Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008759.1 Hibiscus syriacus cultivar Beakdansim tig00111851_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: 899239
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:1248 original size:134 final size:128
Alignment explanation
Indices: 1010--1251 Score: 281
Period size: 134 Copynumber: 1.8 Consensus size: 128
1000 ATGTTTATGC
* * * * * *
1010 TTTAAAATAAGGGTTGAATTTATAGGTTTATAAAGGGAAAGGGTTAATTTTTGAATTAAAATTAG
1 TTTAAAATAAGGGTTGAATTAATAGATTTATAAACGAAAAGGATTAATTTTTGAATTAAAATTAA
* * * *
1075 GATCAAATTGAAAGAATATGTACATGTTAAAGATTAAATGTATAACAGATGTTTTATGTTTTT
66 GATCAAATTAAAAAAATATGTACATATTAAAGATGAAATGTATAACAGATGTTTTATGTTTTT
*
1138 TTTAAAATGAGGGTTGAATTAATAGATTGTATAAACGAAAAGGATTAATTTATTGAATTATATAA
1 TTTAAAATAAGGGTTGAATTAATAGATT-TATAAACGAAAAGGATTAATTT-TTG-A--AT-TAA
* *
1203 AATTAAGATCAAATTAAAAAAATA-G-ACCCGTATTAGAGATGAAATGTAT
60 AATTAAGATCAAATTAAAAAAATATGTA--CATATTAAAGATGAAATGTAT
1252 TATTATCCTA
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
128 25 0.27
129 19 0.20
130 3 0.03
131 1 0.01
132 1 0.01
133 3 0.03
134 41 0.44
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.36
Consensus pattern (128 bp):
TTTAAAATAAGGGTTGAATTAATAGATTTATAAACGAAAAGGATTAATTTTTGAATTAAAATTAA
GATCAAATTAAAAAAATATGTACATATTAAAGATGAAATGTATAACAGATGTTTTATGTTTTT
Found at i:18422 original size:18 final size:18
Alignment explanation
Indices: 18399--18436 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
18389 TATTTGATGC
18399 AGAAAGCTCGGTGGTTGT
1 AGAAAGCTCGGTGGTTGT
18417 AGAAAGCTCGGTGGTTGT
1 AGAAAGCTCGGTGGTTGT
18435 AG
1 AG
18437 TTGTTATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.11, G:0.39, T:0.26
Consensus pattern (18 bp):
AGAAAGCTCGGTGGTTGT
Found at i:25061 original size:23 final size:23
Alignment explanation
Indices: 24999--25063 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
24989 AAAAAACCGA
*
24999 AAAC-TGCCA-AAAGACAGAGAT
1 AAACATGCCACAAAGACATAGAT
** *
25020 AAATGTGCCACAAAAACATAGAT
1 AAACATGCCACAAAGACATAGAT
* *
25043 AAACATGTCATAAAGACATAG
1 AAACATGCCACAAAGACATAG
25064 TTAATCATAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 3 0.09
22 5 0.15
23 26 0.76
ACGTcount: A:0.52, C:0.17, G:0.15, T:0.15
Consensus pattern (23 bp):
AAACATGCCACAAAGACATAGAT
Found at i:27169 original size:12 final size:13
Alignment explanation
Indices: 27102--27171 Score: 74
Period size: 14 Copynumber: 5.5 Consensus size: 13
27092 TCAAACTATC
27102 TATTTAATATATA
1 TATTTAATATATA
*
27115 TATATATATATATA
1 TATTTA-ATATATA
*
27129 TAGTTTAATCTATA
1 TA-TTTAATATATA
*
27143 TATTT--TAAATA
1 TATTTAATATATA
27154 TATTTAATAT-TA
1 TATTTAATATATA
27166 TATTTA
1 TATTTA
27172 GGTTGATATC
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
11 9 0.19
12 8 0.17
13 10 0.21
14 17 0.36
15 3 0.06
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (13 bp):
TATTTAATATATA
Found at i:31686 original size:2 final size:2
Alignment explanation
Indices: 31679--31704 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
31669 TTATTTAAAA
31679 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
31705 TTTTAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:40250 original size:36 final size:36
Alignment explanation
Indices: 40209--40278 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 36
40199 AAATTAAATG
40209 GGGAC-GGAGAAAAACCGTTTATGTTAAACGGGGATA
1 GGGACGGGAG-AAAACCGTTTATGTTAAACGGGGATA
*
40245 GGGACGGGAGAAAATCGTTTATGTTAAACGGGGA
1 GGGACGGGAGAAAACCGTTTATGTTAAACGGGGA
40279 CGGGTTTAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 28 0.88
37 4 0.12
ACGTcount: A:0.34, C:0.10, G:0.36, T:0.20
Consensus pattern (36 bp):
GGGACGGGAGAAAACCGTTTATGTTAAACGGGGATA
Found at i:40389 original size:33 final size:34
Alignment explanation
Indices: 40347--40421 Score: 125
Period size: 33 Copynumber: 2.2 Consensus size: 34
40337 TAATTATTAT
40347 ATATATATAATATTAATAAATTTAATTTAAA-AA
1 ATATATATAATATTAATAAATTTAATTTAAATAA
* *
40380 ATATATATAATATTAATATATTTAATTTAAATAT
1 ATATATATAATATTAATAAATTTAATTTAAATAA
40414 ATATATAT
1 ATATATAT
40422 CTAACCTGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 30 0.77
34 9 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (34 bp):
ATATATATAATATTAATAAATTTAATTTAAATAA
Found at i:40413 original size:13 final size:15
Alignment explanation
Indices: 40336--40418 Score: 62
Period size: 15 Copynumber: 5.2 Consensus size: 15
40326 AATATTAAAA
40336 ATAATTATTATATATAT
1 ATAA-TATTA-ATATAT
*
40353 ATAATATTAATAAAT
1 ATAATATTAATATAT
*
40368 TTAAT-TTAAAAAATATAT
1 ATAATATT----AATATAT
40386 ATAATATTAATATAT
1 ATAATATTAATATAT
*
40401 TTAAT-TTAAATATAT
1 ATAATATT-AATATAT
40416 ATA
1 ATA
40419 TATCTAACCT
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
14 4 0.07
15 29 0.54
16 5 0.09
17 4 0.07
18 10 0.19
19 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATATTAATATAT
Found at i:53000 original size:22 final size:21
Alignment explanation
Indices: 52936--53007 Score: 69
Period size: 22 Copynumber: 3.5 Consensus size: 21
52926 ATGATTATGT
*
52936 AATAGTTTAATAAAATTTAATA
1 AATA-TTTTATAAAATTTAATA
* *
52958 ATTATTTT-TAAAAATT-A-A
1 AATATTTTATAAAATTTAATA
52976 AATATTTTATAATAATTTAATA
1 AATATTTTATAA-AATTTAATA
*
52998 AATAATTTAT
1 AATATTTTAT
53008 TATTGAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 8 0.20
19 4 0.10
20 11 0.28
21 4 0.10
22 13 0.32
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (21 bp):
AATATTTTATAAAATTTAATA
Found at i:54702 original size:21 final size:20
Alignment explanation
Indices: 54675--54773 Score: 63
Period size: 21 Copynumber: 4.8 Consensus size: 20
54665 AATCAGTTTC
54675 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
54696 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
54717 CAAATTCGCATTGCGATTTTT
1 CAAAATCGCAACGCGA-TTTT
* * *
54738 CATAATCGCAACGCGAATAT
1 CAAAATCGCAACGCGATTTT
*
54758 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
54774 ACACATAAAT
Statistics
Matches: 57, Mismatches: 19, Indels: 5
0.70 0.23 0.06
Matches are distributed among these distances:
20 16 0.28
21 40 0.70
22 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.23
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:54835 original size:20 final size:20
Alignment explanation
Indices: 54741--55109 Score: 451
Period size: 20 Copynumber: 18.4 Consensus size: 20
54731 GATTTTTCAT
* ** *
54741 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
54761 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
54781 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
54801 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
54821 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
54841 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
54861 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
54881 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
54901 AA-CTGCAACGTGTATCCGTA
1 AATC-GCAACGCGTATCCGTA
54921 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
54941 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
54961 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
54981 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
55001 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
55021 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
55041 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
55061 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
55081 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
55101 AATCACAAC
1 AATCGCAAC
55110 ACTTAAATTT
Statistics
Matches: 305, Mismatches: 34, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.01
20 297 0.97
21 4 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:55830 original size:24 final size:24
Alignment explanation
Indices: 55791--55837 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
55781 AAATTTGGTC
55791 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
55815 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
55838 GATGTTTCAG
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:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:56029 original size:12 final size:12
Alignment explanation
Indices: 56012--56036 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56002 ATATAATCCT
56012 GAAGAAGAAAAA
1 GAAGAAGAAAAA
56024 GAAGAAGAAAAA
1 GAAGAAGAAAAA
56036 G
1 G
56037 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:56890 original size:19 final size:19
Alignment explanation
Indices: 56868--57160 Score: 392
Period size: 19 Copynumber: 16.4 Consensus size: 19
56858 CGGAAAATAC
*
56868 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
56887 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
56901 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
56921 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
56935 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
56954 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
56973 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
56987 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
57006 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
57025 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
57044 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
57063 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
57082 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
