Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01012979.1 Corchorus olitorius cultivar O-4 contig13012, 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: 101271
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:630 original size:76 final size:76
Alignment explanation
Indices: 502--643 Score: 173
Period size: 76 Copynumber: 1.9 Consensus size: 76
492 CCAACTCTAC
* *
502 CTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCTTGAGAACCCAGGTGGGCAGTGT
1 CTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCCTGAGAACCCAGATGGGCAGTGT
567 CACGACTCCAG
66 CACGACTCCAG
* * ** *
578 CTGGGTGCCCACATGGTTTGTC-TGAAG-ACCCATGT-GTTTCGCCTGATCACCCAGATGGGCTG
1 CTGGGCGCCCACATGG-TTGCCTTG-AGCACCCATGTGGTTT-GCCTGAGAACCCAGATGGGCAG
640 TGTC
63 TGTC
644 TAGTTCATCA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
75 4 0.07
76 46 0.82
77 6 0.11
ACGTcount: A:0.16, C:0.28, G:0.30, T:0.25
Consensus pattern (76 bp):
CTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCCTGAGAACCCAGATGGGCAGTGT
CACGACTCCAG
Found at i:5122 original size:21 final size:20
Alignment explanation
Indices: 5098--5140 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
5088 GAAATATTTC
*
5098 ATTAGAAATTAATTTCTAATA
1 ATTACAAATT-ATTTCTAATA
* *
5119 ATTACATATTATTTTTAATA
1 ATTACAAATTATTTCTAATA
5139 AT
1 AT
5141 ATTTACTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (20 bp):
ATTACAAATTATTTCTAATA
Found at i:5287 original size:22 final size:21
Alignment explanation
Indices: 5261--5323 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
5251 AATCTTAATT
*
5261 AACGAACATAAACGAGCTATTA
1 AACGAACATAAACGAGC-AATA
* *
5283 AACGAATAATAAACGAACAATA
1 AACGAA-CATAAACGAGCAATA
*
5305 AACGAACATTAATCGAGCA
1 AACGAACA-TAAACGAGCA
5324 TGTTCGTGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 1 0.03
22 23 0.70
23 9 0.27
ACGTcount: A:0.54, C:0.17, G:0.13, T:0.16
Consensus pattern (21 bp):
AACGAACATAAACGAGCAATA
Found at i:5297 original size:11 final size:11
Alignment explanation
Indices: 5261--5312 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
5251 AATCTTAATT
5261 AACGAAC-ATA
1 AACGAACAATA
* *
5271 AACGAGCTATTA
1 AACGAAC-AATA
*
5283 AACGAATAATA
1 AACGAACAATA
5294 AACGAACAATA
1 AACGAACAATA
5305 AACGAACA
1 AACGAACA
5313 TTAATCGAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
10 6 0.18
11 21 0.62
12 7 0.21
ACGTcount: A:0.58, C:0.17, G:0.12, T:0.13
Consensus pattern (11 bp):
AACGAACAATA
Found at i:6885 original size:6 final size:6
Alignment explanation
Indices: 6876--6954 Score: 113
Period size: 6 Copynumber: 12.5 Consensus size: 6
6866 CTTTTACTTT
*
6876 TATTTA TATTTA TATTTA TATTTA TATTTTA TATTTA TATTTA TATTAA
1 TATTTA TATTTA TATTTA TATTTA TA-TTTA TATTTA TATTTA TATTTA
6925 TATTTATA TATTTA TATATTA TATTTA TAT
1 TA-TT-TA TATTTA TAT-TTA TATTTA TAT
6955 AGTAGTAAGA
Statistics
Matches: 67, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
6 48 0.72
7 16 0.24
8 3 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TATTTA
Found at i:6887 original size:16 final size:16
Alignment explanation
Indices: 6854--6904 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
6844 TTTGAGTTCA
*
6854 TACTTTTATATACT-TT
1 TACTTTTATTTA-TATT
6870 TACTTTTATTTATATT
1 TACTTTTATTTATATT
*
6886 TATATTTATATTTATATT
1 TA-CTTT-TATTTATATT
6904 T
1 T
6905 TATATTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 1 0.03
16 15 0.50
17 3 0.10
18 11 0.37
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (16 bp):
TACTTTTATTTATATT
Found at i:6893 original size:12 final size:12
