Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008078.1 Hibiscus syriacus cultivar Beakdansim tig00110580_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: 1434613
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:1725 original size:92 final size:92
Alignment explanation
Indices: 1367--1826 Score: 849
Period size: 92 Copynumber: 5.0 Consensus size: 92
1357 TAGATTGCTT
*
1367 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTAACACTGTGAAATAGTAT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTAACACTGTGAAATAGTAT
1432 TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTGTCTTTGTTTTGTCTTTTGGTTGAA
1459 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTAACACTGTGAAATA-TAT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTAACACTGTGAAATAGTAT
1523 TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTGTCTTTGTTTTGTCTTTTGGTTGAA
1550 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAC--TGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATAGTA
1613 TTTGTCTTTGTTTTGTC-TTTGGTTGAA
65 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
1640 AGTAAATTTGTTCAGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATAGTA
1705 TTTGTCTTTGTTTTGTC-TTTGGTTGAA
65 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1732 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTAACACTGTGAAATAGTAT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTAACACTGTGAAATAGTAT
1797 TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTGTCTTTGTTTTGTCTTTTGGTTGAA
1824 AGT
1 AGT
1827 TTCAATTTGC
Statistics
Matches: 360, Mismatches: 3, Indels: 10
0.97 0.01 0.03
Matches are distributed among these distances:
89 7 0.02
90 61 0.17
91 121 0.34
92 171 0.47
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (92 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTAACACTGTGAAATAGTAT
TTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1898 original size:19 final size:19
Alignment explanation
Indices: 1858--1987 Score: 118
Period size: 19 Copynumber: 7.3 Consensus size: 19
1848 TAGTTTACTT
* *
1858 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
1878 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
1897 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
1916 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
1930 TCGCAACGCGAAACCAAAAA
1 TCGCAACGCGAAACC-AAAA
*
1950 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
1964 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
1983 TCGCA
1 TCGCA
1988 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
14 18 0.20
15 2 0.02
16 5 0.06
17 2 0.02
18 4 0.04
19 37 0.41
20 22 0.24
ACGTcount: A:0.46, C:0.28, G:0.17, T:0.08
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:1955 original size:34 final size:32
Alignment explanation
Indices: 1894--1987 Score: 143
Period size: 34 Copynumber: 2.8 Consensus size: 32
1884 CGCGAAACCA
**
1894 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
1926 AGAATCGCAACGCGAAACCAAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACC-AAAATCGCAACGAC
1960 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
1988 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
32 1 0.02
33 25 0.44
34 31 0.54
ACGTcount: A:0.47, C:0.28, G:0.18, T:0.07
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:2005 original size:19 final size:19
Alignment explanation
Indices: 1983--2117 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
1973 GAAACCAAAA
*
1983 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2002 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
2018 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
2035 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
2051 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
2068 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
2087 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
2107 TCGTGTTGCGA
1 TCGCGTTGCGA
2118 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2024 original size:14 final size:14
Alignment explanation
Indices: 2005--2061 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1995 TTTCATTTCG
2005 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
2019 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
2036 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
2052 CGTTGCGATT
1 CGTTGCGATT
2062 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:2030 original size:33 final size:33
Alignment explanation
Indices: 1988--2080 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
1978 CAAAATCGCA
*
1988 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
2021 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
2054 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
2081 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:2628 original size:20 final size:20
Alignment explanation
Indices: 2570--2629 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
2560 CTCGAGAGTC
*
2570 CCCTCCCACCGTTCAAGAGG
1 CCCTCCCACCATTCAAGAGG
** * *
2590 CCACTGTCATCATTGAAGAGG
1 CC-CTCCCACCATTCAAGAGG
*
2611 TCCTCCCACCATTCAAGAG
1 CCCTCCCACCATTCAAGAG
2630 CCCGATTCAC
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.25, C:0.37, G:0.18, T:0.20
Consensus pattern (20 bp):
CCCTCCCACCATTCAAGAGG
Found at i:4177 original size:19 final size:19
Alignment explanation
Indices: 4161--4262 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
4151 CAAAATGACT
4161 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4180 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4199 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
4213 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4232 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
4252 ATCGCAATGCG
1 ATCGCAATGCG
4263 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:4311 original size:33 final size:33
Alignment explanation
Indices: 4269--4592 Score: 172
Period size: 33 Copynumber: 9.5 Consensus size: 33
4259 TGCGTTTATA
4269 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
*
4302 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
* *
4338 -TTTCG--TTGCGATTTTCAT-TTTGC-ATTGCGATTC
1 ATTTCGCATTGCGATTATC-TCGTTGCGATT----TTC
* *
4371 -TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTA
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
* *
4406 ATTTCGCATTGCGATTCTGTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
*
4439 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATT-T-TC
* * * * *
4479 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTATCTCGTTGCGATTTTC
*
4510 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
* *
4543 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTATC-TCGTTGCGATTTTC
*
4577 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
4593 GTATTTTCCG
Statistics
Matches: 229, Mismatches: 27, Indels: 70
0.70 0.08 0.21
Matches are distributed among these distances:
27 1 0.00
28 4 0.02
30 1 0.00
31 12 0.05
32 5 0.02
33 95 0.41
34 29 0.13
35 21 0.09
36 20 0.09
37 2 0.01
38 24 0.10
39 6 0.03
40 9 0.04
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (33 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
Found at i:4315 original size:19 final size:19
Alignment explanation
Indices: 4291--4592 Score: 322
Period size: 19 Copynumber: 17.4 Consensus size: 19
4281 GATTATCTCG
4291 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4310 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4329 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
*
4343 TTGCGATTTTCATTTTGCA
1 TTGCGATTTTCATTTCGCA
4362 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
4376 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4395 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4414 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
4428 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4447 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4466 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
4480 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4499 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4518 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
4532 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
4552 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
4566 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
4585 TTGCGATT
1 TTGCGATT
4593 GTATTTTCCG
Statistics
Matches: 240, Mismatches: 12, Indels: 62
0.76 0.04 0.20
Matches are distributed among these distances:
14 41 0.17
16 38 0.16
17 34 0.14
18 3 0.01
19 112 0.47
20 12 0.05
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:4331 original size:52 final size:52
Alignment explanation
Indices: 4269--4564 Score: 246
Period size: 52 Copynumber: 5.6 Consensus size: 52
4259 TGCGTTTATA
4269 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATT-T-TC
1 ATTTCG-ATTGCGATT-TCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
* * *
4321 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTTGCATTGCGATTCTTTC
1 ATTTCG-ATTGCGATT-TCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
* * * * * * *
4375 GTTGCGATTTTC-ATTTCGCATTGCGATTTTAATTTCGCATTGCGATTCTGTC
1 ATTTCGA-TTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
* * * * *
4427 GTTGCGATTTTC-ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGA-TTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
