Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007283.1 Hibiscus syriacus cultivar Beakdansim tig00019322_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: 106758
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:710 original size:33 final size:32
Alignment explanation
Indices: 671--747 Score: 136
Period size: 32 Copynumber: 2.4 Consensus size: 32
661 ACTTATTTTG
671 TTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTC-GGTTTTTTTAAGTGTGATA
*
704 TTCGGGTCAGGTCGGTTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGTTTTTTTAAGTGTGATA
736 TTCGGGTCGGGT
1 TTCGGGTCGGGT
748 TCGGATTTAG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
32 30 0.71
33 12 0.29
ACGTcount: A:0.12, C:0.10, G:0.36, T:0.42
Consensus pattern (32 bp):
TTCGGGTCGGGTCGGTTTTTTTAAGTGTGATA
Found at i:972 original size:226 final size:229
Alignment explanation
Indices: 479--1021 Score: 671
Period size: 226 Copynumber: 2.3 Consensus size: 229
469 TTAATCAGGT
* * *
479 TTTTTTAAGTGTGATATCGGGTCGGGTCGGATTCGAATTTATGGTGAAAAAAACCGGACCGACCC
1 TTTTTTAAGTGTGATATCGGGTC--G--GG-TTCGGATTTAGGGTGGAAAAAACCGGACCGACCC
*
544 GAAAATAATATAATTCAGGTCGGGTCGGATTAAGTCACTGTTTTTTATTAAATAAAAATAATTTT
61 GAAAATAATATAATTCAGGTCGGGTCGGATTAAGTCA----TTTTTATTAAATAAAAATAATTTA
*
609 TATATTTCGGGTGGGTTGGATTCTAATTCTATATTCGGGTGGGTCGGATGAAACTTATTTTGTTC
122 TATATTTCGGGTCGGTT-G-TTCTAATTCTATATTCGGGTGGGTCGGATGAAACTTATTTTGTTC
* * *
674 GGGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCAGGTCGGT
185 GGGTCGGGTC-GATGTTTTTAAGTGTGATATTCGGGTCAGGTCGGG
*
720 TTTTTTAAGTGTGATATTCGGGTCGGGTTCGGATTTAGGGTGGGAAAAA-CGGACCGACCCGAAA
1 TTTTTTAAGTGTGATA-TCGGGTCGGGTTCGGATTTAGGGTGGAAAAAACCGGACCGACCCGAAA
*
784 AT-ATATATATTC-GGTTTGGGTCGGATTAAGTCA-TTTTATTAAATAAAAATAATTTAT-TATT
65 ATAATATA-ATTCAGG-TCGGGTCGGATTAAGTCATTTTTATTAAATAAAAATAATTTATATATT
*
845 TCGGGTCGG-T-TTCTAATTC-ATATATCGGGTCGGGTCGGATG-AAGTTATTTTGTTCGGGTCG
128 TCGGGTCGGTTGTTCTAATTCTATAT-TCGGGT-GGGTCGGATGAAACTTATTTTGTTCGGGTCG
906 GGTC-ATGTTTTTAAGTGTGATATT-GGGTCGAGTCGGGTCGGG
191 GGTCGATGTTTTTAAGTGTGATATTCGGGTC-A----GGTCGGG
*
948 TTTTTTAAGTGTGATATC-GGTCGGGTTCGGGTTTAGGGT-GAAAACAACCGGACCGACCCGAAA
1 TTTTTTAAGTGTGATATCGGGTCGGGTTCGGATTTAGGGTGGAAAA-AACCGGACCGACCCGAAA
*
1011 AAAATATAATT
65 ATAATATAATT
1022 TTCCTTATAT
Statistics
Matches: 275, Mismatches: 14, Indels: 40
0.84 0.04 0.12
Matches are distributed among these distances:
223 5 0.02
224 19 0.07
225 8 0.03
226 60 0.22
227 31 0.11
228 27 0.10
229 1 0.00
230 12 0.04
231 23 0.08
235 7 0.03
236 38 0.14
237 18 0.07
238 2 0.01
240 1 0.00
241 16 0.06
242 7 0.03
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.36
Consensus pattern (229 bp):
TTTTTTAAGTGTGATATCGGGTCGGGTTCGGATTTAGGGTGGAAAAAACCGGACCGACCCGAAAA
TAATATAATTCAGGTCGGGTCGGATTAAGTCATTTTTATTAAATAAAAATAATTTATATATTTCG
GGTCGGTTGTTCTAATTCTATATTCGGGTGGGTCGGATGAAACTTATTTTGTTCGGGTCGGGTCG
ATGTTTTTAAGTGTGATATTCGGGTCAGGTCGGG
Found at i:3165 original size:104 final size:103
Alignment explanation
Indices: 3035--3229 Score: 311
Period size: 105 Copynumber: 1.9 Consensus size: 103
3025 CAAAGTTTTC
* * *
3035 TGATTATATGAGTCGAATTCTAGGGATGGT-ACCACCGGATTTGTTTTCCCCCAAACACAAGTAA
1 TGATTATATGAGTCAAATTCTAGGGATGGTAACCACCGGATTTGTTTCCCCCCAAACACAAGAAA
*
3099 AAATTGCTTGACACCGGAATTGTAAAACAAATTTATTT
66 AAATTGCTTGACACAGGAATTGTAAAACAAATTTATTT
3137 TGATTATATTAGAGTCAAATTCTAGGGATGGTAACCACCGGATTTGTTTCCCCCCAAACACAAGA
1 TGATTATA-T-GAGTCAAATTCTAGGGATGGTAACCACCGGATTTGTTTCCCCCCAAACACAAGA
* *
3202 AAAAATTGCTTGCCACAGGATTTGTAAA
64 AAAAATTGCTTGACACAGGAATTGTAAA
3230 GTGGTTGCAG
Statistics
Matches: 84, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
102 8 0.10
103 1 0.01
104 20 0.24
105 55 0.65
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (103 bp):
TGATTATATGAGTCAAATTCTAGGGATGGTAACCACCGGATTTGTTTCCCCCCAAACACAAGAAA
AAATTGCTTGACACAGGAATTGTAAAACAAATTTATTT
Found at i:3735 original size:2 final size:2
Alignment explanation
Indices: 3728--3772 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
3718 AGTTGAAGAA
3728 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T 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
3769 AT AT
1 AT AT
3773 GCATGTATGT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:11911 original size:36 final size:36
Alignment explanation
Indices: 11871--11939 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
11861 TAAATTCTTT
*
11871 ATTCTTTCTTGTTGAAAGCTAAGTTGTTCTTGTGGA
1 ATTCTTTCTTCTTGAAAGCTAAGTTGTTCTTGTGGA
****
11907 ATTCTTTCTTCTTTCTTGCTAAGTTGTTCTTGT
1 ATTCTTTCTTCTTGAAAGCTAAGTTGTTCTTGT
11940 TGCTTTATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.14, C:0.14, G:0.17, T:0.54
Consensus pattern (36 bp):
ATTCTTTCTTCTTGAAAGCTAAGTTGTTCTTGTGGA
Found at i:19986 original size:14 final size:14
Alignment explanation
Indices: 19969--20044 Score: 55
Period size: 14 Copynumber: 5.5 Consensus size: 14
19959 GTATTAAACA
*
19969 TTAAAATTTATAAT
1 TTAAAATTTACAAT
* *
19983 TTAAGATTTATAAT
1 TTAAAATTTACAAT
* **
