Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006851.1 Hibiscus syriacus cultivar Beakdansim tig00017431_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: 113696
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:2805 original size:12 final size:12
Alignment explanation
Indices: 2788--2812 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2778 AAGAAGAAGG
2788 ATGAGACAAAGA
1 ATGAGACAAAGA
2800 ATGAGACAAAGA
1 ATGAGACAAAGA
2812 A
1 A
2813 AATGTTGGGG
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:0.60, C:0.08, G:0.24, T:0.08
Consensus pattern (12 bp):
ATGAGACAAAGA
Found at i:7080 original size:21 final size:21
Alignment explanation
Indices: 7011--7082 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
7001 TTTTATACGC
*
7011 AGTGCATCGATACACTATGAT
1 AGTGCATCGATACACTATGAA
* * *
7032 AGTGTACCGATGTATCCCTA-GAA
1 AGTGCATCGA--TA-CACTATGAA
*
7055 TGTGCATCGATACACTATGAA
1 AGTGCATCGATACACTATGAA
7076 AGTGCAT
1 AGTGCAT
7083 TGATGCCGTC
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
20 4 0.11
21 19 0.50
23 11 0.29
24 4 0.11
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (21 bp):
AGTGCATCGATACACTATGAA
Found at i:7100 original size:44 final size:44
Alignment explanation
Indices: 7012--7114 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
7002 TTTATACGCA
* * *
7012 GTGCATCGATACACTATGATAGTGTACCGATGTATCCCTAGAAT
1 GTGCATCGATACACTATGAAAGTGCACCGATGCATCCCTAGAAT
** * *
7056 GTGCATCGATACACTATGAAAGTGCATTGATGCCGT-CCTTGAAT
1 GTGCATCGATACACTATGAAAGTGCACCGATG-CATCCCTAGAAT
*
7100 GTGTATCGATACACT
1 GTGCATCGATACACT
7115 CTTCAGTGTA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
44 49 0.98
45 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (44 bp):
GTGCATCGATACACTATGAAAGTGCACCGATGCATCCCTAGAAT
Found at i:7623 original size:12 final size:12
Alignment explanation
Indices: 7597--7630 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
7587 ATATTATAAT
7597 TTTTCAAACATTG
1 TTTTCAAA-ATTG
7610 TTTTCAAAATTG
1 TTTTCAAAATTG
7622 TTTTCAAAA
1 TTTTCAAAA
7631 ATTGCACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (12 bp):
TTTTCAAAATTG
Found at i:7631 original size:13 final size:13
Alignment explanation
Indices: 7597--7634 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
7587 ATATTATAAT
*
7597 TTTTCAAACATTG
1 TTTTCAAAAATTG
7610 TTTTC-AAAATTG
1 TTTTCAAAAATTG
7622 TTTTCAAAAATTG
1 TTTTCAAAAATTG
7635 CACATTAGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (13 bp):
TTTTCAAAAATTG
Found at i:9346 original size:13 final size:13
Alignment explanation
Indices: 9324--9357 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
9314 AGGGGGAGTT
9324 ATTTTCAAAAATG
1 ATTTTCAAAAATG
9337 A-TTTCAAAAATG
1 ATTTTCAAAAATG
9349 ATTTTCAAA
1 ATTTTCAAA
9358 GAAAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:9771 original size:65 final size:65
Alignment explanation
Indices: 9701--9858 Score: 180
Period size: 65 Copynumber: 2.4 Consensus size: 65
9691 TATTTTATTA
* * *
9701 AAACATCGAAT-TCATTTTGTGTACTGATGCACAGACAATACA-TAGATACACTCCT-GGT-TTT
1 AAACATCGAATGT-ATTTTGTGTACCGATGCACACACAATACACT-GATACACTCCTAGCTCTTT
9762 AATG
64 --TG
* *
9766 AAACATCGAATGTATTTTGTGTACCGATGCACACACCATGCACTGATACACTCCTAGCTCTTTTG
1 AAACATCGAATGTATTTTGTGTACCGATGCACACACAATACACTGATACACTCCTAGCTCTTTTG
* * *
9831 AAACATCGAATATAATTAGTGTACCGAT
1 AAACATCGAATGTATTTTGTGTACCGAT
9859 ACACTAGGTT
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
65 74 0.91
66 4 0.05
67 3 0.04
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (65 bp):
AAACATCGAATGTATTTTGTGTACCGATGCACACACAATACACTGATACACTCCTAGCTCTTTTG
Found at i:11694 original size:64 final size:69
Alignment explanation
Indices: 11483--11695 Score: 198
Period size: 64 Copynumber: 3.2 Consensus size: 69
11473 TTTATCAAAG
* * ** **
11483 TGATGCACCGATGCACCA-ATCCATGCATCGAAGCACCA-TGA--ATTAAAT-TGAACATCGAAT
1 TGATGCATCGATGCACCATA-CCATGCATCGATGCACCACTGAGGATTTTATCAAAACATCGAAT
11543 GCATT
65 GCATT
* *
11548 TCATGCATCGATGCA-CATACCATGCATCGATGCACCACTGAGGATTTTATCAAAACATTGAATG
1 TGATGCATCGATGCACCATACCATGCATCGATGCACCACTGAGGATTTTATCAAAACATCGAATG
11612 CATT
66 CATT
* * * * *
11616 TGATGCATCGATGCACCA-GCCATGCATCTATGCACTA-T--GGCTATTT-T-GAAACATCGAAT
1 TGATGCATCGATGCACCATACCATGCATCGATGCACCACTGAGGAT-TTTATCAAAACATCGAAT
*
11675 GCACT
65 GCATT
11680 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
11696 TCTTAGTGCA
Statistics
Matches: 125, Mismatches: 16, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
64 49 0.39
65 21 0.17
66 3 0.02
67 6 0.05
68 44 0.35
69 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (69 bp):
TGATGCATCGATGCACCATACCATGCATCGATGCACCACTGAGGATTTTATCAAAACATCGAATG
CATT
Found at i:11695 original size:17 final size:19
Alignment explanation
Indices: 11667--11715 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
11657 TATTTTGAAA
11667 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
11685 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
11704 CACCGATGCACT
1 CATCGATGCACT
11716 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:17515 original size:21 final size:22
Alignment explanation
Indices: 17469--17521 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
17459 ACACCTAGCA
* * *
17469 GTGCATCGATGCATCCTTGAAT
1 GTGCATCGATACATCCATGAAG
17491 GTGCATCGATACA-CCATGAAG
1 GTGCATCGATACATCCATGAAG
*
17512 GTGCAGCGAT
1 GTGCATCGAT
17522 GCACGCCTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (22 bp):
GTGCATCGATACATCCATGAAG
Found at i:19058 original size:21 final size:21
Alignment explanation
Indices: 19016--19059 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
19006 ACTCCGGGAG
*
19016 CTAGCTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
19037 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
19058 CT
1 CT
19060 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.16, T:0.34
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:19415 original size:14 final size:15
Alignment explanation
Indices: 19390--19418 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19380 TTGTTTTTTA
19390 TGTTTCTGGATTGTT
1 TGTTTCTGGATTGTT
19405 TGTTT-TGGATTGTT
1 TGTTTCTGGATTGTT
19419 AAATTCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.03, G:0.28, T:0.62
Consensus pattern (15 bp):
TGTTTCTGGATTGTT
Found at i:20194 original size:65 final size:63
Alignment explanation
Indices: 20075--20284 Score: 230
Period size: 65 Copynumber: 3.3 Consensus size: 63
20065 TTTATCAAAG
* * *
20075 TGATGCACCGATGCACCAATCCATTCATCGATGCAC-CATGA-ATTAAATTG-AACATCGAATGC
