Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000522.1 Hibiscus syriacus cultivar Beakdansim tig00001000_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: 83534
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2912 original size:54 final size:54
Alignment explanation
Indices: 2824--2961 Score: 195
Period size: 54 Copynumber: 2.6 Consensus size: 54
2814 TATATATTGT
* * * *
2824 AATTACTGTATGGGAACTGTGTGTGCAACCTAAGAAATTCATAAGAAGTTTATA
1 AATTTCTGTATTGGCACTGCGTGTGCAACCTAAGAAATTCATAAGAAGTTTATA
* * * *
2878 AATTTCTGTATTGGCACTGGGTGTTCAACCTAAGAAATTCATAATAAGTTTATG
1 AATTTCTGTATTGGCACTGCGTGTGCAACCTAAGAAATTCATAAGAAGTTTATA
*
2932 AATTTCTATATTGGCACTGCGTGTGCAACC
1 AATTTCTGTATTGGCACTGCGTGTGCAACC
2962 CTATGTTGTT
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 74 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (54 bp):
AATTTCTGTATTGGCACTGCGTGTGCAACCTAAGAAATTCATAAGAAGTTTATA
Found at i:2989 original size:54 final size:54
Alignment explanation
Indices: 2824--3013 Score: 186
Period size: 54 Copynumber: 3.5 Consensus size: 54
2814 TATATATTGT
* * * * * * **
2824 AATTACTGTATGGGAACTGTGTGTGCAACCTAAGAAATTCATAAGAAGTTTATA
1 AATTTCTGTATTGGCACTGCGTGTGCAACCTAAGAAATTCATAATAAGTTGACG
* * * *
2878 AATTTCTGTATTGGCACTGGGTGTTCAACCTAAGAAATTCATAATAAGTTTATG
1 AATTTCTGTATTGGCACTGCGTGTGCAACCTAAGAAATTCATAATAAGTTGACG
* * ***
2932 AATTTCTATATTGGCACTGCGTGTGCAACCCTATGTTGTTCATAATAAG-TGACG
1 AATTTCTGTATTGGCACTGCGTGTGCAA-CCTAAGAAATTCATAATAAGTTGACG
*
2986 AATTATC-GTATTGGCACTACGTGTGCAA
1 AATT-TCTGTATTGGCACTGCGTGTGCAA
3014 ACTATAGAGT
Statistics
Matches: 116, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
54 98 0.84
55 18 0.16
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (54 bp):
AATTTCTGTATTGGCACTGCGTGTGCAACCTAAGAAATTCATAATAAGTTGACG
Found at i:3229 original size:82 final size:81
Alignment explanation
Indices: 3088--3412 Score: 352
Period size: 82 Copynumber: 4.1 Consensus size: 81
3078 TTGTTCTAAA
* * * *
3088 ATAAAAGACTAAATGCCTAGCTATGCATTCGGTAG-AAGGTTGCAAATAATGCCAATTAGATGAA
1 ATAAAAGACTAAATGCCTAGCTATGCATTTGGCAGAAAGG-TGCCAATAATGCCAGTTAGATGAA
3152 TGGTTAAATGCCTTTGAG
65 -GGTTAAATGCCTTTGAG
* * * *
3170 ATAAAAGACTAAATGTCTAGCTTTACATTTGGCAGGAAGGTGCCAATAATGCCAGTTAGATGAAA
1 ATAAAAGACTAAATGCCTAGCTATGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATG-AA
* *
3235 GATTACATGCCTTTGAG
65 GGTTAAATGCCTTTGAG
* * * * * *
3252 ATAAAAGACTAAATGCCTAGTTGTGCAGTTGGTAGAAAGATGCCAAT-A----A-TT---T-CA-
1 ATAAAAGACTAAATGCCTAGCTATGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAG
3306 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
*
3322 ATAAAAGACTAAATGCCTAGCTATGCATTTGGCAGAAAGGTACCAATAATGCCAGTTAGATGAAG
1 ATAAAAGACTAAATGCCTAGCTATGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAG
*
3387 GTTAAATG-CATTGAG
66 GTTAAATGCCTTTGAG
* *
3402 TTAACAGACTA
1 ATAAAAGACTA
3413 GCCGGGTAAG
Statistics
Matches: 200, Mismatches: 30, Indels: 28
0.78 0.12 0.11
Matches are distributed among these distances:
70 55 0.28
71 2 0.01
73 1 0.00
75 1 0.00
76 4 0.02
77 1 0.00
79 1 0.00
80 16 0.08
81 9 0.05
82 104 0.52
83 6 0.03
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (81 bp):
ATAAAAGACTAAATGCCTAGCTATGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAG
GTTAAATGCCTTTGAG
Found at i:3359 original size:70 final size:70
Alignment explanation
Indices: 3241--3371 Score: 208
Period size: 70 Copynumber: 1.9 Consensus size: 70
3231 GAAAGATTAC
* * * *
3241 ATGCCTTTGAGATAAAAGACTAAATGCCTAGTTGTGCAGTTGGTAGAAAGATGCCAATAATTTCA
1 ATGCCTTTGAGATAAAAGACTAAATGCCTAGCTATGCAGTTGGCAGAAAGATACCAATAATTTCA
3306 GTTAA
66 GTTAA
* *
3311 ATGCCTTTGAGATAAAAGACTAAATGCCTAGCTATGCATTTGGCAGAAAGGTACCAATAAT
1 ATGCCTTTGAGATAAAAGACTAAATGCCTAGCTATGCAGTTGGCAGAAAGATACCAATAAT
3372 GCCAGTTAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 55 1.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.28
Consensus pattern (70 bp):
ATGCCTTTGAGATAAAAGACTAAATGCCTAGCTATGCAGTTGGCAGAAAGATACCAATAATTTCA
GTTAA
Found at i:6547 original size:8 final size:8
Alignment explanation
Indices: 6534--6559 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
6524 ACTAAGTTTT
6534 CTTCTTTC
1 CTTCTTTC
6542 CTTCTTTC
1 CTTCTTTC
6550 CTTCTTTC
1 CTTCTTTC
6558 CT
1 CT
6560 GTGAAAGAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (8 bp):
CTTCTTTC
Found at i:7666 original size:54 final size:54
Alignment explanation
Indices: 7577--7749 Score: 204
Period size: 54 Copynumber: 3.2 Consensus size: 54
7567 TATCGTATGG
* * * *
7577 CACTGTTTGTGCAACCTAAGAAATTCGTAAGAAGTTTATGAATTTCTGTATTGA
1 CACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATAAATTTCTGTATTGA
* *
7631 CACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATAAATTTATGTATTGG
1 CACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATAAATTTCTGTATTGA
** * * * * *
7685 CGTTGTGTGTGCAACCCCACGTAATTCATAATAAGTTT-TAAATTACCGTATTGA
1 CACTGTGTGTGCAA-CCTAAGAAATTCATAATAAGTTTATAAATTTCTGTATTGA
*
7739 CACTATGTGTG
1 CACTGTGTGTG
7750 TAAACTATAG
Statistics
Matches: 100, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
54 80 0.80
55 20 0.20
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.36
Consensus pattern (54 bp):
CACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATAAATTTCTGTATTGA
Found at i:7967 original size:82 final size:82
Alignment explanation
Indices: 7826--8467 Score: 827
Period size: 82 Copynumber: 7.9 Consensus size: 82
7816 ATTGTTCTAA
* * * *
7826 ATAAAATACTAAATTCCTAGTTGTGCATTTGGCATAAAGGTGCCAATAATGTCAGTTAGATGAAA
1 ATAAAAGACTAAATGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAA
*
7891 GGTTAAATGCCTTCGAG
66 GGTTAAATGCCTTTGAG
* * * * * * * *
7908 ATAAAAGAATAAATGCCTAGCTGTGCATTTGACAGAAATGTGCAAATAATGTCAATTAGACGAAA
1 ATAAAAGACTAAATGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAA
*
7973 GGTTAAATGCCTTTGAT
66 GGTTAAATGCCTTTGAG
* **
7990 ATAAAAGACTAAATGCCTAGCTGTGCATTTGGCAGAAAGGTGGTAATAATGCCAGTTAGATGAAA
1 ATAAAAGACTAAATGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAA
*
8055 GGTTAAATTCCTTTGAG
66 GGTTAAATGCCTTTGAG
* **
8072 ATAAAAGACTAAATGCCTAGTTGTGCATTTGGTAGAAAGGTGCCAATAAACCCAGTTAGATGAAA
1 ATAAAAGACTAAATGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAA
* *
8137 GGTAAAATGCCTTTAAG
66 GGTTAAATGCCTTTGAG
* *
8154 ATAGAAA-ACTAAATGCCTAGTAGTGCATTTCGCAGAAAGGTGCCAATAATGCCAGTTAGATGAA
1 ATA-AAAGACTAAATGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAA
*
8218 AGGTTAAATGCATTTGAG
65 AGGTTAAATGCCTTTGAG
* * *
8236 ATAAAAGACAAAATGCCTAGTTGTGCATTTGGCAGAAAGGTGCGAATAATG-CAGTTAGATGATA
1 ATAAAAGACTAAATGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAA
8300 GGTTAAATGCCTTTGAG
66 GGTTAAATGCCTTTGAG
* * * * ** * *
8317 ATAAAAAACTAAATTCCTAGCTGTGTATTTGGCTTAAATGTGCCAATAATG-C---TA-AT--TA
1 ATAAAAGACTAAATGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAA
8375 GGTTAAAT-CCTTTGAG
66 GGTTAAATGCCTTTGAG
* * * *
8391 ATAAAAGACTAAATGTCTAGTTGTGCATTTGGAAGAAAGGTGCCAATAATGCCAATTAGGTGAAA
1 ATAAAAGACTAAATGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAA
*
8456 GGTTAAACGCCT
66 GGTTAAATGCCT
8468 AGCTGTGCAT
Statistics
Matches: 484, Mismatches: 66, Indels: 20
0.85 0.12 0.04
Matches are distributed among these distances:
74 50 0.10
75 11 0.02
77 2 0.00
78 4 0.01
79 1 0.00
81 82 0.17
82 331 0.68
83 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (82 bp):
ATAAAAGACTAAATGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAA
GGTTAAATGCCTTTGAG
Found at i:8421 original size:74 final size:75
Alignment explanation
Indices: 8218--8451 Score: 283
Period size: 74 Copynumber: 3.1 Consensus size: 75
8208 GTTAGATGAA
* * * *
8218 AGGTTAAATGCATTTGAGATAAAAGACAAAATGCCTAGTTGTGCATTTGGCAGAAAGGTGCGAAT
1 AGGTTAAATGCCTTTGAGATAAAAGACTAAATGTCTAGTTGTGCATTTGGCAGAAAGGTGCCAAT
8283 AATGCAGTTAGATGAT
66 AATGC---TA-AT--T
* * * ** *
8299 AGGTTAAATGCCTTTGAGATAAAAAACTAAAT-TCCTAGCTGTGTATTTGGCTTAAATGTGCCAA
1 AGGTTAAATGCCTTTGAGATAAAAGACTAAATGT-CTAGTTGTGCATTTGGCAGAAAGGTGCCAA
8363 TAATGCTAATT
65 TAATGCTAATT
*
8374 AGGTTAAAT-CCTTTGAGATAAAAGACTAAATGTCTAGTTGTGCATTTGGAAGAAAGGTGCCAAT
1 AGGTTAAATGCCTTTGAGATAAAAGACTAAATGTCTAGTTGTGCATTTGGCAGAAAGGTGCCAAT
*
8438 AATGCCAATT
66 AATGCTAATT
8448 AGGT
1 AGGT
8452 GAAAGGTTAA
Statistics
Matches: 133, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
74 59 0.44
75 11 0.08
77 2 0.02
78 2 0.02
81 59 0.44
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (75 bp):
AGGTTAAATGCCTTTGAGATAAAAGACTAAATGTCTAGTTGTGCATTTGGCAGAAAGGTGCCAAT
AATGCTAATT
Found at i:8619 original size:45 final size:45
Alignment explanation
Indices: 8569--8658 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
8559 ATGAGGAATA
* * *
8569 ATGCATAGTTGGCATGAAAGGATGACATAAATGAAAATGTATAAC
1 ATGCATAATTGGCATGAAAGGATGACACAAATGAAAATATATAAC
* *
8614 ATGCATAATTGGCATGAAAGGATGCCACAAATGAAACTATATAAC
1 ATGCATAATTGGCATGAAAGGATGACACAAATGAAAATATATAAC
8659 GGTGTATTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.23
Consensus pattern (45 bp):
ATGCATAATTGGCATGAAAGGATGACACAAATGAAAATATATAAC
Found at i:18159 original size:133 final size:135
Alignment explanation
Indices: 17874--18178 Score: 334
Period size: 133 Copynumber: 2.3 Consensus size: 135
17864 AACTGCGATT
* ** * *
17874 TAGCTTAACTCAACAATGAGGAGCTATTTACCAGT-CTAGATTTTGAGTTAGATTTCAACTTCAC
1 TAGCTTAACTCAACAACGAGGAGCTATTTTTCA-TCCAAGATTTTGAGTCAGATTTCAACTTCAC
* * * * *
17938 AACGAAGGAGATATCATGTTCAAGTCATCCAAGGTTAACTAAACTTCACGACGAAATAGTTAACC
65 AACGAAGGAGATATCAAGCTCAAGTCATCCAAGATCAACTAAACTTCACGACGAAATAGTCAACC
* **
18003 ATAATT
130 AGAACA
18009 TAGCTTAACTCAACAACGAGGAGCTATTTTTCATCCAAGATTTTGAGTCAGATTTCAACTTCA-A
1 TAGCTTAACTCAACAACGAGGAGCTATTTTTCATCCAAGATTTTGAGTCAGATTTCAACTTCACA
* * ** * * * **
18073 GATGAA-GA-ATATCAAGCTCGAGTCATCTGAGATCGACTCAACTTCACGATG-AATGAGTCATT
66 -ACGAAGGAGATATCAAGCTCAAGTCATCCAAGATCAACTAAACTTCACGACGAAAT-AGTCAAC
18135 CAGAACA
129 CAGAACA
*
18142 TAGCTTAACTCAACAACGAGGAGATA-TTTTCATCCAA
1 TAGCTTAACTCAACAACGAGGAGCTATTTTTCATCCAA
18179 CTTAGCCAAC
Statistics
Matches: 144, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
132 14 0.10
133 66 0.46
134 4 0.03
135 60 0.42
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (135 bp):
TAGCTTAACTCAACAACGAGGAGCTATTTTTCATCCAAGATTTTGAGTCAGATTTCAACTTCACA
ACGAAGGAGATATCAAGCTCAAGTCATCCAAGATCAACTAAACTTCACGACGAAATAGTCAACCA
GAACA
Found at i:19296 original size:13 final size:13
Alignment explanation