19997 TT-AGATTTACAGG
1 TTAAAATTTACAAT
* * *
20010 TAAAAATTAAAAAT
1 TTAAAATTTACAAT
*
20024 TTAAAGTTTACAAT
1 TTAAAATTTACAAT
20038 TTAAAAT
1 TTAAAAT
20045 ACAGGATAAT
Statistics
Matches: 46, Mismatches: 15, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
13 9 0.20
14 37 0.80
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.42
Consensus pattern (14 bp):
TTAAAATTTACAAT
Found at i:20004 original size:13 final size:14
Alignment explanation
Indices: 19969--20005 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
19959 GTATTAAACA
*
19969 TTAAAATTTATAAT
1 TTAAGATTTATAAT
19983 TTAAGATTTATAAT
1 TTAAGATTTATAAT
19997 TT-AGATTTA
1 TTAAGATTTA
20006 CAGGTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (14 bp):
TTAAGATTTATAAT
Found at i:20287 original size:26 final size:26
Alignment explanation
Indices: 20258--20311 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
20248 TTATTTTTCG
* *
20258 TCACTTAAAATTTTACAAGTTCGCTC
1 TCACTTAAAAATTCACAAGTTCGCTC
* *
20284 TCACTTAAAAATTCATAAGTTTGCTC
1 TCACTTAAAAATTCACAAGTTCGCTC
20310 TC
1 TC
20312 TAACATGGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.39
Consensus pattern (26 bp):
TCACTTAAAAATTCACAAGTTCGCTC
Found at i:21049 original size:13 final size:13
Alignment explanation
Indices: 21031--21061 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
21021 TGTCATATTT
21031 ATATTTAAAAAAA
1 ATATTTAAAAAAA
*
21044 ATATTTTAAAAAA
1 ATATTTAAAAAAA
21057 ATATT
1 ATATT
21062 ATTTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATATTTAAAAAAA
Found at i:22924 original size:2 final size:2
Alignment explanation
Indices: 22917--22943 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22907 ATCAATAATT
22917 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 T
22944 GTTGAGGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23848 original size:6 final size:6
Alignment explanation
Indices: 23837--23890 Score: 51
Period size: 6 Copynumber: 9.5 Consensus size: 6
23827 AATCAAACAC
* * *
23837 ATACAT ATACAT ATACAT ATAC-- ACACAT ATA-AT ATATAT ATATAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
*
23882 ATATAT ATA
1 ATACAT ATA
23891 TAGTACTTCC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
4 3 0.07
5 5 0.12
6 35 0.81
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (6 bp):
ATACAT
Found at i:23873 original size:2 final size:2
Alignment explanation
Indices: 23863--23892 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
23853 ATATACACAC
23863 AT AT A- 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 A
23893 GTACTTCCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:27162 original size:57 final size:57
Alignment explanation
Indices: 27098--27207 Score: 193
Period size: 57 Copynumber: 1.9 Consensus size: 57
27088 ATATTATTTA
* *
27098 AAGTTATTTATTGAGGTGGCTTGTAAGATATAATATCATATCAATACGAAGTAAATT
1 AAGTTATTTATTGAGGTGACATGTAAGATATAATATCATATCAATACGAAGTAAATT
*
27155 AAGTTATTTATTGAGGTGACATGTAAGATATAATATCATATCAATATGAAGTA
1 AAGTTATTTATTGAGGTGACATGTAAGATATAATATCATATCAATACGAAGTA
27208 CATGTAGACT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.36
Consensus pattern (57 bp):
AAGTTATTTATTGAGGTGACATGTAAGATATAATATCATATCAATACGAAGTAAATT
Found at i:27809 original size:23 final size:24
Alignment explanation
Indices: 27783--27830 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
27773 TCGGTGCATG
*
27783 TGATTTGCGCC-AATTTTCAACAA
1 TGATTTGCACCGAATTTTCAACAA
27806 TGATTTGCACCGAATTTTCAACAA
1 TGATTTGCACCGAATTTTCAACAA
27830 T
1 T
27831 CTCTCACTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.35
Consensus pattern (24 bp):
TGATTTGCACCGAATTTTCAACAA
Found at i:38697 original size:43 final size:43
Alignment explanation
Indices: 38650--38740 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
38640 TAAAATTAAT
* * * * *
38650 TTTAATTTTTA-TTAATTAAAACTCTTTTTAAATTAAATAATAA
1 TTTAATTATTATTTAATTAAAACAC-TTTAAAAATAAATAAAAA
*
38693 TTTAATTATTATTTATTTAAAACACTTTAAAAATAAATAAAAA
1 TTTAATTATTATTTAATTAAAACACTTTAAAAATAAATAAAAA
38736 TTTAA
1 TTTAA
38741 AATAGATTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 30 0.73
44 11 0.27
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.47
Consensus pattern (43 bp):
TTTAATTATTATTTAATTAAAACACTTTAAAAATAAATAAAAA
Found at i:40446 original size:22 final size:23
Alignment explanation
Indices: 40418--40466 Score: 91
Period size: 22 Copynumber: 2.2 Consensus size: 23
40408 ATGAATTTAG
40418 GGTGTTTGTTCGAAAAATCGAA-
1 GGTGTTTGTTCGAAAAATCGAAC
40440 GGTGTTTGTTCGAAAAATCGAAC
1 GGTGTTTGTTCGAAAAATCGAAC
40463 GGTG
1 GGTG
40467 AAAAGCGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.31
Consensus pattern (23 bp):
GGTGTTTGTTCGAAAAATCGAAC
Found at i:43643 original size:11 final size:11
Alignment explanation
Indices: 43627--43665 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
43617 ATTAAACAAA
43627 TTATTTGAAAT
1 TTATTTGAAAT
43638 TTATTTGAAAAT
1 TTATTTG-AAAT
*
43650 TTATTTGAAAA
1 TTATTTGAAAT
43661 TTATT
1 TTATT
