Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007539.1 Hibiscus syriacus cultivar Beakdansim tig00021103_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: 114851
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:5203 original size:20 final size:20
Alignment explanation
Indices: 5178--5223 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
5168 TCTTGTGGCT
5178 TTTCCCGGCTATAAATACCC
1 TTTCCCGGCTATAAATACCC
*
5198 TTTCCCGGCTATAAATACTC
1 TTTCCCGGCTATAAATACCC
5218 TTTCCC
1 TTTCCC
5224 CGGGGGAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.35, G:0.09, T:0.35
Consensus pattern (20 bp):
TTTCCCGGCTATAAATACCC
Found at i:9033 original size:15 final size:15
Alignment explanation
Indices: 9015--9048 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9005 TTGTTGTCGT
*
9015 CGTCATCGTCGCCGC
1 CGTCACCGTCGCCGC
*
9030 CGTCACCGTCGCCGT
1 CGTCACCGTCGCCGC
9045 CGTC
1 CGTC
9049 TTGAGCAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.47, G:0.26, T:0.21
Consensus pattern (15 bp):
CGTCACCGTCGCCGC
Found at i:9380 original size:33 final size:33
Alignment explanation
Indices: 9317--9380 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
9307 GCCTCCAAGA
* *
9317 GGGGTCATATAACTCTGTGAATGTGCCGGCGGC
1 GGGGTCATAAAACTCTGTGAAGGTGCCGGCGGC
* *
9350 GGGGTCATAAAAC-CATGTGAGGGTGGCGGCG
1 GGGGTCATAAAACTC-TGTGAAGGTGCCGGCG
9381 ACGGCATCGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 1 0.04
33 25 0.96
ACGTcount: A:0.20, C:0.19, G:0.41, T:0.20
Consensus pattern (33 bp):
GGGGTCATAAAACTCTGTGAAGGTGCCGGCGGC
Found at i:11080 original size:21 final size:20
Alignment explanation
Indices: 11051--11129 Score: 60
Period size: 21 Copynumber: 4.0 Consensus size: 20
11041 ATCTGTAAAA
*
11051 AAATTAATTAAGTAAAATATT
1 AAATAAATTAA-TAAAATATT
*
11072 AAATAAATT-A-AATA-ATT
1 AAATAAATTAATAAAATATT
11089 AAATAAATTAAATACAAAATATT
1 AAATAAATT-AAT--AAAATATT
11112 -AA-AAATATAATAAAATAT
1 AAATAAAT-TAATAAAATAT
11130 ATCGTAGAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
17 12 0.25
18 3 0.06
19 8 0.17
20 1 0.02
21 15 0.31
22 6 0.12
23 3 0.06
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (20 bp):
AAATAAATTAATAAAATATT
Found at i:11083 original size:9 final size:9
Alignment explanation
Indices: 11069--11102 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
11059 TAAGTAAAAT
11069 ATTAAATAA
1 ATTAAATAA
11078 ATTAAAT-A
1 ATTAAATAA
11086 ATTAAATAA
1 ATTAAATAA
11095 ATTAAATA
1 ATTAAATA
11103 CAAAATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
ATTAAATAA
Found at i:11101 original size:17 final size:17
Alignment explanation
Indices: 11065--11102 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
11055 TAATTAAGTA
11065 AAAT-ATTAAATAAATT
1 AAATAATTAAATAAATT
11081 AAATAATTAAATAAATT
1 AAATAATTAAATAAATT
11098 AAATA
1 AAATA
11103 CAAAATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATAATTAAATAAATT
Found at i:20971 original size:21 final size:19
Alignment explanation
Indices: 20932--20975 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
20922 AAGGACATTG
20932 GGGATTCAGAAAATGAATT
1 GGGATTCAGAAAATGAATT
* *
20951 AGGGATTGAGAAATGTGAATT
1 -GGGATTCAGAAA-ATGAATT
20972 GGGA
1 GGGA
20976 ATTAAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.39, C:0.02, G:0.34, T:0.25
Consensus pattern (19 bp):
GGGATTCAGAAAATGAATT
Found at i:27550 original size:15 final size:15
Alignment explanation
Indices: 27530--27582 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
27520 AGGATTAAAC
27530 AAGAAAGAAAAATAG
1 AAGAAAGAAAAATAG
*
27545 AAGAAAG-AAGA-AG
1 AAGAAAGAAAAATAG
**
27558 GTGCAAAGAAAAATAG
1 AAG-AAAGAAAAATAG
27574 AAGAAAGAA
1 AAGAAAGAA
27583 GAAGGTACCT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
13 3 0.10
14 7 0.24
15 16 0.55
16 3 0.10
ACGTcount: A:0.68, C:0.02, G:0.25, T:0.06
Consensus pattern (15 bp):
AAGAAAGAAAAATAG
Found at i:27566 original size:29 final size:29
Alignment explanation
Indices: 27533--27588 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
27523 ATTAAACAAG
27533 AAAGAAAAATAGAAGAAAGAAGAAGGTGC
1 AAAGAAAAATAGAAGAAAGAAGAAGGTGC
27562 AAAGAAAAATAGAAGAAAGAAGAAGGT
1 AAAGAAAAATAGAAGAAAGAAGAAGGT
27589 ACCTGGAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.64, C:0.02, G:0.27, T:0.07
Consensus pattern (29 bp):
AAAGAAAAATAGAAGAAAGAAGAAGGTGC
Found at i:28285 original size:30 final size:33
Alignment explanation
Indices: 28231--28291 Score: 83
Period size: 30 Copynumber: 1.9 Consensus size: 33
28221 TTAAGTTATA
28231 ATTTAAAATAATTTAATAAATTTAAT-TTCTAT
1 ATTTAAAATAATTTAATAAATTTAATCTTCTAT
* *
28263 ATTT-AAAT-ATTTCATTAATTTAATCTTCT
1 ATTTAAAATAATTTAATAAATTTAATCTTCT
28292 TTTCAGTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 14 0.54
31 8 0.31
32 4 0.15
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (33 bp):
ATTTAAAATAATTTAATAAATTTAATCTTCTAT
Found at i:29240 original size:31 final size:31
Alignment explanation
Indices: 29204--29262 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
29194 AACTTAAAAG
* *
29204 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
29235 AGTTTTACAATATTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
29263 CCATACAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:29313 original size:22 final size:22
Alignment explanation
Indices: 29287--29329 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
29277 TAATAAATTA
29287 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
29309 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
29330 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:29338 original size:22 final size:22
Alignment explanation
Indices: 29289--29337 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
29279 ATAAATTATT
**
29289 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
29311 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
29334 TAAA
1 TAAA
29338 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:29341 original size:54 final size:54
Alignment explanation
Indices: 29277--30050 Score: 494
Period size: 54 Copynumber: 14.4 Consensus size: 54
29267 ACAACAACAA
29277 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** *
29331 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA--C
* * * * * *
29391 TAAAATAAATCAATTCATACT-AATAAAT---TA-TTTAAAATAAATTAATCCATAC
1 T--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * *
29443 -AACTACA--A--T--AATAAATCAATTCATATTTTAAAATAAATCAATCTATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * ** * ** * **
29491 AAATAAATTATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
** *
29546 -AATCCA-TATTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
29599 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
29653 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** **
29710 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
** * ** * ** ** *
29764 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCTATA-
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
** * ** * * **
29818 TTTTAAAATAAAT-CAATACATACTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
* *
29873 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATACATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
