Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003888.1 Hibiscus syriacus cultivar Beakdansim tig00008398_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: 71760
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Found at i:31 original size:14 final size:14
Alignment explanation
Indices: 12--68 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2 TTTCATATCG
12 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
26 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
43 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
59 CGTTGCGATT
1 CGTTGCGATT
69 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:51 original size:33 final size:33
Alignment explanation
Indices: 1--87 Score: 147
Period size: 33 Copynumber: 2.6 Consensus size: 33
* *
1 TTTTCATATCGCGTTGCGATTCTTTCGTTGCGA
1 TTTTCATTTCGCGTTGCGATTCTGTCGTTGCGA
*
34 TTTTCATTTCGCATTGCGATTCTGTCGTTGCGA
1 TTTTCATTTCGCGTTGCGATTCTGTCGTTGCGA
67 TTTTCATTTCGCGTTGCGATT
1 TTTTCATTTCGCGTTGCGATT
88 TTGGTTTCGC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (33 bp):
TTTTCATTTCGCGTTGCGATTCTGTCGTTGCGA
Found at i:52 original size:19 final size:19
Alignment explanation
Indices: 1--162 Score: 146
Period size: 19 Copynumber: 9.0 Consensus size: 19
*
1 TTTTCATATCGCGTTGCGA
1 TTTTCATTTCGCGTTGCGA
20 --TTC-TTT--CGTTGCGA
1 TTTTCATTTCGCGTTGCGA
*
34 TTTTCATTTCGCATTGCGA
1 TTTTCATTTCGCGTTGCGA
*
53 --TTC-TGT--CGTTGCGA
1 TTTTCATTTCGCGTTGCGA
67 TTTTCATTTCGCGTTGCGA
1 TTTTCATTTCGCGTTGCGA
**
86 TTTTGGTTTCGCGTTGCGA
1 TTTTCATTTCGCGTTGCGA
** *
105 TTTTTGTTTCTCGTTGCGA
1 TTTTCATTTCGCGTTGCGA
*
124 TTATCATTTCGCGTTGCGA
1 TTTTCATTTCGCGTTGCGA
* *
143 TTTTAAGTTTCGTGTTGCGA
1 TTTTCA-TTTCGCGTTGCGA
163 AAGTAAACTA
Statistics
Matches: 116, Mismatches: 16, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
14 15 0.13
16 10 0.09
17 11 0.09
19 68 0.59
20 12 0.10
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.48
Consensus pattern (19 bp):
TTTTCATTTCGCGTTGCGA
Found at i:120 original size:38 final size:38
Alignment explanation
Indices: 1--162 Score: 146
Period size: 33 Copynumber: 4.5 Consensus size: 38
*
1 TTTTCATATCGCGTTGCGA-T-TC-TTT--CGTTGCGA
1 TTTTCATTTCGCGTTGCGATTATCATTTCGCGTTGCGA
* *
34 TTTTCATTTCGCATTGCGA-T-TC-TGT--CGTTGCGA
1 TTTTCATTTCGCGTTGCGATTATCATTTCGCGTTGCGA
* **
67 TTTTCATTTCGCGTTGCGATTTTGGTTTCGCGTTGCGA
1 TTTTCATTTCGCGTTGCGATTATCATTTCGCGTTGCGA
** *
105 TTTTTGTTTCTCGTTGCGATTATCATTTCGCGTTGCGA
1 TTTTCATTTCGCGTTGCGATTATCATTTCGCGTTGCGA
* *
143 TTTTAAGTTTCGTGTTGCGA
1 TTTTCA-TTTCGCGTTGCGA
163 AAGTAAACTA
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
33 48 0.45
34 1 0.01
35 1 0.01
36 2 0.02
38 44 0.41
39 11 0.10
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.48
Consensus pattern (38 bp):
TTTTCATTTCGCGTTGCGATTATCATTTCGCGTTGCGA
Found at i:2095 original size:13 final size:13
Alignment explanation
Indices: 2052--2087 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
2042 GATTGTTTAA
2052 TTGATTTGTAAAG
1 TTGATTTGTAAAG
*
2065 ATGATTTGTAAAAG
1 TTGATTTGT-AAAG
2079 TTGATTTGT
1 TTGATTTGT
2088 GTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (13 bp):
TTGATTTGTAAAG
Found at i:2202 original size:19 final size:19
Alignment explanation
Indices: 2178--2245 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
2168 GCATTATGTT
2178 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
2197 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
*
2214 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
2230 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2246 CGAGAGAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
14 10 0.24
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
19 26 0.62
ACGTcount: A:0.49, C:0.16, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:2224 original size:14 final size:14
Alignment explanation
Indices: 2205--2304 Score: 60
Period size: 14 Copynumber: 6.6 Consensus size: 14
2195 GCGAAATGAA
2205 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
2219 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2238 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
2252 AATCGCAATGCGAAAG
1 AATCGCAA--CGAGAG
* *
2268 CAATGCGGAA--ATGAA
1 -AAT-CGCAACGA-GAG
2283 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2297 AATCGCAA
1 AATCGCAA
2305 TGCGATTTCA
Statistics
Matches: 66, Mismatches: 8, Indels: 24
0.67 0.08 0.24
Matches are distributed among these distances:
13 4 0.06
14 32 0.48
15 3 0.05
16 7 0.11
17 5 0.08
18 5 0.08
19 10 0.15
ACGTcount: A:0.45, C:0.19, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2228 original size:33 final size:33
Alignment explanation
Indices: 2186--2266 Score: 162
Period size: 33 Copynumber: 2.5 Consensus size: 33
2176 TTGAAATGAA
2186 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
2219 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
2252 AATCGCAATGCGAAA
1 AATCGCAATGCGAAA
2267 GCAATGCGGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:2282 original size:45 final size:44
Alignment explanation
Indices: 2223--2309 Score: 165
Period size: 45 Copynumber: 2.0 Consensus size: 44
2213 CGAGAGAATC
2223 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAA
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAA
2267 GCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 GCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
2310 TTTCATTTCC
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 7 0.17
45 35 0.83
ACGTcount: A:0.44, C:0.18, G:0.26, T:0.11
Consensus pattern (44 bp):
GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAA
Found at i:2327 original size:19 final size:19
Alignment explanation
Indices: 2299--2518 Score: 200
Period size: 19 Copynumber: 12.7 Consensus size: 19
2289 AACGAGAGAA
*
2299 TCGCAATGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
*
2317 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
2334 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2351 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2370 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
2386 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2403 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2422 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
2439 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2456 TCGCA-TGC-ATTTTCATT
1 TCGCATTGCGATTTTCATT
2473 TCCGCA-TGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
2490 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
2506 TCGCATTGCGATT
1 TCGCATTGCGATT
2519 CTCTCGTTGC
Statistics
Matches: 168, Mismatches: 9, Indels: 49
0.74 0.04 0.22
Matches are distributed among these distances:
14 28 0.17
15 1 0.01
16 18 0.11
17 31 0.18
18 17 0.10
19 63 0.38
20 10 0.06
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:2356 original size:33 final size:33
Alignment explanation
Indices: 2305--2461 Score: 142
Period size: 33 Copynumber: 4.6 Consensus size: 33
2295 AGAATCGCAA
2305 TGCGA-TTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
*
2338 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
* * * * *
2376 TGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCAT
1 TGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGT
2409 TGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
2443 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
2462 GCATTTTCAT
Statistics
Matches: 99, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
31 4 0.04
32 6 0.06
33 32 0.32
34 26 0.26
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.08
39 3 0.03
40 9 0.09
ACGTcount: A:0.13, C:0.24, G:0.17, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:2377 original size:52 final size:53
Alignment explanation