Indices: 19268--19311 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
19258 TGAACAAGCA
*
19268 TATTTTATCT-TT
1 TATTTTATTTATT
19280 TATTTTATTTATT
1 TATTTTATTTATT
19293 TATTTTATTTATT
1 TATTTTATTTATT
19306 TATTTT
1 TATTTT
19312 GACCCAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 9 0.30
13 21 0.70
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (13 bp):
TATTTTATTTATT
Found at i:19546 original size:29 final size:27
Alignment explanation
Indices: 19487--19557 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 27
19477 GATTTTAAAT
* * * *
19487 TTTTTTTCTTAAATTTCTTAGTTTTCA
1 TTTTTTTCTTAAATTACGTAATTTCCA
*
19514 TTTTAATTTCTTAAATTACGTAATTTCCT
1 TTTT--TTTCTTAAATTACGTAATTTCCA
19543 TTTTTTTCTTAAATT
1 TTTTTTTCTTAAATT
19558 CGATTGATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 15 0.41
29 22 0.59
ACGTcount: A:0.23, C:0.11, G:0.03, T:0.63
Consensus pattern (27 bp):
TTTTTTTCTTAAATTACGTAATTTCCA
Found at i:19571 original size:27 final size:26
Alignment explanation
Indices: 19486--19571 Score: 68
Period size: 28 Copynumber: 3.1 Consensus size: 26
19476 TGATTTTAAA
*
19486 TTTTTTTTCTTAAATTTC-TTAGTTTTC
1 TTTTTTTTCTTAAA-TTCGTT-GATTTC
* *
19513 ATTTTAATTTCTTAAATTACG-TAATTTCC
1 -TTTT-TTTTCTTAAATT-CGTTGATTT-C
19542 TTTTTTTTCTTAAATTCGATTGATTTC
1 TTTTTTTTCTTAAATTCG-TTGATTTC
19569 TTT
1 TTT
19572 AATTTCTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
26 2 0.04
27 15 0.32
28 18 0.38
29 12 0.26
ACGTcount: A:0.21, C:0.12, G:0.05, T:0.63
Consensus pattern (26 bp):
TTTTTTTTCTTAAATTCGTTGATTTC
Found at i:19577 original size:27 final size:27
Alignment explanation
Indices: 19515--19579 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
19505 TAGTTTTCAT
19515 TTTAATTTCTTAAATTACGTAATTTCC
1 TTTAATTTCTTAAATTACGTAATTTCC
** *
19542 TTTTTTTTCTTAAATT-CGATTGATTT-C
1 TTTAATTTCTTAAATTACG--TAATTTCC
19569 TTTAATTTCTT
1 TTTAATTTCTT
19580 TTTTTCTTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
26 2 0.06
27 24 0.77
28 5 0.16
ACGTcount: A:0.23, C:0.12, G:0.05, T:0.60
Consensus pattern (27 bp):
TTTAATTTCTTAAATTACGTAATTTCC
Found at i:25916 original size:16 final size:16
Alignment explanation
Indices: 25895--25927 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
25885 GAAAAAGTAA
25895 AAAATGGAGTGAGTGG
1 AAAATGGAGTGAGTGG
25911 AAAATGGAGTGAGTGG
1 AAAATGGAGTGAGTGG
25927 A
1 A
25928 CGGTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.42, T:0.18
Consensus pattern (16 bp):
AAAATGGAGTGAGTGG
Found at i:33813 original size:4 final size:4
Alignment explanation
Indices: 33806--35009 Score: 1929
Period size: 4 Copynumber: 303.0 Consensus size: 4
33796 CGTATATATG
* * * * * * * *
33806 TGTA TGTA TG-- TGTG TGTT TGTA TGTG TGTG TGTG TGTG TGTG TGTG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
33852 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * *
33900 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTC TATA TATA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * *
33948 TGTA TTTA TGTA TGTA TGTA TGTA TGTG TGTG TGTG TGTG TGTG TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
33996 TGTA TGTA TGTA TGTA TGTA TGTA TTTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
34044 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
34092 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
34140 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
34188 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG-- TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
34234 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
34282 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGCA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * *
34330 TGTA TGTA TGCA TGCA TGCA TGCA TGCA T-TA TGTA TGTA TGTA TGCA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
34377 TGTA TGCA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
34425 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
34473 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
34521 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA --TA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
34567 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
34615 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
34663 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
34711 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * *
34759 TGTA TGTA TGTA TGTA TGCA TGCA TGCA TGCA T-TA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* *
34806 TGCA TGTA TGCA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * ** * * * *
34854 TGCA TGCA TGCA TGCA TACA TGCA TGCA TGTA TGCA TGTA TGTA CGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * *
34902 TGTA CGTA TGTA TGTA TGTA CGTA TATA TATA TGTA TGTA TATA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
34950 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
34998 TGTA TGTA TGTA
1 TGTA TGTA TGTA
35010 ATATTTTGCC
Statistics
Matches: 1148, Mismatches: 44, Indels: 16
0.95 0.04 0.01
Matches are distributed among these distances:
2 6 0.01
3 4 0.00
4 1138 0.99
ACGTcount: A:0.24, C:0.02, G:0.25, T:0.48
Consensus pattern (4 bp):
TGTA
Found at i:39820 original size:2 final size:2
