Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001151.1 Hibiscus syriacus cultivar Beakdansim tig00002293_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: 61565
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Found at i:1729 original size:24 final size:24
Alignment explanation
Indices: 1702--1747 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
1692 TTTAAGGGGA
1702 CTCATCCGCTGCAAAAGCAAAGGC
1 CTCATCCGCTGCAAAAGCAAAGGC
* *
1726 CTCATCTGCTGTAAAAGCAAAG
1 CTCATCCGCTGCAAAAGCAAAG
1748 ACTTCTGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.17
Consensus pattern (24 bp):
CTCATCCGCTGCAAAAGCAAAGGC
Found at i:3320 original size:54 final size:54
Alignment explanation
Indices: 3247--3857 Score: 704
Period size: 54 Copynumber: 11.3 Consensus size: 54
3237 ATTCTGTGGG
*
3247 TTGCACACATAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTACT
1 TTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTACT
* *
3301 TTGCACACTTAGTGTCGAAACGGTTATTCATCAACGTATGATGAA-TTCTGTACT
1 TTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTC-GTACT
* ** *
3355 TTGCAAACTTAGTGCCGAAACAATTATTCATCAACATATGATGAATTAT-GTGA-A
1 TTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATT-TCGT-ACT
* * **
3409 TTGCACACTTAGTGCTGAAATGGTTATTCATCAACATATGATGAA-TTCTGTAAA
1 TTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTC-GTACT
* * * *
3463 TTGCATACTTAGTGCTGAAATGGTTATTCATCAACATATGATGAATTTCGTGA-A
1 TTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGT-ACT
* * * *
3517 TTACACACTTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTCCGTGCT
1 TTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTACT
** *
3571 TTGCACACTTAGTGTGGAAACAGTTATTCATCAACATATGATGAATTTCGTACT
1 TTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTACT
* * * * * *
3625 TTGCACACTTAATACCGAAATGGTTATTCATCAACGTATGATGAATTCCGTGA-A
1 TTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGT-ACT
* * *
3679 TTGCACACTTAGTGCCGAAATGGTTATTCATCAACATATAATGAATTTCGTGAAT
1 TTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGT-ACT
*
3734 GTT-C-CACTTAGTGCCGAAACGATTATTCATCAACATATGATGAA-TTC-TATGCT
1 -TTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTA--CT
* * * * *
3787 TTTCACACTTAGTGCTGAAACAGTTATTTCATCAACATATGATGAATTCCGTGA-A
1 TTGCACACTTAGTGCCGAAACGGTTA-TTCATCAACATATGATGAATTTCGT-ACT
3842 TTGCACACTTAGTGCC
1 TTGCACACTTAGTGCC
3858 TGTTTGGTAA
Statistics
Matches: 482, Mismatches: 54, Indels: 41
0.84 0.09 0.07
Matches are distributed among these distances:
51 1 0.00
52 4 0.01
53 10 0.02
54 419 0.87
55 41 0.09
56 5 0.01
57 1 0.00
58 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (54 bp):
TTGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTACT
Found at i:3383 original size:108 final size:108
Alignment explanation
Indices: 3195--3857 Score: 791
Period size: 108 Copynumber: 6.1 Consensus size: 108
3185 TTCATTACGA
* * * * * * *** *
3195 TGCACACGTAGTGCCTATACGGTCATTCATAAAC-TCATTAT-AATTCTGTGGGTTGCACACATA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACAT-ATGATGAATTCTGTACTTTGCACACTTA
* *
3258 GTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGT-ACTT
65 GTGCCGAAACAGTTATTCATCAACATATGATGAATTTCGTGA-AT
* * *
3302 TGCACACTTAGTGTCGAAACGGTTATTCATCAACGTATGATGAATTCTGTACTTTGCAAACTTAG
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCTGTACTTTGCACACTTAG
*
3367 TGCCGAAACAATTATTCATCAACATATGATGAATTAT-GTGAAT
66 TGCCGAAACAGTTATTCATCAACATATGATGAATT-TCGTGAAT
* * ** *
3410 TGCACACTTAGTGCTGAAATGGTTATTCATCAACATATGATGAATTCTGTAAATTGCATACTTAG
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCTGTACTTTGCACACTTAG
* **
3475 TGCTGAAATGGTTATTCATCAACATATGATGAATTTCGTGAAT
66 TGCCGAAACAGTTATTCATCAACATATGATGAATTTCGTGAAT
* * * *
