Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009390.1 Hibiscus syriacus cultivar Beakdansim tig00113287_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: 73912
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3760 original size:24 final size:23
Alignment explanation
Indices: 3733--3794 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
3723 TTGTTGGAAT
3733 TAATTTTATTTATTTTAATATATA
1 TAATTTTATTTATTTTAATATA-A
* *
3757 TAATATTATTTA--TTATTATAA
1 TAATTTTATTTATTTTAATATAA
*
3778 TAATTTAATTTAATTTT
1 TAATTTTATTT-ATTTT
3795 CTATGATTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
21 10 0.32
22 8 0.26
24 13 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TAATTTTATTTATTTTAATATAA
Found at i:3882 original size:22 final size:21
Alignment explanation
Indices: 3857--3899 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
3847 TAGGTTTATT
*
3857 TTAAAATATAATTATATAAATA
1 TTAAAATATAAATATA-AAATA
* *
3879 TTAAGATTTAAATATAAAATA
1 TTAAAATATAAATATAAAATA
3900 ATACCAAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TTAAAATATAAATATAAAATA
Found at i:27548 original size:105 final size:105
Alignment explanation
Indices: 27366--27579 Score: 428
Period size: 105 Copynumber: 2.0 Consensus size: 105
27356 TATTTTGATC
27366 AAATCAATAATTCTCCATTATATGAATATAATTGGACACATTCTTTTAGGTTTAATTCATACTTA
1 AAATCAATAATTCTCCATTATATGAATATAATTGGACACATTCTTTTAGGTTTAATTCATACTTA
27431 ATTTGATTGGTTAATTTTATAAATATTTAATTGTCATGTA
66 ATTTGATTGGTTAATTTTATAAATATTTAATTGTCATGTA
27471 AAATCAATAATTCTCCATTATATGAATATAATTGGACACATTCTTTTAGGTTTAATTCATACTTA
1 AAATCAATAATTCTCCATTATATGAATATAATTGGACACATTCTTTTAGGTTTAATTCATACTTA
27536 ATTTGATTGGTTAATTTTATAAATATTTAATTGTCATGTA
66 ATTTGATTGGTTAATTTTATAAATATTTAATTGTCATGTA
27576 AAAT
1 AAAT
27580 ATATTACATG
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 109 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (105 bp):
AAATCAATAATTCTCCATTATATGAATATAATTGGACACATTCTTTTAGGTTTAATTCATACTTA
ATTTGATTGGTTAATTTTATAAATATTTAATTGTCATGTA
Found at i:31043 original size:22 final size:23
Alignment explanation
Indices: 31018--31064 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
31008 ACATTTTGAT
* *
31018 AATTTTAAATTTTTTAT-TTAAA
1 AATTTAAAATTTATTATATTAAA
31040 AATTTAAAATTTATTATATTAAA
1 AATTTAAAATTTATTATATTAAA
31063 AA
1 AA
31065 AAGCTTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AATTTAAAATTTATTATATTAAA
Found at i:40005 original size:28 final size:29
Alignment explanation
Indices: 39909--40012 Score: 99
Period size: 29 Copynumber: 3.5 Consensus size: 29
39899 AATAATCAAT
* *
39909 TATATTATAATAATATA-AGATATTATATTTT
1 TATATT-TAATAATATATA-ATAAT-TATTTA
*
39940 TAT-TTTAATAATATATAATAAATTTTTTA
1 TATATTTAATAATATATAAT-AATTATTTA
39969 TATATTTAATAATGA-ATAAT-ATTATTTA
1 TATATTTAATAAT-ATATAATAATTATTTA
39997 TATATTTAAATAATAT
1 TATATTT-AATAATAT
40013 TTTAGTAAAG
Statistics
Matches: 63, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
28 15 0.24
29 25 0.40
30 19 0.30
31 4 0.06
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
TATATTTAATAATATATAATAATTATTTA
Found at i:40177 original size:13 final size:13
Alignment explanation
Indices: 40139--40177 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
40129 TATTAATTTT
*
40139 TTTATTAATAAAA
1 TTTAATAATAAAA
*
40152 TTATAAAAATAAAA
1 TT-TAATAATAAAA
40166 TTTAATAATAAA
1 TTTAATAATAAA
40178 TAAATTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTAATAATAAAA
Found at i:40369 original size:20 final size:20
Alignment explanation
Indices: 40340--40386 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
40330 TTTCCAGATG
40340 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
40360 TTTTCTAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
40380 TTTTCCA
1 TTTTCCA
40387 TAATTCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.45
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:40421 original size:30 final size:29
Alignment explanation
Indices: 40372--40444 Score: 128
Period size: 30 Copynumber: 2.5 Consensus size: 29
40362 TTCTAGAAAT
40372 GTAATTCATTTTCCATAATTCAAATTCCA
1 GTAATTCATTTTCCATAATTCAAATTCCA
*
40401 GTAATTCATTTTTCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCA-TAATTCAAATTCCA
40431 GTAATTCATTTTCC
1 GTAATTCATTTTCC
40445 GGAAAACCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 14 0.34
30 27 0.66
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.44
Consensus pattern (29 bp):
GTAATTCATTTTCCATAATTCAAATTCCA
Found at i:40444 original size:15 final size:15
Alignment explanation
Indices: 40372--40444 Score: 94
Period size: 15 Copynumber: 4.9 Consensus size: 15
40362 TTCTAGAAAT
40372 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
**
40387 -TAATTCAAATTCCA
1 GTAATTCATTTTCCA
*
40401 GTAATTCATTTTTCA
1 GTAATTCATTTTCCA
**
40416 GTAATTCAAATTCCA
1 GTAATTCATTTTCCA
40431 GTAATTCATTTTCC
1 GTAATTCATTTTCC
40445 GGAAAACCAA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
14 12 0.26
15 35 0.74
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.44
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:40456 original size:29 final size:30
Alignment explanation
Indices: 40392--40456 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
40382 TTCCATAATT
* **
40392 CAAATTCCAGTAATTCATTTTTCAGTAATT
1 CAAATTCCAGTAATTCATTTTTCAGGAAAA
*
40422 CAAATTCCAGTAATTCA-TTTTCCGGAAAA
1 CAAATTCCAGTAATTCATTTTTCAGGAAAA
*
40451 CCAATT
1 CAAATT
40457 ACAACCAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (30 bp):
CAAATTCCAGTAATTCATTTTTCAGGAAAA
Found at i:40779 original size:20 final size:20
Alignment explanation
Indices: 40756--40807 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
40746 AACGCGATCC
40756 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
40776 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
40796 CCAAAATCGCAA
1 CCAGAATCGCAA
40808 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:40824 original size:21 final size:20
Alignment explanation
Indices: 40797--40895 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
40787 AATCAGTTTC
40797 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
40818 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
40839 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
40859 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