Alignment explanation
Indices: 6876--6954 Score: 113
Period size: 13 Copynumber: 6.2 Consensus size: 12
6866 CTTTTACTTT
6876 TATTTATATTTA
1 TATTTATATTTA
6888 TATTTATATTTA
1 TATTTATATTTA
6900 TATTTTATATTTA
1 TA-TTTATATTTA
*
6913 TATTTATATTAA
1 TATTTATATTTA
6925 TATTTATATATTTA
1 TA-TT-TATATTTA
6939 TATATTATATTTA
1 TAT-TTATATTTA
6952 TAT
1 TAT
6955 AGTAGTAAGA
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
12 25 0.41
13 26 0.43
14 10 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TATTTATATTTA
Found at i:6913 original size:31 final size:32
Alignment explanation
Indices: 6876--6954 Score: 133
Period size: 31 Copynumber: 2.5 Consensus size: 32
6866 CTTTTACTTT
*
6876 TATTTATATTTATATTTATATTTATAT-TTTA
1 TATTTATATTTATATTAATATTTATATATTTA
6907 TATTTATATTTATATTAATATTTATATATTTA
1 TATTTATATTTATATTAATATTTATATATTTA
6939 TATATTATATTTATAT
1 TAT-TTATATTTATAT
6955 AGTAGTAAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
31 26 0.58
32 7 0.16
33 12 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (32 bp):
TATTTATATTTATATTAATATTTATATATTTA
Found at i:7230 original size:32 final size:32
Alignment explanation
Indices: 7189--7255 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
7179 TCTTAATATC
* * *
7189 TAAAAAAATTAACTCTTGCAAATACTATTCGG
1 TAAAAAAATTAACTCTAGCAAATACCATTCAG
7221 TAAAAAAATTAACTCTAGCAAATACCATTCAG
1 TAAAAAAATTAACTCTAGCAAATACCATTCAG
7253 TAA
1 TAA
7256 CTCCCTCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.28
Consensus pattern (32 bp):
TAAAAAAATTAACTCTAGCAAATACCATTCAG
Found at i:12620 original size:107 final size:106
Alignment explanation
Indices: 12509--12782 Score: 417
Period size: 107 Copynumber: 2.6 Consensus size: 106
12499 GTAATTTTTA
*
12509 TTATAGAGTTTTAGAAATAAAATATAAAACTAATTTCACTAAGTTTAGCCTCAAATTAAAATTTT
1 TTATAGGGTTTTAGAAATAAAATATAAAACTAATTTCACTAAGTTTAGCC-CAAATTAAAATTTT
* * *
12574 ATTTTTATTTTTAGGGTAAATTTCAAAATTAATAA-TCTATTG
65 ACTTTTATTTTAAGGGTAAATTCCAAAATTAATAACT-TATTG
**
12616 TTATAGGGTTTTAGAAATAAAATACCAAACTAATTTCACTAAGTTTAGCCCCAAATTAAAATTTT
1 TTATAGGGTTTTAGAAATAAAATATAAAACTAATTTCACTAAGTTTAG-CCCAAATTAAAATTTT
* *
12681 ACTTTTATTTTAAGGGTAAATTCCATAATTATTAACTTATTG
65 ACTTTTATTTTAAGGGTAAATTCCAAAATTAATAACTTATTG
* *
12723 TTATAGGGTTTTAGAAATAAAATATATAACTAA-TTCACTACGTTTAGCCCAAATTAAAAT
1 TTATAGGGTTTTAGAAATAAAATATAAAACTAATTTCACTAAGTTTAGCCCAAATTAAAAT
12783 CAAAATTTTT
Statistics
Matches: 153, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
105 13 0.08
106 13 0.08
107 124 0.81
108 3 0.02
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (106 bp):
TTATAGGGTTTTAGAAATAAAATATAAAACTAATTTCACTAAGTTTAGCCCAAATTAAAATTTTA
CTTTTATTTTAAGGGTAAATTCCAAAATTAATAACTTATTG
Found at i:13324 original size:58 final size:58
Alignment explanation
Indices: 13234--13346 Score: 190
Period size: 58 Copynumber: 1.9 Consensus size: 58
13224 AGCATCATGC
*
13234 CTCGGTCCTAAAACGTCTTTTTTTAGGCATCTAATAAAGAACATGTCACTCGATAAGT
1 CTCGGTCCTAAAACGTCTTTTTTTAGGCATCTAATAAAAAACATGTCACTCGATAAGT
* * *
13292 CTCGGTCGTAAAACGTCTTTTTTTATGCATCTAATAAAAAACATGTCACTTGATA
1 CTCGGTCCTAAAACGTCTTTTTTTAGGCATCTAATAAAAAACATGTCACTCGATA
13347 TTTGATTAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (58 bp):
CTCGGTCCTAAAACGTCTTTTTTTAGGCATCTAATAAAAAACATGTCACTCGATAAGT
Found at i:14079 original size:21 final size:20
Alignment explanation
Indices: 14053--14096 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
14043 GTGGAAAGCA
14053 TTATAACTATTTTAATAACTT
1 TTATAACTATTTTAATAA-TT
* *
14074 TTATAACTTTTTTAGTAATT
1 TTATAACTATTTTAATAATT
14094 TTA
1 TTA