3518 TACACACTTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTCCGTGCTTTGCACACTTAG
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCTGTACTTTGCACACTTAG
** *
3583 TGTGGAAACAGTTATTCATCAACATATGATGAATTTCGT-ACTT
66 TGCCGAAACAGTTATTCATCAACATATGATGAATTTCGTGA-AT
* * * * * *
3626 TGCACACTTAATACCGAAATGGTTATTCATCAACGTATGATGAATTCCGTGA-ATTGCACACTTA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCTGT-ACTTTGCACACTTA
** *
3690 GTGCCGAAATGGTTATTCATCAACATATAATGAATTTCGTGAAT
65 GTGCCGAAACAGTTATTCATCAACATATGATGAATTTCGTGAAT
* * * * *
3734 GTTC-CACTTAGTGCCGAAACGATTATTCATCAACATATGATGAATTCTATGCTTTTCACACTTA
1 -TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCTGTACTTTGCACACTTA
* *
3798 GTGCTGAAACAGTTATTTCATCAACATATGATGAATTCCGTGAAT
65 GTGCCGAAACAGTTA-TTCATCAACATATGATGAATTTCGTGAAT
3843 TGCACACTTAGTGCC
1 TGCACACTTAGTGCC
3858 TGTTTGGTAA
Statistics
Matches: 473, Mismatches: 71, Indels: 22
0.84 0.13 0.04
Matches are distributed among these distances:
107 34 0.07
108 396 0.84
109 43 0.09
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (108 bp):
TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCTGTACTTTGCACACTTAG
TGCCGAAACAGTTATTCATCAACATATGATGAATTTCGTGAAT
Found at i:3453 original size:26 final size:26
Alignment explanation
Indices: 3424--3507 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
3414 CACTTAGTGC
3424 TGAAATGGTTATTCATCAACATATGA
1 TGAAATGGTTATTCATCAACATATGA
* * * * *
3450 TGAATTCTGTAAATTGCAT--ACTTAGTGC
1 TGAAAT-GGT-TATT-CATCAACATA-TGA
3478 TGAAATGGTTATTCATCAACATATGA
1 TGAAATGGTTATTCATCAACATATGA
3504 TGAA
1 TGAA
3508 TTTCGTGAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 12
0.66 0.16 0.19
Matches are distributed among these distances:
25 3 0.07
26 14 0.33
27 12 0.29
28 10 0.24
29 3 0.07
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (26 bp):
TGAAATGGTTATTCATCAACATATGA
Found at i:3529 original size:162 final size:161
Alignment explanation
Indices: 3195--3857 Score: 793
Period size: 162 Copynumber: 4.1 Consensus size: 161
3185 TTCATTACGA
* * * * * * ** *
3195 TGCACACGTAGTGCCTATACGGTCATTCATAAAC-TCATTAT-AATTCTGTGGGTTGCACACATA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACAT-ATGATGAATT-TGTGAATTGCACACTTA
3258 GTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACACTTAGTG-TCGAAAC
64 GTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACACTTAGTGCT-GAAAC
* * *
3322 GGTTATTCATCAACGTATGATGAATTCTGT-ACTT
128 GGTTATTCATCAACATATGATGAATTCCGTGA-AT
* **
3356 TGCAAACTTAGTGCCGAAACAATTATTCATCAACATATGATGAATTATGTGAATTGCACACTTAG
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATT-TGTGAATTGCACACTTAG
* * ** * *
3421 TGCTGAAATGGTTATTCATCAACATATGATGAA-TTCTGTAAATTGCATACTTAGTGCTGAAATG
65 TGCCGAAACGGTTATTCATCAACATATGATGAATTTC-GTACTTTGCACACTTAGTGCTGAAACG
*
3485 GTTATTCATCAACATATGATGAATTTCGTGAAT
129 GTTATTCATCAACATATGATGAATTCCGTGAAT
* * * **
3518 TACACACTTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTCCGTGCTTTGCACACTTAG
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATT-TGTGAATTGCACACTTAG
** * * * * *
3583 TGTGGAAACAGTTATTCATCAACATATGATGAATTTCGTACTTTGCACACTTAATACCGAAATGG
65 TGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACACTTAGTGCTGAAACGG
*
3648 TTATTCATCAACGTATGATGAATTCCGTGAAT
130 TTATTCATCAACATATGATGAATTCCGTGAAT
* * *
3680 TGCACACTTAGTGCCGAAATGGTTATTCATCAACATATAATGAATTTCGTGAATGTTC-CACTTA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTT-GTGAAT-TGCACACTTA
* *
3744 GTGCCGAAACGATTATTCATCAACATATGATGAA-TTC-TATGCTTTTCACACTTAGTGCTGAAA
64 GTGCCGAAACGGTTATTCATCAACATATGATGAATTTCGTA--CTTTGCACACTTAGTGCTGAAA
*
3807 CAGTTATTTCATCAACATATGATGAATTCCGTGAAT
127 CGGTTA-TTCATCAACATATGATGAATTCCGTGAAT
3843 TGCACACTTAGTGCC
1 TGCACACTTAGTGCC
3858 TGTTTGGTAA
Statistics
