253 AATTAAAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (17 bp):
TATTTTTTTGAAATTCT
Found at i:62325 original size:32 final size:32
Alignment explanation
Indices: 62283--62343 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
62273 TTGTAACAGG
62283 AAATATTAAAAAATTAACATTTTAAATTATGA
1 AAATATTAAAAAATTAACATTTTAAATTATGA
* ** *
62315 AAATGTTAAAAGGTTAACATTTTATATTA
1 AAATATTAAAAAATTAACATTTTAAATTA
62344 CGTATAACCG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (32 bp):
AAATATTAAAAAATTAACATTTTAAATTATGA
Found at i:64321 original size:2 final size:2
Alignment explanation
Indices: 64316--64350 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
64306 ACACACTATT
*
64316 TA TA TA TA TA TA T- TA CA 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
64351 CATTATTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:65544 original size:2 final size:2
Alignment explanation
Indices: 65539--65601 Score: 82
Period size: 2 Copynumber: 34.0 Consensus size: 2
65529 TACGTTTTAT
*
65539 TA TA TA TA TA TA TA T- TA T- TA T- TA T- TA T- TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
65576 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
65602 CTTATTACTT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
1 5 0.09
2 49 0.91
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (2 bp):
TA
Found at i:65552 original size:27 final size:26
Alignment explanation
Indices: 65522--65601 Score: 89
Period size: 27 Copynumber: 3.2 Consensus size: 26
65512 AATCTTTTTT
65522 TATATATTACGTT-TTATTATATATATA
1 TATATATTA--TTATTATTATATATATA
*
65549 TATATTATTATTATTATTATATGTATA
1 TATA-TATTATTATTATTATATATATA
65576 TATATA-TA-TA-TA-TATATATATA
1 TATATATTATTATTATTATATATATA
65598 TATA
1 TATA
65602 CTTATTACTT
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
22 13 0.27
23 2 0.04
24 2 0.04
25 2 0.04
26 4 0.08
27 21 0.43
28 5 0.10
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (26 bp):
TATATATTATTATTATTATATATATA
Found at i:65662 original size:18 final size:18
Alignment explanation
Indices: 65632--65682 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
65622 TTTACCATTT
*
65632 TTATTTTTATTATTATTA
1 TTATTTATATTATTATTA
* **
65650 TTCTTTATATTATCCTTA
1 TTATTTATATTATTATTA
*
65668 TTATTTCTATTATTA
1 TTATTTATATTATTA
65683 CTATCTTTTT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (18 bp):
TTATTTATATTATTATTA
Found at i:65846 original size:2 final size:2
Alignment explanation
Indices: 65839--65863 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
65829 TAACTAATAG
65839 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 T
65864 TACATGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:66054 original size:5 final size:5
Alignment explanation
Indices: 66044--66087 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
66034 TGTTTAGTTG
* * *
66044 TTTAT TTTAT TTTAT TTTTT TATTAT CTTAT TTTAT TGTAT TTT
1 TTTAT TTTAT TTTAT TTTAT T-TTAT TTTAT TTTAT TTTAT TTT
66088 TATTGTTTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 29 0.91
6 3 0.09
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:66060 original size:26 final size:24
Alignment explanation
Indices: 66031--66102 Score: 74
Period size: 26 Copynumber: 2.9 Consensus size: 24
66021 GGTTTTTCTA
*
66031 ATTTGTTTAGTTGTTTATTTTATTTT
1 ATTT-TTTA-TTGTTTATTTTATTGT
*
66057 ATTTTTTTATTATCTTATTTTATTGT
1 A-TTTTTTATTGT-TTATTTTATTGT
*
66083 A-TTTTTATTGTTTGTTTTAT
1 ATTTTTTATTGTTTATTTTAT
66103 CTTTTTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 8 0.20
24 9 0.22
25 3 0.08
26 17 0.43
27 3 0.08
ACGTcount: A:0.17, C:0.01, G:0.08, T:0.74
Consensus pattern (24 bp):
ATTTTTTATTGTTTATTTTATTGT
Found at i:66069 original size:11 final size:11
Alignment explanation
Indices: 66045--66124 Score: 56
Period size: 11 Copynumber: 7.0 Consensus size: 11
66035 GTTTAGTTGT
*
66045 TTATTTTATT-
1 TTATTTTTTTA
66055 TTATTTTTTTA
1 TTATTTTTTTA
66066 TTATCTTATTTTA
1 TTAT-TT-TTTTA
* *
66079 TTGTATTTTTA
1 TTATTTTTTTA
*
66090 TTGTTTGTTTTA
1 TTATTT-TTTTA
*
66102 TCT-TTTTTTTT
1 T-TATTTTTTTA
66113 TTACTTTTTTTA
1 TTA-TTTTTTTA
66125 AGTCATTTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
10 10 0.18
11 19 0.33