14097 GATTACAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (20 bp):
TTATAACTATTTTAATAATT
Found at i:15088 original size:13 final size:13
Alignment explanation
Indices: 15070--15095 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15060 GCAGCGTGCA
15070 TTATTTAATATAT
1 TTATTTAATATAT
15083 TTATTTAATATAT
1 TTATTTAATATAT
15096 GATTTATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTATTTAATATAT
Found at i:15102 original size:16 final size:17
Alignment explanation
Indices: 15077--15115 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
15067 GCATTATTTA
15077 ATATATTTATT-TA-AT
1 ATATATTTATTATATAT
15092 ATATGATTTATTATATAT
1 ATAT-ATTTATTATATAT
15110 ATATAT
1 ATATAT
15116 ATATGACGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 4 0.19
16 7 0.33
17 4 0.19
18 6 0.29
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
ATATATTTATTATATAT
Found at i:15570 original size:30 final size:30
Alignment explanation
Indices: 15534--15596 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
15524 CTATGCTGAA
15534 GTCCATGTGTTATTGTTTGCTTTCGAATTG
1 GTCCATGTGTTATTGTTTGCTTTCGAATTG
15564 GTCCATGTGTTATTGTTTGCTTTCGAATTG
1 GTCCATGTGTTATTGTTTGCTTTCGAATTG
15594 GTC
1 GTC
15597 TTGGAGTGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.13, C:0.14, G:0.24, T:0.49
Consensus pattern (30 bp):
GTCCATGTGTTATTGTTTGCTTTCGAATTG
Found at i:20580 original size:39 final size:38
Alignment explanation
Indices: 20547--20933 Score: 339
Period size: 39 Copynumber: 9.9 Consensus size: 38
20537 AGAATTGCCA
* ** *
20547 TTTAAGCAAACCTGTTTAGGTCTGTGTTTAGAA-TCACA
1 TTTAAGCAAACCTGCTTAGGTCT-TGTTTAGAATTTTCG
* *
20585 TTTAAGGAAACATGCTTAGGTCTCTGTTTAGAATTTTCG
1 TTTAAGCAAACCTGCTTAGGTCT-TGTTTAGAATTTTCG
** * * * *
20624 TTTAAGTGAACCTACTTAGGTCTACGTTTAGGAGTTTCG
1 TTTAAGCAAACCTGCTTAGGTCT-TGTTTAGAATTTTCG
* *
20663 TTTAATCTTAACCTGCTTAGGTCCTTGTTTAGAATTTTCG
1 TTTAAGC-AAACCTGCTTAGGT-CTTGTTTAGAATTTTCG
* ** *
20703 TTTAAGCAAACCTGCTTAGGTCTCCGCGTAGAA-TCTCG
1 TTTAAGCAAACCTGCTTAGGTCT-TGTTTAGAATTTTCG
* * *
20741 TTCAAGTAAACCAGCTTAGGTCTTCGTTTAGAATTTTCG
1 TTTAAGCAAACCTGCTTAGGTCTT-GTTTAGAATTTTCG
20780 TTTAAGCAAACCTGCTTAGGTCCTTGTTTAGAATTTTCG
1 TTTAAGCAAACCTGCTTAGGT-CTTGTTTAGAATTTTCG
* ** *
20819 TTTAAGCAAACCTGCTTAGGTCTCCGCGTAGAA-TCTCG
1 TTTAAGCAAACCTGCTTAGGTCT-TGTTTAGAATTTTCG
* * * *
20857 TTCAAGTAAACATGCTTAGGTCTTCGTTTAGAAGTTTCG
1 TTTAAGCAAACCTGCTTAGGTCTT-GTTTAGAATTTTCG
* *
20896 TTTAACTAAACAAACCTGCTTAGGTTCTCGTTTAGAAT
1 -TT---TAAGCAAACCTGCTTAGG-TCTTGTTTAGAAT
20934 CCCCGCTTAA
Statistics
Matches: 279, Mismatches: 55, Indels: 25
0.78 0.15 0.07
Matches are distributed among these distances:
38 93 0.33
39 124 0.44
40 35 0.13
41 2 0.01
43 22 0.08
44 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (38 bp):
TTTAAGCAAACCTGCTTAGGTCTTGTTTAGAATTTTCG
Found at i:20653 original size:77 final size:76
Alignment explanation
Indices: 20547--20933 Score: 325
Period size: 77 Copynumber: 4.9 Consensus size: 76
20537 AGAATTGCCA
* * * * *
20547 TTTAAGCAAACCTGTTTAGGTCTGTGTTTAGAATCACATTTAAGGAAACATGCTTAGGTCTCTGT
1 TTTAAGCAAACCTGCTTAGGTCT-CGTTTAGAATCTCGTTTAAGTAAACATGCTTAGGTCTCTGT
20612 TTAGAATTTTCG
65 TTAGAATTTTCG
** * * * * * *
20624 TTTAAGTGAACCTACTTAGGTCTACGTTTAGGAGTTTCGTTTAATCTTAACCTGCTTAGGTC-CT
1 TTTAAGCAAACCTGCTTAGGTCT-CGTTTA-GAATCTCGTTTAA-GTAAACATGCTTAGGTCTC-
20688 TGTTTAGAATTTTCG
62 TGTTTAGAATTTTCG
** *
20703 TTTAAGCAAACCTGCTTAGGTCTCCGCGTAGAATCTCGTTCAAGTAAACCA-GCTTAGGTCT-TC
1 TTTAAGCAAACCTGCTTAGGTCT-CGTTTAGAATCTCGTTTAAGTAAA-CATGCTTAGGTCTCT-
20766 GTTTAGAATTTTCG
63 GTTTAGAATTTTCG