40880 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
40896 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:40924 original size:20 final size:20
Alignment explanation
Indices: 40862--41055 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
40852 CGATTTTCCA
* ** *
40862 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
40882 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
40902 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
40922 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
40942 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
40962 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
40982 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
41002 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
41022 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
41043 AAATCGCAACGCG
1 AAATCGCAACGCG
41056 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:40946 original size:60 final size:60
Alignment explanation
Indices: 40862--41055 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
40852 CGATTTTCCA
* ** * *
40862 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
40922 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
40982 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
41043 AAATCGCAACGCG
1 AAATCGCAACGCG
41056 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:41475 original size:33 final size:33
Alignment explanation
Indices: 41436--41506 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
41426 TTCACTTAGA
*
41436 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
41469 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
41502 TTTCA
1 TTTCA
41507 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:41646 original size:14 final size:14
Alignment explanation
Indices: 41627--41681 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
41617 AGAATGACTG
41627 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
41641 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
41660 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
41674 TCGCAACG
1 TCGCAACG
41682 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:41719 original size:19 final size:18
Alignment explanation
Indices: 41692--41809 Score: 80
Period size: 14 Copynumber: 7.1 Consensus size: 18
41682 CGAAACCAAA
*
41692 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCA-T
41711 TCGCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
*
41725 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCA-T
41744 TCGCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
* *
41758 TCTCGTTGCGATTGTCAT
1 TCGCGTTGCGATTTTCAT
41776 CTCGCGTTGCGA--TTC--
1 -TCGCGTTGCGATTTTCAT
*
41791 TCTCGTTGCGATTTTCAT
1 TCGCGTTGCGATTTTCAT
41809 T
1 T
41810 TCAACCAAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 29
0.68 0.07 0.25
Matches are distributed among these distances:
14 30 0.39
16 8 0.10
17 8 0.10
18 1 0.01
19 30 0.39
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.44
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCAT
Found at i:41733 original size:14 final size:14
Alignment explanation
Indices: 41714--41803 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
41704 TTTCATTTCG
41714 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
41728 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
41747 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
41761 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
41778 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
41794 CGTTGCGATT
1 CGTTGCGATT
41804 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:41739 original size:33 final size:33
Alignment explanation
Indices: 41697--41811 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
41687 CCAAATCGCA
41697 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
41730 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
41763 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
41796 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
41812 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:43739 original size:185 final size:186
Alignment explanation
Indices: 43509--43890 Score: 748
Period size: 185 Copynumber: 2.1 Consensus size: 186
43499 TAGATTGCTT
43509 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
43574 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
43639 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
43694 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
43759 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
43824 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
43880 AGTAAATTTAT
1 AGTAAATTTAT
43891 CCATTCAAGT
Statistics
Matches: 194, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
185 154 0.79
186 40 0.21
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:43823 original size:93 final size:93
Alignment explanation
Indices: 43509--43888 Score: 744
Period size: 93 Copynumber: 4.1 Consensus size: 93
43499 TAGATTGCTT
*
43509 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
43574 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
43602 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
43666 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
43694 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
43759 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
43787 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
43852 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
43880 AGTAAATTT
1 AGTAAATTT
43889 ATCCATTCAA
Statistics
Matches: 285, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 193 0.68
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:43972 original size:19 final size:19
Alignment explanation
Indices: 43932--44060 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
43922 TAGTTTACTT
* *
43932 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
43952 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
43971 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
43990 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
44004 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
44023 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
44037 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