Matches: 428, Mismatches: 63, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
160 2 0.00
161 36 0.08
162 340 0.79
163 50 0.12
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (161 bp):
TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTGTGAATTGCACACTTAGT
GCCGAAACGGTTATTCATCAACATATGATGAATTTCGTACTTTGCACACTTAGTGCTGAAACGGT
TATTCATCAACATATGATGAATTCCGTGAAT
Found at i:7181 original size:22 final size:22
Alignment explanation
Indices: 7156--7319 Score: 157
Period size: 22 Copynumber: 7.5 Consensus size: 22
7146 TTCCTACTTC
7156 ATTTTATTTCCTTTTGAATTTA
1 ATTTTATTTCCTTTTGAATTTA
* * * * *
7178 ATTTTCTTTCATTTTGCACTTC
1 ATTTTATTTCCTTTTGAATTTA
*
7200 ATTTCATTTCCTTTTGAATTTA
1 ATTTTATTTCCTTTTGAATTTA
* * * * *
7222 ATTTTCTTTCATTTTGCACTTC
1 ATTTTATTTCCTTTTGAATTTA
*
7244 ATTTCATTTCCTTTTGAATTTA
1 ATTTTATTTCCTTTTGAATTTA
* * * * *
7266 ATTTTCTTTCATTTTGCACTTC
1 ATTTTATTTCCTTTTGAATTTA
*
7288 ATTTCATTTCCTTTTGAATTTA
1 ATTTTATTTCCTTTTGAATTTA
*
7310 ATTTTCTTTC
1 ATTTTATTTC
7320 ATTCTGTGTG
Statistics
Matches: 105, Mismatches: 37, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 105 1.00
ACGTcount: A:0.18, C:0.17, G:0.04, T:0.60
Consensus pattern (22 bp):
ATTTTATTTCCTTTTGAATTTA
Found at i:7201 original size:44 final size:44
Alignment explanation
Indices: 7151--7322 Score: 335
Period size: 44 Copynumber: 3.9 Consensus size: 44
7141 GTTTCTTCCT
*
7151 ACTTCATTTTATTTCCTTTTGAATTTAATTTTCTTTCATTTTGC
1 ACTTCATTTCATTTCCTTTTGAATTTAATTTTCTTTCATTTTGC
7195 ACTTCATTTCATTTCCTTTTGAATTTAATTTTCTTTCATTTTGC
1 ACTTCATTTCATTTCCTTTTGAATTTAATTTTCTTTCATTTTGC
7239 ACTTCATTTCATTTCCTTTTGAATTTAATTTTCTTTCATTTTGC
1 ACTTCATTTCATTTCCTTTTGAATTTAATTTTCTTTCATTTTGC
7283 ACTTCATTTCATTTCCTTTTGAATTTAATTTTCTTTCATT
1 ACTTCATTTCATTTCCTTTTGAATTTAATTTTCTTTCATT
7323 CTGTGTGGGA
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 127 1.00
ACGTcount: A:0.19, C:0.17, G:0.04, T:0.60
Consensus pattern (44 bp):
ACTTCATTTCATTTCCTTTTGAATTTAATTTTCTTTCATTTTGC
Found at i:12568 original size:34 final size:35
Alignment explanation
Indices: 12522--12599 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 35
12512 TATATATAAT
* *
12522 AATATAGTATAGTTTTT-GAAAGAATC-TTTTTGAA
1 AATATA-TATAGTTTTTAAAAAAAATCATTTTTGAA
12556 ACATATATATAGTTTTTAAAAAAAATCAGTTTTTGAA
1 A-ATATATATAGTTTTTAAAAAAAATCA-TTTTTGAA
12593 AATATAT
1 AATATAT
12600 GTATAAATGG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
34 11 0.29
35 12 0.32
36 6 0.16
37 9 0.24
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (35 bp):
AATATATATAGTTTTTAAAAAAAATCATTTTTGAA
Found at i:12655 original size:37 final size:37
Alignment explanation
Indices: 12585--12835 Score: 235
Period size: 37 Copynumber: 6.8 Consensus size: 37
12575 AAAAAATCAG
* * * * *
12585 TTTTTGAAAATATATGTATAAATGGTTTTGAAAACACA
1 TTTTTGAAAACATAT-AATATATAGTTTTGAAAACATA
*
12623 TTTTTGAAAACGTATAATATATAGTTTTGAAAACATA
1 TTTTTGAAAACATATAATATATAGTTTTGAAAACATA
* **
12660 TTTTTGAAAACGTATATAATATATAGTTTTTAAAATC-GG
1 TTTTTGAAAAC--ATATAATATATAGTTTTGAAAA-CATA
* *
12699 TTTTGGAAAACATATAATATATAGTTTT-TAAA-ATA
1 TTTTTGAAAACATATAATATATAGTTTTGAAAACATA
** * *
12734 TTTTT-AAAATGTATATATAATATAGTTTTTGAAAACGTT
1 TTTTTGAAAACATATA-AT-ATATAG-TTTTGAAAACATA
*
12773 TTTTTGAAAACATATAATATATAGTTTTTAAAA-ATA
1 TTTTTGAAAACATATAATATATAGTTTTGAAAACATA
* *
12809 -TTTTGAAAACATGTAGTATATAGTTTT
1 TTTTTGAAAACATATAATATATAGTTTT
12836 TTTTAAAACA
Statistics
Matches: 176, Mismatches: 27, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
34 8 0.05
35 31 0.18
36 10 0.06
37 58 0.33
38 22 0.12
39 38 0.22
40 9 0.05
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.44
Consensus pattern (37 bp):
TTTTTGAAAACATATAATATATAGTTTTGAAAACATA
Found at i:12785 original size:74 final size:73
Alignment explanation
Indices: 12623--12836 Score: 265
