Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168168.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_407, 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: 28332
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Found at i:2118 original size:4 final size:4
Alignment explanation
Indices: 2097--2149 Score: 52
Period size: 4 Copynumber: 13.2 Consensus size: 4
2087 GTTTTGCCAG
* * ** *
2097 TCAT GCAT TCAC TCAT TCAT TCAT TCAT TTGT GCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
*
2145 CCAT T
1 TCAT T
2150 TATGTATACA
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.23, C:0.26, G:0.06, T:0.45
Consensus pattern (4 bp):
TCAT
Found at i:2136 original size:24 final size:24
Alignment explanation
Indices: 2109--2165 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
2099 ATGCATTCAC
* *
2109 TCATTCATTCATTCATTTGTGCAT
1 TCATTCATTCATCCATTTATGCAT
*
2133 TCATTCATTCATCCATTTATGTAT
1 TCATTCATTCATCCATTTATGCAT
*
2157 ACATTCATT
1 TCATTCATT
2166 ATAATGCAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.25, C:0.21, G:0.05, T:0.49
Consensus pattern (24 bp):
TCATTCATTCATCCATTTATGCAT
Found at i:3990 original size:18 final size:18
Alignment explanation
Indices: 3969--4007 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
3959 ATCAAAGAGT
*
3969 AATATTCTTTTCTAGGGC
1 AATATTCTTTTCTAAGGC
3987 AATATTCTTTTCTAAGGC
1 AATATTCTTTTCTAAGGC
4005 AAT
1 AAT
4008 GAACAATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (18 bp):
AATATTCTTTTCTAAGGC
Found at i:4968 original size:24 final size:24
Alignment explanation
Indices: 4939--4989 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
4929 AAAGAATGCA
* *
4939 AAAGAA-AAAAAAATGAAAGGAATG
1 AAAGAATAAAAAAAAG-AAGGAAAG
4963 AAAGAATAAAAAAAAGAAGGAAAG
1 AAAGAATAAAAAAAAGAAGGAAAG
4987 AAA
1 AAA
4990 AAGAAATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.06
Consensus pattern (24 bp):
AAAGAATAAAAAAAAGAAGGAAAG
Found at i:5996 original size:32 final size:32
Alignment explanation
Indices: 5951--6225 Score: 167
Period size: 33 Copynumber: 8.5 Consensus size: 32
5941 GCACTAAAGT
* *
5951 TTTAAGCCCAGTTTAGCTAGCCTTTAATGAAA
1 TTTAAGCCTAGTTTAGCTGGCCTTTAATGAAA
** * * *
5983 TTTAAGCCTAGTTTATTTGGCCATCAATGAAGT
1 TTTAAGCCTAGTTTAGCTGGCCTTTAATGAA-A
* * ** *
6016 TTTAAGCCCAG-TTAGTTGGCCCCTAAGGAAA
1 TTTAAGCCTAGTTTAGCTGGCCTTTAATGAAA
** * * *
6047 TCTTAAGCCTAGTTTATTTGGCCATCAATGAAGT
1 T-TTAAGCCTAGTTTAGCTGGCCTTTAATGAA-A
* * ** *
6081 TTTAAGCCCAG-TTAGTTGGCCCCTAAGGAAA
1 TTTAAGCCTAGTTTAGCTGGCCTTTAATGAAA
* * * *
6112 TCTTAAGCCTAGTTTACCTGGCCATTAACGAAGT
1 T-TTAAGCCTAGTTTAGCTGGCCTTTAATGAA-A
* * * * **
6146 TTTAAGCCTAATTCATCTGGCCTTAAATGAGGT
1 TTTAAGCCTAGTTTAGCTGGCCTTTAATGA-AA
* *
6179 TTTAAGCCCAGTTTAGCCGGCCTTTAATGAAA
1 TTTAAGCCTAGTTTAGCTGGCCTTTAATGAAA
*
6211 TTTAAGCCTAATTTA
1 TTTAAGCCTAGTTTA
6226 TCTAGCCTCG
Statistics
Matches: 183, Mismatches: 52, Indels: 16
0.73 0.21 0.06
Matches are distributed among these distances:
31 2 0.01
32 84 0.46
33 95 0.52
34 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (32 bp):
TTTAAGCCTAGTTTAGCTGGCCTTTAATGAAA
Found at i:6053 original size:65 final size:64
Alignment explanation
Indices: 5918--6153 Score: 318
Period size: 65 Copynumber: 3.7 Consensus size: 64
5908 TAGCACCAAT
* * * * ** *
5918 GAAATTTAAGCCCAGTTTATTTGG-CA-C--TAAAGTTTTAAGCCCAGTTTAGCTAGCCTTTAAT
1 GAAATTTAAGCCTAGTTTATTTGGCCATCAATGAAGTTTTAAGCCCAG-TTAGTTGGCCCCTAAG
5979 GAAATTTAAGCCTAGTTTATTTGGCCATCAATGAAGTTTTAAGCCCAGTTAGTTGGCCCCTAAG