57101 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
57115 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
57134 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
57153 AATCGCAA
1 AATCGCAA
57161 CGAGATAATC
Statistics
Matches: 245, Mismatches: 8, Indels: 42
0.83 0.03 0.14
Matches are distributed among these distances:
14 38 0.16
15 1 0.00
16 14 0.06
17 12 0.05
18 2 0.01
19 165 0.67
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:56983 original size:52 final size:55
Alignment explanation
Indices: 56896--57182 Score: 356
Period size: 52 Copynumber: 5.4 Consensus size: 55
56886 AAATCCCAAC
*
56896 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
56949 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGACA-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGA-ATGAAAATCGCAATGCGAA
*
57001 ATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
57058 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
57113 A-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
*
57163 A-GATAATCGCAATGCGAAAT
1 ATGAAAATCGCAATGCGAAAT
57183 TATAAACGCA
Statistics
Matches: 222, Mismatches: 2, Indels: 21
0.91 0.01 0.09
Matches are distributed among these distances:
50 2 0.01
52 127 0.57
53 16 0.07
54 6 0.03
55 7 0.03
57 64 0.29
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (55 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
Found at i:57079 original size:128 final size:128
Alignment explanation
Indices: 56868--57182 Score: 462
Period size: 128 Copynumber: 2.6 Consensus size: 128
56858 CGGAAAATAC
* *
56868 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCA
* *
56928 A--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAG
65 ATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
*
56987 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
57052 TGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
66 TGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
*
57115 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GATAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
57175 TGCGAAAT
66 TGCGAAAT
57183 TATAAACGCA
Statistics
Matches: 179, Mismatches: 7, Indels: 16
0.89 0.03 0.08
Matches are distributed among these distances:
119 24 0.13
121 1 0.01
123 34 0.19
124 17 0.09
125 2 0.01
126 2 0.01
127 1 0.01
128 98 0.55
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (128 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
TGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
Found at i:57298 original size:19 final size:19
Alignment explanation
Indices: 57189--57290 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
57179 AAATTATAAA
57189 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
57208 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
57228 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
57244 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
57261 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
57280 CGCATTGCGAT
1 CGCATTGCGAT
57291 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:57416 original size:14 final size:14
Alignment explanation
Indices: 57397--57433 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
57387 CATCAATTAC
57397 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
57411 ACAAATCATCTTTT
1 ACAAATCAACTTTT
57425 ACAAATCAA
1 ACAAATCAA
57434 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:58116 original size:92 final size:92
Alignment explanation
Indices: 57844--58389 Score: 1047
Period size: 92 Copynumber: 5.9 Consensus size: 92
57834 GTCGTCAAAC
57844 AAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCA
1 AAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCA
57909 GCAACCGAACAAATTTACTTTCAACCA
66 GCAACCGAACAAATTTACTTTCAACCA
57936 AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGC
1 AAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGC
58001 AGCAACCGAACAAATTTACTTTCAACCA
65 AGCAACCGAACAAATTTACTTTCAACCA
*
58029 AAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATATACAGTTTAGCAGAATTGGCA
1 AAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCA
58094 GCAACCGAACAAATTTACTTTCAACCA
66 GCAACCGAACAAATTTACTTTCAACCA
58121 AAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCA
1 AAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCA
58186 GCAACCGAACAAATTTACTTTCAACCA
66 GCAACCGAACAAATTTACTTTCAACCA
*
58213 AAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATATACAGTTTAGCAGAATTGGCA
1 AAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCA
58278 GCAACCGAACAAATTTACTTTCAACCA
66 GCAACCGAACAAATTTACTTTCAACCA
58305 AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGC
1 AAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGC
*
58370 AGCAACCGAATAAATTTACT
65 AGCAACCGAACAAATTTACT
58390 AAGCAATCTA
Statistics
Matches: 447, Mismatches: 5, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
92 295 0.66
93 152 0.34
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.22
Consensus pattern (92 bp):
AAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCA
GCAACCGAACAAATTTACTTTCAACCA
Found at i:60115 original size:14 final size:14
Alignment explanation
Indices: 60096--60185 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
60086 TTGAAATGAA
60096 AATCGCAACGAGAG
1 AATCGCAACGAGAG
60110 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
60127 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
* *
60143 AATCGCAACGCGAAATTAA
1 AATCGCAA--CG--A-GAG
60162 AATCGCAACGAGAG
1 AATCGCAACGAGAG
60176 AATCGCAACG
1 AATCGCAACG
60186 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 27 0.44
15 1 0.02
16 8 0.13
17 8 0.13
18 1 0.02
19 17 0.27
ACGTcount: A:0.42, C:0.23, G:0.24, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:60133 original size:33 final size:33
Alignment explanation
Indices: 60088--60202 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
60078 TCTTTTGGTT
60088 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
60121 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
60154 GAAATTAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
60187 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
60203 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:60134 original size:19 final size:18
Alignment explanation
Indices: 60095--60207 Score: 79
Period size: 19 Copynumber: 6.8 Consensus size: 18
60085 GTTGAAATGA
60095 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
60110 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
60127 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
* *
60143 -AATCGCAACGCGAAATTA
1 AAATCGCAACGCGAGA-TG
60161 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
*
60176 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
60193 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
60208 TTTTGGTTTC
Statistics
Matches: 77, Mismatches: 6, Indels: 26
0.71 0.06 0.24
Matches are distributed among these distances:
14 24 0.31
16 14 0.18
17 11 0.14
19 28 0.36
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:60238 original size:14 final size:14
Alignment explanation
Indices: 60219--60273 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
60209 TTTGGTTTCG
60219 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
60233 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
60252 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
60266 CGTTGCGA
1 CGTTGCGA
60274 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:60251 original size:33 final size:33
Alignment explanation
Indices: 60203--60273 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
60193 AAAATCGCAA
**
60203 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
60236 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
60269 TGCGA
1 TGCGA
60274 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:60281 original size:33 final size:33
Alignment explanation
Indices: 60214--60295 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
60204 GCGATTTTGG
***
60214 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
60247 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
60280 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
60296 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:60300 original size:20 final size:20
Alignment explanation
Indices: 60226--60314 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
60216 TCGCGTTGCG
60226 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
60246 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
60259 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
60279 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
60299 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
60315 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:60436 original size:33 final size:33
Alignment explanation
Indices: 60394--60464 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
60384 AATACTAACT
*
60394 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
60427 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
60460 TGAAA
1 TGAAA
60465 TCTAAGTGAA
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:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:60698 original size:22 final size:22
Alignment explanation