Indices: 2299--2518 Score: 362
Period size: 52 Copynumber: 4.2 Consensus size: 53
2289 AACGAGAGAA
*
2299 TCGCAATGCGA-TTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
2351 TCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
2403 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
* *
2456 TCGCA-TGC-ATTTTCATTTCCGCA-TGCGATTTTCAT-GTTGGGATTTTCATT
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTC-TCGTTGCGATTTTCATT
2506 TCGCATTGCGATT
1 TCGCATTGCGATT
2519 CTCTCGTTGC
Statistics
Matches: 160, Mismatches: 3, Indels: 10
0.92 0.02 0.06
Matches are distributed among these distances:
50 28 0.17
51 19 0.12
52 68 0.43
53 45 0.28
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.45
Consensus pattern (53 bp):
TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:2540 original size:33 final size:33
Alignment explanation
Indices: 2356--2532 Score: 141
Period size: 33 Copynumber: 5.2 Consensus size: 33
2346 TCATTTCGCA
2356 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
2389 TTGCGATTTTCATTTCGCATTGCGATT-T-TCAT
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTC-G
* * * * *
2421 TTCCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCG
1 TTGCG-ATTTTC-ATT-TCGCATTGCGA--TTC-TCTCG
* *
2459 CATGC-ATTTTCATTTCCGCA-TGCGATTTTCAT-G
1 -TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
2492 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
2525 TTGCGATT
1 TTGCGATT
2533 GTAATTTCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 32
0.69 0.11 0.20
Matches are distributed among these distances:
31 2 0.02
32 15 0.14
33 60 0.54
34 12 0.11
36 8 0.07
37 6 0.05
38 4 0.04
39 4 0.04
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:2551 original size:103 final size:105
Alignment explanation
Indices: 2299--2518 Score: 324
Period size: 103 Copynumber: 2.1 Consensus size: 105
2289 AACGAGAGAA
* * *
2299 TCGCAATGCGA-TTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTTTCAGTTCCGCATTGCAATTCTCTCGTTGCGATTTTCATTTCGCATTGCGAT
2363 TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
66 TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
* *
2403 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA-TGC-AT
1 TCGCATTGCGATTTTCAGTTCCGCATTGCAATTCTCTCGTTGCGATTTTCATTTCGCATTGCGAT
* *
2466 TTTCATTTCCGCA-TGCGATTTTCAT-GTTGGGATTTTCATT
66 TTTCATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTCATT
2506 TCGCATTGCGATT
1 TCGCATTGCGATT
2519 CTCTCGTTGC
Statistics
Matches: 110, Mismatches: 3, Indels: 7
0.92 0.03 0.06
Matches are distributed among these distances:
103 46 0.42
104 18 0.16
105 46 0.42
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.45
Consensus pattern (105 bp):
TCGCATTGCGATTTTCAGTTCCGCATTGCAATTCTCTCGTTGCGATTTTCATTTCGCATTGCGAT
TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:4814 original size:12 final size:12
Alignment explanation
Indices: 4797--4822 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4787 TCTTCGGGGA
4797 CTTTTTCTTCTT
1 CTTTTTCTTCTT
4809 CTTTTTCTTCTT
1 CTTTTTCTTCTT
4821 CT
1 CT
4823 CAGGATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:5031 original size:24 final size:24
Alignment explanation
Indices: 4997--5043 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4987 CTGAAACATC
4997 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
5021 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
5044 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:5763 original size:20 final size:20
Alignment explanation
Indices: 5735--5963 Score: 253
Period size: 20 Copynumber: 11.4 Consensus size: 20
5725 AAATTTCAGT
* * *
5735 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
5755 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
5775 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
5795 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
5815 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
5835 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
5855 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
5875 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
5895 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
5915 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
5935 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
5955 GTTGCGATT
1 GTTGCGATT
5964 CTGGAAAATC
Statistics
Matches: 185, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
20 184 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:7222 original size:35 final size:34
Alignment explanation
Indices: 7173--7239 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
7163 TTGGTTTTCC
* *
7173 GGAAAATGAGTTACTGGAGTTTGAATTACTGGACT
1 GGAAAATGAATTACTGGAATTTGAATT-CTGGACT
7208 GGAAAATGAATTACTGGAATTTGAATTCTGGA
1 GGAAAATGAATTACTGGAATTTGAATTCTGGA
7240 AAATGAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 5 0.17
35 25 0.83
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (34 bp):
GGAAAATGAATTACTGGAATTTGAATTCTGGACT
Found at i:7246 original size:14 final size:15
Alignment explanation
Indices: 7205--7250 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
7195 GAATTACTGG
7205 ACTGGAAAATGAATT
1 ACTGGAAAATGAATT
**
7220 ACTGGAATTTGAATT
1 ACTGGAAAATGAATT
7235 -CTGGAAAATGAATT
1 ACTGGAAAATGAATT
7249 AC
1 AC
7251 ATTTCTGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (15 bp):
ACTGGAAAATGAATT
Found at i:7628 original size:28 final size:26
Alignment explanation
Indices: 7578--7648 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 26
7568 CTTTACTAAA
* * *
7578 ATATTATTTAAAT-ATAAATAATTAT
1 ATATTATTAAAATAAAAAAAAATTAT
7603 -TCATTATTAAATATATAAAAAAAATTAT
1 AT-ATTATTAAA-ATA-AAAAAAAATTAT
7631 ATATTATTAAAATAAAAA
1 ATATTATTAAAATAAAAA
7649 TATAATATCT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
24 1 0.03
25 8 0.21
26 6 0.16
27 3 0.08
28 19 0.50
29 1 0.03
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (26 bp):
ATATTATTAAAATAAAAAAAAATTAT
Found at i:7992 original size:42 final size:42
Alignment explanation
Indices: 7933--8051 Score: 202
Period size: 42 Copynumber: 2.8 Consensus size: 42
7923 ATGAATTACG
*
7933 TTCCGGAAAATTAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAATGAATTACGTGAAACAAACACGGGAAAACATT
*
7975 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAATGAATTACGTGAAACAAACACGGGAAAACATT
* *
8017 TTCTGGAAAATGAATTACATGAAACAAACACGGGA
1 TTCCGGAAAATGAATTACGTGAAACAAACACGGGA
8052 TTTCGGGGAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.45, C:0.17, G:0.18, T:0.19
Consensus pattern (42 bp):
TTCCGGAAAATGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:10598 original size:185 final size:185
Alignment explanation
Indices: 10281--10670 Score: 597
Period size: 185 Copynumber: 2.1 Consensus size: 185
10271 ATAAAATTTT
* * *
10281 AAATTTTAAATATATTATATATAATATATGGGTCAGCCCAAATCATTTAAAACTCAATTAATAAT
1 AAATATTAAATATATTATATATAACATATGGGTCAGCCCAAATCATTTAAAACCCAATTAATAAT
* * *
10346 TTATGATCTAATAACTTTTAAATCCAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTT
66 CTAAGATCCAATAACTTTTAAATCCAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTT
10411 TATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTCTGAATTA-A
131 TATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTCTGAATTATA
*
10465 AAATATTAAATATATTTTATATAACATATGGGCTCAGCCCAAATCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGG-TCAGCCCAAATCATTTAAAACCCAATTAATAA
* * * * *
10530 TCTAAGATCCAATAATTTTTAAA-CTTAAATCAATATTAATTAATTAAAAATTTTCTATAAATTT
65 TCTAAGATCCAATAACTTTTAAATC-CAAATCAATATTAATTAATTAAAAAATTTATATAAAATT
* *
10594 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTTAATTATA
129 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTCTGAATTATA
* *
10651 AAATATTCAAT-TTTTATATA
1 AAATATTAAATATATTATATA