1 TGATGCATCGATGCA-CAA-CCATGCATCGATGCACTCAGGATATT---TTGAAACATCGAATGC
20137 ATT
61 ATT
* *
20140 TCATGCATCGATGCACATACCATGCATCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACA-ACCATGCATCGATGCACTCAGGATATTT-TG-AAACATCGAATGCAT
20204 T
63 T
* * * *
20205 TGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
20269 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
20285 TCTTAGTGCA
Statistics
Matches: 126, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
62 1 0.01
63 3 0.02
64 47 0.37
65 70 0.56
66 5 0.04
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (63 bp):
TGATGCATCGATGCACAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
Found at i:28813 original size:55 final size:54
Alignment explanation
Indices: 28720--28877 Score: 205
Period size: 55 Copynumber: 2.9 Consensus size: 54
28710 ATATTCGGAA
*
28720 AACGAGTTCGCTCCCTCATTT-TTAGGGAGTATAGAACTCGAACAATTTTCTG-C
1 AACGAGTTCGCTCCCTC-TTTCTTAGGGAGTATAGAACTCGAACAATCTTCTGTC
*
28773 GAACGAGTTCACTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCTGTC
1 -AACGAGTTCGCTCCCTCTTTCTT-AGGGAGTATAGAACTCGAACAATCTTCTGTC
* * * * *
28829 AACGGGTTCGTTCCCTCTTTCTTAGGGAGTA-GGAACTTGAAGAATCTTC
1 AACGAGTTCGCTCCCTCTTTCTTAGGGAGTATAGAACTCGAACAATCTTC
28878 ATCAATCGTG
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
53 18 0.19
54 26 0.28
55 48 0.52
56 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (54 bp):
AACGAGTTCGCTCCCTCTTTCTTAGGGAGTATAGAACTCGAACAATCTTCTGTC
Found at i:28933 original size:55 final size:55
Alignment explanation
Indices: 28871--29154 Score: 383
Period size: 55 Copynumber: 5.1 Consensus size: 55
28861 GAACTTGAAG
28871 AATCTTCATCAATCGTGTCTGCTCCCTATTTCCTCAGAGAGTATAAGACCCAAAC
1 AATCTTCATCAATCGTGTCTGCTCCCTATTTCCTCAGAGAGTATAAGACCCAAAC
* * * *
28926 CATCTTCAACAAATCTTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACCCAAAC
1 AATCTTCATC-AATCGTGTCTGCTCCCTATTTCCTCAGAGAGTATAAGACCCAAAC
* ***
28982 AATCTTCATCAATCGTGTCTGCTCCCCA-TTCCTTCAGAGAGTATAAGACTTGAAC
1 AATCTTCATCAATCGTGTCTGCTCCCTATTTCC-TCAGAGAGTATAAGACCCAAAC
* *
29037 AATCTTCATCAATCGTGTCTGCTCCCTATTT-CTGCAGAGAGTATAAGACTCGAAC
1 AATCTTCATCAATCGTGTCTGCTCCCTATTTCCT-CAGAGAGTATAAGACCCAAAC
* * * * * *
29092 AATCTTCATCAACCGCGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGATC
1 AATCTTCATCAATCGTGTCTGCTCCCTATTTCCTCAGAGAGTATAAGACCCAAAC
29147 AATCTTCA
1 AATCTTCA
29155 ATTATCGTTG
Statistics
Matches: 206, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
54 4 0.02
55 148 0.72
56 54 0.26
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (55 bp):
AATCTTCATCAATCGTGTCTGCTCCCTATTTCCTCAGAGAGTATAAGACCCAAAC
Found at i:30181 original size:7 final size:7
Alignment explanation
Indices: 30169--30200 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
30159 TTTTCATTCA
30169 TTTTTAT
1 TTTTTAT
30176 TTTTTAT
1 TTTTTAT
30183 TTTTTAT
1 TTTTTAT
30190 TTTTTCAT
1 TTTTT-AT
30198 TTT
1 TTT
30201 CACTCATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.79
8 5 0.21
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTAT
Found at i:30188 original size:14 final size:15
Alignment explanation
Indices: 30165--30200 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
30155 CATTTTTTCA
30165 TTCA-TTTTTATTTT
1 TTCATTTTTTATTTT
30179 TT-ATTTTTTATTTT
1 TTCATTTTTTATTTT
30193 TTCATTTT
1 TTCATTTT
30201 CACTCATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.05
14 14 0.70
15 5 0.25
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.81
Consensus pattern (15 bp):
TTCATTTTTTATTTT
Found at i:33723 original size:8 final size:8
Alignment explanation
Indices: 33710--33737 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
33700 GAAAAAGAAG
33710 ATATATAC
1 ATATATAC
33718 ATATATAC
1 ATATATAC
33726 ATATATAC
1 ATATATAC
33734 ATAT
1 ATAT
33738 GGGAGAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATATAC
Found at i:40176 original size:16 final size:16
Alignment explanation
Indices: 40155--40192 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
40145 AACCTTATTC
40155 ACATGATATCTACCCA
1 ACATGATATCTACCCA
40171 ACATGATATCTACCCA
1 ACATGATATCTACCCA
40187 ATCATG
1 A-CATG
40193 CTTTAGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.37, C:0.29, G:0.08, T:0.26
Consensus pattern (16 bp):
ACATGATATCTACCCA
Found at i:43764 original size:22 final size:20
Alignment explanation
Indices: 43728--43767 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
43718 CAGTTATCTT
43728 TAACAACTCTAACAACCAAG
1 TAACAACTCTAACAACCAAG
43748 TAACAACCTCCTAACAACCA
1 TAACAA-CT-CTAACAACCA
43768 GTCACACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
22 10 0.56
ACGTcount: A:0.47, C:0.35, G:0.03, T:0.15
Consensus pattern (20 bp):
TAACAACTCTAACAACCAAG
Found at i:43795 original size:29 final size:29
Alignment explanation
Indices: 43760--43848 Score: 151
Period size: 29 Copynumber: 3.1 Consensus size: 29
43750 ACAACCTCCT
*
43760 AACAACCAGTCACACATCCAGCGTGGCAC
1 AACAACCAGTCACACAACCAGCGTGGCAC
*
43789 AACAACCAGTCACACAACCAGTGTGGCAC
1 AACAACCAGTCACACAACCAGCGTGGCAC
*
43818 AACAACCAGTCACACAACCAACGTGGCAC
1 AACAACCAGTCACACAACCAGCGTGGCAC
43847 AA
1 AA
43849 TTACAGCAAC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.39, C:0.36, G:0.16, T:0.09
Consensus pattern (29 bp):
AACAACCAGTCACACAACCAGCGTGGCAC
Found at i:43807 original size:12 final size:12
Alignment explanation
Indices: 43761--43837 Score: 55
Period size: 12 Copynumber: 5.6 Consensus size: 12
43751 CAACCTCCTA
43761 ACAACCAGTCAC
1 ACAACCAGTCAC
*
43773 ACATCCAGCGTGGCAC
1 ACAACCA--GT--CAC
43789 AACAACCAGTCAC
1 -ACAACCAGTCAC
43802 ACAACCAGTGTGGCAC
1 ACAACCA--GT--CAC
43818 AACAACCAGTCAC
1 -ACAACCAGTCAC
43831 ACAACCA
1 ACAACCA
43838 ACGTGGCACA
Statistics
Matches: 53, Mismatches: 2, Indels: 20
0.71 0.03 0.27
Matches are distributed among these distances:
12 20 0.38
13 6 0.11
14 4 0.08
15 4 0.08
16 6 0.11
17 13 0.25
ACGTcount: A:0.39, C:0.38, G:0.14, T:0.09
Consensus pattern (12 bp):
ACAACCAGTCAC
Found at i:43824 original size:17 final size:17
Alignment explanation
Indices: 43777--43827 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
43767 AGTCACACAT
*
43777 CCAGCGTGGCACAACAA
1 CCAGTGTGGCACAACAA
43794 CCA--GT--CAC-ACAA
1 CCAGTGTGGCACAACAA
43806 CCAGTGTGGCACAACAA
1 CCAGTGTGGCACAACAA
43823 CCAGT
1 CCAGT
43828 CACACAACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
12 7 0.24
13 3 0.10
14 2 0.07
15 2 0.07
16 3 0.10
17 12 0.41
ACGTcount: A:0.35, C:0.35, G:0.20, T:0.10
Consensus pattern (17 bp):
CCAGTGTGGCACAACAA
Found at i:50587 original size:22 final size:23
