Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007922.1 Hibiscus syriacus cultivar Beakdansim tig00110327_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: 874983
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:98 original size:22 final size:22
Alignment explanation
Indices: 70--113 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
60 CACTCTCTCA
70 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
92 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
114 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:386 original size:20 final size:20
Alignment explanation
Indices: 361--399 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
351 GCGTTGCGAT
361 TGTTGCGATAGTCATTTTCG
1 TGTTGCGATAGTCATTTTCG
**
381 TGTTGCGATTTTCATTTTC
1 TGTTGCGATAGTCATTTTC
400 AGAAACTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.15, G:0.21, T:0.51
Consensus pattern (20 bp):
TGTTGCGATAGTCATTTTCG
Found at i:1710 original size:18 final size:18
Alignment explanation
Indices: 1689--1733 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1679 TCCACTTCGG
*
1689 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
1707 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
1725 GAGCCATCA
1 GAGCCATCA
1734 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:2269 original size:19 final size:20
Alignment explanation
Indices: 2215--2281 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
2205 TAGTTTACTT
* *
2215 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
2235 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
2255 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
2274 TCGCAACG
1 TCGCAACG
2282 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:2289 original size:14 final size:14
Alignment explanation
Indices: 2270--2327 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
2260 ATGCGAAATG
2270 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2284 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
2300 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
2316 AAAATCGCAACG
1 AAAATCGCAACG
2328 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2312 original size:32 final size:33
Alignment explanation
Indices: 2254--2344 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
2244 GGAAATGGCT
2254 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
2287 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
2319 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
2345 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:2383 original size:13 final size:13
Alignment explanation
Indices: 2345--2388 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
2335 AAAATCGCAA
2345 TGCGATTTGT-GT
1 TGCGATTTGTCGT
2357 TGCGA-TTG-CGT
1 TGCGATTTGTCGT
2368 TGCGATTTGTCGT
1 TGCGATTTGTCGT
2381 TGCGATTT
1 TGCGATTT
2389 TCATTTCGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 10 0.34
12 8 0.28
13 11 0.38
ACGTcount: A:0.09, C:0.14, G:0.32, T:0.45
Consensus pattern (13 bp):
TGCGATTTGTCGT
Found at i:2402 original size:19 final size:19
Alignment explanation
Indices: 2378--2442 Score: 87
Period size: 19 Copynumber: 3.5 Consensus size: 19
2368 TGCGATTTGT
**
2378 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
2397 CATTGCGATAGCCATTTC-
1 CGTTGCGATAGTCATTTCG
2415 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
2434 CGTTGCGAT
1 CGTTGCGAT
2443 TTTAAGTTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 16 0.41
19 23 0.59
