Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006027.1 Hibiscus syriacus cultivar Beakdansim tig00014228_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: 71887
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Found at i:3906 original size:3 final size:3
Alignment explanation
Indices: 3893--3936 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
3883 AATTGTAAAT
* *
3893 TAA TTA TAA TAA TAA TAA TAA T-A TAA TAA TAA TGA TAAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA
3937 TTTTTGCGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.89
4 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:3919 original size:17 final size:17
Alignment explanation
Indices: 3897--3936 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
3887 GTAAATTAAT
3897 TATAATAATAATAATAA
1 TATAATAATAATAATAA
*
3914 TATAATAATAATGATAA
1 TATAATAATAATAATAA
3931 -ATAATA
1 TATAATA
3937 TTTTTGCGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
TATAATAATAATAATAA
Found at i:3920 original size:14 final size:14
Alignment explanation
Indices: 3901--3936 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3891 ATTAATTATA
3901 ATAATAATAATAAT
1 ATAATAATAATAAT
*
3915 ATAATAATAATGAT
1 ATAATAATAATAAT
3929 A-AATAATA
1 ATAATAATA
3937 TTTTTGCGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:16122 original size:81 final size:81
Alignment explanation
Indices: 15994--16876 Score: 1010
Period size: 81 Copynumber: 10.9 Consensus size: 81
15984 TAGCCAAAGG
* * * * * * * * *
15994 TATTTAGCCTTTCATCTAACTTGCATAATTAACACTTTTCTGTCAAATGCACAGCTAGGCCATAA
1 TATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCAGCCAAATGCACAACTAGGCCATTA
16059 ATCTTTTACTCAACGA
66 ATCTTTTACTCAACGA
16075 TATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCAGCCAAATGCACAACTAGGCCATTA
1 TATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCAGCCAAATGCACAACTAGGCCATTA
16140 ATCTTTTACTCAACGA
66 ATCTTTTACTCAACGA
* * * ** * **
16156 TATTTAATCGTTCATCTAACTGGAATAATTGACACATTTCTTCCAAATGCACAGCTAATCCATTA
1 TATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCAGCCAAATGCACAACTAGGCCATTA
*
16221 ATCTTTTACTCAACAA
66 ATCTTTTACTCAACGA
** * * * *
16237 TATTTAATTGTTCATCTAACT-GTATAATTGAAACCTTTCTA-TCAAATGCACAGCTAGGCCATT
1 TATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTC-AGCCAAATGCACAACTAGGCCATT
* *
16300 AATATTTTACTCAACGG
65 AATCTTTTACTCAACGA
* * * *
16317 TATTTAACCGTTCATATAACTGGCATAATTGACACATTTCTGCCAAACGCACAACTAGGCCATTA
1 TATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCAGCCAAATGCACAACTAGGCCATTA
* *
16382 ATCTTTTATTCAACTA
66 ATCTTTTACTCAACGA
* * * *
16398 TATTTAACAGTTCATCTAACTGGCATAATTAACACCTTTC-TCGCAAATGGA-AAGCTAGGCCAT
1 TATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCAGC-CAAATGCACAA-CTAGGCCAT
* *
16461 TAATCATTTACTCAACGG
64 TAATCTTTTACTCAACGA
* * ** * * *
16479 TATTTAACCATTCATATAACT-ATATAGTTGACACCTTTAAGCCAAATGCACAACAAGGCCATTA
1 TATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCAGCCAAATGCACAACTAGGCCATTA
16543 ATCTTTTACTCAACGA
66 ATCTTTTACTCAACGA
* * * *
16559 TATTTAATCGTTCATCTAACTGGCATAATTGGCACCTTTCTGCCAAATGCACAACAAGGCCATTA
1 TATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCAGCCAAATGCACAACTAGGCCATTA
16624 ATCTTTTACTCAACGA
66 ATCTTTTACTCAACGA
* * *
16640 TATTTAACCGTTCATCTAACTGGCATAATTGACAGCTTTCTA-CTAATTGCACAACTAGGCCATT
1 TATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTC-AGCCAAATGCACAACTAGGCCATT
* *
16704 AATCTTTTACTCAATGG
65 AATCTTTTACTCAACGA
* * * *
16721 TATTTAACCGTTCACCTAACTCGCATAATTGACA--TATCTATGCCAAATGCACACCTAGGCCAT
1 TATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTC-A-GCCAAATGCACAACTAGGCCAT
* *
16784 TAATCTTATACTAAACGA
64 TAATCTTTTACTCAACGA
** * ** * * * **
16802 TATTTAATTGTTCATCTAACTGGCATAATTAACATATTTC-TCCTAAATGTAGAGTTAGGCCATT
1 TATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCAGCC-AAATGCACAACTAGGCCATT
16866 AATCTTTTACT
65 AATCTTTTACT
16877 TTTGGAATAG
Statistics
Matches: 681, Mismatches: 107, Indels: 28
0.83 0.13 0.03
Matches are distributed among these distances:
79 5 0.01
80 133 0.20
81 540 0.79
83 3 0.00
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.34
Consensus pattern (81 bp):
TATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCAGCCAAATGCACAACTAGGCCATTA
ATCTTTTACTCAACGA
Found at i:16463 original size:242 final size:240
Alignment explanation
Indices: 15992--16876 Score: 1080
Period size: 242 Copynumber: 3.7 Consensus size: 240
15982 TTTAGCCAAA
* * * *
15992 GGTATTTAGCCTTTCATCTAACTTGCATAATT-AACACTTTTCTGTCAAATGCACAGCTAGGCCA
1 GGTATTTAACCGTTCATCTAAC-TGCATAATTGAA-ACCTTTCTATCAAATGCACAGCTAGGCCA
* * *
16056 TAAATCTTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCAGCCAA
64 TTAATCTTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAA
*
16121 ATGCACAACTAGGCCATTAATCTTTTACTCAACGATATTTAATCGTTCATCTAACTGGAATAATT
129 ATGCACAACTAGGCCATTAATCTTTTACTCAACGATATTTAA-CGTTCATCTAACTGGCATAATT
* * **
16186 GACACATTTCTTCCAAATGCACAGCTAATCCATTAATCTTTTACTCAAC
193 GACACCTTTC-TCCAAATGCAAAGCTAGGCCATTAATCTTTTACTCAAC
** ** *
16235 AATATTTAATTGTTCATCTAACTGTATAATTGAAACCTTTCTATCAAATGCACAGCTAGGCCATT
1 GGTATTTAACCGTTCATCTAACTGCATAATTGAAACCTTTCTATCAAATGCACAGCTAGGCCATT
* * * *
16300 AATATTTTACTCAACGGTATTTAACCGTTCATATAACTGGCATAATTGACACATTTCTGCCAAAC
66 AATCTTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAAT
* * *
16365 GCACAACTAGGCCATTAATCTTTTATTCAACTATATTTAACAGTTCATCTAACTGGCATAATTAA
131 GCACAACTAGGCCATTAATCTTTTACTCAACGATATTTAAC-GTTCATCTAACTGGCATAATTGA
* *
16430 CACCTTTCTCGCAAATGGAAAGCTAGGCCATTAATCATTTACTCAAC
195 CACCTTTCTC-CAAATGCAAAGCTAGGCCATTAATCTTTTACTCAAC
* * ** * * * * * *
16477 GGTATTTAACCATTCATATAACTATATAGTTGACACCTTT-AAGCCAAATGCACAACAAGGCCAT
1 GGTATTTAACCGTTCATCTAACTGCATAATTGAAACCTTTCTA-TCAAATGCACAGCTAGGCCAT
* * *
16541 TAATCTTTTACTCAACGATATTTAATCGTTCATCTAACTGGCATAATTGGCACCTTTCTGCCAAA
65 TAATCTTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAA
*
16606 TGCACAACAAGGCCATTAATCTTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTG
130 TGCACAACTAGGCCATTAATCTTTTACTCAACGATATTTAA-CGTTCATCTAACTGGCATAATTG
* * * *
16671 ACAGCTTTCTACTAATTGCACAA-CTAGGCCATTAATCTTTTACTCAAT
194 ACACCTTTCT-CCAAATGCA-AAGCTAGGCCATTAATCTTTTACTCAAC
* * * *
16719 GGTATTTAACCGTTCACCTAACTCGCATAATTG--ACATATCTATGCCAAATGCACACCTAGGCC
1 GGTATTTAACCGTTCATCTAACT-GCATAATTGAAACCTTTCTAT--CAAATGCACAGCTAGGCC
* * ** * *
16782 ATTAATCTTATACTAAACGATATTTAATTGTTCATCTAACTGGCATAATTAACATATTTCT-CCT
63 ATTAATCTTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCC-
* * **
16846 AAATGTAGAGTTAGGCCATTAATCTTTTACT
127 AAATGCACAACTAGGCCATTAATCTTTTACT
16877 TTTGGAATAG
Statistics
Matches: 550, Mismatches: 80, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
241 8 0.01
242 418 0.76
243 124 0.23
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.34
Consensus pattern (240 bp):
GGTATTTAACCGTTCATCTAACTGCATAATTGAAACCTTTCTATCAAATGCACAGCTAGGCCATT
AATCTTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAAT
GCACAACTAGGCCATTAATCTTTTACTCAACGATATTTAACGTTCATCTAACTGGCATAATTGAC
ACCTTTCTCCAAATGCAAAGCTAGGCCATTAATCTTTTACTCAAC
Found at i:16589 original size:323 final size:321
Alignment explanation
Indices: 15979--16808 Score: 1030
Period size: 323 Copynumber: 2.6 Consensus size: 321
15969 GTTCCTTTAT
* * * * * *
15979 TATTTTAGC-CAAAGGTATTTAGCCTTTCATCTAACTTGCATAATTAACACTTTTCTGTCAAATG
1 TATTTTA-CTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACAC-TTTCTGCCAAATG
* * * *
16043 CACAGCTAGGCCATAAATCTTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGAC
64 CACAACTAGGCCATTAATCTTTTACTCAACTATATTTAACCGTTCATCTAACTGGCATAATTAAC
* * * *
16108 ACCTTTCAGCCAAATGCACAACTAGGCCATTAATCTTTTACTCAACGATATTTAATCGTTCATCT
129 ACCTTTCAGCCAAATGCACAACTAGGCCATTAATCATTTACTCAACGATATTTAACCATTCATAT
*** * *
16173 AACTGGAATAATTGACACATTTCTTCCAAATGCACAGCTAATCCATTAATCTTTTACTCAACAAT
194 AACT-GAATAATTGACACATTTAAGCCAAATGCACAACTAAGCCATTAATCTTTTACTCAACAAT
* * * * *
16238 ATTTAATTGTTCATCTAACTGTATAATTGAAACCTTTCTATCAAATGCACAGCTAGGCCATTAA
258 ATTTAATCGTTCATCTAACTGCATAATTGAAACCTTTCTACCAAATGCACAACAAGGCCATTAA
* *
16302 TATTTTACTCAACGGTATTTAACCGTTCATATAACTGGCATAATTGACACATTTCTGCCAAACGC
1 TATTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACAC-TTTCTGCCAAATGC
* *
16367 ACAACTAGGCCATTAATCTTTTATTCAACTATATTTAACAGTTCATCTAACTGGCATAATTAACA
65 ACAACTAGGCCATTAATCTTTTACTCAACTATATTTAACCGTTCATCTAACTGGCATAATTAACA