43666 AACCGGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (11 bp):
TTATTTGAAAT
Found at i:43651 original size:12 final size:12
Alignment explanation
Indices: 43627--43662 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
43617 ATTAAACAAA
43627 TTATTTG-AAAT
1 TTATTTGAAAAT
43638 TTATTTGAAAAT
1 TTATTTGAAAAT
43650 TTATTTGAAAAT
1 TTATTTGAAAAT
43662 T
1 T
43663 ATTAACCGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.29
12 17 0.71
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (12 bp):
TTATTTGAAAAT
Found at i:43919 original size:81 final size:76
Alignment explanation
Indices: 43823--44048 Score: 313
Period size: 81 Copynumber: 3.0 Consensus size: 76
43813 TAACCGAATA
* *
43823 AAATAAATTTGGGTTCGATTAACGGTCAAATAATTTTAGTTCGATTAATGGTTAAAGAAAAAAAT
1 AAATAAATTTCGGTTCGATTAACGGTCAAATAATTTTGGTTCGATTAATGGTTAAAGAAAAAAAT
43888 TCGGTTAATAATTTT
66 TCGG-T--TAA-TTT
*
43903 CAAATAAATTTCGGTTCAATTAACGGTCAAATAATTTTGGTTCGATTAATGGTTAAAGAAAAAAA
1 -AAATAAATTTCGGTTCGATTAACGGTCAAATAATTTTGGTTCGATTAATGGTTAAAGAAAAAAA
43968 TTCGG-----TT
65 TTCGGTTAATTT
* *
43975 -AATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAAT-GTTAAAGAAAAAAAA
1 AAATAAATTTCGGTTCGATTAACGGTCAAATAATTTTGGTTCGATTAATGGTTAAAGAAAAAAAT
44038 TCGGTTAATTT
66 TCGGTTAATTT
44049 GGTTCGATTG
Statistics
Matches: 134, Mismatches: 6, Indels: 17
0.85 0.04 0.11
Matches are distributed among these distances:
69 18 0.13
70 46 0.34
72 2 0.01
74 2 0.01
81 66 0.49
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.36
Consensus pattern (76 bp):
AAATAAATTTCGGTTCGATTAACGGTCAAATAATTTTGGTTCGATTAATGGTTAAAGAAAAAAAT
TCGGTTAATTT
Found at i:44018 original size:70 final size:69
Alignment explanation
Indices: 43905--44046 Score: 248
Period size: 70 Copynumber: 2.0 Consensus size: 69
43895 ATAATTTTCA
* *
43905 AATAAATTTCGGTTCAATTAACGGTCAAATAATTTTGGTTCGATTAATGGTTAAAGAAAAAAATT
1 AATAAATTTCGGTTCAATTAACGGTCAAATAATTTCGGTTCGATTAAT-GTTAAAGAAAAAAAAT
43970 CGGTT
65 CGGTT
*
43975 AATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGTTAAAGAAAAAAAATC
1 AATAAATTTCGGTTCAATTAACGGTCAAATAATTTCGGTTCGATTAATGTTAAAGAAAAAAAATC
44040 GGTT
66 GGTT
44044 AAT
1 AAT
44047 TTGGTTCGAT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
69 23 0.33
70 46 0.67
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (69 bp):
AATAAATTTCGGTTCAATTAACGGTCAAATAATTTCGGTTCGATTAATGTTAAAGAAAAAAAATC
GGTT
Found at i:45380 original size:35 final size:34
Alignment explanation
Indices: 45334--45446 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 34
45324 AAAACAATCC
* *
45334 TCAATTTCATTCTAAACCACAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACC-CAAATTCTAAAATAAT
45369 TCAATTTCATTCTAAACCCTAAATTCTAAAATAAT
1 TCAATTTCATTCTAAACCC-AAATTCTAAAATAAT
* *
45404 TCAATTACATTCTAAAACCCAAATTCTAAAATACT
1 TCAATTTCATTCT-AAACCCAAATTCTAAAATAAT
45439 TCAATTTC
1 TCAATTTC
45447 TGTCTTTTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
34 1 0.01
35 64 0.90
36 6 0.08
ACGTcount: A:0.42, C:0.22, G:0.01, T:0.35
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCAAATTCTAAAATAAT
Found at i:46530 original size:35 final size:33
Alignment explanation
Indices: 46489--46601 Score: 127
Period size: 35 Copynumber: 3.2 Consensus size: 33
46479 TATTCCTCCT
* **
46489 TAAATTGAAATATTTTAAAATTTGGGTTTTAGAA
1 TAAATTGAATTATTTTGGAATTTGGG-TTTAGAA
*
46523 TATAATTGAATTATTTTGGAATTTAGGGTTTAAAA
1 TA-AATTGAATTATTTTGGAATTT-GGGTTTAGAA
*
46558 TAAAATTGAATTACTTTGGAATTTGGGGTTTAGAA
1 T-AAATTGAATTATTTTGGAATTT-GGGTTTAGAA
46593 TGAAATTGA
1 T-AAATTGA
46602 GAAATGTTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
34 2 0.03
35 62 0.91
36 4 0.06
ACGTcount: A:0.38, C:0.01, G:0.19, T:0.42
Consensus pattern (33 bp):
TAAATTGAATTATTTTGGAATTTGGGTTTAGAA
Found at i:49719 original size:2 final size:2
Alignment explanation
Indices: 49712--49754 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
49702 GGCTTCGAAT
*
49712 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
49754 T
1 T
49755 TAAGTAATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:56593 original size:16 final size:17
Alignment explanation
Indices: 56572--56606 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
56562 TACTATACAC
56572 GTGAATAGT-AAATTTT
1 GTGAATAGTCAAATTTT
56588 GTGAATAGTCAAATTTT
1 GTGAATAGTCAAATTTT
56605 GT
1 GT
56607 CGGCAATACG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.43
Consensus pattern (17 bp):
GTGAATAGTCAAATTTT
Found at i:61911 original size:30 final size:30
Alignment explanation
Indices: 61877--61991 Score: 212
Period size: 30 Copynumber: 3.8 Consensus size: 30
61867 TTTTACCAAT
61877 ATAGTCGTGCAATTTGATCAATTTTCTATA
1 ATAGTCGTGCAATTTGATCAATTTTCTATA
61907 ATAGTCGTGCAATTTGATCAATTTTCTATA
1 ATAGTCGTGCAATTTGATCAATTTTCTATA
*
61937 ATAGTCGTGCAATTTGATCATTTTTCTATA
1 ATAGTCGTGCAATTTGATCAATTTTCTATA
*
61967 ATAGTCGTGCAATTTGATCATTTTT
1 ATAGTCGTGCAATTTGATCAATTTT
61992 TTAAGACGGA
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
30 84 1.00
