Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002696.1 Hibiscus syriacus cultivar Beakdansim tig00005570_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: 236398
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:5573 original size:48 final size:46
Alignment explanation
Indices: 5455--5573 Score: 114
Period size: 47 Copynumber: 2.5 Consensus size: 46
5445 AGCAGTAAAG
* * *
5455 CGCGCCCCCTGAACAGCGCTATACTGATTTGGCACCACGTGGTATA
1 CGCGCCCCCTGAACCGCGCTATACTGATCTGACACCACGTGGTATA
** ** *
5501 GCGCGCCCCCTGCCCCGCAATATACGGTGATCTGACGCCACGTGGGTATA
1 -CGCGCCCCCTGAACCGCGCTATAC--TGATCTGACACCACGT-GGTATA
*
5551 -GCGCCCCCTGATCCGCGCTATAC
1 CGCGCCCCCTGAACCGCGCTATAC
5574 CTGGGTATCT
Statistics
Matches: 57, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
47 19 0.33
48 19 0.33
49 13 0.23
50 6 0.11
ACGTcount: A:0.18, C:0.37, G:0.25, T:0.19
Consensus pattern (46 bp):
CGCGCCCCCTGAACCGCGCTATACTGATCTGACACCACGTGGTATA
Found at i:5704 original size:10 final size:10
Alignment explanation
Indices: 5689--5723 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
5679 TTTATCACAC
5689 CAAATTCTCT
1 CAAATTCTCT
5699 CAAATTCTCT
1 CAAATTCTCT
5709 -AAATTTCTCT
1 CAAA-TTCTCT
5719 CAAAT
1 CAAAT
5724 ATTCTATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 3 0.13
10 17 0.74
11 3 0.13
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:6066 original size:107 final size:109
Alignment explanation
Indices: 5851--6174 Score: 514
Period size: 107 Copynumber: 3.0 Consensus size: 109
5841 TGGAAATCAT
*
5851 ATATCTCTACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
5916 -ATTTATTTGATTTTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTTTAATGCATGATTATTAGATTAAGAATTAA
* * *
5959 ATATCTCGACACTTTACTAATACGATAACATTTTAACGTTTTAA-TTAATTTAAATTATTACTAA
1 ATATCTCGACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
6023 TAATTAGTTGA-TTTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTTTAATGCATGATTATTAGATTAAGAATTAA
* *
6066 ATATCTCGACAATTTGCTGATACG-TAACATTTTAATG-TTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
6129 TAATTAGTTGATTTATTTAATGCATGATTATTAGAGTAAGAATTAA
66 TAATTAGTTGA-TT-TTTAATGCATGATTATTAGATTAAGAATTAA
6175 TTTTGTAATT
Statistics
Matches: 199, Mismatches: 12, Indels: 9
0.90 0.05 0.04
Matches are distributed among these distances:
105 5 0.03
106 42 0.21
107 72 0.36
108 50 0.25
109 30 0.15
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (109 bp):
ATATCTCGACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:8383 original size:51 final size:50
Alignment explanation
Indices: 8315--8441 Score: 139
Period size: 50 Copynumber: 2.5 Consensus size: 50
8305 CCTACGTGGT
* * *
8315 GTATAGTGCGG-AGCAGGGGGCGCGCTATACCCCACGTGTAACCCAGTCAGC
1 GTATAGTGCGGTA-CAGGGGGCGCGCTAT-CCCCACGTGGAACCAAATCAGC
* * * **
8366 GTATAGCGCGGTACAGGGGGCGTGCTATCTCCACGTGGCGCCAAATCAGC
1 GTATAGTGCGGTACAGGGGGCGCGCTATCCCCACGTGGAACCAAATCAGC
* *
8416 ATATAGTGCGGTTCAGGGGGCGCGCT
1 GTATAGTGCGGTACAGGGGGCGCGCT
8442 TACTGCTACG
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
50 38 0.60
51 24 0.38
52 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.35, T:0.18
Consensus pattern (50 bp):
GTATAGTGCGGTACAGGGGGCGCGCTATCCCCACGTGGAACCAAATCAGC
Found at i:13034 original size:3 final size:3
Alignment explanation
Indices: 13026--13076 Score: 75
Period size: 3 Copynumber: 16.0 Consensus size: 3
13016 ATACTAGACC
13026 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA T-AA T-AA TAA
13074 TAA
1 TAA
13077 ATAAATAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 36 0.77
4 11 0.23
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:13066 original size:4 final size:4
Alignment explanation
Indices: 13057--13100 Score: 81
Period size: 4 Copynumber: 11.2 Consensus size: 4
13047 TAATAATAAT
13057 AATA AATA AATA AAT- AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA A
13101 TCATTCATTC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.08
4 36 0.92
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:13077 original size:15 final size:15
Alignment explanation
Indices: 13030--13100 Score: 91
Period size: 12 Copynumber: 5.1 Consensus size: 15
13020 TAGACCTAAT
13030 AATAAT-AAT-AAT-
1 AATAATAAATAAATA
13042 AATAAT-AAT-AAT-
1 AATAATAAATAAATA
13054 AATAATAAATAAATA
1 AATAATAAATAAATA
13069 AATAATAAATAAATA
1 AATAATAAATAAATA
13084 AATAAATAAATAAATA
1 AAT-AATAAATAAATA
13100 A
1 A
13101 TCATTCATTC
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
12 18 0.33
13 3 0.05
14 3 0.05
15 18 0.33
16 13 0.24
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAATAAATAAATA
Found at i:13459 original size:2 final size:2
Alignment explanation
Indices: 13452--13493 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
13442 TAACAATTAA
13452 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13494 CATGTCAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19653 original size:170 final size:167
Alignment explanation
Indices: 19371--19700 Score: 606
Period size: 170 Copynumber: 2.0 Consensus size: 167
19361 AGGGACGCCC
19371 AAAGGGTGTCACTCCTATGTACAGTTTGAAGCCTCTTGTGCGGAGGCTATCTCAACTCCTTGAAG
1 AAAGGGTGTCACTCCTATGTACAGTTTGAAGCCTCTTGTGCGGAGGCTATCTCAACTCCTTGAAG
*
19436 TTGACGTTTGTCTTTAAAAAACTAACTCTTTTTCCACCTCTGAGTTTCATTTGCTTGGTTTATTT
66 ATGACGTTTGTCTTTAAAAAACTAACTCTTTTTCCACCTCTGAGTTTCATTTGCTTGGTTTATTT
19501 TTCTATTAAAAATTTGTATCTGTCTTGGTAAAAATTTGTA
131 TTCTATTAAAAATTTGTA--TGTCTT-GTAAAAATTTGTA
19541 AAAGGGTGTCACTCCTATGTACAGTTTGAAGCCTCTTGTGCGGAGGCTATCTCAACTCCTTGAAG
1 AAAGGGTGTCACTCCTATGTACAGTTTGAAGCCTCTTGTGCGGAGGCTATCTCAACTCCTTGAAG
* *
19606 ATGATGTTTTTCTTTAAAAAACTAACTCTTTTTCCACCTCTGAGTTTCATTTGCTTGGTTTATTT
66 ATGACGTTTGTCTTTAAAAAACTAACTCTTTTTCCACCTCTGAGTTTCATTTGCTTGGTTTATTT
19671 TTCTATTAAAAATTTGTATGTCTTGTAAAA
131 TTCTATTAAAAATTTGTATGTCTTGTAAAA
19701 GGTTAAAATG
Statistics
Matches: 157, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
167 6 0.04
168 6 0.04
170 145 0.92
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.41
Consensus pattern (167 bp):
AAAGGGTGTCACTCCTATGTACAGTTTGAAGCCTCTTGTGCGGAGGCTATCTCAACTCCTTGAAG
ATGACGTTTGTCTTTAAAAAACTAACTCTTTTTCCACCTCTGAGTTTCATTTGCTTGGTTTATTT
TTCTATTAAAAATTTGTATGTCTTGTAAAAATTTGTA
Found at i:36351 original size:20 final size:20
Alignment explanation
Indices: 36328--36377 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
36318 TATTAGTTAA
**
36328 TTAAAATATGTTGAAAGTGT
1 TTAAAATATGTTGAAAGCCT
*
36348 TTAAAATATGTTTAAAGCCT
1 TTAAAATATGTTGAAAGCCT
36368 TTAAAATATG
1 TTAAAATATG
36378 AAAAACACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.14, T:0.40
Consensus pattern (20 bp):
TTAAAATATGTTGAAAGCCT
Found at i:41491 original size:23 final size:23
Alignment explanation
Indices: 41461--41597 Score: 163
Period size: 23 Copynumber: 6.0 Consensus size: 23
41451 TGAACCATTA
*
41461 TTCTTCTTCCATAAACTCGTTTC
1 TTCTTCTTCCATAAACTCATTTC
* *
41484 TTCTTCTTCTATAAACCCCA-TTC
1 TTCTTCTTCCATAAA-CTCATTTC
* *
41507 TTCTTCTTTCATAAA-TATATTTC
1 TTCTTCTTCCATAAACT-CATTTC
41530 TTCTTCTTCCATAAACAT-ATTTC
1 TTCTTCTTCCATAAAC-TCATTTC
*
41553 TTTTTCTTCCATAAACTCATTTC
1 TTCTTCTTCCATAAACTCATTTC
*
41576 TTCTTCTTTCATAAACTCATTT
1 TTCTTCTTCCATAAACTCATTT
41598 ATGTTAATAA
Statistics
Matches: 97, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
22 2 0.02
23 92 0.95
24 2 0.02
25 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.01, T:0.50
Consensus pattern (23 bp):
TTCTTCTTCCATAAACTCATTTC
Found at i:41577 original size:69 final size:69
Alignment explanation
Indices: 41461--41590 Score: 192
Period size: 69 Copynumber: 1.9 Consensus size: 69
41451 TGAACCATTA
* *
41461 TTCTTCTTCCATAAACTCGTTTCTTCTTCTTCTATAAACCCCATTCTTCTTCTTTCATAAATATA
1 TTCTTCTTCCATAAACTCATTTCTTCTTCTTCCATAAACCCCATTCTTCTTCTTTCATAAATATA
41526 TTTC
66 TTTC
* *
41530 TTCTTCTTCCATAAACAT-ATTTCTTTTTCTTCCATAAA-CTCATTTCTTCTTCTTTCATAAA
1 TTCTTCTTCCATAAAC-TCATTTCTTCTTCTTCCATAAACCCCA-TTCTTCTTCTTTCATAAA
41591 CTCATTTATG
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
68 3 0.05
69 51 0.93
70 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.01, T:0.50
Consensus pattern (69 bp):
TTCTTCTTCCATAAACTCATTTCTTCTTCTTCCATAAACCCCATTCTTCTTCTTTCATAAATATA
TTTC
Found at i:41668 original size:2 final size:2
Alignment explanation
Indices: 41661--41717 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
41651 TTACAAACTA
41661 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
41703 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
41718 CTCATAAGGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:44858 original size:5 final size:5
Alignment explanation
Indices: 44848--44873 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
44838 CTGACCAGTT
44848 GACCC GACCC GACCC GACCC GACCC G