* * * * *
4479 GTTGCGATTTTC-ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGA-TTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
* * *
4531 GTTGCGATTTTC-ATTTC-CGCATTGCGATTTTCAT
1 ATTTCGA-TTGCGATTTCTCG--TTGCGATTTTCAT
4565 GTTGGGATTT
Statistics
Matches: 224, Mismatches: 15, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
51 1 0.00
52 196 0.88
53 18 0.08
54 9 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (52 bp):
ATTTCGATTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
Found at i:4377 original size:85 final size:85
Alignment explanation
Indices: 4269--4506 Score: 342
Period size: 85 Copynumber: 2.8 Consensus size: 85
4259 TGCGTTTATA
* *
4269 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
*
4334 ATTCTTTCGTTGCGATTTTC
66 ATTCTGTCGTTGCGATTTTC
* *
4354 ATTTTGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
4419 ATTCTGTCGTTGCGATTTTC
66 ATTCTGTCGTTGCGATTTTC
*
4439 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
1 ATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
4499 TTGCGATT
61 TTGCGATT
4507 TTCATTTCGC
Statistics
Matches: 140, Mismatches: 8, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
85 119 0.85
87 7 0.05
88 8 0.06
90 6 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (85 bp):
ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
ATTCTGTCGTTGCGATTTTC
Found at i:6877 original size:12 final size:12
Alignment explanation
Indices: 6860--6884 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6850 TCTTCGGGGA
6860 CTTTTTCTTCTT
1 CTTTTTCTTCTT
6872 CTTTTTCTTCTT
1 CTTTTTCTTCTT
6884 C
1 C
6885 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:7097 original size:24 final size:23
Alignment explanation
Indices: 7058--7103 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
7048 CTGAAACATC
7058 ATCAAATCCGTGTATTGACCAAT
1 ATCAAATCCGTGTATTGACCAAT
7081 ATCAAAGTCCG-GATATTGACCAA
1 ATCAAA-TCCGTG-TATTGACCAA
7104 GACCAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (23 bp):
ATCAAATCCGTGTATTGACCAAT
Found at i:7811 original size:20 final size:20
Alignment explanation
Indices: 7783--8151 Score: 449
Period size: 20 Copynumber: 18.4 Consensus size: 20
7773 AAATTTCAGT
* * * *
7783 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
7803 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
7823 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
7843 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
7863 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
7883 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
7903 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
7923 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
7943 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
7963 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
* *
7983 GTTGTGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
8003 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
8023 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
8043 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
8063 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
8083 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
8103 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
8123 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
8143 GTTGCGATT
1 GTTGCGATT
8152 ATGGAAAATC
Statistics
Matches: 307, Mismatches: 34, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
19 5 0.02
20 297 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:8496 original size:25 final size:24
Alignment explanation
Indices: 8445--8499 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
8435 GATACAATTT
*
8445 TAAAAT-AAATAAAATTTGAATAG
1 TAAAATAAAATAAAATTTGAATAC
8468 TAAAATAAAATAATAATTT-AAGTAC
1 TAAAATAAAATAA-AATTTGAA-TAC
8493 TAAAATA
1 TAAAATA
8500 TAATTTATCC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 6 0.21
24 8 0.29
25 14 0.50
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (24 bp):
TAAAATAAAATAAAATTTGAATAC
Found at i:10937 original size:32 final size:32
Alignment explanation
Indices: 10901--10989 Score: 133
Period size: 32 Copynumber: 2.8 Consensus size: 32
10891 GACCAAAATC
*
10901 AAAACCAACCAATCCAATATTAACCTAACCCG
1 AAAACCAACTAATCCAATATTAACCTAACCCG
* * *
10933 AAAACCAACTGATTCGATATTAACCTAACCCG
1 AAAACCAACTAATCCAATATTAACCTAACCCG
*
10965 AAAACCAACTAATCCAATTTTAACC
1 AAAACCAACTAATCCAATATTAACC
10990 CGAACTAATT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.45, C:0.30, G:0.04, T:0.20
Consensus pattern (32 bp):
AAAACCAACTAATCCAATATTAACCTAACCCG
Found at i:14682 original size:15 final size:16
Alignment explanation
Indices: 14656--14686 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
14646 AATAGCTCCA
14656 TATTATTAGAAGTTCC
1 TATTATTAGAAGTTCC
14672 TATTA-TAGAAGTTCC
1 TATTATTAGAAGTTCC
14687 CTCGATCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (16 bp):
TATTATTAGAAGTTCC
Found at i:25884 original size:24 final size:24
Alignment explanation
Indices: 25857--25902 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
25847 ACATATATTA
*
25857 CACCAAAGTGCCGCATAGAAATTG
1 CACCAAAGTGCCACATAGAAATTG
25881 CACCAAAGTGCCACATAGAAAT
1 CACCAAAGTGCCACATAGAAAT
25903 GTTCTAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.26, G:0.17, T:0.15
Consensus pattern (24 bp):
CACCAAAGTGCCACATAGAAATTG
Found at i:25951 original size:23 final size:23
Alignment explanation
Indices: 25909--25982 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
25899 AAATGTTCTA
* *
25909 AAGGACCACATAG-ATATGTCTCG
1 AAGGACCACGTAGAAT-TGTCCCG
* *
25932 AAGGACCGCGTAGAATTGTCCCT
1 AAGGACCACGTAGAATTGTCCCG
* * *
25955 AAGGATCACGTAGAATTATCCCA
1 AAGGACCACGTAGAATTGTCCCG
25978 AAGGA
1 AAGGA
25983 TCGCATAGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
23 40 0.95
24 2 0.05
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (23 bp):
AAGGACCACGTAGAATTGTCCCG
Found at i:25991 original size:23 final size:23
Alignment explanation
Indices: 25932--25992 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
25922 ATATGTCTCG
* * *
25932 AAGGACCGCGTAGAATTGTCCCT
1 AAGGATCGCGTAGAATTATCCCA
*
25955 AAGGATCACGTAGAATTATCCCA
1 AAGGATCGCGTAGAATTATCCCA
*
25978 AAGGATCGCATAGAA
1 AAGGATCGCGTAGAA
25993 CCCTCGACTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (23 bp):
AAGGATCGCGTAGAATTATCCCA
Found at i:26456 original size:65 final size:64
Alignment explanation
Indices: 26331--26540 Score: 223
Period size: 65 Copynumber: 3.2 Consensus size: 64
26321 TTTATCAAAG
* * *
26331 TGATGCACCGATGCACCA-ATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATTGAATG
1 TGATGCATCGATGCA-CATA-CCATGCATCGATGCACTCAGGATATT---TTGAAACATCGAATG
26392 CATT
61 CATT
* * *
26396 TCATGTATCGATGCACATACCATGCATCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACATACCATGCATCGATGCACTCAGGATATTT-TG-AAACATCGAATGCAT
26460 T
64 T
* * * * *
26461 TGATGCATCGATGCACCTGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCACATACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
26525 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
26541 TCTTAGTGTA
Statistics
Matches: 124, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 49 0.40
65 69 0.56
66 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (64 bp):
TGATGCATCGATGCACATACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
Found at i:27425 original size:62 final size:64
Alignment explanation
Indices: 27359--27541 Score: 205
Period size: 64 Copynumber: 2.9 Consensus size: 64
27349 TTGTTTGAAT
* * * **
27359 GTGCACCGATGCATTGGTAGTGCATCGATGCCT-CTTTTAA-A-TAAAGACATCGAATGCAATTC
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAGTAAA-ACATCGAATGCAA-TC
27421 -
64 G
* *
27421 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCG
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAGTAAAACATCGAATGCAATCG
* * **
27485 GTGCATCGATGCATAAGG-AGTGCATCGATGCATCCCAGTAATAATACTACATCGAAT
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAGTAAAACATCGAAT
27542 ACCTTTTATG
Statistics
Matches: 103, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
62 29 0.28
63 7 0.07
64 62 0.60
65 5 0.05
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (64 bp):
GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAGTAAAACATCGAATGCAATCG
Found at i:27493 original size:64 final size:64
Alignment explanation
Indices: 27405--27527 Score: 212
Period size: 64 Copynumber: 1.9 Consensus size: 64
27395 TTAAATAAAG
* *
27405 ACATCGAATGCAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAA
1 ACATCGAATGCAATTCGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGTAATAGTGAA
27469 ACATCGAATGCAA-TCGGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGTAATA
1 ACATCGAATGCAATTC-GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGTAATA
27528 ATACTACATC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
63 2 0.04
64 54 0.96
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (64 bp):
ACATCGAATGCAATTCGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGTAATAGTGAA
Found at i:27537 original size:64 final size:64
Alignment explanation
Indices: 27405--27578 Score: 208
Period size: 64 Copynumber: 2.7 Consensus size: 64
27395 TTAAATAAAG
* * *
27405 ACATCGAATGCAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAA
1 ACATCGAATGCAATTCGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGTAATAATGAA
27469 ACATCGAATGCAA-TCGGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGTAATAAT-AC
1 ACATCGAATGCAATTC-GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGTAATAATGA-
*
27532 T
64 A
* ** ** * * *
27533 ACATCGAATACCTTTTATGCACCGATGCATCAGTAGTGCATCGATG
1 ACATCGAATGCAATTCGTGCATCGATGCATAAGGAGTGCATCGATG
27579 AATACCTTCA
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
63 3 0.03
64 91 0.96
65 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (64 bp):
ACATCGAATGCAATTCGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGTAATAATGAA
Found at i:27907 original size:12 final size:12
Alignment explanation
Indices: 27889--27922 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
27879 AATATATGTT
27889 CATGTGATATGA
1 CATGTGATATGA
*
27901 TATGTGATATGA
1 CATGTGATATGA
27913 CATGTGATAT
1 CATGTGATAT
27923 TAGAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:27975 original size:29 final size:29
Alignment explanation
Indices: 27940--28013 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
27930 TAATATGAAG
*
27940 TGACATGAGCTGCATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
27969 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
27998 TGACATGAG-TACATGA
1 TGACATGAGCTACATGA
28014 ACATATGAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 7 0.16
29 37 0.84
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Found at i:28026 original size:28 final size:29
Alignment explanation
Indices: 27940--28026 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
27930 TAATATGAAG
* * *
27940 TGACATGAGCTGCATGATCACAAGAGAAA
1 TGACATGAGCTACATGAACACAAGAAAAA
* *
27969 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGAACACAAGAAAAA
* *
27998 TGACATGAG-TACATGAACATATGAAAAA
1 TGACATGAGCTACATGAACACAAGAAAAA
28026 T
1 T
28027 AAGAATAATG
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 16 0.30
29 37 0.70
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.20
Consensus pattern (29 bp):
TGACATGAGCTACATGAACACAAGAAAAA
Found at i:36100 original size:2 final size:2
Alignment explanation
Indices: 36093--36145 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
36083 TTGAGAAACA
36093 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36135 AT AT AT AT AT A
1 AT AT AT AT AT A
36146 GTTTCATAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:50695 original size:21 final size:21
Alignment explanation
Indices: 50665--50718 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
50655 AATACACCTT
*
50665 GAATCAGTTCCCCCTCATAGG
1 GAATCGGTTCCCCCTCATAGG
50686 GAATCGGTTCCCCCTCATAGG
1 GAATCGGTTCCCCCTCATAGG
50707 GAATCGGTTCCC
1 GAATCGGTTCCC
50719 TAAGTGTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.24
Consensus pattern (21 bp):
GAATCGGTTCCCCCTCATAGG
Found at i:52410 original size:64 final size:64
Alignment explanation
Indices: 52342--52550 Score: 219
Period size: 64 Copynumber: 3.3 Consensus size: 64
52332 CGATGTATTG
**
52342 GTAGTGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGCAATTC-GTGCATCGATGCAT
1 GTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAA-TCAGTGCATCGATGCAT
52404 AA
63 AA
* *
52406 GTAGTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCAGTGCATCGATGCATAA
1 GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCAGTGCATCGATGCATAA
* ** ** * ** * * *
52470 GGAGTGCATCGATGCATCCCAGCAATAATACTACATCGAATACCTTTTA-TGCACCGATGCATCA
1 GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAAT-GCAATCAGTGCATCGATGCATAA
52534 GTAGTGCATCGATGCAT
1 GTAGTGCATCGATGCAT
52551 ACCTTCATTA
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
63 2 0.02
64 113 0.92
65 8 0.07
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (64 bp):
GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCAGTGCATCGATGCATAA
Found at i:52876 original size:12 final size:12
Alignment explanation
Indices: 52859--52893 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
52849 ATATATGTTC
52859 ATGTGATATGAT
1 ATGTGATATGAT
52871 ATGTGATATGAT
1 ATGTGATATGAT
52883 ATGTGATATGA
1 ATGTGATATGA
52894 GAACATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:52945 original size:29 final size:29
Alignment explanation
Indices: 52912--52982 Score: 126
Period size: 29 Copynumber: 2.5 Consensus size: 29
52902 TATGAAGTGT
52912 CATGAGCTACATGAGCACAAGAGAAATGA
1 CATGAGCTACATGAGCACAAGAGAAATGA
*
52941 CATGAGCTACATGATCACAAGAGAAATGA
1 CATGAGCTACATGAGCACAAGAGAAATGA
52970 CATGAG-TACATGA
1 CATGAGCTACATGA
52983 ACATATGAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 7 0.17
29 34 0.83
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.17
Consensus pattern (29 bp):
CATGAGCTACATGAGCACAAGAGAAATGA
Found at i:54628 original size:15 final size:16
Alignment explanation
Indices: 54610--54683 Score: 50
Period size: 15 Copynumber: 4.8 Consensus size: 16
54600 TTCACGTTGG
54610 ACATTTTCACTTA-AC
1 ACATTTTCACTTAGAC
* *
54625 ACATGTTCACATAGA-
1 ACATTTTCACTTAGAC
* *
54640 ACA-GTTCACGTAGATC
1 ACATTTTCACTTAGA-C
54656 ACATTTTCACTATA-AC
1 ACATTTTCACT-TAGAC
*
54672 A-TTTTTCACTTA
1 ACATTTTCACTTA
54684 TCATTTTTGT
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
14 12 0.25
15 22 0.46
16 6 0.12
17 6 0.12
18 2 0.04
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (16 bp):
ACATTTTCACTTAGAC
Found at i:54691 original size:15 final size:15
Alignment explanation
Indices: 54659--54691 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
54649 GTAGATCACA
54659 TTTTCACTATAACAT
1 TTTTCACTATAACAT
*
54674 TTTTCACT-TATCAT
1 TTTTCACTATAACAT
54688 TTTT
1 TTTT
54692 GTTCCGTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTCACTATAACAT
Found at i:56272 original size:31 final size:31
Alignment explanation
Indices: 56224--56345 Score: 86
Period size: 31 Copynumber: 3.7 Consensus size: 31
56214 TAGTTTACCC
*
56224 TAAATAATA-ATCGAGTGAACAAAACATAAAT
1 TAAATAATATAT-AAGTGAACAAAACATAAAT
* * * ***
56255 TAGATAATATATAAGTGACCAAATAGGTAGTTTACCC
1 TAAATAATATATAAGTGAACAAA-A--CA---TAAAT
56292 TAAATAATA-ATCAAGTGAACAAAACATAAAT
1 TAAATAATATAT-AAGTGAACAAAACATAAAT
*
56323 TAAATAATATATAAGTGACCAAA
1 TAAATAATATATAAGTGAACAAA
56346 TAGGTAGTTT
Statistics
Matches: 68, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
31 38 0.56
32 5 0.07
34 2 0.03
36 3 0.04
37 20 0.29
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.25
Consensus pattern (31 bp):
TAAATAATATATAAGTGAACAAAACATAAAT
Found at i:56309 original size:68 final size:68
Alignment explanation
Indices: 56199--56363 Score: 312
Period size: 68 Copynumber: 2.4 Consensus size: 68
56189 GTTACAATAC
* *
56199 AAGTGACCAAATAGGTAGTTTACCCTAAATAATAATCGAGTGAACAAAACATAAATTAGATAATA
1 AAGTGACCAAATAGGTAGTTTACCCTAAATAATAATCAAGTGAACAAAACATAAATTAAATAATA
56264 TAT
66 TAT
56267 AAGTGACCAAATAGGTAGTTTACCCTAAATAATAATCAAGTGAACAAAACATAAATTAAATAATA
1 AAGTGACCAAATAGGTAGTTTACCCTAAATAATAATCAAGTGAACAAAACATAAATTAAATAATA
56332 TAT
66 TAT
56335 AAGTGACCAAATAGGTAGTTTACCCTAAA
1 AAGTGACCAAATAGGTAGTTTACCCTAAA
56364 AAAATCCCTA
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 95 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (68 bp):
AAGTGACCAAATAGGTAGTTTACCCTAAATAATAATCAAGTGAACAAAACATAAATTAAATAATA
TAT
Found at i:58861 original size:29 final size:29
Alignment explanation
Indices: 58819--58880 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
58809 CAACACAAGA
* * *
58819 ATATGATCTCATGCATAAATAAGACGGGG
1 ATATGATCTCATGCAAAAACAAGACAGGG
*
58848 ATATGATC-CTATGCAAAAACAGGACAGGG
1 ATATGATCTC-ATGCAAAAACAAGACAGGG
58877 ATAT
1 ATAT
58881 TGTCCTCCGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (29 bp):
ATATGATCTCATGCAAAAACAAGACAGGG
Found at i:61298 original size:23 final size:23
Alignment explanation
Indices: 61263--61314 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
61253 GCTGGGCATC
* *
61263 CGAGGCCATCCGAACGAGCTATG
1 CGAGGGCAACCGAACGAGCTATG
*
61286 CGAGGGCAACCGAGCGAGCTATG
1 CGAGGGCAACCGAACGAGCTATG
61309 CGAGGG
1 CGAGGG
61315 AATCCGAGCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.38, T:0.10
Consensus pattern (23 bp):
CGAGGGCAACCGAACGAGCTATG
Found at i:61321 original size:23 final size:24
Alignment explanation
Indices: 61270--61326 Score: 91
Period size: 23 Copynumber: 2.5 Consensus size: 24
61260 ATCCGAGGCC
*
61270 ATCCGAACGAGCTATGCGAGGGCA
1 ATCCGAGCGAGCTATGCGAGGGCA
61294 A-CCGAGCGAGCTATGCGAGGG-A
1 ATCCGAGCGAGCTATGCGAGGGCA
61316 ATCCGAGCGAG
1 ATCCGAGCGAG
61327 GGTAGGTCGC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
22 2 0.06
23 28 0.90
24 1 0.03
ACGTcount: A:0.28, C:0.25, G:0.37, T:0.11
Consensus pattern (24 bp):
ATCCGAGCGAGCTATGCGAGGGCA
Found at i:61486 original size:29 final size:29
Alignment explanation
Indices: 61444--61500 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
61434 GAGCAAGGGT
61444 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
*
61473 AGGTCGCCTGGAGTGCATGGCGACCTAC
1 AGGTCGCCCGGAGTGCATGGCGACCTAC
61501 GGCCAACACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.19, C:0.30, G:0.35, T:0.16
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTACA
Found at i:62658 original size:285 final size:278
Alignment explanation
Indices: 62330--62900 Score: 973
Period size: 285 Copynumber: 2.0 Consensus size: 278
62320 GAAATTTTGG
*
62330 TTATAAAACTTTTATAAAATTATTCATATTTTAAAATACTTACCCTCAAAGTTTTTCTATACTAG
1 TTATAAAACTTTTATAAAATTATTCATATTTTAAAATACTTACCCTCAAAGTTTTCCTATACTAG