Alignment explanation
Indices: 39813--39844 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
39803 TAAATTTTCA
39813 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
39845 GGTTCATGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41487 original size:46 final size:46
Alignment explanation
Indices: 41392--41489 Score: 117
Period size: 46 Copynumber: 2.1 Consensus size: 46
41382 AAATTGTTTG
* * * *
41392 AAAATTAATTTCTCTTTTCTCTGTAAGATGTTTTGAGAAATCCTCA
1 AAAATTAATTTATCTTTTCTCTGTAAAATCTTTTGAAAAATCCTCA
* *
41438 AAAATTAATTTATCTTTTCATTTGATAAAATCTTTT-AAAAATCCTAA
1 AAAATTAATTTATCTTTTC-TCTG-TAAAATCTTTTGAAAAATCCTCA
41485 AAAAT
1 AAAAT
41490 CATTTTTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
46 18 0.41
47 17 0.39
48 9 0.20
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (46 bp):
AAAATTAATTTATCTTTTCTCTGTAAAATCTTTTGAAAAATCCTCA
Found at i:44018 original size:21 final size:20
Alignment explanation
Indices: 43991--44088 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
43981 AATCAGTGTC
43991 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
44012 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
44032 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
44052 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
44073 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
44089 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 31 0.51
21 30 0.49
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:44041 original size:41 final size:41
Alignment explanation
Indices: 43932--44088 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 41
43922 AAATGACCAA
* **
43932 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
* ** * *
43971 CAGAATCGCAAATC-AGTGTCCAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGAATAT-CAAAATCGCAACGCGATT-TTC
* * * **
44012 GAAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGAATA-TCAAAATCGCAACGCGATTTTC
*
44053 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGA
44089 ACACATAAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 17 0.20
41 53 0.61
42 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (41 bp):
CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
Found at i:44211 original size:20 final size:20
Alignment explanation
Indices: 44055--44264 Score: 197
Period size: 20 Copynumber: 10.5 Consensus size: 20
44045 CGATTTTCCA
** *
44055 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGAATCCGT
*
44075 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATC-CGT
* *
44095 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
44115 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATCCGT
**
44135 AAATCGCAACGCGTTTCCGT
1 AAATCGCAACGCGAATCCGT
* *
44155 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* **
44175 AAATCGCAATGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
44195 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
44215 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* * *
44235 AAATCACAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
*
44255 AAATCACAAC
1 AAATCGCAAC
44265 ACTGAAATTT
Statistics
Matches: 162, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
20 161 0.99
21 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Found at i:44983 original size:24 final size:24
Alignment explanation
Indices: 44944--44990 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
44934 AAATTTGGTC
44944 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
44968 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
44991 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:45182 original size:12 final size:12
Alignment explanation
Indices: 45165--45189 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45155 ATATAATCCT
45165 GAAGAAGAAAAA
1 GAAGAAGAAAAA
45177 GAAGAAGAAAAA
1 GAAGAAGAAAAA
45189 G
1 G
45190 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:47488 original size:19 final size:19
Alignment explanation
Indices: 47466--47757 Score: 323
Period size: 19 Copynumber: 16.7 Consensus size: 19
47456 CGGAAATTAC
*
47466 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
47485 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
47499 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
47519 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
47533 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
47552 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
47571 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
47590 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
47604 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
47623 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
47642 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
47661 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
47680 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
47694 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
*
47712 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
47726 AATCGCAATGCGAAATTATA
1 AATCGCAATGCGAAATGA-A
47746 AA-CGCAATGCGA
1 AATCGCAATGCGA
47758 TTTTCATTTC
Statistics
Matches: 237, Mismatches: 9, Indels: 54