1 GACCC GACCC GACCC GACCC GACCC G
44874 TTGACCCGTT
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:0.19, C:0.58, G:0.23, T:0.00
Consensus pattern (5 bp):
GACCC
Found at i:44881 original size:13 final size:13
Alignment explanation
Indices: 44809--44895 Score: 75
Period size: 13 Copynumber: 6.3 Consensus size: 13
44799 AACCCGACCC
44809 GACCCGACCCGTT
1 GACCCGACCCGTT
*
44822 TACCCGACCCGTT
1 GACCCGACCCGTT
* * *
44835 TACCTGACCAGTT
1 GACCCGACCCGTT
**
44848 GACCCGACCCGACCC
1 GACCCGACCCG--TT
44863 GACCCGACCCGTT
1 GACCCGACCCGTT
44876 GACCCGTTGACCCGTT
1 GACCC---GACCCGTT
44892 GACC
1 GACC
44896 GTTGACCCAC
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
13 36 0.61
15 11 0.19
16 12 0.20
ACGTcount: A:0.17, C:0.45, G:0.21, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:44899 original size:7 final size:8
Alignment explanation
Indices: 44868--44916 Score: 66
Period size: 8 Copynumber: 6.1 Consensus size: 8
44858 GACCCGACCC
44868 GACCCGTT
1 GACCCGTT
44876 GACCCGTT
1 GACCCGTT
44884 GACCCGTT
1 GACCCGTT
44892 GA-CCGTT
1 GACCCGTT
44899 GACCCACGTT
1 GA-CC-CGTT
44909 GA-CCGTT
1 GACCCGTT
44916 G
1 G
44917 TTGACCAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
7 12 0.32
8 19 0.50
9 1 0.03
10 6 0.16
ACGTcount: A:0.14, C:0.35, G:0.27, T:0.24
Consensus pattern (8 bp):
GACCCGTT
Found at i:49956 original size:5 final size:5
Alignment explanation
Indices: 49946--49971 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
49936 CTGACCAGTT
49946 GACCC GACCC GACCC GACCC GACCC G
1 GACCC GACCC GACCC GACCC GACCC G
49972 TTGACCCGTT
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:0.19, C:0.58, G:0.23, T:0.00
Consensus pattern (5 bp):
GACCC
Found at i:49979 original size:13 final size:13
Alignment explanation
Indices: 49907--49993 Score: 75
Period size: 13 Copynumber: 6.3 Consensus size: 13
49897 AACCCGACCC
49907 GACCCGACCCGTT
1 GACCCGACCCGTT
*
49920 TACCCGACCCGTT
1 GACCCGACCCGTT
* * *
49933 TACCTGACCAGTT
1 GACCCGACCCGTT
**
49946 GACCCGACCCGACCC
1 GACCCGACCCG--TT
49961 GACCCGACCCGTT
1 GACCCGACCCGTT
49974 GACCCGTTGACCCGTT
1 GACCC---GACCCGTT
49990 GACC
1 GACC
49994 GTTGACCCAC
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
13 36 0.61
15 11 0.19
16 12 0.20
ACGTcount: A:0.17, C:0.45, G:0.21, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:49997 original size:7 final size:8
Alignment explanation
Indices: 49966--50014 Score: 66
Period size: 8 Copynumber: 6.1 Consensus size: 8
49956 GACCCGACCC
49966 GACCCGTT
1 GACCCGTT
49974 GACCCGTT
1 GACCCGTT
49982 GACCCGTT
1 GACCCGTT
49990 GA-CCGTT
1 GACCCGTT
49997 GACCCACGTT
1 GA-CC-CGTT
50007 GA-CCGTT
1 GACCCGTT
50014 G
1 G
50015 TTGACCAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
7 12 0.32
8 19 0.50
9 1 0.03
10 6 0.16
ACGTcount: A:0.14, C:0.35, G:0.27, T:0.24
Consensus pattern (8 bp):
GACCCGTT
Found at i:53652 original size:13 final size:13
Alignment explanation
Indices: 53617--53655 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
53607 TTACATTTAG
* *
53617 AAACTGGTCAGGT
1 AAACGGGTCGGGT
53630 AAACGGGTCGGGT
1 AAACGGGTCGGGT
53643 AAACGGGTCGGGT
1 AAACGGGTCGGGT
53656 CGGGTCGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.26, C:0.15, G:0.41, T:0.18
Consensus pattern (13 bp):
AAACGGGTCGGGT
Found at i:55719 original size:32 final size:31
Alignment explanation
Indices: 55672--55759 Score: 79
Period size: 32 Copynumber: 2.8 Consensus size: 31
55662 ATCATTCTCG
** *
55672 GGTAGGCCCTGCGGCCCTAAGATGTGTTCTTA
1 GGTAGGCCCCACGGCCCTAAGATGT-ATCTTA
* * * *
55704 GGTAGGCCCCACGGCCCCAAAATCTATCTTG
1 GGTAGGCCCCACGGCCCTAAGATGTATCTTA
*
55735 GGTAGGCTCTCA-GGCCCTAAGATGT
1 GGTAGGC-CCCACGGCCCTAAGATGT
55760 TCCCTTAGTG
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
31 21 0.48
32 23 0.52
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.24
Consensus pattern (31 bp):
GGTAGGCCCCACGGCCCTAAGATGTATCTTA
Found at i:61978 original size:10 final size:9
Alignment explanation
Indices: 61943--62041 Score: 90
Period size: 10 Copynumber: 10.3 Consensus size: 9
61933 GCTGCTGGAA
*
61943 ACCGGTTTA
1 ACCGGTTTG
*
61952 ACCGGTTTTCA
1 ACCGG-TTT-G
61963 ACCGGTTCTG
1 ACCGGTT-TG
61973 ACCGGTTTG
1 ACCGGTTTG
*
61982 ACCGGTTTCA
1 ACCGGTTT-G
*
61992 ACCGGTTCG
1 ACCGGTTTG
62001 AACCGGTTTG
1 -ACCGGTTTG
*
62011 ACCGGTCTG
1 ACCGGTTTG
62020 ACTCGGTTTG
1 AC-CGGTTTG
*
62030 ACCGGTCTG
1 ACCGGTTTG
62039 ACC
1 ACC
62042 CGACCCGACT
Statistics
Matches: 76, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
9 34 0.45
10 35 0.46
11 7 0.09
ACGTcount: A:0.15, C:0.28, G:0.27, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:61987 original size:19 final size:19
Alignment explanation
Indices: 61944--62041 Score: 87
Period size: 19 Copynumber: 5.1 Consensus size: 19
61934 CTGCTGGAAA
* * *
61944 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
61964 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
61983 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
62003 CCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
62021 CTCGGTTTGACCGG-TCTGA
1 C-CGGTTTGACCGGTTCTGA
62040 CC
1 CC
62042 CGACCCGACT
Statistics
Matches: 68, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
18 6 0.09
19 39 0.57
20 15 0.22
21 8 0.12
ACGTcount: A:0.14, C:0.29, G:0.28, T:0.30
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:62005 original size:29 final size:30
Alignment explanation
Indices: 61942--62016 Score: 118
Period size: 29 Copynumber: 2.5 Consensus size: 30
61932 GGCTGCTGGA
*
61942 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
61973 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
62001 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
62017 CTGACTCGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 1 0.02
29 28 0.67
30 13 0.31
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:62026 original size:29 final size:28
Alignment explanation
Indices: 61943--62041 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 28
61933 GCTGCTGGAA
* *
61943 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TCTCAACCGGTTC-G
*
61973 ACCGGTTTGACCGGTTTCAACCGGTTCG
1 ACCGGTTTGACCGGTCTCAACCGGTTCG
* *
62001 AACCGGTTTGACCGGTCT-GACTCGGTTTG
1 -ACCGGTTTGACCGGTCTCAAC-CGGTTCG
*
62030 ACCGGTCTGACC
1 ACCGGTTTGACC
62042 CGACCCGACT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
28 14 0.23
29 35 0.56
30 13 0.21
ACGTcount: A:0.15, C:0.28, G:0.27, T:0.29
Consensus pattern (28 bp):
ACCGGTTTGACCGGTCTCAACCGGTTCG
Found at i:62063 original size:5 final size:5
Alignment explanation
Indices: 62055--62095 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
62045 CCCGACTGTT
*
62055 GACCC GACCC GACCC GACCGTT GACCC GACCC GACCC GACC
1 GACCC GACCC GACCC GACC--C GACCC GACCC GACCC GACC
62096 GTTGACCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 28 0.88
7 4 0.12
ACGTcount: A:0.20, C:0.54, G:0.22, T:0.05
Consensus pattern (5 bp):
GACCC
Found at i:62066 original size:22 final size:22
Alignment explanation
Indices: 62038--62102 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
62028 TGACCGGTCT
*
62038 GACCCGACCCGACTGTTGACCC
1 GACCCGACCCGACCGTTGACCC
62060 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
62082 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
62103 GTTGACCGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.18, C:0.48, G:0.23, T:0.11
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:62104 original size:7 final size:7
Alignment explanation
Indices: 62092--62122 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
62082 GACCCGACCC
62092 GACCGTT
1 GACCGTT
62099 GACCGTT
1 GACCGTT
62106 GACCGTT
1 GACCGTT
62113 GACCGTT
1 GACCGTT
62120 GAC
1 GAC
62123 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:63059 original size:63 final size:63
Alignment explanation
Indices: 62991--63114 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
62981 CTAATGTGAC
* ** * *
62991 TCTTAGGTAGGCTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
63054 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
63115 TCCCTTAGTG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 50 0.96
64 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.26
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:70541 original size:18 final size:18
Alignment explanation
Indices: 70507--70540 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
70497 TTATTGCATT
70507 CTTTTACATTTTATTTTC
1 CTTTTACATTTTATTTTC
*
70525 CTTTTAGATTTT-TTTT
1 CTTTTACATTTTATTTT
70541 TTAATATTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.15, C:0.12, G:0.03, T:0.71
Consensus pattern (18 bp):
CTTTTACATTTTATTTTC
Found at i:78531 original size:24 final size:24
Alignment explanation
Indices: 78504--78575 Score: 117