* * * * *
20780 TTTAAGCAAACCTGCTTAGGTCCTTGTTTAGAATTTTCGTTTAAGCAAACCTGCTTAGGTCTCCG
1 TTTAAGCAAACCTGCTTAGGT-CTCGTTTAGAA-TCTCGTTTAAGTAAACATGCTTAGGTCTCTG
** *
20845 CGTAGAA-TCTCG
64 TTTAGAATTTTCG
* * * * *
20857 TTCAAGTAAACATGCTTAGGTCTTCGTTTAGAAGTTTCGTTTAACTAAACAAACCTGCTTAGGT-
1 TTTAAGCAAACCTGCTTAGGTC-TCGTTTAGAA-TCTCGTTTAAGTAAAC--A--TGCTTAGGTC
20921 TCTCGTTTAGAAT
60 TCT-GTTTAGAAT
20934 CCCCGCTTAA
Statistics
Matches: 245, Mismatches: 48, Indels: 29
0.76 0.15 0.09
Matches are distributed among these distances:
76 2 0.01
77 123 0.50
78 51 0.21
79 52 0.21
80 2 0.01
81 15 0.06
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (76 bp):
TTTAAGCAAACCTGCTTAGGTCTCGTTTAGAATCTCGTTTAAGTAAACATGCTTAGGTCTCTGTT
TAGAATTTTCG
Found at i:20800 original size:156 final size:155
Alignment explanation
Indices: 20512--20840 Score: 385
Period size: 156 Copynumber: 2.1 Consensus size: 155
20502 TTTTTATCCT
*** * ** * * ** **
20512 AGCAAACCTGCTTAGGTCCCCATTCAGAATTGCCATTTAAGCAAACCTGTTTAGGTCTGTGTTTA
1 AGCAAACCTGCTTAGGTCCTTGTTTAGAATTTTCGTTTAAGCAAACCTGCTTAGGTCTCCGCGTA
* **
20577 GAATCACATTTAAGGAAACATGCTTAGGTCTCTGTTTAGAATTTTCGTTTAAGTGAACCTACTTA
66 GAATCACATTCAAGGAAACATGCTTAGGTCTCTGTTTAGAATTTTCGTTTAAGCAAACCTACTTA
*
20642 GGT-CTACGTTTAGGAGTTTCGTTTA
131 GGTCCT-CGTTTAGAAGTTTCGTTTA
* *
20667 ATCTTAACCTGCTTAGGTCCTTGTTTAGAATTTTCGTTTAAGCAAACCTGCTTAGGTCTCCGCGT
1 AGC-AAACCTGCTTAGGTCCTTGTTTAGAATTTTCGTTTAAGCAAACCTGCTTAGGTCTCCGCGT
* * * *
20732 AGAATCTCGTTCAAGTAAACCA-GCTTAGGTCT-TCGTTTAGAATTTTCGTTTAAGCAAACCTGC
65 AGAATCACATTCAAGGAAA-CATGCTTAGGTCTCT-GTTTAGAATTTTCGTTTAAGCAAACCTAC
* *
20795 TTAGGTCCTTGTTTAGAATTTTCGTTTA
128 TTAGGTCCTCGTTTAGAAGTTTCGTTTA
20823 AGCAAACCTGCTTAGGTC
1 AGCAAACCTGCTTAGGTC
20841 TCCGCGTAGA
Statistics
Matches: 144, Mismatches: 26, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
155 17 0.12
156 123 0.85
157 4 0.03
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (155 bp):
AGCAAACCTGCTTAGGTCCTTGTTTAGAATTTTCGTTTAAGCAAACCTGCTTAGGTCTCCGCGTA
GAATCACATTCAAGGAAACATGCTTAGGTCTCTGTTTAGAATTTTCGTTTAAGCAAACCTACTTA
GGTCCTCGTTTAGAAGTTTCGTTTA
Found at i:20818 original size:116 final size:116
Alignment explanation
Indices: 20547--20933 Score: 485
Period size: 116 Copynumber: 3.3 Consensus size: 116
20537 AGAATTGCCA
* ** * * * *
20547 TTTAAGCAAACCTGTTTAGGT-CTGTGTTTAGAA-TCACATTTAAGGAAACATGCTTAGGTCTCT
1 TTTAAGCAAACCTGCTTAGGTCCT-TGTTTAGAATTTTCGTTTAAGCAAACCTGCTTAGGTCTCC
** * * * * *
20610 GTTTAGAATTTTCGTTTAAGTGAACCTA-CTTAGGTCTACGTTTAGGAGTTTCG
65 GCGTAGAA-TCTCGTTCAAGTAAACC-AGCTTAGGTCTTCGTTTAGAAGTTTCG
* *
20663 TTTAATCTTAACCTGCTTAGGTCCTTGTTTAGAATTTTCGTTTAAGCAAACCTGCTTAGGTCTCC
1 TTTAAGC-AAACCTGCTTAGGTCCTTGTTTAGAATTTTCGTTTAAGCAAACCTGCTTAGGTCTCC
*
20728 GCGTAGAATCTCGTTCAAGTAAACCAGCTTAGGTCTTCGTTTAGAATTTTCG
65 GCGTAGAATCTCGTTCAAGTAAACCAGCTTAGGTCTTCGTTTAGAAGTTTCG
20780 TTTAAGCAAACCTGCTTAGGTCCTTGTTTAGAATTTTCGTTTAAGCAAACCTGCTTAGGTCTCCG
1 TTTAAGCAAACCTGCTTAGGTCCTTGTTTAGAATTTTCGTTTAAGCAAACCTGCTTAGGTCTCCG
20845 CGTAGAATCTCGTTCAAGTAAA-CATGCTTAGGTCTTCGTTTAGAAGTTTCG
66 CGTAGAATCTCGTTCAAGTAAACCA-GCTTAGGTCTTCGTTTAGAAGTTTCG
* * *
20896 TTTAACTAAACAAACCTGCTTAGGTTCTCGTTTAGAAT
1 -TT---TAAGCAAACCTGCTTAGGTCCTTGTTTAGAAT
20934 CCCCGCTTAA
Statistics
Matches: 239, Mismatches: 23, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
115 2 0.01
116 111 0.46
117 65 0.27
118 32 0.13
120 29 0.12
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (116 bp):
TTTAAGCAAACCTGCTTAGGTCCTTGTTTAGAATTTTCGTTTAAGCAAACCTGCTTAGGTCTCCG
CGTAGAATCTCGTTCAAGTAAACCAGCTTAGGTCTTCGTTTAGAAGTTTCG
