Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003088.1 Hibiscus syriacus cultivar Beakdansim tig00006446_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: 148479
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Found at i:226 original size:21 final size:21
Alignment explanation
Indices: 201--241 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
191 ATTTTTTTAA
*
201 TAAAACTGACAATTT-TATTT
1 TAAAAATGACAATTTATATTT
*
221 TAAAAATGATAATTTATATTT
1 TAAAAATGACAATTTATATTT
242 ACTTTAGTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (21 bp):
TAAAAATGACAATTTATATTT
Found at i:1754 original size:63 final size:63
Alignment explanation
Indices: 1675--1894 Score: 212
Period size: 63 Copynumber: 3.5 Consensus size: 63
1665 TTGAAGGTGT
** **
1675 ATCGATGCATTGGTAGTGCATCGATGCACTCTTTTAA-AATAAAAACATCGAA-GCAATTCATGC
1 ATCGATGCATAAGTAGTGCATCGATGCA-TCCATTAATAAT-AAAACATCGAATGCAATTCATGC
* * **
1738 ATCGATGCATAAGTAGTGCATCAATGCATCCATTAATAATGAAACATCGAATGCAATTGGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCATTAATAATAAAACATCGAATGCAATTCATGC
* ** * * ** *
1801 ATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAATAATACATCG-ATACCTTTTATATG
1 ATCGATGCATAAGTAGTGCATCGATGCAT-CCATTAATAATAAAACATCGAAT-GCAATT-CATG
1865 C
63 C
* *
1866 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
1895 ACCTTCATTA
Statistics
Matches: 130, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
62 16 0.12
63 66 0.51
64 19 0.15
65 29 0.22
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (63 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCATTAATAATAAAACATCGAATGCAATTCATGC
Found at i:2387 original size:15 final size:15
Alignment explanation
Indices: 2369--2401 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
2359 GAGGGTATAA
2369 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
2384 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
2399 TAG
1 TAG
2402 GGGTCCTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.18, G:0.33, T:0.33
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:8590 original size:62 final size:63
Alignment explanation
Indices: 8524--8739 Score: 208
Period size: 62 Copynumber: 3.5 Consensus size: 63
8514 TTGAAGGTGT
** * ** *
8524 ATCGATGCATTGGTAGTGCATCAATTCA-CTCTTTTAA-AATAAAACA-CGAATGTAATTCATGC
1 ATCGATGCATAAGTAGTGCATCAATGCATC-CCATTAATAAT-AAACATCGAATGCAATTCATGC
**
8586 ATCGATGCATAAGTAGTGCATCAATGCATCCCATTAATAATAAACATCGAATGCAATTGGTGC
1 ATCGATGCATAAGTAGTGCATCAATGCATCCCATTAATAATAAACATCGAATGCAATTCATGC
* * * * ** *
8649 ATCGATGCATAAGGAGTGCATCGATGCATCCGCAATAATAAT--ACATCGAATACCTTTTATGC
1 ATCGATGCATAAGTAGTGCATCAATGCATCC-CATTAATAATAAACATCGAATGCAATTCATGC
* * *
8711 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCAATGCAT
8740 ACCTTCATTA
Statistics
Matches: 131, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
62 76 0.58
63 46 0.35
64 9 0.07
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (63 bp):
ATCGATGCATAAGTAGTGCATCAATGCATCCCATTAATAATAAACATCGAATGCAATTCATGC
Found at i:9062 original size:12 final size:12
Alignment explanation
Indices: 9044--9079 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
9034 CATATATGTT
9044 CATGTGATATGA
1 CATGTGATATGA
*
9056 TATGTGATATGA
1 CATGTGATATGA
9068 CATGTGATATGA
1 CATGTGATATGA
9080 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:9088 original size:25 final size:22
Alignment explanation
Indices: 9060--9110 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
9050 ATATGATATG
9060 TGATATGACATGTGATATGAGAACA
1 TGATATGA-A-GTGATATGA-AACA
*
9085 TGATATGAAGTGATATGATACA
1 TGATATGAAGTGATATGAAACA
9107 TGAT
1 TGAT
9111 CACAAGAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 7 0.28
23 9 0.36
24 1 0.04
25 8 0.32
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.31
Consensus pattern (22 bp):
TGATATGAAGTGATATGAAACA
Found at i:14245 original size:17 final size:17
Alignment explanation
Indices: 14207--14245 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
14197 TTTCTTTAAA
*
14207 AAAAATCAAATTTATCT
1 AAAAATCAAATTTAACT
* *
14224 GAAAATTAAATTTAACT
1 AAAAATCAAATTTAACT
14241 AAAAA
1 AAAAA
14246 AAAACAGTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.31
Consensus pattern (17 bp):
AAAAATCAAATTTAACT
Found at i:28402 original size:36 final size:36
Alignment explanation
Indices: 28351--28420 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
28341 TGAGGGTTAT
28351 AATGATTCTCCTAAATAATATTAAAGGCTAAATTAG
1 AATGATTCTCCTAAATAATATTAAAGGCTAAATTAG
* * * *
28387 AATGATTTTCTTAAATAATTTTAAAGGTTAAATT
1 AATGATTCTCCTAAATAATATTAAAGGCTAAATT
28421 GATGTAAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (36 bp):
AATGATTCTCCTAAATAATATTAAAGGCTAAATTAG
Found at i:29528 original size:185 final size:185
Alignment explanation
Indices: 29163--29542 Score: 572
Period size: 185 Copynumber: 2.1 Consensus size: 185
29153 ATTAATCGAA
* * ** *
29163 ATAAAATTTTA-ATTATATTGTATATAACATATAGGCTCAGTCCAAACCATTTAAAACTTAATTA
1 ATAAAATATTATA-TATATTATATATAACATATAGGCTCAACCCAAACCATTTAAAACTCAATTA
* *
29227 ATAATTTAAGATCTAATAACTTTTAAACGTAAATCAATATTAATTAATTAAAAAAATTATATAAA
65 ATAATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAA
* *
29292 ATTTTTATTTTATAATTATATATTATTTAAATTAATTGTAAACTATTTTTTTGAATT
130 ATTTATATTTTATAATTATATATTATTTAAATTAATTATAAACTATTTTTTT-AATT
*
29349 A-AAAATATTATATATATTATATATAACATAT-GAGCTCAACCCAAACTATTTAAAA-TCCAATT
1 ATAAAATATTATATATATTATATATAACATATAG-GCTCAACCCAAACCATTTAAAACT-CAATT
*
29411 AATAATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTACTTAA-TAAAAAAATTATATAA
64 AATAATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAA
*
29475 AATTTATATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTTAATT
129 AATTTATATTTTATAATTATATATTATTTAAATTAATTATAAACT-ATTTTTTTAATT
29533 ATAAAATATT
1 ATAAAATATT
29543 TAATTTTTAT
Statistics
Matches: 177, Mismatches: 12, Indels: 11
0.88 0.06 0.05
Matches are distributed among these distances:
184 66 0.37
185 109 0.62
186 2 0.01
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (185 bp):
ATAAAATATTATATATATTATATATAACATATAGGCTCAACCCAAACCATTTAAAACTCAATTAA
TAATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAA
TTTATATTTTATAATTATATATTATTTAAATTAATTATAAACTATTTTTTTAATT
Found at i:45052 original size:12 final size:13
Alignment explanation
Indices: 45037--45067 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
45027 ATTAATCTGA
45037 TAATTAAATTA-T
1 TAATTAAATTATT
45049 TAATTAAATTATT
1 TAATTAAATTATT
45062 TAATTA
1 TAATTA
45068 TTTGAATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAATTAAATTATT
Found at i:45059 original size:29 final size:29
Alignment explanation
Indices: 44947--45047 Score: 193
Period size: 29 Copynumber: 3.5 Consensus size: 29
44937 ATTATATGAA
44947 TGATAATTAAATTACGAAAAAATTTAATC
1 TGATAATTAAATTACGAAAAAATTTAATC
44976 TGATAATTAAATTACGAAAAAATTTAATC
1 TGATAATTAAATTACGAAAAAATTTAATC
*
45005 TGATAATTAAATTACGAAAAAAATTAATC
1 TGATAATTAAATTACGAAAAAATTTAATC
45034 TGATAATTAAATTA
1 TGATAATTAAATTA