Indices: 60646--60700 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
60636 TGGTTGTGAG
**
60646 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
60668 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
60690 GGATTTCTTCG
1 GGATTTCTTCG
60701 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:60871 original size:20 final size:20
Alignment explanation
Indices: 60846--61038 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
60836 CTTTAAATAT
60846 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
60866 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
60888 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
60907 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
60927 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
60947 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
60967 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
60987 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
61007 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
61027 CGCGTTGCGATT
1 CGCGTTGCGATT
61039 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:61033 original size:60 final size:60
Alignment explanation
Indices: 60846--61038 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
60836 CTTTAAATAT
**
60846 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
60907 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
60967 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
61027 CGCGTTGCGATT
1 CGCGTTGCGATT
61039 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:61119 original size:20 final size:20
Alignment explanation
Indices: 61094--61145 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
61084 AAGAATCGCG
*
61094 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
61114 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
61134 TTGCGATTCTGG
1 TTGCGATTCTGG
61146 GGATCGCGTT
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:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:62775 original size:3 final size:3
Alignment explanation
Indices: 62733--62764 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
62723 CTATTATTTA
62733 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
62765 CATAAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:70035 original size:32 final size:32
Alignment explanation
Indices: 69991--70089 Score: 137
Period size: 32 Copynumber: 3.1 Consensus size: 32
69981 ACACGAAATA
69991 ATTTTTTGAATAGTTTAGATTATTTCGTGTAT
1 ATTTTTTGAATAGTTTAGATTATTTCGTGTAT
* ** * **
70023 ATTTTTTAAATAGTTTAGA-TACATCCTAAAT
1 ATTTTTTGAATAGTTTAGATTATTTCGTGTAT
70054 ATTTTTTGAATAGTTTAGATTATTTCGTGTAT
1 ATTTTTTGAATAGTTTAGATTATTTCGTGTAT
70086 ATTT
1 ATTT
70090 ATTTCTTCAT
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
31 25 0.46
32 29 0.54
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (32 bp):
ATTTTTTGAATAGTTTAGATTATTTCGTGTAT
Found at i:79914 original size:26 final size:26
Alignment explanation
Indices: 79878--79930 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
79868 TTGACCGATA
79878 ATTATTTTGTAGAAAGAATAATTTAG
1 ATTATTTTGTAGAAAGAATAATTTAG
79904 ATTATTTTGTAGAAAGAATAATTTAG
1 ATTATTTTGTAGAAAGAATAATTTAG
79930 A
1 A
79931 GAAATAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.42
Consensus pattern (26 bp):
ATTATTTTGTAGAAAGAATAATTTAG
Found at i:84200 original size:6 final size:6
Alignment explanation
Indices: 84139--84260 Score: 91
Period size: 6 Copynumber: 19.7 Consensus size: 6
84129 TGGGAGCTGC
* * * *
84139 TATATG TGTATG CATATG CATATTT TATATG TTATATG TTATATG TTATATG
1 TATATG TATATG TATATG TATA-TG TATATG -TATATG -TATATG -TATATG
* * * * *
84191 TATTTG TATTTG TATATG TATATG TATATG TATATA TACATG TATTTG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
* * * *
84239 TACACG TATATA TATATA TATA
1 TATATG TATATG TATATG TATA
84261 GTCCATGCTT
Statistics
Matches: 95, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
6 71 0.75
7 24 0.25
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:90790 original size:120 final size:120
Alignment explanation
Indices: 90577--90818 Score: 448
Period size: 120 Copynumber: 2.0 Consensus size: 120
90567 TATCAGCCCC
*
90577 TTCAGTCCATCCCTAGATGTACATTAATATACATAATAGGTACAATGCTATTCGGGTTTTATATC
1 TTCAGTCCATCCCTAGATGTACATTAATATACATAATAGGGACAATGCTATTCGGGTTTTATATC
*
90642 TTTTTCATTCGTTGTCACTCTTTTGATTCGAGTAATTATATCATTTGAGTAAAAT
66 TTTTTCATTCGTTATCACTCTTTTGATTCGAGTAATTATATCATTTGAGTAAAAT
*
90697 TTCAGTCCATCCCTAGATGTACATTGATATACATAATAGGGACAATGCTATTCGGGTTTTATATC
1 TTCAGTCCATCCCTAGATGTACATTAATATACATAATAGGGACAATGCTATTCGGGTTTTATATC
*
90762 TTTTTCATTCGTTATTACTCTTTTGATTCGAGTAATTATATCATTTGAGTAAAAT
66 TTTTTCATTCGTTATCACTCTTTTGATTCGAGTAATTATATCATTTGAGTAAAAT
90817 TT
1 TT
90819 ATTTATTTAG
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 118 1.00
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (120 bp):
TTCAGTCCATCCCTAGATGTACATTAATATACATAATAGGGACAATGCTATTCGGGTTTTATATC
TTTTTCATTCGTTATCACTCTTTTGATTCGAGTAATTATATCATTTGAGTAAAAT
Found at i:91303 original size:27 final size:27
Alignment explanation
Indices: 91222--91307 Score: 82
Period size: 30 Copynumber: 3.0 Consensus size: 27
91212 TTTATTTAAG
* *
91222 TATCTAGAGTATTTTCTGATCAAAATAAA
1 TATCTA-AGTATTTTATG-TCAAAATAGA
* * *
91251 TATATAAAGTTATTTTTTGGTAAAAATAGA
1 TATCT-AAG-TATTTTAT-GTCAAAATAGA
91281 TATCTAAGTATTTTATGTCAAAATAGA
1 TATCTAAGTATTTTATGTCAAAATAGA
91308 CACTTAAACT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
27 10 0.21
28 7 0.15
29 9 0.19
30 20 0.43
31 1 0.02
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.41
Consensus pattern (27 bp):
TATCTAAGTATTTTATGTCAAAATAGA
Found at i:91448 original size:29 final size:30
Alignment explanation
Indices: 91405--91464 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
91395 AAGATTGAAC
* * *
91405 ATTTTAGGTATTTATTTTGAC-AAAAAAAT
1 ATTTTAAGTACTTATTTTAACTAAAAAAAT
91434 ATTTTAAGTACTTATTTTAACTAAAAAAAT
1 ATTTTAAGTACTTATTTTAACTAAAAAAAT
91464 A
1 A
91465 ACTGTGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (30 bp):
ATTTTAAGTACTTATTTTAACTAAAAAAAT
Found at i:114911 original size:19 final size:19
Alignment explanation
Indices: 114887--114927 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
114877 CTTAAATATA
* *
114887 GAGACATTTAGGAGTGGAT
1 GAGACATTGAGAAGTGGAT
114906 GAGACATTGAGAAGTGGAT
1 GAGACATTGAGAAGTGGAT
114925 GAG
1 GAG
114928 TTGCAAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.39, T:0.22
Consensus pattern (19 bp):
GAGACATTGAGAAGTGGAT
Found at i:115126 original size:38 final size:38
Alignment explanation
Indices: 115082--115161 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
115072 AGGCTTCAAG
*
115082 GCCACCAAGCAAGTTTATCTATCCCTAAGACTCAAGCA
1 GCCACCAAGCAAGTTTATCTACCCCTAAGACTCAAGCA
115120 GCCACCAAGCAAGTTTATCTACCCCTAAGACTCAAGCA
1 GCCACCAAGCAAGTTTATCTACCCCTAAGACTCAAGCA
115158 GCCA
1 GCCA
115162 GTGTAACATC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.19
Consensus pattern (38 bp):
GCCACCAAGCAAGTTTATCTACCCCTAAGACTCAAGCA
Found at i:116110 original size:64 final size:65
Alignment explanation
Indices: 115956--116111 Score: 160
Period size: 64 Copynumber: 2.4 Consensus size: 65
115946 GAAGGTGTAT
* * * *
115956 CGATGCACAGGTAGTGCATCGATGCA--CTATTTTAATCTAAAAACATCGAATGCAATTGGTGCA
1 CGATGCACAGGTAGTGCATCGATGCATCCCA-TGTAATCAAAAAACATCGAATGCAATTGATGCA
*
116019 T
65 C
* * * * *
116020 CGATGCATAAGGCA-TGCATCGATGCATCCCA-GTAAT-AAACAAACATCGAATGTATTTTATGC
1 CGATGCA-CAGGTAGTGCATCGATGCATCCCATGTAATCAAA-AAACATCGAATGCAATTGATGC
116082 AC
64 AC
116084 CGATGCACAGGTAGTGCATCGATGCATC
1 CGATGCACAGGTAGTGCATCGATGCATC
116112 GATACACTGT
Statistics
Matches: 75, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
63 6 0.08
64 63 0.84
65 4 0.05
66 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (65 bp):
CGATGCACAGGTAGTGCATCGATGCATCCCATGTAATCAAAAAACATCGAATGCAATTGATGCAC
Found at i:117053 original size:103 final size:103
Alignment explanation
Indices: 116869--117086 Score: 375
Period size: 103 Copynumber: 2.1 Consensus size: 103
116859 GTCGAGGGTC
116869 TATGTGGTCCTTCGGAACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGAACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
116934 TTGATCCTTGGCATATGTATATAATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATAATTCTTAAGGAATGA
*
116972 TATGTGGTCCTTC-GAGACATATATGTATTTTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
1 TATGTGGTCCTTCGGA-ACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
* *
117036 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
65 CTTGATCCCTAGCATATGTATATAATTCTTAAGGAATGA
117075 TATGTGGTCCTT
1 TATGTGGTCCTT
117087 ATGGACATTA
Statistics
Matches: 109, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
102 2 0.02
103 107 0.98
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGAACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATAATTCTTAAGGAATGA
Found at i:117169 original size:23 final size:23
Alignment explanation
Indices: 117093--117170 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
117083 CCTTATGGAC
*
117093 ATTATTATATGGCACTAT-GGTGCA
1 ATTA-TATGTGGCACT-TCGGTGCA
* * * *
117117 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTTCGGTGCA
117140 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTTCGGTGCA
117163 ATTATATG
1 ATTATATG
117171 AGCTGCGGTG
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (23 bp):