Period size: 74 Copynumber: 2.9 Consensus size: 73
12613 TGAAAACACA
* *
12623 TTTTTGAAAACGTATAATATATAGTTTTGAAAACATATTTTTGAAAACGTATATAATATATAGTT
1 TTTTTGAAAACATATAATATATAGTTTT-TAAA-ATATTTTT-AAAACGTATATAATATATAGTT
12688 TTTAAAATCGG
63 TTTAAAATCGG
* *
12699 TTTTGGAAAACATATAATATATAGTTTTTAAAATATTTTTAAAATGTATAT-ATAATATAGTTTT
1 TTTTTGAAAACATATAATATATAGTTTTTAAAATATTTTTAAAACGTATATAAT-ATATAGTTTT
*
12763 TGAAAA-CGTT
65 T-AAAATCG-G
* * *
12773 TTTTTGAAAACATATAATATATAGTTTTTAAAAATATTTTGAAAAC--ATGTAGTATATAGTTTT
1 TTTTTGAAAACATATAATATATAGTTTTT-AAAATATTTTTAAAACGTATATAATATATAGTTTT
12836 T
65 T
12837 TTTAAAACAT
Statistics
Matches: 123, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
72 2 0.02
73 37 0.30
74 41 0.33
75 17 0.14
76 26 0.21
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (73 bp):
TTTTTGAAAACATATAATATATAGTTTTTAAAATATTTTTAAAACGTATATAATATATAGTTTTT
AAAATCGG
Found at i:12837 original size:74 final size:71
Alignment explanation
Indices: 12623--12836 Score: 252
Period size: 73 Copynumber: 2.9 Consensus size: 71
12613 TGAAAACACA
* *
12623 TTTTTGAAAACGTATAATATATAGTTTTGAAAACATATTTTTGAAAACGTATATAATATATAGTT
1 TTTTTGAAAACATATAATATATAGTTTTTAAAA-ATA-TTTTGAAAAC--ATAT-ATATATAGTT
12688 TTTAAAATCGG
61 TTTAAAATCGG
* * *
12699 TTTTGGAAAACATATAATATATAGTTTTT-AAAATATTTTTAAAATGTATATATAATATAGTTTT
1 TTTTTGAAAACATATAATATATAGTTTTTAAAAATATTTTGAAAA--CATATAT-ATATAGTTTT
*
12763 TGAAAA-CGTT
63 T-AAAATCG-G
*
12773 TTTTTGAAAACATATAATATATAGTTTTTAAAAATATTTTGAAAACATGTAGTATATAGTTTTT
1 TTTTTGAAAACATATAATATATAGTTTTTAAAAATATTTTGAAAACATATA-TATATAGTTTTT
12837 TTTAAAACAT
Statistics
Matches: 121, Mismatches: 10, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
72 2 0.02
73 40 0.33
74 36 0.30
75 17 0.14
76 26 0.21
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (71 bp):
TTTTTGAAAACATATAATATATAGTTTTTAAAAATATTTTGAAAACATATATATATAGTTTTTAA
AATCGG
Found at i:12932 original size:5 final size:5
Alignment explanation
Indices: 12922--12999 Score: 67
Period size: 5 Copynumber: 16.0 Consensus size: 5
12912 CGAAATATCC
* *
12922 ATTTT ATTTT ATTTT ATTTT TTGTATT ATTTT ATTTT A-CTT ATTTAT
1 ATTTT ATTTT ATTTT ATTTT AT-T-TT ATTTT ATTTT ATTTT ATTT-T
*
12969 ATTTT A-TTT A-TTT A-TTT ATTTT -TCTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
13000 CGCTCCAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
4 18 0.30
5 33 0.54
6 7 0.11
7 3 0.05
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:12958 original size:32 final size:32
Alignment explanation
Indices: 12930--12999 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 32
12920 CCATTTTATT
12930 TTATTTTATTTT-TTGTA-TTATTTTATTTTA-C
1 TTATTTTATTTTATT-TATTTA-TTTATTTTATC
12961 TTATTTATATTTTATTTATTTATTTATTTT-TC
1 TTATTT-TATTTTATTTATTTATTTATTTTATC
12993 TTATTTT
1 TTATTTT
13000 CGCTCCAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
31 7 0.20
32 23 0.66
33 5 0.14
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (32 bp):
TTATTTTATTTTATTTATTTATTTATTTTATC
Found at i:12965 original size:17 final size:16
Alignment explanation
Indices: 12945--12999 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 16
12935 TTATTTTTTG
12945 TATTATTTTATTTTACT
1 TATT-TTTTATTTTACT
* *
12962 TA-TTTATATTTTATT
1 TATTTTTTATTTTACT
*
12977 TATTTATTTATTTTTCT
1 TATTT-TTTATTTTACT
12994 TATTTT
1 TATTTT
13000 CGCTCCAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 12 0.39
16 4 0.13
17 15 0.48
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (16 bp):
TATTTTTTATTTTACT
Found at i:15340 original size:16 final size:16
Alignment explanation
Indices: 15319--15353 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
15309 CATTGCTCGA
*
15319 CTCATTGCTCGTTAAG
1 CTCATTACTCGTTAAG
15335 CTCATTACTCGTTAAG