45048 TTAATTAAAT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.35
Consensus pattern (29 bp):
TGATAATTAAATTACGAAAAAATTTAATC
Found at i:45118 original size:25 final size:29
Alignment explanation
Indices: 45079--45135 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 29
45069 TTGAATGATA
*
45079 TTAATTAAAATATTAAT-T-ATTA-ACAT
1 TTAATTAAAAAATTAATATAATTATACAT
45105 TTAA-TAAAAAATTAATATAATTATACAT
1 TTAATTAAAAAATTAATATAATTATACAT
45133 TTA
1 TTA
45136 TTTTAGAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 11 0.41
26 5 0.19
27 4 0.15
28 7 0.26
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (29 bp):
TTAATTAAAAAATTAATATAATTATACAT
Found at i:47675 original size:4 final size:4
Alignment explanation
Indices: 47666--47692 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
47656 TTCAACTATG
47666 TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TAT
47693 ACATACATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:48468 original size:20 final size:20
Alignment explanation
Indices: 48392--48484 Score: 116
Period size: 20 Copynumber: 4.7 Consensus size: 20
48382 GCGATTTTCC
* *
48392 GACTATCGCAATGCGAATAT
1 GACTATCGCAATGCGATTCT
* *
48412 GTA-AATCGCAATGCGATTAT
1 G-ACTATCGCAATGCGATTCT
48432 GACTATCGCAATGCGATTCT
1 GACTATCGCAATGCGATTCT
*
48452 GACTATCGCAACGCGATTCT
1 GACTATCGCAATGCGATTCT
*
48472 GACTGTCGCAATG
1 GACTATCGCAATG
48485 TTGAATTTCA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
19 1 0.02
20 62 0.97
21 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (20 bp):
GACTATCGCAATGCGATTCT
Found at i:49338 original size:24 final size:24
Alignment explanation
Indices: 49304--49357 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
49294 GTATTTGAAA
49304 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
49328 TTTGATTTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
49352 TTTGAT
1 TTTGAT
49358 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:49576 original size:14 final size:14
Alignment explanation
Indices: 49547--49583 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
49537 AGAAAAAGAA
49547 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
49562 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
49576 GAAGAAAA
1 GAAGAAAA
49584 TGCCATGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:51642 original size:18 final size:18
Alignment explanation
Indices: 51619--51653 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
51609 AGCAAAAGGC
51619 AATCAAAATCGCAATCAA
1 AATCAAAATCGCAATCAA
*
51637 AATCAAAATCTCAATCA
1 AATCAAAATCGCAATCA
51654 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.20
Consensus pattern (18 bp):
AATCAAAATCGCAATCAA
Found at i:51856 original size:20 final size:20
Alignment explanation
Indices: 51831--52057 Score: 261
Period size: 20 Copynumber: 11.7 Consensus size: 20
51821 CACATTCATT
51831 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
*
51851 TGACTATCGCAACGTGAATA
1 TGACTATCGCAACGCGAATA
51871 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
* * *
51891 TGATTATCGCAACGTGAATT
1 TGACTATCGCAACGCGAATA
* *
51911 TGAATATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
51928 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
51945 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* *
51965 TGACTATCACAACGCGAATT
1 TGACTATCGCAACGCGAATA
*
51985 TAACTATCGCAACGCGAA-A
1 TGACTATCGCAACGCGAATA
*
52004 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * *
52024 TGATTATCGCAACGGGAATT
1 TGACTATCGCAACGCGAATA
52044 TGACTATCGCAACG
1 TGACTATCGCAACG
52058 AGAAAATCGC
Statistics
Matches: 178, Mismatches: 22, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
14 8 0.04
15 1 0.01
16 1 0.01
17 3 0.02
18 1 0.01
19 18 0.10
20 146 0.82
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:51955 original size:74 final size:78
Alignment explanation
Indices: 51828--52057 Score: 281
Period size: 74 Copynumber: 3.0 Consensus size: 78
51818 TTACACATTC
* * *
51828 ATTTGACTATCGCAACGCGAATATGACTATCGCAACGTGAATATGACTATCGCAACGCGAATATG
1 ATTTAACTATCGCAACGCGAA-ATGAC-ATCGCAACGCGAATATGACTATCGCAACGCGAATTTG
* *
51893 ATTATCGCAACGTGA
64 ACTATCGCAACGCGA
* * *
51908 ATTTGAA-TATCGCAACG-G-GAT-A-ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGA
1 ATTT-AACTATCGCAACGCGAAATGACATCGCAACGCGAATATGACTATCGCAACGCGAATTTGA
*
51968 CTATCACAACGCGA
65 CTATCGCAACGCGA
* * *
51982 ATTTAACTATCGCAACGCGAAATGACTATCGCAACGCGAATTTGATTATCGCAACGGGAATTTGA
1 ATTTAACTATCGCAACGCGAAATGAC-ATCGCAACGCGAATATGACTATCGCAACGCGAATTTGA
52047 CTATCGCAACG
65 CTATCGCAACG
52058 AGAAAATCGC
Statistics
Matches: 127, Mismatches: 16, Indels: 15
0.80 0.10 0.09
Matches are distributed among these distances:
73 2 0.02
74 59 0.46
75 1 0.01
76 3 0.02
77 3 0.02
79 44 0.35
80 14 0.11
81 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (78 bp):
ATTTAACTATCGCAACGCGAAATGACATCGCAACGCGAATATGACTATCGCAACGCGAATTTGAC
TATCGCAACGCGA
Found at i:51997 original size:94 final size:93
Alignment explanation
Indices: 51836--52017 Score: 256
Period size: 94 Copynumber: 1.9 Consensus size: 93
51826 TCATTTGACT
* * * * *
51836 ATCGCAACGCGAATATGACTATCGCAACGTGAATATGACTATCGCAACGCGAATATGATTATCGC
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAATATGACTATCACAACGCGAATATAACTATCGC
* *
51901 AACGTGAATTTGAATATCGCAACGGGATA
66 AACGCGAA-ATGAATATCGCAACGGGATA
* * *
51930 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCACAACGCGAATTTAACTATCGC
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAATATGACTATCACAACGCGAATATAACTATCGC
*
51995 AACGCGAAATGACTATCGCAACG
66 AACGCGAAATGAATATCGCAACG
52018 CGAATTTGAT
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
93 13 0.17
94 64 0.83
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.22
Consensus pattern (93 bp):
ATCGCAACGCGAAAATGACTATCGCAACGCGAATATGACTATCACAACGCGAATATAACTATCGC
AACGCGAAATGAATATCGCAACGGGATA
Found at i:52905 original size:42 final size:42
Alignment explanation
Indices: 52798--52909 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 42
52788 TCTAGAATGT
* *
52798 TGGGAG-GGACTTCTTCAACGATGACAGTGGCCTCTTGAACAG
1 TGGGAGAGGAC-TCTTGAACGATGACAGGGGCCTCTTGAACAG
* ** *
52840 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAAC-G
1 TGGGAGAGGACTCTTGAACGATGACAGGGGCCTCTTGAACAG
*
52881 ATAGGG-GAGGCCTCTTGAACGATGACAGG
1 -T-GGGAGAGGACTCTTGAACGATGACAGG
52910 TGAGTCGGGC
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
41 1 0.02
42 49 0.86
43 7 0.12
ACGTcount: A:0.23, C:0.18, G:0.38, T:0.21
Consensus pattern (42 bp):
TGGGAGAGGACTCTTGAACGATGACAGGGGCCTCTTGAACAG
Found at i:53435 original size:20 final size:20
Alignment explanation
Indices: 53406--53479 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
53396 TAGCAACACG
*
53406 AATGATTATCGCAATGCAAA
1 AATGACTATCGCAATGCAAA
*
53426 AATGACTATCGCAATGCGAA
1 AATGACTATCGCAATGCAAA
* * * *
53446 AATAACTATTGTAACGCAAA
1 AATGACTATCGCAATGCAAA
53466 AATGACTATCGCAA
1 AATGACTATCGCAA
53480 CGCGAATTTG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.23
Consensus pattern (20 bp):