10671 AATTAAAAAA
Statistics
Matches: 186, Mismatches: 17, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
184 30 0.16
185 145 0.78
186 11 0.06
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (185 bp):
AAATATTAAATATATTATATATAACATATGGGTCAGCCCAAATCATTTAAAACCCAATTAATAAT
CTAAGATCCAATAACTTTTAAATCCAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTT
TATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTCTGAATTATA
Found at i:11738 original size:51 final size:50
Alignment explanation
Indices: 11678--11778 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 50
11668 AACTCCGTAC
11678 AGTTGTGTAAACAAATCTTTAACTTGGACTTTTCAATGCCGAATATCATGG
1 AGTTGTGTAAACAAATCTTTAACTTGGA-TTTTCAATGCCGAATATCATGG
11729 AGTTGTGTAAACAAATCTTTAACTTGGATTTTCAATGCCGAATATCATGG
1 AGTTGTGTAAACAAATCTTTAACTTGGATTTTCAATGCCGAATATCATGG
11779 CTAATCCGGC
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 22 0.44
51 28 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.36
Consensus pattern (50 bp):
AGTTGTGTAAACAAATCTTTAACTTGGATTTTCAATGCCGAATATCATGG
Found at i:12211 original size:19 final size:21
Alignment explanation
Indices: 12168--12212 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
12158 TAGAATATAA
12168 AATTA-TTTTTTTATCATATT
1 AATTATTTTTTTTATCATATT
12188 -A-TATTTTTTTTAT-AT-TT
1 AATTATTTTTTTTATCATATT
12205 AATTATTT
1 AATTATTT
12213 AACCAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
17 2 0.09
18 5 0.23
19 15 0.68
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
AATTATTTTTTTTATCATATT
Found at i:12442 original size:8 final size:8
Alignment explanation
Indices: 12426--12459 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
12416 GCAGATATAG
12426 AACTCTCA
1 AACTCTCA
*
12434 AACTTTCA
1 AACTCTCA
*
12442 AACTCTTA
1 AACTCTCA
12450 AACTCTCA
1 AACTCTCA
12458 AA
1 AA
12460 ATGAGACATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.41, C:0.29, G:0.00, T:0.29
Consensus pattern (8 bp):
AACTCTCA
Found at i:16109 original size:20 final size:21
Alignment explanation
Indices: 16070--16110 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16060 TATGAGAAAT
*
16070 TGTTTTAAAATATAAAAATGA
1 TGTTTCAAAATATAAAAATGA
*
16091 TGTTTCAAAAT-TGAAAATGA
1 TGTTTCAAAATATAAAAATGA
16111 AAATAAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.37
Consensus pattern (21 bp):
TGTTTCAAAATATAAAAATGA
Found at i:19472 original size:20 final size:20
Alignment explanation
Indices: 19447--19498 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
19437 TTTTTGTGCA
19447 GAGGGAATCGATACCCTCAT
1 GAGGGAATCGATACCCTCAT
19467 GAGGGAATCGATACCCTCAT
1 GAGGGAATCGATACCCTCAT
*
19487 GAGGGAACCGAT
1 GAGGGAATCGAT
19499 TCCCCCTTTG
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:0.31, C:0.23, G:0.29, T:0.17
Consensus pattern (20 bp):
GAGGGAATCGATACCCTCAT
Found at i:28676 original size:19 final size:21
Alignment explanation
Indices: 28652--28693 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
28642 AAATCCACTT
*
28652 TAAAAT-TTTAT-TTATTATA
1 TAAAATCTTTATATCATTATA
28671 TAAAATCTTTATATCATTATA
1 TAAAATCTTTATATCATTATA
28692 TA
1 TA
28694 TATATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 5 0.25
21 9 0.45
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (21 bp):
TAAAATCTTTATATCATTATA
Found at i:34697 original size:32 final size:32
Alignment explanation
Indices: 34651--34727 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
34641 ATATCAATAT
* * * *
34651 TGAAAATTTTCTGAA-ATGATTTGATATATCAC
1 TGAAAAGTTGCTGAAGATGA-TTGATAGAGCAC
* *
34683 TGAAAAGTTGCTGAAGATGATTGATGGGGCAC
1 TGAAAAGTTGCTGAAGATGATTGATAGAGCAC
34715 TGAAAAGTTGCTG
1 TGAAAAGTTGCTG
34728 GCATTTTATG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 34 0.89
33 4 0.11
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.32
Consensus pattern (32 bp):
TGAAAAGTTGCTGAAGATGATTGATAGAGCAC
Found at i:34956 original size:147 final size:148
Alignment explanation
Indices: 34679--35090 Score: 465
Period size: 147 Copynumber: 2.8 Consensus size: 148
34669 ATTTGATATA
**
34679 TCACTGAAAAGTTGCTGAAGATGATTGATGGGGCACTGAAAAGTTGCTGGCATTTTATGGCATGC
1 TCACTGAAAAGTTGCTGAAGATGATTGATGGGGCACTGAAAAGTTGCTAACATTTTATGGCATGC
* * * * * * *
34744 TGCATTATTAAT-AGCA-TTTCTGAAGGTTATCAATGACCCATTTTGACATTTTTGGGCTTGATG
66 TGCATTATTAATGA-CATTTTCTGAAGATTATTAATGGCTCGTTTTGACATTTTCGGGCATGATG
* *
34807 CATTAATAGAGATGGCAGC
130 CATTAATAAAGATGACAGC
* * * * *
34826 TCACTGAAACGTTTCTGAAGATGATTGATTGGGCACTAAAAAGTTACTAACATTTT-TGGCATGC
1 TCACTGAAAAGTTGCTGAAGATGATTGATGGGGCACTGAAAAGTTGCTAACATTTTATGGCATGC
* *
34890 TGCATTATTAATGACATTTTCTGAAGATTATTAATGGTTCGTTTTGACATTTTCGGGCATGGTGC
66 TGCATTATTAATGACATTTTCTGAAGATTATTAATGGCTCGTTTTGACATTTTCGGGCATGATGC
* **
34955 ATTATTAAAGATGACATT
131 ATTAATAAAGATGACAGC
* * **
34973 TCACTGAAAAGTTGCT-AGAGACT-ATTGATGGGGCACTGAAAAGTTGCTTACATTTTCTACCAT
1 TCACTGAAAAGTTGCTGA-AGA-TGATTGATGGGGCACTGAAAAGTTGCTAACATTTTATGGCAT
* * * * * ** *
35036 GTTGCATTATTGAGGGCATTTTCTTATTATTATTAATGGCTCGTTTTGACCTTTT
64 GCTGCATTATTAATGACATTTTCTGAAGATTATTAATGGCTCGTTTTGACATTTT
35091 TGGTTGAAGC
Statistics
Matches: 222, Mismatches: 38, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
146 23 0.10
147 148 0.67
148 51 0.23
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (148 bp):
TCACTGAAAAGTTGCTGAAGATGATTGATGGGGCACTGAAAAGTTGCTAACATTTTATGGCATGC
TGCATTATTAATGACATTTTCTGAAGATTATTAATGGCTCGTTTTGACATTTTCGGGCATGATGC
ATTAATAAAGATGACAGC
Found at i:38816 original size:17 final size:17
Alignment explanation
Indices: 38794--38828 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
38784 AAAATAAGAA
38794 TAAGATATATTTTTAAG
1 TAAGATATATTTTTAAG
38811 TAAGATATATTTTTAAG
1 TAAGATATATTTTTAAG
38828 T
1 T
38829 TAAAATAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (17 bp):
TAAGATATATTTTTAAG
Found at i:39282 original size:29 final size:28
Alignment explanation
Indices: 39250--39330 Score: 69
Period size: 29 Copynumber: 2.9 Consensus size: 28
39240 ATTTTAAATC
*
39250 GTGTTTTAACTATAATTTAATATATATAT
1 GTGTTTTAA-TATAATTTAATATATAGAT
** *
39279 GTGTGTGAAATATAATTT-ATTTATTAGAT
1 GTGT-TTTAATATAATTTAATATA-TAGAT
*
39308 TTGTTTT-A-ATAATTTAATATATA
1 GTGTTTTAATATAATTTAATATATA
39331 ATATATATGT
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
26 9 0.22
27 5 0.12
28 5 0.12
29 19 0.46
30 3 0.07
ACGTcount: A:0.37, C:0.01, G:0.10, T:0.52
Consensus pattern (28 bp):
GTGTTTTAATATAATTTAATATATAGAT
Found at i:46083 original size:22 final size:23
Alignment explanation
Indices: 46049--46092 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
46039 TTAAAAAATA
46049 AAAAAGAGCAAGAAAATTAAACG
1 AAAAAGAGCAAGAAAATTAAACG
* *
46072 AAAAAG-GGAAGAAATTTAAAC
1 AAAAAGAGCAAGAAAATTAAAC
46093 CGGTTAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.64, C:0.07, G:0.18, T:0.11
Consensus pattern (23 bp):
AAAAAGAGCAAGAAAATTAAACG
Found at i:46934 original size:20 final size:21
Alignment explanation
Indices: 46900--46939 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
46890 ACCTCAAGCG
46900 TCGTAAATATAATCATATAAA
1 TCGTAAATATAATCATATAAA
46921 TCGTAAAT-TAATCATATAA
1 TCGTAAATATAATCATATAA
46940 TCAAGCGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (21 bp):
TCGTAAATATAATCATATAAA
Found at i:47930 original size:31 final size:31
Alignment explanation
Indices: 47884--47942 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
47874 AATTTAAAAG
* *
47884 AGTTTTGCAACACTGAGATTTAAATAATTTT
1 AGTTTTACAACACTGAAATTTAAATAATTTT
*
47915 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAACACTGAAATTTAAATAAT
47943 CCATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (31 bp):
AGTTTTACAACACTGAAATTTAAATAATTTT
Found at i:47993 original size:22 final size:22
Alignment explanation