Period size: 24 Copynumber: 3.0 Consensus size: 24
78494 AAACGGAGAT
*
78504 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
78528 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
78552 ATCAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
78576 GTAATGTATC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.50, C:0.18, G:0.15, T:0.17
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:78533 original size:12 final size:12
Alignment explanation
Indices: 78506--78575 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
78496 ACGGAGATAT
* *
78506 CAGAAATCAAAA
1 CAGAATTCAGAA
*
78518 CAGAATTCAGAT
1 CAGAATTCAGAA
78530 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
78542 CAGAATCCAGAT
1 CAGAATTCAGAA
*
78554 CAGAAATCAGAA
1 CAGAATTCAGAA
78566 CAGAATTCAG
1 CAGAATTCAG
78576 GTAATGTATC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
11 2 0.04
12 42 0.91
13 2 0.04
ACGTcount: A:0.50, C:0.19, G:0.16, T:0.16
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:78586 original size:24 final size:24
Alignment explanation
Indices: 78504--78598 Score: 111
Period size: 24 Copynumber: 4.0 Consensus size: 24
78494 AAACGGAGAT
* *
78504 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGATATCAGAACAGAATTCAG
*
78528 ATCAGATATCAGAACAGAATCCAG
1 ATCAGATATCAGAACAGAATTCAG
*
78552 ATCAGAAATCAGAACAGAATTCAG
1 ATCAGATATCAGAACAGAATTCAG
* * *
78576 GTAATG-TATCAGAACATAATTCA
1 ATCA-GATATCAGAACAGAATTCA
78599 AGTCGGAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
24 60 0.98
25 1 0.02
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.20
Consensus pattern (24 bp):
ATCAGATATCAGAACAGAATTCAG
Found at i:78608 original size:48 final size:48
Alignment explanation
Indices: 78504--78612 Score: 132
Period size: 48 Copynumber: 2.3 Consensus size: 48
78494 AAACGGAGAT
* * *
78504 ATCAGAAATCAAAACAGAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATAAGATATCAGAACAGAATCAAG
* *
78552 ATCAGAAATCAGAACAGAATTCAGGTAATG-TATCAGAACATAATTCAAG
1 ATCAGAAATCAGAACAGAATTCAGATAA-GATATCAGAACAGAA-TCAAG
*
78601 -TCGGAAATCAGA
1 ATCAGAAATCAGA
78613 TAAAATATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
48 48 0.91
49 5 0.09
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.19
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATAAGATATCAGAACAGAATCAAG
Found at i:81081 original size:7 final size:7
Alignment explanation
Indices: 81069--81108 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
81059 GGTCAACAGT
81069 GGTCAAC
1 GGTCAAC
81076 GGTCAAC
1 GGTCAAC
81083 GGGTCAAC
1 -GGTCAAC
81091 GGTCAAC
1 GGTCAAC
81098 GGGTCAAC
1 -GGTCAAC
81106 GGT
1 GGT
81109 TCGGGTCGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 17 0.55
8 14 0.45
ACGTcount: A:0.25, C:0.25, G:0.35, T:0.15
Consensus pattern (7 bp):
GGTCAAC
Found at i:81089 original size:8 final size:8
Alignment explanation
Indices: 81059--81107 Score: 66
Period size: 8 Copynumber: 6.1 Consensus size: 8
81049 TCAAAGTTTT
81059 GGTCAACAG
1 GGTCAAC-G
81068 TGGTCAAC-
1 -GGTCAACG
81076 GGTCAACG
1 GGTCAACG
81084 GGTCAAC-
1 GGTCAACG
81091 GGTCAACG
1 GGTCAACG
81099 GGTCAACG
1 GGTCAACG
81107 G
1 G
81108 TTCGGGTCGG
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 14 0.38
8 16 0.43
10 7 0.19
ACGTcount: A:0.27, C:0.24, G:0.35, T:0.14
Consensus pattern (8 bp):
GGTCAACG
Found at i:81089 original size:15 final size:15
Alignment explanation
Indices: 81059--81108 Score: 82
Period size: 15 Copynumber: 3.2 Consensus size: 15
81049 TCAAAGTTTT
81059 GGTCAACAGTGGTCAAC
1 GGTCAAC-G-GGTCAAC
81076 GGTCAACGGGTCAAC
1 GGTCAACGGGTCAAC
81091 GGTCAACGGGTCAAC
1 GGTCAACGGGTCAAC
81106 GGT
1 GGT
81109 TCGGGTCGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 25 0.76
16 1 0.03
17 7 0.21
ACGTcount: A:0.26, C:0.24, G:0.34, T:0.16
Consensus pattern (15 bp):
GGTCAACGGGTCAAC
Found at i:88171 original size:16 final size:16
Alignment explanation
Indices: 88150--88181 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
88140 TTTTTATGTT
88150 CAAATTTCAAAATTAA
1 CAAATTTCAAAATTAA
88166 CAAATTTCAAAATTAA
1 CAAATTTCAAAATTAA
88182 TTTTGTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (16 bp):
CAAATTTCAAAATTAA
Found at i:97765 original size:16 final size:16
Alignment explanation
Indices: 97740--97772 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
97730 ATTCATACAG
97740 AGCATCTGAATCATTC
1 AGCATCTGAATCATTC
*
97756 AGCATTTGAATCATTC
1 AGCATCTGAATCATTC
97772 A
1 A
97773 TTGCTTAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (16 bp):
AGCATCTGAATCATTC
Found at i:99151 original size:32 final size:32
Alignment explanation
Indices: 99115--99176 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
99105 TAACGAATCC
99115 TTCGTAAATT-ATTTAGT-AAGACTTGAAATTTA
1 TTCGT-AATTAATTT-GTGAAGACTTGAAATTTA
*
99147 TTCGTAATTAATTTTTGAAGACTTGAAATT
1 TTCGTAATTAATTTGTGAAGACTTGAAATT
99177 GTGACTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 5 0.19
32 22 0.81
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (32 bp):
TTCGTAATTAATTTGTGAAGACTTGAAATTTA
Found at i:101540 original size:10 final size:11
Alignment explanation
Indices: 101514--101544 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
101504 ATATAAAATT
101514 CGGTTGAACCG
1 CGGTTGAACCG
101525 CGGTTGAACC-
1 CGGTTGAACCG
101535 CGGTTGAACC
1 CGGTTGAACC
101545 AGTGAACTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.19, C:0.29, G:0.32, T:0.19
Consensus pattern (11 bp):
CGGTTGAACCG
Found at i:101855 original size:6 final size:6
Alignment explanation
Indices: 101844--101869 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
101834 AAATAGTTTT
101844 AAATAC AAATAC AAATAC AAATAC AA
1 AAATAC AAATAC AAATAC AAATAC AA
101870 GTAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAC
Found at i:107144 original size:42 final size:41
Alignment explanation
Indices: 107068--107168 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 41
107058 AGGTCTTATG
* * *
107068 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGACTTACA
1 GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
* * * **
107109 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGATTTATT
1 GATGGCCCGAAGGACTT-AGCATCATGCTCGAAAGACTTACA
107151 GATGGCCCGAAGGACTTA
1 GATGGCCCGAAGGACTTA
107169 TAAATGGTGA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
41 16 0.33
42 33 0.67
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
Found at i:107358 original size:42 final size:41
Alignment explanation
Indices: 107282--107382 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 41
107272 AGGTTTTATG
* * * *
107282 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGACTTACA
1 GATGACCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
* **
107323 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATT
1 GATGACCCGAAGGACTT-AGCATCATGCTCGAAAGACTTACA
* *
107365 GATGTCCCGAATGACTTA
1 GATGACCCGAAGGACTTA
107383 TAAATAGTGA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
41 16 0.33
42 33 0.67
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (41 bp):
GATGACCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
Found at i:107787 original size:42 final size:41
Alignment explanation
Indices: 107696--107795 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 41
107686 GGTTTTATGA
* * * *
107696 ATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAG
1 ATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACAG
* * **
107737 ATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTG
1 ATGGCCCGAAGGACTT-AGCATCATGCTCGAAAGACTTACAG
107779 ATGGCCCGAAGGACTTA
1 ATGGCCCGAAGGACTTA
107796 TAAATGGTGA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 15 0.31
42 33 0.69
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (41 bp):
ATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACAG
Found at i:107799 original size:207 final size:207
Alignment explanation
Indices: 106680--108173 Score: 2285
Period size: 214 Copynumber: 7.2 Consensus size: 207
106670 CTCTTCTGTG
* * * * * * *
106680 AAGGCTTAAAAATTACCCGAAGGATTTCAGCATCATGCTCAAAAGACTTACTGATGGCCCGAGGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCGAAGG
* *
106745 ACTTATAAATTGTGAAAATTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
66 ACTTATAAATGGTGAAAATTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
*
106810 ATCATTTTTCATTTTCAAATTCTTGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAG
131 ATCA-TTTTCAATTTC--A----TGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAG
* *
106875 GACTTATCATCTTACTTTA
189 GACTTATCATCTTGCTCTA
*
106894 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCGAAGG
* * * * * *
106959 ACTTATAAATTGTGAAAATTTGAAAATCGTATTCTTCGTCTTCAAAAATTCCAACATCATT---T
66 ACTTATAAATGGTGAAAATTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTC-TTAAAA
