Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006491.1 Hibiscus syriacus cultivar Beakdansim tig00015787_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: 65082
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Found at i:4385 original size:21 final size:22
Alignment explanation
Indices: 4359--4409 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
4349 AGGTTTGATA
* * *
4359 AAAAGATATTTAAA-TAATAAT
1 AAAAGAAAATTAAAGTAAAAAT
4380 AAAAGAAAATTAAAGTAAAAAT
1 AAAAGAAAATTAAAGTAAAAAT
4402 -AAAGAAAA
1 AAAAGAAAA
4410 GATTTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.22
Consensus pattern (22 bp):
AAAAGAAAATTAAAGTAAAAAT
Found at i:5962 original size:26 final size:25
Alignment explanation
Indices: 5853--6017 Score: 128
Period size: 26 Copynumber: 7.1 Consensus size: 25
5843 AAATCGAATA
*
5853 CATAATTAAAATGCATGAAAGAATG
1 CATAATTAAAATGCATGAAAGGATG
* *
5878 C---ATT--AAGGCGTGAAAGGATG
1 CATAATTAAAATGCATGAAAGGATG
5898 CCATAATTAAAATGCATG-AAGGATG
1 -CATAATTAAAATGCATGAAAGGATG
*
5923 C---ATT--AAGGCATGAAAGGATG
1 CATAATTAAAATGCATGAAAGGATG
*
5943 TCATAATTAAAATGTATGAAAGGATG
1 -CATAATTAAAATGCATGAAAGGATG
* *
5969 C---ACT--AAGGCATGAAAGGATG
1 CATAATTAAAATGCATGAAAGGATG
5989 CCATAATTAAAATGCATGAAAGGATG
1 -CATAATTAAAATGCATGAAAGGATG
6015 CAT
1 CAT
6018 TAAGGCATGA
Statistics
Matches: 108, Mismatches: 13, Indels: 38
0.68 0.08 0.24
Matches are distributed among these distances:
19 7 0.06
20 34 0.31
21 6 0.06
22 5 0.05
24 9 0.08
25 12 0.11
26 35 0.32
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (25 bp):
CATAATTAAAATGCATGAAAGGATG
Found at i:5983 original size:46 final size:46
Alignment explanation
Indices: 5853--6060 Score: 307
Period size: 46 Copynumber: 4.5 Consensus size: 46
5843 AAATCGAATA
* *
5853 CATAATTAAAATGCATGAAAGAATGCATTAAGGCGTGAAAGGATGC
1 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
*
5899 CATAATTAAAATGCATG-AAGGATGCATTAAGGCATGAAAGGATGT
1 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* *
5944 CATAATTAAAATGTATGAAAGGATGCACTAAGGCATGAAAGGATGC
1 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
5990 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGAAGAAT--
1 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAG--G-ATGC
*
6037 CATAATTAAAATGCAT-AATGGATG
1 CATAATTAAAATGCATGAAAGGATG
6061 TGTTAATGTG
Statistics
Matches: 149, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
45 41 0.28
46 89 0.60
47 16 0.11
48 1 0.01
49 2 0.01
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.23
Consensus pattern (46 bp):
CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
Found at i:6008 original size:91 final size:92
Alignment explanation
Indices: 5848--6052 Score: 324
Period size: 91 Copynumber: 2.2 Consensus size: 92
5838 GCTCTAAATC
* *
5848 GAATACATAATTAAAATGCATGAAAGAATGCATTAAGGCGTGAAAGGATGCCATAATTAAAATGC
1 GAAT-CATAATTAAAATGCATGAAAGAATGCACTAAGGCATGAAAGGATGCCATAATTAAAATGC
5913 ATG-AAGGATGCATTAAGGCATGAAAG-
65 ATGAAAGGATGCATTAAGGCATGAAAGA
* * *
5939 GATGTCATAATTAAAATGTATGAAAGGATGCACTAAGGCATGAAAGGATGCCATAATTAAAATGC
1 GA-ATCATAATTAAAATGCATGAAAGAATGCACTAAGGCATGAAAGGATGCCATAATTAAAATGC
6004 ATGAAAGGATGCATTAAGGCATGAAAGAA
65 ATGAAAGGATGCATTAAGGCATGAAAG-A
6033 GAATCATAATTAAAATGCAT
1 GAATCATAATTAAAATGCAT
6053 AATGGATGTG
Statistics
Matches: 103, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
91 61 0.59
92 24 0.23
93 16 0.16
94 2 0.02
ACGTcount: A:0.45, C:0.10, G:0.22, T:0.23
Consensus pattern (92 bp):
GAATCATAATTAAAATGCATGAAAGAATGCACTAAGGCATGAAAGGATGCCATAATTAAAATGCA
TGAAAGGATGCATTAAGGCATGAAAGA
Found at i:6807 original size:27 final size:27
Alignment explanation
Indices: 6777--6889 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 27
6767 TTTATATTTT
6777 AATGAATATGATTAATATCAATAGTTG
1 AATGAATATGATTAATATCAATAGTTG
* * *
6804 AATGAATGTGAATAATATAAATAGTTG
1 AATGAATATGATTAATATCAATAGTTG
* * * * *
6831 AATTATTGTGATTATTATCAATATTTG
1 AATGAATATGATTAATATCAATAGTTG
* ** *
6858 AATTAATATGATGGATATTAATAGTTG
1 AATGAATATGATTAATATCAATAGTTG
6885 AATGA
1 AATGA
6890 TGTATATTAA
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (27 bp):
AATGAATATGATTAATATCAATAGTTG
Found at i:6859 original size:54 final size:54