1 GAAATTTAAGCCTAGTTTATTTGGCCATCAATGAAGTTTTAAGCCCAGTTAGTTGGCCCCTAAG
6043 GAAATCTTAAGCCTAGTTTATTTGGCCATCAATGAAGTTTTAAGCCCAGTTAGTTGGCCCCTAAG
1 GAAAT-TTAAGCCTAGTTTATTTGGCCATCAATGAAGTTTTAAGCCCAGTTAGTTGGCCCCTAAG
** * *
6108 GAAATCTTAAGCCTAGTTTACCTGGCCATTAACGAAGTTTTAAGCC
1 GAAAT-TTAAGCCTAGTTTATTTGGCCATCAATGAAGTTTTAAGCC
6154 TAATTCATCT
Statistics
Matches: 159, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
61 23 0.14
62 2 0.01
63 1 0.01
64 16 0.10
65 117 0.74
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (64 bp):
GAAATTTAAGCCTAGTTTATTTGGCCATCAATGAAGTTTTAAGCCCAGTTAGTTGGCCCCTAAG
Found at i:6086 original size:33 final size:33
Alignment explanation
Indices: 5914--6193 Score: 184
Period size: 33 Copynumber: 8.7 Consensus size: 33
5904 TGTTTAGCAC
*
5914 CAATGAA-ATTTAAGCCCAGTTTATTTGG-CA-
1 CAATGAAGTTTTAAGCCCAGTTTATTTGGCCAT
* ** * *
5944 C--TAAAGTTTTAAGCCCAGTTTAGCTAGCCTT
1 CAATGAAGTTTTAAGCCCAGTTTATTTGGCCAT
* * *
5975 TAATGAA-ATTTAAGCCTAGTTTATTTGGCCAT
1 CAATGAAGTTTTAAGCCCAGTTTATTTGGCCAT
* *
6007 CAATGAAGTTTTAAGCCCAG-TTAGTTGGCC-C
1 CAATGAAGTTTTAAGCCCAGTTTATTTGGCCAT
* * * *
6038 CTAAGGAAATCTTAAGCCTAGTTTATTTGGCCAT
1 C-AATGAAGTTTTAAGCCCAGTTTATTTGGCCAT
* *
6072 CAATGAAGTTTTAAGCCCAG-TTAGTTGGCC-C
1 CAATGAAGTTTTAAGCCCAGTTTATTTGGCCAT
* * * * **
6103 CTAAGGAAATCTTAAGCCTAGTTTACCTGGCCAT
1 C-AATGAAGTTTTAAGCCCAGTTTATTTGGCCAT
* * * * * * *
6137 TAACGAAGTTTTAAGCCTAATTCATCTGGCCTT
1 CAATGAAGTTTTAAGCCCAGTTTATTTGGCCAT
* *
6170 AAATGAGGTTTTAAGCCCAGTTTA
1 CAATGAAGTTTTAAGCCCAGTTTA
6194 GCCGGCCTTT
Statistics
Matches: 186, Mismatches: 52, Indels: 21
0.72 0.20 0.08
Matches are distributed among these distances:
28 3 0.02
29 17 0.09
30 2 0.01
31 2 0.01
32 73 0.39
33 88 0.47
34 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (33 bp):
CAATGAAGTTTTAAGCCCAGTTTATTTGGCCAT
Found at i:6216 original size:98 final size:98
Alignment explanation
Indices: 6049--6225 Score: 230
Period size: 98 Copynumber: 1.8 Consensus size: 98
6039 TAAGGAAATC
* * * * **
6049 TTAAGCCTAGTTTATTTGGCCATCAATGAAGTTTTAAGCCCAGTTAGTTGGCCCCTAAGGAAATC
1 TTAAGCCTAATTCATCTGGCCATAAATGAAGTTTTAAGCCCAGTTAGCCGGCCCCTAAGGAAATC
*
6114 TTAAGCCTAGTTTACCTGGCCATTAACGAAGTT
66 TTAAGCCTAATTTACCTGGCCATTAACGAAGTT
* * ** *
6147 TTAAGCCTAATTCATCTGGCCTTAAATGAGGTTTTAAGCCCAGTTTAGCCGGCCTTTAATGAAAT
1 TTAAGCCTAATTCATCTGGCCATAAATGAAGTTTTAAGCCCAG-TTAGCCGGCCCCTAAGGAAAT
6212 -TTAAGCCTAATTTA
65 CTTAAGCCTAATTTA
6226 TCTAGCCTCG
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
98 50 0.76
99 16 0.24
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (98 bp):
TTAAGCCTAATTCATCTGGCCATAAATGAAGTTTTAAGCCCAGTTAGCCGGCCCCTAAGGAAATC
TTAAGCCTAATTTACCTGGCCATTAACGAAGTT
Found at i:7453 original size:36 final size:36
Alignment explanation
Indices: 7413--7481 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
7403 CCTGACTCAC
* * *
7413 GGTTTAATCCCAGTTGCTTTTATTTTTTTGACTCGT
1 GGTTTAATACCAGTCGCTTGTATTTTTTTGACTCGT
*
7449 GGTTTAATATCAGTCGCTTGTATTTTTTTGACT
1 GGTTTAATACCAGTCGCTTGTATTTTTTTGACT
7482 TGCGGTTCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.16, C:0.14, G:0.17, T:0.52
Consensus pattern (36 bp):
GGTTTAATACCAGTCGCTTGTATTTTTTTGACTCGT
Found at i:7726 original size:109 final size:109
Alignment explanation
Indices: 7460--7917 Score: 336
Period size: 109 Copynumber: 4.2 Consensus size: 109
7450 GTTTAATATC
* ** * ** * *
7460 AGTCGCTTGTATTTTT-TTGACTTGCGGTTCAGTCCCAATCATCATTAATCTTTGACTCGTGATT
1 AGTCGCTTTTATTTTTCTTGACTTGCGGTTCAAACCCAATCGTTGTTAATCTTTGACTCATGGTT
* * * * *