ATTATATGTGGCACTTCGGTGCA
Found at i:118054 original size:21 final size:20
Alignment explanation
Indices: 118011--118054 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
118001 TTTTATTTTA
*
118011 TAATTATATATTATTTAAAT
1 TAATTATAAATTATTTAAAT
* *
118031 TAATTATAAACTTTTTTGAAT
1 TAATTATAAA-TTATTTAAAT
118052 TAA
1 TAA
118055 AAAATATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
TAATTATAAATTATTTAAAT
Found at i:122431 original size:21 final size:21
Alignment explanation
Indices: 122407--122448 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
122397 TACGATTCAA
122407 TGTAGCAGTGCATCGATGCAC
1 TGTAGCAGTGCATCGATGCAC
*
122428 TGTAGCAGTGTATCGATGCAC
1 TGTAGCAGTGCATCGATGCAC
122449 AATATTGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TGTAGCAGTGCATCGATGCAC
Found at i:124462 original size:38 final size:38
Alignment explanation
Indices: 124419--124494 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
124409 TGAATCAGAA
* * *
124419 CTTATTTCCATATTCATAACTTATTTTCAGACTCATAG
1 CTTATTGCCAAATTCATAACTAATTTTCAGACTCATAG
* * *
124457 CTTATTGGCAAATTCATAGCTAATTTTCAGATTCATAG
1 CTTATTGCCAAATTCATAACTAATTTTCAGACTCATAG
124495 TTCTTTAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.42
Consensus pattern (38 bp):
CTTATTGCCAAATTCATAACTAATTTTCAGACTCATAG
Found at i:124490 original size:19 final size:19
Alignment explanation
Indices: 124419--124494 Score: 80
Period size: 19 Copynumber: 4.0 Consensus size: 19
124409 TGAATCAGAA
* * *
124419 CTTATTTCCATATTCATAA
1 CTTATTTTCAGATTCATAG
*
124438 CTTATTTTCAGACTCATAG
1 CTTATTTTCAGATTCATAG
** *
124457 CTTATTGGCAAATTCATAG
1 CTTATTTTCAGATTCATAG
*
124476 CTAATTTTCAGATTCATAG
1 CTTATTTTCAGATTCATAG
124495 TTCTTTAAAT
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.42
Consensus pattern (19 bp):
CTTATTTTCAGATTCATAG
Found at i:129744 original size:23 final size:23
Alignment explanation
Indices: 129718--129786 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
129708 CACCACAACT
* *
129718 CGTATAATTACACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
129741 CGTAGAATTGCACTGGAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
129764 CATAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
129787 TATAATAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:129976 original size:103 final size:103
Alignment explanation
Indices: 129809--130011 Score: 361
Period size: 103 Copynumber: 2.0 Consensus size: 103
129799 GTCCATAAGA
* *
129809 ACCACATATCATTCCTTAAAAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACT
1 ACCACATATCATTCCTTAAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACT
129874 TCACACATGTTCCAAAGAATACATATATGTCCCGAAAG
66 TCACACATGTTCCAAAGAATACATATATGTCCCGAAAG
* * *
129912 ACCATATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACTAGACT
1 ACCACATATCATTCCTTAAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACT
129977 TCACACATGTTCCAAAGAATACATATATGTCCCGA
66 TCACACATGTTCCAAAGAATACATATATGTCCCGA
130012 TGGACCGCGT
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 95 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.28
Consensus pattern (103 bp):
ACCACATATCATTCCTTAAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACT
TCACACATGTTCCAAAGAATACATATATGTCCCGAAAG
Found at i:134161 original size:20 final size:20
Alignment explanation
Indices: 134136--134182 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
134126 TAACTTACTT
134136 TCAAAAGTTCATGATGATCA
1 TCAAAAGTTCATGATGATCA
134156 TCAAAAGTTCATGATGATCA
1 TCAAAAGTTCATGATGATCA
134176 TCAAAAG
1 TCAAAAG
134183 AAGATTGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.28
Consensus pattern (20 bp):
TCAAAAGTTCATGATGATCA
Found at i:134193 original size:21 final size:20
Alignment explanation
Indices: 134145--134195 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
134135 TTCAAAAGTT
**
134145 CATGATGATCATCAAAAGTT
1 CATGATGATCATCAAAAGAA
134165 CATGATGATCATCAAAAGAA
1 CATGATGATCATCAAAAGAA
*
134185 GATTGATGATC
1 CA-TGATGATC
134196 TTAAAACTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (20 bp):
CATGATGATCATCAAAAGAA
Found at i:139056 original size:22 final size:23
Alignment explanation
Indices: 139005--139069 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 23
138995 CACCACAGCT
*
139005 CGTATAATTGCACCAAAGTGCTA
1 CGTAGAATTGCACCAAAGTGCTA
** *
139028 CGTAGAATTGCACCGGAGTGC-G
1 CGTAGAATTGCACCAAAGTGCTA
* *
139050 CGTAGAATTGCGCCATAGTG
1 CGTAGAATTGCACCAAAGTG
139070 TCATATAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
22 17 0.49
23 18 0.51
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (23 bp):
CGTAGAATTGCACCAAAGTGCTA
Found at i:139711 original size:18 final size:19
Alignment explanation
Indices: 139674--139710 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
139664 TCTTTTTTTT
139674 TGGGGGAATCGATTCCCCC
1 TGGGGGAATCGATTCCCCC
*
139693 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
139711 TCTAGCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.30, G:0.32, T:0.24
Consensus pattern (19 bp):
TGGGGGAATCGATTCCCCC
Found at i:145835 original size:23 final size:23
Alignment explanation
Indices: 145809--145900 Score: 130
Period size: 23 Copynumber: 4.0 Consensus size: 23
145799 CACCACAGCT
* *
145809 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGTAGTGCCA
* *
145832 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGTAGTGCCA
* *
145855 CGTAGAATTACACCGTAGTGCCG
1 CGTAGAATTGCACCGTAGTGCCA
145878 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGTAGTGCCA
145901 TATAATAATG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.26, C:0.26, G:0.27, T:0.21
Consensus pattern (23 bp):
CGTAGAATTGCACCGTAGTGCCA
Found at i:146586 original size:21 final size:21
Alignment explanation
Indices: 146562--146604 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
146552 TCATATTCAT
* *
146562 TTGAGGGGGGATCGATTCCCC
1 TTGAAGGGGGACCGATTCCCC
* *
146583 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGGACCGATTCCCC
146604 T
1 T
146605 AGCCCAGAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.28
Consensus pattern (21 bp):
TTGAAGGGGGACCGATTCCCC
Found at i:150863 original size:39 final size:38
Alignment explanation
Indices: 150769--150859 Score: 116
Period size: 39 Copynumber: 2.4 Consensus size: 38
150759 ATCGGGTTGG
150769 TATATATA-TA-TATTTAAATTAAATATATAAATATTA
1 TATATATATTATTATTTAAATTAAATATATAAATATTA
* * *
150805 TATATATATTTTTAATTTAAATTAAATTTATTAATATTA
1 TATATATATTATT-ATTTAAATTAAATATATAAATATTA
*
150844 TATATA-ATAATTATTT
1 TATATATATTATTATTT
150860 TTAATATTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
36 8 0.17
37 5 0.11
38 5 0.11
39 29 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (38 bp):
TATATATATTATTATTTAAATTAAATATATAAATATTA
Found at i:158151 original size:32 final size:32
Alignment explanation
Indices: 158115--158175 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
158105 TTAATCTCAC
*
158115 AAATATCGAGGG-TCCCCACGGTTATTTTTGTA
1 AAATATCG-GGGATCCCCACGATTATTTTTGTA
*
158147 AAATATCGGGGATCCCTACGATTATTTTT
1 AAATATCGGGGATCCCCACGATTATTTTT
158176 CGAGGATCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 3 0.12
32 23 0.88
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (32 bp):
AAATATCGGGGATCCCCACGATTATTTTTGTA
Found at i:167947 original size:25 final size:27
Alignment explanation
Indices: 167919--167969 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
167909 ATATATGTTG
167919 AAATTGTAG-TT-TTATTAA-ATTGATT
1 AAATTGTAGATTCTT-TTAATATTGATT
167944 AAATTGTAGATTCTTTTAATATTGAT
1 AAATTGTAGATTCTTTTAATATTGAT
167970 ATGTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 9 0.39
26 6 0.26
27 8 0.35
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (27 bp):
AAATTGTAGATTCTTTTAATATTGATT
Found at i:168195 original size:22 final size:22
Alignment explanation
Indices: 168142--168199 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
168132 ATAGTTATAC
168142 AATTTTAAATTTAAATATTTTTA
1 AATTTTAAATTT-AATATTTTTA
*
168165 AA-TTAAAATTTAAT-TTTTTAA
1 AATTTTAAATTTAATATTTTT-A
168186 AATTTTAAATTTAA
1 AATTTTAAATTTAA
168200 GTGTCTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 5 0.16
21 6 0.19
22 18 0.58
23 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATTTTAAATTTAATATTTTTA
Found at i:172333 original size:24 final size:24
Alignment explanation
Indices: 172306--172419 Score: 160
Period size: 24 Copynumber: 4.8 Consensus size: 24
172296 TTCGATTTGA
172306 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
172330 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
172354 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
172378 ATTCTGATCTGTTACTTGACCT-G
1 ATTCTGATCTGATACTTGACATGG
*
172401 ATTTCTGATATGATACTTG
1 A-TTCTGATCTGATACTTG
172420 GCCTGATTTA
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
23 3 0.04
24 78 0.95
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:172438 original size:24 final size:24
Alignment explanation
Indices: 172358--172431 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
172348 ACATGGATTC
* * *
172358 TGATCTGATACTTGACTTGGA-TTC
1 TGATATGATACTTGACCT-GATTTA
* * *
172382 TGATCTGTTACTTGACCTGATTTC
1 TGATATGATACTTGACCTGATTTA
*
172406 TGATATGATACTTGGCCTGATTTA
1 TGATATGATACTTGACCTGATTTA
172430 TG
1 TG
172432 TTTTGATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 2 0.05