** * * * *
107021 TTTCATTCTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTA
130 CATCATTTTCAATTTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTA
107086 TCATCTTGCTCTA
195 TCATCTTGCTCTA
* *
107099 AAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGATTTATTGATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCGAAGG
* *
107164 ACTTATAAATGGTGAAAATTTGAAAATCGCATTCTTCGTTTTCAAAATTTTCATCTTCTTAAAAC
66 ACTTATAAATGGTGAAAATTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
* * *
107229 ATCATTTTTTATTTTCAAATTCATTTGAAAACATCCTGCCCGAAGGTTTTATGGATGGCCCGAAG
131 ATC-------ATTTTCAATTTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAG
107294 GACTTATCATCTTGCTCTA
189 GACTTATCATCTTGCTCTA
* * *
107313 AAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGTCCCGAATG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCGAAGG
* * * *
107378 ACTTATAAATAGTGAAATTTTGAAAATCACATTCTTCATTTTCAAAAATTCCATCTTCTTAAAAC
66 ACTTATAAATGGTGAAAATTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
* * * *
107443 ATCATTTTCAATTTCATGTGAAAA-ATCCTACCCGAAGGTTTTATGGATAGCCCAAATGACTTAC
131 ATCATTTTCAATTTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTAT
* *
107507 CATCTTACTTTA
196 CATCTTGCTCTA
* *
107519 AAGGCTTATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCGAATG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCGAAGG
* *
107584 ACTTATAAATAGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
66 ACTTATAAATGGTGAAAATTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
*
107649 ATCATTTTCAATTTCATGTGAAAACATCCTACCCGAAGGTTTTATGAATGGCCCGAAGGACTTAT
131 ATCATTTTCAATTTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTAT
107714 CATCTTGCTCTA
196 CATCTTGCTCTA
107726 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCGAAGG
*
107791 ACTTATAAATGGTGAAGATTTGAAAATCGCATTCTTCGTTTTCAAAAAATTCCATCTTCTTAAAA
66 ACTTATAAATGGTGAAAATTTGAAAATCGCATTCTTCGTTTTC-AAAAATTCCATCTTCTTAAAA
* * * *
107856 CATCATTTTCAATTTCAGGTGAAAACATCCTACCCAAAGGTTTTATGAATAGCCCGAAGGACTTA
130 CATCATTTTCAATTTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTA
107921 TCATCTTGCTCTA
195 TCATCTTGCTCTA
*
107934 AAGGCTTACAGATGACCCGAATGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCGAAGG
*
107999 ACTTATAAATGGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
66 ACTTATAAATGGTGAAAATTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
* *
108064 ATCATTTTCAATTTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATAGCCCGAAGAACTTAT
131 ATCATTTTCAATTTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTAT
108129 CATCTTGCTCTA
196 CATCTTGCTCTA
108141 AAGGCTTACAGATGACCCGAAGGATTTAAGCAT
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCAT
108174 AGGACTTATA
Statistics
Matches: 1184, Mismatches: 83, Indels: 33
0.91 0.06 0.03
Matches are distributed among these distances:
204 2 0.00
205 170 0.14
206 194 0.16
207 296 0.25
208 201 0.17
209 1 0.00
211 8 0.01
212 3 0.00
214 307 0.26
215 2 0.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (207 bp):
AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCGAAGG
ACTTATAAATGGTGAAAATTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
ATCATTTTCAATTTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTAT
CATCTTGCTCTA
Found at i:108299 original size:179 final size:178
Alignment explanation
Indices: 107996--108334 Score: 633
Period size: 179 Copynumber: 1.9 Consensus size: 178
107986 GATGGCCCGA
107996 AGGACTTATAAATGGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAA
1 AGGACTTATAAATGGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAA
*
108061 AACATCATTTTCAATTTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATAGCCCGAAGAACT
66 AACATCATTTTCAATTTCAGGTGAAAACATCCTACCCGAAGGTTTTATGGATAGCCCGAAGAACT
108126 TATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCAT
131 TATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCAT
108174 AGGACTTATAAATGGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAAATTCCATCTTCTTA
1 AGGACTTATAAATGGTGAAATTTTGAAAATCGCATTCTTCGTTTTC-AAAAATTCCATCTTCTTA
* *
108239 AAACATCATTTTCAATTTCAGGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGAC
65 AAACATCATTTTCAATTTCAGGTGAAAACATCCTACCCGAAGGTTTTATGGATAGCCCGAAGAAC
*
108304 TTATCATCTTGCTCTAAAGGCTTATAGATGA
130 TTATCATCTTGCTCTAAAGGCTTACAGATGA
108335 TTTGCTTCAC
Statistics
Matches: 156, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
178 46 0.29
179 110 0.71
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (178 bp):
AGGACTTATAAATGGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAA
AACATCATTTTCAATTTCAGGTGAAAACATCCTACCCGAAGGTTTTATGGATAGCCCGAAGAACT
TATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCAT
Found at i:108466 original size:36 final size:36
Alignment explanation
Indices: 108320--108589 Score: 323
Period size: 36 Copynumber: 7.4 Consensus size: 36
108310 TCTTGCTCTA
* *
108320 AAGGCTTATAGA-TGATTTGCTTCACTCCTTTTCGGTG
1 AAGGCTTA-AGATTGA-TTGCTTCACTACTCTTCGGTG
* *
108357 AATGCTTAA-ACTTGATTTGCTTCACTATTC-TCAGGTG
1 AAGGCTTAAGA-TTGA-TTGCTTCACTACTCTTC-GGTG
* * *
108394 AAGGCTTAAGATGGATTTGCTTCACTATTCTCCGGTG
1 AAGGCTTAAGATTGA-TTGCTTCACTACTCTTCGGTG
*
108431 AAGGCTTTAGATTGATTGCTTCACTACTCTTCGGTG
1 AAGGCTTAAGATTGATTGCTTCACTACTCTTCGGTG
* * *
108467 AAGGCTTAAGATGGATTGCTTCACTACTATTTGGTG
1 AAGGCTTAAGATTGATTGCTTCACTACTCTTCGGTG
108503 AAGGCTTAAGA-TGAATTGCTTCACTACTCTTCGGTG
1 AAGGCTTAAGATTG-ATTGCTTCACTACTCTTCGGTG
* * *
108539 AAGGCTGAAGATTGTTTGCTTCATTACTCTTCGGTG
1 AAGGCTTAAGATTGATTGCTTCACTACTCTTCGGTG
108575 AAGGCTTAAGATTGA
1 AAGGCTTAAGATTGA
108590 CTTTGCTCCA
Statistics
Matches: 203, Mismatches: 23, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
35 2 0.01
36 128 0.63
37 71 0.35
38 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (36 bp):
AAGGCTTAAGATTGATTGCTTCACTACTCTTCGGTG
Found at i:109522 original size:126 final size:124
Alignment explanation
Indices: 109298--109619 Score: 493
Period size: 126 Copynumber: 2.6 Consensus size: 124
109288 AGTTGCGAGA
* *
109298 CTCATTCTTAATGCCCTCTTGGTCTGAATCTTGTCATCTCAGCATGAGGTGGGTTCAGTCATGCC
1 CTCATTCTTAATG-CCTCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCATGCC
* *
109363 CCAACATTATATTATACTGGTACGGGCCTTCAAAATGCCCCATCACCTCAAATTATAAGG
65 CCAACATTATATTATACTGGTACGGGCCTTCAAAATGCCCCAACACCTCAAATTACAAGG
* * *
109423 CTCATTCTTCATGCCTCATTGGTCTGAATCTTTTTTATCTCAACATGATGTGGGTTCAGTCATGC
1 CTCATTCTTAATGCCTC-TTGGTCTGAATC-TTGTCATCTCAACATGATGTGGGTTCAGTCATGC
* *
109488 CCCAACATTATCTTATACTGGTACGGGCCTTCAAAATGCCCCAACACCTCAAATTGCAAGG
64 CCCAACATTATATTATACTGGTACGGGCCTTCAAAATGCCCCAACACCTCAAATTACAAGG
* *
109549 CTCATTCTTAATGCCTTCTTGGTCTGAATCTTGTCATCTCAA-AGTGATGTGGATTCAGTCGTGC
1 CTCATTCTTAATGCC-TCTTGGTCTGAATCTTGTCATCTCAACA-TGATGTGGGTTCAGTCATGC
109613 CCCAACA
64 CCCAACA
109620 CATCACAACT
Statistics
Matches: 179, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
124 5 0.03
125 59 0.33
126 113 0.63
127 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (124 bp):
CTCATTCTTAATGCCTCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCATGCCC
CAACATTATATTATACTGGTACGGGCCTTCAAAATGCCCCAACACCTCAAATTACAAGG
Found at i:110568 original size:40 final size:39
Alignment explanation
Indices: 110514--110589 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 39
110504 TATTTAGATA
* *
110514 AACTTGATTTAATTTGCCATTGTCTGGCTAGCTGAAATC
1 AACTTGATTTAATTTGCCATTATCGGGCTAGCTGAAATC
* *
110553 AACTTTATTGTAATTTGCCTTTATCGGGCTAGCTGAA
1 AACTTGATT-TAATTTGCCATTATCGGGCTAGCTGAA
110590 GGGTTCATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 8 0.25
40 24 0.75
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.39
Consensus pattern (39 bp):
AACTTGATTTAATTTGCCATTATCGGGCTAGCTGAAATC
Found at i:113352 original size:55 final size:55
Alignment explanation
Indices: 113290--113405 Score: 178
Period size: 55 Copynumber: 2.1 Consensus size: 55
113280 CAACTTCAAA
** * * *
113290 CTTCATTCATCGGATGTCTTTCTTCATGGATCGGTCTTCAATCAGTTTCAGATTT
1 CTTCATTCATCGGATGTCCATCTTCATGAATCGGTCTTCAATCAGGTTCAAATTT
*
113345 CTTCATTCATCGGATGTCCATCTTCATGAATCGTTCTTCAATCAGGTTCAAATTT
1 CTTCATTCATCGGATGTCCATCTTCATGAATCGGTCTTCAATCAGGTTCAAATTT
113400 CTTCAT
1 CTTCAT
113406 GAATCTCTCT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (55 bp):
CTTCATTCATCGGATGTCCATCTTCATGAATCGGTCTTCAATCAGGTTCAAATTT
Found at i:118228 original size:35 final size:36
Alignment explanation
Indices: 118187--118349 Score: 116
Period size: 37 Copynumber: 4.5 Consensus size: 36
118177 ATATATCTAT
*** *
118187 ATATATATTATATAGTTTACAAATGGTTTTTGAAGAT
1 ATATATATTATATAGTTTACAAAACATTTTTGAA-AA
**
118224 ATATATATTATATAGTTTTTAAAACATTTTTG-AAA
1 ATATATATTATATAGTTTACAAAACATTTTTGAAAA
* *** *
118259 ATATATATTATATAATTTTTTAAACACTTTTGAAAA