7524 TAATCCTGGTCATTTCTATAGTCTCTT-GACTTACGATTTAA-CTT
66 TAATCCCGATCATTTCTATAGT-TTTTCGACTTGC-ATTTAATCCT
* ** * * * ** * ** * *
7568 CAGTCACTTTTATTTTTCAAG-CTTACGATTTAGTCCCAGTCGTCATTAATCTCTGACTCATGTT
1 -AGTCGCTTTTATTTTTCTTGACTTGCGGTTCAAACCCAATCGTTGTTAATCTTTGACTCATGGT
*
7632 TTAATCCCGATCATTTCTATAGTTTTTCGATTTGCAGTTTAATCCT
65 TTAATCCCGATCATTTCTATAGTTTTTCGACTTGCA-TTTAATCCT
* * ** *** * **
7678 AATCACTTTTATTTTTCTT-ACTTTTGGTTCAAACCTGGTTGTTGTTAATCTTTGACTTGTGGTT
1 AGTCGCTTTTATTTTTCTTGACTTGCGGTTCAAACCCAATCGTTGTTAATCTTTGACTCATGGTT
** * ** *
7742 TAATCTTGATCATTTCTATAGTATCCCTGACTTGCATTTAATCCC
66 TAATCCCGATCATTTCTATAGTTTTTC-GACTTGCATTTAATCCT
* ** * * *
7787 AGTTGCTTCCATTTTT-TTGACTTGCGGTTCAATCCCAATCGTTGTTAATCTTTAATTCATGGTT
1 AGTCGCTTTTATTTTTCTTGACTTGCGGTTCAAACCCAATCGTTGTTAATCTTTGACTCATGGTT
* * *
7851 TAATCCCGATCATTTTTATAGTTTTTTGACTCGCAATTTAATCCT
66 TAATCCCGATCATTTCTATAGTTTTTCGACTTGC-ATTTAATCCT
*
7896 AGTCGTTTTTATTTTTC-TGACT
1 AGTCGCTTTTATTTTTCTTGACT
7918 CGCGATTTAA
Statistics
Matches: 268, Mismatches: 72, Indels: 18
0.75 0.20 0.05
Matches are distributed among these distances:
108 12 0.04
109 246 0.92
110 10 0.04
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.47
Consensus pattern (109 bp):
AGTCGCTTTTATTTTTCTTGACTTGCGGTTCAAACCCAATCGTTGTTAATCTTTGACTCATGGTT
TAATCCCGATCATTTCTATAGTTTTTCGACTTGCATTTAATCCT
Found at i:7926 original size:36 final size:35
Alignment explanation
Indices: 7872--7953 Score: 101
Period size: 36 Copynumber: 2.3 Consensus size: 35
7862 ATTTTTATAG
* **
7872 TTTTTTGACTCGCAATTTAATCCTAGTCGTTTTTA
1 TTTTTTGACTCGCAATTTAATCCCAGTCGCATTTA
* *
7907 TTTTTCTGACTCGCGATTTAATCCCAGTTGCATTTA
1 TTTTT-TGACTCGCAATTTAATCCCAGTCGCATTTA
7943 TTTTTTTGACT
1 -TTTTTTGACT
7954 TACAATTCAG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
35 5 0.12
36 30 0.75
37 5 0.12
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.51
Consensus pattern (35 bp):
TTTTTTGACTCGCAATTTAATCCCAGTCGCATTTA
Found at i:7937 original size:145 final size:144
Alignment explanation
Indices: 7768--8057 Score: 368
Period size: 145 Copynumber: 2.0 Consensus size: 144
7758 TATAGTATCC
* * ** * **
7768 CTGACTTGCATTTAATCCCAGTTGC-TTCCATTTTTTTGACTTGCGGTTCAATCCCAATCGTTGT
1 CTGACTCGCATTTAATCCCAGTTGCATT-CATTTTTTTGACTTACAATTCAATCCCAATCATCAT
* * * *
7832 TAATCTTTAATTCATGGTTTAATCCC-GATCATTTTTATAGTTTTTTGACTCGCAATTTAATCCT
65 TAATCTTTAACTCATGGTTTAATCCCTG-TCATTTTTATAGTTTCTTGACTCGCAATTTAACCCC
**
7896 AGTCGTTTTTATTTTT
129 AGTCACTTTTATTTTT
* *
7912 CTGACTCGCGATTTAATCCCAGTTGCATTTATTTTTTTGACTTACAATTCAGTCCCAATCATCAT
1 CTGACTCGC-ATTTAATCCCAGTTGCATTCATTTTTTTGACTTACAATTCAATCCCAATCATCAT
* * * *
7977 TAATCTTTGACTCGTGGTTTAATCCCTGTCATTTTTATAGTTTCTTGACTTGCGATTTAACCCCA
65 TAATCTTTAACTCATGGTTTAATCCCTGTCATTTTTATAGTTTCTTGACTCGCAATTTAACCCCA
8042 GTCACTTTTATTTTT
130 GTCACTTTTATTTTT
8057 C
1 C
8058 AGGCTTGCTG
Statistics
Matches: 124, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
144 8 0.06
145 113 0.91
146 3 0.02
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (144 bp):
CTGACTCGCATTTAATCCCAGTTGCATTCATTTTTTTGACTTACAATTCAATCCCAATCATCATT
AATCTTTAACTCATGGTTTAATCCCTGTCATTTTTATAGTTTCTTGACTCGCAATTTAACCCCAG
TCACTTTTATTTTT
Found at i:8161 original size:218 final size:216
Alignment explanation
Indices: 7923--8657 Score: 730
Period size: 218 Copynumber: 3.4 Consensus size: 216
7913 TGACTCGCGA
* ** *
7923 TTTAATCCCAGTTGCATTTATTTTTTTGACTTACAATTCAGTCCCAATCATCATTAATCTTTGAC
1 TTTAATCCCAATCACATTTATTTTTTTGACTTACAATTCAGTCCCAATCGTCATTAATCTTTGAC
* * * *