24 41 0.95
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.43
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:181853 original size:14 final size:14
Alignment explanation
Indices: 181834--181860 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
181824 AGGGATATTC
181834 AAATTAAACATGAT
1 AAATTAAACATGAT
181848 AAATTAAACATGA
1 AAATTAAACATGA
181861 ATAAGGCACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (14 bp):
AAATTAAACATGAT
Found at i:188778 original size:121 final size:122
Alignment explanation
Indices: 188559--188802 Score: 409
Period size: 121 Copynumber: 2.0 Consensus size: 122
188549 AAATTCTAAA
188559 TGATAATCATACTGTATATTCTCCTCAAACTATACTGCTCCTAACCCATTATATTCATTATGAAG
1 TGATAATCATACTGTATATTCTCCTCAAACTATACTGCTCCTAACCCA-TATATTCATTATGAAG
* * * *
188624 CTTTGACCAAGCTAAATAATCTAGAAAAGGAATAATTTGGTTGCCAAGATCTGAGGCC
65 CTTTGACCAACCTAAATAATCTAGAAAAAGAATAATTTGATTCCCAAGATCTGAGGCC
*
188682 TGATAATCATACTGTATATTCTCGTCAAACTATACTGCTCCTAACCCA-ATATTCATTATGAAGC
1 TGATAATCATACTGTATATTCTCCTCAAACTATACTGCTCCTAACCCATATATTCATTATGAAGC
* *
188746 TTTGACCAACCTAAATAATCTAGAAAAAGAATAATTTGATTCCCCAGTTCTGAGGCC
66 TTTGACCAACCTAAATAATCTAGAAAAAGAATAATTTGATTCCCAAGATCTGAGGCC
188803 AGTATAAACC
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
121 67 0.59
123 47 0.41
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (122 bp):
TGATAATCATACTGTATATTCTCCTCAAACTATACTGCTCCTAACCCATATATTCATTATGAAGC
TTTGACCAACCTAAATAATCTAGAAAAAGAATAATTTGATTCCCAAGATCTGAGGCC
Found at i:195974 original size:16 final size:16
Alignment explanation
Indices: 195936--195979 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
195926 ACTGATCGAA
* *
195936 ATATATTTTTACATAC
1 ATATATTTTTAAAAAC
* *
195952 ATTTATTTTTAAAAAT
1 ATATATTTTTAAAAAC
195968 ATATATTTTTAA
1 ATATATTTTTAA
195980 TTTTTTTTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATATTTTTAAAAAC
Found at i:199270 original size:3 final size:3
Alignment explanation
Indices: 199262--199292 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
199252 AAGCTTTCTC
199262 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
199293 GTCGAGTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:199425 original size:2 final size:2
Alignment explanation
Indices: 199420--199444 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
199410 CATTTTTTTT
199420 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
199445 TTCCATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:200868 original size:25 final size:24
Alignment explanation
Indices: 200840--200894 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
200830 TTAAATGAAA
200840 AATAAATCAT-TTAAATTAAGTTAAT
1 AATAAAT-ATATTAAA-TAAGTTAAT
*
200865 AATAAAATATATTTAATAAGTTAAT
1 AAT-AAATATATTAAATAAGTTAAT
200890 -ATAAA
1 AATAAA
200895 AAGATATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 3 0.11
24 2 0.07
25 14 0.52
26 8 0.30
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (24 bp):
AATAAATATATTAAATAAGTTAAT
Found at i:200893 original size:27 final size:25
Alignment explanation
Indices: 200856--200905 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 25
200846 TCATTTAAAT
200856 TAAGTTAATAATAAA-ATATATTTAA
1 TAAGTTAATAA-AAAGATATATTTAA
200881 TAAGTTAATATAAAAAGATATATTT
1 TAAGTT-A-ATAAAAAGATATATTT
200906 TTTAAAGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 6 0.27
26 4 0.18
27 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (25 bp):
TAAGTTAATAAAAAGATATATTTAA
Found at i:212689 original size:69 final size:69
Alignment explanation
Indices: 212578--212731 Score: 281
Period size: 69 Copynumber: 2.2 Consensus size: 69
212568 AACAACATGG
*
212578 AATTAATTGAGTTTATATTTGAGAAGAATTCTTTTTTTTCCAAATAATTTTAGGATTTGTATTTT
1 AATTAATTGAGTTTATATTTGAGAAGAATTCTTTTATTTCCAAATAATTTTAGGATTTGTATTTT
212643 TTTT
66 TTTT
212647 AATTAATTGAGTTTATATTTGAGAAGAATTCTTTTATTTCCAAATAATTTTAGGATTTGTATTTT
1 AATTAATTGAGTTTATATTTGAGAAGAATTCTTTTATTTCCAAATAATTTTAGGATTTGTATTTT
212712 TTTT
66 TTTT
*
212716 AATTTATTTGAGTTTA
1 AA-TTAATTGAGTTTA
212732 AAATTAATTA
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
69 70 0.85
70 12 0.15
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.55
Consensus pattern (69 bp):
AATTAATTGAGTTTATATTTGAGAAGAATTCTTTTATTTCCAAATAATTTTAGGATTTGTATTTT
TTTT
Found at i:212789 original size:23 final size:23
Alignment explanation
Indices: 212746--212789 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
212736 TAATTATGTT
*
212746 TTAAAATATTAATGGATTTAAGG
1 TTAAAATATTAATAGATTTAAGG
*
212769 TTAAAAT-TTATTAGATCTTAA
1 TTAAAATATTAATAGAT-TTAA
212790 TATTTCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (23 bp):
TTAAAATATTAATAGATTTAAGG
Found at i:215673 original size:29 final size:29
Alignment explanation
Indices: 215639--215706 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
215629 AGAAATAATT
* *
215639 TAAAAATTCAATGAATAAATTATAAAAAA
1 TAAAAATTCAATGAATAAAATAAAAAAAA
* *
215668 TAAAAATACGATGAATAAAATAAAAAAAA
1 TAAAAATTCAATGAATAAAATAAAAAAAA
* *
215697 TTATAATTCA
1 TAAAAATTCA
215707 GCGAGGAATT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (29 bp):
TAAAAATTCAATGAATAAAATAAAAAAAA
Found at i:215675 original size:20 final size:20
Alignment explanation
Indices: 215652--215702 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
215642 AAATTCAATG
215652 AATAAATTATAAAAAATAAA
1 AATAAATTATAAAAAATAAA
* * *
215672 AATACGATGA-ATAAAATAAA
1 AATA-AATTATAAAAAATAAA
215692 AA-AAATTATAA
1 AATAAATTATAA
215703 TTCAGCGAGG
Statistics
Matches: 23, Mismatches: 6, Indels: 5
0.68 0.18 0.15
Matches are distributed among these distances:
18 3 0.13
19 2 0.09
20 15 0.65
21 3 0.13
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (20 bp):
AATAAATTATAAAAAATAAA
Found at i:216213 original size:31 final size:31
Alignment explanation
Indices: 216178--216243 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
216168 TGATTATAGT
* * * *
216178 TTATAATATATTGTTTCGTTGAATCTTTTGA
1 TTATAAGATATTATTTCATTGAATCTTTCGA
* *
216209 TTATAGGATGTTATTTCATTGAATCTTTCGA
1 TTATAAGATATTATTTCATTGAATCTTTCGA
216240 TTAT
1 TTAT
216244 TAAGTTAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.26, C:0.08, G:0.14, T:0.53
Consensus pattern (31 bp):
TTATAAGATATTATTTCATTGAATCTTTCGA
Found at i:217942 original size:17 final size:17
Alignment explanation
Indices: 217899--218023 Score: 115
Period size: 17 Copynumber: 7.1 Consensus size: 17
217889 TTAATCTACG
*
217899 TCTGATAACTGTAAAAAGA
1 TCTGATAACTGT--AAACA
217918 TCTGATAACTGTAAACA
1 TCTGATAACTGTAAACA
* *
217935 TTTGATAACTGAAAATCA
1 TCTGATAACTGTAAA-CA
*
217953 TCTGATAACTGTAAATA
1 TCTGATAACTGTAAACA
*
217970 TCTGATAACTGAAAATCA
1 TCTGATAACTGTAAA-CA
* * **
217988 TATAATAACTGTGAAATG
1 TCTGATAACTGT-AAACA
*
218006 TCTAATAACTGTAAACA
1 TCTGATAACTGTAAACA
218023 T
1 T
218024 TTAGAATTCA
Statistics
Matches: 87, Mismatches: 16, Indels: 8
0.78 0.14 0.07
Matches are distributed among these distances:
17 36 0.41
18 36 0.41
19 15 0.17
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (17 bp):
TCTGATAACTGTAAACA
Found at i:217960 original size:35 final size:35
Alignment explanation
Indices: 217899--217999 Score: 139
Period size: 35 Copynumber: 2.9 Consensus size: 35
217889 TTAATCTACG
**
217899 TCTGATAACTGTAAAAAGATCTGATAACTGTAAACA
1 TCTGATAACTG-AAAATCATCTGATAACTGTAAACA
* *
217935 TTTGATAACTGAAAATCATCTGATAACTGTAAATA
1 TCTGATAACTGAAAATCATCTGATAACTGTAAACA
* *
217970 TCTGATAACTGAAAATCATATAATAACTGT
1 TCTGATAACTGAAAATCATCTGATAACTGT
218000 GAAATGTCTA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
35 48 0.83
36 10 0.17
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.32
Consensus pattern (35 bp):
TCTGATAACTGAAAATCATCTGATAACTGTAAACA
Found at i:235907 original size:3 final size:3
Alignment explanation
Indices: 235899--235923 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
235889 CTCGGTTTTC
235899 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
235924 AACATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:236259 original size:22 final size:22
Alignment explanation
Indices: 236218--236259 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
236208 CTTAAATTTT
*
236218 TAAATTTAAATGATAGAAAGAC
1 TAAATTTAAATGATACAAAGAC
* *
236240 TAAATTTCAATTATACAAAG
1 TAAATTTAAATGATACAAAG
236260 GCTACATGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (22 bp):
TAAATTTAAATGATACAAAGAC
Found at i:238865 original size:23 final size:23
Alignment explanation
Indices: 238786--238858 Score: 137
Period size: 23 Copynumber: 3.2 Consensus size: 23
238776 AATTGTGGGG
238786 AAACGGGTATCCCCGTTTAGCAT
1 AAACGGGTATCCCCGTTTAGCAT
238809 AAACGGGTATCCCCGTTTAGCAT
1 AAACGGGTATCCCCGTTTAGCAT
*
238832 AAACGGGTATCCCCGTTTAGTAT
1 AAACGGGTATCCCCGTTTAGCAT
238855 AAAC
1 AAAC
238859 AGATATCGGG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.26
Consensus pattern (23 bp):
AAACGGGTATCCCCGTTTAGCAT
Found at i:238899 original size:15 final size:15
Alignment explanation
Indices: 238879--238978 Score: 51
Period size: 15 Copynumber: 6.7 Consensus size: 15
238869 CCGGGTATAT
238879 ATATATTTAAATTAA
1 ATATATTTAAATTAA
* *
238894 ATATA-TAAATATTAT
1 ATATATTTAA-ATTAA
* * *
238909 ATATATATATATTAT
1 ATATATTTAAATTAA
* *
238924 TTAAATTTAAATTAA
1 ATATATTTAAATTAA
* *
238939 ATTTA-TTAATATTAT
1 ATATATTTAA-ATTAA
* *
238954 ATATATATAAAATAA