*
62395 ATTATACGTATTGTGTAATTTCATACAAAAATCAAAATAATTTTATTAAAAATGAATAAACATTA
66 ATTATACGTATTGTGTAATTTCATACAAAAATCAAAATAATTTTATGAAAAATGAA-AAACATTA
* *
62460 TTAACTGTTGTTAAAAATAATAATTAATGAATAATAATTTATTTGATCTCTCAATTATAATTAAA
130 TTAACTGTTGTTAAAAATAATAATTAATGAATAATAATTCATTTGATCCCTCAATTATAATTAAA
**
62525 AGTTTATTTTAATATTTTAATATTTTTAAACAATTAATTTTAAAAGTCAATAA-TTTTTTCAAAA
195 A----AAATT-AT-TTTT-ATATTTTTAAACAATTAATTTTAAAAGTCAATAATTTTTTTCAAAA
* *
62589 ATATATGAAATTTATATTTTTTTAAA
253 ATATATGAAATTCAAATTTTTTTAAA
62615 TTATAAAACTTTTATAAAATTATTCATATTTTAAAATACTTACCCTCAAAGTTTTCCTATACTAG
1 TTATAAAACTTTTATAAAATTATTCATATTTTAAAATACTTACCCTCAAAGTTTTCCTATACTAG
*
62680 ATTATACGTATTGTGTAATTTCATGCAAAAATCAAAATAATTTTATGAAAAATGAAAAACATTAT
66 ATTATACGTATTGTGTAATTTCATACAAAAATCAAAATAATTTTATGAAAAATGAAAAACATTAT
*
62745 TAACTGTTGTTAAAAATAATAATTAATGAATAATAATTCATTTGATCCCTCAATTGTAATTAAAA
131 TAACTGTTGTTAAAAATAATAATTAATGAATAATAATTCATTTGATCCCTCAATTATAATTAAAA
62810 AAATTATTTTTATATTTTTAAACAATTAATTTTAAAAGTCAATAATTTTTTTCAAAAATATATGA
196 AAATTATTTTTATATTTTTAAACAATTAATTTTAAAAGTCAATAATTTTTTTCAAAAATATATGA
62875 AATTCAAATTTTTTTAAA
261 AATTCAAATTTTTTTAAA
62893 TTATAAAA
1 TTATAAAA
62901 TATTTATTAT
Statistics
Matches: 275, Mismatches: 10, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
277 34 0.12
278 47 0.17
279 2 0.01
280 3 0.01
284 71 0.26
285 118 0.43
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (278 bp):
TTATAAAACTTTTATAAAATTATTCATATTTTAAAATACTTACCCTCAAAGTTTTCCTATACTAG
ATTATACGTATTGTGTAATTTCATACAAAAATCAAAATAATTTTATGAAAAATGAAAAACATTAT
TAACTGTTGTTAAAAATAATAATTAATGAATAATAATTCATTTGATCCCTCAATTATAATTAAAA
AAATTATTTTTATATTTTTAAACAATTAATTTTAAAAGTCAATAATTTTTTTCAAAAATATATGA
AATTCAAATTTTTTTAAA
Found at i:62732 original size:21 final size:22
Alignment explanation
Indices: 62695--62737 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
62685 ACGTATTGTG
62695 TAATTTCATGCAAAAATCAAAA
1 TAATTTCATGCAAAAATCAAAA
* *
62717 TAATTTTATG-AAAAATGAAAA
1 TAATTTCATGCAAAAATCAAAA
62738 ACATTATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
TAATTTCATGCAAAAATCAAAA
Found at i:62738 original size:22 final size:22
Alignment explanation
Indices: 62695--62738 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
62685 ACGTATTGTG
*
62695 TAATTTCATGCAAAAATCAAAA
1 TAATTTCATGCAAAAATAAAAA
*
62717 TAATTTTATG-AAAAATGAAAAA
1 TAATTTCATGCAAAAAT-AAAAA
62739 CATTATTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
TAATTTCATGCAAAAATAAAAA
Found at i:63601 original size:64 final size:66
Alignment explanation
Indices: 63446--63605 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 66
63436 AATTAAATTG
* * * *
63446 AACATCAAATGCATTTCATGCATCGATGCA-CATACCATGCACCGATGCACTGAGGATTTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATACACTCAGGATTTTATGA
63510 A
66 A
** * *
63511 AACATCGAATGCATTTGATGCATCGATGCACCA-ACCATGCATTGATACACTCTGGCTATTT-TG
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATACACTCAGGAT-TTTATG
63574 -A
65 AA
*
63575 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
63606 TCTTAGTGCA
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 31 0.37
65 48 0.57
66 5 0.06
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (66 bp):
AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATACACTCAGGATTTTATGA
A
Found at i:64926 original size:19 final size:20
Alignment explanation
Indices: 64902--64949 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
64892 AACGATTTTC
*
64902 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
*
64921 TTTTGAAAACCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
64941 TTTTGAAAA
1 TTTTGAAAA
64950 AGGATTTAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:66250 original size:29 final size:30
Alignment explanation
Indices: 66180--66239 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
66170 CAATTTAAGG
*
66180 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTAAATTTA
66211 CAAAATGTTTTTGGACTT-AATTAAATTTA
1 CAAAATGTTTTTGGACTTGAATTAAATTTA
66240 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 10 0.36
30 12 0.43
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTAAATTTA
Found at i:66443 original size:21 final size:21
Alignment explanation
Indices: 66417--66479 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
66407 AATGCAATTA
66417 GTGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATCAAGGCT
* **
66438 GTGCATTGATGCATC-CTGCT
1 GTGCATCGATGCATCAAGGCT
*
66458 GTGCATCCATGCA-CGAAGGCT
1 GTGCATCGATGCATC-AAGGCT
66479 G
1 G
66480 CAACGGCTAG
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.03
20 14 0.42
21 18 0.55
ACGTcount: A:0.21, C:0.25, G:0.29, T:0.25
Consensus pattern (21 bp):
GTGCATCGATGCATCAAGGCT
Found at i:66537 original size:13 final size:13
Alignment explanation
Indices: 66519--66579 Score: 52
Period size: 13 Copynumber: 5.5 Consensus size: 13
66509 GGGGTATCGA
66519 TGCACCATGATAG
1 TGCACCATGATAG
66532 TGCACC--G--A-
1 TGCACCATGATAG
66540 TGCACCATGATAG
1 TGCACCATGATAG
66553 TGCACC--G--A-
1 TGCACCATGATAG
66561 TGCACCATGATAG
1 TGCACCATGATAG
66574 TGCACC
1 TGCACC
66580 GATGCACCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 20
0.66 0.00 0.34
Matches are distributed among these distances:
8 12 0.32
9 2 0.05
10 2 0.05
11 2 0.05
12 2 0.05
13 18 0.47
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.20
Consensus pattern (13 bp):
TGCACCATGATAG
Found at i:66540 original size:21 final size:21
Alignment explanation
Indices: 66516--66590 Score: 150
Period size: 21 Copynumber: 3.6 Consensus size: 21
66506 GAAGGGGTAT
66516 CGATGCACCATGATAGTGCAC
1 CGATGCACCATGATAGTGCAC
66537 CGATGCACCATGATAGTGCAC
1 CGATGCACCATGATAGTGCAC
66558 CGATGCACCATGATAGTGCAC
1 CGATGCACCATGATAGTGCAC
66579 CGATGCACCATG
1 CGATGCACCATG
66591 TTATGGCCAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.19
Consensus pattern (21 bp):
CGATGCACCATGATAGTGCAC
Found at i:68329 original size:21 final size:21
Alignment explanation
Indices: 68303--68342 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
68293 GAGAAATTAT
68303 TTTTAAAATAT-AAAAATGATA
1 TTTTAAAAT-TGAAAAATGATA
68324 TTTTAAAATTGAAAAATGA
1 TTTTAAAATTGAAAAATGA
68343 AAATAAACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
TTTTAAAATTGAAAAATGATA
Found at i:72188 original size:24 final size:24
Alignment explanation
Indices: 72160--72239 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 24
72150 CACTTAACAA
72160 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCATCCCTTTGAATG
* *
72184 TGCATCGATTCAT-CATGTTG-A--
1 TGCATCGATGCATCCCT-TTGAATG
*
72205 TGCACCGATGCA-CGCC-TTGAATG
1 TGCATCGATGCATC-CCTTTGAATG
72228 TGCATCGATGCA
1 TGCATCGATGCA
72240 CAGGGTCATG
Statistics
Matches: 44, Mismatches: 6, Indels: 13
0.70 0.10 0.21
Matches are distributed among these distances:
20 3 0.07
21 11 0.25
22 1 0.02
23 14 0.32
24 15 0.34
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (24 bp):
TGCATCGATGCATCCCTTTGAATG
Found at i:75805 original size:64 final size:64
Alignment explanation
Indices: 75673--75849 Score: 187
Period size: 64 Copynumber: 2.8 Consensus size: 64
75663 TAAAATAAAG
* * ** *
75673 ACATCAAATGCAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAA
1 ACATCGAATGCAATTCGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAATGAA
*
75737 ACATCGAATGCAA-TCGGTGCATCGATGCATAAGGAGTGCATCGATGTATCCCAGCAATAAT-AC
1 ACATCGAATGCAATTC-GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAATGA-
*
75800 T
64 A
* ** ** * * *
75801 ACATCGAATACCTTTTATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 ACATCGAATGCAATTCGTGCATCGATGCATAAGGAGTGCATCGATGCAT
75850 ACCTTCATTA
Statistics
Matches: 94, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
63 3 0.03
64 90 0.96
65 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (64 bp):
ACATCGAATGCAATTCGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAATGAA
Found at i:76175 original size:12 final size:12
Alignment explanation
Indices: 76157--76216 Score: 93
Period size: 12 Copynumber: 5.0 Consensus size: 12
76147 TATATATGTT
76157 CATGTGATATGA
1 CATGTGATATGA
*
76169 TATGTGATATGA
1 CATGTGATATGA
*
76181 CATGTGATTTGA
1 CATGTGATATGA
*
76193 TATGTGATATGA
1 CATGTGATATGA
76205 CATGTGATATGA
1 CATGTGATATGA
76217 GAACATGATA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 42 1.00
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:76185 original size:24 final size:24
Alignment explanation
Indices: 76157--76216 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
76147 TATATATGTT
76157 CATGTGATATGATATGTGATATGA
1 CATGTGATATGATATGTGATATGA
*
76181 CATGTGATTTGATATGTGATATGA
1 CATGTGATATGATATGTGATATGA
76205 CATGTGATATGA
1 CATGTGATATGA
76217 GAACATGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (24 bp):
CATGTGATATGATATGTGATATGA
Found at i:76267 original size:29 final size:29
Alignment explanation
Indices: 76232--76305 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
76222 TGATATGAAG
*
76232 TGACATGAGCTACATGGTCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
76261 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
*
76290 TGACATAAG-TACATGA
1 TGACATGAGCTACATGA
76306 ACATATGAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
28 7 0.16
29 36 0.84
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Found at i:76318 original size:28 final size:29
Alignment explanation