7988 TCGTGGTTTAATCCCTGTCATTTTTATAGTTTCTTGACTTGCGATTTAACCCCAGTCACTTTTAT
66 TCATGGTTTAATCCCTGTCATTTCTATAGTTT-TTGACTTGCGATTTAATCCCAATCACTTTTAT
* * * * **
8053 TTTTCAGGCTTGCTGTTTAGTCCCAATCATCCTTAATCTCTGACTCGTGGTTTAATCCCGATCAT
130 TTTT-AGGCTTGCTGTTCAGTCCCAGTCATCGTTAATCTTTGACTCGTGGTTTAATCTTGATCAT
8118 TTCTATAGTTTCTTGACTTATGG
194 TTCTATAGTTTCTTGACTTATGG
* * * * *
8141 TTTAATCCTAGTCACATTTATTTTTCTGACTTACAGTTCAGTCCCAATCGTCATTAGTCTTTGAC
1 TTTAATCCCAATCACATTTATTTTTTTGACTTACAATTCAGTCCCAATCGTCATTAATCTTTGAC
* * *
8206 TCATGGTTTAATCTCAGTCATTTCTATAGTTTTTCGACTCGC-AGTTTAATCCCAATCACTTTTT
66 TCATGGTTTAATCCCTGTCATTTCTATAGTTTTT-GACTTGCGA-TTTAATCCCAATCAC-TTTT
** * *
8270 ATTTTTATAACTTGCAGTTCAGTCCCAGTCATCGTTAATCTTTGACTCGTGGTTTAATTTTGATC
128 ATTTTTA-GGCTTGCTGTTCAGTCCCAGTCATCGTTAATCTTTGACTCGTGGTTTAATCTTGATC
*
8335 ATTTCTATAGTTTCCCTGACTTGCAT--
192 ATTTCTATAGTTT-CTTGACTT--ATGG
* *** * * * * *
8361 TTTGATCCCAATCGTTTTTATTTTTTTGACTTGCGATTTAGTCCCAATCGTCATTAATTTTTAAC
1 TTTAATCCCAATCACATTTATTTTTTTGACTTACAATTCAGTCCCAATCGTCATTAATCTTTGAC
* * * ** *
8426 TCATGGTTTAAT-CATGATCATTTCTATAGTTTTTTTATTTATGGTTTAATCCCAATCACTTTTA
66 TCATGGTTTAATCCCTG-TCATTTCTATAG-TTTTTGACTTGCGATTTAATCCCAATCACTTTT-
* * ** * *
8490 ATTTTTTGAG-TTG-TGGTTCAGT-CCAGTCATTGTTAATCTTTGACTTATGGTTTAAACTTGGT
128 ATTTTTAG-GCTTGCT-GTTCAGTCCCAGTCATCGTTAATCTTTGACTCGTGGTTTAATCTTGAT
* * *
8552 CAATTT-TATAGTTTTTTGACTCACGG
191 C-ATTTCTATAGTTTCTTGACTTATGG
* **** * * **
8578 TTTAATCCCAATCACTTTTATTTTTTTGACTTGTGGTTCAGTCTCAGTCGTTGTTAATCTTTGAC
1 TTTAATCCCAATCACATTTATTTTTTTGACTTACAATTCAGTCCCAATCGTCATTAATCTTTGAC
*
8643 TCGTGGTTTAATCCC
66 TCATGGTTTAATCCC
8658 AATCACTTTT
Statistics
Matches: 424, Mismatches: 76, Indels: 34
0.79 0.14 0.06
Matches are distributed among these distances:
215 1 0.00
217 72 0.17
218 150 0.35
219 89 0.21
220 105 0.25
221 5 0.01
222 2 0.00
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.46
Consensus pattern (216 bp):
TTTAATCCCAATCACATTTATTTTTTTGACTTACAATTCAGTCCCAATCGTCATTAATCTTTGAC
TCATGGTTTAATCCCTGTCATTTCTATAGTTTTTGACTTGCGATTTAATCCCAATCACTTTTATT
TTTAGGCTTGCTGTTCAGTCCCAGTCATCGTTAATCTTTGACTCGTGGTTTAATCTTGATCATTT
CTATAGTTTCTTGACTTATGG
Found at i:8323 original size:110 final size:108
Alignment explanation
Indices: 7939--8655 Score: 636
Period size: 109 Copynumber: 6.6 Consensus size: 108
7929 CCCAGTTGCA
* * * *
7939 TTTATTTTTTTGACTTACAATTCAGTCCCAATCATCATTAATCTTTGACTCGTGGTTTAATCCCT
1 TTTATTTTTTTGACTTGCAGTTCAGTCCCAATCATCATTAATCTTTGACTCGTGGTTTAATCTCA
* * * * *
8004 GTCATTTTTATAGTTTCTTGACTTGCGATTTAACCCCAGTCACT
66 GTCATTTCTATAGTTT-TTGACTTACGGTTTAATCCCAATCACT
** * * * * * *
8048 TTTATTTTTCAGGCTTGCTGTTTAGTCCCAATCATCCTTAATCTCTGACTCGTGGTTTAATC-CC
1 TTTATTTTTTTGACTTGCAGTTCAGTCCCAATCATCATTAATCTTTGACTCGTGGTTTAATCTCA
* * * *
8112 GATCATTTCTATAGTTTCTTGACTTATGGTTTAATCCTAGTCACA
66 G-TCATTTCTATAGTTT-TTGACTTACGGTTTAATCCCAATCACT
* * * * *
8157 TTTATTTTTCTGACTTACAGTTCAGTCCCAATCGTCATTAGTCTTTGACTCATGGTTTAATCTCA
1 TTTATTTTTTTGACTTGCAGTTCAGTCCCAATCATCATTAATCTTTGACTCGTGGTTTAATCTCA
** *
8222 GTCATTTCTATAGTTTTTCGACTCGCAGTTTAATCCCAATCACTT
66 GTCATTTCTATAGTTTTT-GACTTACGGTTTAATCCCAATCAC-T
* * * * **
8267 TTTATTTTTATAACTTGCAGTTCAGTCCCAGTCATCGTTAATCTTTGACTCGTGGTTTAAT-TTT
1 TTTATTTTTTTGACTTGCAGTTCAGTCCCAATCATCATTAATCTTTGACTCGTGGTTTAATCTCA
* * ** * **
8331 GATCATTTCTATAGTTTCCCTGACTTGCATTTTGATCCCAATCGTT
66 G-TCATTTCTATAGTTT--TTGACTTACGGTTTAATCCCAATCACT
* * * * *
8377 TTTATTTTTTTGACTTGC-GATTTAGTCCCAATCGTCATTAATTTTTAACTCATGGTTTAATCAT
1 TTTATTTTTTTGACTTGCAG-TTCAGTCCCAATCATCATTAATCTTTGACTCGTGGTTTAATC-T