1 CTCATTACTCGTTAAG
15351 CTC
1 CTC
15354 GATGTTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.37
Consensus pattern (16 bp):
CTCATTACTCGTTAAG
Found at i:15815 original size:20 final size:20
Alignment explanation
Indices: 15773--15815 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
15763 ATATTATAAA
* **
15773 TAATTTATAGATAATATTTT
1 TAATTTATAGATAACATGAT
*
15793 TAATTTATAGATCACATGAT
1 TAATTTATAGATAACATGAT
15813 TAA
1 TAA
15816 AAACTCTCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.47
Consensus pattern (20 bp):
TAATTTATAGATAACATGAT
Found at i:16967 original size:15 final size:15
Alignment explanation
Indices: 16947--16986 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
16937 TACCCACCCT
16947 ACATCCGCCCGCCCC
1 ACATCCGCCCGCCCC
*
16962 ACATCCGGCCGCCCC
1 ACATCCGCCCGCCCC
*
16977 ACATCTGCCC
1 ACATCCGCCC
16987 ACCCACTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.15, C:0.60, G:0.15, T:0.10
Consensus pattern (15 bp):
ACATCCGCCCGCCCC
Found at i:19923 original size:26 final size:26
Alignment explanation
Indices: 19887--19948 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
19877 AGCAAAATCT
19887 AAACAAACATTTATATCTAGAGTATC
1 AAACAAACATTTATATCTAGAGTATC
19913 AAACAAACATTTATATCTAGAGTATC
1 AAACAAACATTTATATCTAGAGTATC
19939 AAACAAACAT
1 AAACAAACAT
19949 AAATGTGCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.50, C:0.16, G:0.06, T:0.27
Consensus pattern (26 bp):
AAACAAACATTTATATCTAGAGTATC
Found at i:24931 original size:2 final size:2
Alignment explanation
Indices: 24874--24915 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
24864 ATAGCAAATA
24874 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24916 TGTACCTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25003 original size:24 final size:24
Alignment explanation
Indices: 24967--25027 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 24
24957 ATTTTATATA
*
24967 TCTTAAATT-TTAAAATTAAATTTT
1 TCTTAACTTATTAAAA-TAAATTTT
*
24991 T-TTAACTTATT-AAATATATTTT
1 TCTTAACTTATTAAAATAAATTTT
25013 TCTTAACTTATTAAA
1 TCTTAACTTATTAAA
25028 TATTTAGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 8 0.25
23 19 0.59
24 5 0.16
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (24 bp):
TCTTAACTTATTAAAATAAATTTT
Found at i:25005 original size:23 final size:24
Alignment explanation
Indices: 24979--25028 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
24969 TTAAATTTTA
24979 AAATTAAATTTTT-TTAACTTATT
1 AAATTAAATTTTTCTTAACTTATT
*
25002 AAA-TATATTTTTCTTAACTTATT
1 AAATTAAATTTTTCTTAACTTATT
25025 AAAT
1 AAAT
25029 ATTTAGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (24 bp):
AAATTAAATTTTTCTTAACTTATT
Found at i:25032 original size:21 final size:22
Alignment explanation
Indices: 24986--25030 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 22
24976 TTAAAATTAA
24986 ATTTTTTTAACTTATTAAATAT
1 ATTTTTTTAACTTATTAAATAT
25008 ATTTTTCTTAACTTATTAAATAT
1 ATTTTT-TTAACTTATTAAATAT
25031 TTAGTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTTTTTAACTTATTAAATAT
Found at i:25088 original size:31 final size:31
Alignment explanation
Indices: 25048--25151 Score: 97
Period size: 30 Copynumber: 3.5 Consensus size: 31
25038 TATTTTAATA
*
25048 TAAAAATATATATTTTATCTTTATCATCACT
1 TAAATATATATATTTTATCTTTATCATCACT
* *** ** *
25079 TAAATATATATTTTTTA-AAATATTTTAACT
1 TAAATATATATATTTTATCTTTATCATCACT
*
25109 TAAAT-TATATATTTTATCTTTATCATCAAT
1 TAAATATATATATTTTATCTTTATCATCACT
*
25139 TAAA-ATTTATATT
1 TAAATATATATATT
25152 AAAAAATACC
Statistics
Matches: 54, Mismatches: 17, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
29 10 0.19
30 29 0.54
31 15 0.28
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (31 bp):
TAAATATATATATTTTATCTTTATCATCACT