0.79 0.03 0.18
Matches are distributed among these distances:
13 1 0.00
14 47 0.20
15 1 0.00
16 18 0.08
17 13 0.05
18 11 0.05
19 131 0.55
20 15 0.06
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:47606 original size:71 final size:71
Alignment explanation
Indices: 47466--47719 Score: 341
Period size: 71 Copynumber: 3.6 Consensus size: 71
47456 CGGAAATTAC
* *
47466 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCA
*
47526 ACGAGAG
65 ACGAAAG
47533 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
*
47598 CGACAG
66 CGAAAG
47604 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
47669 TGCGAAATG
66 --CGAAA-G
47678 AAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATG-AAATCGCAA
1 --AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
47720 CGAGAGAATC
Statistics
Matches: 173, Mismatches: 4, Indels: 17
0.89 0.02 0.09
Matches are distributed among these distances:
67 25 0.14
69 1 0.01
70 9 0.05
71 103 0.60
72 16 0.09
73 5 0.03
74 6 0.03
76 8 0.05
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.14
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
CGAAAG
Found at i:47644 original size:90 final size:89
Alignment explanation
Indices: 47533--47757 Score: 363
Period size: 90 Copynumber: 2.6 Consensus size: 89
47523 GCAACGAGAG
47533 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
*
47598 CGACAGAATCGCAATGCGAAATGAA
66 CGAAAGAATCGCAATGCGAAATG-A
47623 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
47688 CGAAAGAATCGCAATGCGAAATGA
66 CGAAAGAATCGCAATGCGAAATGA
* *
47712 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATTATAAA-CGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGA-AAATCGCAATGCGA
47758 TTTTCATTTC
Statistics
Matches: 131, Mismatches: 3, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
84 29 0.22
85 4 0.03
87 2 0.02
89 9 0.07
90 87 0.66
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (89 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
CGAAAGAATCGCAATGCGAAATGA
Found at i:47699 original size:14 final size:14
Alignment explanation
Indices: 47680--47733 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
47670 GCGAAATGAA
47680 AATCGCAACGAAAG
1 AATCGCAACGAAAG
47694 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
47711 AAATCGCAACGAGAG
1 -AATCGCAACGAAAG
47726 AATCGCAA
1 AATCGCAA
47734 TGCGAAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
14 16 0.46
15 1 0.03
16 9 0.26
17 1 0.03
18 8 0.23
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:47714 original size:57 final size:55
Alignment explanation
Indices: 47494--47719 Score: 305
Period size: 52 Copynumber: 4.2 Consensus size: 55
47484 AAATCCCAAC
*
47494 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CGAGA-G-AATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAAATGAAATCGCAATGCGAA
*
47547 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAC
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-AAATCGCAATGCGAA
47602 A-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-AAATCGCAATGCGAA
47656 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAAA-G-AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGAAATCGCAATGCGAA
47708 ATG-AAATCGCAA
1 ATGAAAATCGCAA
47720 CGAGAGAATC
Statistics
Matches: 160, Mismatches: 3, Indels: 22
0.86 0.02 0.12
Matches are distributed among these distances:
51 9 0.06
52 79 0.49
53 16 0.10
54 10 0.06
55 11 0.07
57 35 0.22
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (55 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGAAATCGCAATGCGAA
Found at i:47792 original size:19 final size:19
Alignment explanation
Indices: 47748--47848 Score: 133
Period size: 18 Copynumber: 5.6 Consensus size: 19
47738 AAATTATAAA
*
47748 CGCAATGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
47767 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
47787 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
47803 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
47820 CGCATTGCGA-TTTCATTT
1 CGCATTGCGATTTTCATTT
47838 CGCATTGCGAT
1 CGCATTGCGAT
47849 AGTCATTTTT
Statistics
Matches: 72, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
18 18 0.25
19 16 0.22
20 18 0.25
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.43
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:47974 original size:14 final size:14
Alignment explanation
Indices: 47955--47991 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
47945 CATCAATTAC
47955 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
47969 ACAAATCATCTTTT
1 ACAAATCAACTTTT
47983 ACAAATCAA
1 ACAAATCAA
47992 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:49979 original size:14 final size:14
Alignment explanation
Indices: 49960--50013 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
49950 GCGAAATGAA
*
49960 AATCGCAACGACAG
1 AATCGCAACGAAAG
49974 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
49991 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
50007 AATCGCA
1 AATCGCA
50014 CGCGAAATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 15 0.44
16 5 0.15
17 6 0.18
19 8 0.24
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:49998 original size:19 final size:19