12 19 0.33
13 9 0.16
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.78
Consensus pattern (11 bp):
TTATTTTTTTA
Found at i:66090 original size:21 final size:20
Alignment explanation
Indices: 66044--66090 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
66034 TGTTTAGTTG
* *
66044 TTTATTTTATTTTATTTTTT
1 TTTATCTTATTTTATTTATT
66064 TATTATCTTATTTTATTGTATT
1 T-TTATCTTATTTTATT-TATT
66086 TTTAT
1 TTTAT
66091 TGTTTGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 18 0.78
22 4 0.17
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTATCTTATTTTATTTATT
Found at i:66121 original size:33 final size:32
Alignment explanation
Indices: 66044--66110 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
66034 TGTTTAGTTG
*
66044 TTTATTTTA-TTTTATTTTTTTATTATCTTAT
1 TTTATTGTATTTTTATTTTTTTATTATCTTAT
*
66075 TTTATTGTATTTTTATTGTTTGTT-TTATCTTTT
1 TTTATTGTATTTTTATT-TTT-TTATTATCTTAT
66108 TTT
1 TTT
66111 TTTTACTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 8 0.26
32 7 0.23
33 14 0.45
34 2 0.06
ACGTcount: A:0.15, C:0.03, G:0.04, T:0.78
Consensus pattern (32 bp):
TTTATTGTATTTTTATTTTTTTATTATCTTAT
Found at i:67134 original size:20 final size:20
Alignment explanation
Indices: 67109--67152 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
67099 TTTTCTTGCC
67109 ATTTATTTCCATTTATTTTT
1 ATTTATTTCCATTTATTTTT
67129 ATTTATTTCCATTTATTTTT
1 ATTTATTTCCATTTATTTTT
67149 ATTT
1 ATTT
67153 TACTAACTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTTATTTCCATTTATTTTT
Found at i:67152 original size:10 final size:10
Alignment explanation
Indices: 67107--67146 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
67097 TTTTTTCTTG
67107 CCATTTATTT
1 CCATTTATTT
67117 CCATTTATTT
1 CCATTTATTT
**
67127 TTATTTATTT
1 CCATTTATTT
67137 CCATTTATTT
1 CCATTTATTT
67147 TTATTTTACT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (10 bp):
CCATTTATTT
Found at i:77383 original size:105 final size:105
Alignment explanation
Indices: 77197--77953 Score: 1282
Period size: 105 Copynumber: 7.2 Consensus size: 105
77187 AGGTTTTACC
*
77197 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTTAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
77262 ACGAAGGGACCACTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
77302 CAGAGCCAGTTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
77367 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
77407 CAGAGCCAGTTTCAACTTCACAACAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
77472 ACGAAGGGACCGCTAGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
77512 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
77577 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
77617 CAGAGCCAATTTCAATTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
77682 ACGAAGGGACCGCTGGTTGTCAACAAACATCTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
77722 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGATTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
77787 ACGAAGGGACCGCTGATTGTCAATAAACATTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
77827 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAATTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * * **
77892 ACGAA-GGAACGACTAGTTGTCAACAAACAATTTCCCAGTGC
66 ACGAAGGGACCG-CTGGTTGTCAACAAAC-ATTTCTCAATTT
*
77933 CAGAACCAATTTCAACTTCAC
1 CAGAGCCAATTTCAACTTCAC
77954 GGTGGAGGAT
Statistics
Matches: 621, Mismatches: 29, Indels: 3
0.95 0.04 0.00
Matches are distributed among these distances:
104 5 0.01
105 587 0.95
106 29 0.05
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:78218 original size:2 final size:2
Alignment explanation
Indices: 78213--78249 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
78203 GTAGACACAC
*
78213 TA TA TA TA TA TA TA TA TA TA TA T- TA CA 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
78250 CACATTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:78256 original size:19 final size:19
Alignment explanation
Indices: 78220--78256 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
78210 CACTATATAT
* *
78220 ATATATATATATATATTAC
1 ATATATATATACACATTAC
78239 ATATATATATACACATTA
1 ATATATATATACACATTA