AATGACTATCGCAATGCAAA
Found at i:53481 original size:20 final size:20
Alignment explanation
Indices: 53406--53501 Score: 93
Period size: 20 Copynumber: 4.8 Consensus size: 20
53396 TAGCAACACG
* *
53406 AATGATTATCGCAATGCAAA
1 AATGACTATCGCAACGCAAA
* *
53426 AATGACTATCGCAATGCGAA
1 AATGACTATCGCAACGCAAA
* * *
53446 AATAACTATTGTAACGCAAA
1 AATGACTATCGCAACGCAAA
*
53466 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGCAAA
** *
53486 TTTGACTATTGCAACG
1 AATGACTATCGCAACG
53502 AGAGAATCGC
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (20 bp):
AATGACTATCGCAACGCAAA
Found at i:53494 original size:40 final size:40
Alignment explanation
Indices: 53416--53501 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
53406 AATGATTATC
* *
53416 GCAATGCAAAAATGACTATCGCAATGCGAAAATAACTATT
1 GCAACGCAAAAATGACTATCGCAACGCGAAAATAACTATT
* ** *
53456 GTAACGCAAAAATGACTATCGCAACGCGAATTTGACTATT
1 GCAACGCAAAAATGACTATCGCAACGCGAAAATAACTATT
53496 GCAACG
1 GCAACG
53502 AGAGAATCGC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (40 bp):
GCAACGCAAAAATGACTATCGCAACGCGAAAATAACTATT
Found at i:53586 original size:20 final size:19
Alignment explanation
Indices: 53545--53591 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
53535 CGATTCTTTT
53545 GTTGCGATAGTCAAATTTGC
1 GTTGCGATAGTC-AATTTGC
53565 GTTGCGATAGTC-ATTTCCGC
1 GTTGCGATAGTCAATTT--GC
53585 GTTGCGA
1 GTTGCGA
53592 AAGTAAACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.16
20 21 0.84
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (19 bp):
GTTGCGATAGTCAATTTGC
Found at i:55523 original size:20 final size:20
Alignment explanation
Indices: 55500--55567 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
55490 TCTGAAACTT
55500 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
55520 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * *
55540 ACTATCGCAACGCGAAACT-
1 AAAATCGCAACACGAAAATG
55559 AAAATCGCA
1 AAAATCGCA
55568 TTGCGATTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 7 0.17
20 35 0.83
ACGTcount: A:0.50, C:0.24, G:0.15, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:55974 original size:22 final size:23
Alignment explanation
Indices: 55942--55997 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
55932 GATGGAGATA
55942 GACGGATTTCGCT-GGAGATGGG
1 GACGGATTTCGCTCGGAGATGGG
*
55964 GACTGATTTCG-TCGGAGATGGG
1 GACGGATTTCGCTCGGAGATGGG
*
55986 GACGGATGTCGC
1 GACGGATTTCGC
55998 CTTAGAGAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 28 0.97
ACGTcount: A:0.18, C:0.16, G:0.43, T:0.23
Consensus pattern (23 bp):
GACGGATTTCGCTCGGAGATGGG
Found at i:56218 original size:20 final size:20
Alignment explanation
Indices: 56163--56236 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
56153 GCGCTTTGAA
* *
56163 AATCGCATTGCGACAGTCAG
1 AATCGTATTGCGATAGTCAG
* **
56183 AATCGTGTTGTAATAGTCAG
1 AATCGTATTGCGATAGTCAG
* *
56203 AATCATATTGCGATAGTCAT
1 AATCGTATTGCGATAGTCAG
*
56223 AATCGCATTGCGAT
1 AATCGTATTGCGAT
56237 TTACATATTC
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (20 bp):
AATCGTATTGCGATAGTCAG
Found at i:56243 original size:20 final size:20
Alignment explanation
Indices: 56220--56296 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
56210 TTGCGATAGT
*
56220 CATAATCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
* *
56240 CATATTCGCGTTGCGATAGT-
1 CATATTCGCATTGCGAT-TTA
*
56260 CATACTCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
56280 CATATTCGCATTGCGAT
1 CATATTCGCATTGCGAT
56297 AGTCGGAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (20 bp):
CATATTCGCATTGCGATTTA
Found at i:56254 original size:40 final size:40
Alignment explanation
Indices: 56209--56300 Score: 166
Period size: 40 Copynumber: 2.3 Consensus size: 40
56199 TCAGAATCAT
56209 ATTGCGATAGTCATAATCGCATTGCGATTTACATATTCGC
1 ATTGCGATAGTCATAATCGCATTGCGATTTACATATTCGC
* *
56249 GTTGCGATAGTCATACTCGCATTGCGATTTACATATTCGC
1 ATTGCGATAGTCATAATCGCATTGCGATTTACATATTCGC
56289 ATTGCGATAGTC
1 ATTGCGATAGTC
56301 GGAAAATCGC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (40 bp):
ATTGCGATAGTCATAATCGCATTGCGATTTACATATTCGC
Found at i:58034 original size:20 final size:20
Alignment explanation
Indices: 58009--58075 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
57999 GTTTCCAGAT
*
58009 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTATGACTA
* * *
58029 TCGCAATGCGAATATGTA-AA
1 TCGCAACGCGATTATG-ACTA
*
58049 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTATGACTA
58069 TCGCAAC
1 TCGCAAC
58076 ATGATTCTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 1 0.03
20 35 0.95
21 1 0.03
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATTATGACTA
Found at i:58081 original size:20 final size:20
Alignment explanation
Indices: 58048--58091 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
58038 GAATATGTAA
* *
58048 ATCGCAACGCGATTCTGACT
1 ATCGCAACACGATTCTGAAT
*
58068 ATCGCAACATGATTCTGAAT
1 ATCGCAACACGATTCTGAAT
58088 ATCG
1 ATCG
58092 TAACGAGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (20 bp):
ATCGCAACACGATTCTGAAT
Found at i:58291 original size:22 final size:22
Alignment explanation
Indices: 58266--58316 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
58256 CTACGGCGAC
* *
58266 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTACGACAAA
* *
58288 ATCCATCCCCATCTACGGCAAA
1 ATCCGTCCCCATCTACGACAAA
58310 ATCCGTC
1 ATCCGTC
58317 TATCTCCATC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.25, C:0.43, G:0.12, T:0.20
Consensus pattern (22 bp):
ATCCGTCCCCATCTACGACAAA
Found at i:58716 original size:20 final size:20
Alignment explanation
Indices: 58691--58807 Score: 95
Period size: 20 Copynumber: 6.2 Consensus size: 20
58681 AAAATCGCAA
58691 CGATAGTCAAATTCGCGTTG
1 CGATAGTCAAATTCGCGTTG
** *
58711 CGATAGTCATTTTCGTGTTG
1 CGATAGTCAAATTCGCGTTG
** *
58731 CGATTTTC-ATTTCGCGTTG
1 CGATAGTCAAATTCGCGTTG
*
58750 CGAT--T---A-TCTCGTTG
1 CGATAGTCAAATTCGCGTTG
58764 CGATAGTCAAATTCGCGTTG
1 CGATAGTCAAATTCGCGTTG
** *
58784 CGATAGTCATTTTCGTGTTG
1 CGATAGTCAAATTCGCGTTG
58804 CGAT
1 CGAT
58808 TTTAAGTTTC
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
14 11 0.14
16 1 0.01
17 1 0.01
19 14 0.18
20 51 0.65
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.39
Consensus pattern (20 bp):
CGATAGTCAAATTCGCGTTG
Found at i:58786 original size:53 final size:54
Alignment explanation
Indices: 58706--58808 Score: 145
Period size: 53 Copynumber: 1.9 Consensus size: 54
58696 GTCAAATTCG
** * **
58706 CGTTGCGATAGTCATTTTCGTGTTGCGATTTTCA-TTTCGCGTTGCGATTATCT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCGTTGCGATTATCT
*
58759 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGTGTTGCGATT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCGTTGCGATT
58809 TTAAGTTTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 29 0.67
54 14 0.33
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.42
Consensus pattern (54 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCGTTGCGATTATCT
Found at i:58829 original size:73 final size:73
Alignment explanation
Indices: 58691--58829 Score: 208
Period size: 73 Copynumber: 1.9 Consensus size: 73
58681 AAAATCGCAA
* * ***
58691 CGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTCGCGTTGCGATTA
1 CGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTAATTTCGAGAAACGATTA
58756 TCTCGTTG
66 TCTCGTTG
*
58764 CGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTAAGTTTC-AGAAACTATT
1 CGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTAA-TTTCGAGAAACGATT
58828 AT
65 AT
58830 TCTTCTGCAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
73 55 0.93
74 4 0.07
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (73 bp):
CGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTAATTTCGAGAAACGATTA
TCTCGTTG
Found at i:60609 original size:14 final size:14
Alignment explanation
Indices: 60587--60648 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
60577 TTGCTTGTTT
*
60587 AATTGATTTGTAAA
1 AATTAATTTGTAAA
60601 AATTAATTTGTAAA
1 AATTAATTTGTAAA
* * *
60615 AGTTGATTTGTTTAA
1 AATTAATTTG-TAAA
* *
60630 TATTAATGTGTAAA
1 AATTAATTTGTAAA
60644 TAATT
1 -AATT
60649 CTTATTTGTG
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
14 24 0.67
15 12 0.33
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
AATTAATTTGTAAA
Found at i:60621 original size:28 final size:29
Alignment explanation
Indices: 60589--60643 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
60579 GCTTGTTTAA
*
60589 TTGATTTG-TAAAAATTAATTTGTAAAAG
1 TTGATTTGTTAAAAATTAATGTGTAAAAG
* *
60617 TTGATTTGTTTAATATTAATGTGTAAA
1 TTGATTTGTTAAAAATTAATGTGTAAA
60644 TAATTCTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (29 bp):
TTGATTTGTTAAAAATTAATGTGTAAAAG
Found at i:60785 original size:20 final size:20
Alignment explanation
Indices: 60762--60800 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
60752 ACGCTAAACT
*
60762 CAAAATCGCAATACGAAAGC
1 CAAAATCGCAACACGAAAGC
60782 CAAAATCGCAACACGAAAG
1 CAAAATCGCAACACGAAAG
60801 TCAATTCGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.26, G:0.15, T:0.08
Consensus pattern (20 bp):
CAAAATCGCAACACGAAAGC
Found at i:60868 original size:20 final size:20
Alignment explanation
Indices: 60843--60973 Score: 148
Period size: 20 Copynumber: 6.8 Consensus size: 20
60833 GCGATTTTCT
* *
60843 CGTTGCGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCG
* *
60863 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCG
60883 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
60903 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
60923 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
* *
60937 AGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
60957 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
60974 GAATGTGTAA
Statistics
Matches: 95, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
14 11 0.12
16 1 0.01
18 1 0.01
20 82 0.86
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:60930 original size:94 final size:93
Alignment explanation
Indices: 60799--60973 Score: 246
Period size: 94 Copynumber: 1.9 Consensus size: 93
60789 GCAACACGAA
* * * *
60799 AGTCAATTCGCGTTGCGATAGTCTAATATGCTTTGCGATTTTCT-CGTTGCGATAGTCAAATACC
1 AGTCAATTCGCGTTGCGATAGTCAAATATGCGTTGCGATTTT-TGAGTTGCGATAATCAAATACC
60863 CGTTGCGATAATCAAATTCACGTTGCGAT
65 CGTTGCGATAATCAAATTCACGTTGCGAT
*
60892 AGTCAAATTCGCGTTGCGATAGTCAAAT-TCGCGTTGCGATTTTTGAGTTGCGATAATCAAATTC
1 AGTC-AATTCGCGTTGCGATAGTCAAATAT-GCGTTGCGATTTTTGAGTTGCGATAATCAAATAC
* *
60956 GCGTTGCGATATTCAAAT
64 CCGTTGCGATAATCAAAT
60974 GAATGTGTAA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
93 6 0.08
94 66 0.92
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (93 bp):
AGTCAATTCGCGTTGCGATAGTCAAATATGCGTTGCGATTTTTGAGTTGCGATAATCAAATACCC
GTTGCGATAATCAAATTCACGTTGCGAT
Found at i:61200 original size:140 final size:140
Alignment explanation
Indices: 60948--61226 Score: 522
Period size: 140 Copynumber: 2.0 Consensus size: 140
60938 GTTGCGATAA
60948 TCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCATAGC
1 TCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCATAGC
*
61013 AATGTTCAAACTCAAGTTACTAATACATGTCTAACTGAAAATGTTAAAAGTTTACACAAAAAATA
66 AATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACAAAAAATA
61078 CACATAATAG
131 CACATAATAG
* *
61088 TCAAATTTGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCATAGC
1 TCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCATAGC
*
61153 AATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATA
66 AATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACAAAAAATA
61218 CACATAATA
131 CACATAATA
61227 CAACGTTTGC
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 135 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (140 bp):
TCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCATAGC
AATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACAAAAAATA
CACATAATAG
Found at i:61330 original size:18 final size:18
Alignment explanation
Indices: 61279--61324 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
61269 AGGTGAAGCC
*
61279 GATTGTGATTGGGATTTT
1 GATTGTGATTGCGATTTT
*
61297 GATTTTGATTGCGATTTT
1 GATTGTGATTGCGATTTT
*
61315 GATTGCGATT
1 GATTGTGATT
61325 TTGATTGCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.17, C:0.04, G:0.28, T:0.50
Consensus pattern (18 bp):
GATTGTGATTGCGATTTT
Found at i:61338 original size:12 final size:12
Alignment explanation
Indices: 61297--61332 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
61287 TTGGGATTTT
61297 GATTTTGATTGC
1 GATTTTGATTGC
61309 GATTTTGATTGC
1 GATTTTGATTGC
61321 GATTTTGATTGC
1 GATTTTGATTGC
61333 CTTTTTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.17, C:0.08, G:0.25, T:0.50
Consensus pattern (12 bp):
GATTTTGATTGC
Found at i:61338 original size:24 final size:23
Alignment explanation
Indices: 61297--61342 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
61287 TTGGGATTTT
*
61297 GATTTTGATTGCGATTTTGATTGC
1 GATTTTGATTGCCATTTT-ATTGC
*
61321 GATTTTGATTGCCTTTTTATTG
1 GATTTTGATTGCCATTTTATTG
61343 ACACCATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.15, C:0.09, G:0.22, T:0.54
Consensus pattern (23 bp):
GATTTTGATTGCCATTTTATTGC
Found at i:63613 original size:24 final size:24
Alignment explanation
Indices: 63579--63632 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
63569 CTGAAACATC
63579 ATCAAAATCTGAGTATTGACCAAG
1 ATCAAAATCTGAGTATTGACCAAG
* *
63603 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAAATCTGAGTATTGACCAAG
63627 ATCAAA
1 ATCAAA
63633 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (24 bp):
ATCAAAATCTGAGTATTGACCAAG
Found at i:64497 original size:40 final size:39
Alignment explanation
Indices: 64451--64579 Score: 125
Period size: 40 Copynumber: 3.2 Consensus size: 39
64441 GAAATTCAGT
* * *
64451 GTTGCGACAGTCAGAATCGCGTTGCGATAGTCAGAATCGC
1 GTTGCGA-AGTCATAATCGCATTGCGATAGTCAAAATCGC
* *
64491 GTTGCGATTATGT-ATTATCGCATTGCGATAGTCAAAATCGT
1 GTTGCGA--A-GTCATAATCGCATTGCGATAGTCAAAATCGC