Alignment explanation
Indices: 49904--50031 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
49894 TAGTTTACTT
* *
49904 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
49924 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
49943 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
49962 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
49976 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
49995 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
50009 TCGC-ACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
50027 TCGCA
1 TCGCA
50032 GTGCGATTTT
Statistics
Matches: 90, Mismatches: 7, Indels: 23
0.75 0.06 0.19
Matches are distributed among these distances:
13 1 0.01
14 14 0.16
15 5 0.06
16 7 0.08
17 10 0.11
18 6 0.07
19 35 0.39
20 12 0.13
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:50024 original size:32 final size:33
Alignment explanation
Indices: 49941--50031 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
49931 GCGAAACCAA
*
49941 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
49974 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
50007 AATCGC-ACGCGAAATGAAAATCGCA
1 AATCGCAACGCGAAATGAAAATCGCA
50032 GTGCGATTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 18 0.33
33 37 0.67
ACGTcount: A:0.46, C:0.22, G:0.21, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:50068 original size:14 final size:14
Alignment explanation
Indices: 50049--50105 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
50039 TTTGGTTTCG
50049 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
50063 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
50080 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
50096 CGTTGCGATT
1 CGTTGCGATT
50106 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:50081 original size:33 final size:33
Alignment explanation
Indices: 50033--50124 Score: 139
Period size: 33 Copynumber: 2.8 Consensus size: 33
50023 AAAATCGCAG
** *
50033 TGCGATTTTGGTTTCGCGTTGCGATTCTTTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTGTCGT
*
50066 TGCGATTTTCATTTCGCATTGCGATTCTGTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTGTCGT
*
50099 TGCGATTTTCATTTCGCGTTGTGATT
1 TGCGATTTTCATTTCGCGTTGCGATT
50125 TTGGTTTCGC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.48
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTGTCGT
Found at i:50089 original size:19 final size:18
Alignment explanation
Indices: 50033--50145 Score: 89
Period size: 19 Copynumber: 6.5 Consensus size: 18
50023 AAAATCGCAG
*
50033 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-CTTTCGCGT
50052 TGCGA--TTCTTT--CGT
1 TGCGATTTTCTTTCGCGT
*
50066 TGCGATTTTCATTTCGCAT
1 TGCGATTTTC-TTTCGCGT
*
50085 TGCGA--TTCTGT--CGT
1 TGCGATTTTCTTTCGCGT
50099 TGCGATTTTCATTTCGCGT
1 TGCGATTTTC-TTTCGCGT
* *
50118 TGTGATTTTGGTTTCGCGT
1 TGCGATTTT-CTTTCGCGT
50137 TGCGATTTT
1 TGCGATTTT
50146 AAGTTTCGTG
Statistics
Matches: 75, Mismatches: 8, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
14 15 0.20
16 11 0.15
17 10 0.13
19 39 0.52
ACGTcount: A:0.09, C:0.18, G:0.25, T:0.49
Consensus pattern (18 bp):
TGCGATTTTCTTTCGCGT
Found at i:50153 original size:20 final size:19
Alignment explanation
Indices: 50033--50161 Score: 84
Period size: 19 Copynumber: 7.3 Consensus size: 19
50023 AAAATCGCAG
*
50033 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTAGTTTCGCGT
*
50052 TGCGA--TT-CTTT--CGT
1 TGCGATTTTAGTTTCGCGT
*
50066 TGCGATTTTCA-TTTCGCAT
1 TGCGATTTT-AGTTTCGCGT
*
50085 TGCGATTCT-G--T--CGT
1 TGCGATTTTAGTTTCGCGT
50099 TGCGATTTTCA-TTTCGCGT
1 TGCGATTTT-AGTTTCGCGT
* *
50118 TGTGATTTTGGTTTCGCGT
1 TGCGATTTTAGTTTCGCGT
*
50137 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-AGTTTCGCGT
50157 TGCGA
1 TGCGA
50162 AAGTAAACTA
Statistics
Matches: 85, Mismatches: 10, Indels: 29
0.69 0.08 0.23
Matches are distributed among these distances:
14 18 0.21
16 6 0.07
17 6 0.07
19 42 0.49
20 13 0.15
ACGTcount: A:0.10, C:0.17, G:0.26, T:0.47
Consensus pattern (19 bp):
TGCGATTTTAGTTTCGCGT
Found at i:50325 original size:93 final size:93
Alignment explanation
Indices: 50209--50674 Score: 877
Period size: 93 Copynumber: 5.1 Consensus size: 93
50199 ATGGATTGCA
*
50209 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAAAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
50273 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
50301 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
50366 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
50394 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAAT--ACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
50457 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
50485 TTACTTTCAACCAAAAGACAAAAC-AAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
50549 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
50577 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACATTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
50642 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
50670 TTACT
1 TTACT
50675 AAGCAATCTA
Statistics
Matches: 367, Mismatches: 3, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