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:2422 original size:18 final size:19
Alignment explanation
Indices: 2390--2442 Score: 81
Period size: 18 Copynumber: 2.8 Consensus size: 19
2380 TTGCGATTTT
*
2390 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
2409 CATTTC-CGTTGCGATAGT
1 CATTTCGCGTTGCGATAGC
2427 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
2443 TTTAAGTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 16 0.52
19 15 0.48
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:4322 original size:14 final size:14
Alignment explanation
Indices: 4303--4338 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4293 ATTGTTTAAT
4303 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
4317 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
4331 TGATTTGT
1 TGATTTGT
4339 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:4477 original size:19 final size:19
Alignment explanation
Indices: 4455--4522 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
4445 ATCGCAACGA
4455 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4474 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4493 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
4507 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
4523 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:4566 original size:20 final size:20
Alignment explanation
Indices: 4541--4582 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
4531 TCGCATTGCG
*
4541 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAACC
*
4561 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAACC
4581 AT
1 AT
4583 CATAATGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAACC
Found at i:5095 original size:20 final size:21
Alignment explanation
Indices: 5057--5095 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
5047 CTCTCTCCGG
*
5057 CGACATCCGTTCCATATCCAA
1 CGACATCCGTTCCACATCCAA
*
5078 CGACATCC-TTCCCCATCC
1 CGACATCCGTTCCACATCC
5096 GGCAACAGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.23, C:0.46, G:0.08, T:0.23
Consensus pattern (21 bp):
CGACATCCGTTCCACATCCAA
Found at i:5661 original size:24 final size:24
Alignment explanation
Indices: 5634--5687 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
5624 GTATTCGAAA
* *
5634 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
5658 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
5682 TTTGAT
1 TTTGAT
5688 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:8217 original size:33 final size:33
Alignment explanation
Indices: 8174--8266 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
8164 GGAAATTACT
8174 ATCGC-ATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
8206 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
8239 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
8267 CGAATTTAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 5 0.08
33 54 0.92
ACGTcount: A:0.43, C:0.19, G:0.25, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:8229 original size:19 final size:19
Alignment explanation
Indices: 8174--8270 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
8164 GGAAATTACT
8174 ATCGC-ATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
8192 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
8206 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
8225 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
8239 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
8258 ATCGCAACGCGAA
1 ATCGCAATGCGAA
8271 TTTAATTTCG
Statistics
Matches: 61, Mismatches: 7, Indels: 21