44056 TCGCA
1 TCGCA
44061 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:44011 original size:33 final size:32
Alignment explanation
Indices: 43968--44060 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
43958 CGCGAAACCA
**
43968 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
44000 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
44033 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
44061 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:44058 original size:52 final size:52
Alignment explanation
Indices: 43932--44060 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
43922 TAGTTTACTT
**
43932 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
43984 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
44037 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
44061 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:44078 original size:19 final size:19
Alignment explanation
Indices: 44056--44190 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
44046 GAAACCAAAA
*
44056 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
44075 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
44091 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
44108 TCGCGTTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
44124 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
44141 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
44160 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
44180 TCGTGTTGCGA
1 TCGCGTTGCGA
44191 AAGTAAACTA
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:44097 original size:14 final size:14
Alignment explanation
Indices: 44078--44134 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
44068 TTTCATTTCG
44078 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
44092 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
44109 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTTT
44125 CGTTGCGATT
1 CGTTGCGATT
44135 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.09, C:0.21, G:0.25, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:44103 original size:33 final size:33
Alignment explanation
Indices: 44061--44153 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
44051 CAAAATCGCA
*
44061 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
44094 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
44127 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
44154 TTGGTTTCGC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:46047 original size:37 final size:38
Alignment explanation
Indices: 46005--46076 Score: 137
Period size: 37 Copynumber: 1.9 Consensus size: 38
45995 AATTGATTGT
46005 TTTTTGATTGTTTAATTGATTTGTAAAAG-TGATTCAA
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
46042 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
46077 TGTAAAAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 29 0.85
38 5 0.15
ACGTcount: A:0.29, C:0.01, G:0.17, T:0.53
Consensus pattern (38 bp):
TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
Found at i:46077 original size:14 final size:14
Alignment explanation
Indices: 46058--46093 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
46048 ATTGTTTAAT
46058 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
46072 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
46086 TGATTTGT
1 TGATTTGT
46094 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:46216 original size:19 final size:19
Alignment explanation
Indices: 46200--46301 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
46190 AAAAATGACT
46200 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
46219 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
46238 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
46252 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
46271 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
46291 ATCGCAATGCG
1 ATCGCAATGCG
46302 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:46354 original size:19 final size:19
Alignment explanation
Indices: 46330--46655 Score: 396
Period size: 19 Copynumber: 18.4 Consensus size: 19
46320 GATTATCTCG
46330 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
46349 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
46368 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
46382 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
46401 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
46420 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
46439 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
46458 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
46477 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
46491 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
46510 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
46529 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
46543 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
46562 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
46581 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
46595 TTGCGATTTTTATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
46615 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
46629 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
46648 TTGCGATT
1 TTGCGATT
46656 GTATTTTCCG
Statistics
Matches: 267, Mismatches: 14, Indels: 52
0.80 0.04 0.16
Matches are distributed among these distances:
14 35 0.13
16 30 0.11
17 28 0.10
18 3 0.01
19 160 0.60
20 11 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:46370 original size:52 final size:52
Alignment explanation
Indices: 46308--46627 Score: 541
Period size: 52 Copynumber: 6.0 Consensus size: 52
46298 TGCGTTTATA
*
46308 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
46360 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
46412 ATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
46469 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
46521 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
46573 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTTATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
46626 AT
1 AT
46628 GTTGGGATTT
Statistics
Matches: 256, Mismatches: 6, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
52 181 0.71