78257 TTTTCGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATATATATACACATTAC
Found at i:79904 original size:5 final size:5
Alignment explanation
Indices: 79894--79942 Score: 55
Period size: 5 Copynumber: 9.6 Consensus size: 5
79884 TGTTTAGTTG
* *
79894 TTTAT TTTAT TTTAT TTTAT TTGT-T TATTAT CTTAT TTTAT TGTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TT-TAT T-TTAT TTTAT TTTAT TTTAT TTT
79943 TATTGTTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
5 34 0.92
6 3 0.08
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:79917 original size:31 final size:31
Alignment explanation
Indices: 79881--79950 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
79871 GGTTTTTCTA
* *
79881 ATTTGTTTAGTTGT-TTATTTTATTTTATTTT
1 ATTTGTTTA-TTATCTTATTTTATTGTATTTT
79912 ATTTGTTTATTATCTTATTTTATTGTATTTT
1 ATTTGTTTATTATCTTATTTTATTGTATTTT
79943 -TATTGTTT
1 AT-TTGTTT
79951 GTTTTATCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 4 0.11
31 31 0.89
ACGTcount: A:0.17, C:0.01, G:0.09, T:0.73
Consensus pattern (31 bp):
ATTTGTTTATTATCTTATTTTATTGTATTTT
Found at i:79945 original size:21 final size:21
Alignment explanation
Indices: 79898--79945 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
79888 TAGTTGTTTA
*
79898 TTTTATTTTATTTTATTTGTT
1 TTTTATCTTATTTTATTTGTT
*
79919 TATTATCTTATTTTA-TTGTAT
1 TTTTATCTTATTTTATTTGT-T
79940 TTTTAT
1 TTTTAT
79946 TGTTTGTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (21 bp):
TTTTATCTTATTTTATTTGTT
Found at i:80439 original size:2 final size:2
Alignment explanation
Indices: 80402--80429 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
80392 TTACAGTTTA
80402 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
80430 TAAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:81250 original size:3 final size:3
Alignment explanation
Indices: 81236--81268 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
81226 GTATTTTAAT
*
81236 TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
81269 AACTCATACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:84671 original size:100 final size:101
Alignment explanation
Indices: 84474--84678 Score: 394
Period size: 100 Copynumber: 2.0 Consensus size: 101
84464 TAGCTGAAGG
84474 GGAAAGGGTCCTAAAAGACCCAAAAGCCATAATGCCCGCAGCATTTGTTTCCTTTAAGTCTCGAT
1 GGAAAGGGTCCTAAAAGACCCAAAAGCCATAATGCCCGCAGCATTTGTTTCCTTTAAGTCTCGAT
*
84539 GGGTTGCAGCTGTTTGTGCTCAAACCCAACAAACCA
66 GGGGTGCAGCTGTTTGTGCTCAAACCCAACAAACCA
84575 GGAAAGGGTCCTAAAAGACCCAAAAGCCATAATGCCCGCAGCATTTG-TTCCTTTAAGTCTCGAT
1 GGAAAGGGTCCTAAAAGACCCAAAAGCCATAATGCCCGCAGCATTTGTTTCCTTTAAGTCTCGAT
84639 GGGGTGCAGCTGTTTGTGCTCAAACCCAACAAACCA
66 GGGGTGCAGCTGTTTGTGCTCAAACCCAACAAACCA
84675 GGAA
1 GGAA
84679 TCCAACTTTG
Statistics
Matches: 103, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
100 56 0.54
101 47 0.46
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (101 bp):
GGAAAGGGTCCTAAAAGACCCAAAAGCCATAATGCCCGCAGCATTTGTTTCCTTTAAGTCTCGAT
GGGGTGCAGCTGTTTGTGCTCAAACCCAACAAACCA
Found at i:87180 original size:23 final size:23
Alignment explanation
Indices: 87149--87216 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
87139 TTTATTCTTT
*
87149 TTTCTTTTTGGGGAATTGACTTG
1 TTTCATTTTGGGGAATTGACTTG
* *
87172 TTTCATTTT----TATT--CTTT
1 TTTCATTTTGGGGAATTGACTTG
*
87189 TTTCTTTTTGGGGAATTGACTTG
1 TTTCATTTTGGGGAATTGACTTG
87212 TTTCA
1 TTTCA
87217 AATATTGCCT
Statistics
Matches: 32, Mismatches: 7, Indels: 12
0.63 0.14 0.24
Matches are distributed among these distances:
17 11 0.34
19 3 0.09
21 3 0.09
23 15 0.47
ACGTcount: A:0.13, C:0.10, G:0.18, T:0.59
Consensus pattern (23 bp):
TTTCATTTTGGGGAATTGACTTG
Found at i:87181 original size:40 final size:40
Alignment explanation
Indices: 87137--87216 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
87127 GTAATGCTCT
87137 TTTTTATTCTTTTTTCTTTTTGGGGAATTGACTTGTTTCA
1 TTTTTATTCTTTTTTCTTTTTGGGGAATTGACTTGTTTCA
87177 TTTTTATTCTTTTTTCTTTTTGGGGAATTGACTTGTTTCA
1 TTTTTATTCTTTTTTCTTTTTGGGGAATTGACTTGTTTCA
87217 AATATTGCCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.12, C:0.10, G:0.15, T:0.62
Consensus pattern (40 bp):
TTTTTATTCTTTTTTCTTTTTGGGGAATTGACTTGTTTCA