Found at i:25123 original size:60 final size:59
Alignment explanation
Indices: 25050--25177 Score: 175
Period size: 60 Copynumber: 2.2 Consensus size: 59
25040 TTTTAATATA
* * ** **
25050 AAAATATATATTTTATCTTTATCATCACTTAAATATATATTTTTTAAAATATTTTAACTT
1 AAAATATATATTTTATCTTTATCATCAATTAAA-ATATATATTAAAAAATACCTTAACTT
* *
25110 AAATTATATATTTTATCTTTATCATCAATTAAAATTTATATTAAAAAATACCTTAACTT
1 AAAATATATATTTTATCTTTATCATCAATTAAAATATATATTAAAAAATACCTTAACTT
25169 AAAATATAT
1 AAAATATAT
25178 TTAAATATTT
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
59 28 0.47
60 31 0.53
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.48
Consensus pattern (59 bp):
AAAATATATATTTTATCTTTATCATCAATTAAAATATATATTAAAAAATACCTTAACTT
Found at i:25399 original size:35 final size:37
Alignment explanation
Indices: 25332--25428 Score: 105
Period size: 35 Copynumber: 2.7 Consensus size: 37
25322 TTAGATAATG
* *
25332 ATAAAATATATTTTT-ATTTTAAAATAAAAATAAAA-
1 ATAAAATATATTTTTAAGTGTAAAATAAAAATAAAAT
* *
25367 ATAAAATATATTTTTAAGTGT-AGATAAGAATAAAAT
1 ATAAAATATATTTTTAAGTGTAAAATAAAAATAAAAT
*
25403 ATTTAAATATA-TTTTAAGT-TAAAATA
1 A-TAAAATATATTTTTAAGTGTAAAATA
25429 TTTTACAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
35 28 0.54
36 16 0.31
37 8 0.15
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (37 bp):
ATAAAATATATTTTTAAGTGTAAAATAAAAATAAAAT
Found at i:25527 original size:30 final size:29
Alignment explanation
Indices: 25481--25551 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 29
25471 TATTTTTACA
*
25481 TTAAAATAAAAATAAATATATTTAATAAG
1 TTAAAACAAAAATAAATATATTTAATAAG
25510 TTAAGAA-AAAAATTAAATATATTTAATAAG
1 TTAA-AACAAAAA-TAAATATATTTAATAAG
25540 TTAAAACAAAAA
1 TTAAAACAAAAA
25552 CAAAACATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
29 11 0.28
30 28 0.72
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (29 bp):
TTAAAACAAAAATAAATATATTTAATAAG
Found at i:28878 original size:16 final size:16
Alignment explanation
Indices: 28857--28890 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
28847 TTACTATTCA
*
28857 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
28873 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
28889 CG
1 CG
28891 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:29661 original size:15 final size:16
Alignment explanation
Indices: 29641--29672 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
29631 TGGCAGATCC
29641 AAATCCAG-ACGGGAA
1 AAATCCAGAACGGGAA
29656 AAATCCAGAACGGGAA
1 AAATCCAGAACGGGAA
29672 A
1 A
29673 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.50, C:0.19, G:0.25, T:0.06
Consensus pattern (16 bp):
AAATCCAGAACGGGAA
Found at i:38058 original size:21 final size:21
Alignment explanation
Indices: 38032--38081 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
38022 GGGGTATGCA
*
38032 GGGCAGAAGACAAAGGAAGCT
1 GGGCAGAAGACAAAGGAAGCC
*
38053 GGGCAGAAGACGAAGGAAGCC
1 GGGCAGAAGACAAAGGAAGCC
38074 GGGCAGAA
1 GGGCAGAA
38082 AATGGAGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.40, C:0.16, G:0.42, T:0.02
Consensus pattern (21 bp):
GGGCAGAAGACAAAGGAAGCC
Found at i:38776 original size:22 final size:22
Alignment explanation
Indices: 38733--38781 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
38723 TGAGTAATTA
38733 CTCTCAATGTTTCTTTGGTTTAT
1 CTCTCAATG-TTCTTTGGTTTAT
*
38756 CTCTCAATG-TCATTTGTTTTAT
1 CTCTCAATGTTC-TTTGGTTTAT
38778 CTCT
1 CTCT
38782 GATTATTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 2 0.08
22 13 0.54
23 9 0.38
ACGTcount: A:0.14, C:0.20, G:0.10, T:0.55
Consensus pattern (22 bp):
CTCTCAATGTTCTTTGGTTTAT
Found at i:38922 original size:25 final size:25
Alignment explanation
Indices: 38894--38968 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