Found at i:20998 original size:120 final size:116
Alignment explanation
Indices: 20547--20998 Score: 392
Period size: 116 Copynumber: 3.9 Consensus size: 116
20537 AGAATTGCCA
* * * * ** * *
20547 TTTAAGCAAACCTGTTTAGGT-CTGTGTTTAGAAT-CACATTTAAGGAAACATGCTTAGGTCT-C
1 TTTAAACAAACCTGCTTAGGTCCT-CGTTTAGAATCCCCGCTTAAGCAAACCTGCTTAGGTCTAC
** * * * * * *
20609 TGTTTAGAATTTTCGTTTAAGTGAACCTACTTAGGTCTACGTTTAGGAGTTTCG
65 -GCGTAGAA-TCTCGTTCAAGTAAACCTGCTTAGGTCTTCGTTTAGAAGTTTCG
* * * *** * *
20663 TTTAATCTTAACCTGCTTAGGTCCTTGTTTAGAATTTTCGTTTAAGCAAACCTGCTTAGGTCTCC
1 TTTAAAC-AAACCTGCTTAGGTCCTCGTTTAGAATCCCCGCTTAAGCAAACCTGCTTAGGTCTAC
* *
20728 GCGTAGAATCTCGTTCAAGTAAACCAGCTTAGGTCTTCGTTTAGAATTTTCG
65 GCGTAGAATCTCGTTCAAGTAAACCTGCTTAGGTCTTCGTTTAGAAGTTTCG
* * *** * *
20780 TTTAAGCAAACCTGCTTAGGTCCTTGTTTAGAATTTTCGTTTAAGCAAACCTGCTTAGGTCTCCG
1 TTTAAACAAACCTGCTTAGGTCCTCGTTTAGAATCCCCGCTTAAGCAAACCTGCTTAGGTCTACG
*
20845 CGTAGAATCTCGTTCAAGTAAACATGCTTAGGTCTTCGTTTAGAAGTTTCG
66 CGTAGAATCTCGTTCAAGTAAACCTGCTTAGGTCTTCGTTTAGAAGTTTCG
* ** * *
20896 TTTAACTAAACAAACCTGCTTAGGTTCTCGTTTAGAATCCCCGCTTAAGTGATCCTGCTTTGGTC
1 -TT---TAAACAAACCTGCTTAGGTCCTCGTTTAGAATCCCCGCTTAAGCAAACCTGCTTAGGTC
* * * *
20961 TATGCTTA-AAGTTTCGTTCAA-TCAAACCTGCTCAGGTC
62 TACGCGTAGAA-TCTCGTTCAAGT-AAACCTGCTTAGGTC
20999 CCTCTTTATA
Statistics
Matches: 286, Mismatches: 40, Indels: 16
0.84 0.12 0.05
Matches are distributed among these distances:
116 111 0.39
117 66 0.23
118 30 0.10
119 4 0.01
120 75 0.26
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (116 bp):
TTTAAACAAACCTGCTTAGGTCCTCGTTTAGAATCCCCGCTTAAGCAAACCTGCTTAGGTCTACG
CGTAGAATCTCGTTCAAGTAAACCTGCTTAGGTCTTCGTTTAGAAGTTTCG
Found at i:21506 original size:42 final size:43
Alignment explanation
Indices: 21447--21534 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 43
21437 GAAATAAATG
* **
21447 TTACCCATTTTAGTTATATTGGCATT-GTCTTATTTTGTCTCA
1 TTACCCATTTTAGTTATATTCGCATTAGTCTTACCTTGTCTCA
21489 TTACCCATTTTAGTTATATTCGCATTAGTCTTACCTTGTCTCA
1 TTACCCATTTTAGTTATATTCGCATTAGTCTTACCTTGTCTCA
21532 TTA
1 TTA
21535 GATTGCATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 25 0.60
43 17 0.40
ACGTcount: A:0.20, C:0.19, G:0.10, T:0.50
Consensus pattern (43 bp):
TTACCCATTTTAGTTATATTCGCATTAGTCTTACCTTGTCTCA
Found at i:33579 original size:1 final size:1
Alignment explanation
Indices: 33575--33603 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
33565 TTTTTTTGGG
33575 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
33604 CCAGCCGCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:33828 original size:30 final size:30
Alignment explanation
Indices: 33789--33859 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 30
33779 AATCCCTTTT
*
33789 CAATTTGGATTGGATTAATTAACCCCCTTC
1 CAATGTGGATTGGATTAATTAACCCCCTTC
* *
33819 CAGTGTGGATTGGATTAATTAATCCCCTTC
1 CAATGTGGATTGGATTAATTAACCCCCTTC
*
33849 CAATTTGGATT
1 CAATGTGGATT
33860 TTTTTTTTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (30 bp):
CAATGTGGATTGGATTAATTAACCCCCTTC
Found at i:44185 original size:35 final size:36
Alignment explanation
Indices: 44137--44207 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 36
44127 GGGAACTTTG
*
44137 AAAAACTGAATGGGAACTTTCCCAATTTGAAAACTT
1 AAAAACTGAATGGGAACTTTCCCAATTTAAAAACTT
*
44173 AAAAGCTG-ATGGGAACTTTCCCAATTTAAAAACTT
1 AAAAACTGAATGGGAACTTTCCCAATTTAAAAACTT
44208 TGACCTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
35 26 0.79
36 7 0.21
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (36 bp):
AAAAACTGAATGGGAACTTTCCCAATTTAAAAACTT