1 ATATATATTATATAGTTTACAAAACATTTTTGAAAA
* * ** *
118295 ACATATATGATATATAATTTTTAAAACA-TTTTGGAAA
1 ATATATAT--TATATAGTTTACAAAACATTTTTGAAAA
*
118332 TTCATATATTATAT-GTTT
1 AT-ATATATTATATAGTTT
118350 TTTAAAAAAG
Statistics
Matches: 107, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
35 33 0.31
36 16 0.15
37 35 0.33
38 23 0.21
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.47
Consensus pattern (36 bp):
ATATATATTATATAGTTTACAAAACATTTTTGAAAA
Found at i:118228 original size:37 final size:36
Alignment explanation
Indices: 118185--118349 Score: 129
Period size: 35 Copynumber: 4.6 Consensus size: 36
118175 ATATATATCT
***
118185 ATATATATATTATATAGTTTACAAATGGTTTTTGAA
1 ATATATATATTATATAGTTTACAAAACATTTTTGAA
**
118221 GATATATATATTATATAGTTTTTAAAACATTTTTGAA
1 -ATATATATATTATATAGTTTACAAAACATTTTTGAA
* *** *
118258 A-ATATATATTATATAATTTTTTAAACACTTTTGAA
1 ATATATATATTATATAGTTTACAAAACATTTTTGAA
* * * ** *
118293 AAACATATATGATATATAATTTTTAAAACATTTTGGAA
1 ATATATATAT--TATATAGTTTACAAAACATTTTTGAA
118331 AT-TCATATATTATAT-GTTT
1 ATAT-ATATATTATATAGTTT
118350 TTTAAAAAAG
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
35 35 0.32
36 13 0.12
37 31 0.28
38 30 0.28
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.47
Consensus pattern (36 bp):
ATATATATATTATATAGTTTACAAAACATTTTTGAA
Found at i:118301 original size:36 final size:35
Alignment explanation
Indices: 118226--118356 Score: 147
Period size: 38 Copynumber: 3.6 Consensus size: 35
118216 TTGAAGATAT
* *
118226 ATATATTATATAGTTTTTAAAACATTTTTG-AAAAT
1 ATATATTATATAATTTTTAAAACA-TTTTGAAAAAC
*
118261 ATATATTATATAATTTTTTAAACACTTTTGAAAAAC
1 ATATATTATATAATTTTTAAAACA-TTTTGAAAAAC
**
118297 ATATATGATATATAATTTTTAAAACATTTTGGAAATTC
1 ATATAT--TATATAATTTTTAAAACATTTT-GAAAAAC
**
118335 ATATATTATATGTTTTTTAAAA
1 ATATATTATATAATTTTTAAAA
118357 AAGTATATTT
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
35 27 0.33
36 24 0.29
37 4 0.05
38 28 0.34
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (35 bp):
ATATATTATATAATTTTTAAAACATTTTGAAAAAC
Found at i:118445 original size:22 final size:22
Alignment explanation
Indices: 118401--118450 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
118391 CTTTTATTTA
*
118401 TTTA-TTATTTTATTACATGTT
1 TTTATTTATTTTATTACATATT
* *
118422 TTTATTTATTTTATTCCTTATT
1 TTTATTTATTTTATTACATATT
*
118444 TTAATTT
1 TTTATTT
118451 TTATTTCAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTATTTATTTTATTACATATT
Found at i:119574 original size:9 final size:9
Alignment explanation
Indices: 119560--119599 Score: 62
Period size: 9 Copynumber: 4.3 Consensus size: 9
119550 TTCGATCCTT
*
119560 TTTTATATA
1 TTTTATTTA
119569 TTTTATTTA
1 TTTTATTTA
119578 TTTTATTTTA
1 TTTTA-TTTA
119588 TTTTATTTA
1 TTTTATTTA
119597 TTT
1 TTT
119600 GTGTTATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
9 20 0.69
10 9 0.31
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTATTTA
Found at i:119582 original size:5 final size:5
Alignment explanation
Indices: 119567--119599 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
119557 CTTTTTTATA
119567 TATTT TA-TT TATTT TATTT TATTT TA-TT TATTT
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT
119600 GTGTTATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:119586 original size:14 final size:14
Alignment explanation
Indices: 119560--119599 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
119550 TTCGATCCTT
*
119560 TTTTATATATTTTA
1 TTTTATTTATTTTA
119574 -TTTATTTTATTTTA
1 TTTTA-TTTATTTTA
119588 TTTTATTTATTT
1 TTTTATTTATTT
119600 GTGTTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 4 0.17
14 15 0.65
15 4 0.17
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:119620 original size:2 final size:2
Alignment explanation
Indices: 119609--119669 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
119599 TGTGTTATTA
119609 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
119650 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
119670 CCTTTTTATC
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:119943 original size:23 final size:21
Alignment explanation
Indices: 119903--119978 Score: 57
Period size: 22 Copynumber: 3.5 Consensus size: 21
119893 TTTTAACTCC
*
119903 TTTACTTTTTCTTT-TGTTTTT
1 TTTA-TTTTTTTTTATGTTTTT
119924 GTTTATTTTTTTTGTATGTTTTAT
1 -TTTATTTTTTTT-TATGTTTT-T
* * *
119948 TTT-TTTTATTTTATCATTTTA
1 TTTATTTTTTTTTAT-GTTTTT
119969 TTTATTTTTT
1 TTTATTTTTT
119979 ATATTTCTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
21 13 0.30
22 21 0.48
23 9 0.20
24 1 0.02
ACGTcount: A:0.12, C:0.04, G:0.05, T:0.79
Consensus pattern (21 bp):
TTTATTTTTTTTTATGTTTTT
Found at i:119945 original size:22 final size:22
Alignment explanation
Indices: 119920--119978 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
119910 TTTCTTTTGT
* *
119920 TTTTGTTTATTTTTTTTGTAT-G
1 TTTTATTTATTTTTTTT-TATCA
119942 TTTTATTT-TTTTTATTTTATCA
1 TTTTATTTATTTTT-TTTTATCA
119964 TTTTATTTATTTTTT
1 TTTTATTTATTTTTT
119979 ATATTTCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 8 0.25
22 19 0.59
23 5 0.16
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.80
Consensus pattern (22 bp):
TTTTATTTATTTTTTTTTATCA
Found at i:119966 original size:17 final size:17
Alignment explanation
Indices: 119946--120006 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
119936 TGTATGTTTT
119946 ATTTTTTTTATTTTATC
1 ATTTTTTTTATTTTATC
*
119963 ATTTTATTTATTTTTTAT-
1 ATTTT-TTT-TATTTTATC
* *
119981 ATTTCTATTTACTTTATC
1 ATTT-TTTTTATTTTATC
119999 ATTTTTTT
1 ATTTTTTT
120007 GTTTTTTATG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
17 14 0.40
18 13 0.37
19 8 0.23
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTTTTTATTTTATC
Found at i:137422 original size:17 final size:17
Alignment explanation
Indices: 137388--137439 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
137378 ACCGGACAAA
*
137388 TTTATTATTTTAGAGAG
1 TTTATTAATTTAGAGAG
**
137405 TTTATTAATTTATCGAG
1 TTTATTAATTTAGAGAG
*
137422 --TATTAATTTAAAGAG
1 TTTATTAATTTAGAGAG
137437 TTT
1 TTT
137440 CTACTTAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (17 bp):
TTTATTAATTTAGAGAG
Found at i:145966 original size:13 final size:15
Alignment explanation
Indices: 145948--145980 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
145938 TTAAAGTAAA
145948 TTTAAATTT-ATT-T
1 TTTAAATTTAATTGT
145961 TTTAAATTTAATTGT
1 TTTAAATTTAATTGT
145976 TTTAA
1 TTTAA
145981 GCATAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 3 0.17
15 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (15 bp):
TTTAAATTTAATTGT
Found at i:154510 original size:22 final size:22
Alignment explanation
Indices: 154485--154557 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
154475 CACCACAGCT
*
154485 CGTATAAATGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
*
154507 CGTAGAAGTGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
*
154529 CGTAGAATTGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
154551 CGTAGAA
1 CGTAGAA
154558 TTTTGTCCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.30, C:0.26, G:0.27, T:0.16
Consensus pattern (22 bp):
CGTAGAAATGCACCGAAGTGCC
Found at i:154558 original size:22 final size:22
Alignment explanation
Indices: 154493--154559 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
154483 CTCGTATAAA
*
154493 TGCACCGAAGTGCCCGTAGAAG
1 TGCACCGAAGTGCCCGTAGAAT
154515 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
154537 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
154559 T
1 T
154560 TTGTCCATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.18
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:155315 original size:67 final size:66
Alignment explanation
Indices: 155198--155348 Score: 212
Period size: 67 Copynumber: 2.3 Consensus size: 66
155188 TTTTTCTCAT
* * *
155198 GGGGGAATCGGTTCCCCCCCCTGGGGTATCGATTCCCCTCAAGCAATCTGGAATTCATATACGAT
1 GGGGGTATCGGTT-CCCCCCCTGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGAT
155263 GA
65 GA
* * * *
155265 GGGGGTATCGGTTCCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATCATATTCGTT
1 GGGGGTATCGGTTCCCCCCCT-GGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGAT
155330 GA
65 GA
*
155332 AGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
155349 TTGAATGGGT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
66 8 0.11
67 67 0.89
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.26
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCCTGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATG
A
Found at i:155358 original size:21 final size:21
Alignment explanation
Indices: 155328--155370 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
155318 ATCATATTCG
* *
155328 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