** * *
64532 GTTGCGATTTACATATTTGCATTGCGATAGTCAAAATCGC
1 GTTGCGAAGT-CATAATCGCATTGCGATAGTCAAAATCGC
64572 GTTGCGAA
1 GTTGCGAA
64580 TCTGTAAACT
Statistics
Matches: 72, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 38 0.53
41 31 0.43
42 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (39 bp):
GTTGCGAAGTCATAATCGCATTGCGATAGTCAAAATCGC
Found at i:64498 original size:20 final size:20
Alignment explanation
Indices: 64451--64578 Score: 107
Period size: 20 Copynumber: 6.3 Consensus size: 20
64441 GAAATTCAGT
* *
64451 GTTGCGACAGTCAGAATCGC
1 GTTGCGATAGTCAAAATCGC
*
64471 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAAAATCGC
**
64491 GTTGCGATTATGT-ATTATCGC
1 GTTGCGA-TA-GTCAAAATCGC
* *
64512 ATTGCGATAGTCAAAATCGT
1 GTTGCGATAGTCAAAATCGC
* * * *
64532 GTTGCGAT-TTACATATTTGC
1 GTTGCGATAGT-CAAAATCGC
*
64552 ATTGCGATAGTCAAAATCGC
1 GTTGCGATAGTCAAAATCGC
64572 GTTGCGA
1 GTTGCGA
64579 ATCTGTAAAC
Statistics
Matches: 84, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
19 3 0.04
20 64 0.76
21 15 0.18
22 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (20 bp):
GTTGCGATAGTCAAAATCGC
Found at i:64511 original size:41 final size:42
Alignment explanation
Indices: 64466--64578 Score: 160
Period size: 41 Copynumber: 2.8 Consensus size: 42
64456 GACAGTCAGA
* * **
64466 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGA-TTATGTATT
1 ATCGCATTGCGATAGTCAAAATCGCGTTGCGATTTACATATT
*
64507 ATCGCATTGCGATAGTCAAAATCGTGTTGCGATTTACATATT
1 ATCGCATTGCGATAGTCAAAATCGCGTTGCGATTTACATATT
64549 -T-GCATTGCGATAGTCAAAATCGCGTTGCGA
1 ATCGCATTGCGATAGTCAAAATCGCGTTGCGA
64579 ATCTGTAAAC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
40 28 0.43
41 30 0.46
42 7 0.11
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (42 bp):
ATCGCATTGCGATAGTCAAAATCGCGTTGCGATTTACATATT
Found at i:73124 original size:13 final size:13
Alignment explanation
Indices: 73098--73144 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
73088 ATATATATAT
*
73098 ATATAATAATAAA
1 ATATAATAAAAAA
*
73111 ATATAGTAAAAAA
1 ATATAATAAAAAA
73124 ATA-AATAAAAATA
1 ATATAATAAAAA-A
*
73137 ATTTAATA
1 ATATAATA
73145 TATATATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
12 7 0.25
13 17 0.61
14 4 0.14
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (13 bp):
ATATAATAAAAAA
Found at i:73181 original size:54 final size:53
Alignment explanation
Indices: 73088--73190 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 53
73078 AGAAATATAT
73088 ATATATATATATATAATAATAAAATATAGTAAAAAAATAAATAAAAATAATTTA
1 ATATATATATATATAATAATAAAATATAGTAAAAAAAT-AATAAAAATAATTTA
**
73142 ATATATATATATATACAT-ATAATAATA-A-TAACATGAATAATAAAAATAA
1 ATATATATATATATA-ATAATAA-AATATAGTAA-AAAAATAATAAAAATAA
73191 ATGAATAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
53 14 0.32
54 24 0.55
55 6 0.14
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (53 bp):
ATATATATATATATAATAATAAAATATAGTAAAAAAATAATAAAAATAATTTA
Found at i:73183 original size:18 final size:17
Alignment explanation
Indices: 73160--73202 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
73150 ATATATACAT
73160 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
73178 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
73195 ATAA-AATA
1 ATAATAATA
73203 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:73210 original size:58 final size:57
Alignment explanation
Indices: 73081--73210 Score: 129
Period size: 60 Copynumber: 2.2 Consensus size: 57
73071 ATATTAAAGA
* * * *
73081 AATATATATATATATATATATAATAATAAAATATAGTAAAAAAATAAATAAAAATAATTT
1 AATATACATATATATACATATAATAATAAAACATAATAAAAAAATAAAT-AAAATAA--T
* *
73141 AATATATATATATATACATATAATAATAATAACATGAATAATAAAAATAAAT-GAATAA-
1 AATATACATATATATACATATAATAATAA-AACAT-AATAA-AAAAATAAATAAAATAAT
*
73199 AATATCCATATA
1 AATATACATATA
73211 ATAAATAAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
58 10 0.16
60 28 0.46
61 9 0.15
62 4 0.07
63 10 0.16
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (57 bp):
AATATACATATATATACATATAATAATAAAACATAATAAAAAAATAAATAAAATAAT
Found at i:73609 original size:37 final size:37
Alignment explanation
Indices: 73559--73697 Score: 187
Period size: 37 Copynumber: 3.8 Consensus size: 37
73549 GTGCTTGTGG
* * * *
73559 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAATTCT
* *
73596 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATGT-T
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAAT-TCT
73633 ATCCTATTTTTAGGAGTTTGAATCCTA--A-AATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAATTCT
73667 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
73698 GACGAAAAAT
Statistics
Matches: 91, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
33 1 0.01
34 31 0.34
35 1 0.01
36 1 0.01
37 56 0.62
38 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAATTCT
Found at i:73670 original size:34 final size:34
Alignment explanation
Indices: 73590--73693 Score: 165
Period size: 34 Copynumber: 3.0 Consensus size: 34
73580 ATCTTAGTAG
73590 AATTCTATCCTATTTTTAGGAGTTTGAATCCTAGCAA
1 AATTCTATCCTATTTTTAGGAGTTTGAATCCT---AA
73627 AATGT-TATCCTATTTTTAGGAGTTTGAATCCTAA
1 AAT-TCTATCCTATTTTTAGGAGTTTGAATCCTAA
73661 AATTCTATCCTATTTTTAGGAGTTTGAATCCTA
1 AATTCTATCCTATTTTTAGGAGTTTGAATCCTA
73694 GTAGGACGAA
Statistics
Matches: 65, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
33 1 0.02
34 33 0.51
37 30 0.46
38 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.43
Consensus pattern (34 bp):
AATTCTATCCTATTTTTAGGAGTTTGAATCCTAA
Found at i:74542 original size:105 final size:105
Alignment explanation
Indices: 74242--75073 Score: 1278
Period size: 105 Copynumber: 8.0 Consensus size: 105
74232 CATTGTTCCA
* * * * ** * * *
74242 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
* * * *
74307 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
**
74348 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
74408 AGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
74448 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTTAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
74513 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
74553 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
74618 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
74658 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
* *
74723 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTTTTTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
74763 AGTCCAATATCCTTCATTGTGAAGTTGATATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
* *
74828 AGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
74868 AGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTGTTGACAGGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
74933 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
74973 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
* * *
75038 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
75074 CCTCGAGTGC
Statistics
Matches: 676, Mismatches: 44, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