29921 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
29975 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATAAATTTATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
30029 TAATAAATTATTTAAAATAAAT
1 TAATAAATTATTTAAAATAAAT
30051 TATTTTAAAA
Statistics
Matches: 598, Mismatches: 77, Indels: 90
0.78 0.10 0.12
Matches are distributed among these distances:
43 2 0.00
44 6 0.01
47 3 0.01
48 52 0.09
49 8 0.01
50 11 0.02
51 1 0.00
52 7 0.01
53 12 0.02
54 391 0.65
55 20 0.03
56 11 0.02
57 17 0.03
58 36 0.06
59 1 0.00
60 1 0.00
62 13 0.02
63 6 0.01
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:29347 original size:32 final size:30
Alignment explanation
Indices: 29309--30005 Score: 307
Period size: 32 Copynumber: 25.7 Consensus size: 30
29299 CAATCCATAT
29309 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA--A
*
29341 TTTAAAATAAATCAATCCATAC-AACTACAA
1 TTTAAAATAAATCAATCCATACTAA-TAAAA
29371 --T--AATAAATCAATCC--A-T-AT----
1 TTTAAAATAAATCAATCCATACTAATAAAA
*
29389 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA--A
* *
29421 TTTAAAATAAATTAATCCATAC-AACTACAA
1 TTTAAAATAAATCAATCCATACTAA-TAAAA
*
29451 --T--AATAAATCAAT---T-C--AT--AT
1 TTTAAAATAAATCAATCCATACTAATAAAA
* *
29469 TTTAAAATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA--A
*
29501 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA--A
29533 TTTAAAATAAATCAATCC--A-T-AT----
1 TTTAAAATAAATCAATCCATACTAATAAAA
* **
29555 TTTAAAATAAATCAATTCATA-TTTTAAAA
1 TTTAAAATAAATCAATCCATACTAATAAAA
29584 -------TAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA--A
29609 TTTAAAATAAATCAATCC--A-T-AT----
1 TTTAAAATAAATCAATCCATACTAATAAAA
*
29631 TTTAAAATAAATCAATCAATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA--A
*
29663 TTTAAAATAAATCAATCCATAC-AACTACAA
1 TTTAAAATAAATCAATCCATACTAA-TAAAA
29693 --T--AATAAATCAATCC--A-T-AT----
1 TTTAAAATAAATCAATCCATACTAATAAAA
29711 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA--A
29743 TTTAAAATAAATCAATCC--A-T-AT----
1 TTTAAAATAAATCAATCCATACTAATAAAA
29765 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA--A
29797 TTTAAAATAAATCAAT-C-TA-T-AT----
1 TTTAAAATAAATCAATCCATACTAATAAAA
*
29819 TTTAAAATAAATCAATACATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA--A
*
29851 TTTAAAATAAATCAATCCATAC-AACTACAA
1 TTTAAAATAAATCAATCCATACTAA-TAAAA
29881 --T--AATAAATCAATCC--A-T-AT----
1 TTTAAAATAAATCAATCCATACTAATAAAA
*
29899 TTTAAAATAAATCAATACATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA--A
29931 TTTAAAATAAATCAATCC--A-T-AT----
1 TTTAAAATAAATCAATCCATACTAATAAAA
*
29953 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA--A
29985 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
30006 TTTTAAAATA
Statistics
Matches: 521, Mismatches: 24, Indels: 240
0.66 0.03 0.31
Matches are distributed among these distances:
18 1 0.00
20 5 0.01
21 1 0.00
22 150 0.29
23 10 0.02
24 13 0.02
25 10 0.02
26 64 0.12
28 16 0.03
29 5 0.01
30 11 0.02
31 9 0.02
32 226 0.43
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (30 bp):
TTTAAAATAAATCAATCCATACTAATAAAA
Found at i:29382 original size:80 final size:80
Alignment explanation
Indices: 29292--29763 Score: 653
Period size: 80 Copynumber: 5.9 Consensus size: 80
29282 AATTATTTAA
29292 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
29357 CCATACAACTACAAT
66 CCATACAACTACAAT
* *
29372 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATTAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
29437 CCATACAACTACAAT
66 CCATACAACTACAAT
* * *
29452 AATAAATCAATTCATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
29517 CTATACTAA-TAAATTATTT
66 CCATAC-AACTACA--A--T
29536 AAAATAAATCAATCCATATTTTAAAATAAATCAAT---T-C--AT--A-T-TTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
*
29591 ATCCATACTAA-TAAATTATTT
64 ATCCATAC-AACTACA--A--T
*
29612 AAAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
29677 ATCCATACAACTACAAT
64 ATCCATACAACTACAAT
29694 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
29759 CCATA
66 CCATA
29764 TTTTAAAATA
Statistics
Matches: 361, Mismatches: 13, Indels: 36
0.88 0.03 0.09
Matches are distributed among these distances:
76 69 0.19
77 1 0.00
78 1 0.00
79 1 0.00
80 218 0.60
81 2 0.01
82 5 0.01
83 1 0.00
84 3 0.01
85 3 0.01
86 57 0.16
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:29494 original size:18 final size:16
Alignment explanation
Indices: 29470--29549 Score: 69
Period size: 14 Copynumber: 5.0 Consensus size: 16
29460 AATTCATATT
29470 TTAAAATAAATCAATC
1 TTAAAATAAATCAATC
*
29486 TATACAAATAAAT-TAT-
1 T-TA-AAATAAATCAATC
29502 TTAAAATAAATCAATC
1 TTAAAATAAATCAATC
* *
29518 TATACTAATAAAT-TAT-
1 T-TA-AAATAAATCAATC
29534 TTAAAATAAATCAATC
1 TTAAAATAAATCAATC
29550 CATATTTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
14 15 0.30
15 8 0.16
16 4 0.08
17 8 0.16
18 15 0.30
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAAATAAATCAATC
Found at i:29592 original size:76 final size:76
Alignment explanation
Indices: 29501--29973 Score: 446
Period size: 80 Copynumber: 6.0 Consensus size: 76
29491 AAATAAATTA
*
29501 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
29566 TCAATTCATAT
66 TCAATTCATAT
29577 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
29642 TCAATCAATACTAATAAATT
66 TCAAT---T-C--AT--A-T
*
29662 ATTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAATCCATATTTTAAAATA
1 -TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATA
29720 AATCAATCCATACTAATAAATT
64 AATCAAT---T-C--AT--A-T
** * ** * ** **
29742 ATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAA
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAA
29804 TAAATCAA-TCTATAT
62 TAAATCAATTC-ATAT
* * **
29819 TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AA
*
29884 TAAATCAATCCATAT
62 TAAATCAATTCATAT
*
29899 TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
29964 TCAATTCATA
66 TCAATTCATA
29974 CTAATAAATT
Statistics
Matches: 339, Mismatches: 30, Indels: 56
0.80 0.07 0.13
Matches are distributed among these distances:
76 109 0.32
77 14 0.04
78 6 0.02
79 7 0.02
80 138 0.41
81 3 0.01
82 4 0.01
83 1 0.00
84 7 0.02
85 5 0.01
86 45 0.13
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.35
Consensus pattern (76 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATTCATAT
Found at i:29606 original size:22 final size:22
Alignment explanation
Indices: 29533--29597 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
29523 TAATAAATTA
29533 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
29555 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
29577 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
29598 CTAATAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:29650 original size:188 final size:192
Alignment explanation
Indices: 29309--29973 Score: 696
Period size: 188 Copynumber: 3.4 Consensus size: 192
29299 CAATCCATAT
* * **
29309 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AA
* *
29374 TAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATTAATCC
62 TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
*** * * *
29439 ATACAACTACAAT-AATAAATCAATTCAT-A-T-TTTAAAATAAATCAATCTATACAAATA-AAT