0.69 0.08 0.24
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.07
17 4 0.07
18 7 0.11
19 25 0.41
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:8288 original size:19 final size:19
Alignment explanation
Indices: 8266--8326 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
8256 AAATCGCAAC
8266 GCGAATTTAATTTCGCGTT
1 GCGAATTTAATTTCGCGTT
*
8285 GCG-ATTTCATTTTCGCGTT
1 GCGAATTT-AATTTCGCGTT
* * *
8304 GCGATTTTCATTTCGCATT
1 GCGAATTTAATTTCGCGTT
8323 GCGA
1 GCGA
8327 TAGTACTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 4 0.11
19 28 0.80
20 3 0.09
ACGTcount: A:0.16, C:0.20, G:0.21, T:0.43
Consensus pattern (19 bp):
GCGAATTTAATTTCGCGTT
Found at i:8327 original size:19 final size:19
Alignment explanation
Indices: 8275--8327 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
8265 CGCGAATTTA
8275 ATTTCGCGTTGCGA-TTTC
1 ATTTCGCGTTGCGATTTTC
8293 ATTTTCGCGTTGCGATTTTC
1 A-TTTCGCGTTGCGATTTTC
*
8313 ATTTCGCATTGCGAT
1 ATTTCGCGTTGCGAT
8328 AGTACTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 1 0.03
19 26 0.81
20 5 0.16
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (19 bp):
ATTTCGCGTTGCGATTTTC
Found at i:8452 original size:14 final size:14
Alignment explanation
Indices: 8433--8468 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
8423 CATCAATTAA
*
8433 ACAAATCAACTTTT
1 ACAAATCAACCTTT
8447 ACAAATC-ACCTTT
1 ACAAATCAACCTTT
8460 ACAAATCAA
1 ACAAATCAA
8469 TTAAACAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (14 bp):
ACAAATCAACCTTT
Found at i:9905 original size:42 final size:42
Alignment explanation
Indices: 9859--9942 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
9849 CGATGACAGT
* * *
9859 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
9901 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
9943 CGAGTCGGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:11997 original size:19 final size:19
Alignment explanation
Indices: 11933--12065 Score: 114
Period size: 20 Copynumber: 7.1 Consensus size: 19
11923 TCTTTTGGTT
* *
11933 GAAATGAAAATCGCAACGA
1 GAAATGACAATCGCAACGC
*
11952 GATAATGAGAATCGCAACGC
1 GA-AATGACAATCGCAACGC
*
11972 GGAAATGACTATCGCAACGC
1 -GAAATGACAATCGCAACGC
* *
11992 GAAATGACTATCGCGAC-C
1 GAAATGACAATCGCAACGC
12010 ---A-GACAATCGCAACGC
1 GAAATGACAATCGCAACGC
*
12025 GAAATGAAAATCGCAATCGC
1 GAAATGACAATCGCAA-CGC
* * *
12045 GAAATAAAAATCGCAATGC
1 GAAATGACAATCGCAACGC
12064 GA
1 GA
12066 TTTTTGTTTC
Statistics
Matches: 96, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
14 10 0.10
15 2 0.02
18 2 0.02
19 32 0.33
20 48 0.50
21 2 0.02
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.14
Consensus pattern (19 bp):
GAAATGACAATCGCAACGC
Found at i:12662 original size:20 final size:20
Alignment explanation
Indices: 12637--12689 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
12627 GCGCTATGTA
12637 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
12657 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
12677 TATCTCGTTGCGA
1 AATCGCGTTGCGA
12690 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:12750 original size:41 final size:41
Alignment explanation
Indices: 12658--12752 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
12648 GAAAGTCAGA
* * * * ** *
12658 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
*
12699 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAAT
12741 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
12753 TTACTTATTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 42 0.95