* * * *
8441 GA-TCATTTCTATAGTTTTTTTATTTATGGTTTAATCCCAATCACT
64 CAGTCATTTCTATAG-TTTTTGACTTACGGTTTAATCCCAATCACT
* * ** * ** ** * **
8486 TTTAATTTTTTGAGTTGTGGTTCAGT-CCAGTCATTGTTAATCTTTGACTTATGGTTTAAACTTG
1 TTTATTTTTTTGACTTGCAGTTCAGTCCCAATCATCATTAATCTTTGACTCGTGGTTTAATCTCA
*
8550 GTCAATTT-TATAGTTTTTTGACTCACGGTTTAATCCCAATCACT
66 GTC-ATTTCTATAG-TTTTTGACTTACGGTTTAATCCCAATCACT
** * * * **
8594 TTTATTTTTTTGACTTGTGGTTCAGTCTCAGTCGTTGTTAATCTTTGACTCGTGGTTTAATC
1 TTTATTTTTTTGACTTGCAGTTCAGTCCCAATCATCATTAATCTTTGACTCGTGGTTTAATC
8656 CCAATCACTT
Statistics
Matches: 496, Mismatches: 97, Indels: 30
0.80 0.16 0.05
Matches are distributed among these distances:
107 1 0.00
108 89 0.18
109 248 0.50
110 134 0.27
111 22 0.04
112 2 0.00
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (108 bp):
TTTATTTTTTTGACTTGCAGTTCAGTCCCAATCATCATTAATCTTTGACTCGTGGTTTAATCTCA
GTCATTTCTATAGTTTTTGACTTACGGTTTAATCCCAATCACT
Found at i:8422 original size:36 final size:36
Alignment explanation
Indices: 8351--8422 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
8341 ATAGTTTCCC
* ** *
8351 TGACTTGCATTTTGATCCCAATCGTTTTTATTTTTT
1 TGACTTGCATTTAGATCCCAATCGTCATTAATTTTT
8387 TGACTTGCGATTTAG-TCCCAATCGTCATTAATTTTT
1 TGACTTGC-ATTTAGATCCCAATCGTCATTAATTTTT
8423 AACTCATGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 26 0.84
37 5 0.16
ACGTcount: A:0.19, C:0.18, G:0.12, T:0.50
Consensus pattern (36 bp):
TGACTTGCATTTAGATCCCAATCGTCATTAATTTTT
Found at i:8651 original size:71 final size:71
Alignment explanation
Indices: 8566--8726 Score: 241
Period size: 71 Copynumber: 2.3 Consensus size: 71
8556 TTTATAGTTT
** * ** * * * *
8566 TTTGACTCACGGTTTAATCCCAATCACTTTTATTTTTTTGACTTGTGGTTCAGTCTCAGTCGTTG
1 TTTGACTCGTGGTTTAATCCCAATCACTTTTATTTTTCTGACTTACGATTCAGTCACAGTCATCG
8631 TTAATC
66 TTAATC
8637 TTTGACTCGTGGTTTAATCCCAATCACTTTTATTTTTCTGACTTACGATTCAGTCACAGTCATCG
1 TTTGACTCGTGGTTTAATCCCAATCACTTTTATTTTTCTGACTTACGATTCAGTCACAGTCATCG
8702 TTAATC
66 TTAATC
8708 TTTGACTCGTGGTTTAATC
1 TTTGACTCGTGGTTTAATC
8727 ACGGTCATTT
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 81 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (71 bp):
TTTGACTCGTGGTTTAATCCCAATCACTTTTATTTTTCTGACTTACGATTCAGTCACAGTCATCG
TTAATC
Found at i:8744 original size:180 final size:179
Alignment explanation
Indices: 8466--8835 Score: 483
Period size: 180 Copynumber: 2.1 Consensus size: 179
8456 TTTTTTATTT
* ** * *
8466 ATGGTTTAATCCCAATCACTTTTAATTTTTTGAGTTGTGGTTCAGTCCAGTCATTGTTAATCTTT
1 ATGGTTTAATCCCAATCACTTTTAATTTTTTGACTTACGATTCAGTCCAGTCATCGTTAATCTTT
* ** * *
8531 GACTTATGGTTTAAACTTGGTCAATTTTATAGTTTTTTGACTCACGGTTTAATCCCAATCACTTT
66 GACTCATGGTTTAAACACGGTCAATTTTATAGTTTCTTGACTCACAGTTTAATCCCAATCACTTT
* * * * * *
8596 TATTTTTTTGACTTGTGGTTCAGTCTCAGTCGTTGTTAATCTTTGACTC
131 TATTTTTTTAACTTGCGGTTCAATCCCAATCGTCGTTAATCTTTGACTC
*
8645 GTGGTTTAATCCCAATCACTTTT-ATTTTTCTGACTTACGATTCAGTCACAGTCATCGTTAATCT
1 ATGGTTTAATCCCAATCACTTTTAATTTTT-TGACTTACGATTCAGTC-CAGTCATCGTTAATCT
* * * * ** *
8709 TTGACTCGTGGTTTAATCACGGTC-ATTTCTATAGTTTCTTGACTTACATTTTAATCCTGATCGC
64 TTGACTCATGGTTTAAACACGGTCAATTT-TATAGTTTCTTGACTCACAGTTTAATCCCAATCAC
8773 TTTTATTTTTTTAACTTGCGGTTCAATCCCAATCGTCGTTAATCTTTGACTC
128 TTTTATTTTTTTAACTTGCGGTTCAATCCCAATCGTCGTTAATCTTTGACTC
8825 ATGGTTTAATC
1 ATGGTTTAATC
8836 TCGATCATTT
Statistics
Matches: 163, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
178 6 0.04
179 39 0.24
180 118 0.72
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.46
Consensus pattern (179 bp):