127 ATA-TTTTAAAATAAATCAATCAATTAATAATTATTTAAAATAAATCAATCTATACAAATACAAT
29499 TA
191 TA
29501 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
*
29566 TCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
66 TCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
* *
29631 TTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAA-TA
131 TTTAAAATAAATCAATCAAT--TAAT-AATTATTTAAAATAAATCAATCTATACAAATACAATTA
* * * * * ** * * *
29695 -AT-AAATCAATCCATAT-TTTA-AAATAAATCAATCCATACT-AATAAAT---TA-TTTAAAAT
1 TTTAAAATAAAT-CA-ATCTATACTAATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAAT
*
29751 AAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTA
63 AAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCA
*
29816 TATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAA
128 TATTTTAAAATAAATCAAT-CA-ATTAAT-AATTATTTAAAATAAATCAAT-C-T---A-TAC-A
29881 TAATAAATCAATCCATA
183 -AAT--A-CAAT---TA
29898 TTTTAAAATAAATCAATAC-ATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATA
1 -TTTAAAATAAATCAAT-CTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATA
*
29962 AATCAATTCATA
64 AATCAATCCATA
29974 CTAATAAATT
Statistics
Matches: 393, Mismatches: 41, Indels: 60
0.80 0.08 0.12
Matches are distributed among these distances:
187 5 0.01
188 193 0.49
189 9 0.02
190 4 0.01
192 72 0.18
193 13 0.03
194 32 0.08
195 3 0.01
196 2 0.01
198 1 0.00
199 3 0.01
203 2 0.01
204 2 0.01
205 10 0.03
206 20 0.05
209 2 0.01
210 20 0.05
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (192 bp):
TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
TTTAAAATAAATCAATCAATTAATAATTATTTAAAATAAATCAATCTATACAAATACAATTA
Found at i:29660 original size:22 final size:22
Alignment explanation
Indices: 29611--29659 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
29601 ATAAATTATT
* **
29611 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCAATATAA
29633 TAAAATAAATCAATCAATACTAA
1 TAAAATAAATCAATCAATA-TAA
29656 TAAA
1 TAAA
29660 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCAATATAA
Found at i:29740 original size:22 final size:23
Alignment explanation
Indices: 29665--29739 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
29655 ATAAATTATT
29665 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
29687 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
29713 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
29736 TAAA
1 TAAA
29740 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:29764 original size:134 final size:132
Alignment explanation
Indices: 29501--29951 Score: 600
Period size: 134 Copynumber: 3.4 Consensus size: 132
29491 AAATAAATTA
* ** *
29501 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCAT-ATTTTAA-AATA
1 TTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCATAAAATAAATAATA
*
29564 AATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
66 AATCAATACATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
29629 AT
131 AT
*
29631 TTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCATA-AAATA-AATAA
*
29696 TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
64 TAAATCAATACATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
29761 ATAT
129 ATAT
* *
29765 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAA
1 TTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATC--CA---TAAAATAAA
* * *
29830 TCAATACATACTAATAAAT-TATTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAA
61 T-AATAAAT-C-AATACATAT-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAA
29887 ATCAATCCATAT
121 ATCAATCCATAT
29899 TTTAAAATAAATCAAT-ACATACTAATAAATTATTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCA-ATACTAATAAATTATTTAAAATAAATCAATCCATA
29952 TTTTAAAATA
Statistics
Matches: 292, Mismatches: 14, Indels: 31
0.87 0.04 0.09
Matches are distributed among these distances:
129 2 0.01
130 51 0.17
132 3 0.01
133 2 0.01
134 182 0.62
136 2 0.01
137 3 0.01
138 11 0.04
139 6 0.02
140 30 0.10
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (132 bp):
TTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCATAAAATAAATAATA
AATCAATACATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
AT
Found at i:29769 original size:22 final size:22
Alignment explanation
Indices: 29743--29785 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
29733 TAATAAATTA
29743 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
29765 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
29786 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:29794 original size:22 final size:22
Alignment explanation
Indices: 29745--29793 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
29735 ATAAATTATT
**
29745 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
29767 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
29790 TAAA
1 TAAA
29794 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:29928 original size:22 final size:22
Alignment explanation
Indices: 29856--29928 Score: 53
Period size: 22 Copynumber: 3.3 Consensus size: 22
29846 AATTATTTAA
* *
29856 AATAAATCAATCCATACA-ACT
1 AATAAATAAATCAATACATACT
*
29877 ACA-ATAATAAATCAATCCATA-T
1 A-ATA-AATAAATCAATACATACT
**
29899 TTTAAAATAAATCAATACATACT
1 AAT-AAATAAATCAATACATACT
29922 AATAAAT
1 AATAAAT
29929 TATTTAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 11
0.67 0.14 0.19
Matches are distributed among these distances:
21 2 0.05
22 32 0.84
23 4 0.11
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAAATAAATCAATACATACT
Found at i:29957 original size:22 final size:22
Alignment explanation
Indices: 29931--29973 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
29921 TAATAAATTA
29931 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
29953 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
29974 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:29982 original size:22 final size:22
Alignment explanation
Indices: 29933--29981 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
29923 ATAAATTATT
**
29933 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
29955 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
29978 TAAA
1 TAAA
29982 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:30059 original size:15 final size:15
Alignment explanation
Indices: 30004--30147 Score: 137
Period size: 15 Copynumber: 9.0 Consensus size: 15
29994 AATCAATCCA
30004 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
* *
30019 AAATTTATACTAATAAAT
1 -TATTT-TA-AAATAAAT
30037 TA-TTTAAAATAAAT
1 TATTTTAAAATAAAT
30051 TATTTTAAAATAAATCAAT
1 TATTTTAAAAT--A--AAT
* *
30070 CCATATTTTATAATAATT
1 ---TATTTTAAAATAAAT
*
30088 TATTTTAAAGTAAAT
1 TATTTTAAAATAAAT
*
30103 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
30118 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
30133 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
30148 AACCTTATTA
Statistics
Matches: 106, Mismatches: 12, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
14 9 0.08
15 64 0.60
16 6 0.06
17 4 0.04
18 9 0.08
19 3 0.03
20 1 0.01
22 10 0.09
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.46
Consensus pattern (15 bp):
TATTTTAAAATAAAT