Found at i:47734 original size:29 final size:30
Alignment explanation
Indices: 47695--47755 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
47685 TATATATAAT
*
47695 ATAATATAATTAAATAA-TTATAT-TTGTAC
1 ATAATAAAATTAAATAATTTATATGTT-TAC
*
47724 ATAATAAAATTGAATAATTTATATGTTTAC
1 ATAATAAAATTAAATAATTTATATGTTTAC
47754 AT
1 AT
47756 CAATTAGAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 15 0.54
30 11 0.39
31 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (30 bp):
ATAATAAAATTAAATAATTTATATGTTTAC
Found at i:58574 original size:2 final size:2
Alignment explanation
Indices: 58567--58600 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
58557 ACAAAAGAAA
58567 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
58601 TTCATTAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61880 original size:12 final size:11
Alignment explanation
Indices: 61865--61912 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 11
61855 AATGATTTTG
61865 AAAAAAGCAAAA
1 AAAAAAG-AAAA
61877 AAAAAA-AATTAA
1 AAAAAAGAA--AA
61889 AAAAAAGAAAA
1 AAAAAAGAAAA
61900 AGAAAAAGAAAA
1 A-AAAAAGAAAA
61912 A
1 A
61913 TGAGAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 25 0.78
13 2 0.06
ACGTcount: A:0.85, C:0.02, G:0.08, T:0.04
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:62007 original size:30 final size:31
Alignment explanation
Indices: 61971--62037 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
61961 ATGCAAATGG
61971 GTCCCTGAAGTGAACTT-AGTGAGCAATTGA
1 GTCCCTGAAGTGAACTTAAGTGAGCAATTGA
* * * *
62001 GTCCCTGAAGTGGAGTTAATTGAGCAATTGG
1 GTCCCTGAAGTGAACTTAAGTGAGCAATTGA
62032 GTCCCT
1 GTCCCT
62038 AACTCATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 15 0.47
31 17 0.53
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (31 bp):
GTCCCTGAAGTGAACTTAAGTGAGCAATTGA
Found at i:62069 original size:21 final size:20
Alignment explanation
Indices: 62043--62100 Score: 77
Period size: 17 Copynumber: 3.0 Consensus size: 20
62033 TCCCTAACTC
62043 ATTTTTTTAAACAAAATATAT
1 ATTTTTTTAAACAAAA-ATAT
62064 ATTTTTTT--A-AAAAATAT
1 ATTTTTTTAAACAAAAATAT
*
62081 ATTTTTTTAATCAAAAATAT
1 ATTTTTTTAAACAAAAATAT
62101 GATGTAGCAG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
17 12 0.36
18 4 0.12
19 1 0.03
20 8 0.24
21 8 0.24
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTTTTTAAACAAAAATAT
Found at i:63246 original size:34 final size:34
Alignment explanation
Indices: 63203--63272 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
63193 TCTTCTCATT
63203 GAACGTTTCCCCACCAAGCTGGTCAAAATAATTG
1 GAACGTTTCCCCACCAAGCTGGTCAAAATAATTG
63237 GAACGTTTCCCCACCAAGCTGGTCAAAATAATTG
1 GAACGTTTCCCCACCAAGCTGGTCAAAATAATTG
63271 GA
1 GA
63273 TTAATTAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.23
Consensus pattern (34 bp):
GAACGTTTCCCCACCAAGCTGGTCAAAATAATTG
Found at i:63481 original size:12 final size:12
Alignment explanation
Indices: 63466--63490 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63456 TGTAGCTGCT
63466 TATGTAAGTGAC
1 TATGTAAGTGAC
63478 TATGTAAGTGAC
1 TATGTAAGTGAC
63490 T
1 T
63491 CTATAATTGT
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:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (12 bp):
TATGTAAGTGAC
Found at i:63819 original size:37 final size:37
Alignment explanation
Indices: 63776--63846 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
63766 CTTGATCAAC
* *
63776 ATACATGTC-TTCTCATATAGATATAACTTTATGATCA
1 ATACATGTCTTTC-CAAATAGACATAACTTTATGATCA
63813 ATACATGTCTTTCCAAATAGACATAACTTTATGA
1 ATACATGTCTTTCCAAATAGACATAACTTTATGA