* * *
16432 CCTTTC-TCGCAAATGGA-AAGCTAGGCCATTAATCATTTACTCAACGGTATTTAACCATTCATA
130 CCTTTCAGC-CAAATGCACAA-CTAGGCCATTAATCATTTACTCAACGATATTTAACCATTCATA
* * *
16495 TAACT-ATATAGTTGACACCTTTAAGCCAAATGCACAAC-AAGGCCATTAATCTTTTACTCAACG
193 TAACTGA-ATAATTGACACATTTAAGCCAAATGCACAACTAA-GCCATTAATCTTTTACTCAACA
** *
16558 ATATTTAATCGTTCATCTAACTGGCATAATTGGCACCTTTCTGCCAAATGCACAACAAGGCCATT
256 ATATTTAATCGTTCATCTAACT-GCATAATTGAAACCTTTCTACCAAATGCACAACAAGGCCATT
16623 AA
320 AA
* * * * *
16625 TCTTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACAGCTTTCTACTAATTGC
1 TATTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACA-CTTTCTGCCAAATGC
* * * *
16690 ACAACTAGGCCATTAATCTTTTACTCAA-TGGTATTTAACCGTTCACCTAACTCGCATAATTGAC
65 ACAACTAGGCCATTAATCTTTTACTCAACT-ATATTTAACCGTTCATCTAACTGGCATAATTAAC
* * *
16754 A--TATCTATGCCAAATGCACACCTAGGCCATTAATC-TTATACTAAACGATATTTAA
129 ACCTTTC-A-GCCAAATGCACAACTAGGCCATTAATCATT-TACTCAACGATATTTAA
16809 TTGTTCATCT
Statistics
Matches: 437, Mismatches: 57, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
321 6 0.01
322 73 0.17
323 355 0.81
324 3 0.01
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (321 bp):
TATTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACTTTCTGCCAAATGCA
CAACTAGGCCATTAATCTTTTACTCAACTATATTTAACCGTTCATCTAACTGGCATAATTAACAC
CTTTCAGCCAAATGCACAACTAGGCCATTAATCATTTACTCAACGATATTTAACCATTCATATAA
CTGAATAATTGACACATTTAAGCCAAATGCACAACTAAGCCATTAATCTTTTACTCAACAATATT
TAATCGTTCATCTAACTGCATAATTGAAACCTTTCTACCAAATGCACAACAAGGCCATTAA
Found at i:17183 original size:57 final size:57
Alignment explanation
Indices: 17038--17171 Score: 189
Period size: 57 Copynumber: 2.4 Consensus size: 57
17028 AAATTCATAT
* ** ** *
17038 AATTTCTT-AGTTTTTGCACACAAAGTTCCCATATGGAAATTTGTAAACTAATTGTG
1 AATTTCTTAACTTTTTGCACACAAAGTGGCCATATGGAAATTCATAAACTAATTATG
*
17094 AATTTCTTAACTTTTTTCACACAAAGTGGCCATATGGAAATTCATAAACTAATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGGCCATATGGAAATTCATAAACTAATTATG
*
17151 AATTTTTTAACTTTTTGCACA
1 AATTTCTTAACTTTTTGCACA
17172 TTTAATGGCC
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
56 8 0.12
57 60 0.88
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (57 bp):
AATTTCTTAACTTTTTGCACACAAAGTGGCCATATGGAAATTCATAAACTAATTATG
Found at i:21288 original size:46 final size:45
Alignment explanation
Indices: 21195--21366 Score: 231
Period size: 46 Copynumber: 3.8 Consensus size: 45
21185 GATAAAATGG
* * *
21195 AAAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATAGGT
1 AAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTGGT
21239 AAAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGG-ATTAAATGGTAAGTATATTGGT
* * * *
21285 AAAATAAGCTTACGAGCTAATGGAATTAAATGGTATGTATTTTAGT
1 AAAATAAGCTTACGAGCTTATGG-ATTAAATGGTAAGTATATTGGT
*
21331 AAAATAAACTTACGAGCTTATGGGA-TAAATGGTAAG
1 AAAATAAGCTTACGAGCTTAT-GGATTAAATGGTAAG
21367 AGATTTTATA
Statistics
Matches: 114, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.20
45 12 0.11
46 77 0.68
47 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.31
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTGGT
Found at i:24855 original size:81 final size:81
Alignment explanation
Indices: 24749--25789 Score: 1200
Period size: 81 Copynumber: 12.9 Consensus size: 81
24739 CCCCAAATGC
* * ** * * *
24749 ATTTAACCATTCATCTAACTTGCATATTTGACAATTTTCTGTCAAATACACAGCTAGGCCATTAA
1 ATTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAA
24814 TCTTTTACTCAACGAT
66 TCTTTTACTCAACGAT
* * * *
24830 ATTTAATCATTCATCTAACTGGCATAATTGACACCTCTCTACCAAATGCACACCTAGGCCATTAA
1 ATTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAA
*
24895 TCTTTTACTCAGCTG-T
66 TCTTTTACTCAAC-GAT
* * * *
24911 ATTTAACCGTTCATCTAACTGGCATAATTCACACCTTTCTACCAAATGCACAACTAGACCATTAA
1 ATTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAA
* *
24976 TCTTATACTGAACGAT
66 TCTTTTACTCAACGAT
* * *
24992 ATTTAACCATTCATCTAACTGGTATAATTGACAACTTTCTACCAAATGCACAACTAGG-CATTAA
1 ATTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAA
*
25056 TCTTTTACTCAACGGT
66 TCTTTTACTCAACGAT
* * **
25072 ATTTACCCGA-TCATCTAACTGGCATAATTGACACCTTTCTTCCAAATGCACAGTTAGGCCATTA
1 ATTTAACC-ATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTA
*
25136 ATCTTTTACTCAAAGAT
65 ATCTTTTACTCAACGAT
* * * *
25153 ATTTAATCATCCATCTAACT-GCATAATTGATACCATTCTGCCAAATGCACAACTAGGCCATTAA
1 ATTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAA
*
25217 TATTTTACTCAAC-AGT
66 TCTTTTACTCAACGA-T
* * * ** * * * * *
25233 ATTTAAACGTTCATATAACTTACATAATTGACACCTTTATGCCAAATGCATAATTCGGTCATTAA
1 ATTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAA
* *
25298 TCTTTTACTCAATGGT
66 TCTTTTACTCAACGAT
* * * * * * *
25314 ATTTAACCGTTCATCTAACTAGCATGACTGACACCTTTCTGCCAAATGTACATCTAGTCCATTAA
1 ATTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAA
*
25379 TATTTTACTCAACGAT
66 TCTTTTACTCAACGAT
* *** * * * * *
25395 AATTAATTGTTCATCTAACTGGTATAATTGAAACATTTCTGCCAAATACACATCTAGGCCATTAA
1 ATTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAA
*
25460 TCTTTTACTCAACAAT
66 TCTTTTACTCAACGAT
* * * *
25476 ATTTAA-CAGTTCATCTAACTGGTATAATTGACACCTTTCTGCCAAATGCACAGCAAGGCCATTT
1 ATTTAACCA-TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTA
*
25540 ATCTTTTACTCAACGGT
65 ATCTTTTACTCAACGAT
* * * *
25557 ATTTAA-CAGTTCATCTAGCTGTCATAATTGACATCTTTCTGCCAAATGTACAACTAGGCCATTA
1 ATTTAACCA-TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTA
* *
25621 ATCTTTCACTCAATG-T
65 ATCTTTTACTCAACGAT
* * ** * * *
25637 ATTTAACCGTTCATCTAACTGGAATAATCT-ATGCCTTTCTACCAAATGCATAACTAGGTCATTA
1 ATTTAACCATTCATCTAACTGGCATAAT-TGACACCTTTCTGCCAAATGCACAACTAGGCCATTA
*
25701 ATCTTTTACTCAATGAT
65 ATCTTTTACTCAACGAT
* * * *
25718 ATTTAACCGTTCATCTGACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTAA
1 ATTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAA
25783 TCTTTTA
66 TCTTTTA
25790 ATTTGTTATA
Statistics
Matches: 813, Mismatches: 134, Indels: 26
0.84 0.14 0.03
Matches are distributed among these distances:
79 1 0.00
80 203 0.25
81 608 0.75
82 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (81 bp):
ATTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAA
TCTTTTACTCAACGAT
Found at i:25298 original size:242 final size:241
Alignment explanation
Indices: 24749--25789 Score: 1173
Period size: 242 Copynumber: 4.3 Consensus size: 241
24739 CCCCAAATGC
* * * * ** * * *
24749 ATTTAACCATTCATCTAACTTGCATATTTGACAATTTTCTGTCAAATACACAGCTAGGCCATTAA
1 ATTTAAACGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG-CATTAA
* * * *
24814 TCTTTTACTCAACGATATTTAATC-ATTCATCTAACTGGCATAATTGACACCTCTCTACCAAATG
65 TCTTTTACTCAACGGTATTTAACCGA-TCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
* * *
24878 CACACCTAGGCCATTAATCTTTTACTCAGCTGTATTTAACCGTTCATCTAACTGGCATAATTCAC
129 CACA-CTAGGCCATTAATCTTTTACTCA-ATGTATTTAACCGTTCATCTAACTGGCATAATTGAT
* * * *
24943 ACCTTTCTACCAAATGCACAACTAGACCATTAATCTTATACTGAAC-GAT
192 ACCATTCTACCAAATGCACAACTAGGCCATTAATCTTTTACTCAACAGAT
* * * * *
24992 ATTTAACCATTCATCTAACTGGTATAATTGACAACTTTCTACCAAATGCACAACTAGGCATTAAT
1 ATTTAAACGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCATTAAT
* *
25057 CTTTTACTCAACGGTATTTACCCGATCATCTAACTGGCATAATTGACACCTTTCTTCCAAATGCA
66 CTTTTACTCAACGGTATTTAACCGATCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCA
* * * * *
25122 CAGTTAGGCCATTAATCTTTTACTCAAAGATATTTAATCATCCATCTAACT-GCATAATTGATAC
131 CA-CTAGGCCATTAATCTTTTACTCAATG-TATTTAACCGTTCATCTAACTGGCATAATTGATAC
* *
25186 CATTCTGCCAAATGCACAACTAGGCCATTAATATTTTACTCAACAG-T
194 CATTCTACCAAATGCACAACTAGGCCATTAATCTTTTACTCAACAGAT
* ** * * * *
25233 ATTTAAACGTTCATATAACTTACATAATTGACACCTTTATGCCAAATGCATAATTCGGTCATTAA
1 ATTTAAACGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG-CATTAA
* * * * * *
25298 TCTTTTACTCAATGGTATTTAACCGTTCATCTAACTAGCATGACTGACACCTTTCTGCCAAATGT
65 TCTTTTACTCAACGGTATTTAACCGATCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* * * * ** *
25363 ACATCTAGTCCATTAATATTTTACTCAACGATAATTAATTGTTCATCTAACTGGTATAATTGA-A
130 ACA-CTAGGCCATTAATCTTTTACTCAATG-TATTTAACCGTTCATCTAACTGGCATAATTGATA
* * * *
25427 ACATTTCTGCCAAATACACATCTAGGCCATTAATCTTTTACTCAACA-AT
193 CCA-TTCTACCAAATGCACAACTAGGCCATTAATCTTTTACTCAACAGAT
* * * *
25476 ATTT-AACAGTTCATCTAACTGGTATAATTGACACCTTTCTGCCAAATGCACAGCAAGGCCATTT
1 ATTTAAAC-GTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG-CATTA
* * * * *
25540 ATCTTTTACTCAACGGTATTTAACAGTTCATCTAGCTGTCATAATTGACATCTTTCTGCCAAATG