Alignment explanation
Indices: 6785--6887 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
6775 TTAATGAATA
*
6785 TGATTAATATCAATAGTTGAATGAATGTGAAT-AATATAAATAGTTGAATTATTG
1 TGATTAATATCAATAGTTGAATGAATATG-ATGAATATAAATAGTTGAATTATTG
* * * * *
6839 TGATTATTATCAATATTTGAATTAATATGATGGATATTAATAGTTGAAT
1 TGATTAATATCAATAGTTGAATGAATATGATGAATATAAATAGTTGAAT
6888 GATGTATATT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 2 0.05
54 40 0.95
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.42
Consensus pattern (54 bp):
TGATTAATATCAATAGTTGAATGAATATGATGAATATAAATAGTTGAATTATTG
Found at i:9033 original size:13 final size:13
Alignment explanation
Indices: 9003--9027 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8993 ATTTACAATA
9003 AAAACAAAAAATC
1 AAAACAAAAAATC
9016 AAAACAAAAAAT
1 AAAACAAAAAAT
9028 TTAAACTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.12, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAACAAAAAATC
Found at i:11597 original size:3 final size:3
Alignment explanation
Indices: 11589--11623 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
11579 ATTTATTTAT
11589 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11624 TGTATTGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:23745 original size:14 final size:15
Alignment explanation
Indices: 23726--23760 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
23716 CACAGCTTCA
23726 TTTTTTCTTTT-TCT
1 TTTTTTCTTTTCTCT
23740 TTTTTTCTTTTCTCT
1 TTTTTTCTTTTCTCT
23755 TTTTTT
1 TTTTTT
23761 ACAAAGTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTTCTTTTCTCT
Found at i:31383 original size:20 final size:20
Alignment explanation
Indices: 31354--31396 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
31344 ATTTCACCAC
*
31354 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
31374 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
31394 ATG
1 ATG
31397 GGCTTTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:36201 original size:20 final size:20
Alignment explanation
Indices: 36176--36239 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
36166 AACAAAATGT
36176 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
*
36196 CCAGGGGGAACAGATTCCCCCC
1 CCAGGGGGTACAGATT--CCCC
*
36218 CCAGGGGGTACCGATTCCCC
1 CCAGGGGGTACAGATTCCCC
36238 CC
1 CC
36240 TGTCTAACTG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
20 21 0.54
22 18 0.46
ACGTcount: A:0.19, C:0.41, G:0.28, T:0.12
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:36220 original size:22 final size:22
Alignment explanation
Indices: 36176--36239 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
36166 AACAAAATGT
36176 CCAGGGGGTACAGATT--CCCC
1 CCAGGGGGTACAGATTCCCCCC
*
36196 CCAGGGGGAACAGATTCCCCCC
1 CCAGGGGGTACAGATTCCCCCC
*
36218 CCAGGGGGTACCGATTCCCCCC
1 CCAGGGGGTACAGATTCCCCCC
36240 TGTCTAACTG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
20 15 0.38
22 24 0.62
ACGTcount: A:0.19, C:0.41, G:0.28, T:0.12
Consensus pattern (22 bp):
CCAGGGGGTACAGATTCCCCCC
Found at i:41267 original size:8 final size:8
Alignment explanation
Indices: 41254--41283 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
41244 GAAAAGCAAT
41254 TTAGAGAA
1 TTAGAGAA
41262 TTAGAGAA
1 TTAGAGAA
41270 TTAGAGAA
1 TTAGAGAA
41278 TTAGAG
1 TTAGAG
41284 TCGTACCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.27
Consensus pattern (8 bp):
TTAGAGAA
Found at i:42061 original size:2 final size:2
Alignment explanation
Indices: 42056--42122 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
42046 TTTAGGACTC
42056 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
42098 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 A
42123 AGTAAAAATA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:42994 original size:13 final size:13
Alignment explanation
Indices: 42976--43000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42966 AATTAAAAAA
42976 AAATCGAGTTTTC
1 AAATCGAGTTTTC
42989 AAATCGAGTTTT
1 AAATCGAGTTTT
43001 GCTCAGACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (13 bp):
AAATCGAGTTTTC
Found at i:44602 original size:21 final size:21
Alignment explanation
Indices: 44576--44649 Score: 148