38884 ATAAGATTTT
38894 ATAATTATCATCATAAACTAAATAC
1 ATAATTATCATCATAAACTAAATAC
**
38919 ATAATTA-CA--ATAAGA-T---TTT
1 ATAATTATCATCATAA-ACTAAATAC
*
38938 ATAATTATCATCCTAAACTAAATAC
1 ATAATTATCATCATAAACTAAATAC
38963 ATAATT
1 ATAATT
38969 TGAAATTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 16
0.64 0.09 0.28
Matches are distributed among these distances:
19 8 0.22
20 2 0.05
21 1 0.03
22 9 0.24
23 1 0.03
24 2 0.05
25 14 0.38
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.36
Consensus pattern (25 bp):
ATAATTATCATCATAAACTAAATAC
Found at i:38930 original size:44 final size:44
Alignment explanation
Indices: 38877--38968 Score: 175
Period size: 44 Copynumber: 2.1 Consensus size: 44
38867 AAATATCCGA
38877 AATTACAATAAGATTTTATAATTATCATCATAAACTAAATACAT
1 AATTACAATAAGATTTTATAATTATCATCATAAACTAAATACAT
*
38921 AATTACAATAAGATTTTATAATTATCATCCTAAACTAAATACAT
1 AATTACAATAAGATTTTATAATTATCATCATAAACTAAATACAT
38965 AATT
1 AATT
38969 TGAAATTTTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (44 bp):
AATTACAATAAGATTTTATAATTATCATCATAAACTAAATACAT
Found at i:42804 original size:23 final size:23
Alignment explanation
Indices: 42778--42853 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
42768 TACGCAATCC
42778 TTCGGGACAATTCTACGTGGTCA
1 TTCGGGACAATTCTACGTGGTCA
* *
42801 TTCGGGACATTTTTACGTGGT-A
1 TTCGGGACAATTCTACGTGGTCA
** * * *
42823 TTTTTGGACAATACTATGTGGTCC
1 -TTCGGGACAATTCTACGTGGTCA
42847 TTCGGGA
1 TTCGGGA
42854 TATTTCTATG
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
22 1 0.03
23 39 0.98
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (23 bp):
TTCGGGACAATTCTACGTGGTCA
Found at i:43048 original size:31 final size:31
Alignment explanation
Indices: 43013--43077 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
43003 ATGAATGATC
* *
43013 AATGCATGAT-ATTATATGTTCTTGTTGGTTA
1 AATGCATGATGA-TATATGTTCTGGTTGATTA
43044 AATGCATGATGATATATGTTCTGGTTGATTA
1 AATGCATGATGATATATGTTCTGGTTGATTA
43075 AAT
1 AAT
43078 ATATGATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (31 bp):
AATGCATGATGATATATGTTCTGGTTGATTA
Found at i:43084 original size:31 final size:31
Alignment explanation
Indices: 43017--43085 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
43007 ATGATCAATG
* * *
43017 CATGAT-ATTATATGTTCTTGTTGGTTAAATG
1 CATGATGA-TATATGTTCTGGTTGATTAAATA
43048 CATGATGATATATGTTCTGGTTGATTAAATA
1 CATGATGATATATGTTCTGGTTGATTAAATA
*
43079 TATGATG
1 CATGATG
43086 TATTTTGTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 32 0.97
32 1 0.03
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (31 bp):
CATGATGATATATGTTCTGGTTGATTAAATA
Found at i:43478 original size:16 final size:16
Alignment explanation
Indices: 43454--43486 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
43444 TTCAACTATC
43454 TTTTAAAAAGTAAATG
1 TTTTAAAAAGTAAATG
*
43470 TTTTGAAAAGTAAATG
1 TTTTAAAAAGTAAATG
43486 T
1 T
43487 GACACTTTGG
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:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (16 bp):
TTTTAAAAAGTAAATG
Found at i:49685 original size:20 final size:20
Alignment explanation
Indices: 49637--49686 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
49627 TTGGGTTTTG
*
49637 GTATCGATACTGGAAGAACA
1 GTATCGATATTGGAAGAACA
*
49657 TTATCGATATTGGAAGAACA
1 GTATCGATATTGGAAGAACA
*
49677 GTATTGATAT
1 GTATCGATAT
49687 CATATGGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (20 bp):
GTATCGATATTGGAAGAACA
Found at i:50548 original size:23 final size:23
Alignment explanation
Indices: 50447--50535 Score: 79
Period size: 23 Copynumber: 3.9 Consensus size: 23
50437 GAGTCGAGGG
** *
50447 TTCTACGCAGTCCTTCGGGACAA
1 TTCTACGTGGTCCTTTGGGACAA
* *
50470 TTCTACGTGGTCCTTTGGGATAT
1 TTCTACGTGGTCCTTTGGGACAA