64 ATCTTTTACTCAACGGTATTTAACCGATCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
* * *
25605 TACAACTAGGCCATTAATCTTTCACTCAATGTATTTAACCGTTCATCTAACTGGAATAATCT-AT
129 CAC-ACTAGGCCATTAATCTTTTACTCAATGTATTTAACCGTTCATCTAACTGGCATAAT-TGAT
* * * * *
25669 GCCTTTCTACCAAATGCATAACTAGGTCATTAATCTTTTACTCAA-TGAT
192 ACCATTCTACCAAATGCACAACTAGGCCATTAATCTTTTACTCAACAGAT
* * * *
25718 ATTTAACCGTTCATCTGACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTAA
1 ATTTAAACGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG-CATTAA
25783 TCTTTTA
65 TCTTTTA
25790 ATTTGTTATA
Statistics
Matches: 680, Mismatches: 105, Indels: 27
0.84 0.13 0.03
Matches are distributed among these distances:
241 97 0.14
242 347 0.51
243 235 0.35
244 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (241 bp):
ATTTAAACGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCATTAAT
CTTTTACTCAACGGTATTTAACCGATCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCA
CACTAGGCCATTAATCTTTTACTCAATGTATTTAACCGTTCATCTAACTGGCATAATTGATACCA
TTCTACCAAATGCACAACTAGGCCATTAATCTTTTACTCAACAGAT
Found at i:28096 original size:2 final size:2
Alignment explanation
Indices: 28089--28133 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
28079 CCATAAAAGC
28089 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA
28131 TA T
1 TA T
28134 TTATGACATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30019 original size:81 final size:81
Alignment explanation
Indices: 29704--30584 Score: 944
Period size: 81 Copynumber: 10.9 Consensus size: 81
29694 ACCCAAAGAC
* * * * * *
29704 ATTTAGCCTTTCATCTAACTTGCTTAATTGACACTTTTCTGTCAAATGCAGAGCTAGGCCATTAA
1 ATTTAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTAA
* *
29769 TCATTTACTCAACGAT
66 TCTTTTACTCAACGGT
* * * * *
29785 ATCTAACCGTTCATCCAACTGGCATAATT-ACACATTTCTACCAAATGCACATCTA-GCCATTAA
1 ATTTAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTAA
* *
29848 TATTTTACTCAATGGT
66 TCTTTTACTCAACGGT
* * * * * ** *
29864 ATTTAATCATTCATCTAACT-GCATTATTGAAACCTTTCAACCAAATGCAAAGCTAGGCCATTAA
1 ATTTAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTAA
*
29928 TATTTTACTCAACGGT
66 TCTTTTACTCAACGGT
* * * * * *
29944 ACTTAATCGTTCATCTAACTGGCATAATTGGCACTTTTATGTCAAATGCACAGCTAGGCTATTAA
1 ATTTAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTAA
*
30009 TCTTTTACTCAAAGGT
66 TCTTTTACTCAACGGT
* * * * * * *
30025 ATTTAACCATTCATCTAACTTGAATAATTGACACCTTTCTTCCAAATGAACTGCTAGGCCATTAA
1 ATTTAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTAA
* *
30090 TCATTTACTCAACAGT
66 TCTTTTACTCAACGGT
* * * * *
30106 ATTTAACCATTCATCTAACTGGCATAATTGAAACCTTTCTACCAAATGCACAACTAGGCCATTAA
1 ATTTAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTAA
* * *
30171 TATTTTACTCAATGGA
66 TCTTTTACTCAACGGT
* ** ** * *
30187 ATTTAACTGTTCATCTAACTACCATAATTGACACCATTCTACCAAATACACAGCTAGGCCATTAA
1 ATTTAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTAA
* *
30252 TATTTTACTCAACAGT
66 TCTTTTACTCAACGGT
* * * * *
30268 ATTTAACCGTTCATCTAACTGGCATAAATGATACCTTTCTGCCAAATGCACAACTAGGCCATTAT
1 ATTTAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTAA
* *
30333 TCTTTTGCTCAACAGT
66 TCTTTTACTCAACGGT
* * * * * * *
30349 ATTTAACCGTTCATCTAACTGGTATAAATGACACATTTCTGCTAAATACACAACTAGGCCATTAT
1 ATTTAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTAA
* **
30414 TCTTTTGCTCAATTGT
66 TCTTTTACTCAACGGT
* * * *
30430 ATTTAACTGTTCATCTAACTGGCATAATTGACACCTTTT-TTCCAAATGCACAGCTAGGGCACTA
1 ATTTAACCGTTCATCTAACTGGCATAATTGACA-CTTTTCTGCCAAATGCACAGCTAGGCCATTA
* *
30494 ATTTTTTACTCAACGAT
65 ATCTTTTACTCAACGGT
* * * * *
30511 ATTTAACCGTTCATCTAACTGGCATAATTGACA-TCTTTCAGTCAAATGCAGATCTAGGCCAGTA
1 ATTTAACCGTTCATCTAACTGGCATAATTGACACT-TTTCTGCCAAATGCACAGCTAGGCCATTA
30575 ATCTTTTACT
65 ATCTTTTACT
30585 TTTGGAATAG
Statistics
Matches: 671, Mismatches: 123, Indels: 12
0.83 0.15 0.01
Matches are distributed among these distances:
78 7 0.01
79 58 0.09
80 65 0.10
81 537 0.80
82 4 0.01
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (81 bp):
ATTTAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTAA
TCTTTTACTCAACGGT
Found at i:30892 original size:57 final size:57
Alignment explanation