Period size: 21 Copynumber: 3.5 Consensus size: 21
44566 TGTGAAATAA
44576 AACTCGAATAATTCGAATAGT
1 AACTCGAATAATTCGAATAGT
44597 AACTCGAATAATTCGAATAGT
1 AACTCGAATAATTCGAATAGT
44618 AACTCGAATAATTCGAATAGT
1 AACTCGAATAATTCGAATAGT
44639 AACTCGAATAA
1 AACTCGAATAA
44650 CTCAAATTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.27
Consensus pattern (21 bp):
AACTCGAATAATTCGAATAGT
Found at i:44605 original size:12 final size:12
Alignment explanation
Indices: 44588--44648 Score: 62
Period size: 12 Copynumber: 5.6 Consensus size: 12
44578 CTCGAATAAT
44588 TCGAATAGTAAC
1 TCGAATAGTAAC
*
44600 TCG-A-A-TAAT
1 TCGAATAGTAAC
44609 TCGAATAGTAAC
1 TCGAATAGTAAC
*
44621 TCG-A-A-TAAT
1 TCGAATAGTAAC
44630 TCGAATAGTAAC
1 TCGAATAGTAAC
44642 TCGAATA
1 TCGAATA
44649 ACTCAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
9 12 0.31
10 4 0.10
11 4 0.10
12 19 0.49
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.28
Consensus pattern (12 bp):
TCGAATAGTAAC
Found at i:44953 original size:77 final size:77
Alignment explanation
Indices: 44865--45012 Score: 260
Period size: 77 Copynumber: 1.9 Consensus size: 77
44855 ACTCGACTCG
* * *
44865 AAAAAAATTTCAAGTCAACTTCAAGTTATAAAATAAGATTCGTCAACTCGAATAACTTGAAATTT
1 AAAAAAATTTCAAGTCAACTTCAAGTTATAAAATAAGACTCGACAACTCAAATAACTTGAAATTT
44930 TTTGACTCAACT
66 TTTGACTCAACT
*
44942 AAAAAATTTTCAAGTCAACTTCAAGTTATAAAATAAGACTCGACAACTCAAATAACTTGAAATTT
1 AAAAAAATTTCAAGTCAACTTCAAGTTATAAAATAAGACTCGACAACTCAAATAACTTGAAATTT
45007 TTTGAC
66 TTTGAC
45013 ACGACTCAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 67 1.00
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.32
Consensus pattern (77 bp):
AAAAAAATTTCAAGTCAACTTCAAGTTATAAAATAAGACTCGACAACTCAAATAACTTGAAATTT
TTTGACTCAACT
Found at i:58953 original size:20 final size:19
Alignment explanation
Indices: 58914--58955 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
58904 TTTCTTCGAT
58914 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
58933 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
58953 ATT
1 ATT
58956 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:59066 original size:120 final size:120
Alignment explanation
Indices: 58827--59059 Score: 285
Period size: 120 Copynumber: 2.0 Consensus size: 120
58817 AATATTAATT
* * * * *
58827 TATATATATTTATAAATAAAATATATATTTATTTAGAAATATCATAAAAGGACTTCTAGGTGCCT
1 TATATATATTTATAAATAAAATATATATTTATTTAAAAATATCAGAAAAAGACATCCAGGTGCCT
* *
58892 TAAGACAGCTCTTTTCTTCGATATTAAAAAATAAATAAATAATTAAAACAATTAA
66 TAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACAATTAA
** * * *
58947 TATATA-ATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATAGACATCCAGTTGT
1 TATATATATTTAT-AAATAAAATATATATTTATTTAAAAATATCAGAAAA-AGACATCCAGGTGC
* * *
59011 TTTAAGACTGC-CCTTTCTT-AATATTGAAAAATAAATAAAT-ATTAAAACA
64 CTTAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACA
59060 TGATTAAAAT
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
118 9 0.09
119 25 0.26
120 44 0.46
121 18 0.19
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.37
Consensus pattern (120 bp):
TATATATATTTATAAATAAAATATATATTTATTTAAAAATATCAGAAAAAGACATCCAGGTGCCT
TAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACAATTAA
Found at i:59150 original size:22 final size:18
Alignment explanation
Indices: 59105--59140 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
59095 TTAATAAATA
59105 AAATAAATATTATTTATT
1 AAATAAATATTATTTATT
*
59123 ATATAAATATATATTTAT
1 AAATAAATAT-TATTTAT
59141 GGCTAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATAAATATTATTTATT
Found at i:59253 original size:27 final size:27
Alignment explanation
Indices: 59215--59278 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
59205 AAACAAGGAC
*
59215 AAAAATCAATAAAATTAAAA-TGATAGGT
1 AAAAAT-AATAAAATAAAAACTGATA-GT
* *
59243 ACAAATAATAAAATAAAAACTTATAGT
1 AAAAATAATAAAATAAAAACTGATAGT
59270 AAAAATAAT
1 AAAAATAAT
59279 TAGTAATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 22 0.71
28 9 0.29
ACGTcount: A:0.64, C:0.05, G:0.06, T:0.25
Consensus pattern (27 bp):
AAAAATAATAAAATAAAAACTGATAGT
Found at i:60561 original size:3 final size:3
Alignment explanation