ATGGTTTAATCCCAATCACTTTTAATTTTTTGACTTACGATTCAGTCCAGTCATCGTTAATCTTT
GACTCATGGTTTAAACACGGTCAATTTTATAGTTTCTTGACTCACAGTTTAATCCCAATCACTTT
TATTTTTTTAACTTGCGGTTCAATCCCAATCGTCGTTAATCTTTGACTC
Found at i:8751 original size:109 final size:107
Alignment explanation
Indices: 8638--8996 Score: 367
Period size: 109 Copynumber: 3.4 Consensus size: 107
8628 TTGTTAATCT
*
8638 TTGACTCGTGGTTTAATCCCAATCACTTTTATTTTTCTGACTTACGATTCAGTCACAGTCATCGT
1 TTGACTCGTGGTTTAATCCCAATCACTTTTATTTTT-T-ACTTACGATTCAGTCCCAGTCATCGT
*
8703 TAATCTTTGACTCGTGGTTTAATCACGGTCATTTCTATAGTTTC
64 TAATCTTTGACTCGTGGTTTAATCTCGGTCATTTCTATAGTTTC
* ** * * * * * *
8747 TTGACTTACAT--TTTAATCCTGATCGCTTTTATTTTTTTAACTTGCGGTTCAATCCCAATCGTC
1 TTGAC-T-CGTGGTTTAATCCCAATCACTTTTA-TTTTTT-ACTTACGATTCAGTCCCAGTCATC
* *
8810 GTTAATCTTTGACTCATGGTTTAATCTCGATCATTTCTATAGTTTC
62 GTTAATCTTTGACTCGTGGTTTAATCTCGGTCATTTCTATAGTTTC
* * *
8856 -TGACTCGTGATTTAAT-CCAGTCAC--TT-TTTTTTACTTACGATT-AGTCCCAGTCATCATTA
1 TTGACTCGTGGTTTAATCCCAATCACTTTTATTTTTTACTTACGATTCAGTCCCAGTCATCGTTA
* * *
8915 ATCTTTGACTCGTGGTTTAATTTCGGTTATTTCTA-GGTTTC
66 ATCTTTGACTCGTGGTTTAATCTCGGTCATTTCTATAGTTTC
* * ** * * *
8956 CTGACTTGCAGTTTAATCCCAGTCGCTGTTATTTTTTACTT
1 TTGACTCGTGGTTTAATCCCAATCACTTTTATTTTTTACTT
8997 GTAGTTCAAT
Statistics
Matches: 205, Mismatches: 35, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
100 5 0.02
101 56 0.27
102 15 0.07
103 6 0.03
104 2 0.01
105 12 0.06
106 2 0.01
107 5 0.02
108 10 0.05
109 84 0.41
110 6 0.03
111 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (107 bp):
TTGACTCGTGGTTTAATCCCAATCACTTTTATTTTTTACTTACGATTCAGTCCCAGTCATCGTTA
ATCTTTGACTCGTGGTTTAATCTCGGTCATTTCTATAGTTTC
Found at i:9315 original size:17 final size:17
Alignment explanation
Indices: 9293--9326 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9283 TAATATTGGT
*
9293 TTAATTAAAACTAAAAA
1 TTAATTAAAAATAAAAA
9310 TTAATTAAAAATAAAAA
1 TTAATTAAAAATAAAAA
9327 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
TTAATTAAAAATAAAAA
Found at i:9350 original size:11 final size:11
Alignment explanation
Indices: 9322--9351 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
9312 AATTAAAAAT
9322 AAAAAAA-AAG
1 AAAAAAAGAAG
9332 AAAAAAAGAAG
1 AAAAAAAGAAG
9343 AAAAAAAGA
1 AAAAAAAGA
9352 CAAACAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAG
Found at i:10641 original size:3 final size:3
Alignment explanation
Indices: 10633--10725 Score: 161
Period size: 3 Copynumber: 31.3 Consensus size: 3
10623 GTATAAAAGG
10633 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
10681 ATA ATA ATA ATA ATA ATA ATA A-A TTA ACA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10726 ATTTTCATAA
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
2 1 0.01
3 84 0.99
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10934 original size:30 final size:29
Alignment explanation
Indices: 10844--11014 Score: 161
Period size: 29 Copynumber: 5.9 Consensus size: 29
10834 AGTTTTCTTT
* *
10844 AAACCCTAAACCTCCAAACCCTAAAAT-A
1 AAACCTTAAACCTTCAAACCCTAAAATCA
* * *
10872 AAACCTTAAAACC-TCTAAATCCGAAAAACA
1 AAACCTT-AAACCTTC-AAACCCTAAAATCA
10902 AAACCTTAAACCTTTCAAACCCTAAAATCA
1 AAACCTTAAACC-TTCAAACCCTAAAATCA
* * *
10932 AAATCTCAAA-CTTCCAAACCCTAAAATTA
1 AAACCTTAAACCTT-CAAACCCTAAAATCA
* *
10961 AAACCCTAAACC-TCAAACCCTAAAATCG
1 AAACCTTAAACCTTCAAACCCTAAAATCA
* *
10989 AAACTTTAAATCCTTCAAATCCTAAA
1 AAACCTTAAA-CCTTCAAACCCTAAA
11015 CACTCTAAAC
Statistics
Matches: 115, Mismatches: 19, Indels: 16
0.77 0.13 0.11