42 2 0.05
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
Found at i:12934 original size:19 final size:19
Alignment explanation
Indices: 12862--12931 Score: 122
Period size: 19 Copynumber: 3.7 Consensus size: 19
12852 CGATAATGGA
*
12862 GATCGCGTTGCGAATTAGC
1 GATCGCATTGCGAATTAGC
12881 GATCGCATTGCGAATTAGC
1 GATCGCATTGCGAATTAGC
*
12900 GATCGCATTGCGATTTAGC
1 GATCGCATTGCGAATTAGC
12919 GATCGCATTGCGA
1 GATCGCATTGCGA
12932 TTTTATTGGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (19 bp):
GATCGCATTGCGAATTAGC
Found at i:13408 original size:25 final size:25
Alignment explanation
Indices: 13362--13417 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
13352 TATATTTCTT
*
13362 TATATTTTTCATATATGAAATACATA
1 TATATTTTTCATATAT-AAATACACA
13388 TATATTTCTTCATATAT-AATACACA
1 TATATTT-TTCATATATAAATACACA
13413 TATAT
1 TATAT
13418 CATGCAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 12 0.43
26 7 0.25
27 9 0.32
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (25 bp):
TATATTTTTCATATATAAATACACA
Found at i:19549 original size:21 final size:21
Alignment explanation
Indices: 19524--19563 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
19514 AGAAATATTA
*
19524 AAAAATATTAATATTTTAAAT
1 AAAAATAATAATATTTTAAAT
19545 AAAAATAATAATATTTTAA
1 AAAAATAATAATATTTTAA
19564 GTAATTTCCT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAATAATAATATTTTAAAT
Found at i:21806 original size:18 final size:18
Alignment explanation
Indices: 21783--21819 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
21773 TGACCGATCA
21783 TAACCCGACCCGACCCGT
1 TAACCCGACCCGACCCGT
21801 TAACCCGACCCGACCCGT
1 TAACCCGACCCGACCCGT
21819 T
1 T
21820 GACCGTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.49, G:0.16, T:0.14
Consensus pattern (18 bp):
TAACCCGACCCGACCCGT
Found at i:24324 original size:24 final size:24
Alignment explanation
Indices: 24297--24387 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
24287 TCAAATTTGA
* *
24297 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
* * *
24321 ATTCTGATCTGATA-TTCACATGG
1 ATTCTGATATGATACTTGACCTGG
* *
24344 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGATACTTGACCTGG
24368 ATTCTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
24388 TTGAATTATG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 20 0.36
24 36 0.64
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:24513 original size:35 final size:35
Alignment explanation
Indices: 24465--24539 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
24455 TGGAGGAAGA
* *
24465 TTACTTGGAGGTTCCTCAGTTGTGTGCTCAGGGCC
1 TTACTTAGAGGTTCCTCAGCTGTGTGCTCAGGGCC
* *
24500 TTACTTAGCGGTTCCTCGGCTGTGTGCTCAGGGCC
1 TTACTTAGAGGTTCCTCAGCTGTGTGCTCAGGGCC
24535 TTACT
1 TTACT
24540 GGACGTGAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.11, C:0.25, G:0.29, T:0.35
Consensus pattern (35 bp):
TTACTTAGAGGTTCCTCAGCTGTGTGCTCAGGGCC
Found at i:31203 original size:18 final size:16
Alignment explanation
Indices: 31178--31217 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
31168 CCAACCTATT
*
31178 TTTAATTATATATTATA
1 TTTAATTACATATT-TA
31195 TTGTAATTACATATTTA
1 TT-TAATTACATATTTA
31212 TTTAAT
1 TTTAAT
31218 ATTTAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 6 0.29
18 11 0.52
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTAATTACATATTTA
Found at i:31245 original size:12 final size:12
Alignment explanation
Indices: 31214--31255 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
31204 CATATTTATT