Indices: 76232--76318 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
76222 TGATATGAAG
* ** *
76232 TGACATGAGCTACATGGTCACAAGAGAAA
1 TGACATAAGCTACATGAACACAAGAAAAA
* * *
76261 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATAAGCTACATGAACACAAGAAAAA
* *
76290 TGACATAAG-TACATGAACATATGAAAAA
1 TGACATAAGCTACATGAACACAAGAAAAA
76318 T
1 T
76319 AAGAATAATG
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 16 0.31
29 36 0.69
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (29 bp):
TGACATAAGCTACATGAACACAAGAAAAA
Found at i:79282 original size:269 final size:269
Alignment explanation
Indices: 78803--79348 Score: 1058
Period size: 269 Copynumber: 2.0 Consensus size: 269
78793 ACTAATGTCA
78803 ATTGTAGATTGAAAAGAGTGACGTTGAGAAGTTCCGAAGGAATAGAAGTTATTGTATTTAGTGAA
1 ATTGTAGATTGAAAAGAGTGACGTTGAGAAGTTCCGAAGGAATAGAAGTTATTGTATTTAGTGAA
*
78868 AGATAGAATCCATTATCAAATGTGATTTAAGTGATGACTGCAAAGAAGTTACTGCTACACGGATG
66 AGATAGAATCCATTAGCAAATGTGATTTAAGTGATGACTGCAAAGAAGTTACTGCTACACGGATG
78933 TCAAGGGTTTATTGCTAATGTACTGGATGTTAGAACCAAGGAGAAAAGGATTGAAGAGATTCCTA
131 TCAAGGGTTTATTGCTAATGTACTGGATGTTAGAACCAAGGAGAAAAGGATTGAAGAGATTCCTA
78998 TAGTCAGAGAGTTTCTCGATGTATTTCCTGCAGAGTTGCCAGGTTTACCTCCTGACAGAGAGGTA
196 TAGTCAGAGAGTTTCTCGATGTATTTCCTGCAGAGTTGCCAGGTTTACCTCCTGACAGAGAGGTA
*
79063 GAATTCCAT
261 GAATTCCAG
79072 ATTGTAGATTGAAAAGAGTGACGTTGAGAAGTTCCGAAGGAATAGAAGTTATTGTATTTAGTGAA
1 ATTGTAGATTGAAAAGAGTGACGTTGAGAAGTTCCGAAGGAATAGAAGTTATTGTATTTAGTGAA
*
79137 AGATGGAATCCATTAGCAAATGTGATTTAAGTGATGACTGCAAAGAAGTTACTGCTACACGGATG
66 AGATAGAATCCATTAGCAAATGTGATTTAAGTGATGACTGCAAAGAAGTTACTGCTACACGGATG
79202 TCAAGGGTTTATTGCTAATGTACTGGATGTTAGAACCAAGGAGAAAAGGATTGAAGAGATTCCTA
131 TCAAGGGTTTATTGCTAATGTACTGGATGTTAGAACCAAGGAGAAAAGGATTGAAGAGATTCCTA
79267 TAGTCAGAGAGTTTCTCGATGTATTTCCTGCAGAGTTGCCAGGTTTACCTCCTGACAGAGAGGTA
196 TAGTCAGAGAGTTTCTCGATGTATTTCCTGCAGAGTTGCCAGGTTTACCTCCTGACAGAGAGGTA
79332 GAATTCCAG
261 GAATTCCAG
79341 ATTG-AGAT
1 ATTGTAGAT
79349 AATACCAGGA
Statistics
Matches: 274, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
268 4 0.01
269 270 0.99
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (269 bp):
ATTGTAGATTGAAAAGAGTGACGTTGAGAAGTTCCGAAGGAATAGAAGTTATTGTATTTAGTGAA
AGATAGAATCCATTAGCAAATGTGATTTAAGTGATGACTGCAAAGAAGTTACTGCTACACGGATG
TCAAGGGTTTATTGCTAATGTACTGGATGTTAGAACCAAGGAGAAAAGGATTGAAGAGATTCCTA
TAGTCAGAGAGTTTCTCGATGTATTTCCTGCAGAGTTGCCAGGTTTACCTCCTGACAGAGAGGTA
GAATTCCAG
Found at i:82996 original size:64 final size:64
Alignment explanation
Indices: 82922--83106 Score: 214
Period size: 64 Copynumber: 2.9 Consensus size: 64
82912 TTGTTTGAAT
* * **
82922 GTGCACCGATGCATTAGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGCAATT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAA-T
82985 C-
63 CG
* * *
82986 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAAACATTGAATGCAATCG
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
* * * **
83050 GTGCATCGATGCATAAGGAGTCCATCGATGCATCCCAGTAATAATACTACATCGAAT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAAT
83107 ACCTTTTATG
Statistics
Matches: 103, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
63 2 0.02
64 96 0.93
65 5 0.05
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (64 bp):
GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
Found at i:83472 original size:12 final size:12
Alignment explanation
Indices: 83454--83489 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
83444 TATATATGTT
83454 CATGTGATATGA
1 CATGTGATATGA
*
83466 TATGTGATATGA
1 CATGTGATATGA
83478 CATGTGATATGA
1 CATGTGATATGA
83490 AAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:83540 original size:29 final size:29
Alignment explanation
Indices: 83505--83578 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
83495 TGATATGAAG
83505 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
*
83534 TGACATGAGCTGCATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
*
83563 TGACATAAG-TACATGA
1 TGACATGAGCTACATGA
83579 ACATATGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 6 0.14
29 36 0.86
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Found at i:87573 original size:64 final size:64
Alignment explanation
Indices: 87503--87679 Score: 205
Period size: 64 Copynumber: 2.8 Consensus size: 64
87493 TAAAATAAAG
* ** *
87503 ACATCGAATACAATTCGTGCATCGATGCATAAATAGTGCATCGATGCATCCCATTAATAGTGA-A
1 ACATCGAATACAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAAT-ACA
* * *
87567 ACATCGAATGCAA-TCGGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAATACT
1 ACATCGAATACAATTC-GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATACA
** ** * *
87631 ACATCGAATACCTTTTATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 ACATCGAATACAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCAT
87680 ACCTTCATTA
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
63 3 0.03
64 91 0.96
65 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (64 bp):
ACATCGAATACAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATACA
Found at i:88005 original size:12 final size:12
Alignment explanation
Indices: 87988--88022 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
87978 ATATATGTTC
87988 ATGTGATATGAT
1 ATGTGATATGAT
88000 ATGTGATATGAT
1 ATGTGATATGAT
88012 ATGTGATATGA
1 ATGTGATATGA
88023 GAACATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:88044 original size:23 final size:26
Alignment explanation
Indices: 88003--88055 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 26
87993 ATATGATATG
88003 TGATATGATATGTGATATGAG-AACA
1 TGATATGATATGTGATATGAGCAACA
*
88028 TGATATGA-A-GTGATATGAGCTACA
1 TGATATGATATGTGATATGAGCAACA
88052 TGAT
1 TGAT
88056 CACAAGAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 10 0.38
24 8 0.31
25 8 0.31
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (26 bp):
TGATATGATATGTGATATGAGCAACA
Found at i:89212 original size:64 final size:63
Alignment explanation
Indices: 89008--89217 Score: 205
Period size: 65 Copynumber: 3.3 Consensus size: 63
88998 TTTTTCAGAG
* *
89008 TGATGCACCGATGCACCAATCCATGCATCGATGCAC-C-ATGAATTAAATTG-AACATCGAATGC
1 TGATGCATCGATGCACCAA-CCATGCATCGATGCACTCTA-GTATT---TTGAAACATCGAATGC
89070 ATT
61 ATT
* * * * * *
89073 TCATGCATTGATGCA-CATACCATGAACCGATGCACT-GAGGATTTTATGAAAACATCGAATGCA
1 TGATGCATCGATGCACCA-ACCATGCATCGATGCACTCTAGTA-TTT-TG-AAACATCGAATGCA
89136 TT
62 TT
* *
89138 TGATGCATCGATGCACCAGCCATGCATCGATGCACTCTAGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCACCAACCATGCATCGATGCACTCTAG-TATTTTGAAACATCGAATGCATT
89202 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
89218 TCTTAGTGCA
Statistics
Matches: 121, Mismatches: 14, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 49 0.40
65 61 0.50
66 7 0.06
67 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (63 bp):
TGATGCATCGATGCACCAACCATGCATCGATGCACTCTAGTATTTTGAAACATCGAATGCATT
Found at i:94297 original size:11 final size:12
Alignment explanation
Indices: 94272--94335 Score: 51
Period size: 12 Copynumber: 5.2 Consensus size: 12
94262 ACAAAGAAAT
94272 AAAATAAAATAA
1 AAAATAAAATAA
*
94284 AAAATAAGATAA
1 AAAATAAAATAA
* *
94296 AAAACAGAAA-CA
1 AAAATA-AAATAA
94308 AAAAT-AAATAA
1 AAAATAAAATAA
94319 TAATAATAATAATAA
1 -AA-AATAA-AATAA
94334 AA
1 AA
94336 TGTATATATA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
10 3 0.08
11 1 0.03
12 23 0.57
13 5 0.12
14 3 0.08
15 5 0.12
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:94369 original size:17 final size:18
Alignment explanation
Indices: 94327--94369 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
94317 AATAATAATA
94327 ATAATAAAATGTATATAT
1 ATAATAAAATGTATATAT
94345 ATAATAAAATGTAGTAT-T
1 ATAATAAAATGTA-TATAT
94363 A-AATAAA
1 ATAATAAA
94370 TATAAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 15 0.62
19 3 0.12
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (18 bp):
ATAATAAAATGTATATAT
Found at i:99678 original size:29 final size:29
Alignment explanation
Indices: 99635--99717 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
99625 CTCACCTAAC
99635 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
99665 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
99694 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
99718 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:104312 original size:29 final size:29
Alignment explanation
Indices: 104269--104351 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
104259 CTCACCTAAC
104269 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
104299 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
104328 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
104352 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:105647 original size:19 final size:21
Alignment explanation
Indices: 105619--105665 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
105609 ATTATATAAA
*
105619 ATTTAGTTT-ATA-CAATCAT
1 ATTTATTTTAATATCAATCAT
*
105638 ATTTATTTTAATATCATTCAT
1 ATTTATTTTAATATCAATCAT
105659 -TTTATTT
1 ATTTATTT
105666 AGAATTTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 8 0.33
20 10 0.42
21 6 0.25
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTTATTTTAATATCAATCAT
Found at i:107517 original size:22 final size:21
Alignment explanation
Indices: 107486--107536 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
107476 AAATATAAAA