Indices: 47967--48009 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
47957 TAATAAATTA
47967 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
47989 TTTAAAATAAATCAGTCCATA
1 TTTAAAATAAATCAATCCATA
48010 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:48018 original size:22 final size:22
Alignment explanation
Indices: 47969--48017 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
47959 ATAAATTATT
**
47969 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
47991 TAAAATAAATCAGTCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
48014 TAAA
1 TAAA
48018 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:48027 original size:32 final size:32
Alignment explanation
Indices: 47989--49328 Score: 981
Period size: 32 Copynumber: 46.7 Consensus size: 32
47979 CAATCCATAT
*
47989 TTTAAAATAAATCAGTCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
48021 TTTAAAATAAATC-A---AT-CT-AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
48043 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
48075 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
**
48105 --T--AATAAATCAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
48130 --T-AAATCAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
48159 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
48191 TTTAAAATAAAACAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
**
48221 --T--AATAAATCAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* * *
48246 --T-AAATCAATCAATCCATGCAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
48275 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
48307 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
48329 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
48361 TTTAAAATAAATCAATCCATTC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
**
48391 --T--AATAAATCAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
48416 --T-AAATCAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
48445 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
**
48477 TTTAAAATAAATCAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
48506 --T-AAATCAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
48535 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
48567 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
**
48597 --T--AATAAATCAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
48622 --T-AAATCAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
48651 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
48683 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
48705 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
48737 TTTAAAATAAATCGATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* **
48767 --T--AATAAATCAATCCATATTTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
48793 --T-AAATCAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
48822 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
48854 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
**
48884 --T--AATAAATCAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
48909 --T-AAATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
48938 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
48970 TTTAAAATAAAACAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* **
49000 --T--AAGAAATCAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
49025 --T-AAATCAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
49054 TTTAAAATAAATCAAATTCATACTAATAAATTA
1 TTTAAAATAAATC-AATCCATACTAATAAATTA
49087 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
49109 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
49141 TTTAAAATAAATCAATACATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
49171 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
49189 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
49221 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
49243 TTTAAAATAAATCAATCCATACTAATAATTTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
49275 TTTAAAATAAATTAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
49307 TTTTAAAATAAATCAATCCATA
1 -TTTAAAATAAATCAATCCATA
49329 TTTTATAATA
Statistics
Matches: 1071, Mismatches: 101, Indels: 271
0.74 0.07 0.19
Matches are distributed among these distances:
20 1 0.00
22 91 0.08
23 11 0.01
24 7 0.01
25 31 0.03
26 246 0.23
27 53 0.05
28 24 0.02
29 9 0.01
30 12 0.01
31 38 0.04
32 498 0.46
33 50 0.05
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:48072 original size:22 final size:22
Alignment explanation
Indices: 48023--48071 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
48013 ATAAATTATT
* **
48023 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
48045 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
48068 TAAA
1 TAAA
48072 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:48127 original size:80 final size:82
Alignment explanation
Indices: 48026--48180 Score: 260
Period size: 84 Copynumber: 1.9 Consensus size: 82
48016 AATTATTTAA
* *
48026 AATAAATCAATCTATATTTTAAAAT-A-AATCAATCCATACTAATAAATTATTTAAAATAAATCA
1 AATAAATCAATCCATATTTTAAAATAACAATCAATCCATACAAATAAATTATTTAAAATAAATCA
48089 ATCCATACAACTACAAT
66 ATCCATACAACTACAAT
48106 AATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAAT
1 AATAAATCAATCCATATTTTAAAAT-AA-CAATCAATCCATACAAATAAATTATTTAAAATAAAT
48171 CAATCCATAC
64 CAATCCATAC
48181 TAATAAATTA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
80 24 0.35
82 1 0.01
84 44 0.64
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (82 bp):
AATAAATCAATCCATATTTTAAAATAACAATCAATCCATACAAATAAATTATTTAAAATAAATCA
ATCCATACAACTACAAT
Found at i:48133 original size:116 final size:112
Alignment explanation
Indices: 47957--49295 Score: 649
Period size: 116 Copynumber: 11.8 Consensus size: 112
47947 ACAACTACAA
* ** *
47957 TAATAAATTATTTAAAATAAATCAATCCAT--ATTTTAA-AATAAATCAGTCCATACT-AATAAA
1 TAATAAATTATTTAAAATAAATCAATCCATACAATAAAATAATAAATCAATCCATACTAAATAAA
*
48018 TTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
66 TTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
48065 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAA
1 TAATAAATTATTTAAAATAAATCAATCCATACAA-TAAAATAATAAATCAATCCATA--CT-AAA
* * * * *
48130 TAAATCAATCAATCCATACAAATAAAT---TA-TTTAAAATAAATCAATCCATAC
62 TAAATTATTTAA---A-ATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * *
48181 TAATAAATTATTTAAAATAAAACAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAA
1 TAATAAATTATTTAAAATAAATCAATCCATACAA-TAAAATAATAAATCAATCCATA--CT-AAA
* * * * *
48246 TAAATCAATCAATCCATGCAAATAAAT---TA-TTTAAAATAAATCAATCCATAC
62 TAAATTATTTAA--AAT--AAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
48297 TAATAAATTATTTAAAATAAATCAATCCAT--ATTTTAA-AATAAATCAATCCATACT-AATAAA
1 TAATAAATTATTTAAAATAAATCAATCCATACAATAAAATAATAAATCAATCCATACTAAATAAA
* **
48358 TTATTTAAAATAAATCAATCCATTCAACTACAATAATAAATCAATCCATA-
66 TTATTTAAAATAAATCAATCCA-T--ATTTTAA-AATAAATCAATCCATAC
** *
48408 TTTTAAA--A--T-AAATCAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACT
1 TAATAAATTATTTAAAATAAATCAATCCATAC-AATAAA--A--T--AATAAATCAATCCATACT
48468 -AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATAC
59 AAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAT--A--AATCAATCCATAC
* *
48525 AAATAAATTATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATAC-
1 TAATAAATTATTTAAAATAAATCAATCCATAC-AATAAA--A--T--AATAAATCAATCCATACT
* *
48589 AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATAC
59 AAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAT--A--AATCAATCCATAC
*
48641 AAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATT
1 TAATAAATTATTTAAAATAAATCAATCCATAC-AATAAA--A--T--AATAAATCAATCCATA--
* * * ** * ** * *