63847 ATAATTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (37 bp):
ATACATGTCTTTCCAAATAGACATAACTTTATGATCA
Found at i:65644 original size:26 final size:25
Alignment explanation
Indices: 65606--65657 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
65596 TTTCTTACAA
65606 AAATAATAAAAATAAACATTAGATAT
1 AAATAATAAAAATAAAC-TTAGATAT
* * * *
65632 AAATCATATAAATGAACTTATATAT
1 AAATAATAAAAATAAACTTAGATAT
65657 A
1 A
65658 TCTCATTGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.31
Consensus pattern (25 bp):
AAATAATAAAAATAAACTTAGATAT
Found at i:68492 original size:20 final size:20
Alignment explanation
Indices: 68467--68516 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
68457 TTATAAAAGT
*
68467 AAAATAATTAGAATTAATTA
1 AAAATAATAAGAATTAATTA
**
68487 AAAATAATAATTATTAATTA
1 AAAATAATAAGAATTAATTA
68507 AAAATAATAA
1 AAAATAATAA
68517 TTATAGGAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAATAATAAGAATTAATTA
Found at i:68517 original size:20 final size:20
Alignment explanation
Indices: 68479--68520 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
68469 AATAATTAGA
68479 ATTAATTAAAAATAATAATT
1 ATTAATTAAAAATAATAATT
68499 ATTAATTAAAAATAATAATT
1 ATTAATTAAAAATAATAATT
68519 AT
1 AT
68521 AGGAAGTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTAATTAAAAATAATAATT
Found at i:69133 original size:178 final size:178
Alignment explanation
Indices: 68865--69196 Score: 474
Period size: 178 Copynumber: 1.9 Consensus size: 178
68855 AAGGTGATTT
68865 AAGTGTCTATTAAAAGATTGTTCCATCATCTACAACTTTCATGAAGAACTCGAAAACTAAATTTA
1 AAGTGTCTATTAAAAGATTGTTCCATCATCTACAACTTTCATGAAGAACTCGAAAACTAAATTTA
* * * *
68930 ATGTTTCAAGTATCAAAAATGCTTCCGAAA-AATTTGTTGTTTCGGTTAACGGGAATAGATGGTC
66 ATGTTTCAAGTATCAAAAATGCTTCC-AAAGAATTAGTTGTTTCGATTAAAGGAAATAGATGGTC
* *
68994 CACTTAATATTATATAACTTTTGCTCCAGATGTCTAATTGAAATAATTC
130 CACTTAATATTACATAACTTGTGCTCCAGATGTCTAATTGAAATAATTC
* * * * * *
69043 AAGTGTCTCTTGAAAGGTTGTTCTATGATCTACAACTTTCATTAA-AAGCTCGAAAACTAAATTT
1 AAGTGTCTATTAAAAGATTGTTCCATCATCTACAACTTTCATGAAGAA-CTCGAAAACTAAATTT
*
69107 AATG-TTCGAGGTAT-AAAAATTGCTTCCAAAGAATTAGTTGTTTCGATTAAAGGAAATAGATGG
65 AATGTTTC-AAGTATCAAAAA-TGCTTCCAAAGAATTAGTTGTTTCGATTAAAGGAAATAGATGG
*
69170 TCTACTTAATATTACATAACTTGTGCT
128 TCCACTTAATATTACATAACTTGTGCT
69197 TATGGTGAAA
Statistics
Matches: 136, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
177 13 0.10
178 123 0.90
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (178 bp):
AAGTGTCTATTAAAAGATTGTTCCATCATCTACAACTTTCATGAAGAACTCGAAAACTAAATTTA
ATGTTTCAAGTATCAAAAATGCTTCCAAAGAATTAGTTGTTTCGATTAAAGGAAATAGATGGTCC
ACTTAATATTACATAACTTGTGCTCCAGATGTCTAATTGAAATAATTC
Found at i:69873 original size:28 final size:28
Alignment explanation
Indices: 69836--69894 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
69826 CAGAAGAAGC
69836 CCCTAAACTTTTATTTTAGCCAAATAAG
1 CCCTAAACTTTTATTTTAGCCAAATAAG
*
69864 CCCTAAACTTTTATTTTGGCCAAATAAG
1 CCCTAAACTTTTATTTTAGCCAAATAAG
69892 CCC
1 CCC
69895 CTGAACTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.34
Consensus pattern (28 bp):
CCCTAAACTTTTATTTTAGCCAAATAAG
Found at i:73538 original size:14 final size:13
Alignment explanation
Indices: 73512--73536 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73502 TTATTACTTG
73512 TGCATTTTTTTTA
1 TGCATTTTTTTTA
73525 TGCATTTTTTTT
1 TGCATTTTTTTT
73537 TACAAATGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.72
Consensus pattern (13 bp):
TGCATTTTTTTTA
Found at i:75259 original size:13 final size:13
Alignment explanation