155349 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
155370 T
1 T
155371 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:155359 original size:67 final size:66
Alignment explanation
Indices: 155199--155370 Score: 195
Period size: 67 Copynumber: 2.6 Consensus size: 66
155189 TTTTCTCATG
* * *
155199 GGGGAATCGGTTCCCCCCCCT-GGGGTATCGATTCCCCTCAAGCAATCTGGAATTCATATACGAT
1 GGGGTATCGGTT--CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGAT
*
155263 GAG
64 GAA
* * * *
155266 GGGGTATCGGTTCCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATCATATTCGTTG
1 GGGGTATCGGTT-CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATG
155331 AA
65 AA
* *
155333 GGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
155371 AACCCAGAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
65 6 0.07
66 8 0.09
67 78 0.85
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.27
Consensus pattern (66 bp):
GGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATGA
A
Found at i:161418 original size:22 final size:22
Alignment explanation
Indices: 161393--161465 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
161383 CACCACAGCT
*
161393 CGTATAAATGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
*
161415 CGTAGAAGTGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
*
161437 CGTAGAATTGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
161459 CGTAGAA
1 CGTAGAA
161466 TTTTGTCCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.30, C:0.26, G:0.27, T:0.16
Consensus pattern (22 bp):
CGTAGAAATGCACCGAAGTGCC
Found at i:161466 original size:22 final size:22
Alignment explanation
Indices: 161401--161467 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
161391 CTCGTATAAA
*
161401 TGCACCGAAGTGCCCGTAGAAG
1 TGCACCGAAGTGCCCGTAGAAT
161423 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
161445 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
161467 T
1 T
161468 TTGTCCATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.18
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:162221 original size:67 final size:66
Alignment explanation
Indices: 162106--162254 Score: 217
Period size: 67 Copynumber: 2.2 Consensus size: 66
162096 TTTTTCTCAT
* * *
162106 GGGGAATCGGTTCCCCCCCTGGGGTATCGATTCCCCTCAAGCAATCTGGAATTCATATACGATGA
1 GGGGTATCGGTTCCCCCCCTGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATGA
*
162171 G
66 A
* * * *
162172 GGGGTATCGGTTCCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATCATATTCGTTG
1 GGGGTATCGGTTCCCCCCCT-GGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATG
162237 AA
65 AA
162239 GGGGTATCGGTTCCCC
1 GGGGTATCGGTTCCCC
162255 TTGAATGGGT
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
66 19 0.26
67 55 0.74
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.26
Consensus pattern (66 bp):
GGGGTATCGGTTCCCCCCCTGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATGA
A
Found at i:162264 original size:21 final size:21
Alignment explanation
Indices: 162234--162276 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
162224 ATCATATTCG
* *
162234 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
162255 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
162276 T
1 T
162277 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:162265 original size:67 final size:66
Alignment explanation
Indices: 162106--162276 Score: 202
Period size: 67 Copynumber: 2.6 Consensus size: 66
162096 TTTTTCTCAT
* * *
162106 GGGGAATCGGTTCCCCCCCT-GGGGTATCGATTCCCCTCAAGCAATCTGGAATTCATATACGATG
1 GGGGTATCGGTT-CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATG
*
162170 AG
65 AA
* * * *
162172 GGGGTATCGGTTCCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATCATATTCGTTG
1 GGGGTATCGGTT-CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATG
162237 AA
65 AA
* *
162239 GGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
162277 AACCCAGAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
65 6 0.07
66 19 0.21
67 67 0.73
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.27
Consensus pattern (66 bp):
GGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATGA
A
Found at i:166168 original size:11 final size:11
Alignment explanation
Indices: 166152--166212 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
166142 TCAAGACTCG
166152 AGCTCGATTGA
1 AGCTCGATTGA
*
166163 AGCTCGATTCA
1 AGCTCGATTGA
* *
166174 AGCTCAACTTTA
1 AGCTCGA-TTGA
*
166186 AGCTCGATTTA
1 AGCTCGATTGA
* *
166197 AGTTCGTTTGA
1 AGCTCGATTGA
166208 AGCTC
1 AGCTC
166213 AAAGACGGGT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
11 32 0.78
12 9 0.22
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (11 bp):
AGCTCGATTGA
Found at i:168501 original size:167 final size:170
Alignment explanation
Indices: 168218--168538 Score: 488
Period size: 167 Copynumber: 1.9 Consensus size: 170
168208 TACCTTCCTG
168218 TGCATAACTTAACCTCTATCACATAATCGGATTTAGAGTTTAGGGTTTAGGGCTTATAGTTTAGG
1 TGCATAACTTAACCTCTATCACATAATCGGATTTAGAGTTTAGGGTTTA--G--TATAGTTTAGG
* * * *
168283 GTTTGTTGCAAAGACATTAATTAATCGACTTGGTATCGATTTATGAGGTAAGTATAATTTAGGGT
62 GTTTATTGCAAAGACATTAATTAACCGACTTGGTATCGATTTATGAGGTAAGTACAATTTAAGGT
* *
168348 TTAGGGTTTATAGTTTATGATTTAGGAGTCACATAACATCATTT
127 TTAGGATTTAGAGTTTATGATTTAGGAGTCACATAACATCATTT
168392 TGCATAACTTAACCTCTATCACATAATCGGATTTAG-GTTTTAGGGTTTA-TA-A-TTTAGGGTT
1 TGCATAACTTAACCTCTATCACATAATCGGATTTAGAG-TTTAGGGTTTAGTATAGTTTAGGGTT
*
168453 TATTGCAAAGACATTAATTAACCGACTTTGTATCGATTTATGAGGTAAGTACAATTTAAGGTTTA
65 TATTGCAAAGACATTAATTAACCGACTTGGTATCGATTTATGAGGTAAGTACAATTTAAGGTTTA
* *
168518 GGATTTAGGGTTTATGGTTTA
130 GGATTTAGAGTTTATGATTTA
168539 AGATTTAGGG
Statistics
Matches: 137, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
167 86 0.63
168 1 0.01
169 2 0.01
173 1 0.01
174 47 0.34
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (170 bp):
TGCATAACTTAACCTCTATCACATAATCGGATTTAGAGTTTAGGGTTTAGTATAGTTTAGGGTTT
ATTGCAAAGACATTAATTAACCGACTTGGTATCGATTTATGAGGTAAGTACAATTTAAGGTTTAG
GATTTAGAGTTTATGATTTAGGAGTCACATAACATCATTT
Found at i:168527 original size:174 final size:170
Alignment explanation
Indices: 168218--168547 Score: 470
Period size: 174 Copynumber: 1.9 Consensus size: 170
168208 TACCTTCCTG
168218 TGCATAACTTAACCTCTATCACATAATCGGATTTAGAGTTTAGGGTTTAGGGCTTATAGTTTAGG
1 TGCATAACTTAACCTCTATCACATAATCGGATTTAGAGTTTAGGGTTTA--G--TATAGTTTAGG
* * *
168283 GTTTGTTGCAAAGACATTAATTAATCGACTTGGTATCGATTTATGAGGTAAGTATAATTTAGGGT
62 GTTTATTGCAAAGACATTAATTAACCGACTTGGTATCGATTTATGAGGTAAGTATAATTTAGGAT
*
168348 TTAGGGTTTATAGTTTATGATTTAGGAGTCACATAACATCATTT
127 TTAGGGTTTATAGTTTAAGATTTAGGAGTCACATAACATCATTT
168392 TGCATAACTTAACCTCTATCACATAATCGGATTTAG-GTTTTAGGGTTTA-TA-A-TTTAGGGTT
1 TGCATAACTTAACCTCTATCACATAATCGGATTTAGAG-TTTAGGGTTTAGTATAGTTTAGGGTT
*
168453 TATTGCAAAGACATTAATTAACCGACTTTGTATCGATTTATGAGGTAAGTACAATTTAAGGTTTA
65 TATTGCAAAGACATTAATTAACCGACTTGGTATCGATTTATGAGGTAAGT---A--TAA--TTTA
*
168518 GGATTTAGGGTTTATGGTTTAAGATTTAGG
123 GGATTTAGGGTTTATAGTTTAAGATTTAGG
168548 GTTTAGGGTT
Statistics
Matches: 142, Mismatches: 6, Indels: 16
0.87 0.04 0.10
Matches are distributed among these distances:
167 56 0.39
168 1 0.01
169 2 0.01
170 1 0.01
172 3 0.02
173 1 0.01
174 78 0.55
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (170 bp):
TGCATAACTTAACCTCTATCACATAATCGGATTTAGAGTTTAGGGTTTAGTATAGTTTAGGGTTT
ATTGCAAAGACATTAATTAACCGACTTGGTATCGATTTATGAGGTAAGTATAATTTAGGATTTAG
GGTTTATAGTTTAAGATTTAGGAGTCACATAACATCATTT
Found at i:168536 original size:21 final size:21
Alignment explanation
Indices: 168507--168557 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
168497 GTAAGTACAA
*
168507 TTTAAGGTTTAGGATTTAGGG
1 TTTAAGGTTTAAGATTTAGGG
*
168528 TTTATGGTTTAAGATTTAGGG
1 TTTAAGGTTTAAGATTTAGGG
*
168549 TTTAGGGTT
1 TTTAAGGTT
168558 CATTACAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (21 bp):
TTTAAGGTTTAAGATTTAGGG
Found at i:168555 original size:7 final size:7
Alignment explanation
Indices: 168507--168557 Score: 57
Period size: 7 Copynumber: 7.3 Consensus size: 7
168497 GTAAGTACAA
*
168507 TTTAAGG
1 TTTAGGG
*
168514 TTTAGGA
1 TTTAGGG
168521 TTTAGGG
1 TTTAGGG
*
168528 TTTATGG
1 TTTAGGG
* *
168535 TTTAAGA
1 TTTAGGG
168542 TTTAGGG
1 TTTAGGG
168549 TTTAGGG
1 TTTAGGG
168556 TT
1 TT
168558 CATTACAAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:168620 original size:11 final size:11
Alignment explanation
Indices: 168599--168666 Score: 52
Period size: 11 Copynumber: 6.3 Consensus size: 11
168589 TAGTTGTATT
168599 ATATAATTTTTA
1 ATAT-ATTTTTA
168611 ATATATTTTTA
1 ATATATTTTTA
168622 A-AT-TTTTATA
1 ATATATTTT-TA
***
168632 AT-TATCAATA
1 ATATATTTTTA
* *
168642 GTGTATTTTTA
1 ATATATTTTTA
168653 ATATATTTTTA
1 ATATATTTTTA
168664 ATA
1 ATA