48706 TTAAAATAAATCAATCCATACTAATAAAT---TA-TTTAAAATAAATCGATCCATAC
57 CT-AAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *** *
48759 -AACTACA--A--T--AATAAATCAATCCATATTTTTAAAATAAATCAATCAATCCATACT-AAT
1 TAA-TAAATTATTTAAAATAAATCAATCCATA-CAATAAAAT-AATAAATCAATCCATACTAAAT
48816 AAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC
63 AAATTATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATAC
* *** *
48876 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATAAATCAATCTATAC-AAATA
1 TAA-TAAATTATTTAAAATAAATCAATCCATACAATAAAAT-AATAAATCAATCCATACTAAATA
*
48933 AATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAACAATCCATAC
64 AATTATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATAC
* * *** *
48992 -AACTACA--A--T--AAGAAATCAATCCATATTTTAAAATAAATCAATCAATCCATAC-AAATA
1 TAA-TAAATTATTTAAAATAAATCAATCCATACAATAAAAT-AATAAATCAATCCATACTAAATA
* ** * ** * **
49049 AATTATTTAAAATAAATCAAATTCATACTAATAAATTATTTAAAATAAAT-C
64 AATTATTTAAAATAAATC-AATCCATA-TTTTAAAATAAAT-CAATCCATAC
** * * * *
49100 -AATCCA-TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-CA-A-TACA
1 TAATAAATTA-TTTAAAATAAATCAATCCATAC-AATAAAATA-AT-AAATCAATCCATACTAAA
* *
49160 TACAACTA--CAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
62 TA-AATTATTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** *
49211 TAATAAATTATTTAAAATAAATCAATCCAT--ATTTTAA-AATAAATCAATCCATACT-AATAAT
1 TAATAAATTATTTAAAATAAATCAATCCATACAATAAAATAATAAATCAATCCATACTAAATAAA
*
49272 TTATTTAAAATAAATTAATCCATA
66 TTATTTAAAATAAATCAATCCATA
49296 CTAATAAATT
Statistics
Matches: 1020, Mismatches: 119, Indels: 184
0.77 0.09 0.14
Matches are distributed among these distances:
103 17 0.02
104 7 0.01
105 1 0.00
106 24 0.02
107 26 0.03
108 73 0.07
109 17 0.02
110 9 0.01
111 24 0.02
112 104 0.10
113 39 0.04
114 18 0.02
115 8 0.01
116 493 0.48
117 57 0.06
118 16 0.02
119 2 0.00
120 15 0.01
121 1 0.00
122 60 0.06
123 2 0.00
126 7 0.01
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (112 bp):
TAATAAATTATTTAAAATAAATCAATCCATACAATAAAATAATAAATCAATCCATACTAAATAAA
TTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:48304 original size:170 final size:168
Alignment explanation
Indices: 47986--48556 Score: 626
Period size: 170 Copynumber: 3.3 Consensus size: 168
47976 AATCAATCCA
* * * **
47986 TATTTTAAAATAAATCAGTCCATACTAATAAATTATTTAAAATAAATCAAT-C-TA-TATTTTAA
1 TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAA
** * * *
48048 -AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACA--A--T--
66 TAATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCAATCCATACAAATAAATTATTTAA
*
48106 AATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAAT-
125 AATAAATCAATCCATA--CT--AATAAATCAATCAA---A-ACAAATAAATC
*
48157 TA-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAACAATCCATACAACTACAA
1 TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAA
*
48221 TAATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATGCAAATAAATTATTTAAAATAAA
66 TAATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAA
* * * * *
48286 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
131 TCAATCCATACTAATAAATCAATCAAAACAAATAAAT-C
*
48325 ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATTCAACTACA
1 -TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACA
48390 ATAATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAA
65 ATAATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAA
* * * * *
48455 ATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
130 ATCAATCCATACTAATAAATCAATCAAAACAAATAAAT-C
* *
48495 ATATTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCTATAC
1 -TATTTTAAAAT--A--AATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC
48557 TAATAAATTA
Statistics
Matches: 358, Mismatches: 24, Indels: 33
0.86 0.06 0.08
Matches are distributed among these distances:
166 8 0.02
167 1 0.00
168 21 0.06
169 3 0.01
170 233 0.65
171 4 0.01
172 5 0.01
173 9 0.03
174 74 0.21
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (168 bp):
TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAA
TAATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAA
TCAATCCATACTAATAAATCAATCAAAACAAATAAATC
Found at i:48333 original size:22 final size:22
Alignment explanation
Indices: 48307--48349 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
48297 TAATAAATTA
48307 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
48329 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
48350 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:48358 original size:22 final size:22
Alignment explanation
Indices: 48309--48357 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
48299 ATAAATTATT
**
48309 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
48331 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
48354 TAAA
1 TAAA
48358 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:48452 original size:206 final size:205
Alignment explanation
Indices: 48247--49162 Score: 1175
Period size: 206 Copynumber: 4.5 Consensus size: 205
48237 ATTTTAAAAT
* * * ** * **
48247 AAATCAATCAATCCATGCAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-A
* *
48312 AATAAATCAAT-C-CAT-A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
64 AATCAATCAATACAAATAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
*
48372 TCAATCCATTCAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAA
129 TCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAA
48437 ATAAATTATTTA
194 ATAAATTATTTA
*
48449 AAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAA
1 AAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATAAA
* *
48514 TCAATCCATACAAATAAATTATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAAT
66 TCAATCAATACAAAT-AATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
48579 CAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAA
130 CAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAA
48644 TAAATTATTTA
195 TAAATTATTTA
48655 AAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTT---A-AAATAAA
1 AAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATAAA
* * * *
48716 TCAATCCATACTAATAAATTATTTAAAATAAATCGATCCATAC-AACTACA--A--T--AATAAA
66 TCAATCAATACAAAT-AATTATTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAA
**** * * ** *
48774 TCAATCCATATTTTTAAAATAAATCAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC
129 TCAATCCATACAACTACAAT-AATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCAATC
*
48839 CATACTAATAAATTATTTA
187 CATACAAATAAATTATTTA
*
48858 AAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATAA
1 AAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATAA
*
48916 ATCAATCTATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
65 ATCAATCAATACAAAT-AATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
* *
48981 ACAATCCATACAACTACAATAAGAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAA
129 TCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAA
49046 ATAAATTATTTA
194 ATAAATTATTTA
*
49058 AAATAAATCAAATTCATACTAATAAATTATTTAAAATAAATCAATCCATATTTT---A-AAATAA
1 AAATAAATC-AATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATAA
* * *
49119 ATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATAC
65 ATCAATCAATACAAAT-AATTATTTAAAATAAATCAATCCATAC
49163 AACTACAATA
Statistics
Matches: 629, Mismatches: 51, Indels: 67
0.84 0.07 0.09
Matches are distributed among these distances:
196 21 0.03
197 35 0.06
198 6 0.01
199 1 0.00
200 51 0.08
201 74 0.12
202 104 0.17
203 102 0.16
204 2 0.00
205 8 0.01
206 185 0.29
207 40 0.06
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.32
Consensus pattern (205 bp):
AAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATAAA
TCAATCAATACAAATAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC
AATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAAT
AAATTATTTA
Found at i:48544 original size:14 final size:14
Alignment explanation
Indices: 48525--48578 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
48515 CAATCCATAC
48525 AAATAAATTATTTA
1 AAATAAATTATTTA
*
48539 AAATAAATCAATCTATA
1 AAATAAAT-TAT-T-TA
*
48556 CTAATAAATTATTTA
1 -AAATAAATTATTTA
48571 AAATAAAT
1 AAATAAAT
48579 CAATCCATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 4 0.12
16 2 0.06
17 4 0.12
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:48709 original size:22 final size:22
Alignment explanation
Indices: 48683--48725 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
48673 TAATAAATTA
48683 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
48705 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
48726 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:48734 original size:22 final size:22
Alignment explanation
Indices: 48685--48733 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
48675 ATAAATTATT
**
48685 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
48707 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
48730 TAAA
1 TAAA
48734 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:48933 original size:18 final size:18
Alignment explanation
Indices: 48910--48967 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
48900 ATTTTAAAAT
48910 AAATAAATCAATCTATAC
1 AAATAAATCAATCTATAC
*
48928 AAATAAAT-TAT-T-TA-
1 AAATAAATCAATCTATAC
*
48942 AAATAAATCAATCCATAC
1 AAATAAATCAATCTATAC
*
48960 TAATAAAT
1 AAATAAAT
48968 TATTTAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 8 0.25
15 4 0.12
16 1 0.03
17 4 0.12
18 15 0.47
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAAATCAATCTATAC
Found at i:49113 original size:22 final size:22
Alignment explanation
Indices: 49087--49129 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
49077 TAATAAATTA
49087 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
49109 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
49130 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:49118 original size:171 final size:166
Alignment explanation
Indices: 48854--49328 Score: 565
Period size: 171 Copynumber: 2.8 Consensus size: 166
48844 TAATAAATTA
* * **
48854 TTTAAAATAAATCAATCCATACAACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATATAATAAAATAAA
*
48913 TAAATCAATCTATACAAATAA-ATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAA
66 TAAAT-AA---ATACTAATAATA-TATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAA
*
48977 TAAAACAATCCATACAACTACAATAAGAAATCAATCCATAT
126 TAAATCAATCCATACAACTACAATAAGAAATCAATCCATAT
*
49018 TTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAATCAAATTCATACTAATAA
1 TTTAAAAT--A--AATCAATCCATACAAATAAATTATTTAAAATAAATC-AATCCATA-TAATAA
* ** *
49083 ATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTA
60 AATAAAT-AAATAAATACTAAT-AATATATTTAAAATAAATCAATCCATACTAATAAATTATTTA
* *
49145 AAATAAATCAATACATACAACTACAATAATAAATCAATCCATAT
123 AAATAAATCAATCCATACAACTACAATAAGAAATCAATCCATAT
* **
49189 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATATAATAAAATAAA
* ** * *
49254 TCAATCCATACTAATAATTTATTTAAAATAAATTAATCCATACTAATAAATTATTTTAAAATAAA
66 TAAATAAATACTAATAATATATTTAAAATAAATCAATCCATACTAATAAATTA-TTTAAAATAAA
49319 TCAATCCATA
130 TCAATCCATA
49329 TTTTATAATA
Statistics
Matches: 266, Mismatches: 26, Indels: 35
0.81 0.08 0.11
Matches are distributed among these distances:
164 13 0.05
165 12 0.05
166 42 0.16
167 55 0.21
168 18 0.07
169 1 0.00
170 1 0.00
171 88 0.33
172 4 0.02
173 3 0.01
174 8 0.03
175 7 0.03
176 10 0.04
177 4 0.02
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (166 bp):
TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATATAATAAAATAAA
TAAATAAATACTAATAATATATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
CAATCCATACAACTACAATAAGAAATCAATCCATAT
Found at i:49138 original size:22 final size:22
Alignment explanation
Indices: 49089--49137 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
49079 ATAAATTATT
**
49089 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
49111 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
49134 TAAA
1 TAAA
49138 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:49218 original size:22 final size:22
Alignment explanation
Indices: 49143--49217 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
49133 ATAAATTATT
* *
49143 TAAAATAAATCAATACATACAA
1 TAAAATAAATCAATCCATATAA
**
49165 CTACAATAATAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATATAA
49191 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
49214 TAAA
1 TAAA
49218 TTATTTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 16 0.38
23 8 0.19
25 3 0.07
26 15 0.36
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:49247 original size:22 final size:22
Alignment explanation
Indices: 49221--49263 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
49211 TAATAAATTA
49221 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
49243 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
49264 CTAATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:49318 original size:15 final size:15
Alignment explanation
Indices: 49298--49395 Score: 82
Period size: 15 Copynumber: 6.5 Consensus size: 15
49288 AATCCATACT
49298 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
49313 AATAAATCAATCCATATTTTAT
1 AATAAAT---T--AT--TTTAA
49335 AATAAATTATTTTAA
1 AATAAATTATTTTAA
49350 AAT--A--A-T-TAA
1 AATAAATTATTTTAA
49359 AATAAATTATTTTAA
1 AATAAATTATTTTAA
49374 AATAAATTATTTTAA
1 AATAAATTATTTTAA
49389 AATAAAT
1 AATAAAT
49396 AACCTTATTA
Statistics
Matches: 68, Mismatches: 2, Indels: 26
0.71 0.02 0.27
Matches are distributed among these distances:
9 6 0.09
10 1 0.01
11 2 0.03
13 2 0.03
14 1 0.01
15 39 0.57
17 2 0.03
18 1 0.01
19 1 0.01
20 2 0.03
22 11 0.16
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:49347 original size:37 final size:33
Alignment explanation
Indices: 49240--49354 Score: 151
Period size: 32 Copynumber: 3.4 Consensus size: 33
49230 AATCAATCCA
* *
49240 TATTTTAAAATAAATCAATCCATACTAATAATT
1 TATTTTAAAATAAATCAATCCATAATAATAAAT
* *
49273 TA-TTTAAAATAAATTAATCCATACTAATAAAT
1 TATTTTAAAATAAATCAATCCATAATAATAAAT
49305 TATTTTAAAATAAATCAATCCATATTTTATAATAAAT
1 TATTTTAAAATAAATCAATCCATA----ATAATAAAT
49342 TATTTTAAAATAA
1 TATTTTAAAATAA
49355 TTAAAATAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
32 30 0.41
33 22 0.30
37 21 0.29
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (33 bp):
TATTTTAAAATAAATCAATCCATAATAATAAAT
Found at i:49381 original size:39 final size:37
Alignment explanation
Indices: 49298--49397 Score: 137
Period size: 39 Copynumber: 2.6 Consensus size: 37
49288 AATCCATACT
* ** *
49298 AATAAATTATTTTAAAATAAATCAATCCATATTTTAT
1 AATAAATTATTTTAAAATAAATAAATAAATATTTTAA
*
49335 AATAAATTATTTTAAAATAATTAAAATAAATTATTTTAA
1 AATAAATTATTTTAAAATAAAT-AAATAAA-TATTTTAA
49374 AATAAATTATTTTAAAATAAATAA
1 AATAAATTATTTTAAAATAAATAA
49398 CCTTATTAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
37 21 0.38
38 6 0.11
39 28 0.51
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (37 bp):
AATAAATTATTTTAAAATAAATAAATAAATATTTTAA
Found at i:50594 original size:21 final size:20
Alignment explanation
Indices: 50565--50960 Score: 209
Period size: 21 Copynumber: 18.9 Consensus size: 20
50555 ATTTACATAT
*
50565 TTGCATTGCGATAGTCCAAG
1 TTGCGTTGCGATAGTCCAAG
*
50585 TTCGCGTTGCGATAGTCGAAG
1 TT-GCGTTGCGATAGTCCAAG
* *
50606 TTCGCGTTGCGA-A-TCTGGAAA
1 TT-GCGTTGCGATAGTC--CAAG
* ** * *
50627 CTGATTTGTGATAGTCGAAG
1 TTGCGTTGCGATAGTCCAAG
* * * *
50647 TTTGCGTTACGATTTATTACAAA
1 -TTGCGTTGCGA--TAGTCCAAG