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (30 bp):
ATAGTCGTGCAATTTGATCAATTTTCTATA
Found at i:62487 original size:10 final size:10
Alignment explanation
Indices: 62472--62526 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 10
62462 TATATCATAA
62472 ATTATAAAAT
1 ATTATAAAAT
62482 ATTATAAGAAT
1 ATTATAA-AAT
* *
62493 ATATTTATAAT
1 AT-TATAAAAT
62504 ATTATAAAAT
1 ATTATAAAAT
*
62514 ATTTTAAGAAT
1 ATTATAA-AAT
62525 AT
1 AT
62527 ATTTATAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
10 19 0.51
11 15 0.41
12 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (10 bp):
ATTATAAAAT
Found at i:62504 original size:22 final size:20
Alignment explanation
Indices: 62479--62519 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
62469 TAAATTATAA
62479 AATATTATAAGAATATATTTAT
1 AATATTATAA-AATAT-TTTAT
62501 AATATTATAAAATATTTTA
1 AATATTATAAAATATTTTA
62520 AGAATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 5 0.26
22 10 0.53
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
AATATTATAAAATATTTTAT
Found at i:62511 original size:32 final size:32
Alignment explanation
Indices: 62468--62550 Score: 125
Period size: 32 Copynumber: 2.7 Consensus size: 32
62458 TAGTTATATC
62468 ATAA-ATTATAAAATATTATAAGAATATATTT
1 ATAATATTATAAAATATTATAAGAATATATTT
*
62499 ATAATATTATAAAATATTTTAAGAATATATTT
1 ATAATATTATAAAATATTATAAGAATATATTT
* *
62531 ATAATATAAT-TAATATTATA
1 ATAATATTATAAAATATTATA
62551 GATTGTTATA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
31 12 0.26
32 35 0.74
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (32 bp):
ATAATATTATAAAATATTATAAGAATATATTT
Found at i:62563 original size:41 final size:42
Alignment explanation
Indices: 62500--62587 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 42
62490 AATATATTTA
* ** *
62500 TAATATTATAAAATATTTTAAGAATATATTTATAATA-TAAT
1 TAATATTATAAAATATTATAAGAATATATAGATAACATTAAT
* * *
62541 TAATATTATAGATTGTTATAAGAATATATAGATAACATTAAT
1 TAATATTATAAAATATTATAAGAATATATAGATAACATTAAT
62583 TAATA
1 TAATA
62588 AAATTTTCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 30 0.77
42 9 0.23
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (42 bp):
TAATATTATAAAATATTATAAGAATATATAGATAACATTAAT
Found at i:67690 original size:20 final size:20
Alignment explanation
Indices: 67667--67718 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
67657 AACGCGATCC
67667 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
67687 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
67707 CCAAAATCGCAA
1 CCAGAATCGCAA
67719 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:67816 original size:20 final size:20
Alignment explanation
Indices: 67793--67966 Score: 217
Period size: 20 Copynumber: 8.7 Consensus size: 20
67783 GCGAATATTA
* *
67793 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
67813 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
67833 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
67853 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
67873 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
67893 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
67913 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
67933 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
67954 AAATCGCAACGCG
1 AAATCGCAACGCG
67967 ATATTTAAAG
Statistics
Matches: 132, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
19 1 0.01
20 113 0.86
21 17 0.13
22 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:68387 original size:33 final size:33
Alignment explanation
Indices: 68348--68418 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
68338 TTCACTTAGA
*
68348 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
68381 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
68414 TTTCA
1 TTTCA
68419 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:68558 original size:14 final size:14
Alignment explanation
Indices: 68539--68593 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
68529 AGAATGATTG
68539 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
68553 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
68572 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
68586 TCGCAACG
1 TCGCAACG
68594 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:68606 original size:33 final size:33
Alignment explanation
Indices: 68539--68609 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
68529 AGAATGATTG
***
68539 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
68572 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
68605 TCGCA
1 TCGCA
68610 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:68627 original size:19 final size:19
Alignment explanation
Indices: 68605--68702 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
68595 GAAACCAAAA
*
68605 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
68624 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
68638 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