90 32 0.09
91 58 0.16
92 62 0.17
93 215 0.59
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:50566 original size:183 final size:184
Alignment explanation
Indices: 50209--50674 Score: 864
Period size: 183 Copynumber: 2.5 Consensus size: 184
50199 ATGGATTGCA
50209 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAAAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATAC--AGTT
50273 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
64 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
50338 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
129 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
50394 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAGTTTA
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAGTTTA
50459 GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAAC-AAGACAAATACTAT
66 GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAT
50523 TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
*
50577 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACATTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAAT--ACAGTT
*
50642 TAGCAGAATTGGCAGCAACCGAATAAATTTACT
64 TAGCAGAATTGGCAGCAACCGAACAAATTTACT
50675 AAGCAATCTA
Statistics
Matches: 276, Mismatches: 2, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
183 125 0.45
184 56 0.20
185 41 0.15
186 54 0.20
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (184 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAGTTTA
GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAT
TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:52404 original size:19 final size:20
Alignment explanation
Indices: 52360--52421 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
52350 TTTTGGTTGA
*
52360 AATGAAAATCGCAACGAGAG
1 AATGACAATCGCAACGAGAG
** *
52380 AATGACTGTCGCAACGCGA-
1 AATGACAATCGCAACGAGAG
52399 AATGACAATCGCAACGAGAG
1 AATGACAATCGCAACGAGAG
52419 AAT
1 AAT
52422 CGCAACGCGA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (20 bp):
AATGACAATCGCAACGAGAG
Found at i:52424 original size:14 final size:14
Alignment explanation
Indices: 52405--52461 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
52395 GCGAAATGAC
52405 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
52419 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
52438 AATCGCAACGAGAG
1 AATCGCAACGAGAG
52452 AATCGCAACG
1 AATCGCAACG
52462 CGAAATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:52430 original size:33 final size:33
Alignment explanation
Indices: 52358--52478 Score: 170
Period size: 33 Copynumber: 3.5 Consensus size: 33
52348 TCTTTTGGTT
52358 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGC
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAACGC
*
52397 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
52430 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
52463 GAAATAAAAATCGCAA
1 GAAATGAAAATCGCAA
52479 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
33 56 0.71
36 1 0.01
38 1 0.01
39 21 0.27
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:52443 original size:19 final size:19
Alignment explanation
Indices: 52358--52483 Score: 92
Period size: 19 Copynumber: 7.1 Consensus size: 19
52348 TCTTTTGGTT
*
52358 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
***
52377 GAGAATGACTGTCGCAACGC
1 GA-AATGAAAATCGCAACGC
*
52397 GAAATGACAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
52414 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
52430 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
52447 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
52463 GAAATAAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
52482 GA
1 GA
52484 TTTTGGTTTC
Statistics
Matches: 84, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
14 20 0.24
15 2 0.02
16 4 0.05
17 4 0.05
18 2 0.02
19 37 0.44
20 15 0.18
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:52514 original size:14 final size:14
Alignment explanation
Indices: 52495--52550 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
52485 TTTGGTTTCG
52495 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
52509 CGTTGCGATTTTATTTCG
1 CGTTGCGA---T-TCTCT
52527 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
52541 CGTTGCGATT
1 CGTTGCGATT
52551 GTCATTTCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 21 0.62
15 1 0.03
17 1 0.03
18 11 0.32
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:52594 original size:20 final size:20
Alignment explanation
Indices: 52534--52608 Score: 89
Period size: 19 Copynumber: 3.8 Consensus size: 20
52524 TCGCGTTGCG
52534 ATTCTCTCGTTGCGATTGTC
1 ATTCTCTCGTTGCGATTGTC
* **
52554 ATT-TCGCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTGTC
*
52573 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTGTC
*
52593 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
52609 CTCTTCTGCA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
19 16 0.36
20 16 0.36
21 13 0.29
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTGTC
Found at i:52595 original size:39 final size:33
Alignment explanation
Indices: 52479--52596 Score: 148