Matches are distributed among these distances:
28 30 0.26
29 44 0.38
30 39 0.34
31 2 0.02
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.20
Consensus pattern (29 bp):
AAACCTTAAACCTTCAAACCCTAAAATCA
Found at i:10964 original size:59 final size:59
Alignment explanation
Indices: 10844--11007 Score: 172
Period size: 59 Copynumber: 2.8 Consensus size: 59
10834 AGTTTTCTTT
* * *
10844 AAACCCTAAACCTCCAAACCCTAAAAT-AAAACCTTAAAACCTCTAAATCCGAAAAACA
1 AAACCCTAAACCTTCAAACCCTAAAATCAAAACCTTAAAACCTCCAAACCCGAAAAACA
* * * * * **
10902 AAACCTTAAACCTTTCAAACCCTAAAATCAAAATC-TCAAACTTCCAAACCCTAAAATTA
1 AAACCCTAAACC-TTCAAACCCTAAAATCAAAACCTTAAAACCTCCAAACCCGAAAAACA
* * * *
10961 AAACCCTAAACC-TCAAACCCTAAAATCGAAACTTTAAATCCTTCAAA
1 AAACCCTAAACCTTCAAACCCTAAAATCAAAACCTTAAAACCTCCAAA
11008 TCCTAAACAC
Statistics
Matches: 85, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
57 18 0.21
58 20 0.24
59 42 0.49
60 5 0.06
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.20
Consensus pattern (59 bp):
AAACCCTAAACCTTCAAACCCTAAAATCAAAACCTTAAAACCTCCAAACCCGAAAAACA
Found at i:10992 original size:14 final size:13
Alignment explanation
Indices: 10916--10992 Score: 55
Period size: 14 Copynumber: 5.5 Consensus size: 13
10906 CTTAAACCTT
10916 TCAAACCCTAAAA
1 TCAAACCCTAAAA
** *
10929 TCAAAATCTCAAACT
1 TCAAACCCT-AAA-A
10944 TCCAAACCCTAAAA
1 T-CAAACCCTAAAA
* *
10958 TTAAAACCCTAAACC
1 -TCAAACCCTAAA-A
10973 TCAAACCCTAAAA
1 TCAAACCCTAAAA
10986 TCGAAAC
1 TC-AAAC
10993 TTTAAATCCT
Statistics
Matches: 48, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
13 9 0.19
14 28 0.58
15 5 0.10
16 6 0.12
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.18
Consensus pattern (13 bp):
TCAAACCCTAAAA
Found at i:11028 original size:16 final size:16
Alignment explanation
Indices: 11009--11054 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
10999 TCCTTCAAAT
11009 CCTAAACACTCTAAAC
1 CCTAAACACTCTAAAC
*
11025 CCT-AA-A-T-AAAAC
1 CCTAAACACTCTAAAC
11037 CCTAAACACTCTAAAC
1 CCTAAACACTCTAAAC
11053 CC
1 CC
11055 CAAATTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
12 7 0.29
13 3 0.12
14 2 0.08
15 3 0.12
16 9 0.38
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (16 bp):
CCTAAACACTCTAAAC
Found at i:11043 original size:28 final size:28
Alignment explanation
Indices: 11009--11071 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
10999 TCCTTCAAAT
*
11009 CCTAAACACTCTAAACCCTAAATAAAAC
1 CCTAAACACTCTAAACCCCAAATAAAAC
*
11037 CCTAAACACTCTAAACCCCAAATTAAAC
1 CCTAAACACTCTAAACCCCAAATAAAAC
*
11065 CATAAAC
1 CCTAAAC
11072 CCTTTGAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.17
Consensus pattern (28 bp):
CCTAAACACTCTAAACCCCAAATAAAAC
Found at i:11124 original size:30 final size:29
Alignment explanation
Indices: 11090--11190 Score: 73
Period size: 30 Copynumber: 3.4 Consensus size: 29
11080 CACTAAAAGA
11090 GAAACCCTAAA-CCTTCAAAACCTTTAAAAC
1 GAAACCCTAAACCCTTC-AAACC-TTAAAAC
**
11120 GAAACTTTAAACCCTTCAAACCTTAAAATC
1 GAAACCCTAAACCCTTCAAACCTTAAAA-C
* * * *
11150 -AGATCCCTAAAACATTCAAATCC-TAAAATT
1 GA-AACCCTAAACCCTTCAAA-CCTTAAAA-C
11180 GAAACCCTAAA
1 GAAACCCTAAA
11191 TTCAAAACTA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
29 7 0.12
30 42 0.74
31 8 0.14
ACGTcount: A:0.47, C:0.27, G:0.04, T:0.23
Consensus pattern (29 bp):
GAAACCCTAAACCCTTCAAACCTTAAAAC
Found at i:13254 original size:18 final size:19
Alignment explanation
Indices: 13218--13255 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
13208 TCTCATTATC
* *
13218 AAGTTTATCAACATGAATT