* *
107486 TATAATAAATAATATTATTTAT
1 TATAAAAAATAATAATA-TTAT
107508 TATAAAAAATAATAATATTAT
1 TATAAAAAATAATAATATTAT
*
107529 TTTAAAAA
1 TATAAAAA
107537 TATTAGAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TATAAAAAATAATAATATTAT
Found at i:107931 original size:17 final size:16
Alignment explanation
Indices: 107909--107946 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
107899 TAATTGAGTA
*
107909 TATTATTGTATTAATAT
1 TATTATTATATTAA-AT
107926 TATTATTATATTAAAT
1 TATTATTATATTAAAT
107942 TATTA
1 TATTA
107947 AAAATATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TATTATTATATTAAAT
Found at i:109044 original size:29 final size:29
Alignment explanation
Indices: 109002--109078 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
108992 CGGTGATCGA
* * *
109002 TATATTTATAGATCTAATATTAGTCAGAT
1 TATATTTCTAGATCTAACATCAGTCAGAT
*
109031 TATATTTCTCGATCTAACATCAGTCAGAT
1 TATATTTCTAGATCTAACATCAGTCAGAT
109060 TATATTTCCTA-ATCTAACA
1 TATATTT-CTAGATCTAACA
109079 CTCGTAGCAG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 40 0.95
30 2 0.05
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.42
Consensus pattern (29 bp):
TATATTTCTAGATCTAACATCAGTCAGAT
Found at i:110722 original size:20 final size:19
Alignment explanation
Indices: 110693--110732 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
110683 CTTAAAAAGA
*
110693 TAGAGTATTTGAGAGAAATT
1 TAGAGAATTTGAGA-AAATT
110713 TAGAGAATTTGAGAAAATT
1 TAGAGAATTTGAGAAAATT
110732 T
1 T
110733 GGTATGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (19 bp):
TAGAGAATTTGAGAAAATT
Found at i:114303 original size:23 final size:23
Alignment explanation
Indices: 114275--114326 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
114265 AGATTTAAGG
*
114275 ATTAAATTAATATTTTATTTAAA
1 ATTAAATTAATATTTTATCTAAA
*
114298 ATTAAATTGATATTTTATCTAAA
1 ATTAAATTAATATTTTATCTAAA
114321 ATTAAA
1 ATTAAA
114327 GATCAAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
ATTAAATTAATATTTTATCTAAA
Found at i:120725 original size:30 final size:31
Alignment explanation
Indices: 120670--120727 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
120660 TATTAAATGG
120670 TAAATGATAATCAAATTACAATAACTGATAT
1 TAAATGATAATCAAATTACAATAACTGATAT
120701 TAAATGATAAT-AAATTA-AATTAACTGA
1 TAAATGATAATCAAATTACAA-TAACTGA
120728 AATACATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 2 0.08
30 13 0.50
31 11 0.42
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATGATAATCAAATTACAATAACTGATAT
Found at i:120736 original size:19 final size:20
Alignment explanation
Indices: 120699--120738 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
120689 AATAACTGAT
120699 ATTAAATGATAATAAATTAA
1 ATTAAATGATAATAAATTAA
* *
120719 ATTAACTGA-AATACATTAA
1 ATTAAATGATAATAAATTAA
120738 A
1 A
120739 AAAAAGTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
ATTAAATGATAATAAATTAA
Found at i:127323 original size:19 final size:19
Alignment explanation
Indices: 127299--127368 Score: 101
Period size: 19 Copynumber: 3.7 Consensus size: 19
127289 TAATTAAATC
127299 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
127318 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
127337 AGAGTGCATC-AGTGCATGG
1 AGAGTGCATCGA-TGCATGG
127356 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
127369 TTTCAACTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.08
18 6 0.12
19 38 0.79
ACGTcount: A:0.27, C:0.16, G:0.34, T:0.23
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:127406 original size:21 final size:21
Alignment explanation
Indices: 127382--127421 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
127372 CAACTTATTC
127382 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
127403 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
127422 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:129935 original size:24 final size:23
Alignment explanation
Indices: 129865--129941 Score: 81
Period size: 24 Copynumber: 3.4 Consensus size: 23
129855 CATGATCTTG
*
129865 TGCATCGATGCACATTCAAGGCA
1 TGCATCGATGCACATTCAAGGGA
*
129888 TGCATC-AGTG--CA-TCATGCGGA
1 TGCATCGA-TGCACATTCAAG-GGA
129909 TGCATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AAGGGA
129933 TGCATCGAT
1 TGCATCGAT
129942 ACATTGTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
20 4 0.09
21 12 0.27
22 2 0.05
23 10 0.23
24 14 0.32
25 2 0.05
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGGA
Found at i:135752 original size:17 final size:19
Alignment explanation
Indices: 135710--135747 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
135700 TTGGACTCCT
*
135710 AGTGCATCGGTGCACTAAG
1 AGTGCATCGATGCACTAAG
*
135729 AGTGCATCGATGCATTAAG
1 AGTGCATCGATGCACTAAG
135748 TGCATTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (19 bp):
AGTGCATCGATGCACTAAG
Found at i:135803 original size:65 final size:61
Alignment explanation
Indices: 135710--135888 Score: 184
Period size: 64 Copynumber: 2.8 Consensus size: 61
135700 TTGGACTCCT
* * *
135710 AGTGCATCGGTGCACT-AAGAGTGCATCGATGCATTAAGTGCATTCGATGTTTGAA-AAAT-AG
1 AGTGCATCGATGCA-TGGAGAGTGCATCGATGCATCAA-TGCATTCGATGTTT-AATAAATCAG
* **
135771 CCTGGTGCATCGATGCATGGATTTGTGCATCGATGCATCAAATGCATTCGATGTTTAATTAAATC
1 ---AGTGCATCGATGCATGGA-GAGTGCATCGATGCATC-AATGCATTCGATGTTTAA-TAAATC
135836 AG
60 AG
* *
135838 AGTGCATCGATGCATGGAGAGTGCATCGGTGCATGAATGCATTCGATGTTT
1 AGTGCATCGATGCATGGAGAGTGCATCGATGCATCAATGCATTCGATGTTT
135889 CAACTTATTC
Statistics
Matches: 98, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
62 16 0.16
63 14 0.14
64 32 0.33
65 28 0.29
66 6 0.06
67 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (61 bp):
AGTGCATCGATGCATGGAGAGTGCATCGATGCATCAATGCATTCGATGTTTAATAAATCAG
Found at i:135860 original size:19 final size:19
Alignment explanation
Indices: 135836--135872 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
135826 TAATTAAATC
135836 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
135855 AGAGTGCATCGGTGCATG
1 AGAGTGCATCGATGCATG
135873 AATGCATTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.16, G:0.38, T:0.22
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:135917 original size:64 final size:64
Alignment explanation
Indices: 135728--135888 Score: 188
Period size: 65 Copynumber: 2.5 Consensus size: 64
135718 GGTGCACTAA
* * *
135728 GAGTGCATCGATGCATTAAGTGCATTCGATGTTTGAA--AAAT-AGCCTGGTGCATCGATGCATG
1 GAGTGCATCGATGCATCAAATGCATTCGATGTTT-AATTAAATCAG---AGTGCATCGATGCATG
135790 GAT
62 GAT
**
135793 TTGTGCATCGATGCATCAAATGCATTCGATGTTTAATTAAATCAGAGTGCATCGATGCATGGA-
1 GAGTGCATCGATGCATCAAATGCATTCGATGTTTAATTAAATCAGAGTGCATCGATGCATGGAT
* *
135856 GAGTGCATCGGTGCAT-GAATGCATTCGATGTTT
1 GAGTGCATCGATGCATCAAATGCATTCGATGTTT
135889 CAACTTATTC
Statistics
Matches: 84, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
62 16 0.19
63 13 0.15
64 19 0.23
65 30 0.36
66 4 0.05
67 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (64 bp):
GAGTGCATCGATGCATCAAATGCATTCGATGTTTAATTAAATCAGAGTGCATCGATGCATGGAT
Found at i:135945 original size:21 final size:21
Alignment explanation
Indices: 135899--135938 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
135889 CAACTTATTC
135899 ATTGATGCATCGATGCATGAT
1 ATTGATGCATCGATGCATGAT
*
135920 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
135939 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGAT
Found at i:137098 original size:9 final size:9
Alignment explanation
Indices: 137068--137119 Score: 56
Period size: 8 Copynumber: 6.1 Consensus size: 9
137058 ATCTGCAAAA
137068 AAATTAAAT
1 AAATTAAAT
*
137077 -AAGTAAA-
1 AAATTAAAT
*
137084 ATATTAAAT
1 AAATTAAAT
137093 AAATTAAAT
1 AAATTAAAT
*
137102 -ACTTAAAT
1 AAATTAAAT
137110 AAATTAAAT
1 AAATTAAAT
137119 A
1 A
137120 CAAAATATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
8 18 0.53
9 16 0.47
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
AAATTAAAT
Found at i:137100 original size:17 final size:17
Alignment explanation
Indices: 137065--137117 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
137055 TATATCTGCA
* *
137065 AAAAAATTAAAT-AAGT
1 AAAATATTAAATAAATT
137081 AAAATATTAAATAAATT
1 AAAATATTAAATAAATT
137098 -AAATACTTAAATAAATT
1 AAAATA-TTAAATAAATT
137115 AAA
1 AAA
137118 TACAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 16 0.50
17 14 0.44
18 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAATATTAAATAAATT
Found at i:137118 original size:17 final size:17
Alignment explanation
Indices: 137071--137120 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
137061 TGCAAAAAAA
* *
137071 TTAAATAAGTAAAATA-
1 TTAAATAAATTAAATAC
137087 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
137104 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
137121 AAAATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (17 bp):
TTAAATAAATTAAATAC
Found at i:137186 original size:9 final size:9
Alignment explanation
Indices: 137172--137196 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
137162 ATAAGAGTAT
137172 TTGAGAGAA
1 TTGAGAGAA
137181 TTGAGAGAA
1 TTGAGAGAA
137190 TTGAGAG
1 TTGAGAG
137197 GTGTGATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:147457 original size:15 final size:15
Alignment explanation
Indices: 147437--147467 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
147427 AAGTCATAAG
147437 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