Period size: 32 Copynumber: 3.4 Consensus size: 33
52469 AAAATCGCAA
**
52479 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
52512 TGCGATTTT-ATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
52544 TGCGATTGTCATTTCGCGTTGCGACAGTCATTCTCTCGT
1 TGCGATTTTCATTTCGCGTT--G-C-G--ATTCTCTCGT
52583 TGCGATTTTCATTT
1 TGCGATTTTCATTT
52597 ATCTCGTTGC
Statistics
Matches: 75, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
32 30 0.40
33 19 0.25
35 1 0.01
36 1 0.01
37 1 0.01
39 23 0.31
ACGTcount: A:0.10, C:0.22, G:0.23, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:52729 original size:33 final size:32
Alignment explanation
Indices: 52687--52756 Score: 104
Period size: 33 Copynumber: 2.2 Consensus size: 32
52677 AATACTAACT
*
52687 TGAAAATCGCAATGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCG-AA
* *
52720 TGAAAATCGCAACGAGAGAATCGTAACGCGAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAA
52752 TGAAA
1 TGAAA
52757 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 7 0.21
33 27 0.79
ACGTcount: A:0.47, C:0.16, G:0.24, T:0.13
Consensus pattern (32 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAA
Found at i:52987 original size:21 final size:22
Alignment explanation
Indices: 52936--52989 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
52926 ATGGTTGGAG
**
52936 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
52958 GGAAATCTTCGGAGAT-GGGAC
1 GGATTTCTTCGGAGATGGGGAC
52979 GGATTTCTTCG
1 GGATTTCTTCG
52990 CCGTAGAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:53158 original size:20 final size:20
Alignment explanation
Indices: 53133--53344 Score: 214
Period size: 20 Copynumber: 10.7 Consensus size: 20
53123 CTTTAAATAT
53133 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
53153 CGCGTTGCGATTTATGTATTA
1 CGCGTTGCGATTTACGGA-TA
* *
53174 -TCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATA
*
53193 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
53213 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
53233 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
53253 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
53273 CGCATTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
53293 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
** *
53313 CGCGTTGCGATTT-CATATT
1 CGCGTTGCGATTTACGGATA
53332 CGCGTTGCGATTT
1 CGCGTTGCGATTT
53345 TGGAACAATC
Statistics
Matches: 162, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
19 21 0.13
20 138 0.85
21 3 0.02
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:53209 original size:60 final size:60
Alignment explanation
Indices: 53133--53325 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
53123 CTTTAAATAT
* * *
53133 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTATCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTAGCGTTGCGATTTACAGATA
* *** *
53193 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCA-TACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTA-GCGTTGCGATTTACAGATA
* * * * * *
53253 CACGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTAGCGTTGCGATTTACAGATA
53313 CGCGTTGCGATTT
1 CGCGTTGCGATTT
53326 CATATTCGCG
Statistics
Matches: 112, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
59 2 0.02
60 109 0.97
61 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTAGCGTTGCGATTTACAGATA
Found at i:53328 original size:19 final size:19
Alignment explanation
Indices: 53291--53344 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
53281 GATTTATGTG
53291 TTCGCGTTGCGATTTTCATA
1 TTCGCGTTGCGA-TTTCATA
53311 TTCGCGTTGCGATTTCATA
1 TTCGCGTTGCGATTTCATA
53330 TTCGCGTTGCGATTT
1 TTCGCGTTGCGATTT
53345 TGGAACAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 22 0.65
20 12 0.35
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.44
Consensus pattern (19 bp):
TTCGCGTTGCGATTTCATA
Found at i:53404 original size:41 final size:41
Alignment explanation
Indices: 53291--53409 Score: 118
Period size: 41 Copynumber: 2.9 Consensus size: 41
53281 GATTTATGTG
* * *
53291 TTCGCGTTGCGATTTTC-ATATTCGCGTTGCG-ATTTCATA
1 TTCGCGTTGCGATTTTCAACAATCGCGTTGCGAATTTGATA
* **
53330 TTCGCGTTGCGATTTTGGAACAATCGCAATGCGAATTTGACTA
1 TTCGCGTTGCGATTTT-CAACAATCGCGTTGCGAATTTGA-TA
* * *
53373 -TCGCATTGCGATTTTCAAGAATCGCGTTGCGATTTTG
1 TTCGCGTTGCGATTTTCAACAATCGCGTTGCGAATTTG
53410 GAAACTGATT
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.25
41 27 0.42
42 19 0.30
43 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (41 bp):
TTCGCGTTGCGATTTTCAACAATCGCGTTGCGAATTTGATA
Found at i:56109 original size:2 final size:2
Alignment explanation
Indices: 56098--56131 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
56088 AAGATATAAA
56098 AT AT -T 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 A
56132 ATCGGGGCGG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58626 original size:7 final size:7
Alignment explanation
Indices: 58616--58646 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
58606 CTTTCTGCTT
58616 TCCTTTC
1 TCCTTTC
58623 TCCTTTC
1 TCCTTTC
58630 TCCTTTC
1 TCCTTTC
58637 TCCTTTC
1 TCCTTTC
58644 TCC
1 TCC
58647 GATCACCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (7 bp):
TCCTTTC
Done.