Alignment explanation
Indices: 50543--50591 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
50533 AAATTATTAA
50543 ATATAATATTTTAAATAAGAAAAT
1 ATATAATATTTTAAAT-AGAAAAT
* *
50567 ATATATTATTTTAAAT-TAAAAT
1 ATATAATATTTTAAATAGAAAAT
50589 ATA
1 ATA
50592 GGACAAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
24 15 0.65
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
ATATAATATTTTAAATAGAAAAT
Found at i:53350 original size:37 final size:37
Alignment explanation
Indices: 53274--53350 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
53264 TTTTTATATT
*
53274 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
53311 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
53348 TTT
1 TTT
53351 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:53532 original size:20 final size:20
Alignment explanation
Indices: 53496--53533 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53486 ATCCTATTCC
**
53496 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
53516 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
53534 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:64372 original size:8 final size:8
Alignment explanation
Indices: 64359--64450 Score: 76
Period size: 8 Copynumber: 12.0 Consensus size: 8
64349 TTTTTTCCGT
64359 TTATTATA
1 TTATTATA
64367 TTA-T-TA
1 TTATTATA
64373 TTA-TATA
1 TTATTATA
64380 TGTA-TATA
1 T-TATTATA
64388 TTATTTATTA
1 TTA-TTA-TA
64398 TTATTATA
1 TTATTATA
64406 TTATTATA
1 TTATTATA
64414 -TA-TATA
1 TTATTATA
64420 -TA-TATA
1 TTATTATA
64426 TATATATATA
1 T-TAT-TATA
64436 TTATT-TA
1 TTATTATA
64443 TTATTATA
1 TTATTATA
64451 AATTATTACA
Statistics
Matches: 74, Mismatches: 0, Indels: 20
0.79 0.00 0.21
Matches are distributed among these distances:
6 16 0.22
7 15 0.20
8 25 0.34
9 8 0.11
10 10 0.14
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (8 bp):
TTATTATA
Found at i:64387 original size:2 final size:2
Alignment explanation
Indices: 64363--64436 Score: 67
Period size: 2 Copynumber: 41.5 Consensus size: 2
64353 TTCCGTTTAT
* *
64363 TA TA T- TA T- TA T- TA TA TA TG TA TA TA T- TA TT TA T- TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
64399 TA T- TA TA T- TA T- 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 TA TA TA TA T
64437 TATTTATTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
1 9 0.15
2 50 0.85
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (2 bp):
TA
Found at i:64399 original size:10 final size:10
Alignment explanation
Indices: 64365--64449 Score: 64
Period size: 11 Copynumber: 7.6 Consensus size: 10
64355 CCGTTTATTA
64365 TATTA-TTAT
1 TATTATTTAT
*
64374 TATATATGTAT
1 TAT-TATTTAT
64385 ATATTATTTAT
1 -TATTATTTAT
64396 TATTATTATAT
1 TATTATT-TAT
64407 TATTATATATAT
1 TATTAT-T-TAT
64419 ATATATATATATAT
1 -TAT-TAT-T-TAT
64433 ATATTATTTAT
1 -TATTATTTAT
64444 TATTAT
1 TATTAT
64450 AAATTATTAC
Statistics
Matches: 67, Mismatches: 2, Indels: 13
0.82 0.02 0.16
Matches are distributed among these distances:
9 3 0.04
10 15 0.22
11 21 0.31
12 9 0.13
13 6 0.09
14 13 0.19
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (10 bp):
TATTATTTAT
Found at i:67818 original size:29 final size:31
Alignment explanation
Indices: 67781--67838 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
67771 TGACTAATCA
*
67781 TTTCAACTAAC-TTGA-TTCTTTTTGTCTTG
1 TTTCAACTAACATTGATTTCCTTTTGTCTTG
*
67810 TTTCTACTAACATTGATTTCCTTTTGTCT
1 TTTCAACTAACATTGATTTCCTTTTGTCT
67839 GCTCTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.40
30 4 0.16
31 11 0.44
ACGTcount: A:0.17, C:0.19, G:0.09, T:0.55
Consensus pattern (31 bp):
TTTCAACTAACATTGATTTCCTTTTGTCTTG
Found at i:69996 original size:18 final size:17
Alignment explanation
Indices: 69973--70018 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
69963 TGTTTATAAG
69973 GGAATTGGAATATGTGAA
1 GGAATTGGAATATGT-AA
* * *
69991 GGAATTTGAATCTGTCA
1 GGAATTGGAATATGTAA
70008 GGAATTGGAAT
1 GGAATTGGAAT
70019 CCAATTCCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.30
Consensus pattern (17 bp):
GGAATTGGAATATGTAA
Found at i:70617 original size:37 final size:38
Alignment explanation
Indices: 70545--70618 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
70535 TAAACCTGAA
*
70545 CTCGACCCGAATATCACACTTAAAAAAACCTGACCCGT
1 CTCGACCCGAATATCACACTTAAAAAAACCCGACCCGT
70583 CTCGACCCGAATATCACACTT-AAAAAACCCGACCCG
1 CTCGACCCGAATATCACACTTAAAAAAACCCGACCCG
70619 ACCCGAACAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 14 0.40
38 21 0.60
ACGTcount: A:0.36, C:0.36, G:0.11, T:0.16
Consensus pattern (38 bp):
CTCGACCCGAATATCACACTTAAAAAAACCCGACCCGT
Found at i:73202 original size:14 final size:14
Alignment explanation
Indices: 73193--73224 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
73183 GAAAAAATAA
73193 AAAAATAAAAAAAG
1 AAAAATAAAAAAAG
73207 AAAAATAAAAAAAG
1 AAAAATAAAAAAAG
73221 AAAA
1 AAAA
73225 GGAAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.06, T:0.06
Consensus pattern (14 bp):
AAAAATAAAAAAAG
Found at i:73203 original size:9 final size:8
Alignment explanation
Indices: 73184--73224 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
73174 TTTAAAGATG
73184 AAAAAATA
1 AAAAAATA
73192 AAAAAAT-
1 AAAAAATA
73199 AAAAAA-A
1 AAAAAATA
*
73206 GAAAAATA
1 AAAAAATA
*
73214 AAAAAAGA
1 AAAAAATA
73222 AAA
1 AAA
73225 GGAAAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
7 11 0.39
8 17 0.61
ACGTcount: A:0.88, C:0.00, G:0.05, T:0.07
Consensus pattern (8 bp):
AAAAAATA
Found at i:73224 original size:5 final size:5
Alignment explanation
Indices: 73202--73351 Score: 85
Period size: 5 Copynumber: 28.6 Consensus size: 5
73192 AAAAAATAAA
73202 AAAAG AAAA- ATAAA- AAAAG AAAAGG AAAAG AAAAGG AAAAGG AAAAGG
1 AAAAG AAAAG A-AAAG AAAAG AAAA-G AAAAG AAAA-G AAAA-G AAAA-G
* * *
73250 AAAAG AAAAG GAAAG AAAAGG AAAGG AAAAG AAAA- AAAAT AAAA- AAATA-
1 AAAAG AAAAG AAAAG AAAA-G AAAAG AAAAG AAAAG AAAAG AAAAG AAA-AG
* * ** *
73299 AAAAC AAATGAA AAAAG AAGAAG AATAAG AAAAAG GGAAG AAAAT AAAAG
1 AAAAG AAA--AG AAAAG AA-AAG AA-AAG -AAAAG AAAAG AAAAG AAAAG
73349 AAA
1 AAA
73352 TTTTTTAAAA
Statistics
Matches: 120, Mismatches: 13, Indels: 24
0.76 0.08 0.15
Matches are distributed among these distances:
4 12 0.10
5 65 0.54
6 37 0.31
7 6 0.05
ACGTcount: A:0.75, C:0.01, G:0.20, T:0.04
Consensus pattern (5 bp):
AAAAG
Found at i:73224 original size:6 final size:6
Alignment explanation
Indices: 73201--73333 Score: 60
Period size: 6 Copynumber: 22.0 Consensus size: 6
73191 AAAAAAATAA
* * * * *
73201 AAAAAG AAAAAT AAAAAA AGAAAAG GAAAAG -AAAAG GAAAAG GAAAAG