*
31214 TAATATTTAAAA
1 TAATAATTAAAA
31226 T-A-AATTAAAA
1 TAATAATTAAAA
31236 TAATAATTAAAA
1 TAATAATTAAAA
31248 TAAATAAT
1 T-AATAAT
31256 AATATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 8 0.31
11 2 0.08
12 10 0.38
13 6 0.23
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TAATAATTAAAA
Found at i:31267 original size:22 final size:22
Alignment explanation
Indices: 31214--31264 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
31204 CATATTTATT
31214 TAATATTTAAAATAAATTAAAA
1 TAATATTTAAAATAAATTAAAA
*
31236 TAATAATTAAAATAAA-TAATAA
1 TAATATTTAAAATAAATTAA-AA
31258 T-ATATTT
1 TAATATTT
31265 TAAGTCAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TAATATTTAAAATAAATTAAAA
Found at i:34487 original size:16 final size:16
Alignment explanation
Indices: 34463--34493 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34453 TTAGTTCTCT
*
34463 ATTTTTGTTTTTTTTA
1 ATTTGTGTTTTTTTTA
34479 ATTTGTGTTTTTTTT
1 ATTTGTGTTTTTTTT
34494 CATTGGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.81
Consensus pattern (16 bp):
ATTTGTGTTTTTTTTA
Found at i:45992 original size:65 final size:65
Alignment explanation
Indices: 45888--46017 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
45878 TGTTGTAGCA
45888 ACATGATTGATGTGTCTAGTATTAACTTAGCAGGTTATTCCTCTCGAAGGTATTCACCAAACAAC
1 ACATGATTGATGTGTCTAGTATTAACTTAGCAGGTTATTCCTCTCGAAGGTATTCACCAAACAAC
45953 ACATGATTGATGTGTCTAGTATTAACTTAGCAGGTTATTCCTCTCGAAGGTATTCACCAAACAAC
1 ACATGATTGATGTGTCTAGTATTAACTTAGCAGGTTATTCCTCTCGAAGGTATTCACCAAACAAC
46018 TTAAAAAAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (65 bp):
ACATGATTGATGTGTCTAGTATTAACTTAGCAGGTTATTCCTCTCGAAGGTATTCACCAAACAAC
Found at i:50261 original size:2 final size:2
Alignment explanation
Indices: 50254--50309 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
50244 GTACATCAAC
50254 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50296 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
50310 AAAAAAAAGG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:50503 original size:2 final size:2
Alignment explanation
Indices: 50496--50541 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
50486 GAGTCTATTC
50496 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50538 TA TA
1 TA TA
50542 CATTATCAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:57831 original size:29 final size:29
Alignment explanation
Indices: 57798--57855 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
57788 ATAAAAGAAT
*
57798 AAAATAACAAATT-AAAAAAATGAAAAATA
1 AAAATAA-AAATTGAAAAAAAGGAAAAATA
* *
57827 AAAATAAAAGTTGCAAAAAAGGAAAAATA
1 AAAATAAAAATTGAAAAAAAGGAAAAATA
57856 TGGTACATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.72, C:0.03, G:0.09, T:0.16
Consensus pattern (29 bp):
AAAATAAAAATTGAAAAAAAGGAAAAATA
Found at i:57834 original size:21 final size:20
Alignment explanation
Indices: 57786--57835 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
57776 GATCAAGAGT
*
57786 AAATAAAAGAATAAAATAAC
1 AAATAAAAAAATAAAATAAC
57806 AAATTAAAAAAATGAAAAATAA-
1 AAA-TAAAAAAAT--AAAATAAC
57828 AAATAAAA
1 AAATAAAA
57836 GTTGCAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 13 0.50
22 3 0.12
23 7 0.27
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (20 bp):
AAATAAAAAAATAAAATAAC
Found at i:58935 original size:16 final size:15
Alignment explanation
Indices: 58909--58939 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
58899 ATGTATGACC
58909 GGTCATCCCGGGATG
1 GGTCATCCCGGGATG
58924 GGTCAGTCCCGGGATG