1 ATATATTTAAATTAA
* *
238969 TTATTTTTAA
1 ATATATTTAA
238979 TATTTATCGG
Statistics
Matches: 60, Mismatches: 21, Indels: 8
0.67 0.24 0.09
Matches are distributed among these distances:
14 7 0.12
15 49 0.82
16 4 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATATTTAAATTAA
Found at i:238978 original size:45 final size:45
Alignment explanation
Indices: 238883--238971 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
238873 GTATATATAT
* * *
238883 ATTTAAATTAAATATATAAATATTATATATATATATATTATTTAA
1 ATTTAAATTAAATATATAAATATTATATATATATAAAATAATTAA
* *
238928 ATTTAAATTAAATTTATTAATATTATATATATATAAAATAATTA
1 ATTTAAATTAAATATATAAATATTATATATATATAAAATAATTA
238972 TTTTTAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (45 bp):
ATTTAAATTAAATATATAAATATTATATATATATAAAATAATTAA
Found at i:239774 original size:5 final size:5
Alignment explanation
Indices: 239764--239795 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
239754 TATGACTATA
239764 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TA
239796 GACAATAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAAAT
Found at i:241876 original size:23 final size:23
Alignment explanation
Indices: 241850--241894 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
241840 ATTCTACCCG
241850 ACCCATATCCATTCCTAATCATA
1 ACCCATATCCATTCCTAATCATA
241873 ACCCATATCCATTCCTAATCAT
1 ACCCATATCCATTCCTAATCAT
241895 GTCTGATTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (23 bp):
ACCCATATCCATTCCTAATCATA
Found at i:247871 original size:31 final size:31
Alignment explanation
Indices: 247768--247932 Score: 122
Period size: 31 Copynumber: 5.3 Consensus size: 31
247758 CTAATATGAC
*
247768 TCTTGGGTAGG-CTC-TACGGCCCCGAGATCAT
1 TCTTGGGTAGGCCTCGT--GGCCCTGAGATCAT
* * * * * **
247799 TCTTTGGTACGCC-CTGCGGCCTTGGGATTTT
1 TCTTGGGTAGGCCTC-GTGGCCCTGAGATCAT
247830 TCTTGGGTAGGCCTCGTGGCCCTGAGATCAT
1 TCTTGGGTAGGCCTCGTGGCCCTGAGATCAT
* * ** *
247861 TCTTGAGTAGGCCTTGCAGCCCTGAGATCTT
1 TCTTGGGTAGGCCTCGTGGCCCTGAGATCAT
* * *
247892 TCTTGGGTAGGCCCCTTGGCCCTGAGAAT-TT
1 TCTTGGGTAGGCCTCGTGGCCCTGAG-ATCAT
247923 TCTTGGGTAG
1 TCTTGGGTAG
247933 ACTCTGAAGC
Statistics
Matches: 103, Mismatches: 26, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
31 99 0.96
32 4 0.04
ACGTcount: A:0.13, C:0.25, G:0.30, T:0.32
Consensus pattern (31 bp):
TCTTGGGTAGGCCTCGTGGCCCTGAGATCAT
Found at i:247912 original size:62 final size:62
Alignment explanation
Indices: 247768--247918 Score: 180
Period size: 62 Copynumber: 2.4 Consensus size: 62
247758 CTAATATGAC
* * * * * *
247768 TCTTGGGTAGG-CTCTACGGCCCCGAGATCATTCTTTGGTACGCCCTGCGGCCTTGGGATTTT
1 TCTTGGGTAGGCCTCT-TGGCCCTGAGATCATTCTTTGGTACGCCCTGCAGCCCTGAGATCTT
* * *
247830 TCTTGGGTAGGCCTCGTGGCCCTGAGATCATTC-TTGAGTAGGCCTTGCAGCCCTGAGATCTT
1 TCTTGGGTAGGCCTCTTGGCCCTGAGATCATTCTTTG-GTACGCCCTGCAGCCCTGAGATCTT
*
247892 TCTTGGGTAGGCCCCTTGGCCCTGAGA
1 TCTTGGGTAGGCCTCTTGGCCCTGAGA
247919 ATTTTCTTGG
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
61 3 0.04
62 70 0.92
63 3 0.04
ACGTcount: A:0.13, C:0.27, G:0.30, T:0.30
Consensus pattern (62 bp):
TCTTGGGTAGGCCTCTTGGCCCTGAGATCATTCTTTGGTACGCCCTGCAGCCCTGAGATCTT
Found at i:247944 original size:62 final size:62
Alignment explanation
Indices: 247828--247944 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 62
247818 CCTTGGGATT
* * *
247828 TTTCTTGGGTAGGCCTCGTGGCCCTGAGATCATTCTTGAGTAGGCCTTGCAGCCCTGAGATC
1 TTTCTTGGGTAGGCCCCGTGGCCCTGAGATCATTCTTGAGTAGACCTTGAAGCCCTGAGATC
* * *
247890 TTTCTTGGGTAGGCCCCTTGGCCCTGAGAAT-TTTCTTGGGTAGA-CTCTGAAGCCC
1 TTTCTTGGGTAGGCCCCGTGGCCCTGAG-ATCATTCTTGAGTAGACCT-TGAAGCCC
247945 CAACATGCTC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
61 2 0.04
62 43 0.91
63 2 0.04
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.32
Consensus pattern (62 bp):
TTTCTTGGGTAGGCCCCGTGGCCCTGAGATCATTCTTGAGTAGACCTTGAAGCCCTGAGATC
Found at i:256329 original size:26 final size:27
Alignment explanation
Indices: 256300--256350 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
256290 GATGATAATA
256300 ATAAATATTT-TATAATTTT-AAAAATT
1 ATAAAT-TTTATATAATTTTGAAAAATT
*
256326 ATAAATTTTATATATTTTTGAAAAA
1 ATAAATTTTATATAATTTTGAAAAA
256351 AATATTACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 3 0.14
26 14 0.64
27 5 0.23
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (27 bp):
ATAAATTTTATATAATTTTGAAAAATT
Found at i:256632 original size:339 final size:336
Alignment explanation
Indices: 255965--256776 Score: 1203
Period size: 339 Copynumber: 2.4 Consensus size: 336
255955 TTTATTTTTT
*
255965 ATAATAATAAATTTTTTATAATTTTAAAAATTATAAATTTCATATATTTTG-----AAT-TT--T
1 ATAATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTGAAAAAAATATTCCT
*
256022 TTTAAAATTAATTGTTTAAAAATATAAAAAAATATTAAAATAAACTTTTAATTACAATTAAGGAA
66 TTTAAAATTAATTGTTTAAAAATATAAAAAAATATTAAAATAAACTTTTAATTACAATTGAGGAA
* * *
256087 TTAAATGAATTATTATTCATTAATTTTTATTTTTTAACAACAGTTAATAATATTTATTCATTTTA
131 TCAAATGAATTATTATTCATTAATTTTTAATTTTTAACAACAGATAATAATATTTATTCATTTTA
** * *
256152 ATAAAATTATTTTGATTTTTGTATTAAAATTACACAATACGTATAATTAGTATAGAAAAACTTTG
196 ATAAAATTATTTAAATTTTTGCATTAAAATTACACAATACATATAATTAGTATAGAAAAACTTTG
* **
256217 AGGGTAAGTATTTTAAAATATGAATATTTTATAAATTTTATAACTAATATTTCTTTTACAAAATG
261 AAGACAAGTATTTTAAAATATGAATATTTTATAAATTTTATAACTAATATTTCTTTTACAAAA-G
256282 ATGATGATGATG
325 ATGATGATGATG
*
256294 ATAATAATAAATATTTTATAATTTTAAAAATTATAAATTTTATATATTTTTGAAAAAAATATTAC
1 ATAATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATA-TTTTGAAAAAAATATT-C
256359 CTTTTAAAATTAATTGTTTAAAAATATAAAAAAATATTAAAATAAACTTTTAATTACAATTGA-G
64 CTTTTAAAATTAATTGTTTAAAAATATAAAAAAATATTAAAATAAACTTTTAATTACAATTGAGG
*
256423 ATATCAAATGAATTATTATTCATTAATTTTTAATTTTTAACAACAGATAATAATGTTTATTCATT
129 A-ATCAAATGAATTATTATTCATTAATTTTTAATTTTTAACAACAGATAATAATATTTATTCA-T
*
256488 TTTAATAAAATTATTTAAATTTTTGCATTAAAATTACACAATACATATAATCTAGTATATAAAAA
192 TTTAATAAAATTATTTAAATTTTTGCATTAAAATTACACAATACATATAAT-TAGTATAGAAAAA
* *
256553 CTTTGAAGACAAGTATTTTACAATATGAATAATTTTATAAAAGTTTTATAATTAATA-TTCTTTT
256 CTTTGAAGACAAGTATTTTAAAATATGAAT-ATTTTAT-AAA-TTTTATAACTAATATTTCTTTT
256617 AC-AAA-ATGA-GATGATG
318 ACAAAAGATGATGATGATG
* *
256633 ---ATGATAAATA-TTTATAA-TTTAAAAACTTATAAATTTCATATATTTTAAAAAAAATTATTG
1 ATAATAATAAATATTTTATAATTTTAAAAA-TTATAAATTTCATATATTTTGAAAAAAA-TATT-
*
256693 CCTTTTAAAATTAATTGTTTAAGAATAT-AAAAAATATTAAAATAAACTTTTAATTACAATTGAG
63 CCTTTTAAAATTAATTGTTTAAAAATATAAAAAAATATTAAAATAAACTTTTAATTACAATTGAG
256757 GAATCAAATGAATTATTATT
128 GAATCAAATGAATTATTATT
256777 TAATATTTTT
Statistics
Matches: 442, Mismatches: 22, Indels: 33
0.89 0.04 0.07
Matches are distributed among these distances:
329 44 0.10
330 5 0.01
334 72 0.16
335 58 0.13
336 11 0.02
338 2 0.00
339 125 0.28
340 52 0.12
341 38 0.09
342 10 0.02
343 12 0.03
344 13 0.03
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (336 bp):
ATAATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTGAAAAAAATATTCCT
TTTAAAATTAATTGTTTAAAAATATAAAAAAATATTAAAATAAACTTTTAATTACAATTGAGGAA
TCAAATGAATTATTATTCATTAATTTTTAATTTTTAACAACAGATAATAATATTTATTCATTTTA
ATAAAATTATTTAAATTTTTGCATTAAAATTACACAATACATATAATTAGTATAGAAAAACTTTG
AAGACAAGTATTTTAAAATATGAATATTTTATAAATTTTATAACTAATATTTCTTTTACAAAAGA
TGATGATGATG
Found at i:271013 original size:68 final size:68
Alignment explanation
Indices: 270899--271027 Score: 231
Period size: 68 Copynumber: 1.9 Consensus size: 68
270889 TGGGTCCACT
* *
270899 CCAATTTATTGCGGTCCCTAAAGCCACACAAATCAAACGGTATCGTGTGGAGCTCTTTGGGTTTG
1 CCAATTTATTGCGATCCCTAAAGCCACACAAATCAAACGGTATCGTGTGGAACTCTTTGGGTTTG
270964 GAC
66 GAC
*
270967 CCAATTTATTGCGATCCCTAAAGCCACACAAATCAAACGGTGTCGTGTGGAACTCTTTGGG
1 CCAATTTATTGCGATCCCTAAAGCCACACAAATCAAACGGTATCGTGTGGAACTCTTTGGG
271028 CATATGTGTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 58 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.27
Consensus pattern (68 bp):
CCAATTTATTGCGATCCCTAAAGCCACACAAATCAAACGGTATCGTGTGGAACTCTTTGGGTTTG
GAC
Found at i:273827 original size:20 final size:20
Alignment explanation
Indices: 273800--273865 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
273790 ACTACCACAG
*
273800 TGCGAATTTGGAAACTGAGT
1 TGCGAATTTGTAAACTGAGT
* *
273820 TACGAATTTGTAAATTGAGT
1 TGCGAATTTGTAAACTGAGT
273840 TGCGAATTTGTAAACTGAGT
1 TGCGAATTTGTAAACTGAGT
273860 TGCGAA
1 TGCGAA
273866 GTTAGAGTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.33
Consensus pattern (20 bp):
TGCGAATTTGTAAACTGAGT
Found at i:274263 original size:16 final size:15
Alignment explanation
Indices: 274242--274275 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
274232 AGGTGGTTAT
274242 AATAATATATATTTTA
1 AATAAT-TATATTTTA
*
274258 AATAATTTTATTTTA
1 AATAATTATATTTTA
274273 AAT
1 AAT
274276 TAGTCTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AATAATTATATTTTA
Found at i:274451 original size:84 final size:84
Alignment explanation
Indices: 274287--274452 Score: 255
Period size: 84 Copynumber: 2.0 Consensus size: 84
274277 AGTCTATAAT
* * ** *
274287 TTTTTAAATATTTTAATTTCACCTTTAAATTGGTTATCATTCTAAATTAATCCTCAAATTTTTAA
1 TTTTTAAATATTTCAATTTCACCCTTAAATTGACTATCATTCTAAATTAATCCTCAAACTTTTAA
274352 ACATTTCATTTTCATCCAA
66 ACATTTCATTTTCATCCAA
274371 TTTTTAAA-ATTTCAATTTCACCCTTAAATAATGACTATCATTCTAAATTAATCCTC-AACTTTT
1 TTTTTAAATATTTCAATTTCACCCTTAAAT--TGACTATCATTCTAAATTAATCCTCAAACTTTT
274434 AAACATTTCATTTTCATCC
64 AAACATTTCATTTTCATCC