1 AAAAAG AAAAAG AAAAAG A-AAAAG AAAAAG AAAAAG AAAAAG AAAAAG
* * * *
73249 GAAAAG AAAAGG AAAGAA- AAGGAAAG GAAAAG AAAAA- AAATAA- AAAAAT
1 AAAAAG AAAAAG AAA-AAG AA--AAAG AAAAAG AAAAAG AAA-AAG AAAAAG
* * * *
73298 AAAAA- CAAATG AAAAAAG AAGAAG AATAAG AAAAAG
1 AAAAAG AAAAAG -AAAAAG AAAAAG AAAAAG AAAAAG
73334 GGAAGAAAAT
Statistics
Matches: 101, Mismatches: 16, Indels: 20
0.74 0.12 0.15
Matches are distributed among these distances:
5 13 0.13
6 75 0.74
7 11 0.11
8 2 0.02
ACGTcount: A:0.76, C:0.01, G:0.20, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:73230 original size:11 final size:11
Alignment explanation
Indices: 73216--73288 Score: 107
Period size: 11 Copynumber: 6.8 Consensus size: 11
73206 GAAAAATAAA
73216 AAAAGAAAAGG
1 AAAAGAAAAGG
73227 AAAAGAAAAGG
1 AAAAGAAAAGG
73238 AAAAGGAAAAGG
1 AAAA-GAAAAGG
73250 AAAAGAAAAGG
1 AAAAGAAAAGG
73261 -AAAGAAAAGG
1 AAAAGAAAAGG
*
73271 AAAGGAAAA-G
1 AAAAGAAAAGG
73281 AAAA-AAAA
1 AAAAGAAAA
73289 TAAAAAAATA
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
9 4 0.07
10 14 0.24
11 29 0.50
12 11 0.19
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAGG
Found at i:73330 original size:19 final size:19
Alignment explanation
Indices: 73308--73345 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
73298 AAAAACAAAT
73308 GAAAAA-AGAAGAAGAATAA
1 GAAAAAGAGAAGAA-AATAA
*
73327 GAAAAAGGGAAGAAAATAA
1 GAAAAAGAGAAGAAAATAA
73346 AAGAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (19 bp):
GAAAAAGAGAAGAAAATAA
Found at i:73349 original size:27 final size:26
Alignment explanation
Indices: 73283--73350 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 26
73273 AGGAAAAGAA
* *
73283 AAAAAATAAAAAAATAAAAACAAATG
1 AAAAAATAAAAGAATAAAAACAAAGG
* *
73309 AAAAAAGAAGAAGAATAAGAAA-AAGGG
1 AAAAAATAA-AAGAATAA-AAACAAAGG
73336 AAGAAAATAAAAGAA
1 AA-AAAATAAAAGAA
73351 ATTTTTTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
26 8 0.24
27 17 0.50
28 9 0.26
ACGTcount: A:0.76, C:0.01, G:0.15, T:0.07
Consensus pattern (26 bp):
AAAAAATAAAAGAATAAAAACAAAGG
Found at i:75671 original size:91 final size:90
Alignment explanation
Indices: 75405--75864 Score: 625
Period size: 91 Copynumber: 5.0 Consensus size: 90
75395 AGAGAAGATA
* * *
75405 AACCTTGCATCAATATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACAAAGAAGAAG
1 AACCTTG-ATCAATATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAG
* *
75470 AAGTTCATAATGAGAATAACTTATTC
65 AAGTTCATAATGAGAAGAACTTGTTC
*
75496 AACCTTGACTCAATATTTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATA-GAGGGAG
1 AACCTTGA-TCAATA-TTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCC-A-ACGAGGGAG
*
75560 AAGAAATTCATAATGAGAAGAACTTGTTC
62 AAGAAGTTCATAATGAGAAGAACTTGTTC
* * ** *
75589 AACATTGCATCAATATTTTCAACGGGGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAG
1 AACCTTG-ATCAATATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAG
75654 AAGTTCATAATGAGAAGAACTTGTTC
65 AAGTTCATAATGAGAAGAACTTGTTC
* * * *
75680 AACCTTGGGTTAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAG
1 AACCTT-GATCAATATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAG
75745 AAGTTCATAATGAGAAGAACTTGTTC
65 AAGTTCATAATGAGAAGAACTTGTTC
* * * * * * *
75771 AACCTTGACTCAACATGTCCAGTGAAGAGTTCATAATAAGAAGAACTCATTCGACGAGGGAGAAT
1 AACCTTGA-TCAATATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAG
*
75836 AAGTTCATAATAAGAAGAACTTGTTC
65 AAGTTCATAATGAGAAGAACTTGTTC
75862 AAC
1 AAC
75865 GTTGTTCGAT
Statistics
Matches: 330, Mismatches: 31, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
90 3 0.01
91 211 0.64
92 71 0.22
93 43 0.13
94 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (90 bp):
AACCTTGATCAATATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGA
AGTTCATAATGAGAAGAACTTGTTC
Found at i:76061 original size:117 final size:117
Alignment explanation
Indices: 75780--76128 Score: 449
Period size: 117 Copynumber: 3.0 Consensus size: 117
75770 CAACCTTGAC
* * * **
75780 TCAACATGTCCAGT-GAAGAGTTCATAATAAGAAGAACTCATTCGACGAGGGAGAATAAGTTCAT
1 TCAACATTTCCAGTGGAA-AGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAGGAAGTTCAT
* * * * *
75844 AATAAGAAGAACTTGTTCAACGTT-GTTCGATTTCATCACAGAAGTATGTGGA
65 AATGAGAAGAACTTGTTCAACCTTGGTTCGATTCCATCACAGAAGGAAGTGGA
* * * *
75896 TCAAC-TTTCCAATGGGAGAGTTTATAATGAGAAGAACTTATCCGACGAGGGAGAGGAAGTTCAT
1 TCAACATTTCCAGT-GGAAAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAGGAAGTTCAT
* * *
75960 AATGAGAAGAACTTGTTCAACCTTGGTTCAATTCCATCATAGAAGGAGGTGGA
65 AATGAGAAGAACTTGTTCAACCTTGGTTCGATTCCATCACAGAAGGAAGTGGA
*
76013 TCAACATTTCCAGTGGAAAGTTCATAATGAGAATAACTCATCCGACGA-GGACGAGGAAGTTCAT
1 TCAACATTTCCAGTGGAAAGTTCATAATGAGAAGAACTCATCCGACGAGGGA-GAGGAAGTTCAT
* *
76077 AATGAGAATAACTTATTCAACCTTGG-T-GATTCCATCACAGAAGGAAGTGGA
65 AATGAGAAGAACTTGTTCAACCTTGGTTCGATTCCATCACAGAAGGAAGTGGA
76128 T
1 T
76129 TGACATCCCC
Statistics
Matches: 202, Mismatches: 26, Indels: 11
0.85 0.11 0.05
Matches are distributed among these distances:
115 28 0.14
116 71 0.35
117 96 0.48
118 7 0.03
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (117 bp):
TCAACATTTCCAGTGGAAAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAGGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTGGTTCGATTCCATCACAGAAGGAAGTGGA
Found at i:77705 original size:25 final size:24
Alignment explanation
Indices: 77658--77719 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
77648 AATTGGGTCC
*
77658 TTATTTTATTTTATTCTTTTTTT-A
1 TTATTTTA-ATTATTCTTTTTTTAA
* *
77682 CTATTTTTAATTATTTTTTGTTTTAA
1 TTA-TTTTAATTATTCTTT-TTTTAA
77708 TTATTTTAATTA
1 TTATTTTAATTA
77720 AGTTTATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
24 10 0.32
25 18 0.58
26 3 0.10
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.73
Consensus pattern (24 bp):
TTATTTTAATTATTCTTTTTTTAA
Found at i:83141 original size:16 final size:16
Alignment explanation
Indices: 83122--83163 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
83112 GTATGTATGT
83122 ATGTATATGTACACAC
1 ATGTATATGTACACAC
*
83138 ATGTATGTGTACACAC
1 ATGTATATGTACACAC
83154 A--TATATGTAC
1 ATGTATATGTAC
83164 GTGTGTATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 8 0.33
16 16 0.67
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (16 bp):
ATGTATATGTACACAC
Found at i:83145 original size:4 final size:4
Alignment explanation
Indices: 80253--83127 Score: 5010
Period size: 4 Copynumber: 722.2 Consensus size: 4
80243 TCTGTCTGTC
* * *
80253 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGCA TGCA TGCA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