Found at i:30065 original size:69 final size:67
Alignment explanation
Indices: 29976--30132 Score: 221
Period size: 69 Copynumber: 2.3 Consensus size: 67
29966 AATTCATACT
29976 AATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATAAATTTATACTAA-TAAATTA
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAAT-AATAAATTT-TA--AAGTAAATTA
30039 -TTTAA
62 TTTTAA
* **
30044 AATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTTAAAGTAAATTATTTT
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAATAAATTTTAAAGTAAATTATTTT
*
30109 AT
66 AA
30111 AATAAATTATTTTAAAATAAAT
1 AATAAATTATTTTAAAATAAAT
30133 TATTTTAAAA
Statistics
Matches: 82, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
65 2 0.02
66 7 0.09
67 28 0.34
68 16 0.20
69 29 0.35
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (67 bp):
AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAATAAATTTTAAAGTAAATTATTTT
AA
Found at i:30544 original size:3 final size:3
Alignment explanation
Indices: 30500--30524 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
30490 AAAATAAAAA
30500 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
30525 CATCTGATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:31559 original size:32 final size:31
Alignment explanation
Indices: 31523--31598 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
31513 CGGGGCCGTG
*
31523 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
31555 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
31586 GAGCCTACCTAAG
1 GGGCCTACCTAAG
31599 TGTCACATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.26, C:0.32, G:0.28, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:31582 original size:63 final size:63
Alignment explanation
Indices: 31476--31598 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 63
31466 ACCTAAGGGA
* * ** *
31476 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
31539 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAG
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAG
31599 TGTCACATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.25, C:0.29, G:0.28, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:34449 original size:5 final size:5
Alignment explanation
Indices: 34439--34469 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
34429 CAACGGTCAA
34439 CGGGT CGGGT CGGGT CGGGT CGGGT CGGGT C
1 CGGGT CGGGT CGGGT CGGGT CGGGT CGGGT C
34470 AACTGGTCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.23, G:0.58, T:0.19
Consensus pattern (5 bp):
CGGGT
Found at i:34490 original size:13 final size:13
Alignment explanation
Indices: 34437--34507 Score: 73
Period size: 13 Copynumber: 5.9 Consensus size: 13
34427 GTCAACGGTC
34437 AACGGGTCGGGT-
1 AACGGGTCGGGTA
34449 --CGGGTCGGGT-
1 AACGGGTCGGGTA
*
34459 --CGGGTCGGGTC
1 AACGGGTCGGGTA
* *
34470 AACTGGTCAGGTA
1 AACGGGTCGGGTA
34483 AACGGGTCGGGTA
1 AACGGGTCGGGTA
34496 AACGGGTCGGGT
1 AACGGGTCGGGT
34508 CGGGTCGGGT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
10 20 0.39
13 31 0.61
ACGTcount: A:0.15, C:0.18, G:0.48, T:0.18
Consensus pattern (13 bp):
AACGGGTCGGGTA
Found at i:36586 original size:32 final size:31
Alignment explanation
Indices: 36550--36625 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
36540 CGGGGCCGTG
*
36550 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
36582 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
36613 GAGCCTACCTAAG
1 GGGCCTACCTAAG
36626 TGTCACATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.26, C:0.32, G:0.28, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:36609 original size:63 final size:63
Alignment explanation
Indices: 36503--36625 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 63
36493 ACCTAAGGGA
* * ** *
36503 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
36566 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAG
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAG
36626 TGTCACATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.25, C:0.29, G:0.28, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:39468 original size:5 final size:5
Alignment explanation
Indices: 39458--39483 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
39448 CAACGGTCAA
39458 CGGGT CGGGT CGGGT CGGGT CGGGT C
1 CGGGT CGGGT CGGGT CGGGT CGGGT C
39484 AACTGGTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.23, G:0.58, T:0.19
Consensus pattern (5 bp):
CGGGT
Found at i:39504 original size:13 final size:13
Alignment explanation
Indices: 39473--39521 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
39463 CGGGTCGGGT
*
39473 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
* *
39486 CTGGTCAGGTAAA
1 CGGGTCGGGTAAA
39499 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
39512 CGGGTCGGGT
1 CGGGTCGGGT
39522 CGGGTCGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.18, C:0.18, G:0.45, T:0.18
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:47168 original size:29 final size:29
Alignment explanation
Indices: 47123--47180 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
47113 GTGTTGGCCG
* *
47123 TAGGTCGTCATGCCTTCCGGGCGACCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
* *
47152 TAGGTCGCCATGTCTTCCCGGCGAGCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
47181 AAGAGATTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.34, G:0.28, T:0.24
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCCGGCGACCTAC
Found at i:47232 original size:10 final size:10
Alignment explanation
Indices: 47219--47289 Score: 74
Period size: 10 Copynumber: 6.7 Consensus size: 10
47209 ACACGCTGGG
47219 CATCCGAGGC
1 CATCCGAGGC
47229 CATCCGACCGAGGC
1 CAT-C--C-GAGGC
47243 CATCCGAGAG-
1 CATCCGAG-GC
47253 CATCCGAGGC
1 CATCCGAGGC
47263 CATCCGAGAG-
1 CATCCGAG-GC
47273 CATCCGAGGC
1 CATCCGAGGC
47283 CATCCGA
1 CATCCGA
47290 ACGAGCTATG
Statistics
Matches: 53, Mismatches: 0, Indels: 16
0.77 0.00 0.23
Matches are distributed among these distances:
9 2 0.04
10 37 0.70
11 4 0.08
13 2 0.04
14 8 0.15
ACGTcount: A:0.24, C:0.38, G:0.28, T:0.10
Consensus pattern (10 bp):
CATCCGAGGC
Found at i:47241 original size:14 final size:14
Alignment explanation
Indices: 47222--47249 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47212 CGCTGGGCAT
47222 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
47236 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
47250 GAGCATCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.43, G:0.29, T:0.07
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:47261 original size:20 final size:20
Alignment explanation
Indices: 47236--47289 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
47226 GGCCATCCGA
47236 CCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCCGAGAGCAT
47256 CCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCCGAGAGCAT
47276 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
47290 ACGAGCTATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.24, C:0.37, G:0.30, T:0.09
Consensus pattern (20 bp):
CCGAGGCCATCCGAGAGCAT
Found at i:47312 original size:23 final size:23
Alignment explanation
Indices: 47277--47328 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