50670 TT-CGTTGCGATAGTCCAAG
1 TTGCGTTGCGATAGTCCAAG
*
50689 TT-CGTTGCGATAGTCGAAG
1 TTGCGTTGCGATAGTCCAAG
* *
50708 TTCGCGTTGCGATTTATTCCAAA
1 TT-GCGTTGCGA--TAGTCCAAG
*
50731 TT-CGTTGCGATTTATTCCAAG
1 TTGCGTTGCGA--TAGTCCAAG
* * *
50752 TTCGCGTTGCGATTTATTTCAAA
1 TT-GCGTTGCGA--TAGTCCAAG
50775 TT-CGTTGCGATAGTCCAAG
1 TTGCGTTGCGATAGTCCAAG
* *
50794 TTCGCGTTGCGATTTATTCCAAA
1 TT-GCGTTGCGA--TAGTCCAAG
50817 TT-CGTTGCGATAGTCCAAG
1 TTGCGTTGCGATAGTCCAAG
* *
50836 TTCGCGTTGCGATTTATTCCAAA
1 TT-GCGTTGCGA--TAGTCCAAG
*
50859 TT-CGTTGCGATAGTCGAAG
1 TTGCGTTGCGATAGTCCAAG
*
50878 TTCGCGTTGCGATTTATTCCAAG
1 TT-GCGTTGCGA--TAGTCCAAG
* *
50901 TT-CGTTGAGATAGTCGAAG
1 TTGCGTTGCGATAGTCCAAG
*
50920 TTCGCGTTGCGATTTATTCCAAG
1 TT-GCGTTGCGA--TAGTCCAAG
*
50943 TT-CGTTGTGATAGTCCAA
1 TTGCGTTGCGATAGTCCAA
50961 AATTGCAACG
Statistics
Matches: 296, Mismatches: 50, Indels: 61
0.73 0.12 0.15
Matches are distributed among these distances:
19 69 0.23
20 12 0.04
21 143 0.48
22 4 0.01
23 68 0.23
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (20 bp):
TTGCGTTGCGATAGTCCAAG
Found at i:50729 original size:42 final size:42
Alignment explanation
Indices: 50683--50960 Score: 448
Period size: 42 Copynumber: 6.6 Consensus size: 42
50673 GTTGCGATAG
* *
50683 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
1 TCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
*
50725 TCCAAATTCGTTGCGATTTATTCCAAGTTCGCGTTGCGATTTAT
1 TCCAAATTCGTTGCGA--TAGTCCAAGTTCGCGTTGCGATTTAT
*
50769 TTCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
1 TCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
50811 TCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
1 TCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
*
50853 TCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
1 TCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
* * *
50895 TCCAAGTTCGTTGAGATAGTCGAAGTTCGCGTTGCGATTTAT
1 TCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
* *
50937 TCCAAGTTCGTTGTGATAGTCCAA
1 TCCAAATTCGTTGCGATAGTCCAA
50961 AATTGCAACG
Statistics
Matches: 223, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
42 184 0.83
44 39 0.17
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (42 bp):
TCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
Found at i:51866 original size:42 final size:42
Alignment explanation
Indices: 51807--52170 Score: 608
Period size: 42 Copynumber: 8.7 Consensus size: 42
51797 TGCGATTTTG
**
51807 GACTATCGCAACGAACTTAAAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
51849 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
51891 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
51933 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
51975 GACTATCGCAACGAATTTAGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
52017 GACTATCGCAACGAACTT-GAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
52058 GACTATCGCAACGAACTTGGAATAAATTGCAACGGGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
52100 GACTATCGCAATGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
52142 GACTATCGCAACGAATTTGG-A-AAATCGCA
1 GACTATCGCAACGAACTTGGAATAAATCGCA
52171 TTGCGATAGT
Statistics
Matches: 303, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
40 8 0.03
41 42 0.14
42 253 0.83
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:52516 original size:13 final size:13
Alignment explanation
Indices: 52493--52524 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
52483 CCCCTACTAC
52493 ATTATTCATATTAT
1 ATTA-TCATATTAT
52507 ATTATCATATTAT
1 ATTATCATATTAT
52520 ATTAT
1 ATTAT
52525 ATAGATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTATCATATTAT
Found at i:57314 original size:16 final size:16
Alignment explanation
Indices: 57270--57317 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
57260 CCGCCCAAGA
* *
57270 TAATTTTTTTTATACTT
1 TAATTTTATTTA-ATTT
* *
57287 TCATTATATTTAATTT
1 TAATTTTATTTAATTT
57303 TAATTTTATTTAATT
1 TAATTTTATTTAATT
57318 CAAATTAAGT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (16 bp):
TAATTTTATTTAATTT
Found at i:60821 original size:20 final size:20
Alignment explanation
Indices: 60796--60847 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
60786 GTAAAAATAT
*
60796 GACAAAACCGGTCTCTAAAG
1 GACAAAACCGGTCTCTAAAA
*
60816 GACAAAATCGGTCTCTAAAA
1 GACAAAACCGGTCTCTAAAA
60836 GACAAAACCGGT
1 GACAAAACCGGT
60848 ATAGAGCGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.15
Consensus pattern (20 bp):
GACAAAACCGGTCTCTAAAA
Found at i:61268 original size:183 final size:182
Alignment explanation
Indices: 60816--61436 Score: 942
Period size: 183 Copynumber: 3.4 Consensus size: 182
60806 GTCTCTAAAG
* * *
60816 GACAAAATCGGTCTCTAAAAGACAAAACCGGTATAGAGCGACCATATATATTGAAAGTGTCGATA
1 GACAAAACCGGTCTCTAAAGGACAAAACCGGTATAGAGCGACCAGATATATTGAAAGTGTCGATA
*
60881 CTTTAATATAAGTATCGACACTTTGTAAATTTAAAAGAGAATCAGTTTTAGCGCCTATAAAGTGT
66 CTTTAATATAAGTATCGACACTTTGTAAATTTAAAAGAGAATCAATTTTAGCGCCTATAAAGTGT
* *
60946 CTATATTTTATAACAATGTATCGATCCACAACGATATAACAAGTAAAAATAT
131 CGATACTTTATAACAATGTATCGATCCACAACGATATAACAAGTAAAAATAT
* * *
60998 GACAAAACCGGTCTCTAAAGGATAAAATCGATATAGAGCGACC-GAATATATTGAAAGTGTCGAT
1 GACAAAACCGGTCTCTAAAGGACAAAACCGGTATAGAGCGACCAG-ATATATTGAAAGTGTCGAT
* * *
61062 ACTTTAATATAAGTATCGACACTTTGTAAATTTAAAAGAGAAGCAATTTTAGTGCCCATAAAGTG
65 ACTTTAATATAAGTATCGACACTTTGTAAATTTAAAAGAGAATCAATTTTAGCGCCTATAAAGTG
* ** *
61127 TCGATACTTTATAACAATGTATCGATCCAAAAAAAATATAACAGGTAAAAATAT
130 TCGATACTTTATAACAATGTATCGATCC-ACAACGATATAACAAGTAAAAATAT
*
61181 GACAAAACCGGTCTCTAAAGGACAAAACCGGTATAGAGCGACCAGATATATTGAAAGTGTTGATA
1 GACAAAACCGGTCTCTAAAGGACAAAACCGGTATAGAGCGACCAGATATATTGAAAGTGTCGATA
* * *
61246 CTTTAATATAAGTATTGACACTTTGTGAATTTAAAAGAGAATCAATTTTAGCGCCTATAAAGTAT
66 CTTTAATATAAGTATCGACACTTTGTAAATTTAAAAGAGAATCAATTTTAGCGCCTATAAAGTGT
* *
61311 CGATACTTTATACCAATGTATCGATCCACAACGATATAACATGTAAAAAATAT
131 CGATACTTTATAACAATGTATCGATCCACAACGATATAACAAGT-AAAAATAT
* * *
61364 GACAAAACCGGTCTCGAAATGACAAAACCGGTA-A-AGCGTTACCAGATATATTGAAAGTGTCAA
1 GACAAAACCGGTCTCTAAAGGACAAAACCGGTATAGAGCG--ACCAGATATATTGAAAGTGTCGA
*
61427 TAATTTAATA
64 TACTTTAATA
61437 AGTACGCGTA
Statistics
Matches: 397, Mismatches: 36, Indels: 11
0.89 0.08 0.02
Matches are distributed among these distances:
181 4 0.01
182 158 0.40
183 234 0.59
184 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.28
Consensus pattern (182 bp):
GACAAAACCGGTCTCTAAAGGACAAAACCGGTATAGAGCGACCAGATATATTGAAAGTGTCGATA
CTTTAATATAAGTATCGACACTTTGTAAATTTAAAAGAGAATCAATTTTAGCGCCTATAAAGTGT
CGATACTTTATAACAATGTATCGATCCACAACGATATAACAAGTAAAAATAT
Found at i:63447 original size:22 final size:23
Alignment explanation
Indices: 63397--63451 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
63387 ATTTTTATTT
63397 TTTTA-TATATAAAATGATAGAA
1 TTTTATTATATAAAATGATAGAA
* *
63419 TAGTTATTATATAAAATTATA-AA
1 T-TTTATTATATAAAATGATAGAA
63442 TTTTATTATA
1 TTTTATTATA
63452 AATACATGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 9 0.32
23 6 0.21
24 13 0.46
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (23 bp):
TTTTATTATATAAAATGATAGAA
Found at i:63865 original size:33 final size:33
Alignment explanation
Indices: 63823--63887 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
63813 ATAGATGGAG
*
63823 TGGTGAAAGAGGTTGAGGTGTTGAGCGGTGAAT
1 TGGTGAAAGAAGTTGAGGTGTTGAGCGGTGAAT
*
63856 TGGTGAAAGAAGTTGAGGTGTTGAGGGGTGAA
1 TGGTGAAAGAAGTTGAGGTGTTGAGCGGTGAA
63888 CTTGAGATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.26, C:0.02, G:0.46, T:0.26
Consensus pattern (33 bp):
TGGTGAAAGAAGTTGAGGTGTTGAGCGGTGAAT
Found at i:64097 original size:18 final size:18
Alignment explanation
Indices: 64074--64108 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