** **
80301 TGTA TGTA TACA TACA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * *
80349 TGTA TGTA TATA TATA TGTA TGTA TGTA TGTA TGTA TATA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
80397 TGTA TGTA TGTA TGTA TGTA TATA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
80445 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * **
80493 TATA TGTA TGTA TGTA TATA TGTA TGTA TGTA TGTA TGTA TGTA TACA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * ** * * *
80541 TGCA TGTA TGCA TACA TGTA TGTG TGTA TGTA TGTA TGTG TGTA TGTG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* ** * * ** ** * *
80589 TGTA TATA TACA CGTA TGTA TATA CATA TGTA TGCC TATA TGTA CGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * ** * ** *
80637 TGTA TATA TGTA TATA TATA CGTA CGTA TGCC TATA TGTA CATA CGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
80685 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
80733 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
80781 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
80829 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
80877 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
80925 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
80973 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
81021 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA CGTA TGCCTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG--TA TGTA
** *
81071 CATA CGTA TGTA TG-- TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
81117 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
81165 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
81213 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
81261 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
81309 TG-- TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
81355 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
81403 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
81451 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
81499 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
81547 TGTA TGTA --TA TGTA TGTA TGTA TGTA TG-- TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
81591 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG-- TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
81637 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA --TA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
81683 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
81731 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
81779 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
81827 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG-- TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
81873 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
81921 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * *
81969 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGCA TGCA TGCA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * * * * * *
82017 TGCA TGCA TGCA TGCA TGCA TGCA TGCA TGCA TGCA TGCA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * *
82065 TGTA TGTA TGTA TGCA TGCA TGCA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
82113 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
82161 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
82209 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
82257 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
82305 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
82353 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
82401 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
82449 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
82497 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
82545 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
82593 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
82641 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
82689 TGTA TGTA GTGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA -TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
82738 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
82786 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
82834 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
82882 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
82930 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG-A TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
82977 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGCA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
83025 TGTA TGTA TGTA TGTA TGTA TGTA TGCA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
83073 TGTA TGTA TGTA TGTA TGTA TGTA --TA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
83119 TGTA TGTA T
1 TGTA TGTA T
83128 ATGTACACAC
Statistics
Matches: 2773, Mismatches: 78, Indels: 40
0.96 0.03 0.01
Matches are distributed among these distances:
2 16 0.01
3 3 0.00
4 2746 0.99
5 4 0.00
6 4 0.00
ACGTcount: A:0.25, C:0.02, G:0.24, T:0.49
Consensus pattern (4 bp):
TGTA
Found at i:83216 original size:10 final size:10
Alignment explanation
Indices: 83201--83315 Score: 61
Period size: 10 Copynumber: 12.3 Consensus size: 10
83191 TGGGTCTATT
83201 TGTATGTGTA
1 TGTATGTGTA
*
83211 TGTATGTATA
1 TGTATGTGTA
*
83221 TGTAT-T-TT
1 TGTATGTGTA
83229 TGTATGTGTA
1 TGTATGTGTA
83239 TGTA----TA
1 TGTATGTGTA
**
83245 AATATGTGTA
1 TGTATGTGTA
* *
83255 TGCATGTGTG
1 TGTATGTGTA
83265 TGTATGTGTA
1 TGTATGTGTA
* *
83275 TATTTGTGTGCA
1 TGTATGTGT--A
*
83287 TGTGTGTGTA
1 TGTATGTGTA
83297 --TATGTGTA
1 TGTATGTGTA
83305 TG--TGTGTA
1 TGTATGTGTA
83313 TGT
1 TGT
83316 CTATTTGTAT
Statistics
Matches: 78, Mismatches: 16, Indels: 23
0.67 0.14 0.20
Matches are distributed among these distances:
6 4 0.05
8 21 0.27
9 2 0.03
10 43 0.55
12 8 0.10
ACGTcount: A:0.20, C:0.02, G:0.28, T:0.50
Consensus pattern (10 bp):
TGTATGTGTA
Found at i:83222 original size:16 final size:16
Alignment explanation
Indices: 83203--83489 Score: 92
Period size: 16 Copynumber: 18.8 Consensus size: 16
83193 GGTCTATTTG
83203 TATGTGTATGTATGTA
1 TATGTGTATGTATGTA
* *
83219 TA--TGTAT-T-TTTG
1 TATGTGTATGTATGTA
**
83231 TATGTGTATGTATAAA
1 TATGTGTATGTATGTA
*
83247 TATGTGTATGCATG--
1 TATGTGTATGTATGTA
*
83261 TGTGTGTATG--TGTA
1 TATGTGTATGTATGTA
* * *
83275 TATTTGTGTGCATG--
1 TATGTGTATGTATGTA
* *
83289 TGTGTGTA--TATGTG
1 TATGTGTATGTATGTA
*
83303 TATGTG--TGTATGTC
1 TATGTGTATGTATGTA
* *
83317 TATTTGTATTTATGTA