47267 CGAGAGCATC
* *
47277 CGAGGCCATCCGAACGAGCTATG
1 CGAGGGCAACCGAACGAGCTATG
*
47300 CGAGGGCAACCGAGCGAGCTATG
1 CGAGGGCAACCGAACGAGCTATG
47323 CGAGGG
1 CGAGGG
47329 AATCCGAGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.38, T:0.10
Consensus pattern (23 bp):
CGAGGGCAACCGAACGAGCTATG
Found at i:47335 original size:23 final size:24
Alignment explanation
Indices: 47284--47336 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
47274 ATCCGAGGCC
*
47284 ATCCGAACGAGCTATGCGAGGGCA
1 ATCCGAGCGAGCTATGCGAGGGCA
47308 A-CCGAGCGAGCTATGCGAGGG-A
1 ATCCGAGCGAGCTATGCGAGGGCA
47330 ATCCGAG
1 ATCCGAG
47337 GGAAGCCGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 2 0.07
23 24 0.89
24 1 0.04
ACGTcount: A:0.28, C:0.25, G:0.36, T:0.11
Consensus pattern (24 bp):
ATCCGAGCGAGCTATGCGAGGGCA
Found at i:47387 original size:29 final size:29
Alignment explanation
Indices: 47354--47409 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
47344 GAGCGAGGGT
*
47354 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
47383 AGGTCGCCCGGAGGGCATGGCGACCTA
1 AGGTCGCCCGGAGGGCATGGCGACCTA
47410 TGTGTTGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.20, C:0.30, G:0.38, T:0.12
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGGCGACCTACA
Found at i:48506 original size:2 final size:2
Alignment explanation
Indices: 48499--48538 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
48489 ATAGATTTAT
48499 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
48539 AATTAATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:48851 original size:18 final size:18
Alignment explanation
Indices: 48828--48865 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
48818 TCTATTTTTA
48828 TTAAATTAAA-ATAGTATT
1 TTAAA-TAAATATAGTATT
*
48846 TTAAATAAATATATTATT
1 TTAAATAAATATAGTATT
48864 TT
1 TT
48866 GGTTCGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
TTAAATAAATATAGTATT
Found at i:53962 original size:23 final size:23
Alignment explanation
Indices: 53936--54004 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
53926 CACCACAGCT
*
53936 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* * *
53959 CGTAGAATTGCTCCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
53982 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
54005 TATAATAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:54574 original size:31 final size:31
Alignment explanation
Indices: 54538--54603 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
54528 TAAGTCTTGA
54538 AATTAACCTCTAATAGCCTAACAATTTAAGG
1 AATTAACCTCTAATAGCCTAACAATTTAAGG
54569 AATTAACCTCTAATAGCCTAACAATTTAAGG
1 AATTAACCTCTAATAGCCTAACAATTTAAGG
54600 AATT
1 AATT
54604 GATAGTTAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (31 bp):
AATTAACCTCTAATAGCCTAACAATTTAAGG
Found at i:54674 original size:19 final size:20
Alignment explanation
Indices: 54636--54673 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
54626 CTCTTTTTTA
*
54636 TGGGGGAATCGGTTCCCCCT
1 TGGGGGAATCGATTCCCCCT
*
54656 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
54674 TCTAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.29, G:0.34, T:0.26
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCT
Found at i:60778 original size:23 final size:23
Alignment explanation
Indices: 60752--60820 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
60742 CACCACAGCT
*
60752 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* * *
60775 CGTAGAATTACACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
60798 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
60821 TATAATAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:65203 original size:31 final size:31
Alignment explanation
Indices: 65165--65349 Score: 327
Period size: 31 Copynumber: 6.0 Consensus size: 31
65155 GGGTCGAGGG
65165 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
65196 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
65227 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
65258 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
65289 TAACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
65320 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
65350 GTCCTTCGGG
Statistics
Matches: 149, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
31 148 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:69400 original size:31 final size:31
Alignment explanation
Indices: 69362--69515 Score: 274
Period size: 31 Copynumber: 5.0 Consensus size: 31
69352 GGGTCGAGGG
69362 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
69393 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
69424 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
69455 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
69486 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
69516 GTCCTTCGGG
Statistics
Matches: 120, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
31 119 0.99
32 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:75823 original size:20 final size:21
Alignment explanation
Indices: 75798--75846 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
75788 TAACAAGGTA
75798 AAAATTTAAT-ATATTT-AAT
1 AAAATTTAATAATATTTCAAT
*
75817 GAAAATTTTATAATATTTCAAT
1 -AAAATTTAATAATATTTCAAT
75839 AAAATTTA
1 AAAATTTA
75847 TTATTCGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.36
21 13 0.52
22 3 0.12
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
AAAATTTAATAATATTTCAAT
Found at i:75904 original size:31 final size:31
Alignment explanation
Indices: 75869--75927 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
75859 TTTGTAATAG
*
75869 TTTGATAAATTTAATGATCATTTTATAAAAA
1 TTTGATAAATTGAATGATCATTTTATAAAAA
*
75900 TTTGATAAATTGAATGATTATTTTATAA
1 TTTGATAAATTGAATGATCATTTTATAA
75928 TTTTTGAAAA
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:0.42, C:0.02, G:0.08, T:0.47
Consensus pattern (31 bp):
TTTGATAAATTGAATGATCATTTTATAAAAA
Found at i:78894 original size:6 final size:6
Alignment explanation
Indices: 78883--78972 Score: 105
Period size: 6 Copynumber: 15.5 Consensus size: 6
78873 TATGTATGTA
* * *
78883 TGTGCG TGTGC- -GCGCG TGCGCG TGTGCG CGTGCG TGTGCG TGTGCG
1 TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG
* * *
78929 TGTGCG TGTGCG TGTGCG TGTGCG TGCG-G TGTGGG TGTGTG TGT
1 TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGT
78973 ATCATTGATG
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
4 3 0.04
5 4 0.05
6 67 0.91
ACGTcount: A:0.00, C:0.18, G:0.51, T:0.31
Consensus pattern (6 bp):
TGTGCG
Found at i:78913 original size:8 final size:8
Alignment explanation
Indices: 78886--78928 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
78876 GTATGTATGT
78886 GCGTGTGC
1 GCGTGTGC
*
78894 GCGCGTGC
1 GCGTGTGC
78902 GCGTGTGC
1 GCGTGTGC
*
78910 GCGTGCGTGT
1 GCGT--GTGC
78920 GCGTGTGC
1 GCGTGTGC
78928 G
1 G
78929 TGTGCGTGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 22 0.76
10 7 0.24
ACGTcount: A:0.00, C:0.26, G:0.51, T:0.23
Consensus pattern (8 bp):
GCGTGTGC
Found at i:96274 original size:271 final size:271
Alignment explanation
Indices: 95786--96329 Score: 998