274453 CCAAACCGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
83 19 0.25
84 33 0.44
85 23 0.31
ACGTcount: A:0.34, C:0.18, G:0.02, T:0.46
Consensus pattern (84 bp):
TTTTTAAATATTTCAATTTCACCCTTAAATTGACTATCATTCTAAATTAATCCTCAAACTTTTAA
ACATTTCATTTTCATCCAA
Found at i:279709 original size:2 final size:2
Alignment explanation
Indices: 279702--279738 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
279692 GATTGTCTTG
279702 AT AT AT AT AT AT AT AT AT AT A- 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
279739 CTATTAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:281226 original size:30 final size:31
Alignment explanation
Indices: 281185--281249 Score: 123
Period size: 30 Copynumber: 2.1 Consensus size: 31
281175 TTCATCTCGT
281185 AACTCAATGTCATCACATCTTAACAAAATTG
1 AACTCAATGTCATCACATCTTAACAAAATTG
281216 AACT-AATGTCATCACATCTTAACAAAATTG
1 AACTCAATGTCATCACATCTTAACAAAATTG
281246 AACT
1 AACT
281250 TCACGCCACT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 30 0.88
31 4 0.12
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (31 bp):
AACTCAATGTCATCACATCTTAACAAAATTG
Found at i:281520 original size:28 final size:27
Alignment explanation
Indices: 281489--281551 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
281479 AGTTGATACA
*
281489 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
281517 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
281545 ATATTTT
1 ATATTTT
281552 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:281648 original size:16 final size:18
Alignment explanation
Indices: 281627--281660 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
281617 TATTCTTATT
281627 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
281643 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
281661 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:281730 original size:14 final size:15
Alignment explanation
Indices: 281701--281734 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
281691 ATACATCTAA
281701 ATATAAATATACATTT
1 ATATAAATATA-ATTT
281717 ATATAAATAT-ATTT
1 ATATAAATATAATTT
281731 ATAT
1 ATAT
281735 TCGTTGTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
16 10 0.56
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATAAATATAATTT
Found at i:281807 original size:21 final size:21
Alignment explanation
Indices: 281783--281831 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
281773 TATTACCTTA
281783 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
281804 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
*
281825 AAATGAA
1 AATTGAA
281832 TTGGATCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:282524 original size:14 final size:16
Alignment explanation
Indices: 282488--282524 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
282478 TATTAATGTA
282488 TGAATCATTTATATTTT
1 TGAAT-ATTTATATTTT
282505 TGAATATTT-TATTTT
1 TGAATATTTATATTTT
282520 T-AATA
1 TGAATA
282525 AGAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 4 0.20
17 5 0.25
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (16 bp):
TGAATATTTATATTTT
Found at i:283215 original size:130 final size:130
Alignment explanation
Indices: 282982--283229 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
282972 AATTTTCTTC
* * *
282982 TAATTAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGAGGTAACAGGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
*
283047 CCTGATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
283112 TAATTAGGTGGTAACAGGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGAGGTAACAGGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
283177 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
283230 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (130 bp):
TAATTAGGAGGTAACAGGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:286593 original size:27 final size:27
Alignment explanation
Indices: 286553--286615 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
286543 TTCAAAAAAT
*
286553 ATTTATATTTAATATATTAGTTAACTA
1 ATTTGTATTTAATATATTAGTTAACTA
*
286580 TTTTGTATTTAATATATTAGTTAACTA
1 ATTTGTATTTAATATATTAGTTAACTA
286607 ATTTGTATT
1 ATTTGTATT
286616 AGATCATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (27 bp):
ATTTGTATTTAATATATTAGTTAACTA
Found at i:288719 original size:16 final size:16
Alignment explanation
Indices: 288698--288730 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
288688 TATTACATGT
*
288698 TAGTACTTTCTGAATG
1 TAGTACTCTCTGAATG
288714 TAGTACTCTCTGAATG
1 TAGTACTCTCTGAATG
288730 T
1 T
288731 GTTAATTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.42
Consensus pattern (16 bp):
TAGTACTCTCTGAATG
Found at i:292917 original size:21 final size:21
Alignment explanation
Indices: 292872--292918 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
292862 TAAAATACCC
* *
292872 TTAAAT-TTTTTTTTCTTTCA
1 TTAAATATTTTTATTCTGTCA
*
292892 -AAAATATTTTTATTCTGTCA
1 TTAAATATTTTTATTCTGTCA
292912 TTAAATA
1 TTAAATA
292919 ATAAAAATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 4 0.19
20 12 0.57
21 5 0.24
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (21 bp):
TTAAATATTTTTATTCTGTCA
Found at i:293127 original size:39 final size:38
Alignment explanation
Indices: 293047--293122 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 38
293037 TCATTAAACT
*
293047 TTTTATATTTTAAATTTTGTAAAAAAAAATTATATAAA
1 TTTTATAATTTAAATTTTGTAAAAAAAAATTATATAAA
* *
293085 TTTTATGAATTTAAATTTT-TTAAAGAAAA-TATATAAA
1 TTTTAT-AATTTAAATTTTGTAAAAAAAAATTATATAAA
293122 T
1 T
293123 ATTTTCCAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 9 0.26
38 14 0.41
39 11 0.32
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (38 bp):
TTTTATAATTTAAATTTTGTAAAAAAAAATTATATAAA
Found at i:293928 original size:41 final size:41
Alignment explanation
Indices: 293844--294295 Score: 733
Period size: 41 Copynumber: 10.9 Consensus size: 41
293834 ACGCGATAGT
* * *
293844 CGAAGTTCACATTGCGATTTATTCCAAATTCGTTGCGATAGG
1 CGAAGTTCGCATTGCGATTCATTCC-AATTCGTTGCGACAGG
*
293886 CGAAGTTCGCGTTGCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
*
293927 CGAAGTTCGCATTTCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
*
293968 CGAAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGACAGG
1 CGAAGTTCGCATTGCGATTCATTCC-AATTCGTTGCGACAGG
*
294010 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACATG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
* *
294051 CGAAGTTCACATTGCGATTCATTCCAATTCGTTACGACAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
* *
294092 CGAAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGACACG
1 CGAAGTTCGCATTGCGATTCATTCC-AATTCGTTGCGACAGG
294134 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
*
294175 CGAAGTTCGCATTGCGATTCATTCCAATTTGTTGCGACAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
*
294216 CGAAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGACAGG
1 CGAAGTTCGCATTGCGATTCATTCC-AATTCGTTGCGACAGG
*
294258 CGAAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGA
1 CGAAGTTCGCATTGCGATTCATTCC-AATTCGTTGCGA
294296 TAGTCCAAAT
Statistics
Matches: 385, Mismatches: 22, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
41 232 0.60
42 153 0.40
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (41 bp):
CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
Found at i:293932 original size:83 final size:82
Alignment explanation
Indices: 293844--294295 Score: 742
Period size: 83 Copynumber: 5.5 Consensus size: 82
293834 ACGCGATAGT
* * *
293844 CGAAGTTCACATTGCGATTTATTCCAAATTCGTTGCGATAGGCGAAGTTCGCGTTGCGATTCATT
1 CGAAGTTCGCATTGCGATTCATTCC-AATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATT
293909 CCAATTCGTTGCGACAGG
65 CCAATTCGTTGCGACAGG
*
293927 CGAAGTTCGCATTTCGATTCATTCCAATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTC
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTC
293992 CAAATTCGTTGCGACAGG
66 C-AATTCGTTGCGACAGG
* * *
294010 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACATGCGAAGTTCACATTGCGATTCATTC
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTC
*
294075 CAATTCGTTACGACAGG
66 CAATTCGTTGCGACAGG
* * *
294092 CGAAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGACACGCGAAGTTCGCATTGCGATTCATT
1 CGAAGTTCGCATTGCGATTCATTCC-AATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATT
294157 CCAATTCGTTGCGACAGG
65 CCAATTCGTTGCGACAGG
*
294175 CGAAGTTCGCATTGCGATTCATTCCAATTTGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTC
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTC
294240 CAAATTCGTTGCGACAGG
66 C-AATTCGTTGCGACAGG
*
294258 CGAAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGA
1 CGAAGTTCGCATTGCGATTCATTCC-AATTCGTTGCGA
294296 TAGTCCAAAT
Statistics
Matches: 346, Mismatches: 19, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
82 117 0.34
83 218 0.63
84 11 0.03
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (82 bp):
CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTC
CAATTCGTTGCGACAGG
Found at i:294029 original size:124 final size:124
Alignment explanation
Indices: 293844--294295 Score: 787
Period size: 124 Copynumber: 3.6 Consensus size: 124
293834 ACGCGATAGT
* * * * *
293844 CGAAGTTCACATTGCGATTTATTCCAAATTCGTTGCGATAGGCGAAGTTCGCGTTGCGATTCATT
1 CGAAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATT
*
293909 CCAATTCGTTGCGACAGGCGAAGTTCGCATTTCGATTCATTCCAATTCGTTGCGACAGG
66 CCAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
293968 CGAAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATT
1 CGAAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATT
* * *
294033 CCAATTCGTTGCGACATGCGAAGTTCACATTGCGATTCATTCCAATTCGTTACGACAGG
66 CCAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
*
294092 CGAAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGACACGCGAAGTTCGCATTGCGATTCATT
1 CGAAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATT
*
294157 CCAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATTCCAATTTGTTGCGACAGG
66 CCAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
*
294216 CGAAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATT
1 CGAAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATT
294281 CCAAATTCGTTGCGA
66 CC-AATTCGTTGCGA
294296 TAGTCCAAAT
Statistics
Matches: 311, Mismatches: 16, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
124 299 0.96
125 12 0.04
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (124 bp):
CGAAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATT
CCAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
Found at i:294304 original size:19 final size:19
Alignment explanation
Indices: 294238--294305 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 19
294228 TGCGATTCAT
*
294238 TCCAAATTCGTTGCGACAG
1 TCCAAATTCGTTGCGATAG
* * * *
294257 GCGAAGTTCGCGTTGCGATTCAT
1 TCCAAATT--CGTTGCGA-T-AG
294280 TCCAAATTCGTTGCGATAG
1 TCCAAATTCGTTGCGATAG
294299 TCCAAAT
1 TCCAAAT
294306 ATTGCATTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
19 13 0.36
20 1 0.03
21 16 0.44
23 6 0.17
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (19 bp):
TCCAAATTCGTTGCGATAG
Found at i:295234 original size:41 final size:41
Alignment explanation
Indices: 295171--295347 Score: 264
Period size: 41 Copynumber: 4.3 Consensus size: 41
295161 ATTTGGACTA
295171 TCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGCCTG
1 TCGCAACGAA-TTGGAATGAATCGCAACGCGAACTTCGCCTG
*
295213 TCGCAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTG
1 TCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGCCTG
** * *
295254 TCGCAAATAATTGGAATGAATCGCAATGCGAACTTCGCATG
1 TCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGCCTG
* * *
295295 TCACAACGAATTTGGAATGAATCGCAACGTGAACTTCGCCTA
1 TCGCAACGAA-TTGGAATGAATCGCAACGCGAACTTCGCCTG
295337 TCGCAACGAAT
1 TCGCAACGAAT
295348 CGCGTTGCAA
Statistics
Matches: 122, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
41 76 0.62
42 46 0.38
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (41 bp):
TCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGCCTG
Found at i:295274 original size:82 final size:83
Alignment explanation
Indices: 295168--295342 Score: 262
Period size: 83 Copynumber: 2.1 Consensus size: 83
295158 AATATTTGGA
** * *
295168 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGCCTGTCGCAACGAA-TTGGAATGA
1 CTATCGCAAATAA-TTGGAATGAATCGCAACGCGAACTTCGCATGTCACAACGAATTTGGAATGA
*
295232 ATCGCAATGCGAACTTCGC
65 ATCGCAACGCGAACTTCGC
* *
295251 CTGTCGCAAATAATTGGAATGAATCGCAATGCGAACTTCGCATGTCACAACGAATTTGGAATGAA
1 CTATCGCAAATAATTGGAATGAATCGCAACGCGAACTTCGCATGTCACAACGAATTTGGAATGAA
*
295316 TCGCAACGTGAACTTCGC
66 TCGCAACGCGAACTTCGC
295334 CTATCGCAA
1 CTATCGCAA
295343 CGAATCGCGT
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
82 38 0.46
83 44 0.54
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (83 bp):
CTATCGCAAATAATTGGAATGAATCGCAACGCGAACTTCGCATGTCACAACGAATTTGGAATGAA
TCGCAACGCGAACTTCGC
Found at i:302199 original size:29 final size:29
Alignment explanation
Indices: 302166--302225 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
302156 CGCAATTAAG
* *
302166 TACTTGAATTTGGT-TTTCGGTTTGCAACT
1 TACTTGAATTTGGTGTGT-GATTTGCAACT
*
302195 TACTTGAGTTTGGTGTGTGATTTGCAACT
1 TACTTGAATTTGGTGTGTGATTTGCAACT
302224 TA
1 TA
302226 AACTTTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.18, C:0.12, G:0.23, T:0.47
Consensus pattern (29 bp):
TACTTGAATTTGGTGTGTGATTTGCAACT
Found at i:309198 original size:16 final size:16
Alignment explanation
Indices: 309177--309208 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
309167 AATAAATAAG
309177 CGAACATAAACGAACA
1 CGAACATAAACGAACA
309193 CGAACATAAACGAACA
1 CGAACATAAACGAACA
309209 AATTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.25, G:0.12, T:0.06
Consensus pattern (16 bp):
CGAACATAAACGAACA
Found at i:309289 original size:10 final size:10
Alignment explanation
Indices: 309274--309348 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
309264 CATTTAATAA
309274 ATAAACGAAC
1 ATAAACGAAC
309284 ATAAACGAAC
1 ATAAACGAAC
309294 ----ACGAAC
1 ATAAACGAAC
309300 ATAAACGAAC
1 ATAAACGAAC
** *
309310 ACGAAC-ATAA
1 ATAAACGA-AC
309320 ATGAACACGAAC
1 AT-AA-ACGAAC
309332 ATAAACGAAC
1 ATAAACGAAC
309342 ATAAACG
1 ATAAACG
309349 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:309299 original size:16 final size:16
Alignment explanation
Indices: 309278--309342 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
309268 TAATAAATAA
309278 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
309294 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
309310 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
309326 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
309342 A
1 A
309343 TAAACGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:313237 original size:24 final size:24
Alignment explanation
Indices: 313202--313263 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
313192 TATTATGTTA
*
313202 AACATAAATGAACGCACATAAACG
1 AACATAACTGAACGCACATAAACG
*
313226 AACATAACTGAACGCATATAAACG
1 AACATAACTGAACGCACATAAACG
*
313250 AACATAACCGAACG
1 AACATAACTGAACG
313264 TTCATGAACG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.52, C:0.23, G:0.13, T:0.13
Consensus pattern (24 bp):
AACATAACTGAACGCACATAAACG
Found at i:313284 original size:34 final size:34
Alignment explanation
Indices: 313206--313286 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 34
313196 ATGTTAAACA
*
313206 TAAATGAACGCACATAAACGAACATAACTGAACG
1 TAAATGAACGAACATAAACGAACATAACTGAACG
* * * * * *
313240 CATATAAACGAACATAACCGAACGT-TCATGAACG
1 TAAATGAACGAACATAAACGAACATAAC-TGAACG
313274 TAAATGAACGAAC
1 TAAATGAACGAAC
313287 GAGACCTATG
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
33 1 0.03
34 35 0.97
ACGTcount: A:0.48, C:0.21, G:0.15, T:0.16
Consensus pattern (34 bp):
TAAATGAACGAACATAAACGAACATAACTGAACG
Found at i:316775 original size:23 final size:26
Alignment explanation
Indices: 316738--316788 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
316728 TAATTTCTAT
*
316738 ATTTCAAAAGTATAT-TTTTATTTAA
1 ATTTCAAAAGTATATATTTTATTGAA
316763 ATTT-AAAA-TATATATTTTATTGAA
1 ATTTCAAAAGTATATATTTTATTGAA
316787 AT
1 AT
316789 AACAATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 5 0.21
24 15 0.62
25 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (26 bp):
ATTTCAAAAGTATATATTTTATTGAA
Found at i:328497 original size:21 final size:21
Alignment explanation
Indices: 328473--328529 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
328463 TTTTTTTCTT
328473 TTTAAGGTTTAGGGTTTAAGG
1 TTTAAGGTTTAGGGTTTAAGG
* * *
328494 TTTAA-GATTCGTGGTTTAATG
1 TTTAAGGTTTAG-GGTTTAAGG
328515 TTT-AGGATTTAGGGT
1 TTTAAGG-TTTAGGGT
328530 ATAAATTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
20 5 0.18
21 20 0.71
22 3 0.11
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.46
Consensus pattern (21 bp):
TTTAAGGTTTAGGGTTTAAGG
Found at i:335288 original size:75 final size:75
Alignment explanation
Indices: 335161--335369 Score: 267
Period size: 75 Copynumber: 2.8 Consensus size: 75
335151 ATCTATTGGC
* ** * *
335161 GAAAGGGAGCTGAGGAAGATGACCATGAGTTGCAGCTTGTTCATTTATGGGACAGAAAGATTGT-
1 GAAAGGGAGCCGAGGAAGATGACCATGAGACGCAGCTTGTTCATTCAAGGGACAGAAAGATT-TA
* **
335225 TTTTGACCGGT
65 TTTCGACCACT
* *
335236 GAAAGGGAGCCGAGGAAGATGACCATGAGACACAGCTTGTTCGTTCAAGGGACAGAAAGATTTAT
1 GAAAGGGAGCCGAGGAAGATGACCATGAGACGCAGCTTGTTCATTCAAGGGACAGAAAGATTTAT
*
335301 TTCGTCCACT
66 TTCGACCACT
* * * *
335311 AAAAGGGAGCCGAGGAAGATGACCATGAGACGCAGCTTGTTCATTTACGGGACGGAAAG
1 GAAAGGGAGCCGAGGAAGATGACCATGAGACGCAGCTTGTTCATTCAAGGGACAGAAAG
335370 GCCGATTGTT
Statistics
Matches: 116, Mismatches: 17, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
74 1 0.01
75 115 0.99
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (75 bp):
GAAAGGGAGCCGAGGAAGATGACCATGAGACGCAGCTTGTTCATTCAAGGGACAGAAAGATTTAT
TTCGACCACT
Found at i:336597 original size:15 final size:15
Alignment explanation
Indices: 336577--336606 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
336567 GTGAAAAGAA
*
336577 TTTTTTATTACTTTT
1 TTTTTTATTAATTTT
336592 TTTTTTATTAATTTT
1 TTTTTTATTAATTTT
336607 GATGAGTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTATTAATTTT
Found at i:344483 original size:23 final size:23
Alignment explanation
Indices: 344456--344501 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
344446 GGATAAGAAA
344456 GACTCATCAATGATAACTCACCC
1 GACTCATCAATGATAACTCACCC
* * *
344479 GACTCGTCAATGGTGACTCACCC
1 GACTCATCAATGATAACTCACCC
344502 CCCAATAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.22
Consensus pattern (23 bp):
GACTCATCAATGATAACTCACCC
Done.