1 TATGTGTATGTATGTA
* *
83333 TGTGTGTATTTATGTA
1 TATGTGTATGTATGTA
*
83349 TATGCGTATGTA--TA
1 TATGTGTATGTATGTA
* *
83363 AATGCATATATGCATATGTA
1 TATG--TGTATG--TATGTA
* *
83383 TATGTATATGT-T-AA
1 TATGTGTATGTATGTA
* *
83397 TATGTATACGTATGTA
1 TATGTGTATGTATGTA
* *
83413 TATATGTATATATGTA
1 TATGTGTATGTATGTA
* * *
83429 TATATGTATATATGTG
1 TATGTGTATGTATGTA
* *
83445 TATGTTTGAATGTGTGTA
1 TATG--TGTATGTATGTA
*
83463 TATGTGAATG--TGTA
1 TATGTGTATGTATGTA
*
83477 TATGTGTGTGTAT
1 TATGTGTATGTAT
83490 ATGTGTACAT
Statistics
Matches: 201, Mismatches: 44, Indels: 52
0.68 0.15 0.18
Matches are distributed among these distances:
12 9 0.04
13 1 0.00
14 74 0.37
15 3 0.01
16 89 0.44
18 20 0.10
20 5 0.02
ACGTcount: A:0.25, C:0.02, G:0.23, T:0.49
Consensus pattern (16 bp):
TATGTGTATGTATGTA
Found at i:83270 original size:20 final size:19
Alignment explanation
Indices: 83247--83309 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 19
83237 TATGTATAAA
*
83247 TATGTGTATGCATGTGTGTG
1 TATGTGTATG-ATATGTGTG
*
83267 TATGTGTAT-ATTTGTGTG
1 TATGTGTATGATATGTGTG
* * *
83285 CATGTGTGTG-TATATGTG
1 TATGTGTATGATATGTGTG
83303 TATGTGT
1 TATGTGT
83310 GTATGTCTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 27 0.75
20 9 0.25
ACGTcount: A:0.16, C:0.03, G:0.32, T:0.49
Consensus pattern (19 bp):
TATGTGTATGATATGTGTG
Found at i:83277 original size:28 final size:29
Alignment explanation
Indices: 83246--83314 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
83236 GTATGTATAA
83246 ATATGTGTATGCATGTGTGTG-TATGTGT
1 ATATGTGTATGCATGTGTGTGATATGTGT
* *
83274 ATATTTGTGTGCATGTGTGTGTATATGTGT
1 ATATGTGTATGCATGTGTGTG-ATATGTGT
*
83304 ATGTGTGTATG
1 ATATGTGTATG
83315 TCTATTTGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 19 0.56
30 15 0.44
ACGTcount: A:0.17, C:0.03, G:0.32, T:0.48
Consensus pattern (29 bp):
ATATGTGTATGCATGTGTGTGATATGTGT
Found at i:83310 original size:20 final size:20
Alignment explanation
Indices: 83263--83325 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
83253 TATGCATGTG
* *
83263 TGTGTATGTGTATATTTGTG
1 TGTGTGTGTGTATATTTGTA
*
83283 TGCATGTGTGTGTATATGTGTA
1 TG--TGTGTGTGTATATTTGTA
* *
83305 TGTGTGTATGTCTATTTGTA
1 TGTGTGTGTGTATATTTGTA
83325 T
1 T
83326 TTATGTATGT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 18 0.51
22 17 0.49
ACGTcount: A:0.16, C:0.03, G:0.29, T:0.52
Consensus pattern (20 bp):
TGTGTGTGTGTATATTTGTA
Found at i:83385 original size:6 final size:6
Alignment explanation
Indices: 83369--83563 Score: 61
Period size: 6 Copynumber: 31.8 Consensus size: 6
83359 TATAAATGCA
* * * *
83369 TATATG CATATG TATATG TATATG TTAATATG TATACG TATGTA TATATG
1 TATATG TATATG TATATG TATATG -T-ATATG TATATG TATATG TATATG
* * * * * * * *
83419 TATATA TGTATA TATGTA TATATG TGTATG T-T-TG AATGTGTG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG --TATATG TATATG
* * * * ** * * * *
83467 TGAATGTG TATATG TGTGTG TATATG TGTACA TATATG TCTGTG TCTATT
1 T--ATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
* * * * * * *
83517 TATGTG TATATA TATATA TATATA TATATA TATATA TATATA TATAT
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATAT
83564 ATATGTGTGT
Statistics
Matches: 143, Mismatches: 38, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
4 2 0.01
5 1 0.01
6 125 0.87
7 3 0.02
8 12 0.08
ACGTcount: A:0.32, C:0.03, G:0.16, T:0.49
Consensus pattern (6 bp):
TATATG
Found at i:83399 original size:26 final size:26
Alignment explanation
Indices: 83370--83443 Score: 64
Period size: 26 Copynumber: 2.9 Consensus size: 26
83360 ATAAATGCAT
* *
83370 ATATGCATATGTATATGTATATGTTA
1 ATATGCATACGTATATATATATGTTA
* *
83396 ATATGTATACGTATGTATATATG-TA
1 ATATGCATACGTATATATATATGTTA
* *
83421 TATATGTATA--TATGTATATATGT
1 -ATATGCATACGTATATATATATGT
83444 GTATGTTTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 12 0.29
25 2 0.05
26 28 0.67
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (26 bp):
ATATGCATACGTATATATATATGTTA
Found at i:83418 original size:8 final size:8
Alignment explanation
Indices: 83381--83809 Score: 94
Period size: 8 Copynumber: 53.9 Consensus size: 8
83371 TATGCATATG
83381 TATATGTA
1 TATATGTA
*
83389 TATGT-TA
1 TATATGTA
83396 -ATATGTA
1 TATATGTA
83403 TACGTATGTA
1 TA--TATGTA
83413 TATATGTA
1 TATATGTA
83421 TATATGTA
1 TATATGTA
83429 TATATGTA
1 TATATGTA
*
83437 TATATGTG
1 TATATGTA
* *
83445 TATGTTTGA
1 TATATGT-A
* *
83454 -ATGTGTG
1 TATATGTA
83461 TATATGTGA
1 TATATGT-A
*
83470 -ATGTGTA
1 TATATGTA
* *
83477 TATGTGTGTG
1 TA--TATGTA
*
83487 TATATGTG
1 TATATGTA
* *
83495 TACATATA
1 TATATGTA
* * *
83503 TGTCTGTG
1 TATATGTA
*
83511 TCTAT-T-
1 TATATGTA
*
83517 TATGTGTA
1 TATATGTA
*
83525 TATATATA
1 TATATGTA
*
83533 TATATATA
1 TATATGTA
*
83541 TATATATA
1 TATATGTA
*
83549 TATATATA
1 TATATGTA
*
83557 TATATATA
1 TATATGTA
* *
83565 TATGTGTG
1 TATATGTA
* * *
83573 TGTGTGTG
1 TATATGTA
* *
83581 TGTGTGTA
1 TATATGTA
* *
83589 TGTATGCA
1 TATATGTA
**
83597 TGCATGTA
1 TATATGTA
* *
83605 TGTATGTG
1 TATATGTA
** * *
83613 TGCACGGA
1 TATATGTA
*
83621 TGTATGTA
1 TATATGTA
*
83629 -AGTGTGTA
1 TA-TATGTA
* *
83637 TAGATGCA
1 TATATGTA
83645 TACGTATGTA
1 TA--TATGTA
83655 TATATGTA
1 TATATGTA
83663 TATATGTA
1 TATATGTA
83671 TATATGTA
1 TATATGTA
*
83679 TATATGTG
1 TATATGTA
*
83687 TATGTGTGA
1 TATATGT-A
* *
83696 -ATGTGTG
1 TATATGTA
83703 TATATGT-
1 TATATGTA
* *
83710 GA-ATGTG
1 TATATGTA
83717 TATATG--
1 TATATGTA
* *
83723 TGTGTGTA
1 TATATGTA
*
83731 TATGTGTACA
1 TATATGT--A
*
83741 TATATGTC
1 TATATGTA
* * *
83749 TGTGTCTA
1 TATATGTA
*
83757 TTTATG--
1 TATATGTA
*
83763 TGTATGTA
1 TATATGTA
*
83771 TATATATA
1 TATATGTA
*
83779 TATATATA
1 TATATGTA
*
83787 TATATATA
1 TATATGTA
*
83795 TATATATA
1 TATATGTA
83803 TATATGT
1 TATATGT
83810 GTGTGTGTGT
Statistics
Matches: 320, Mismatches: 75, Indels: 52
0.72 0.17 0.12
Matches are distributed among these distances:
6 19 0.06
7 9 0.03
8 263 0.82
9 1 0.00
10 28 0.09
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (8 bp):
TATATGTA
Found at i:83421 original size:12 final size:12
Alignment explanation
Indices: 83321--83569 Score: 77
Period size: 12 Copynumber: 20.2 Consensus size: 12
83311 TATGTCTATT
*
83321 TGTATTTATGTA
1 TGTATATATGTA
* * *
83333 TGTGTGTATTTA
1 TGTATATATGTA
**
83345 TGTATATGCGTA
1 TGTATATATGTA
* *
83357 TGTATAAATGCA
1 TGTATATATGTA
*
83369 TATATGCATATGTA
1 TGTAT--ATATGTA
* *
83383 TATGTATATGTTAA
1 TGTATATATG-T-A
* * *
83397 TATGTATACGTA
1 TGTATATATGTA
83409 TGTATATATGTA
1 TGTATATATGTA
* * *
83421 TATATGTATATA
1 TGTATATATGTA
83433 TGTATATATGTGTA
1 TGTATATA--TGTA
* *