68657 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
68671 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
68690 TCGCGTTGCGATT
1 TCGCGTTGCGATT
68703 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:68646 original size:14 final size:14
Alignment explanation
Indices: 68627--68716 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
68617 TTTCATTTCG
68627 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
68641 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
68660 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
68674 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
68691 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
68707 CGTTGCGATT
1 CGTTGCGATT
68717 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:68652 original size:33 final size:33
Alignment explanation
Indices: 68610--68724 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
68600 CAAAATCGCA
68610 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
68643 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
68676 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
68709 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
68725 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:71002 original size:93 final size:93
Alignment explanation
Indices: 70420--71153 Score: 1326
Period size: 93 Copynumber: 8.1 Consensus size: 93
70410 TAGATTGCTT
70420 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
70485 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
70513 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACATTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
70577 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
70605 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
70669 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
70697 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTG-------TAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
70755 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
70783 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AA-A-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
70845 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
70873 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
70938 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
70966 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTG-------TAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
71024 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
71052 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
71117 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
71145 AGTAAATTT
1 AGTAAATTT
71154 ATCCATTCAA
Statistics
Matches: 620, Mismatches: 2, Indels: 38
0.94 0.00 0.06
Matches are distributed among these distances:
85 10 0.02
86 161 0.26
90 87 0.14
91 7 0.01
92 159 0.26
93 196 0.32
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:71038 original size:269 final size:270
Alignment explanation
Indices: 70420--71153 Score: 1364
Period size: 269 Copynumber: 2.7 Consensus size: 270
70410 TAGATTGCTT
70420 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTG-------TAACACTGTGAAATAGTA
70485 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
59 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
*
70550 GTGTATTCTTTAACATTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTG
124 GTGTATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTG
70615 TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAATAGTATTTGTCTTTGT
189 TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAATAGTATTTGTCTTTGT
70680 TTTGTCTTTTGGTTGAA
254 TTTGTCTTTTGGTTGAA
70697 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTAACACTGTGAAATAGTATTTGTCT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTAACACTGTGAAATAGTATTTGTCT
70762 TTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATT
66 TTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATT
70827 CTTTAACACTGTG-AA-ATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTT
131 CTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTT
70890 GCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTC
196 GCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AATAGTATTTGTCTTTGTTTTGTC
70955 TTTTGGTTGAA
260 TTTTGGTTGAA
70966 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTAACACTGTGAAATAGTATTTGTCT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTAACACTGTGAAATAGTATTTGTCT
71031 TTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATT
66 TTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATT
71096 CTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
131 CTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
71154 ATCCATTCAA
Statistics
Matches: 452, Mismatches: 1, Indels: 13
0.97 0.00 0.03
Matches are distributed among these distances:
268 88 0.19
269 180 0.40
270 104 0.23
271 1 0.00
272 39 0.09
277 40 0.09