Period size: 271 Copynumber: 2.0 Consensus size: 271
95776 GTTTCATTAC
*
95786 CAGTATTGTAGTATTCGTCTGTTGCATTTATTCTTGTCCTTGCTGCAGGGTGCATTGCTACCAAG
1 CAGTATTGTAGTATTCGTCTGTTGCATTTATTCTTGTCCTTGCTGCAGGGTGCATTACTACCAAG
*
95851 GAGCTGGGAACTGTAATGAGATAGCTTGGCCAGAACCCTACTGAGGCGGAACTCCAAGATATGAT
66 AAGCTGGGAACTGTAATGAGATAGCTTGGCCAGAACCCTACTGAGGCGGAACTCCAAGATATGAT
*
95916 TAATGAATTTGATGCCGATGGAAATGGGACCATCGATTTCCCCGAATTCCTTAACCTGATAGCAA
131 TAATGAAGTTGATGCCGATGGAAATGGGACCATCGATTTCCCCGAATTCCTTAACCTGATAGCAA
*
95981 GGAAGATGAAGGATACTGATTCGGAAGAGGAACTTAAAGAGGCGTTCAGGGTGTTTGACAAGGAC
196 GGAAGATGAAGGATACTGATTCGGAAAAGGAACTTAAAGAGGCGTTCAGGGTGTTTGACAAGGAC
96046 CAGAATGGTTT
261 CAGAATGGTTT
*
96057 CAGTATTGTAGTATTCGTCTGTTGCATTTATTCTTGTCCTTGTTGCAGGGTGCATTACTACCAAG
1 CAGTATTGTAGTATTCGTCTGTTGCATTTATTCTTGTCCTTGCTGCAGGGTGCATTACTACCAAG
* * *
96122 AAGTTGGGAACTGTAATGCGATCGCTTGGCCAGAACCCTACTGAGGCGGAACTCCAAGATATGAT
66 AAGCTGGGAACTGTAATGAGATAGCTTGGCCAGAACCCTACTGAGGCGGAACTCCAAGATATGAT
*
96187 TAATGAAGTTGATGCCGATGGAAATGGGACCATCGATTTCCCCGAATTCCTTAACCTGATGGCAA
131 TAATGAAGTTGATGCCGATGGAAATGGGACCATCGATTTCCCCGAATTCCTTAACCTGATAGCAA
*
96252 GGAAGATGAAGGATATTGATTCGGAAAAGGAACTTAAAGAGGCGTTCAGGGTGTTTGACAAGGAC
196 GGAAGATGAAGGATACTGATTCGGAAAAGGAACTTAAAGAGGCGTTCAGGGTGTTTGACAAGGAC
96317 CAGAATGGTTT
261 CAGAATGGTTT
96328 CA
1 CA
96330 TATCTGCGGC
Statistics
Matches: 263, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
271 263 1.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (271 bp):
CAGTATTGTAGTATTCGTCTGTTGCATTTATTCTTGTCCTTGCTGCAGGGTGCATTACTACCAAG
AAGCTGGGAACTGTAATGAGATAGCTTGGCCAGAACCCTACTGAGGCGGAACTCCAAGATATGAT
TAATGAAGTTGATGCCGATGGAAATGGGACCATCGATTTCCCCGAATTCCTTAACCTGATAGCAA
GGAAGATGAAGGATACTGATTCGGAAAAGGAACTTAAAGAGGCGTTCAGGGTGTTTGACAAGGAC
CAGAATGGTTT
Found at i:97078 original size:29 final size:29
Alignment explanation
Indices: 97045--97120 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
97035 TCCCCAAGCA
* * *
97045 TAGGTCGGCATGCCCTCCGGGAGACCTTG
1 TAGGTCGCCATGCACTCCAGGAGACCTTG
*
97074 TAGGTCGCCATGCACTCCAGGCGACCTTG
1 TAGGTCGCCATGCACTCCAGGAGACCTTG
97103 TAGGTCGCCATGCACTCC
1 TAGGTCGCCATGCACTCC
97121 TTCTTGCTCC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.16, C:0.34, G:0.29, T:0.21
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCAGGAGACCTTG
Found at i:97137 original size:21 final size:21
Alignment explanation
Indices: 97113--97154 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
97103 TAGGTCGCCA
*
97113 TGCACT-CCTTCTTGCTCCTCG
1 TGCACTCCCTCCTT-CTCCTCG
97134 TGCACTCCCTCCTTCTCCTCG
1 TGCACTCCCTCCTTCTCCTCG
97155 CGTGATTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.05, C:0.48, G:0.12, T:0.36
Consensus pattern (21 bp):
TGCACTCCCTCCTTCTCCTCG
Found at i:99033 original size:3 final size:3
Alignment explanation
Indices: 99016--99079 Score: 71
Period size: 3 Copynumber: 22.0 Consensus size: 3
99006 CGGGTTTTTT
* *
99016 TTA TCA TTA TT- TTA TTA TTA TTA TTA TTA TTG TTA -TA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
99061 TGTA TTA TTA GTA TTA TTA
1 T-TA TTA TTA TTA TTA TTA
99080 ATACAAATAC
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
2 5 0.10
3 45 0.88
4 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:99045 original size:26 final size:25
Alignment explanation
Indices: 99016--99078 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
99006 CGGGTTTTTT
99016 TTATCATTATTTTATTATTAT-TATTA
1 TTAT-ATTATTTTATTATT-TGTATTA
* *
99042 TTATTGTTATATTATTATTTGTATTA
1 TTA-TATTATTTTATTATTTGTATTA
99068 TTAGTATTATT
1 TTA-TATTATT
99079 AATACAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
25 1 0.03
26 28 0.93
27 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (25 bp):
TTATATTATTTTATTATTTGTATTA
Found at i:102699 original size:31 final size:32
Alignment explanation
Indices: 102663--102724 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
102653 ATTTTACATG
102663 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
102694 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
102725 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:103409 original size:15 final size:16
Alignment explanation
Indices: 103389--103422 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
103379 TCCATCTGCA
*
103389 TTTGCATCT-TTTTAT
1 TTTGCATATATTTTAT
103404 TTTGCATATATTTTAT
1 TTTGCATATATTTTAT
103420 TTT
1 TTT
103423 TAAGCATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.68
Consensus pattern (16 bp):
TTTGCATATATTTTAT
Found at i:104087 original size:26 final size:25
Alignment explanation
Indices: 104056--104135 Score: 80
Period size: 26 Copynumber: 3.3 Consensus size: 25
104046 CTAATTTTTG
104056 ACATTCTATCTCTTTGAGACCTTG-A
1 ACATTCT-TCTCTTTGAGACCTTGAA
* *
104081 A-A-TATTCT-TTT-CGACCTTGAA
1 ACATTCTTCTCTTTGAGACCTTGAA
*
104102 ACATTCCCTCTCTTTGAGACCTTGAA
1 ACATT-CTTCTCTTTGAGACCTTGAA
104128 ACATTCTT
1 ACATTCTT
104136 TCCACCTTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
20 7 0.16
21 5 0.12
22 4 0.09
23 3 0.07
24 4 0.09
25 6 0.14
26 14 0.33
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (25 bp):
ACATTCTTCTCTTTGAGACCTTGAA
Found at i:105679 original size:24 final size:23
Alignment explanation
Indices: 105626--105682 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
105616 TGAAAGGGGT
105626 AATATTTTCAAAATCTTTGATTA
1 AATATTTTCAAAATCTTTGATTA
* *
105649 AACATTTTTAAAACTCTTTTGA-TA
1 AATATTTTCAAAA-TC-TTTGATTA
*
105673 GATATTTTCA
1 AATATTTTCA
105683 TACTTTTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 11 0.41
24 11 0.41
25 5 0.19
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (23 bp):
AATATTTTCAAAATCTTTGATTA
Found at i:106686 original size:156 final size:156
Alignment explanation
Indices: 106394--106687 Score: 414
Period size: 156 Copynumber: 1.9 Consensus size: 156
106384 AATTTCTTTC
* * *
106394 AAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTAAGATACAAAATTTGAATTTGTTTCACA
1 AAAACAAATTGCATCTCATTTGAGACATTTTTCCTTTAAGATACAAAATTTGAATTTGATTCACA
* * *
106459 TTAAACAAAGTTGATCTCATTTGAGATCATATTTATTTCAAAACAAATTTCGTCTCGCTTGAGAC
66 TTAAACAAAATTAATCTCACTTGAGATCATATTTATTTCAAAACAAATTTCGTCTCGCTTGAGAC
*
106524 ATTTTTCCACAAATTTTGAGAATTTT
131 ACTTTTCCACAAATTTTGAGAATTTT
* * *
106550 AAAACAAATTGCATCTCGTTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAATTGCATCTCATTTGAGACATTTTTCCTTTAAGATACAAAATTTGAATTTGATTCACA
** * *
106614 TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTCAAAACAAATTTCGTCTCGCTTGA
66 TT-AAACAAAATTAATCTCA-CTTGAGA-TCATATTTATTTCAAAACAAATTTCGTCTCGCTTGA
106678 GAC-CTTTTCC
128 GACACTTTTCC
106688 CTTTGAGATC
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
155 2 0.02
156 82 0.68
157 37 0.31
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.40
Consensus pattern (156 bp):
AAAACAAATTGCATCTCATTTGAGACATTTTTCCTTTAAGATACAAAATTTGAATTTGATTCACA
TTAAACAAAATTAATCTCACTTGAGATCATATTTATTTCAAAACAAATTTCGTCTCGCTTGAGAC
ACTTTTCCACAAATTTTGAGAATTTT
Found at i:106691 original size:105 final size:102
Alignment explanation
Indices: 106550--106788 Score: 279
Period size: 105 Copynumber: 2.3 Consensus size: 102
106540 TGAGAATTTT
* * * * *
106550 AAAACAAATTGCATCTCGTTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