1 GGTCA-TCCCGGGATG
58940 CCGGCCGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.13, C:0.26, G:0.42, T:0.19
Consensus pattern (15 bp):
GGTCATCCCGGGATG
Found at i:59101 original size:4 final size:4
Alignment explanation
Indices: 59094--59148 Score: 67
Period size: 4 Copynumber: 13.8 Consensus size: 4
59084 AACAAACAAT
* * *
59094 AATA AATA AATA AAT- AATA AATGA AAAA AATA AATA AATA GATA AATT
1 AATA AATA AATA AATA AATA AAT-A AATA AATA AATA AATA AATA AATA
59142 AATA AAT
1 AATA AAT
59149 TAATTAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
3 3 0.07
4 37 0.86
5 3 0.07
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:59148 original size:24 final size:24
Alignment explanation
Indices: 59093--59148 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
59083 AAACAAACAA
59093 TAATAAATAAATAAATAATAAATG
1 TAATAAATAAATAAATAATAAATG
* *
59117 AAAAAAATAAATAAATAGATAAAT-
1 TAATAAATAAATAAATA-ATAAATG
59141 TAATAAAT
1 TAATAAAT
59149 TAATTAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.27
Consensus pattern (24 bp):
TAATAAATAAATAAATAATAAATG
Found at i:59191 original size:35 final size:35
Alignment explanation
Indices: 59152--59486 Score: 257
Period size: 35 Copynumber: 9.2 Consensus size: 35
59142 AATAAATTAA
* * *
59152 TTAAAAACATTTTTAAAACTATACAATATATGTTT
1 TTAAAAACATTTTCAAAACTATATAATATATATTT
* * *
59187 TTAAAAAAATAATTTTCAAAACCACATAATATATATTT
1 TT--AAAAA-CATTTTCAAAACTATATAATATATATTT
*
59225 TTAAAAAAAATAATTTTCAAAACTATAT-A-ATATATTT
1 TT---AAAAA-CATTTTCAAAACTATATAATATATATTT
59262 TTAAAAACTAATTTTCAAAACTATATAATATATATATT
1 TTAAAAAC--ATTTTCAAAACTATATAATATATAT-TT
*
59300 TTAAAAACTAATTTTCAAAATTATATAATATATA--T
1 TTAAAAAC--ATTTTCAAAACTATATAATATATATTT
* *
59335 TTAGAAACTAATTTTCAAAATTATATAATATATATGTTT
1 TTAAAAAC--ATTTTCAAAACTATATAATATATA--TTT
* ** * * *
59374 TTCAAAATGTTTTTAAAAGCTATATATTATATATAT
1 TTAAAAACATTTTCAAAA-CTATATAATATATATTT
* *
59410 TTAAAAA-AGTTTTCAAAACAATATAATATGTATTT
1 TTAAAAACA-TTTTCAAAACTATATAATATATATTT
* ** *
59445 TCAAAAATGTTTTCAAAAACTATATATTATATATTT
1 TTAAAAACATTTTC-AAAACTATATAATATATATTT
*
59481 TCAAAA
1 TTAAAA
59487 TATTTGAAAA
Statistics
Matches: 252, Mismatches: 31, Indels: 33
0.80 0.10 0.10
Matches are distributed among these distances:
34 5 0.02
35 76 0.30
36 41 0.16
37 29 0.12
38 72 0.29
39 29 0.12
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.42
Consensus pattern (35 bp):
TTAAAAACATTTTCAAAACTATATAATATATATTT
Found at i:59229 original size:73 final size:70
Alignment explanation
Indices: 59152--59480 Score: 293
Period size: 73 Copynumber: 4.5 Consensus size: 70
59142 AATAAATTAA
* * * *
59152 TTAAAAACATTTTTAAAACTATACAATATATGTTTTTAAAAAAATAATTTTCAAAACCACATAAT
1 TTAAAAACATTTTTAAAACTATATAATATA--TATTT-AAAAAATAATTTTCAAAACTATATAAT
59217 ATATATTT
63 ATATATTT
* * *
59225 TTAAAAAAAATAATTTTCAAAACTATATAATATATTTTTAAAAACTAATTTTCAAAACTATATAA
1 TT-AAAAACAT--TTTT-AAAACTATATAATATATATTTAAAAAATAATTTTCAAAACTATATAA
59290 TATATATATT
62 TATATAT-TT
* * * * *
59300 TTAAAAACTAATTTTCAAAATTATATAATATATATTTAGAAACTAATTTTCAAAATTATATAATA
1 TTAAAAAC--ATTTTTAAAACTATATAATATATATTTAAAAAATAATTTTCAAAACTATATAATA
59365 TATATGTTT
64 TATA--TTT
* ** * *
59374 TTCAAAATGTTTTTAAAAGCTATATATTATATATATTT-AAAAA-AGTTTTCAAAACAATATAAT
1 TTAAAAACATTTTTAAAA-CTATATA--ATATATATTTAAAAAATAATTTTCAAAACTATATAAT
*
59437 ATGTATTT
63 ATATATTT
* ** * *
59445 TCAAAAATGTTTTCAAAAACTATATATTATATATTT
1 TTAAAAACATTTT-TAAAACTATATAATATATATTT
59481 TCAAAATATT
Statistics
Matches: 217, Mismatches: 26, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