147452 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
147467 T
1 T
147468 TCATTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:152166 original size:2 final size:2
Alignment explanation
Indices: 152159--152184 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
152149 TACATTCTAT
152159 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
152185 ATGACCTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:154064 original size:15 final size:15
Alignment explanation
Indices: 154027--154077 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
154017 TTTATCAAAA
154027 ATTTTAAA-TTAAAT
1 ATTTTAAATTTAAAT
* * * *
154041 ACATATAAATTTTATT
1 A-TTTTAAATTTAAAT
154057 ATTTTAAATTTAAAT
1 ATTTTAAATTTAAAT
154072 ATTTTA
1 ATTTTA
154078 TCCCTCTAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
14 1 0.04
15 21 0.78
16 5 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTTAAATTTAAAT
Found at i:158012 original size:23 final size:24
Alignment explanation
Indices: 157986--158046 Score: 81
Period size: 23 Copynumber: 2.6 Consensus size: 24
157976 CACCACAGCT
157986 CATATAATTGCACCGA-AGTGCCA
1 CATATAATTGCACCGAGAGTGCCA
*
158009 CATATAATTGCACC-AGAGTGCCG
1 CATATAATTGCACCGAGAGTGCCA
* *
158032 CGTAGAATTGCACCG
1 CATATAATTGCACCG
158047 TAGTTCCATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.03
23 32 0.97
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (24 bp):
CATATAATTGCACCGAGAGTGCCA
Found at i:158241 original size:103 final size:103
Alignment explanation
Indices: 158070--158287 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
158060 TAATGTCTAT
* * *
158070 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
158135 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
158173 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
158238 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
158276 AAGGACCACATA
1 AAGGACCACATA
158288 GACCCTCGAC
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:163967 original size:23 final size:23
Alignment explanation
Indices: 163941--164018 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
163931 CACCACAGCT
163941 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
163964 CATATAATTGCACC-AGAGTGCCG
1 CATATAATTGCACCGA-AGTGCCA
* * *
163987 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
164010 TATAATAAT
1 CAT-ATAAT
164019 GTCCATAAGG
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
22 1 0.02
23 39 0.89
24 4 0.09
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:164196 original size:103 final size:103
Alignment explanation
Indices: 164025--164242 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
164015 TAATGTCCAT
* * *
164025 AAGGACCATATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
164090 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
164128 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
164193 GACTTCACACATGTTCCAAAGAATACATATATGTCCTG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
164231 AAGGACCACATA
1 AAGGACCACATA
164243 GACCCTCGAC
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:165106 original size:64 final size:64
Alignment explanation
Indices: 164968--165129 Score: 168
Period size: 64 Copynumber: 2.5 Consensus size: 64
164958 TCTTTTAATG
* * * *
164968 AAGGTATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATGTTTGTTTATTAC
1 AAGG-ATGCATCGATGCACTACTTATGCATCGATGCACAAAATGCATTCGATGTTTGTTTATTAA
* ** *
165033 TAGGATGCATCGATGCACTACTTATGCATCGATGCACGGATTGCATTCGATGTATT-TATT-TTA
1 AAGGATGCATCGATGCACTACTTATGCATCGATGCACAAAATGCATTCGATGT-TTGT-TTATTA
165096 A
64 A
* * *
165097 AA-GAGTGCATCGATGCACTTCCTGTGCATCGAT
1 AAGGA-TGCATCGATGCACTACTTATGCATCGAT
165130 ACACCTTCAA
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
63 2 0.02
64 73 0.89
65 7 0.09
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (64 bp):
AAGGATGCATCGATGCACTACTTATGCATCGATGCACAAAATGCATTCGATGTTTGTTTATTAA
Found at i:168013 original size:15 final size:15
Alignment explanation
Indices: 167993--168023 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
167983 CAAAAAATAG
167993 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
168008 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
168023 A
1 A
168024 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:168154 original size:35 final size:35
Alignment explanation
Indices: 168108--168203 Score: 156
Period size: 35 Copynumber: 2.7 Consensus size: 35
168098 TTATTCCTTC
*
168108 AACCAAACACTGTAATCTTACATTCCTGTCAAACT
1 AACCAAACACTGTAATCTTACATTCCTGCCAAACT
168143 AACCAAACACTGTAATCTTACATTCCTGCCAAACT
1 AACCAAACACTGTAATCTTACATTCCTGCCAAACT
* * *
168178 AACCAAACACAGTAATGTAACATTCC
1 AACCAAACACTGTAATCTTACATTCC
168204 CAATAATCTT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 57 1.00
ACGTcount: A:0.40, C:0.29, G:0.06, T:0.25
Consensus pattern (35 bp):
AACCAAACACTGTAATCTTACATTCCTGCCAAACT
Found at i:169888 original size:19 final size:19
Alignment explanation
Indices: 169864--169902 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
169854 ATAATCAAAC
169864 TAAATAAATCTATTTGGAG
1 TAAATAAATCTATTTGGAG
169883 TAAATAAATCTATTTGGAG
1 TAAATAAATCTATTTGGAG
169902 T
1 T
169903 TTCGTGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.38
Consensus pattern (19 bp):
TAAATAAATCTATTTGGAG
Found at i:174829 original size:2 final size:2
Alignment explanation
Indices: 174822--174858 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
174812 ACTTGTACTT
174822 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
174859 TAAAGAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:185045 original size:2 final size:2
Alignment explanation
Indices: 185034--185078 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
185024 TCACTGCACG
*
185034 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
185075 AT AT
1 AT AT
185079 TCAGTTCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:192322 original size:20 final size:20
Alignment explanation
Indices: 192299--192350 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
192289 AACGCGATCC
192299 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
192319 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
192339 CCAAAATCGCAA
1 CCAGAATCGCAA
192351 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:192448 original size:20 final size:20
Alignment explanation
Indices: 192425--192598 Score: 217
Period size: 20 Copynumber: 8.7 Consensus size: 20
192415 GTGAATATGA
* *
192425 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
192445 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
192465 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
192485 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
192505 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
192525 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
192545 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
192565 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
192586 AAATCGCAACGCG
1 AAATCGCAACGCG
192599 ATATTTAAAG
Statistics
Matches: 132, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
19 1 0.01
20 113 0.86
21 17 0.13
22 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:192489 original size:60 final size:60
Alignment explanation
Indices: 192405--192596 Score: 249
Period size: 60 Copynumber: 3.2 Consensus size: 60
192395 CGATTTTCCA
* ** * *
192405 AAATCGCAACGTGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGTGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* *** *
192465 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGTGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * **
192525 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGTGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
192586 AAATCGCAACG
1 AAATCGCAACG
192597 CGATATTTAA
Statistics
Matches: 111, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
60 82 0.74
61 29 0.26
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGTGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:193177 original size:14 final size:14
Alignment explanation
Indices: 193139--193212 Score: 58
Period size: 14 Copynumber: 4.7 Consensus size: 14
193129 GATAAATGAA
193139 AATCGCAACGAGAAG
1 AATCGCAACGAG-AG
*
193154 ACTGTCGCAACGAGAG
1 A--ATCGCAACGAGAG
*
193170 AATCGCAACGCGAAATGG
1 AATCGCAA--CGAGA--G
193188 AAATCGCAACGAGAG
1 -AATCGCAACGAGAG
193203 AATCGCAACG
1 AATCGCAACG
193213 CGAAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
14 16 0.33
15 2 0.04
16 7 0.15
17 14 0.29
18 1 0.02
19 8 0.17
ACGTcount: A:0.41, C:0.23, G:0.27, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:193225 original size:33 final size:33
Alignment explanation
Indices: 193158--193228 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
193148 GAGAAGACTG
***
193158 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
193191 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
193224 TCGCA
1 TCGCA
193229 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:193265 original size:14 final size:14
Alignment explanation
Indices: 193246--193334 Score: 88
Period size: 14 Copynumber: 5.7 Consensus size: 14
193236 TTTTCATTCG
193246 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
193260 CGTTGCGATTTTCATTCG
1 CGTTGCGA--TTC--TCT
193278 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