*
106614 TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 TT-AAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* * *
106655 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
* *
106720 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
106757 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
106789 TCTAAAAACA
Statistics
Matches: 117, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
101 2 0.02
102 26 0.22
103 7 0.06
104 4 0.03
105 76 0.65
106 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:106779 original size:36 final size:36
Alignment explanation
Indices: 106734--106818 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 36
106724 ACAAAGTTGA
**
106734 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
106770 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
*
106806 TCTCATTTGAGAC
1 TCTCACTTGAGAC
106819 TATATCAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 7 0.17
36 35 0.83
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:107134 original size:28 final size:27
Alignment explanation
Indices: 107096--107193 Score: 99
Period size: 29 Copynumber: 3.4 Consensus size: 27
107086 TCTTGAGACA
*
107096 GTTTCTCTTGAGATAAATCTTTGAGTCT
1 GTTTCTTTTGA-ATAAATCTTTGAGTCT
*
107124 GTTCCTTTTGAATAAAAATCTTTGAGT-T
1 GTTTCTTTTGAAT--AAATCTTTGAGTCT
*
107152 GTTTCTTTTGAAACAAATATCTTTGAGTCT
1 GTTTCTTTTG-AA-TAA-ATCTTTGAGTCT
*
107182 ATTTCTTTTGAA
1 GTTTCTTTTGAA
107194 ACAAAGTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
27 2 0.03
28 21 0.36
29 26 0.44
30 10 0.17
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.48
Consensus pattern (27 bp):
GTTTCTTTTGAATAAATCTTTGAGTCT
Found at i:107189 original size:30 final size:29
Alignment explanation
Indices: 107110--107198 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
107100 CTCTTGAGAT
*
107110 AAATCTTTGAGTCTGTTCCTTTTGAATA-A
1 AAATCTTTGAGTCTGTTTCTTTTGAA-ACA
107139 AAATCTTTGAGT-TGTTTCTTTTGAAACA
1 AAATCTTTGAGTCTGTTTCTTTTGAAACA
*
107167 AATATCTTTGAGTCTATTTCTTTTGAAACA
1 AA-ATCTTTGAGTCTGTTTCTTTTGAAACA
107197 AA
1 AA
107199 GTTTTGTCTC
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.02
28 15 0.27
29 22 0.40
30 17 0.31
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (29 bp):
AAATCTTTGAGTCTGTTTCTTTTGAAACA
Found at i:107325 original size:30 final size:30
Alignment explanation
Indices: 107281--107348 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
107271 ATTTTGTGAA
* *
107281 GAAAAAAAAATCTTTGAGAT-TGTTTCTTTT
1 GAAACAAAAATCTTTGAG-TCTATTTCTTTT
*
107311 GAAACAAATATCTTTGAGTCTATTTCTTTT
1 GAAACAAAAATCTTTGAGTCTATTTCTTTT
107341 GAAACAAA
1 GAAACAAA
107349 GTTTTGTCTC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 1 0.03
30 33 0.97
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (30 bp):
GAAACAAAAATCTTTGAGTCTATTTCTTTT
Found at i:107470 original size:30 final size:30
Alignment explanation
Indices: 107434--107564 Score: 111
Period size: 30 Copynumber: 4.1 Consensus size: 30
107424 TTGTGAAAAA
*
107434 AAAAATCTTTGAGATTGTTTCTTTTGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
**
107464 AAAAATCTTTGAGCCTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
* * ** *
107494 AAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAAC
1 AAAA------ATCT-TTGAGATTGTTTCTTTGGAAAC
107531 AAAAATCTTTGAG-TCTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGAT-TGTTTCTTTGGAAAC
107561 AAAA
1 AAAA
107565 TTTTGTCTCT
Statistics
Matches: 78, Mismatches: 15, Indels: 16
0.72 0.14 0.15
Matches are distributed among these distances:
29 1 0.01
30 51 0.65
31 3 0.04
36 3 0.04
37 20 0.26
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (30 bp):
AAAAATCTTTGAGATTGTTTCTTTGGAAAC
Found at i:107487 original size:148 final size:150
Alignment explanation
Indices: 107137--107520 Score: 684
Period size: 150 Copynumber: 2.6 Consensus size: 150
107127 CCTTTTGAAT
107137 AAAAATCTTTGAG-TTGTTTCTTTTGAAACAAATATCTTTGAGTCTATTTCTTTTGAAACAAAGT
1 AAAAATCTTTGAGATTGTTTCTTTTGAAACAAATATCTTTGAGTCTATTTCTTTTGAAACAAAGT
*
107201 TTTGTCTCTCTTAAGACAGTTTTGTGAAAAATCTTTGAGTCTGAAACAAAGTTTTGTCTCTCTTG
66 TTTGTCTCTCTTAAGACAATTTTGTGAAAAATCTTTGAGTCTGAAACAAAGTTTTGTCTCTCTTG
107266 AGACAATTTTGTGAAGAAAA
131 AGACAATTTTGTGAAGAAAA
107286 AAAAATCTTTGAGATTGTTTCTTTTGAAACAAATATCTTTGAGTCTATTTCTTTTGAAACAAAGT
1 AAAAATCTTTGAGATTGTTTCTTTTGAAACAAATATCTTTGAGTCTATTTCTTTTGAAACAAAGT
107351 TTTGTCTCTCTTAAGACAATTTTGTGAAAAATCTTTGAGTCTGAAACAAAGTTTTGTCTCTCTTG
66 TTTGTCTCTCTTAAGACAATTTTGTGAAAAATCTTTGAGTCTGAAACAAAGTTTTGTCTCTCTTG
107416 AGACAATTTTGTG-A-AAAA
131 AGACAATTTTGTGAAGAAAA
* * * * *
107434 AAAAATCTTTGAGATTGTTTCTTTTGAAACAAAAATCTTTGAGCCTGTTTCTTTGGAAACAAAAT
1 AAAAATCTTTGAGATTGTTTCTTTTGAAACAAATATCTTTGAGTCTATTTCTTTTGAAACAAAGT
*
107499 TTTGTCTCTCTTAAGATAATTT
66 TTTGTCTCTCTTAAGACAATTT
107521 CTTTTGAAAC
Statistics
Matches: 227, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
148 85 0.37
149 14 0.06
150 128 0.56
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.41
Consensus pattern (150 bp):
AAAAATCTTTGAGATTGTTTCTTTTGAAACAAATATCTTTGAGTCTATTTCTTTTGAAACAAAGT
TTTGTCTCTCTTAAGACAATTTTGTGAAAAATCTTTGAGTCTGAAACAAAGTTTTGTCTCTCTTG
AGACAATTTTGTGAAGAAAA
Found at i:107526 original size:67 final size:67
Alignment explanation
Indices: 107451--107618 Score: 302
Period size: 67 Copynumber: 2.5 Consensus size: 67
107441 TTTGAGATTG
*
107451 TTTCTTTTGAAACAAAAATCTTTGAGCCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
107516 AA
66 AA
107518 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
*
107583 AT
66 AA
*
107585 TTTCTTTTGAAA-AAAAATCTTTGAATCTGTTTCT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCT
107619 CTTAAAATGA
Statistics
Matches: 98, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
66 21 0.21
67 77 0.79
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (67 bp):
TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
AA
Found at i:107531 original size:37 final size:37
Alignment explanation
Indices: 107481--107607 Score: 112
Period size: 37 Copynumber: 3.6 Consensus size: 37
107471 TTTGAGCCTG
107481 TTTCTTTGGAAACAAAAT-TTTGTCTCTCTTAAGATAA
1 TTTCTTTGGAAACAAAATCTTTGTCTCTCTTAAGAT-A
* **
107518 TTTCTTTTGAAACAAAAATCTTTG--AGTC-T--G---
1 TTTCTTTGGAAAC-AAAATCTTTGTCTCTCTTAAGATA
107548 TTTCTTTGGAAACAAAAT-TTTGTCTCTCTTAAGATA
1 TTTCTTTGGAAACAAAATCTTTGTCTCTCTTAAGATA
* *
107584 TTTTCTTTTGAAAAAAAATCTTTG
1 -TTTCTTTGGAAACAAAATCTTTG
107608 AATCTGTTTC
Statistics
Matches: 70, Mismatches: 8, Indels: 23
0.69 0.08 0.23
Matches are distributed among these distances:
28 4 0.06
29 5 0.07
30 14 0.20
31 1 0.01
33 1 0.01
34 1 0.01
36 1 0.01
37 30 0.43
38 9 0.13
39 4 0.06
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (37 bp):
TTTCTTTGGAAACAAAATCTTTGTCTCTCTTAAGATA
Found at i:107565 original size:96 final size:95
Alignment explanation
Indices: 107393--107569 Score: 243
Period size: 96 Copynumber: 1.9 Consensus size: 95
107383 CTTTGAGTCT
* *
107393 GAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAAAAATCTTTGAGATTGTTTCTTT
1 GAAACAAAATTTTGTCTCTCTTAAGACAATTTTGTGAAAAAAAAAATCTTTGAGATTGTTTCTTT
*
107458 TGAAACAAAAATCTTTGAGCCTGTTTCTTTG
66 GGAAACAAAAAT-TTTGAGCCTGTTTCTTTG