168667 ATGTAATTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
9 4 0.09
10 9 0.21
11 26 0.60
12 4 0.09
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.57
Consensus pattern (11 bp):
ATATATTTTTA
Found at i:172426 original size:30 final size:30
Alignment explanation
Indices: 172373--172438 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
172363 AAAACCGGTA
* * *
172373 GAACCGGCTGAGAACCGATAAAACGGGGGT
1 GAACCGGCTGAAAACCGACAAAACCGGGGT
* * *
172403 GAACCGGCTGAAAACTGGCAAAACCGGTGT
1 GAACCGGCTGAAAACCGACAAAACCGGGGT
172433 GAACCG
1 GAACCG
172439 CCGGTTCTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.23, G:0.33, T:0.11
Consensus pattern (30 bp):
GAACCGGCTGAAAACCGACAAAACCGGGGT
Found at i:182021 original size:2 final size:2
Alignment explanation
Indices: 182014--182046 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
182004 TATTAGATTT
182014 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
182047 GTGGGGGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:186786 original size:20 final size:20
Alignment explanation
Indices: 186760--186864 Score: 131
Period size: 20 Copynumber: 5.2 Consensus size: 20
186750 AAACTTAAAT
186760 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
* *
186780 TCACAACGCGAACATGAAAA
1 TCGCAACGCGAAAATGAAAA
* *
186800 TCGCAATGCGAAACTAGAAAA
1 TCGCAACGCGAAAAT-GAAAA
* *
186821 TCGCAACGCGAACATAAAAA
1 TCGCAACGCGAAAATGAAAA
*
186841 TCGCAACGCGAAACT-AAAA
1 TCGCAACGCGAAAATGAAAA
186860 TCGCA
1 TCGCA
186865 TTGCGATTTT
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
19 9 0.12
20 46 0.64
21 17 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:186828 original size:41 final size:40
Alignment explanation
Indices: 186760--186864 Score: 158
Period size: 41 Copynumber: 2.6 Consensus size: 40
186750 AAACTTAAAT
* * *
186760 TCGCAACGCGAAAATGAAAATCACAACGCGAACATGAAAA
1 TCGCAACGCGAAACTGAAAATCGCAACGCGAACATAAAAA
*
186800 TCGCAATGCGAAACTAGAAAATCGCAACGCGAACATAAAAA
1 TCGCAACGCGAAACT-GAAAATCGCAACGCGAACATAAAAA
186841 TCGCAACGCGAAACT-AAAATCGCA
1 TCGCAACGCGAAACTGAAAATCGCA
186865 TTGCGATTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
39 9 0.15
40 13 0.22
41 37 0.63
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.11
Consensus pattern (40 bp):
TCGCAACGCGAAACTGAAAATCGCAACGCGAACATAAAAA
Found at i:187281 original size:22 final size:22
Alignment explanation
Indices: 187224--187288 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
187214 TCTAAGAGAT
*
187224 GGAGAT-A-GACGGATTTTGCC
1 GGAGATGAGGACGGATTTCGCC
* * *
187244 GGAGATTAGGATGGATTTCGTC
1 GGAGATGAGGACGGATTTCGCC
* *
187266 GGAGATGGGGACGGATGTCGCC
1 GGAGATGAGGACGGATTTCGCC
187288 G
1 G
187289 TAGAGAGTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 6 0.17
21 1 0.03
22 28 0.80
ACGTcount: A:0.22, C:0.14, G:0.42, T:0.23
Consensus pattern (22 bp):
GGAGATGAGGACGGATTTCGCC
Found at i:187461 original size:20 final size:20
Alignment explanation
Indices: 187436--187481 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
187426 TAAACGCGCT
187436 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
187456 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
187476 TTGCGA
1 TTGCGA
187482 TTTCCAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.15, G:0.26, T:0.43
Consensus pattern (20 bp):
TTGCGAATTTGACTTCTGTG
Found at i:187498 original size:20 final size:20
Alignment explanation
Indices: 187475--187541 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
187465 TGACTTCTGT
187475 GTTGCGATTTCCAAATTCGC
1 GTTGCGATTTCCAAATTCGC
187495 GTTGCGATTTCCAAATTCGC
1 GTTGCGATTTCCAAATTCGC
* * *
187515 GTTGCGATTTACATATTCGT
1 GTTGCGATTTCCAAATTCGC
187535 GTTGCGA
1 GTTGCGA
187542 ATTTGGAAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTCCAAATTCGC
Found at i:187499 original size:40 final size:39
Alignment explanation
Indices: 187455--187546 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 39
187445 TGACTTCTGT
* * *
187455 GTTGCGAATTTGACTTCTGTGTTGCGATTTCCAAATTCGC
1 GTTGCGAATTTGAATTC-GCGTTGCGATTTACAAATTCGC
* * *
187495 GTTGCG-ATTTCCAAATTCGCGTTGCGATTTACATATTCGT
1 GTTGCGAATTT--GAATTCGCGTTGCGATTTACAAATTCGC
187535 GTTGCGAATTTG
1 GTTGCGAATTTG
187547 GAAACTGAGT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
39 4 0.10
40 30 0.71
41 8 0.19
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.40
Consensus pattern (39 bp):
GTTGCGAATTTGAATTCGCGTTGCGATTTACAAATTCGC
Found at i:187559 original size:40 final size:39
Alignment explanation
Indices: 187453--187561 Score: 94
Period size: 40 Copynumber: 2.7 Consensus size: 39
187443 TTTGACTTCT
** * *
187453 GTGTTGCGAATTTGACTTCTGTGTTGCGATTTCCAAATTC
1 GTGTTGCGAATTTGA-AACTGAGTTGCGATTTACAAATTC
* * * * *
187493 GCGTTGCG-ATTTCCAAATTCGCGTTGCGATTTACATATTC
1 GTGTTGCGAATTT-GAAACT-GAGTTGCGATTTACAAATTC
187533 GTGTTGCGAATTTGGAAACTGAGTTGCGA
1 GTGTTGCGAATTT-GAAACTGAGTTGCGA
187562 AATAGGAGTT
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
39 5 0.09
40 40 0.75
41 8 0.15
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (39 bp):
GTGTTGCGAATTTGAAACTGAGTTGCGATTTACAAATTC
Found at i:191725 original size:41 final size:41
Alignment explanation
Indices: 191668--191758 Score: 182
Period size: 41 Copynumber: 2.2 Consensus size: 41
191658 CGATGATGCT
191668 CATTTGAACCAAAATCTAATCTATTAATTTGCTCACGTAAA
1 CATTTGAACCAAAATCTAATCTATTAATTTGCTCACGTAAA
191709 CATTTGAACCAAAATCTAATCTATTAATTTGCTCACGTAAA
1 CATTTGAACCAAAATCTAATCTATTAATTTGCTCACGTAAA
191750 CATTTGAAC
1 CATTTGAAC
191759 ATTGATCTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (41 bp):
CATTTGAACCAAAATCTAATCTATTAATTTGCTCACGTAAA
Found at i:199288 original size:13 final size:15
Alignment explanation
Indices: 199270--199302 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
199260 TTAAAGTAAA
199270 TTTAAATTT-ATT-T
1 TTTAAATTTAATTGT
199283 TTTAAATTTAATTGT
1 TTTAAATTTAATTGT
199298 TTTAA
1 TTTAA
199303 GCATAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 3 0.17
15 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (15 bp):
TTTAAATTTAATTGT
Found at i:207831 original size:22 final size:22
Alignment explanation
Indices: 207806--207878 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
207796 CACCACAGCT
*
207806 CGTATAAATGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
*
207828 CGTAGAAGTGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
*
207850 CGTAGAATTGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
207872 CGTAGAA
1 CGTAGAA
207879 TTTTGTCCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.30, C:0.26, G:0.27, T:0.16
Consensus pattern (22 bp):
CGTAGAAATGCACCGAAGTGCC
Found at i:207879 original size:22 final size:22
Alignment explanation
Indices: 207814--207880 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
207804 CTCGTATAAA
*
207814 TGCACCGAAGTGCCCGTAGAAG
1 TGCACCGAAGTGCCCGTAGAAT
207836 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
207858 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
207880 T
1 T
207881 TTGTCCATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.18
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:208634 original size:66 final size:66
Alignment explanation
Indices: 208519--208667 Score: 226
Period size: 66 Copynumber: 2.3 Consensus size: 66
208509 TTTTTCTCAT
* * *
208519 GGGGGAATCGGTTCCCCCCCTGGGGTATCGATTCCCCTCAAGCAATCTGGAATTCATATACGATG
1 GGGGGTATCGGTTCCCCCCCTGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATG
208584 A
66 A
* * * *
208585 GGGGGTATCGGTTCCCCCCCTGGGGTACCGATTCCCCTCTAGCATTCTGGAAATCATATTCGTTG
1 GGGGGTATCGGTTCCCCCCCTGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATG
208650 A
66 A
*
208651 AGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
208668 TTGAATGGGT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 75 1.00
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.26
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCCTGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATG
A
Found at i:208677 original size:21 final size:21
Alignment explanation
Indices: 208647--208689 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
208637 ATCATATTCG
* *
208647 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
208668 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
208689 T
1 T
208690 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:214736 original size:22 final size:22
Alignment explanation
Indices: 214711--214783 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
214701 CACCACAGCT
*
214711 CGTATAAATGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
*
214733 CGTAGAAGTGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
*
214755 CGTAGAATTGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
214777 CGTAGAA
1 CGTAGAA