Found at i:92013 original size:75 final size:76
Alignment explanation
Indices: 91926--92124 Score: 276
Period size: 75 Copynumber: 2.6 Consensus size: 76
91916 GACCGTTGAA
* * * *
91926 CAGGGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGA
1 CAGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGA
**
91990 ACAAAAATGTT
66 ACAAAAACATT
* *
92001 TAGGGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGA
1 CAGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGA
* * *
92065 GCCAAACCATT
66 ACAAAAACATT
*
92076 CAGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCA
1 CAGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCA
92125 ATCTGTAATT
Statistics
Matches: 109, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
75 85 0.78
76 24 0.22
ACGTcount: A:0.21, C:0.25, G:0.32, T:0.23
Consensus pattern (76 bp):
CAGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGA
ACAAAAACATT
Found at i:94717 original size:21 final size:21
Alignment explanation
Indices: 94691--94730 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
94681 CAGAACCCCA
*
94691 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
94712 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
94731 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:94759 original size:19 final size:20
Alignment explanation
Indices: 94713--94772 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
94703 TTCCCCTGTG
94713 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TC-AA
94736 GGGGGAATCGGTTCCCTC-A
1 GGGGGAATCGGTTCCCTCAA
* *
94755 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
94773 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.22
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCTCAA
Found at i:98612 original size:22 final size:21
Alignment explanation
Indices: 98570--98609 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
98560 GAGTTTGTTT
*
98570 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
98591 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
98610 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:100709 original size:77 final size:76
Alignment explanation
Indices: 100533--100714 Score: 249
Period size: 75 Copynumber: 2.4 Consensus size: 76
100523 CCGTTGAACA
* * ** *
100533 GGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAACAAAAATGTTTAGGGGGGAATCG
1 GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAACAAAAACATTCAGGGGGGAATCG
100598 GTTCCTCCTAT
66 GTTCCTCCTAT
* * * *
100609 -AGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCCAAACCATTCAGGGGGGGAATC
1 GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAACAAAAACATTCA-GGGGGGAATC
100673 GGTTCCTCCTAT
65 GGTTCCTCCTAT
* *
100685 GGGGGGAATCGGTTCCCTCTGAGCAATCTG
1 GGGGGGAATCGGTTCCCTCCGAGCATTCTG
100715 TAATTTTTGG
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
75 44 0.48
76 22 0.24
77 26 0.28
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.24
Consensus pattern (76 bp):
GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAACAAAAACATTCAGGGGGGAATCG
GTTCCTCCTAT
Found at i:104285 original size:17 final size:17
Alignment explanation
Indices: 104263--104295 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
104253 GTCAACGACT
104263 AGTCAACAATGGTCAAC
1 AGTCAACAATGGTCAAC
*
104280 AGTCAACACTGGTCAA
1 AGTCAACAATGGTCAA
104296 ATATGTCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.18
Consensus pattern (17 bp):
AGTCAACAATGGTCAAC
Found at i:111879 original size:60 final size:60
Alignment explanation
Indices: 111752--111888 Score: 145
Period size: 60 Copynumber: 2.3 Consensus size: 60
111742 ATAGTCGGAT
* * * * * *
111752 GATCATTTTTTAACTTTTGATAGTCAGAGGACTCAACAATGCAACACTCTATAGTCGAAG
1 GATCATTTTGTAACTTTTAATAATCAGAGGACTCAACAAAGCAACACCCTATAATCGAAG
* * *
111812 AACCATTTTGTAACTTTTAATAATC-GAGAGACTCAACAAAGCATCACCCTATAATC-AAGG
1 GATCATTTTGTAACTTTTAATAATCAGAG-GACTCAACAAAGCAACACCCTATAATCGAA-G
111872 GATCA-TTTGTATACTTT
1 GATCATTTTGTA-ACTTT
111889 ACCCTTAAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
59 11 0.17
60 52 0.83
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (60 bp):
GATCATTTTGTAACTTTTAATAATCAGAGGACTCAACAAAGCAACACCCTATAATCGAAG
Done.