* ** *
50493 TTTTACGTGGTATTTTTGGACAA
1 TTCTACGTGGTCCTTTGGGACAA
* *
50516 TACTATGTGGTCCTTTGGGA
1 TTCTACGTGGTCCTTTGGGA
50536 TATTTCTATG
Statistics
Matches: 49, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (23 bp):
TTCTACGTGGTCCTTTGGGACAA
Found at i:50575 original size:24 final size:24
Alignment explanation
Indices: 50548--50593 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
50538 TTTCTATGTG
* *
50548 GCACTTCGGTGCAATTTCTACGCT
1 GCACTTCGATGCAATTTATACGCT
*
50572 GCACTTCGATGCATTTTATACG
1 GCACTTCGATGCAATTTATACG
50594 AGTTGTAGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.35
Consensus pattern (24 bp):
GCACTTCGATGCAATTTATACGCT
Found at i:50730 original size:31 final size:31
Alignment explanation
Indices: 50695--50768 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
50685 ATGAATGATC
* *
50695 AATGCATGATGTTATATGTTCTTGTTGGTTA
1 AATGCATGATGTTATATGTTCTGGTTGATTA
*
50726 AATGCATGATGATATATGTTCTGGTTGATTA
1 AATGCATGATGTTATATGTTCTGGTTGATTA
**
50757 AATATATGATGT
1 AATGCATGATGT
50769 ATTTTGTACA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.28, C:0.05, G:0.22, T:0.45
Consensus pattern (31 bp):
AATGCATGATGTTATATGTTCTGGTTGATTA
Found at i:51180 original size:16 final size:16
Alignment explanation
Indices: 51156--51188 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
51146 TTCAACTATC
51156 TTTTAAAAAGTAAATG
1 TTTTAAAAAGTAAATG
*
51172 TTTTGAAAAGTAAATG
1 TTTTAAAAAGTAAATG
51188 T
1 T
51189 GACACATCGG
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:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (16 bp):
TTTTAAAAAGTAAATG
Found at i:51877 original size:46 final size:46
Alignment explanation
Indices: 51822--51947 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
51812 TCGTGTATTG
*
51822 AAACACATTTATTCCAAAACACACCACTAATGAACGTAGTATATCA
1 AAACACATTTATTCCAAAACACACCACTAATGAACGTAGAATATCA
* * **
51868 AAAGACATTTATTCCAAAACACACCACTAATGAACGTCGAATATTG
1 AAACACATTTATTCCAAAACACACCACTAATGAACGTAGAATATCA
*
51914 AAACACATTTATTCCAAAACACACCACTGATGAA
1 AAACACATTTATTCCAAAACACACCACTAATGAA
51948 TGTCGCACAC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.45, C:0.24, G:0.08, T:0.23
Consensus pattern (46 bp):
AAACACATTTATTCCAAAACACACCACTAATGAACGTAGAATATCA
Found at i:51964 original size:46 final size:47
Alignment explanation
Indices: 51822--51965 Score: 195
Period size: 46 Copynumber: 3.1 Consensus size: 47
51812 TCGTGTATTG
* *
51822 AAACACATTTATTCCAAAACACACCACTAATGAACGTAGTATATC-A
1 AAACACATTTATTCCAAAACACACCACTAATGAACGTCGAATATCGA
* *
51868 AAAGACATTTATTCCAAAACACACCACTAATGAACGTCGAATATTG-
1 AAACACATTTATTCCAAAACACACCACTAATGAACGTCGAATATCGA
* * * *
51914 AAACACATTTATTCCAAAACACACCACTGATGAATGTCGCACA-CGA
1 AAACACATTTATTCCAAAACACACCACTAATGAACGTCGAATATCGA
51960 AAACAC
1 AAACAC
51966 GTTCATTTCG
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
45 1 0.01
46 85 0.99
ACGTcount: A:0.44, C:0.25, G:0.09, T:0.22
Consensus pattern (47 bp):
AAACACATTTATTCCAAAACACACCACTAATGAACGTCGAATATCGA
Found at i:58780 original size:62 final size:64
Alignment explanation
Indices: 58681--58809 Score: 174
Period size: 62 Copynumber: 2.0 Consensus size: 64
58671 TGTCAAGTTC
* * *
58681 AAATCAACACAAGATGTTCAAATTAAAAATACACACAAGAGTATCAAATCTCAACAACACAATA
1 AAATCAACACAAGACGTTCAAAATAAAAATACACACAAGAATATCAAATCTCAACAACACAATA
* * *
58745 AAATC-ACAC-AGACGTTCAAAAT-AAAATACCACACAAGAATATCAAGTCTTAACAACATAATA
1 AAATCAACACAAGACGTTCAAAATAAAAATA-CACACAAGAATATCAAATCTCAACAACACAATA
58807 AAA
1 AAA
58810 GAGATAGTAG
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
61 6 0.10
62 43 0.74
63 4 0.07
64 5 0.09
ACGTcount: A:0.55, C:0.20, G:0.06, T:0.19
Consensus pattern (64 bp):
AAATCAACACAAGACGTTCAAAATAAAAATACACACAAGAATATCAAATCTCAACAACACAATA
Done.