69 9 0.04
71 21 0.10
72 12 0.06
73 78 0.36
74 56 0.26
75 20 0.09
76 6 0.03
77 15 0.07
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (70 bp):
TTAAAAACATTTTTAAAACTATATAATATATATTTAAAAAATAATTTTCAAAACTATATAATATA
TATTT
Found at i:59243 original size:39 final size:37
Alignment explanation
Indices: 59160--59486 Score: 312
Period size: 38 Copynumber: 8.9 Consensus size: 37
59150 AATTAAAAAC
* * *
59160 ATTTTTAAAACTATACAATATATGTTTTTAAAAAAATA
1 ATTTTCAAAACTATATAATATATATTTTT-AAAAAATA
* *
59198 ATTTTCAAAACCACATAATATATATTTTTAAAAAAAATA
1 ATTTTCAAAACTATATAATATATATTTTT--AAAAAATA
*
59237 ATTTTCAAAACTATAT-A-ATATATTTTTAAAAACTA
1 ATTTTCAAAACTATATAATATATATTTTTAAAAAATA
*
59272 ATTTTCAAAACTATATAATATATATATTTTAAAAACTA
1 ATTTTCAAAACTATATAATATATAT-TTTTAAAAAATA
* * *
59310 ATTTTCAAAATTATATAATATATA--TTTAGAAACTA
1 ATTTTCAAAACTATATAATATATATTTTTAAAAAATA
* **
59345 ATTTTCAAAATTATATAATATATATGTTTTTCAAAAT-
1 ATTTTCAAAACTATATAATATATAT-TTTTAAAAAATA
* * * *
59382 GTTTTTAAAAGCTATATATTATATATATTT-AAAAA-A
1 ATTTTCAAAA-CTATATAATATATATTTTTAAAAAATA
* * * *
59418 GTTTTCAAAACAATATAATATGTA-TTTTCAAAAAT-
1 ATTTTCAAAACTATATAATATATATTTTTAAAAAATA
* * *
59453 GTTTTCAAAAACTATATATTATATATTTTCAAAA
1 ATTTTC-AAAACTATATAATATATATTTTTAAAA
59487 TATTTGAAAA
Statistics
Matches: 247, Mismatches: 29, Indels: 27
0.82 0.10 0.09
Matches are distributed among these distances:
34 3 0.01
35 79 0.32
36 29 0.12
37 33 0.13
38 80 0.32
39 23 0.09
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (37 bp):
ATTTTCAAAACTATATAATATATATTTTTAAAAAATA
Found at i:59487 original size:35 final size:34
Alignment explanation
Indices: 59231--59539 Score: 221
Period size: 35 Copynumber: 8.6 Consensus size: 34
59221 ATTTTTAAAA
* *
59231 AAAATAATTTTCAAAACTATATAATATAT-TTTTA
1 AAAAT-ATTTTCAAAACTATATATTATATATTTTC
*
59265 AAAACTAATTTTCAAAACTATATAATATATATATTTTA
1 AAAA-T-ATTTTCAAAACTATAT-AT-TATATATTTTC
* * **
59303 AAAACTAATTTTCAAAATTATATAATATATATTTAG
1 AAAA-T-ATTTTCAAAACTATATATTATATATTTTC
* * *
59339 AAACTAATTTTCAAAATTATATAATATATATGTTTTTC
1 AAAAT-ATTTTCAAAACTATAT-AT-TATAT-ATTTTC
* *
59377 AAAATGTTTTTAAAAGCTATATATTATATATATTT-
1 AAAATATTTTCAAAA-CTATATATTATATAT-TTTC
* * * *
59412 AAAAAAGTTTTCAAAACAATATAATATGTATTTTC
1 AAAATA-TTTTCAAAACTATATATTATATATTTTC
*
59447 AAAAATGTTTTCAAAAACTATATATTATATATTTTC
1 -AAAATATTTTC-AAAACTATATATTATATATTTTC
** *
59483 AAAATATTTGAAAAAAAACCATATATTATATAATTTTC
1 AAAATATTT---TCAAAACTATATATTATAT-ATTTTC
59521 AAAATGA-TTTC-AAACTATA
1 AAAAT-ATTTTCAAAACTATA
59540 AAAAAAATGG
Statistics
Matches: 224, Mismatches: 33, Indels: 36
0.76 0.11 0.12
Matches are distributed among these distances:
34 14 0.06
35 66 0.29
36 54 0.24
37 37 0.17
38 52 0.23
39 1 0.00
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (34 bp):
AAAATATTTTCAAAACTATATATTATATATTTTC
Found at i:59499 original size:36 final size:37
Alignment explanation
Indices: 59424--59530 Score: 110
Period size: 36 Copynumber: 2.9 Consensus size: 37
59414 AAAAGTTTTC
* * ***
59424 AAAACAATATAATATGTATTTTCAAAA-ATGTT-TTCA
1 AAAACAATATATTATATATTTTCAAAATAT-TTGAAAA
*
59460 AAAACTATATATTATATATTTTCAAAATATTTGAAAA
1 AAAACAATATATTATATATTTTCAAAATATTTGAAAA
*
59497 AAAACCATATATTATATAATTTTCAAAATGATTT
1 AAAACAATATATTATAT-ATTTTCAAAAT-ATTT
59531 CAAACTATAA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
36 26 0.43
37 19 0.32
38 11 0.18
39 4 0.07
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (37 bp):
AAAACAATATATTATATATTTTCAAAATATTTGAAAA
Found at i:60221 original size:84 final size:81
Alignment explanation