Indices: 30757--30880 Score: 180
Period size: 57 Copynumber: 2.2 Consensus size: 57
30747 ATTTCTTAGA
*
30757 TTTTGCACACAAAGTACCCATATGGAAATTCATAAACTAATTATGAATTTCCTATTT
1 TTTTGCACACAAAGTACCCATTTGGAAATTCATAAACTAATTATGAATTTCCTATTT
* * *
30814 TTTTTCACACAAAGTTCCCATTTGGAAATTCATAAACTAATTCTGAATTT-CT-TTACT
1 TTTTGCACACAAAGTACCCATTTGGAAATTCATAAACTAATTATGAATTTCCTATT--T
30871 TTTTGCACAC
1 TTTTGCACAC
30881 TTAGTGCCCA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
55 2 0.03
56 2 0.03
57 56 0.93
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (57 bp):
TTTTGCACACAAAGTACCCATTTGGAAATTCATAAACTAATTATGAATTTCCTATTT
Found at i:36881 original size:15 final size:15
Alignment explanation
Indices: 36861--36894 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
36851 ATATCGACGT
36861 TGCTGACCTGGTCGA
1 TGCTGACCTGGTCGA
36876 TGCTGACCTGGTCGA
1 TGCTGACCTGGTCGA
36891 TGCT
1 TGCT
36895 CATGTGAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.12, C:0.26, G:0.32, T:0.29
Consensus pattern (15 bp):
TGCTGACCTGGTCGA
Found at i:37653 original size:85 final size:84
Alignment explanation
Indices: 37551--37727 Score: 216
Period size: 85 Copynumber: 2.1 Consensus size: 84
37541 ATTAAATCAC
* * * *
37551 GACACAAGAATGTGTGTCATCTT-TTTTAATGACATGTGCTTCAATGACACGTAATGTAAG-TCA
1 GACACAAGAATGTGTGTCATCTTCATTT-ATGACAGGGGCTTCAATGACACGCAATG--AGCTCA
* *
37614 TACATGCGTGTCATAAATTTAT
63 TAAATGCGCGTCATAAATTTAT
*
37636 GACACATA-AATGTGTGTCATCTTCATTTATGACAGGGGCTTCAATGACATGCAATGAGCTTCAT
1 GACACA-AGAATGTGTGTCATCTTCATTTATGACAGGGGCTTCAATGACACGCAATGAGC-TCAT
*
37700 AAATGCGCGTCATAGATTTAT
64 AAATGCGCGTCATAAATTTAT
37721 GACACAA
1 GACACAA
37728 TTGCGCATCA
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
83 2 0.03
84 1 0.01
85 73 0.91
86 4 0.05
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (84 bp):
GACACAAGAATGTGTGTCATCTTCATTTATGACAGGGGCTTCAATGACACGCAATGAGCTCATAA
ATGCGCGTCATAAATTTAT
Found at i:44429 original size:39 final size:39
Alignment explanation
Indices: 44373--44458 Score: 154
Period size: 39 Copynumber: 2.2 Consensus size: 39
44363 AAAAGTACAT
*
44373 GATTAACACTTATCCACCAATTGTAAAGTTTATCAAACA
1 GATTAACACTTAACCACCAATTGTAAAGTTTATCAAACA
*
44412 GATTAACACTTAACCACCAATTGTAAAGTTTATTAAACA
1 GATTAACACTTAACCACCAATTGTAAAGTTTATCAAACA
44451 GATTAACA
1 GATTAACA
44459 TATTACCCGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (39 bp):
GATTAACACTTAACCACCAATTGTAAAGTTTATCAAACA
Found at i:59436 original size:32 final size:32
Alignment explanation
Indices: 59371--59445 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
59361 CTAGTTAGAG
* *
59371 TGCATTTAGATAATGCATAATATGTTCAGGTT
1 TGCATTTAGATAATGCATAATACGTTAAGGTT
* * *
59403 TGTATTTAGATAATGCATAGTACGTTAATGTT
1 TGCATTTAGATAATGCATAATACGTTAAGGTT
*
59435 TGCATTCAGAT
1 TGCATTTAGAT
59446 GTTGCACAGG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (32 bp):
TGCATTTAGATAATGCATAATACGTTAAGGTT
Found at i:63384 original size:81 final size:81
Alignment explanation
Indices: 63233--63539 Score: 357
Period size: 81 Copynumber: 3.8 Consensus size: 81
63223 ATTCCAAGAA
* * *
63233 TAAAAGATTAAATGGCCTAGATCTGCATTTGGCAGAATGGTGTCAATTATGCTAGTTAGATGAAC
1 TAAAAGAAT-AATGGCCTAGATCTGCATTTGGCAGAAAGATGTCAATTATGCTAGTTAGATGAAC
*
63298 AGTTAAATACCAG-TGAG
65 TGTTAAATACC-GTTGAG
* * * * *
63315 AAAAAGAATAATGGCCTAGCTGTGCATTTGGCAGAAAGATGTTAATTATGCTAGTTAGATTAACT
1 TAAAAGAATAATGGCCTAGATCTGCATTTGGCAGAAAGATGTCAATTATGCTAGTTAGATGAACT
*
63380 GTTAAATACCGTTGAT
66 GTTAAATACCGTTGAG
* * * * * *
63396 TAAAAGATTAATGGCCTAGCTCTGCATTTGGAAGAAAGGTGTCAATTACGCCAGTTAGATGAA-T
1 TAAAAGAATAATGGCCTAGATCTGCATTTGGCAGAAAGATGTCAATTATGCTAGTTAGATGAACT
*
63460 GGTTAAATACCGTTAAG
66 -GTTAAATACCGTTGAG
* * * * * * *
63477 TAAAAGAATAATGTCCTAGATGTGCATTTGACAAAAAAATGTCAATTATACAAGTTAGATGAA
1 TAAAAGAATAATGGCCTAGATCTGCATTTGGCAGAAAGATGTCAATTATGCTAGTTAGATGAA
63540 AGGCTAAATG
Statistics
Matches: 190, Mismatches: 33, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
80 2 0.01
81 181 0.95
82 7 0.04
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (81 bp):
TAAAAGAATAATGGCCTAGATCTGCATTTGGCAGAAAGATGTCAATTATGCTAGTTAGATGAACT
GTTAAATACCGTTGAG
Found at i:63535 original size:162 final size:163