193292 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
193309 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
193325 CGTTGCGATT
1 CGTTGCGATT
193335 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 11 0.17
17 5 0.08
18 11 0.17
19 8 0.12
ACGTcount: A:0.09, C:0.26, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:193271 original size:33 final size:32
Alignment explanation
Indices: 193229--193340 Score: 197
Period size: 32 Copynumber: 3.4 Consensus size: 32
193219 CAAAATCGCA
193229 TTGCGATTTTTCATTCGCGTTGCGATTCTCTCG
1 TTGCGA-TTTTCATTCGCGTTGCGATTCTCTCG
193262 TTGCGATTTTCATTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTCGCGTTGCGATTCTCTCG
*
193294 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCAT-TCGCGTTGCGATTCTCTCG
193327 TTGCGATTTTCATT
1 TTGCGATTTTCATT
193341 TCAACCAAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
32 39 0.51
33 37 0.49
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (32 bp):
TTGCGATTTTCATTCGCGTTGCGATTCTCTCG
Found at i:193314 original size:19 final size:18
Alignment explanation
Indices: 193237--193335 Score: 82
Period size: 14 Copynumber: 6.2 Consensus size: 18
193227 CATTGCGATT
193237 TTTCAT-TCGCGTTGCGA
1 TTTCATCTCGCGTTGCGA
193254 -TTC-TCT--CGTTGCGA
1 TTTCATCTCGCGTTGCGA
193268 TTTTCAT-TCGCGTTGCGA
1 -TTTCATCTCGCGTTGCGA
193286 -TTC-TCT--CGTTGCGA
1 TTTCATCTCGCGTTGCGA
193300 TTGTCATCTCGCGTTGCGA
1 TT-TCATCTCGCGTTGCGA
193319 -TTC-TCT--CGTTGCGA
1 TTTCATCTCGCGTTGCGA
193333 TTT
1 TTT
193336 TCATTTCAAC
Statistics
Matches: 69, Mismatches: 0, Indels: 28
0.71 0.00 0.29
Matches are distributed among these distances:
14 24 0.35
15 5 0.07
16 17 0.25
17 6 0.09
18 9 0.13
19 8 0.12
ACGTcount: A:0.09, C:0.25, G:0.22, T:0.43
Consensus pattern (18 bp):
TTTCATCTCGCGTTGCGA
Found at i:195219 original size:183 final size:186
Alignment explanation
Indices: 194994--195458 Score: 858
Period size: 183 Copynumber: 2.5 Consensus size: 186
194984 TAGATTGCTT
194994 AGTAAA-TT-TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
195057 TTTGTC-TTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
195121 GTGTATTCTTTAACACTGTG-AATA-TATTTGTCGTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCGTTGTTTTGTCTTTTGGTTGAA
195175 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
195240 TTTGTCTTTGTTTTGTCTTTTGG-TGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
*
195304 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCGTTGTTTTGTCTTTTGGTTGAA
195360 AGTAAATTTGTTCGG-TGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
195423 TTTGTCTTTGTTTTGTC-TTTGGTTGAAAGTAAATTT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
195459 ATCCATTCAA
Statistics
Matches: 277, Mismatches: 1, Indels: 10
0.96 0.00 0.03
Matches are distributed among these distances:
181 6 0.02
182 7 0.03
183 171 0.62
184 49 0.18
185 44 0.16
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCGTTGTTTTGTCTTTTGGTTGAA
Found at i:195477 original size:92 final size:93
Alignment explanation
Indices: 194994--195458 Score: 858
Period size: 92 Copynumber: 5.1 Consensus size: 93
194984 TAGATTGCTT
194994 AGTAAA-TT-TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
195057 TTTGTC-TTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
195084 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
195147 TTTGTCGTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
195175 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
195240 TTTGTCTTTGTTTTGTCTTTTGG-TGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
195267 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
195332 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
195360 AGTAAATTTGTTCGG-TGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
195423 TTTGTCTTTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
195450 AGTAAATTT
1 AGTAAATTT
195459 ATCCATTCAA
Statistics
Matches: 368, Mismatches: 1, Indels: 12
0.97 0.00 0.03
Matches are distributed among these distances:
90 33 0.09
91 120 0.33
92 172 0.47
93 43 0.12
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:195542 original size:19 final size:19
Alignment explanation
Indices: 195502--195636 Score: 110
Period size: 19 Copynumber: 7.6 Consensus size: 19
195492 TAGTTTACTT
* *
195502 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
195522 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
195541 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
195560 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
195574 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
195593 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
**
195607 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
195626 TCGCAATGCGA
1 TCGCAACGCGA
195637 TTTTCATTTC
Statistics
Matches: 94, Mismatches: 11, Indels: 21
0.75 0.09 0.17
Matches are distributed among these distances:
14 19 0.20
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 50 0.53
20 13 0.14
ACGTcount: A:0.45, C:0.27, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:195581 original size:33 final size:32
Alignment explanation
Indices: 195538--195631 Score: 152
Period size: 33 Copynumber: 2.9 Consensus size: 32
195528 CGCGAAACCA
195538 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAATGAAAATCGCAACGAC
**
195570 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAATGAAAATCGCAACGAC
195603 AAGATCGCAACGCGAAATGAAAATCGCAA
1 AA-ATCGCAACGCGAAATGAAAATCGCAA
195632 TGCGATTTTC
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
32 2 0.04
33 54 0.96
ACGTcount: A:0.47, C:0.26, G:0.19, T:0.09
Consensus pattern (32 bp):
AAATCGCAACGCGAAATGAAAATCGCAACGAC
Found at i:195628 original size:52 final size:51
Alignment explanation
Indices: 195502--195636 Score: 141
Period size: 52 Copynumber: 2.6 Consensus size: 51
195492 TAGTTTACTT
*
195502 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAA-TGAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
195554 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAATGA-A-AATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
* *
195607 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAACACGAAATGAAAATCGCAACGCGA
195637 TTTTCATTTC
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
50 4 0.06
51 6 0.09
52 44 0.66
53 4 0.06
54 7 0.10
55 2 0.03
ACGTcount: A:0.45, C:0.27, G:0.19, T:0.10
Consensus pattern (51 bp):
TCGCAACACGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:195648 original size:19 final size:19
Alignment explanation
Indices: 195632--195760 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
195622 AAAATCGCAA
195632 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
195651 TGCGA--TTC-TTT--CGT
1 TGCGATTTTCATTTCGCGT
*
195665 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCGT
*
195684 TGCGA--TTC-TGT--CGT
1 TGCGATTTTCATTTCGCGT
195698 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
**
195717 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
* *
195736 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTTCA-TTTCGCGT
195756 TGCGA
1 TGCGA
195761 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.17
16 11 0.12
17 11 0.12
19 41 0.46
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.47
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:195667 original size:14 final size:14
Alignment explanation
Indices: 195648--195704 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
195638 TTTCATTTCG
195648 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
195662 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
195679 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
195695 CGTTGCGATT
1 CGTTGCGATT
195705 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:195674 original size:33 final size:33
Alignment explanation
Indices: 195632--195723 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
195622 AAAATCGCAA
*
195632 TGCGATTTTCATTTCGCGTTGCGATTCTTTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTGTCGT
*
195665 TGCGATTTTCATTTCGCATTGCGATTCTGTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTGTCGT
195698 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTCATTTCGCGTTGCGATT
195724 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTGTCGT
Found at i:197635 original size:14 final size:14
Alignment explanation
Indices: 197616--197651 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
197606 ATTGTTTAAT
197616 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
197630 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
197644 TGATTTGT
1 TGATTTGT
197652 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:197774 original size:19 final size:19
Alignment explanation
Indices: 197750--197850 Score: 142
Period size: 19 Copynumber: 5.6 Consensus size: 19
197740 GGCAAAAACT
197750 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
197769 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
197788 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
197802 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
197820 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
197840 ATCGCAATGCG
1 ATCGCAATGCG
197851 TTTATAATTT
Statistics
Matches: 73, Mismatches: 2, Indels: 14
0.82 0.02 0.16
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 12 0.16
19 34 0.47
20 12 0.16
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Done.