1 AAGTTTATCAAAATCAATT
13237 AAGTTT-TCAAAATCAATT
1 AAGTTTATCAAAATCAATT
13255 A
1 A
13256 TGAGATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (19 bp):
AAGTTTATCAAAATCAATT
Found at i:22534 original size:20 final size:20
Alignment explanation
Indices: 22496--22532 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22486 CGAAAAGGAA
*
22496 AAGAAAAAGAAGAACAAATT
1 AAGAAAAAGAAGAAAAAATT
22516 AAGAAAAAG-AGAAAAAA
1 AAGAAAAAGAAGAAAAAA
22533 ATATAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.76, C:0.03, G:0.16, T:0.05
Consensus pattern (20 bp):
AAGAAAAAGAAGAAAAAATT
Found at i:22951 original size:81 final size:82
Alignment explanation
Indices: 22857--23022 Score: 300
Period size: 82 Copynumber: 2.0 Consensus size: 82
22847 TACTTTATAA
22857 TTTACTAATAATATATAATATTTATATACTTATAATACATC-AA-ATATATATATATATCACAAG
1 TTTACTAATAATATATAATATTTATATAC-TATAATACATCAAATATATATATATATATCACAAG
*
22920 CTCTATTTATTATTGCAC
65 CCCTATTTATTATTGCAC
22938 TTTACTAATAATATATAATATTTATATACTATAATACATCAAATATATATATATATATCACAAGC
1 TTTACTAATAATATATAATATTTATATACTATAATACATCAAATATATATATATATATCACAAGC
23003 CCTATTTATTATTGCAC
66 CCTATTTATTATTGCAC
23020 TTT
1 TTT
23023 GACAGAACAA
Statistics
Matches: 82, Mismatches: 1, Indels: 3
0.95 0.01 0.03
Matches are distributed among these distances:
80 11 0.13
81 31 0.38
82 40 0.49
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.43
Consensus pattern (82 bp):
TTTACTAATAATATATAATATTTATATACTATAATACATCAAATATATATATATATATCACAAGC
CCTATTTATTATTGCAC
Found at i:23046 original size:82 final size:80
Alignment explanation
Indices: 22879--23046 Score: 207
Period size: 82 Copynumber: 2.1 Consensus size: 80
22869 ATATAATATT
*
22879 TATATACTTATAATACATCAAATATATATATATATCACAAGCTCTATTTATTATTGCACTTTACT
1 TATATACTTATAATACATCAAATATATATATATATCACAAGCCCTATTTATTATTGCACTTTAC-
* * * **
22944 AATAATATATAATATT
65 AAGAACATATAACACA
22960 TATATAC-TATAATACATCAAATATATATATATATATCACAAGCCCTATTTATTATTGCACTTTG
1 TATATACTTATAATACATC-AA-ATATATATATATATCACAAGCCCTATTTATTATTGCACTTT-
23024 AC-AGAACA-ATGAAGCACA
63 ACAAGAACATAT-AA-CACA
23042 TATAT
1 TATAT
23047 GGCAACAACA
Statistics
Matches: 76, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
80 13 0.17
81 15 0.20
82 46 0.61
83 2 0.03
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.39
Consensus pattern (80 bp):
TATATACTTATAATACATCAAATATATATATATATCACAAGCCCTATTTATTATTGCACTTTACA
AGAACATATAACACA
Found at i:25280 original size:16 final size:17
Alignment explanation
Indices: 25256--25288 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
25246 ATATCAGTTT
25256 TAAAAAAATTTT-GAAA
1 TAAAAAAATTTTAGAAA
*
25272 TAAAGAAATTTTAGAAA
1 TAAAAAAATTTTAGAAA
25289 ATTAAGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (17 bp):
TAAAAAAATTTTAGAAA
Found at i:28026 original size:67 final size:64
Alignment explanation
Indices: 27920--28050 Score: 217
Period size: 67 Copynumber: 2.0 Consensus size: 64
27910 AATGAGAAGA
* *
27920 AAGACAATAAAATTTCAACTGTGTTTGCAAGAAATTAATGATTAGTTCTTCTCCAATATTAACTT
1 AAGACAATAAAATTTCAACTCTGTTTGCAAGAAATTAATGATTAGTCCTTCT-CAATATTAACTT
27985 AAGACAATAAAAAATTTCAACTCTGTTTGCAAGAAATTAATGATTAGTCCTTCTCAATATTAACT
1 AAGACAAT--AAAATTTCAACTCTGTTTGCAAGAAATTAATGATTAGTCCTTCTCAATATTAACT
28050 T
64 T
28051 TGATAAGGAC
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
65 8 0.13
66 12 0.19
67 42 0.68
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.36
Consensus pattern (64 bp):
AAGACAATAAAATTTCAACTCTGTTTGCAAGAAATTAATGATTAGTCCTTCTCAATATTAACTT
Done.