Alignment explanation
Indices: 63233--63536 Score: 432
Period size: 162 Copynumber: 1.9 Consensus size: 163
63223 ATTCCAAGAA
* * * *
63233 TAAAAGATTAAATGGCCTAGATCTGCATTTGGCAGAATGGTGTCAATTATGCTAGTTAGATGAAC
1 TAAAAGATTAAATGGCCTAGATCTGCATTTGGAAGAAAGGTGTCAATTACGCCAGTTAGATGAAC
* * * * * *
63298 AGTTAAATACCAGTGAGAAAAAGAATAATGGCCTAGCTGTGCATTTGGCAGAAAGATGTTAATTA
66 AGTTAAATACCAGTAAGAAAAAGAATAATGGCCTAGATGTGCATTTGACAAAAAAATGTCAATTA
* *
63363 TGCTAGTTAGATTAACTGTTAAATACCGTTGAT
131 TACAAGTTAGATTAACTGTTAAATACCGTTGAT
* *
63396 TAAAAGATT-AATGGCCTAGCTCTGCATTTGGAAGAAAGGTGTCAATTACGCCAGTTAGATGAAT
1 TAAAAGATTAAATGGCCTAGATCTGCATTTGGAAGAAAGGTGTCAATTACGCCAGTTAGATGAAC
* * *
63460 GGTTAAATACC-GTTAAGTAAAAGAATAATGTCCTAGATGTGCATTTGACAAAAAAATGTCAATT
66 AGTTAAATACCAG-TAAGAAAAAGAATAATGGCCTAGATGTGCATTTGACAAAAAAATGTCAATT
63524 ATACAAGTTAGAT
130 ATACAAGTTAGAT
63537 GAAAGGCTAA
Statistics
Matches: 123, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
161 1 0.01
162 113 0.92
163 9 0.07
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (163 bp):
TAAAAGATTAAATGGCCTAGATCTGCATTTGGAAGAAAGGTGTCAATTACGCCAGTTAGATGAAC
AGTTAAATACCAGTAAGAAAAAGAATAATGGCCTAGATGTGCATTTGACAAAAAAATGTCAATTA
TACAAGTTAGATTAACTGTTAAATACCGTTGAT
Found at i:63717 original size:45 final size:45
Alignment explanation
Indices: 63654--64032 Score: 533
Period size: 45 Copynumber: 8.4 Consensus size: 45
63644 TGTATAAAAT
* * *
63654 GCATTAAAGGATGTCATAATTGAAATGCATATGAGTGCATTATCG
1 GCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCG
* * *
63699 GCATGAAAGAATGCCATAATTGAAATACATATGGGTGCATTATCA
1 GCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCG
*
63744 GCATGAAAGGATGCCATAATTGAAATACATATGGGTGCATTATCG
1 GCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCG
* * * * * *
63789 ACATAAAAGGATGGCATAATTAAAATACATATGGGTGGATTATCG
1 GCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCG
63834 GCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCG
1 GCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCG
* * *
63879 GCATGAAAGGATGCCATAATTAAAATGAATATGGGTGCATTATCA
1 GCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCG
63924 GCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCG
1 GCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCG
** * * * * *
63969 ATATGAAATGATGTCACAATTGAAATGTATATGGCTGCATTATCG
1 GCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCG
* *
64014 ACATGAAAGGATGACATAA
1 GCATGAAAGGATGCCATAA
64033 ATAAAAATAC
Statistics
Matches: 298, Mismatches: 36, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 298 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (45 bp):
GCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCG
Found at i:63723 original size:90 final size:90
Alignment explanation
Indices: 63608--64032 Score: 503
Period size: 90 Copynumber: 4.7 Consensus size: 90
63598 GTACATAAAA
* * * *** * * * *
63608 GGCATGGAAGGATGCCATAAATGAAATGTATAACAGTGTA-TAAAATGCATTAAAGGATGTCATA
1 GGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTAACA-GCATGAAAGGATGCCATA
*
63672 ATTGAAATGCATATGAGTGCATTATC
65 ATTGAAATGCATATGGGTGCATTATC
* * *
63698 GGCATGAAAGAATGCCATAATTGAAATACATATGGGTGCATTATCAGCATGAAAGGATGCCATAA
1 GGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTAACAGCATGAAAGGATGCCATAA
*
63763 TTGAAATACATATGGGTGCATTATC
66 TTGAAATGCATATGGGTGCATTATC
* * * * * * * *
63788 GACATAAAAGGATGGCATAATTAAAATACATATGGGTGGATTATCGGCATGAAAGGATGCCATAA
1 GGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTAACAGCATGAAAGGATGCCATAA
63853 TTGAAATGCATATGGGTGCATTATC
66 TTGAAATGCATATGGGTGCATTATC
* * *
63878 GGCATGAAAGGATGCCATAATTAAAATGAATATGGGTGCATTATCAGCATGAAAGGATGCCATAA
1 GGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTAACAGCATGAAAGGATGCCATAA
63943 TTGAAATGCATATGGGTGCATTATC
66 TTGAAATGCATATGGGTGCATTATC
** * * * * * * *
63968 GATATGAAATGATGTCACAATTGAAATGTATATGGCTGCATTATC-GACATGAAAGGATGACATA
1 GGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTAACAG-CATGAAAGGATGCCATA
64032 A
65 A
64033 ATAAAAATAC
Statistics
Matches: 294, Mismatches: 39, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
89 1 0.00
90 290 0.99
91 3 0.01
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (90 bp):
GGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTAACAGCATGAAAGGATGCCATAA
TTGAAATGCATATGGGTGCATTATC
Found at i:63906 original size:22 final size:22
Alignment explanation
Indices: 63881--63950 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
63871 CATTATCGGC
63881 ATGAAAGGATGCCATAATTAAA
1 ATGAAAGGATGCCATAATTAAA
* * * **
63903 ATGAATATGGGTG-CATTATCAGC
1 ATGAA-A-GGATGCCATAATTAAA
*
63926 ATGAAAGGATGCCATAATTGAA
1 ATGAAAGGATGCCATAATTAAA
63948 ATG
1 ATG
63951 CATATGGGTG
Statistics
Matches: 34, Mismatches: 11, Indels: 6
0.67 0.22 0.12
Matches are distributed among these distances:
21 4 0.12
22 14 0.41
23 12 0.35
24 4 0.12
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (22 bp):
ATGAAAGGATGCCATAATTAAA
Found at i:68082 original size:135 final size:135
Alignment explanation
Indices: 67932--68261 Score: 475
Period size: 135 Copynumber: 2.5 Consensus size: 135
67922 ATAAAAGGCC
* * *
67932 TGAAAGGATGACATAAATGAAATGCATATGGGTGCACTATCGGCATGAAAGGATGCTATAATTGA
1 TGAAAGGATGACATAATTGAAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCATAATTGA
* * *
67997 AATGTATAAGGGTGCATTATCGGCATGAAAGGATACCATAATTGAAATGCATACGGGTGCATTAT
66 AATGAATAAGGGTGCATTATCGACATGAAAGGATACCATAACTGAAATGCATACGGGTGCATTA-
*
68062 TAG-GA
130 TAGACA
* * *
68067 TGAAAAGATGTCATAATTGAAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
1 TGAAAGGATGACATAATTGAAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCATAATTGA
* * * *
68132 AATGAATATGGGTGCATTATCGACATGAAAGGATGCCATAACTGAAATGCATATGGGTGGATTAT
66 AATGAATAAGGGTGCATTATCGACATGAAAGGATACCATAACTGAAATGCATACGGGTGCATTAT
*
68197 CGACA
131 AGACA
* * *
68202 TGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATC-GCATGAAAGTATGTCATAA
1 TGAAAGGATGACATAATTGAAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCATAA
68262 ATAAAAACGC
Statistics
Matches: 174, Mismatches: 20, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
134 19 0.11
135 155 0.89
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (135 bp):
TGAAAGGATGACATAATTGAAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCATAATTGA
AATGAATAAGGGTGCATTATCGACATGAAAGGATACCATAACTGAAATGCATACGGGTGCATTAT
AGACA
Found at i:68284 original size:45 final size:45
Alignment explanation
Indices: 67885--68286 Score: 425
Period size: 45 Copynumber: 8.9 Consensus size: 45
67875 ACATAAAAGG
* * * * ** *
67885 CATGAAAGGATGCCATAAATGAAATGTATAAT-AGTGTATAAAAGG
1 CATGAAAGGATGCCATAAATGAAATGCAT-ATGGGTGCATTATCGA
* * * *
67930 CCTGAAAGGATGACATAAATGAAATGCATATGGGTGCACTATCGG
1 CATGAAAGGATGCCATAAATGAAATGCATATGGGTGCATTATCGA
* * * * *
67975 CATGAAAGGATGCTATAATTGAAATGTATAAGGGTGCATTATCGG
1 CATGAAAGGATGCCATAAATGAAATGCATATGGGTGCATTATCGA
* * * *
68020 CATGAAAGGATACCATAATTGAAATGCATACGGGTGCATTAT-TA
1 CATGAAAGGATGCCATAAATGAAATGCATATGGGTGCATTATCGA
* * * * * *
68064 GGATGAAAAGATGTCATAATTGAAATGCATATGGGTGCATTATTGG
1 -CATGAAAGGATGCCATAAATGAAATGCATATGGGTGCATTATCGA
* *
68110 CATGAAAGGATGCCATAATTGAAATGAATATGGGTGCATTATCGA
1 CATGAAAGGATGCCATAAATGAAATGCATATGGGTGCATTATCGA
* *
68155 CATGAAAGGATGCCATAACTGAAATGCATATGGGTGGATTATCGA
1 CATGAAAGGATGCCATAAATGAAATGCATATGGGTGCATTATCGA
*
68200 CATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCG-
1 CATGAAAGGATGCCATAAATGAAATGCATATGGGTGCATTATCGA
* * * *
68244 CATGAAAGTATGTCATAAATAAAAACGCATAAT-GGTGCATTAT
1 CATGAAAGGATGCCATAAAT-GAAATGCAT-ATGGGTGCATTAT
68287 AAGCATGAAT
Statistics
Matches: 307, Mismatches: 45, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
44 19 0.06
45 286 0.93
46 2 0.01
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (45 bp):
CATGAAAGGATGCCATAAATGAAATGCATATGGGTGCATTATCGA
Found at i:69056 original size:32 final size:32
Alignment explanation
Indices: 69020--69096 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
69010 GCTTACATTC
*
69020 TTCTGTATTATCTAAATGTAACA-CTAACTCTG
1 TTCTGAATTATCTAAATGTAA-AGCTAACTCTG
* * *
69052 TTCTGCATCATCTAAATGTAAAGCTGACTCTG
1 TTCTGAATTATCTAAATGTAAAGCTAACTCTG
*
69084 TTGTGAATTATCT
1 TTCTGAATTATCT
69097 GAATACGATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 1 0.03
32 37 0.97
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (32 bp):
TTCTGAATTATCTAAATGTAAAGCTAACTCTG
Done.