Indices: 75224--75283 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 13
75214 TAACTTATTA
75224 TATCCAAATAATT
1 TATCCAAATAATT
*
75237 TA---ACATAATT
1 TATCCAAATAATT
75247 TATCCAAATAATT
1 TATCCAAATAATT
* *
75260 TA---ACATAATA
1 TATCCAAATAATT
75270 TATCCAAATAATT
1 TATCCAAATAATT
75283 T
1 T
75284 GCATACTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
10 17 0.49
13 18 0.51
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.38
Consensus pattern (13 bp):
TATCCAAATAATT
Found at i:75295 original size:23 final size:23
Alignment explanation
Indices: 75179--75283 Score: 140
Period size: 23 Copynumber: 4.5 Consensus size: 23
75169 TAAACTCAAC
* *
75179 CCAAATATAATTAACATATTATAA
1 CCAAATA-ATTTAACATATTATAT
*
75203 CACAAATAATTTAACTTATTATAT
1 C-CAAATAATTTAACATATTATAT
75227 CCAAATAATTTAACATAATT-TAT
1 CCAAATAATTTAACAT-ATTATAT
*
75250 CCAAATAATTTAACATAATATAT
1 CCAAATAATTTAACATATTATAT
75273 CCAAATAATTT
1 CCAAATAATTT
75284 GCATACTTAT
Statistics
Matches: 73, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
22 2 0.03
23 47 0.64
24 18 0.25
25 6 0.08
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (23 bp):
CCAAATAATTTAACATATTATAT
Found at i:85572 original size:36 final size:36
Alignment explanation
Indices: 85446--85560 Score: 194
Period size: 36 Copynumber: 3.2 Consensus size: 36
85436 ATTTATTGTT
*
85446 ACAACTTTTGGTGTCAATTTAAAAGATACAATCATG
1 ACAACTTTTGGTGCCAATTTAAAAGATACAATCATG
85482 ACAACTTTTGGTGCCAATTTAAAAGATACAATCATG
1 ACAACTTTTGGTGCCAATTTAAAAGATACAATCATG
* * *
85518 ACAACTTTTGGTGCCAATTTAAAAGGTAAAACCATG
1 ACAACTTTTGGTGCCAATTTAAAAGATACAATCATG
85554 ACAACTT
1 ACAACTT
85561 CAGGTGTCAA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 75 1.00
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (36 bp):
ACAACTTTTGGTGCCAATTTAAAAGATACAATCATG
Found at i:85593 original size:33 final size:33
Alignment explanation
Indices: 85551--85673 Score: 167
Period size: 33 Copynumber: 3.7 Consensus size: 33
85541 AGGTAAAACC
85551 ATGACAACTTCAGGTGTCAATTGGAGATTTATT
1 ATGACAACTTCAGGTGTCAATTGGAGATTTATT
* * *
85584 ATGACAACTTCAGGTGCCAATTGGAAATCTATT
1 ATGACAACTTCAGGTGTCAATTGGAGATTTATT
* * *
85617 ATGACAACTTTAGGTGTCAATTTAGAGATTTATC
1 ATGACAACTTCAGGTGTCAA-TTGGAGATTTATT
85651 ATGACAACTT-ATGGTGTCAATTG
1 ATGACAACTTCA-GGTGTCAATTG
85674 AAAGATCATG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
33 51 0.65
34 27 0.35
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.35
Consensus pattern (33 bp):
ATGACAACTTCAGGTGTCAATTGGAGATTTATT
Found at i:85684 original size:30 final size:30
Alignment explanation
Indices: 85550--85768 Score: 145
Period size: 30 Copynumber: 7.0 Consensus size: 30
85540 AAGGTAAAAC
* **
85550 CATGACAACTTCAGGTGTCAATTGGAGATTTAT
1 CATGACAACTTCTGGTGTCAATT-GA-A-AGAT
* * * *
85583 TATGACAACTTCAGGTGCCAATTGGAAATCTAT
1 CATGACAACTTCTGGTGTCAATT-GAAA--GAT
* **
85616 TATGACAACTT-TAGGTGTCAATTTAGAGATTTAT
1 CATGACAACTTCT-GGTGTCAA-TT-GA-A-AGAT
*
85650 CATGACAACTTATGGTGTCAATTGAAAGAT
1 CATGACAACTTCTGGTGTCAATTGAAAGAT
* * * * *
85680 CATGACAATTTTTGGTATCAAAT-ACAAAAT
1 CATGACAACTTCTGGTGTCAATTGA-AAGAT
* * *
85710 CATGACAACTTCTAGTGTCAATTGTAAGAC
1 CATGACAACTTCTGGTGTCAATTGAAAGAT
85740 CATGACAACTTCTGGTGTCAATTGAAAGA
1 CATGACAACTTCTGGTGTCAATTGAAAGA
85769 GTAAAATAAA
Statistics
Matches: 152, Mismatches: 25, Indels: 21
0.77 0.13 0.11
Matches are distributed among these distances:
29 1 0.01
30 73 0.48
31 1 0.01
32 3 0.02
33 47 0.31
34 25 0.16
35 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (30 bp):
CATGACAACTTCTGGTGTCAATTGAAAGAT
Done.