64064 AAATATGAAA
*
64074 AAGAAAAGATGGAGGAAG
1 AAGAAAAGATGAAGGAAG
64092 AAGAAAAGATGAAGGAA
1 AAGAAAAGATGAAGGAA
64109 ATGAGGAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.34, T:0.06
Consensus pattern (18 bp):
AAGAAAAGATGAAGGAAG
Found at i:65686 original size:19 final size:19
Alignment explanation
Indices: 65662--65711 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
65652 AATGTAGGGT
65662 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
**
65681 TAATTTTGTATATTATTTA
1 TAATTTTGTATAAGATTTA
65700 TAATTTTTGTAT
1 TAA-TTTTGTAT
65712 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:66788 original size:199 final size:200
Alignment explanation
Indices: 66062--67219 Score: 1337
Period size: 199 Copynumber: 5.8 Consensus size: 200
66052 GTAAGCAGAT
* * *
66062 GTGTTGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * *
66127 GGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGTAAGAATAGGTCTACATAATGT
66 GGTAATTTTGCAATGTAACCGGTATAAATATACCAGTTTTATGTGAGAATAGGTCTACATAATGT
* * * * * *
66192 ATCGACACTTTTGAAATTGGTGTCAATACTTTTTGTCCATAATGAAT-CCCAAAATGGTGAACAT
131 ATCGACACTTATGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACAC
66256 ATAAA
196 ATAAA
* *
66261 GTGTCGATATATTTATAAAAACTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * * *
66326 TGTAATTTTTCAATGTAACCGGTATAACTATA-CTGATTTTATGAGAGAATAGGTCTATATAATG
66 GGTAATTTTGCAATGTAACCGGTATAAATATACCAG-TTTTATGTGAGAATAGGTCTACATAATG
* * * *
66390 TATCAACACTTATGGAATTTGTGTCGATACTGTTTT-TCCAGAAGGAATGCCCAAAAGGGTGCAC
130 TATCGACACTTATGAAATTTGTGTCGATACT-TTTTGTCCAGAATGAATGCCCAAAATGGTGCAC
*
66454 AAATAAA
194 ACATAAA
* * * * * ** *
66461 GTATCGATACATTTTTCAAAAGTGTCAATCTTAGAGACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * *
66526 GGTAATTTTGTAATGTAACTGGTATAAATATACCAGTTTTATGTGAAAATAAGTCTACATAATGT
66 GGTAATTTTGCAATGTAACCGGTATAAATATACCAGTTTTATGTGAGAATAGGTCTACATAATGT
* * * * * ** * *
66591 ATCAACACATT-TGAAATTGGTGTCGATACTTTTTGTCTAAAATGAATGCCTAGCATGATGAACA
131 ATCGACAC-TTATGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACA
66655 CATAAA
195 CATAAA
* * * * *
66661 GTGTCGATACATTTTTAAAAAGTGTCAATTCCAGAGACATCG-AACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* *
66725 GGTAATTTTGCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTACATAATGT
66 GGTAATTTTGCAATGTAACCGGTATAAATATACCAGTTTTATGTGAGAATAGGTCTACATAATGT
** * * * *
66790 ATCGACACTT-TTTAATTATGTGTCGATACATCTTGTCCATAATAAATGCCCAAAAAATGGTGCA
131 ATCGACACTTATGAAATT-TGTGTCGATACTTTTTGTCCAGAATGAATGCCC--AAAATGGTGCA
*
66854 CGCATAAA
193 CACATAAA
*
66862 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAATATCGAAACCCA-ATATTATAATGTAAT
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATA-ATTATAATGTAAT
* * ** * *
66926 ATGTAATTTTTCAATGTAACCGGTATAAATATACC-GATTTTATACGAGAATAGGTCTAGAAAAT
65 AGGTAATTTTGCAATGTAACCGGTATAAATATACCAG-TTTTATGTGAGAATAGGTCTACATAAT
* * * * * *
66990 GTATCGACATTTCTGGAATTTGTTTTGATACTTTTTGTCCAGAATGAATG-CCAAAAGGGTGCAC
129 GTATCGACACTTATGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCAC
* *
67054 CCATTAA
194 ACATAAA
* * * * * **
67061 GTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCAAAATCGGTAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * * * *
67126 GATAAATTTCCAATGTAACCGATATAAATATACCAGTTTTATGAGAAAATAGGTC-AGCATAAAG
66 GGTAATTTTGCAATGTAACCGGTATAAATATACCAGTTTTATGTGAGAATAGGTCTA-CATAATG
* * *
67190 TATCGACAATTGTTAAATTTGTGTCGATAC
130 TATCGACACTTATGAAATTTGTGTCGATAC
67220 CATTTTAAAA
Statistics
Matches: 812, Mismatches: 131, Indels: 32
0.83 0.13 0.03
Matches are distributed among these distances:
198 10 0.01
199 411 0.51
200 219 0.27
201 58 0.07
202 109 0.13
203 5 0.01
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (200 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTGCAATGTAACCGGTATAAATATACCAGTTTTATGTGAGAATAGGTCTACATAATGT
ATCGACACTTATGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACAC
ATAAA
Found at i:66814 original size:399 final size:399
Alignment explanation
Indices: 66067--67219 Score: 1406
Period size: 399 Copynumber: 2.9 Consensus size: 399
66057 CAGATGTGTT
* * *
66067 GATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACCCATAATTATAATGTAATAGGTAA
1 GATACATTTATAAAAAGTATCAATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTAA
*
66132 TTTTGTAATATAACCGGTATAAATATACCAGTTTTATGT-AAGAATAGGTCTACATAATGTATCG
66 TTTTGTAATGTAACCGGTATAAATATACCAGTTTTATGTGAA-AATAGGTCTACATAATGTATCG
* * * *
66196 ACACTTTTGAAATTGGTGTCAATACTTTTTGTCCATAATGAATCCCAAAATGGTGAACATATAAA
130 ACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAATGGTGAACACATAAA
* * * *
66261 GTGTCGATATATTTATAAAAACTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
195 GTGTCGATACATTTTTAAAAAGTGTCGATCCCAGAAACATCG-AACCCATAATTATAATGTAATA
* * * * * *
66326 TGTAATTTTTCAATGTAACCGGTATAACTATACTGATTTTATGAGAGAATAGGTCTATATAATGT
259 GGTAATTTTCCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* ** * * *
66391 ATCAACACTTATGGAATTTGTGTCGATAC-TGTTTTTCCAGAAGGAATGCCC-AAAAGGGTGCAC
324 ATCGACACTTATTAAATTTGTGTCGATACAT-CTTGTCCAGAAGAAATGCCCAAAAAGGGTGCAC
66454 AAATAAAGTATC
388 AAATAAAGTATC
* * * ** *
66466 GATACATTTTTCAAAAGTGTCAATCTTAGAGACATCGAAACCCATAATTATAATGTAATAGGTAA
1 GATACATTTATAAAAAGTATCAATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTAA
* * *
66531 TTTTGTAATGTAACTGGTATAAATATACCAGTTTTATGTGAAAATAAGTCTACATAATGTATCAA
66 TTTTGTAATGTAACCGGTATAAATATACCAGTTTTATGTGAAAATAGGTCTACATAATGTATCGA
* * ** *
66596 CACATTTGAAATTGGTGTCGATACTTTTTGTCTAAAATGAATGCCTAGCATGATGAACACATAAA
131 CACTTTTGAAATTGGTGTCGATACTTTTTGTCCAAAATGAATGCC-AAAATGGTGAACACATAAA
* * *
66661 GTGTCGATACATTTTTAAAAAGTGTCAATTCCAGAGACATCGAACCCATAATTATAATGTAATAG
195 GTGTCGATACATTTTTAAAAAGTGTCGATCCCAGAAACATCGAACCCATAATTATAATGTAATAG
* * *
66726 GTAATTTTGCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTACATAATGTA
260 GTAATTTTCCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTA
* * * *
66791 TCGACACTT-TTTAATTATGTGTCGATACATCTTGTCCATAATAAATGCCCAAAAAATGGTGCAC
325 TCGACACTTATTAAATT-TGTGTCGATACATCTTGTCCAGAAGAAATGCCC-AAAAAGGGTGCAC
** *
66855 GCATAAAGTGTC
388 AAATAAAGTATC
* * *
66867 GATACATTTATAAAAAGTATCGATCCCAGAAATATCGAAACCCA-ATATTATAATGTAATATGTA
1 GATACATTTATAAAAAGTATCAATCCCAGAAACATCGAAACCCATA-ATTATAATGTAATAGGTA
** * * *
66931 ATTTT-TCAATGTAACCGGTATAAATATACC-GATTTTATACGAGAATAGGTCTAGAAAATGTAT
65 ATTTTGT-AATGTAACCGGTATAAATATACCAG-TTTTATGTGAAAATAGGTCTACATAATGTAT
* * * * * * * *
66994 CGACA-TTTCTGGAATTTGTTTTGATACTTTTTGTCCAGAATGAATGCCAAAAGGGTGCACCCAT
128 CGACACTTT-TGAAATTGGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAATGGTGAACACAT
* * * * **
67058 TAAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCAAAATCGGTAATTATAATGTA
192 AAAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAGAAACATC-GAACCCATAATTATAATGTA
* * * * *
67123 ATAGATAAATTTCCAATGTAACCGATATAAATATACCAGTTTTATGAGAAAATAGGTC-AGCATA
256 ATAGGTAATTTTCCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTA-CATA
* * *
67187 AAGTATCGACAATTGTTAAATTTGTGTCGATAC
320 ATGTATCGACACTTATTAAATTTGTGTCGATAC
67220 CATTTTAAAA
Statistics
Matches: 642, Mismatches: 99, Indels: 24
0.84 0.13 0.03
Matches are distributed among these distances:
398 5 0.01
399 268 0.42
400 108 0.17
401 255 0.40
402 6 0.01
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (399 bp):
GATACATTTATAAAAAGTATCAATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTAA
TTTTGTAATGTAACCGGTATAAATATACCAGTTTTATGTGAAAATAGGTCTACATAATGTATCGA
CACTTTTGAAATTGGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAATGGTGAACACATAAAG
TGTCGATACATTTTTAAAAAGTGTCGATCCCAGAAACATCGAACCCATAATTATAATGTAATAGG
TAATTTTCCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTAT
CGACACTTATTAAATTTGTGTCGATACATCTTGTCCAGAAGAAATGCCCAAAAAGGGTGCACAAA
TAAAGTATC
Done.