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (270 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTAACACTGTGAAATAGTATTTGTCT
TTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATT
CTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTT
GCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAATAGTATTTGTCTTTGTTTTGTCT
TTTGGTTGAA
Found at i:71237 original size:19 final size:19
Alignment explanation
Indices: 71197--71325 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
71187 TAGTTTACTT
* *
71197 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
71217 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
71236 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
71255 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
71269 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
71288 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
71302 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
71321 TCGCA
1 TCGCA
71326 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:71276 original size:33 final size:32
Alignment explanation
Indices: 71233--71325 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
71223 CGCGAAACCA
**
71233 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
71265 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
71298 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
71326 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:71323 original size:52 final size:52
Alignment explanation
Indices: 71197--71325 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
71187 TAGTTTACTT
**
71197 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
71249 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
71302 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
71326 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:71343 original size:19 final size:19
Alignment explanation
Indices: 71321--71441 Score: 135
Period size: 19 Copynumber: 6.6 Consensus size: 19
71311 GAAACCAAAA
*
71321 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
71340 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
71359 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
71375 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
71392 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
71411 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
71431 TCGTGTTGCGA
1 TCGCGTTGCGA
71442 AAGTAAACTA
Statistics
Matches: 86, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
14 7 0.08
16 5 0.06
17 5 0.06
19 57 0.66
20 12 0.14
ACGTcount: A:0.12, C:0.19, G:0.24, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:73366 original size:14 final size:14
Alignment explanation
Indices: 73347--73382 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
73337 ATTGTTTAAT
73347 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
73361 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
73375 TGATTTGT
1 TGATTTGT
73383 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:73505 original size:19 final size:19
Alignment explanation
Indices: 73489--73590 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
73479 AAAAATGACT
73489 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
73508 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
73527 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
73541 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
73560 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
73580 ATCGCAATGCG
1 ATCGCAATGCG
73591 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:73643 original size:19 final size:19
Alignment explanation
Indices: 73619--73892 Score: 345
Period size: 19 Copynumber: 15.4 Consensus size: 19
73609 GATTATCTCG
73619 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
73638 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
73657 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
73671 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
73690 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
73709 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
73728 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
73747 TTGCGA--TT-ATGTCG-G
1 TTGCGATTTTCATTTCGCA
73762 TT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
73780 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
73799 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
73813 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
73832 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
73851 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
73865 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
73885 TTGCGATT
1 TTGCGATT
73893 GTTGGGATTT
Statistics
Matches: 223, Mismatches: 11, Indels: 41
0.81 0.04 0.15
Matches are distributed among these distances:
14 21 0.09
15 2 0.01
16 29 0.13
17 27 0.12
18 4 0.02
19 132 0.59
20 8 0.04
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:73694 original size:71 final size:71