100 84 0.12
101 1 0.00
102 4 0.01
103 4 0.01
104 3 0.00
105 503 0.74
106 77 0.11
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:76002 original size:65 final size:65
Alignment explanation
Indices: 75892--76061 Score: 288
Period size: 65 Copynumber: 2.6 Consensus size: 65
75882 GGGAGACAAA
*
75892 ATTT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTTATTTCAAGGGAAATGTTTTCAAT
1 ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
* *
75956 GTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
1 ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
* *
76021 ATTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
76062 TTGTTTCGAG
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
64 3 0.03
65 95 0.97
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (65 bp):
ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
Found at i:76067 original size:102 final size:102
Alignment explanation
Indices: 75961--76214 Score: 454
Period size: 102 Copynumber: 2.5 Consensus size: 102
75951 TCAATGTTTA
* *
75961 TGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATATTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATATTTA
76026 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* *
76063 TGTTTCGAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATATTTA
76128 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
**
76165 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
76215 CTGTCTCAAG
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 145 1.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATATTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:76151 original size:167 final size:169
Alignment explanation
Indices: 75861--76178 Score: 532
Period size: 167 Copynumber: 1.9 Consensus size: 169
75851 AAGATGATGC
*
75861 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
* *
75926 GAAATTTATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
75991 GAAA-TTCATTTCAAGGGAAATGTTTTCAATATTTATGT
131 AAAATTTCATTTCAAGGGAAATGTTTTCAATATTTATGT
* *
76029 TTCAAGAG-AAACTGTCTCAAGGGAGACAAAATTTTGTTTCGAGGGAAACTATCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
* *
76093 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
**
76158 AAAATTTTGTTTCAAGGGAAA
131 AAAATTTCATTTCAAGGGAAA
76179 CTATCTCAAG
Statistics
Matches: 139, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
167 117 0.84
168 22 0.16
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.30
Consensus pattern (169 bp):
TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTTCATTTCAAGGGAAATGTTTTCAATATTTATGT
Found at i:76210 original size:36 final size:37
Alignment explanation
Indices: 76128--76232 Score: 176
Period size: 36 Copynumber: 2.9 Consensus size: 37
76118 TCAATGTTTA
* *
76128 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
76165 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
76201 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
76233 TGGTGAGCAC
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
36 33 0.52
37 31 0.48
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:76694 original size:18 final size:18
Alignment explanation
Indices: 76667--76702 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
76657 TGTTGAATCC
*
76667 CCAAAGATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
76685 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
76703 TTGATGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.33, G:0.08, T:0.17
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:77162 original size:22 final size:22
Alignment explanation
Indices: 77137--77180 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
77127 CATTTTTGTT
77137 CATTTGATGCT-AAATGGTTTGA
1 CATTTGATGCTCAAA-GGTTTGA
77159 CATTTGATGCTCAAAGGTTTGA
1 CATTTGATGCTCAAAGGTTTGA
77181 TGGGGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (22 bp):
CATTTGATGCTCAAAGGTTTGA
Found at i:77796 original size:23 final size:25
Alignment explanation
Indices: 77770--77823 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 25
77760 TTTGCATGTA
77770 CTTTTTGTCCCTTTTT-CTTTT-TT
1 CTTTTTGTCCCTTTTTGCTTTTGTT
* *
77793 CTTTTTGTTCTTTTTTGCTTTTGTT
1 CTTTTTGTCCCTTTTTGCTTTTGTT
77818 -TTTTTG
1 CTTTTTG
77824 CTTCTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 14 0.52
24 11 0.41
25 2 0.07
ACGTcount: A:0.00, C:0.15, G:0.09, T:0.76
Consensus pattern (25 bp):
CTTTTTGTCCCTTTTTGCTTTTGTT
Found at i:77803 original size:16 final size:16
Alignment explanation
Indices: 77784--77843 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 16
77774 TTGTCCCTTT
77784 TTCTTTTTT-CTTTTTG
1 TTCTTTTTTGC-TTTTG
77800 TTCTTTTTTGCTTTTG
1 TTCTTTTTTGCTTTTG
*
77816 -T-TTTTTTGCTTCT-
1 TTCTTTTTTGCTTTTG
77829 TT-TTTTTTGCCTTTT
1 TTCTTTTTTG-CTTTT
77844 TTATTCTGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
14 19 0.49
15 5 0.13
16 14 0.36
17 1 0.03
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.78
Consensus pattern (16 bp):
TTCTTTTTTGCTTTTG
Found at i:77820 original size:14 final size:13
Alignment explanation
Indices: 77803--77845 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 13
77793 CTTTTTGTTC
77803 TTTTTTGCTTTTGT
1 TTTTTTGCTTTT-T
77817 TTTTTTGCTTCTTT
1 TTTTTTGCTT-TTT
77831 TTTTTTGCCTTTTT
1 TTTTTTG-CTTTTT
77845 T
1 T
77846 ATTCTGATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 22 0.81
15 5 0.19
ACGTcount: A:0.00, C:0.12, G:0.09, T:0.79
Consensus pattern (13 bp):
TTTTTTGCTTTTT
Found at i:77837 original size:22 final size:23
Alignment explanation
Indices: 77770--77837 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 23
77760 TTTGCATGTA
*
77770 CTTTTTGTCCCTTTTTCTTTT-TT
1 CTTTTTGT-TCTTTTTCTTTTGTT
77793 CTTTTTGTTCTTTTTTGCTTTTGTT
1 CTTTTTGTTC-TTTTT-CTTTTGTT
77818 -TTTTTGCTTCTTTTT-TTTTG
1 CTTTTTG-TTCTTTTTCTTTTG
77838 CCTTTTTTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
22 6 0.15
23 13 0.32
24 16 0.40
25 5 0.12
ACGTcount: A:0.00, C:0.15, G:0.09, T:0.76
Consensus pattern (23 bp):
CTTTTTGTTCTTTTTCTTTTGTT
Found at i:78976 original size:8 final size:8
Alignment explanation
Indices: 78960--78998 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
78950 AATGTAGATG
78960 AAAATGCA
1 AAAATGCA
*
78968 AAAAGGCA
1 AAAATGCA
78976 AAAATGC-
1 AAAATGCA
78983 AAAATGCA
1 AAAATGCA
*
78991 AGAATGCA
1 AAAATGCA
78999 TGAAATGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (8 bp):
AAAATGCA
Found at i:78986 original size:15 final size:15
Alignment explanation
Indices: 78960--78998 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
78950 AATGTAGATG
78960 AAAATGCAAAAAGGCA
1 AAAATGC-AAAAGGCA
*
78976 AAAATGCAAAATGCA
1 AAAATGCAAAAGGCA
*
78991 AGAATGCA
1 AAAATGCA
78999 TGAAATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAAATGCAAAAGGCA
Found at i:81859 original size:24 final size:25
Alignment explanation
Indices: 81810--81860 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
81800 CAATGTTTAA
* **
81810 AAAAAAATGTATAATAATAATGAAT
1 AAAAAAATGTAAAATAATAAAAAAT