83447 TGTTTGA-ATGTG
1 TGTAT-ATATGTA
* *
83459 TGTATATGTGAA
1 TGTATATATGTA
* *
83471 TGTGTATATGTG
1 TGTATATATGTA
* *
83483 TGTGTATATGTG
1 TGTATATATGTA
** *
83495 TACATATATGTC
1 TGTATATATGTA
* * *
83507 TGTGTCTATTTA
1 TGTATATATGTA
* *
83519 TGTGTATATATA
1 TGTATATATGTA
* *
83531 TATATATATATA
1 TGTATATATGTA
* *
83543 TATATATATATA
1 TGTATATATGTA
* *
83555 TATATATATATA
1 TGTATATATGTA
83567 TGT
1 TGT
83570 GTGTGTGTGT
Statistics
Matches: 178, Mismatches: 51, Indels: 16
0.73 0.21 0.07
Matches are distributed among these distances:
11 1 0.01
12 147 0.83
13 2 0.01
14 27 0.15
15 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.49
Consensus pattern (12 bp):
TGTATATATGTA
Found at i:83530 original size:2 final size:2
Alignment explanation
Indices: 83523--83567 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
83513 TATTTATGTG
83523 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
83565 TA T
1 TA T
83568 GTGTGTGTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:83592 original size:4 final size:4
Alignment explanation
Indices: 83585--84061 Score: 100
Period size: 4 Copynumber: 122.5 Consensus size: 4
83575 TGTGTGTGTG
* * * * * * * *
83585 TGTA TGTA TGCA TGCA TGTA TGTA TGTG TGCA CGGA TGTA TGTA AGTG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * *
83633 TGTA TAG-A TGCATA CGTA TGTA TATA TGTA TATA TGTA TATA TGTA TATA
1 TGTA T-GTA TG--TA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * * * * * *
83683 TG-- TGTA TGTG TGAA TGTG TGTA TATG TGAA TGTG TATA TGTG TGTG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * ** * * * * * *
83729 TATA TGTG TACA TATA TGTC TGTG TCTA TTTA TG-- TGTA TGTA TATA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * * * * * * *
83775 TATA TATA TATA TATA TATA TATA TATA TATA TGTG TGTG TGTG TGT-
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * * * *
83822 -GTA TGTA TGCA TGCA TGTA TGTA TGTG TGCA CGGA TGTA TGTA AGTG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* ** ** *
83869 TGTA TAG-A TGCA TACA TGTA TGTA TGGG TGTA --TA TATA TGTA TG--
1 TGTA T-GTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* *
83913 TGTA TGTA TGTA TGTA TGCCTA TCTA --TA TGTA TATA TGTA TGTA TG-A
1 TGTA TGTA TGTA TGTA TG--TA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* *
83960 GTGAA TGTA TG-- TGTA TGTA TGTA TG-A TGCCTA TCTA --TA TGTA TGTA
1 -TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG--TA TGTA TGTA TGTA TGTA
* * * * *
84006 TGTA TGTA TG-A GTGAA TGTA TG-- TGTA TGTA TGTC TATC TATA TGTA
1 TGTA TGTA TGTA -TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
84052 TGTA TGTA TG
1 TGTA TGTA TG
84062 AGAGAATGTA
Statistics
Matches: 351, Mismatches: 89, Indels: 66
0.69 0.18 0.13
Matches are distributed among these distances:
2 18 0.05
3 7 0.02
4 315 0.90
5 4 0.01
6 7 0.02
ACGTcount: A:0.27, C:0.05, G:0.24, T:0.44
Consensus pattern (4 bp):
TGTA
Found at i:83776 original size:2 final size:2
Alignment explanation
Indices: 83769--83807 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
83759 TATGTGTATG
83769 TA TA TA 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 TA TA TA T
83808 GTGTGTGTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:83852 original size:16 final size:16
Alignment explanation
Indices: 83821--84115 Score: 76
Period size: 16 Copynumber: 18.5 Consensus size: 16
83811 TGTGTGTGTG
*
83821 TGTATGTATGCATGCA
1 TGTATGTATGTATGCA
*
83837 TGTATGTATGTGTGCA
1 TGTATGTATGTATGCA
* * * **
83853 CGGATGTATGTAAGTG
1 TGTATGTATGTATGCA
* *
83869 TGTATAG-ATGCATACA
1 TGTAT-GTATGTATGCA
**
83885 TGTATGTATGGGTG--
1 TGTATGTATGTATGCA
* *
83899 TATATATATGTATG--
1 TGTATGTATGTATGCA
*
83913 TGTATGTATGTATGTA
1 TGTATGTATGTATGCA
* *
83929 TGCCTATCTA--TATGTA
1 TG--TATGTATGTATGCA
*
83945 TATATGTATGTATG-A
1 TGTATGTATGTATGCA
* *
83960 GTGAATGTATG--TGTA
1 -TGTATGTATGTATGCA
*
83975 TGTATGTATG-ATGCC
1 TGTATGTATGTATGCA
* * * *
83990 TATCTATATGTATGTA
1 TGTATGTATGTATGCA
*
84006 TGTATGTATG-AGTGAA
1 TGTATGTATGTA-TGCA
84022 TGTATGTGTATGTATGTCTA
1 TGTA--TGTATGTATG-C-A
* *
84042 TCTATATGTATGTATGTA
1 --TGTATGTATGTATGCA
* *
84060 TG-AGAGAATGTATGCA
1 TGTA-TGTATGTATGCA
* ** *
84076 TATATGTATACACGCA
1 TGTATGTATGTATGCA
* *
84092 TGTTTGTATGAATGCA
1 TGTATGTATGTATGCA
84108 TGTATGTA
1 TGTATGTA
84116 CTAATACATG
Statistics
Matches: 197, Mismatches: 60, Indels: 44
0.65 0.20 0.15
Matches are distributed among these distances:
14 38 0.19
15 14 0.07
16 114 0.58
17 2 0.01
18 14 0.07
19 1 0.01
20 11 0.06
22 3 0.02
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.42
Consensus pattern (16 bp):
TGTATGTATGTATGCA
Found at i:83918 original size:10 final size:10
Alignment explanation
Indices: 83905--84058 Score: 83
Period size: 10 Copynumber: 15.9 Consensus size: 10
83895 GGTGTATATA
83905 TATGTATGTG
1 TATGTATGTG
83915 TATGTA--TG
1 TATGTATGTG
**
83923 TATGTATGCC
1 TATGTATGTG
* *
83933 TATCTATATG
1 TATGTATGTG
*
83943 TA--TATATG
1 TATGTATGTG
83951 TATGTATGAGTG
1 TATGTAT--GTG
*
83963 AATGTATGTG
1 TATGTATGTG
83973 TATGTA--TG
1 TATGTATGTG
**
83981 TATG-ATGCC
1 TATGTATGTG
* *
83990 TATCTATATG
1 TATGTATGTG
84000 TATGTA--TG
1 TATGTATGTG
84008 TATGTATGAGTG
1 TATGTAT--GTG
*
84020 AATGTATGTG
1 TATGTATGTG
*
84030 TATGTATGTC
1 TATGTATGTG
* *
84040 TATCTATATG
1 TATGTATGTG
84050 TATGTATGT
1 TATGTATGT
84059 ATGAGAGAAT
Statistics
Matches: 107, Mismatches: 24, Indels: 26
0.68 0.15 0.17
Matches are distributed among these distances:
7 1 0.01
8 30 0.28
9 3 0.03
10 57 0.53
12 16 0.15
ACGTcount: A:0.26, C:0.05, G:0.23, T:0.46
Consensus pattern (10 bp):
TATGTATGTG
Found at i:84008 original size:57 final size:58
Alignment explanation
Indices: 83906--84038 Score: 250
Period size: 57 Copynumber: 2.3 Consensus size: 58
83896 GTGTATATAT
83906 ATGTATGTGTATGTATGTATGTATGCCTATCTATATGTATATATGTATGTATGAGTGA
1 ATGTATGTGTATGTATGTATGTATGCCTATCTATATGTATATATGTATGTATGAGTGA
*
83964 ATGTATGTGTATGTATGTATG-ATGCCTATCTATATGTATGTATGTATGTATGAGTGA
1 ATGTATGTGTATGTATGTATGTATGCCTATCTATATGTATATATGTATGTATGAGTGA
84021 ATGTATGTGTATGTATGT
1 ATGTATGTGTATGTATGT
84039 CTATCTATAT
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
57 53 0.72
58 21 0.28
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (58 bp):
ATGTATGTGTATGTATGTATGTATGCCTATCTATATGTATATATGTATGTATGAGTGA
Found at i:84797 original size:14 final size:15
Alignment explanation
Indices: 84778--84807 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
84768 TTTTAATTTA
84778 TTTAAATTTC-TGTT
1 TTTAAATTTCATGTT
84792 TTTAAATTTCATGTT
1 TTTAAATTTCATGTT
84807 T
1 T