Alignment explanation
Indices: 73619--73858 Score: 355
Period size: 71 Copynumber: 3.4 Consensus size: 71
73609 GATTATCTCG
73619 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
73684 TTCGCA
66 TTCGCA
* *
73690 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG--TTGCGATT
* *
73753 TT-ATGTCG-G
61 TTCATTTCGCA
*
73762 TT-CGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
73826 TTCGCA
66 TTCGCA
73832 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
73859 CTCTCGTTGC
Statistics
Matches: 150, Mismatches: 9, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
66 6 0.04
68 6 0.04
69 7 0.05
70 2 0.01
71 107 0.71
72 2 0.01
73 7 0.05
74 7 0.05
76 6 0.04
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
TTCGCA
Found at i:73778 original size:142 final size:137
Alignment explanation
Indices: 73587--73920 Score: 493
Period size: 142 Copynumber: 2.4 Consensus size: 137
73577 AAAATCGCAA
*
73587 TGCG-TTTATAATTTCGCATTGCGATTATCTC-GTTGCGATTTTCATTTCGCATTGCGATTTTCA
1 TGCGATTT-TAATTTCGCATTGCGATTATGTCGGTT-CGATTTTCATTTCGCATTGCGATTTTCA
*
73650 TTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA
64 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA
*
73715 TTTTCATTTCGTAT
129 --TTC-TCTCG--T
73729 TGCGATTTTAATTTCGCATTGCGATTATGTCGGTTCGATTTTCATTTCGCATTGCGATTTTCATT
1 TGCGATTTTAATTTCGCATTGCGATTATGTCGGTTCGATTTTCATTTCGCATTGCGATTTTCATT
73794 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
66 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
73859 CTCTCGT
131 CTCTCGT
* * *
73866 TGCGATTTTCATTTCCGCATTGCGA-T-TGTTGG---GATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTAATTT-CGCATTGCGATTATGTCGGTTCGATTTTCATTTCGCATTGCGATT
73921 GTATTTTCCG
Statistics
Matches: 183, Mismatches: 6, Indels: 15
0.90 0.03 0.07
Matches are distributed among these distances:
133 22 0.12
136 5 0.03
137 15 0.08
138 10 0.05
139 4 0.02
140 3 0.02
142 118 0.64
143 6 0.03
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.47
Consensus pattern (137 bp):
TGCGATTTTAATTTCGCATTGCGATTATGTCGGTTCGATTTTCATTTCGCATTGCGATTTTCATT
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
CTCTCGT
Found at i:73864 original size:52 final size:52
Alignment explanation
Indices: 73619--73892 Score: 344
Period size: 52 Copynumber: 5.2 Consensus size: 52
73609 GATTATCTCG
*
73619 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* *
73671 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* * *
73728 TTGCGATTTTAATTTCGCATTGCGATTATGTCGGTT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTC-GTTGCGATTTTCATTTCGCA
73780 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
73832 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCA
73885 TTGCGATT
1 TTGCGATT
73893 GTTGGGATTT
Statistics
Matches: 207, Mismatches: 7, Indels: 15
0.90 0.03 0.07
Matches are distributed among these distances:
51 3 0.01
52 152 0.73
53 14 0.07
54 6 0.03
55 8 0.04
57 24 0.12
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:76459 original size:24 final size:24
Alignment explanation
Indices: 76425--76471 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
76415 CTGAAACATC
76425 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
76449 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
76472 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:77173 original size:20 final size:20
Alignment explanation
Indices: 77145--77513 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
77135 AAATTTCAGT
* * * *
77145 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
77165 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
77185 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
77205 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
77225 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
77245 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
77265 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
77285 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
77305 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
77325 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
77345 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
77365 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
77385 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
77405 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
77425 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
77445 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
77465 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
77485 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
77505 GTTGCGATT
1 GTTGCGATT
77514 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:78009 original size:18 final size:17
Alignment explanation
Indices: 77976--78009 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
77966 ACTTTAAAAA
*
77976 AATTAATGTGACCTTTT
1 AATTAATGTAACCTTTT
77993 AATTAATGTAAACCTTT
1 AATTAATGT-AACCTTT
78010 GTTAATTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (17 bp):