Indices: 60548--60595 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
60538 TATATATATT
* * *
60548 TAA TAAA TAA TAA TAA TAA TAA TATA TTA TAT TAA TAA TAA TTA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
60595 T
1 T
60596 TATTATTATG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
3 32 0.86
4 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:60586 original size:22 final size:22
Alignment explanation
Indices: 60558--60603 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
60548 TAATAAATAA
60558 TAATAATAATAATATATTA-TAT
1 TAATAATAATAATA-ATTATTAT
*
60580 TAATAATAATTATAATTATTAT
1 TAATAATAATAATAATTATTAT
60602 TA
1 TA
60604 TGAAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATAATAATAATAATTATTAT
Found at i:60599 original size:19 final size:19
Alignment explanation
Indices: 60529--60600 Score: 66
Period size: 19 Copynumber: 3.9 Consensus size: 19
60519 ATGCAATTTG
60529 TAATATATATATATATATT--
1 TAATA-ATATA-ATATATTAA
60548 TAATAA-ATAATA-A-TAA
1 TAATAATATAATATATTAA
*
60564 TAATAATATATTATATTAA
1 TAATAATATAATATATTAA
60583 TAATAATTATAAT-TATTA
1 TAATAA-TATAATATATTA
60601 TTATGAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
14 1 0.02
15 1 0.02
16 9 0.20
17 8 0.18
18 2 0.04
19 19 0.42
20 5 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAATAATATAATATATTAA
Found at i:60965 original size:76 final size:76
Alignment explanation
Indices: 60723--61225 Score: 846
Period size: 76 Copynumber: 6.6 Consensus size: 76
60713 GATGAAAATA
* * * * *
60723 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGG-CTTTGAAAACATCAAAAAGC
60788 TCCCGAAGGCTT
65 TCCCGAAGGCTT
* * *
60800 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG-TTTGAAAATATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
60864 CCCAAAGGCTT
66 CCCGAAGGCTT
*
60875 TTTGGAAACATCATGCACTGCAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
60940 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
60951 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGACTTTGAAAACATCAAAAAGTT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
61016 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
61027 TTTGGAAACATCATGCACTGCTGGACTTACAGATGACCCTAAGGCTTTGAAAACGTCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
61092 CCCGAAGGCTT
66 CCCGAAGGCTT
*
61103 TTTGGAAACATTATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
61168 CCCAAAGGCTT
66 CCCGAAGGCTT
61179 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTT
61226 AGGACTTACA
Statistics
Matches: 403, Mismatches: 22, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
75 70 0.17
76 292 0.72
77 41 0.10
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:61306 original size:102 final size:102
Alignment explanation
Indices: 61124--61324 Score: 348
Period size: 102 Copynumber: 2.0 Consensus size: 102
61114 TATGCACTGC
*
61124 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACA
1 AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACA
*
61189 TCATGCACTGCAGGACTTACAGATGACCCTAAGGCTT
66 TCATGCACTGCAGGACTTACAGATGACCCGAAGGCTT
* *
61226 AGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
1 AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACA
* *
61291 TCATGCATTGTAGGACTTACAGATGACCCGAAGG
66 TCATGCACTGCAGGACTTACAGATGACCCGAAGG
61325 TTTGAAAACA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 93 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (102 bp):
AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACA
TCATGCACTGCAGGACTTACAGATGACCCGAAGGCTT
Found at i:61314 original size:76 final size:76
Alignment explanation
Indices: 61226--62369 Score: 1984
Period size: 76 Copynumber: 15.2 Consensus size: 76
61216 CCTAAGGCTT
* *
61226 AGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
1 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
* *
61291 TCATGCATTGT
66 TCATGCACTGC
*
61302 AGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
1 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
61366 TCATGCACTGC
66 TCATGCACTGC
*
61377 AGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
1 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
*
61442 TCATGCATTGC
66 TCATGCACTGC
*