81835 AAAAAAATG-AAAATAATAAAAAAT
1 AAAAAAATGTAAAATAATAAAAAAT
81859 AA
1 AA
81861 TATAAATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.22
Consensus pattern (25 bp):
AAAAAAATGTAAAATAATAAAAAAT
Found at i:82057 original size:2 final size:2
Alignment explanation
Indices: 82050--82088 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
82040 TATTAAAGAA
82050 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
82089 ATAAAATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:82158 original size:18 final size:17
Alignment explanation
Indices: 82137--82179 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
82127 ATATATATAT
82137 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
82155 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
82172 ATAA-AATA
1 ATAATAATA
82180 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:82587 original size:37 final size:35
Alignment explanation
Indices: 82537--82671 Score: 175
Period size: 37 Copynumber: 3.8 Consensus size: 35
82527 GTGCTTGTGG
* * * *
82537 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAG-A-AATTCT
82574 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATGT-T
1 ATCCTATTTTTAGGAGTTTGAATCCTAG--AAAT-TCT
82611 ATCCTATTTTTAGGAGTTTGAATCCTA-AAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGAAATTCT
82645 ATCCTATTTTTAGGAGTTTGAATCCTA
1 ATCCTATTTTTAGGAGTTTGAATCCTA
82672 ATAGGACGAA
Statistics
Matches: 90, Mismatches: 5, Indels: 9
0.87 0.05 0.09
Matches are distributed among these distances:
33 1 0.01
34 32 0.36
37 55 0.61
38 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (35 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGAAATTCT
Found at i:82648 original size:34 final size:34
Alignment explanation
Indices: 82568--82672 Score: 167
Period size: 34 Copynumber: 3.0 Consensus size: 34
82558 ATCTTAGTAG
82568 AATTCTATCCTATTTTTAGGAGTTTGAATCCTAGCAA
1 AATTCTATCCTATTTTTAGGAGTTTGAATCCT---AA
82605 AATGT-TATCCTATTTTTAGGAGTTTGAATCCTAA
1 AAT-TCTATCCTATTTTTAGGAGTTTGAATCCTAA
82639 AATTCTATCCTATTTTTAGGAGTTTGAATCCTAA
1 AATTCTATCCTATTTTTAGGAGTTTGAATCCTAA
82673 TAGGACGAAA
Statistics
Matches: 66, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
33 1 0.02
34 34 0.52
37 30 0.45
38 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (34 bp):
AATTCTATCCTATTTTTAGGAGTTTGAATCCTAA
Found at i:103383 original size:21 final size:21
Alignment explanation
Indices: 103357--103452 Score: 147
Period size: 21 Copynumber: 4.6 Consensus size: 21
103347 GTTTCCAGAT
* *
103357 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
* *
103378 TCGCAATGCGAACTTAGATTA
1 TCGCAATGCGAACTTGGACTA
*
103399 TCGCAATACGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
103420 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
103441 TCGCAATGCGAA
1 TCGCAATGCGAA
103453 TATGTAAATC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 68 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:103491 original size:21 final size:21
Alignment explanation
Indices: 103461--103750 Score: 230
Period size: 21 Copynumber: 13.5 Consensus size: 21
103451 AATATGTAAA
* *
103461 TCGCAATGCGATAGTCGAAAT
1 TCGCATTGCGATAGTCGAAGT
* *
103482 TTGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCGAAGT
*
103503 TCGTATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
103524 TCGCATTACGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
103545 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
* ** * *
103566 TCACATTGCGATTTTCCAAAT
1 TCGCATTGCGATAGTCGAAGT
* *
103587 TCGACTATCGC-A-ACG-CGAACT
1 TCG-C-ATTGCGATA-GTCGAAGT
* ** *
103608 TCGACTATCGC-ATTACGATTTACATAT
1 TCG-C-ATTGCGA-TA-G-TCGA-A-GT
* *
103635 TCGTATTGCGATAGTCCATA-T
1 TCGCATTGCGATAGTCGA-AGT
* *
103656 TCGCATTACGATAGTCCAAGT
1 TCGCATTGCGATAGTCGAAGT
*
103677 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCGAAGT
*
103698 TCGCATTGCAATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
103719 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
103740 TCGCGTTGCGA
1 TCGCATTGCGA
103751 ATATAAAAAC
Statistics
Matches: 222, Mismatches: 36, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
20 1 0.00
21 195 0.88
22 2 0.01
23 10 0.05
24 1 0.00
25 7 0.03
26 2 0.01
27 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:103714 original size:174 final size:174
Alignment explanation
Indices: 103415--103750 Score: 480
Period size: 174 Copynumber: 1.9 Consensus size: 174
103405 TACGAACTTG
* * * *
103415 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAA
1 GACTATCGCAACGCGAACTTCGACTATCGCAATACGAATATGTAAATCGCAATGCGATAGTCCAA
* * * * *
103480 ATTTGCATTGCGATAGTCCAAGTTCGTATTGCGATAGTCGAAGTTCGCATTACGATAGTCGAAGT
66 ATTCGCATTACGATAGTCCAAGTTCGCATTGCGATAGTCCAAGTTCGCATTACAATAGTCGAAGT
103545 TCGCATTGCGATAGTCGAAGTTCACATTGCGATTTTCCAAATTC
131 TCGCATTGCGATAGTCGAAGTTCACATTGCGATTTTCCAAATTC
* * *
103589 GACTATCGCAACGCGAACTTCGACTATCGCATTACG-AT-T-TACATATTCGTATTGCGATAGTC
1 GACTATCGCAACGCGAACTTCGACTATCGCAATACGAATATGTA-A-A-TCGCAATGCGATAGTC
* *
103651 CATATTCGCATTACGATAGTCCAAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCAATAGTCGA
63 CAAATTCGCATTACGATAGTCCAAGTTCGCATTGCGATAGTCCAAGTTCGCATTACAATAGTCGA
* *
103716 AGTTCGCATTGCGATAGTCGAAGTTCGCGTTGCGA
128 AGTTCGCATTGCGATAGTCGAAGTTCACATTGCGA
103751 ATATAAAAAC
Statistics
Matches: 143, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
171 2 0.01
172 2 0.01
173 3 0.02
174 136 0.95
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (174 bp):
GACTATCGCAACGCGAACTTCGACTATCGCAATACGAATATGTAAATCGCAATGCGATAGTCCAA
ATTCGCATTACGATAGTCCAAGTTCGCATTGCGATAGTCCAAGTTCGCATTACAATAGTCGAAGT
TCGCATTGCGATAGTCGAAGTTCACATTGCGATTTTCCAAATTC
Found at i:103966 original size:30 final size:31
Alignment explanation
Indices: 103931--103994 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
103921 AAAAAAATTA
*
103931 AATGACTCAAC-AAATAAAAAGTTGCGAACC
1 AATGACTCAACAAAATAAAAAGGTGCGAACC
* *
103961 AATGACTCAACAAAATAAAATGGTGTGAACC
1 AATGACTCAACAAAATAAAAAGGTGCGAACC
103992 AAT
1 AAT
103995 AATCAATTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 11 0.37
31 19 0.63
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (31 bp):
AATGACTCAACAAAATAAAAAGGTGCGAACC
Found at i:109933 original size:207 final size:212
Alignment explanation
Indices: 109576--109995 Score: 805
Period size: 207 Copynumber: 2.0 Consensus size: 212
109566 CTCCCCTTAC
109576 CCCATTACATATGAGAATAAGGGACAGCCATTTATAATATTAAAAAAAAAATCTGAATGTTTGTT
1 CCCATTACATATGAGAATAAGGGACAGCCATTTATAATATTAAAAAAAAAATCTGAATGTTTGTT
109641 TAAATAATCACTTTAAATTTTTTTTATAAATATTTTAACTGTTAATATTTTATTTTAGGACAAAA
66 TAAATAATCACTTTAAATTTTTTTTATAAATATTTTAACTGTTAATATTTTATTTTAGGACAAAA
109706 TAACTCTTAATTGATTGAAAAATGTTAACAGTCAACACTTATAGCT-A-ATGAAACCATCACTTT
131 TAACTCTTAATTGATTGAAAAATGTTAACAGTCAACACTTATAGCTAATATGAAACCATCACTTT
109769 TGATGTATAATAC-TAA
196 TGATGTATAATACATAA
109785 CCCATTACATATGAGAATAAGGGACAGCCATTTATAATATT-AAAAAAAAATCTGAATGTTTGTT
1 CCCATTACATATGAGAATAAGGGACAGCCATTTATAATATTAAAAAAAAAATCTGAATGTTTGTT