84808 GTTTAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (15 bp):
TTTAAATTTCATGTT
Found at i:85039 original size:288 final size:283
Alignment explanation
Indices: 84534--85186 Score: 698
Period size: 288 Copynumber: 2.3 Consensus size: 283
84524 ATTTTTAGTT
* * *
84534 CTTAAAATTATA-TTTTATTCAAAAATGACCTATAATTATTTCTATTTTTT-TAATTTACTGCAA
1 CTTAAAATTATATTTTTATAC-AAATTGACCCATAATTATTT-TATTTTTTGTAATTTACT-CAA
*
84597 ACTCTATAAATCACATCATAAATTTCATTTCAAACCTATAAATTATATCATAAACTCCAAACTCG
63 ACCCTATAAATCACATCATAAATTTCATTTCAAACCTATAAATTATATCATAAACTCCAAACTCG
* * *
84662 ATAAATATTTGTTCACCAACTTTTCAAGTGAATACAATATAGTCCATATTGATATTAATTTCAGC
128 ATAAATATTTATTCACCAACTTTTCAAATGAATACAATATAGTCCATATTGATATTAATTTCAAC
* * * *
84727 TTTATATTTTTAAAATTCTTTCAATTTGATC-CATGCGTGTTTTTTAATTTATTTAAATTT-CTG
193 TTTACATTTTTAAAATTCTTTCAATATGATCAC-T--GTGTTATTTAATTTATTTAAATTTAAT-
* *
84790 TTTTTAAATTTCATGTTTGT-TTAATTTAATC
254 TTTAT-AATTTCATGTTT-TCTAAATTTAATC
* *
84821 CTTAAAATTATATTTTTATCCAAATTTGGCCCATAATTATTTTATTTTTTGTAATTTACTCAAAA
1 CTTAAAATTATATTTTTATACAAA-TTGACCCATAATTATTTTATTTTTTGTAATTTACTC-AAA
* * * * *
84886 CCCTATAATTCTCATCATAAACTTT-ATTTCAAACCCTATAACTTATATCATTATCTCCAAAC-C
64 CCCTATAAATCACATCATAAA-TTTCATTTCAAA-CCTATAAATTATATCATAAACTCCAAACTC
* * ** * *
84949 TTATAAACT-TTTATTCACCAA-TTTTGTAAATGAATGGAAGT-TAGTCCATTTTTATATTAATT
127 -GATAAA-TATTTATTCACCAACTTTT-CAAATGAATACAA-TATAGTCCATATTGATATTAATT
* * *
85011 TCAACTTTACA-TTTTACAATTGTTTCAATATGATCACTTTGTTATTTAATTTATTTAAATTTAA
188 TCAACTTTACATTTTTAAAATTCTTTCAATATGATCACTGTGTTATTTAATTTATTTAAATTTAA
*
85075 TTTTATAATTTTATGTTTTCTAAATTTAATC
253 TTTTATAATTTCATGTTTTCTAAATTTAATC
* * * * * * * *
85106 CTTAAAAATGTATTTTTAATAGAAATTGAACCATAATTACTTCTACTTTTTGTTATATACTCTAA
1 CTTAAAATTATATTTTT-ATACAAATTGACCCATAATTA-TTTTATTTTTTGTAATTTACTC-AA
85171 ACCCTATACAATCACA
63 ACCCTATA-AATCACA
85187 AATTACAAAT
Statistics
Matches: 308, Mismatches: 42, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
284 1 0.00
285 48 0.16
286 59 0.19
287 30 0.10
288 86 0.28
289 82 0.27
290 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.46
Consensus pattern (283 bp):
CTTAAAATTATATTTTTATACAAATTGACCCATAATTATTTTATTTTTTGTAATTTACTCAAACC
CTATAAATCACATCATAAATTTCATTTCAAACCTATAAATTATATCATAAACTCCAAACTCGATA
AATATTTATTCACCAACTTTTCAAATGAATACAATATAGTCCATATTGATATTAATTTCAACTTT
ACATTTTTAAAATTCTTTCAATATGATCACTGTGTTATTTAATTTATTTAAATTTAATTTTATAA
TTTCATGTTTTCTAAATTTAATC
Found at i:87281 original size:60 final size:60
Alignment explanation
Indices: 87188--87312 Score: 214
Period size: 60 Copynumber: 2.1 Consensus size: 60
87178 CACAAGCCCA
*
87188 TACCTCTAACGAAACAAGGACCCTTACCTTCAACCTCAGCACCTGAATGCCACGAACCAC
1 TACCTCTAACGAAACAAAGACCCTTACCTTCAACCTCAGCACCTGAATGCCACGAACCAC
* * *
87248 TACCTCTTAGGAAACAAAGACCCTTATCTTCAACCTCAGCACCTGAATGCCACGAACCAC
1 TACCTCTAACGAAACAAAGACCCTTACCTTCAACCTCAGCACCTGAATGCCACGAACCAC
87308 TACCT
1 TACCT
87313 GAAAAGGAGC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.33, C:0.37, G:0.11, T:0.19
Consensus pattern (60 bp):
TACCTCTAACGAAACAAAGACCCTTACCTTCAACCTCAGCACCTGAATGCCACGAACCAC
Found at i:91570 original size:17 final size:17
Alignment explanation
Indices: 91548--91582 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
91538 ATAATTAAAT
*
91548 TACATGTAGTAAGTGTA
1 TACATGCAGTAAGTGTA
91565 TACATGCAGTAAGTGTA
1 TACATGCAGTAAGTGTA
91582 T
1 T
91583 TTCAAAAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (17 bp):
TACATGCAGTAAGTGTA
Found at i:100827 original size:2 final size:2
Alignment explanation
Indices: 100820--100854 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
100810 TCTAACCATA
100820 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
100855 CCTAGTGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:100921 original size:18 final size:18
Alignment explanation
Indices: 100898--100940 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
100888 AGAATCGTTG
100898 GATGAGAGAAAGCTAAAA
1 GATGAGAGAAAGCTAAAA
*
100916 GATGAGAGGAAGCTAAAA
1 GATGAGAGAAAGCTAAAA
*
100934 GTTGAGA
1 GATGAGA
100941 TTAACTCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.49, C:0.05, G:0.33, T:0.14
Consensus pattern (18 bp):
GATGAGAGAAAGCTAAAA
Found at i:104900 original size:32 final size:33
Alignment explanation
Indices: 104852--104936 Score: 102
Period size: 32 Copynumber: 2.6 Consensus size: 33
104842 GAATATCTTG
* * *
104852 GGGCCTGAGAGACTACCCAAGA-AAGTACATTA
1 GGGCCTAAGAGCCTACCCAAGAGAAGCACATTA
* *
104884 GGGCCTAAGAGCCTACCCAA-AGAAGCACCTTG
1 GGGCCTAAGAGCCTACCCAAGAGAAGCACATTA
*
104916 GGGCCTTAGAGCCTACCCAAG
1 GGGCCTAAGAGCCTACCCAAG
104937 GAAATTTCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
31 1 0.02
32 44 0.98
ACGTcount: A:0.32, C:0.28, G:0.26, T:0.14
Consensus pattern (33 bp):
GGGCCTAAGAGCCTACCCAAGAGAAGCACATTA
Found at i:109072 original size:32 final size:32
Alignment explanation
Indices: 108997--109112 Score: 117
Period size: 32 Copynumber: 3.7 Consensus size: 32
108987 GGGAATATTG
* *
108997 GGGCCTAAGAGCCTACCCAAGGTAGTACCATA
1 GGGCCTAAGAGCCTACCCAAGGAAGTACCTTA
** * *
109029 GTACCAAAGAGCCTACACAAGGAAGTACCTTA
1 GGGCCTAAGAGCCTACCCAAGGAAGTACCTTA
* * * *
109061 GGGCCTTAGAGCCTATCCAAGGAAATGCCTT-
1 GGGCCTAAGAGCCTACCCAAGGAAGTACCTTA
* *
109092 CGGCCTTAGAGCCTACCCAAG
1 GGGCCTAAGAGCCTACCCAAG
109113 ATCATCTTAG
Statistics
Matches: 68, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
31 19 0.28
32 49 0.72
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.17
Consensus pattern (32 bp):
GGGCCTAAGAGCCTACCCAAGGAAGTACCTTA
Found at i:110242 original size:18 final size:18
Alignment explanation
Indices: 110215--110260 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
110205 TAGTTTTTCA
*
110215 ATTTAATTCAAACTTGTC
1 ATTTATTTCAAACTTGTC
110233 ATTTATTTCAAACTTGTC
1 ATTTATTTCAAACTTGTC
110251 ATTTATTTCA
1 ATTTATTTCA
110261 TTTATTCTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.50
Consensus pattern (18 bp):
ATTTATTTCAAACTTGTC
Found at i:111401 original size:32 final size:33
Alignment explanation
Indices: 111348--111422 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 33
111338 GGCATAAGAG
* * *
111348 CCTACCCAA-GAAAGTAACTTGGGGTCTTATAA
1 CCTACCCAAGGAAAGTAACTTGGGGACTCAGAA
** *
111380 CCTACCCAAGGAAA-TGCCTTGGGGACTCAGAG
1 CCTACCCAAGGAAAGTAACTTGGGGACTCAGAA
111412 CCTACCCAAGG
1 CCTACCCAAGG
111423 TCACCTTAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
32 32 0.89
33 4 0.11
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.19
Consensus pattern (33 bp):
CCTACCCAAGGAAAGTAACTTGGGGACTCAGAA
Done.