AATTAATGTAACCTTTT
Found at i:85182 original size:35 final size:35
Alignment explanation
Indices: 85131--85226 Score: 129
Period size: 35 Copynumber: 2.7 Consensus size: 35
85121 AACACATTCA
* *
85131 TCAATTATATTATAAACCCCAAATTCCAAAATACT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATACT
**
85166 TCAATTACATTCTAAACCTTAAATTCCAAAATACT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATACT
* **
85201 TCAATTACATGCCCAACCCCAAATTC
1 TCAATTACATTCTAAACCCCAAATTC
85227 ATTATCCATT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.42, C:0.27, G:0.01, T:0.30
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAATTCCAAAATACT
Found at i:85657 original size:148 final size:148
Alignment explanation
Indices: 85384--85673 Score: 465
Period size: 148 Copynumber: 2.0 Consensus size: 148
85374 TACTCAATTT
* * * *
85384 AGTTTATAAAATAGTTTACTCGAAATTTTTTCTATTTGAGTTTATAAAATTTAAATAAAGTCGAA
1 AGTTTATAAAAAAGTTGACTCGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATAAAGTCAAA
* * *
85449 TTGAATTGAATTTTCGAGTTTAAGTTTAAATTTAATTATAAATATTTATCATATTTTAATATTAT
66 TTGAATTGAATTTTCGAGTTTAAGTTTAAATTTAATTATAAATATTTATAATACTATAATATTAT
85514 TTGATTCTAATTCAGTTC
131 TTGATTCTAATTCAGTTC
* *
85532 AGTTTATAAAAAAGTTGACTCGAATTTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTCAAA
1 AGTTTATAAAAAAGTTGACTCGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATAAAGTCAAA
**
85597 TTGAATTGAAATTTT-GAGTTTCTGTTTAAATTTAATTATAAATATTTATAATACTATAATATTA
66 TTGAATTG-AATTTTCGAGTTTAAGTTTAAATTTAATTATAAATATTTATAATACTATAATATTA
85661 TTTGATTCTAATT
130 TTTGATTCTAATT
85674 TAAATAGTTT
Statistics
Matches: 130, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
148 124 0.95
149 6 0.05
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (148 bp):
AGTTTATAAAAAAGTTGACTCGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATAAAGTCAAA
TTGAATTGAATTTTCGAGTTTAAGTTTAAATTTAATTATAAATATTTATAATACTATAATATTAT
TTGATTCTAATTCAGTTC
Found at i:88044 original size:23 final size:21
Alignment explanation
Indices: 87988--88046 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 21
87978 AGAATCTTTA
*
87988 TTGTGACATGTTTTTTTCTATTT
1 TTGTGACATG--TTTTTCTATTC
* *
88011 TTATGATATGTTTTTCTATGCTC
1 TTGTGACATGTTTTTCTAT--TC
88034 TTGTGACATGTTT
1 TTGTGACATGTTT
88047 GTTATGACAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 9 0.31
23 20 0.69
ACGTcount: A:0.15, C:0.10, G:0.15, T:0.59
Consensus pattern (21 bp):
TTGTGACATGTTTTTCTATTC
Found at i:92049 original size:20 final size:20
Alignment explanation
Indices: 92024--92066 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
92014 GAAAGTTAAC
92024 AAATTATTTTCAGAAAAA-TA
1 AAATTATTTTCA-AAAAAGTA
*
92044 AAATTATTTTTAAAAAAGTA
1 AAATTATTTTCAAAAAAGTA
92064 AAA
1 AAA
92067 GCTTTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (20 bp):
AAATTATTTTCAAAAAAGTA
Found at i:92430 original size:62 final size:62
Alignment explanation
Indices: 92333--92459 Score: 173
Period size: 62 Copynumber: 2.0 Consensus size: 62
92323 CGATTACGAT
* * * * *
92333 TATAAGGCGTTGCTTTGTGGAGTCATCTTATTATAGGGTGTTGCTTTGTTGAGTCATCTGAC
1 TATAAGGCGTTGCTTTGTGGAGTCACCTAACTATAGGGCGTTGCTTTATTGAGTCATCTGAC
* * * *
92395 TATAAGGTGTTGCTTTGTTGAGTCCCCTAACTATAGGGCGTTGTTTTATTGAGTCATCTGAC
1 TATAAGGCGTTGCTTTGTGGAGTCACCTAACTATAGGGCGTTGCTTTATTGAGTCATCTGAC
92457 TAT
1 TAT
92460 TGAAAGTTAC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.19, C:0.14, G:0.25, T:0.42
Consensus pattern (62 bp):
TATAAGGCGTTGCTTTGTGGAGTCACCTAACTATAGGGCGTTGCTTTATTGAGTCATCTGAC
Found at i:92459 original size:31 final size:31
Alignment explanation
Indices: 92333--92459 Score: 146
Period size: 31 Copynumber: 4.1 Consensus size: 31
92323 CGATTACGAT
* * *
92333 TATAAGGCGTTGCTTTGTGGAGTCATCTTAT
1 TATAAGGCGTTGCTTTGTTGAGTCATCTGAC
* *
92364 TATAGGGTGTTGCTTTGTTGAGTCATCTGAC
1 TATAAGGCGTTGCTTTGTTGAGTCATCTGAC
* ** *
92395 TATAAGGTGTTGCTTTGTTGAGTCCCCTAAC
1 TATAAGGCGTTGCTTTGTTGAGTCATCTGAC
* * *
92426 TATAGGGCGTTGTTTTATTGAGTCATCTGAC
1 TATAAGGCGTTGCTTTGTTGAGTCATCTGAC
92457 TAT
1 TAT
92460 TGAAAGTTAC
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 80 1.00
ACGTcount: A:0.19, C:0.14, G:0.25, T:0.42
Consensus pattern (31 bp):
TATAAGGCGTTGCTTTGTTGAGTCATCTGAC
Found at i:102140 original size:15 final size:14
Alignment explanation
Indices: 102120--102152 Score: 57
Period size: 14 Copynumber: 2.3 Consensus size: 14
102110 TTAATAAAAT
102120 AAAAATAATTTTTAA
1 AAAAATAA-TTTTAA
102135 AAAAATAATTTTAA
1 AAAAATAATTTTAA
102149 AAAA
1 AAAA
102153 TTGCTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAAATAATTTTAA
Found at i:103145 original size:3 final size:3
Alignment explanation
Indices: 103137--103166 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
103127 CTATCATTAA
*
103137 TTG TTG TTG TTG TTC TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
103167 AAGAAGAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.03, G:0.30, T:0.67
Consensus pattern (3 bp):
TTG
Done.