109849 TAAAT-ATCACTTTAAATTTTTTTTATAAATATTTTAACTGTTAATATTTTATTTTAGGACAAAA
66 TAAATAATCACTTTAAATTTTTTTTATAAATATTTTAACTGTTAATATTTTATTTTAGGACAAAA
109913 TAACTCTTAATTGATTGAAAAATGTTAACAGTCAACACTTATAGCTAATATGAAACCATCACTTT
131 TAACTCTTAATTGATTGAAAAATGTTAACAGTCAACACTTATAGCTAATATGAAACCATCACTTT
109978 TGATGTATAATACATAA
196 TGATGTATAATACATAA
109995 C
1 C
109996 ATACCATCAC
Statistics
Matches: 208, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
207 105 0.50
208 29 0.14
209 70 0.34
210 4 0.02
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.38
Consensus pattern (212 bp):
CCCATTACATATGAGAATAAGGGACAGCCATTTATAATATTAAAAAAAAAATCTGAATGTTTGTT
TAAATAATCACTTTAAATTTTTTTTATAAATATTTTAACTGTTAATATTTTATTTTAGGACAAAA
TAACTCTTAATTGATTGAAAAATGTTAACAGTCAACACTTATAGCTAATATGAAACCATCACTTT
TGATGTATAATACATAA
Found at i:117846 original size:2 final size:2
Alignment explanation
Indices: 117839--117875 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
117829 ATATAGTGAT
117839 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
117876 GTTTTAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:120272 original size:21 final size:21
Alignment explanation
Indices: 120242--120289 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
120232 GCAGGGGTAC
* *
120242 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
120263 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
120284 ATGCCA
1 ATGCCA
120290 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:120319 original size:21 final size:21
Alignment explanation
Indices: 120293--120386 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
120283 TATGCCATCT
* *
120293 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
120314 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
120335 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
120356 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
120377 CCGCAGGGTT
1 CCGCAGGGTT
120387 TTATACCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:120945 original size:32 final size:32
Alignment explanation
Indices: 120909--121009 Score: 107
Period size: 32 Copynumber: 3.1 Consensus size: 32
120899 AAATGTTTTT
120909 AAAATACAAATTATATATTCGAAATTTAAA-TA
1 AAAATA-AAATTATATATTCGAAATTTAAATTA
* *
120941 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAAT-AAAATTATA-TATTCGAAATTTAAATTA
* *
120974 AAAATATAATTATGGTATTCGAAATTTAACATTA
1 AAAATAAAATTAT-ATATTCGAAATTTAA-ATTA
121008 AA
1 AA
121010 TTTCAACTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
32 32 0.56
33 20 0.35
34 5 0.09
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (32 bp):
AAAATAAAATTATATATTCGAAATTTAAATTA
Found at i:121621 original size:128 final size:128
Alignment explanation
Indices: 121393--122151 Score: 1464
Period size: 128 Copynumber: 5.9 Consensus size: 128
121383 AGTTATTCAA
*
121393 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
121458 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
121521 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
*
121586 GATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
121649 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
* *
121714 GACGAAATAATGGAAGGCGCCCCCCCGGGAACGCGCATTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
*
121777 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATATGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
*
121842 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGTGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
121905 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
121970 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
122033 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
122098 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAA
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAA
122152 CCGATTATAG
Statistics
Matches: 620, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 620 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (128 bp):
ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
Found at i:122232 original size:8 final size:8
Alignment explanation
Indices: 122219--122259 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
122209 TCACAATCTT
122219 TCAAATTC
1 TCAAATTC
122227 TCAAATTC
1 TCAAATTC
* *
122235 CCAAACTC
1 TCAAATTC
122243 T-AAATTC
1 TCAAATTC
122250 TCAAATTC
1 TCAAATTC
122258 TC
1 TC
122260 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:130108 original size:60 final size:58
Alignment explanation
Indices: 129997--130108 Score: 136
Period size: 60 Copynumber: 1.9 Consensus size: 58
129987 TTGAATGTTT
* * * **
129997 TAATTTCATCCCTAAATTGTGACTCATTTCAAATTAGTCCTTAAACTTTTGAACATTC
1 TAATTCCATCCCTAAACTATGACTCATTTCAAATTAGTCCCCAAACTTTTGAACATTC
*
130055 TAATTCCATCCCTAAACTATGATCCTC-TTTCTAAATTTGTCCCCAAACTTTTGA
1 TAATTCCATCCCTAAACTATGA--CTCATTTC-AAATTAGTCCCCAAACTTTTGA
130109 GTCTTCCAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
58 19 0.42
59 4 0.09
60 22 0.49
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.40
Consensus pattern (58 bp):
TAATTCCATCCCTAAACTATGACTCATTTCAAATTAGTCCCCAAACTTTTGAACATTC
Found at i:134389 original size:43 final size:43
Alignment explanation
Indices: 134272--134556 Score: 374
Period size: 43 Copynumber: 6.7 Consensus size: 43
134262 AAAAACACTA
* * *
134272 CTATAAATCTCAACCTTTTGCGGCGTTTGTTACAAAAGCGCCG
1 CTATAAATCTCGACCTTTTGCGGCGTTTGTTCCAAAAACGCCG
* * *
134315 CTATAGATCT-GACCTTTTGCGGCATTTGTTCCAAAAACACCG
1 CTATAAATCTCGACCTTTTGCGGCGTTTGTTCCAAAAACGCCG
* *
134357 CTATAAATCTCGATCTTTAGCGGCGTTTGTTCCAAAAACGCCG
1 CTATAAATCTCGACCTTTTGCGGCGTTTGTTCCAAAAACGCCG
* * * *
134400 TTATAGATCTCGACCTTTTGCGGCGTTTATTCCAAAAACACCG
1 CTATAAATCTCGACCTTTTGCGGCGTTTGTTCCAAAAACGCCG
* * *
134443 CTATAGATCTCGACCTTTTGCGGCGTTTGTTCCAATAACGCTG
1 CTATAAATCTCGACCTTTTGCGGCGTTTGTTCCAAAAACGCCG
* *
134486 CTATAAATCTTGACCTTTTGCGGCGTTTGTTCCAAAAATGCCG
1 CTATAAATCTCGACCTTTTGCGGCGTTTGTTCCAAAAACGCCG
* * * *
134529 CTATATATCTCAACTTTTTGCGGTGTTT
1 CTATAAATCTCGACCTTTTGCGGCGTTT
134557 TTTGTTCTCA
Statistics
Matches: 209, Mismatches: 32, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
42 36 0.17
43 173 0.83
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (43 bp):
CTATAAATCTCGACCTTTTGCGGCGTTTGTTCCAAAAACGCCG
Found at i:142422 original size:21 final size:21
Alignment explanation
Indices: 142397--142441 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
142387 TGCTGCTCAA
*
142397 CTCGACTTGTTGCTCGTTAAG
1 CTCGACTCGTTGCTCGTTAAG
142418 CTCGACTCGTTGCTCGTTAAG
1 CTCGACTCGTTGCTCGTTAAG
142439 CTC
1 CTC
142442 ACTAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.13, C:0.29, G:0.22, T:0.36
Consensus pattern (21 bp):
CTCGACTCGTTGCTCGTTAAG
Found at i:147621 original size:2 final size:2
Alignment explanation
Indices: 147608--147639 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
147598 AATAATTCAT
*
147608 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
147640 CCGGGAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Done.