61453 AGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
1 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
61518 TCATGCACTGC
66 TCATGCACTGC
*
61529 ACGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
1 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
61594 TCATGCACTGC
66 TCATGCACTGC
61605 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
1 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
*
61670 TCATGCACTAC
66 TCATGCACTGC
*
61681 AAGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
1 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
61746 TCATGCACTGC
66 TCATGCACTGC
* *
61757 AGGACTTACAGATGACCCTAAGG-TTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTAGGAAACA
1 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
61821 TCATGCACTGC
66 TCATGCACTGC
* *
61832 AGGACTTATAGATGACCCTAAGGCTTTAAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
1 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
61897 TCATGCACTGC
66 TCATGCACTGC
* *
61908 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCGTTTTGGAAACG
1 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
61973 TCATGCACTGC
66 TCATGCACTGC
* *
61984 AGGACTTACAGATGATCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACA
1 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
62049 TCATGCACTGC
66 TCATGCACTGC
62060 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
1 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
62125 TCATGCACTGC
66 TCATGCACTGC
* *
62136 AGGACTTACAGAGGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
1 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
62201 TCATGCACTGC
66 TCATGCACTGC
*
62212 AGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGC-TTTTGGAAACA
1 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
62276 TCATGCA-T--
66 TCATGCACTGC
* * *
62284 -TG---TACAGATGACCCTAAGGCTTTGAAAACATCAAAAACCTCCTGAAGGCTTTTTGGAAACA
1 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
*
62345 TCATGTACTGC
66 TCATGCACTGC
62356 AGGACTTACAGATG
1 AGGACTTACAGATG
62370 TGGGAAATAG
Statistics
Matches: 1020, Mismatches: 38, Indels: 20
0.95 0.04 0.02
Matches are distributed among these distances:
68 44 0.04
69 17 0.02
70 1 0.00
71 1 0.00
73 1 0.00
74 1 0.00
75 161 0.16
76 794 0.78
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (76 bp):
AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
TCATGCACTGC
Found at i:61421 original size:253 final size:254
Alignment explanation
Indices: 60972--61478 Score: 883
Period size: 253 Copynumber: 2.0 Consensus size: 254
60962 CATGCACTGC
* *
60972 AGGACTTACAGATGACCCTAAGACTTTGAAAACATCAAAAAGTTCCCGAAGGCTTTTTGGAAACA
1 AGGACTTACAGATGACCCGAAGACTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
* *
61037 TCATGCACTGCTGGACTTACAGATGACCCTAAGGCTTTGAAAACGTCAAAAAGCTCCCGAAGGCT
66 TCATGCACTGCTGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
*
61102 TTTTGGAAACATTATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
131 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
61167 TCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTT
196 TCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTT
**
61226 AGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
1 AGGACTTACAGATGACCCGAAGACTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
*
61291 TCATGCATTG-TAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCGAAGGC
66 TCATGCACTGCT-GGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
*
61354 TTTTTGGAAACATCATGCACTGCAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAG
130 TTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAG
* * *
61419 CTCCCGAAGGCTTTTTGGAAACATCATGCATTGCAGGACTTATAGATGACCCTAAGGCTT
195 CTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTT
61479 TGAAAACATC
Statistics
Matches: 240, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
253 149 0.62
254 91 0.38
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (254 bp):
AGGACTTACAGATGACCCGAAGACTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
TCATGCACTGCTGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
TCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTT
Found at i:61495 original size:329 final size:330
Alignment explanation
Indices: 60896--61554 Score: 1167
Period size: 329 Copynumber: 2.0 Consensus size: 330
60886 CATGCACTGC
* *
60896 AGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
1 AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
* *
60961 TCATGCACTGCAGGACTTACAGATGACCCTAAGACTTTGAAAACATCAAAAAGTTCCCGAAGGCT
66 TCATGCACTGCAGGACTTACAGATGACCCGAAGACTTTGAAAACATCAAAAAGCTCCCGAAGGCT
* *
61026 TTTTGGAAACATCATGCACTGCTGGACTTACAGATGACCCTAAGGCTTTGAAAACGTCAAAAAGC
131 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
*
61091 TCCCGAAGGCTTTTTGGAAACATTATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAA
196 TCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAA
*
61156 CATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAA
261 CATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCACGACTTACAGATGACCCTAA
61221 GGCTT
326 GGCTT
*
61226 AGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
1 AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
* * *
61291 TCATGCATTGTAGGACTTACAGATGACCCGAAG-GTTTGAAAACATCAAAAAGCTCCCGAAGGCT
66 TCATGCACTGCAGGACTTACAGATGACCCGAAGACTTTGAAAACATCAAAAAGCTCCCGAAGGCT
*
61355 TTTTGGAAACATCATGCACTGCAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
131 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
* *
61420 TCCCGAAGGCTTTTTGGAAACATCATGCATTGCAGGACTTATAGATGACCCTAAGGCTTTGAAAA
196 TCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAA
*
61485 CATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCACGACTTACAGATGACCCTAA
261 CATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCACGACTTACAGATGACCCTAA
61550 GGCTT
326 GGCTT
61555 TGAAAACATC
Statistics
Matches: 313, Mismatches: 16, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
329 221 0.71
330 92 0.29
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (330 bp):
AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
TCATGCACTGCAGGACTTACAGATGACCCGAAGACTTTGAAAACATCAAAAAGCTCCCGAAGGCT
TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
TCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAA
CATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCACGACTTACAGATGACCCTAA
GGCTT
Found at i:61571 original size:405 final size:405
Alignment explanation
Indices: 60820--61630 Score: 1462
Period size: 405 Copynumber: 2.0 Consensus size: 405
60810 TCATGCACTG
*
60820 TAGGACTTACAGATGACCCGAAGGTTTGAAAATATCAAAAAGCTCCCAAAGGCTTTTTGGAAACA
1 TAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACA
* *
60885 TCATGCACTGCAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
66 TCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
*
60950 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGACTTTGAAAACATCAAAAAGT
131 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGACTTTGAAAACATCAAAAAGC
*
61015 TCCCGAAGGCTTTTTGGAAACATCATGCACTGCTGGACTTACAGATGACCCTAAGGCTTTGAAAA
196 TCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAA
* * *
61080 CGTCAAAAAGCTCCCGAAGGCTTTTTGGAAACATTATGCACTGCAGGACTTACAGATGACCCTAA
261 CATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCACGACTTACAGATGACCCTAA
61145 GGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACA
326 GGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACA
61210 GATGACCCTAAGGCT
391 GATGACCCTAAGGCT
*
61225 TAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAC
1 TAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAAC
* *
61290 ATCATGCATTGTAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCGAAGGC
65 ATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
* *
61354 TTTTTGGAAACATCATGCACTGCAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAG
130 TTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGACTTTGAAAACATCAAAAAG
* *
61419 CTCCCGAAGGCTTTTTGGAAACATCATGCATTGCAGGACTTATAGATGACCCTAAGGCTTTGAAA
195 CTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAA
61484 ACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCACGACTTACAGATGACCCTA
260 ACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCACGACTTACAGATGACCCTA
*
61549 AGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTAC
325 AGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTAC
61614 AGATGACCCTAAGGCT
390 AGATGACCCTAAGGCT
61630 T
1 T
61631 TGAAAACATC
Statistics
Matches: 389, Mismatches: 16, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
405 320 0.82
406 69 0.18
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (405 bp):
TAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACA
TCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGACTTTGAAAACATCAAAAAGC
TCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAA
CATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCACGACTTACAGATGACCCTAA
GGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACA
GATGACCCTAAGGCT
Found at i:61670 original size:481 final size:482
Alignment explanation
Indices: 60748--61706 Score: 1785
Period size: 481 Copynumber: 2.0 Consensus size: 482
60738 CACTGAAGGG
60748 CTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCA
1 CTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCA
*
60813 TGCACTGTAGGACTTACAGATGACCCGAAGGTTTGAAAATATCAAAAAGCTCCCAAAGGCTTTTT
66 TGCACTGTAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTT
60878 GGAAACATCATGCACTGCAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCC
131 GGAAACATCATGCACTGCAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCC
60943 GAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGACTTTGAAAACATC
196 GAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGACTTTGAAAACATC
* **
61008 AAAAAGTTCCCGAAGGCTTTTTGGAAACATCATGCACTGCTGGACTTACAGATGACCCTAAGGCT
261 AAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCACGACTTACAGATGACCCTAAGGCT
* *
61073 TTGAAAACGTCAAAAAGCTCCCGAAGGCTTTTTGGAAACATTATGCACTGCAGGACTTACAGATG
326 TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATG
* *
61138 ACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGG
391 ACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTACAAG
61203 ACTTACAGATGACCCTAAGGCTTAGGA
456 ACTTACAGATGACCCTAAGGCTTAGGA
61230 CTTACAGATGACCCGAAGG-TTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCA
1 CTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCA
* *
61294 TGCATTGTAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTT
66 TGCACTGTAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTT
61359 GGAAACATCATGCACTGCAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCC
131 GGAAACATCATGCACTGCAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCC
* * *
61424 GAAGGCTTTTTGGAAACATCATGCATTGCAGGACTTATAGATGACCCTAAGGCTTTGAAAACATC
196 GAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGACTTTGAAAACATC
61489 AAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCACGACTTACAGATGACCCTAAGGCT
261 AAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCACGACTTACAGATGACCCTAAGGCT
61554 TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATG
326 TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATG
*
61619 ACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTACAAG
391 ACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTACAAG
61684 ACTTACAGATGACCCTAAGGCTT
456 ACTTACAGATGACCCTAAGGCTT
61707 TGAAAACATC
Statistics
Matches: 463, Mismatches: 14, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
481 444 0.96
482 19 0.04
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (482 bp):
CTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCA
TGCACTGTAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTT
GGAAACATCATGCACTGCAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCC
GAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGACTTTGAAAACATC
AAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCACGACTTACAGATGACCCTAAGGCT
TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATG
ACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTACAAG
ACTTACAGATGACCCTAAGGCTTAGGA
Found at i:62079 original size:455 final size:454
Alignment explanation
Indices: 61228--62369 Score: 2010
Period size: 455 Copynumber: 2.5 Consensus size: 454
61218 TAAGGCTTAG
*
61228 GACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATC
1 GACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATC
* * *
61293 ATGCATTGTAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTT
66 ATGCACTGCAGGACTTACAGATGACCCTAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGC-TTT
61358 TGGAAACATCATGCACTGCAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCC
130 TGGAAACATCATGCACTGCAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCC
* *
61423 CGAAGGCTTTTTGGAAACATCATGCATTGCAGGACTTATAGATGACCCTAAGGCTTTGAAAACAT
195 CGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACAT
*
61488 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCACGACTTACAGATGACCCTAAGGC
260 CAAAAAGCTCCCGAAGGCGTTTTGGAAACATCATGCACTGCACGACTTACAGATGACCCTAAGGC
*
61553 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
325 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGCAGGACTTACAGAT
61618 GACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTACAA
390 GACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTACAA
*
61683 GACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATC
1 GACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATC
*
61748 ATGCACTGCAGGACTTACAGATGACCCTAAGGTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTT
66 ATGCACTGCAGGACTTACAGATGACCCTAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTT
*
61813 AGGAAACATCATGCACTGCAGGACTTATAGATGACCCTAAGGCTTTAAAAACATCAAAAAGCTCC
131 -GGAAACATCATGCACTGCAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCC
61878 CGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACAT
195 CGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACAT
* * *
61943 CAAAAAGCTCCCGAAGGCGTTTTGGAAACGTCATGCACTGCAGGACTTACAGATGATCCTAAGGC
260 CAAAAAGCTCCCGAAGGCGTTTTGGAAACATCATGCACTGCACGACTTACAGATGACCCTAAGGC
62008 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGCAGGACTTACAGAT
325 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGCAGGACTTACAGAT
* *
62073 GACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAG
390 GACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTACAA
*
62138 GACTTACAGAGGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATC
1 GACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATC
62203 ATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTT
66 ATGCACTGCAGGACTTACAGATGACCCTAAGG-TTTGAAAACATCAAAAAGCTCCCGAAGGCTTT
* * *
62268 TGGAAACATCATGCA-T---TG---TACAGATGACCCTAAGGCTTTGAAAACATCAAAAACCTCC
130 TGGAAACATCATGCACTGCAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCC
* *
62326 TGAAGGCTTTTTGGAAACATCATGTACTGCAGGACTTACAGATG
195 CGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATG
62370 TGGGAAATAG
Statistics
Matches: 660, Mismatches: 25, Indels: 11
0.95 0.04 0.02
Matches are distributed among these distances:
448 79 0.12
451 1 0.00
454 5 0.01
455 543 0.82
456 32 0.05
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (454 bp):
GACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATC
ATGCACTGCAGGACTTACAGATGACCCTAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTT
GGAAACATCATGCACTGCAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCC
GAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATC
AAAAAGCTCCCGAAGGCGTTTTGGAAACATCATGCACTGCACGACTTACAGATGACCCTAAGGCT
TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGCAGGACTTACAGATG
ACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTACAA
Found at i:63244 original size:22 final size:22
Alignment explanation
Indices: 63216--63270 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
63206 CATAAAGCTT
63216 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
63238 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
63260 TCATCTTTGAA
1 TCATCTTTGAA
63271 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:63725 original size:54 final size:54
Alignment explanation
Indices: 63638--63793 Score: 231
Period size: 54 Copynumber: 2.9 Consensus size: 54
63628 AGAATAGCAG
* * *
63638 GTTCGTAAAACATTTGACAGCGCATTCATCCTTTCCTGTGGCTTCTGCTCAGAC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGAC
* * *
63692 GTTCATAAAACATTTGACAACACATTCATCCTTTTTTGTGGTTTCTGCTCAGAC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGAC
* * *
63746 GTTCGTAAAGCGTTTGACAACATATTCATCCTTTTCTGTGGCTTCTGC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGC
63794 CAAGATTTTT
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGAC
Done.