53 17 0.07
54 7 0.03
55 8 0.03
57 43 0.17
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:46405 original size:71 final size:72
Alignment explanation
Indices: 46330--46655 Score: 380
Period size: 71 Copynumber: 4.6 Consensus size: 72
46320 GATTATCTCG
46330 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCG-TTGCGATTTTCA
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGATTGCGATTTTCA
46394 TTTCGCA
66 TTTCGCA
* *
46401 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG-ATTGCGATT
46466 TTCATTTCGCA
62 TTCATTTCGCA
*
46477 TTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG-ATTGCGATT
*
46535 TTC-TCTCG--
62 TTCATTTCGCA
* *
46543 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCG-TTGCGATTTTTA
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGATTGCGATTTTCA
46607 TTTCCGCA
66 TTT-CGCA
* *
46615 TTGCGATTTTCA--T-G--TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
46656 GTATTTTCCG
Statistics
Matches: 226, Mismatches: 12, Indels: 38
0.82 0.04 0.14
Matches are distributed among these distances:
66 12 0.05
67 25 0.11
68 13 0.06
69 13 0.06
70 3 0.01
71 109 0.48
72 12 0.05
73 6 0.03
74 8 0.04
76 25 0.11
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.48
Consensus pattern (72 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGATTGCGATTTTCA
TTTCGCA
Found at i:46573 original size:161 final size:157
Alignment explanation
Indices: 46308--46627 Score: 552
Period size: 161 Copynumber: 2.0 Consensus size: 157
46298 TGCGTTTATA
46308 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
* *
46373 ATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGT
66 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG-
46438 ATTGCGATTTTAATTT-CGCATTGCGATTTTC
127 -TTGCGATTTTAATTTCCGCATTGCGATTTTC
*
46469 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
46534 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGC
66 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGC
*
46599 GATTTTTATTTCCGCATTGCGATTTTC
131 GATTTTAATTTCCGCATTGCGATTTTC
46626 AT
1 AT
46628 GTTGGGATTT
Statistics
Matches: 154, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
156 14 0.09
157 17 0.11
158 4 0.03
159 3 0.02
161 116 0.75
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (157 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGC
GATTTTAATTTCCGCATTGCGATTTTC
Found at i:46599 original size:33 final size:33
Alignment explanation
Indices: 46349--46655 Score: 271
Period size: 33 Copynumber: 8.8 Consensus size: 33
46339 TCATTTCGCA
*
46349 TTGCGATTTTCATTTCGCATTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
46382 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * *
46418 CATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCG
1 --TTGCGATTTTCATTTCGCATTGCGA--TT-CTCTCG
46456 CATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 --TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
46491 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
46527 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
46562 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
* *
46595 TTGCGATTTTTATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
* *
46629 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
46656 GTATTTTCCG
Statistics
Matches: 233, Mismatches: 22, Indels: 38
0.80 0.08 0.13
Matches are distributed among these distances:
31 9 0.04
32 5 0.02
33 86 0.37
34 28 0.12
35 13 0.06
36 11 0.05
37 2 0.01
38 67 0.29
39 3 0.01
40 9 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:48979 original size:12 final size:12
Alignment explanation
Indices: 48962--48986 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48952 TCTTCGGGGA
48962 CTTTTTCTTCTT
1 CTTTTTCTTCTT
48974 CTTTTTCTTCTT
1 CTTTTTCTTCTT
48986 C
1 C
48987 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:49195 original size:24 final size:24
Alignment explanation
Indices: 49161--49207 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
49151 CTGAAACATC
49161 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
49185 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
49208 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:49909 original size:20 final size:20
Alignment explanation
Indices: 49881--50249 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
49871 AAATTTCAGT
* * * *
49881 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
49901 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
49921 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
49941 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
49961 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
49981 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
50001 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
50021 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
50041 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
50061 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
50081 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
50101 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
50121 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
50141 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
50161 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
50181 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
50201 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
50221 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
50241 GTTGCGATT
1 GTTGCGATT
50250 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:53435 original size:12 final size:12
Alignment explanation
Indices: 53418--53450 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
53408 AAGATATGTA
53418 AAAAATATTTTT
1 AAAAATATTTTT
53430 AAAAATATTTTT
1 AAAAATATTTTT
53442 ATAAAATAT
1 A-AAAATAT
53451 AATTTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AAAAATATTTTT
Found at i:56347 original size:32 final size:32
Alignment explanation
Indices: 56310--56371 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
56300 TGTGATCAAT
56310 TGATGACGTGGCATGTGCCACGTCACCCAACA
1 TGATGACGTGGCATGTGCCACGTCACCCAACA
* * *
56342 TGATGATGTGGTATGTGTCACGTCACCCAA
1 TGATGACGTGGCATGTGCCACGTCACCCAA
56372 AATGGTGCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (32 bp):
TGATGACGTGGCATGTGCCACGTCACCCAACA
Done.