* * *
107489 GAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTG-AAACAAAAATCTTTGAG-TCTGTTTC
1 GAAACAAAATTTTGTCTCTCTTAAGACAA-TT-TTGTGAAAAAAAAAATCTTTGAGAT-TGTTTC
107552 TTTGGAAAC-AAAATTTTG
63 TTTGGAAACAAAAATTTTG
107570 TCTCTCTTAA
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
95 4 0.06
96 32 0.44
97 32 0.44
98 4 0.06
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (95 bp):
GAAACAAAATTTTGTCTCTCTTAAGACAATTTTGTGAAAAAAAAAATCTTTGAGATTGTTTCTTT
GGAAACAAAAATTTTGAGCCTGTTTCTTTG
Found at i:108658 original size:27 final size:28
Alignment explanation
Indices: 108597--108675 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 28
108587 GAAACACATT
*
108597 ATCTTTGAG-CTTGTTTTTCTTGAAACAA
1 ATCTTTGAGTC-TGTTTCTCTTGAAACAA
108625 ATC-TTGAGTCTGTTTCT-TTGAAACAA
1 ATCTTTGAGTCTGTTTCTCTTGAAACAA
* * *
108651 ATCTTTGAATCGGTTTCTCCTGAAA
1 ATCTTTGAGTCTGTTTCTCTTGAAA
108676 TCATAACTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
26 12 0.27
27 23 0.52
28 9 0.20
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.43
Consensus pattern (28 bp):
ATCTTTGAGTCTGTTTCTCTTGAAACAA
Found at i:108757 original size:40 final size:41
Alignment explanation
Indices: 108695--108941 Score: 146
Period size: 40 Copynumber: 5.7 Consensus size: 41
108685 CTAAAGATGG
* * *
108695 CCAGCCGTCCTCGTCACATAGGAACCGTGTCATTCCT-CAA
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCTACAA
* * *
108735 CCAGACC-TCCTCATCACGTAGGAGCCGGGTCA-CCCTTAGATAA
1 CCAG-CCGTCCTCATCACGTAGGAACCGTGTCATCCC-T--ACAA
* * * *
108778 TCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACCACTCCTAAAGA
1 CCAGCCGTCCTCATCACGTAGGAACC--G-TGTCA--TC-CCTACA-A
*
108826 TGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCT-CGA
1 ---CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCTACAA
* * *
108869 CCAGACC-TCCTCATCACGTAGGAGCTGTGTCA-CCCTTAGATAA
1 CCAG-CCGTCCTCATCACGTAGGAACCGTGTCATCCC-T--ACAA
**
108912 CCAGTAGTCCTCATCACGTAGGAACCGTGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGT
108942 TATCACCTTG
Statistics
Matches: 160, Mismatches: 24, Indels: 43
0.70 0.11 0.19
Matches are distributed among these distances:
39 5 0.03
40 54 0.34
41 4 0.03
42 2 0.01
43 50 0.31
45 4 0.03
46 4 0.03
47 2 0.01
48 5 0.03
49 3 0.02
50 2 0.01
51 25 0.16
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.21
Consensus pattern (41 bp):
CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCTACAA
Found at i:108790 original size:43 final size:43
Alignment explanation
Indices: 108733--108938 Score: 163
Period size: 43 Copynumber: 4.7 Consensus size: 43
108723 GTCATTCCTC
*
108733 AACCAGACC-TCCTCATCACGTAGGAGCCGGGTCACCCTTAGAT
1 AACCAG-CCGTCCTCATCACGTAGGAACCGGGTCACCCTTAGAT
* *
108776 AATCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACCACTCCTAAAGAT
1 AACCAGCCGTCCTCATCACGTAGGAACCG-G--GTCACC-CT--T--AGAT
** * *
108827 GGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCC-TCG--
1 AACCAGCCGTCCTCATCACGTAGGAACCGGGTCA-CCCTTAGAT
* * *
108868 -ACCAGACC-TCCTCATCACGTAGGAGCTGTGTCACCCTTAGAT
1 AACCAG-CCGTCCTCATCACGTAGGAACCGGGTCACCCTTAGAT
**
108910 AACCAGTAGTCCTCATCACGTAGGAACCG
1 AACCAGCCGTCCTCATCACGTAGGAACCG
108939 TGTTATCACC
Statistics
Matches: 130, Mismatches: 17, Indels: 32
0.73 0.09 0.18
Matches are distributed among these distances:
39 3 0.02
40 29 0.22
41 2 0.02
42 2 0.02
43 48 0.37
44 1 0.01
45 1 0.01
46 5 0.04
47 2 0.02
48 4 0.03
49 3 0.02
51 30 0.23
ACGTcount: A:0.26, C:0.34, G:0.20, T:0.20
Consensus pattern (43 bp):
AACCAGCCGTCCTCATCACGTAGGAACCGGGTCACCCTTAGAT
Found at i:108922 original size:134 final size:134
Alignment explanation
Indices: 108681--108948 Score: 446
Period size: 134 Copynumber: 2.0 Consensus size: 134
108671 TGAAATCATA
* *
108681 ACTCCTAAAGATGGCCAGCCGTCCTCGTCACATAGGAACCGTGTCATTCCTCAACCAGACCTCCT
1 ACTCCTAAAGATGGCCAGCCGTCCTCATCACATAGGAACCGTGTCATCCCTCAACCAGACCTCCT
* *
108746 CATCACGTAGGAGCCGGGTCACCCTTAGATAATCAGCCGTCCTCATCACGTAGGAACCGAGTTAT
66 CATCACGTAGGAGCCGGGTCACCCTTAGATAACCAGCAGTCCTCATCACGTAGGAACCGAGTTAT
108811 CACC
131 CACC
* *
108815 ACTCCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCTCGACCAGACCTCCT
1 ACTCCTAAAGATGGCCAGCCGTCCTCATCACATAGGAACCGTGTCATCCCTCAACCAGACCTCCT
* * * *
108880 CATCACGTAGGAGCTGTGTCACCCTTAGATAACCAGTAGTCCTCATCACGTAGGAACCGTGTTAT
66 CATCACGTAGGAGCCGGGTCACCCTTAGATAACCAGCAGTCCTCATCACGTAGGAACCGAGTTAT
108945 CACC
131 CACC
108949 TTGAGATGGC
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
134 124 1.00
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (134 bp):
ACTCCTAAAGATGGCCAGCCGTCCTCATCACATAGGAACCGTGTCATCCCTCAACCAGACCTCCT
CATCACGTAGGAGCCGGGTCACCCTTAGATAACCAGCAGTCCTCATCACGTAGGAACCGAGTTAT
CACC
Found at i:109032 original size:130 final size:133
Alignment explanation
Indices: 108685--109038 Score: 403
Period size: 134 Copynumber: 2.7 Consensus size: 133
108675 ATCATAACTC
* * * * * *
108685 CTAAAGATGGCCAGCCGTCCTCGTCACATAGGAACCGTGTCATTCCTCAACCAGACCTCCTCATC
1 CTAAAGATGGCCAGACGTCCTCATCACGTAGGAACAGTGTCATCCCTCGACCAGACCTCCTCATC
* * * * *
108750 ACGTAGGAGCCGGGTCACCCTTAGATAATCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACC
66 ACGTAGGAACTGTGTCACCCTTAGATAACCAGCAGTCCTCATCACGTAGGAACCGAGTTATCACC
108815 ACT
131 ACT
* *
108818 CCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCTCGACCAGACCTCCTCAT
1 -CTAAAGATGGCCAGACGTCCTCATCACGTAGGAACAGTGTCATCCCTCGACCAGACCTCCTCAT
* * *
108883 CACGTAGGAGCTGTGTCACCCTTAGATAACCAGTAGTCCTCATCACGTAGGAACCGTGTTATCA-
65 CACGTAGGAACTGTGTCACCCTTAGATAACCAGCAGTCCTCATCACGTAGGAACCGAGTTATCAC
108947 C-CT
130 CACT
* * * * ** ** * *
108950 -T-GAGATGGCCAAGAAC-TCTTCATCATGTATGAGTAGTGTCATCCCTCGACCAGATTTCTTTA
1 CTAAAGATGGCC-AG-ACGTCCTCATCACGTAGGAACAGTGTCATCCCTCGACCAGACCTCCTCA
*
109012 TCACGTAGGAATTGTGTCACCCTTAGA
64 TCACGTAGGAACTGTGTCACCCTTAGA
109039 CGACCCGAAC
Statistics
Matches: 194, Mismatches: 24, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
129 8 0.04
130 64 0.33
131 1 0.01
132 2 0.01
133 1 0.01
134 118 0.61
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (133 bp):
CTAAAGATGGCCAGACGTCCTCATCACGTAGGAACAGTGTCATCCCTCGACCAGACCTCCTCATC
ACGTAGGAACTGTGTCACCCTTAGATAACCAGCAGTCCTCATCACGTAGGAACCGAGTTATCACC
ACT
Found at i:109244 original size:3 final size:3
Alignment explanation
Indices: 109227--109290 Score: 71
Period size: 3 Copynumber: 22.0 Consensus size: 3
109217 CGGGTTTTTT
* **
109227 TTA TCA TTA TT- TTA TTA TTA TTA TTA TTA TCG TTA -TA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
109272 TGTA TTA TTA TTA TTA TTA
1 T-TA TTA TTA TTA TTA TTA
109291 ATACAAATAC
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
2 5 0.10
3 45 0.88
4 1 0.02
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:109256 original size:26 final size:26
Alignment explanation
Indices: 109227--109289 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
109217 CGGGTTTTTT
109227 TTATCATTATTTTATTATTAT-TATTA
1 TTATCATTATTTTATTATT-TGTATTA
* *
109253 TTATCGTTATATTATTATTTGTATTA
1 TTATCATTATTTTATTATTTGTATTA
*
109279 TTATTATTATT
1 TTATCATTATT
109290 AATACAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 1 0.03
26 30 0.97
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (26 bp):
TTATCATTATTTTATTATTTGTATTA
Done.