214784 TTTTGTCCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.30, C:0.26, G:0.27, T:0.16
Consensus pattern (22 bp):
CGTAGAAATGCACCGAAGTGCC
Found at i:214784 original size:22 final size:22
Alignment explanation
Indices: 214719--214785 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
214709 CTCGTATAAA
*
214719 TGCACCGAAGTGCCCGTAGAAG
1 TGCACCGAAGTGCCCGTAGAAT
214741 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
214763 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
214785 T
1 T
214786 TTGTCCATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.18
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:215540 original size:67 final size:66
Alignment explanation
Indices: 215424--215573 Score: 219
Period size: 67 Copynumber: 2.3 Consensus size: 66
215414 TTTTTCTCAT
* * *
215424 GGGGGAATCGGTTCCCCCCCTGGGGTATCGATTCCCCTCAAGCAATCTGGAATTCATATACGATG
1 GGGGGTATCGGTTCCCCCCCTGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATG
215489 A
66 A
* * * *
215490 GGGGGTATCGGTTCCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATCATATTCGTT
1 GGGGGTATCGGTTCCCCCCCT-GGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGAT
215555 GA
65 GA
*
215557 AGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
215574 TTGAATGGGT
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
66 20 0.27
67 55 0.73
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.26
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCCTGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATG
A
Found at i:215583 original size:21 final size:21
Alignment explanation
Indices: 215553--215595 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
215543 ATCATATTCG
* *
215553 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
215574 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
215595 T
1 T
215596 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:215584 original size:67 final size:66
Alignment explanation
Indices: 215425--215595 Score: 202
Period size: 67 Copynumber: 2.6 Consensus size: 66
215415 TTTTCTCATG
* * *
215425 GGGGAATCGGTTCCCCCCCT-GGGGTATCGATTCCCCTCAAGCAATCTGGAATTCATATACGATG
1 GGGGTATCGGTT-CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATG
*
215489 AG
65 AA
* * * *
215491 GGGGTATCGGTTCCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATCATATTCGTTG
1 GGGGTATCGGTT-CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATG
215556 AA
65 AA
* *
215558 GGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
215596 AACCCAGAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
65 6 0.07
66 19 0.21
67 67 0.73
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.27
Consensus pattern (66 bp):
GGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATCATATACGATGA
A
Found at i:219486 original size:11 final size:11
Alignment explanation
Indices: 219470--219530 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
219460 TCAAGACTCG
219470 AGCTCGATTGA
1 AGCTCGATTGA
*
219481 AGCTCGATTCA
1 AGCTCGATTGA
* *
219492 AGCTCAACTTTA
1 AGCTCGA-TTGA
*
219504 AGCTCGATTTA
1 AGCTCGATTGA
* *
219515 AGTTCGTTTGA
1 AGCTCGATTGA
219526 AGCTC
1 AGCTC
219531 AAAGACGGGT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
11 32 0.78
12 9 0.22
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (11 bp):
AGCTCGATTGA
Found at i:221816 original size:167 final size:170
Alignment explanation
Indices: 221533--221853 Score: 488
Period size: 167 Copynumber: 1.9 Consensus size: 170
221523 TACCTTCCTG
221533 TGCATAACTTAACCTCTATCACATAATCGGATTTAGAGTTTAGGGTTTAGGGCTTATAGTTTAGG
1 TGCATAACTTAACCTCTATCACATAATCGGATTTAGAGTTTAGGGTTTA--G--TATAGTTTAGG
* * * *
221598 GTTTGTTGCAAAGACATTAATTAATCGACTTGGTATCGATTTATGAGGTAAGTATAATTTAGGGT
62 GTTTATTGCAAAGACATTAATTAACCGACTTGGTATCGATTTATGAGGTAAGTACAATTTAAGGT
* *
221663 TTAGGGTTTATAGTTTATGATTTAGGAGTCACATAACATCATTT
127 TTAGGATTTAGAGTTTATGATTTAGGAGTCACATAACATCATTT
221707 TGCATAACTTAACCTCTATCACATAATCGGATTTAG-GTTTTAGGGTTTA-TA-A-TTTAGGGTT
1 TGCATAACTTAACCTCTATCACATAATCGGATTTAGAG-TTTAGGGTTTAGTATAGTTTAGGGTT
*
221768 TATTGCAAAGACATTAATTAACCGACTTTGTATCGATTTATGAGGTAAGTACAATTTAAGGTTTA
65 TATTGCAAAGACATTAATTAACCGACTTGGTATCGATTTATGAGGTAAGTACAATTTAAGGTTTA
* *
221833 GGATTTAGGGTTTATGGTTTA
130 GGATTTAGAGTTTATGATTTA
221854 AGATTTAGGG
Statistics
Matches: 137, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
167 86 0.63
168 1 0.01
169 2 0.01
173 1 0.01
174 47 0.34
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (170 bp):
TGCATAACTTAACCTCTATCACATAATCGGATTTAGAGTTTAGGGTTTAGTATAGTTTAGGGTTT
ATTGCAAAGACATTAATTAACCGACTTGGTATCGATTTATGAGGTAAGTACAATTTAAGGTTTAG
GATTTAGAGTTTATGATTTAGGAGTCACATAACATCATTT
Found at i:221842 original size:174 final size:170
Alignment explanation
Indices: 221533--221862 Score: 470
Period size: 174 Copynumber: 1.9 Consensus size: 170
221523 TACCTTCCTG
221533 TGCATAACTTAACCTCTATCACATAATCGGATTTAGAGTTTAGGGTTTAGGGCTTATAGTTTAGG
1 TGCATAACTTAACCTCTATCACATAATCGGATTTAGAGTTTAGGGTTTA--G--TATAGTTTAGG
* * *
221598 GTTTGTTGCAAAGACATTAATTAATCGACTTGGTATCGATTTATGAGGTAAGTATAATTTAGGGT
62 GTTTATTGCAAAGACATTAATTAACCGACTTGGTATCGATTTATGAGGTAAGTATAATTTAGGAT
*
221663 TTAGGGTTTATAGTTTATGATTTAGGAGTCACATAACATCATTT
127 TTAGGGTTTATAGTTTAAGATTTAGGAGTCACATAACATCATTT
221707 TGCATAACTTAACCTCTATCACATAATCGGATTTAG-GTTTTAGGGTTTA-TA-A-TTTAGGGTT
1 TGCATAACTTAACCTCTATCACATAATCGGATTTAGAG-TTTAGGGTTTAGTATAGTTTAGGGTT
*
221768 TATTGCAAAGACATTAATTAACCGACTTTGTATCGATTTATGAGGTAAGTACAATTTAAGGTTTA
65 TATTGCAAAGACATTAATTAACCGACTTGGTATCGATTTATGAGGTAAGT---A--TAA--TTTA
*
221833 GGATTTAGGGTTTATGGTTTAAGATTTAGG
123 GGATTTAGGGTTTATAGTTTAAGATTTAGG
221863 GTTTAGGGTT
Statistics
Matches: 142, Mismatches: 6, Indels: 16
0.87 0.04 0.10
Matches are distributed among these distances:
167 56 0.39
168 1 0.01
169 2 0.01
170 1 0.01
172 3 0.02
173 1 0.01
174 78 0.55
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (170 bp):
TGCATAACTTAACCTCTATCACATAATCGGATTTAGAGTTTAGGGTTTAGTATAGTTTAGGGTTT
ATTGCAAAGACATTAATTAACCGACTTGGTATCGATTTATGAGGTAAGTATAATTTAGGATTTAG
GGTTTATAGTTTAAGATTTAGGAGTCACATAACATCATTT
Found at i:221851 original size:21 final size:21
Alignment explanation
Indices: 221822--221872 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
221812 GTAAGTACAA
*
221822 TTTAAGGTTTAGGATTTAGGG
1 TTTAAGGTTTAAGATTTAGGG
*
221843 TTTATGGTTTAAGATTTAGGG
1 TTTAAGGTTTAAGATTTAGGG
*
221864 TTTAGGGTT
1 TTTAAGGTT
221873 CATTACAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (21 bp):
TTTAAGGTTTAAGATTTAGGG
Found at i:221870 original size:7 final size:7
Alignment explanation
Indices: 221822--221872 Score: 57
Period size: 7 Copynumber: 7.3 Consensus size: 7
221812 GTAAGTACAA
*
221822 TTTAAGG
1 TTTAGGG
*
221829 TTTAGGA
1 TTTAGGG
221836 TTTAGGG
1 TTTAGGG
*
221843 TTTATGG
1 TTTAGGG
* *
221850 TTTAAGA
1 TTTAGGG
221857 TTTAGGG
1 TTTAGGG
221864 TTTAGGG
1 TTTAGGG
221871 TT
1 TT
221873 CATTACAAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:221935 original size:11 final size:11
Alignment explanation
Indices: 221914--221981 Score: 52
Period size: 11 Copynumber: 6.3 Consensus size: 11
221904 TAGTTGTATT
221914 ATATAATTTTTA
1 ATAT-ATTTTTA
221926 ATATATTTTTA
1 ATATATTTTTA
221937 A-AT-TTTTATA
1 ATATATTTT-TA
***
221947 AT-TATCAATA
1 ATATATTTTTA
* *
221957 GTGTATTTTTA
1 ATATATTTTTA
221968 ATATATTTTTA
1 ATATATTTTTA
221979 ATA
1 ATA
221982 ATGTAATTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
9 4 0.09
10 9 0.21
11 26 0.60
12 4 0.09
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.57
Consensus pattern (11 bp):
ATATATTTTTA
Found at i:225737 original size:30 final size:30
Alignment explanation
Indices: 225684--225749 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
225674 AAAACCGGTA
* * *
225684 GAACCGGCTGAGAACCGATAAAACGGGGGT
1 GAACCGGCTGAAAACCGACAAAACCGGGGT
* * *
225714 GAACCGGCTGAAAACTGGCAAAACCGGTGT
1 GAACCGGCTGAAAACCGACAAAACCGGGGT
225744 GAACCG
1 GAACCG
225750 CCGGTTCTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.23, G:0.33, T:0.11
Consensus pattern (30 bp):
GAACCGGCTGAAAACCGACAAAACCGGGGT
Found at i:235279 original size:2 final size:2
Alignment explanation
Indices: 235268--235300 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
235258 ATATTAGATT
235268 TA TA -A TA TA TA TA TA TA -A TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
235301 GGGGGGGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:235286 original size:13 final size:13
Alignment explanation
Indices: 235268--235297 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
235258 ATATTAGATT
235268 TATAATATATATA
1 TATAATATATATA
235281 TATAATATATATA
1 TATAATATATATA
235294 TATA
1 TATA
235298 TATGGGGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TATAATATATATA
Done.