Indices: 60082--60961 Score: 849
Period size: 84 Copynumber: 10.7 Consensus size: 81
60072 TTGAATATAA
* * *
60082 TCGAACTCAAAGGTC-TTTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
1 TCGAACTCGAAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
60146 TTGGAGCTGAGCGTAG
66 TTGGAGCTGAGCGTAG
* * * * * * *
60162 TCGAACTCAAAGGTCTTTTGATGGCAGACAACCTTTCTAGACTTAAGTTGTGCTGCAAATGATAT
1 TCGAACTCGAAGGTC-TTT--TGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
*
60227 GCCCTGGAGCTGAGCGTAG
63 GCCTTGGAGCTGAGCGTAG
** *
60246 TCGAACTCGGGGGTC-TTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
1 TCGAACTCGAAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
60310 GTT-GAGCTGAGCGTAG
66 -TTGGAGCTGAGCGTAG
* ** * * * *
60326 TCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCGAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTTGG---CAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
*** * * *
60391 GCCCTCAAAGCTGAGTGCAA
63 G-CCTTGGAGCTGAGCGTAG
** *
60411 TCGAACTCGGGGGTC-TTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
1 TCGAACTCGAAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
*
60475 TTAGAGCTGAGCGTAG
66 TTGGAGCTGAGCGTAG
* *
60491 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATGT
1 TCGAACTCGAAGGTC-TT--TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* * * *
60556 GCCCTCGAAGCTGAGTGTAA
63 G-CCTTGGAGCTGAGCGTAG
** *
60576 TCGAACTCGGGGGTC-TTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
1 TCGAACTCGAAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
*
60640 GTT-GAACTGAGCGTAG
66 -TTGGAGCTGAGCGTAG
* * * * * * * *
60656 TCAAACTCAAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTACAAATGATAT
1 TCGAACTCGAAGGTC-T-T-TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
60721 GCCTTGGAGCTGAGCGTAG
63 GCCTTGGAGCTGAGCGTAG
* * * * * * * * *
60740 TCGAACTCGAAGGTCTTTGGTGACAGATAACCTTTCTAGCCTTGAGTTATGCTGTAAATGTTATG
1 TCGAACTCGAAGGTCTTT--TGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
* * *
60805 CCCTTGAAGCTGAGTGTAA
64 -CCTTGGAGCTGAGCGTAG
* * * * *
60824 TCGAACT-TAAGGGTC-TTTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGGTGTGC
1 TCGAACTCGAA-GGTCTTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
*
60887 GTTGGAGCTGAGCGTAG
65 CTTGGAGCTGAGCGTAG
* * * * * * *
60904 TCGAACTCGAAGGTCTTGGTGGCAGGTAGCCCTTCTGGCCTTGAGCTAAGCTGCAAAT
1 TCGAACTCGAAGGTCTT-TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAAT
60962 AGTTTGTTTA
Statistics
Matches: 649, Mismatches: 122, Indels: 56
0.78 0.15 0.07
Matches are distributed among these distances:
80 153 0.24
81 122 0.19
82 38 0.06
83 45 0.07
84 242 0.37
85 49 0.08
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (81 bp):
TCGAACTCGAAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
TTGGAGCTGAGCGTAG
Found at i:60473 original size:165 final size:165
Alignment explanation
Indices: 60079--60961 Score: 978
Period size: 165 Copynumber: 5.4 Consensus size: 165
60069 AAGTTGAATA
*** *
60079 TAATCGAACTCAAAGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
* * * *
60144 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGATGGCAGACAACCTTTCTAGACTTAAG
66 CCTTAGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTGGCAGATAACCCTTCTAGACTTAAG
* * * *
60209 TTGTGCTGCAAATGATATGCCCT-GGAGCTGAGCG
131 TTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
*
60243 TAGTCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
** * * *
60308 CCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCGAGCCTTGA
66 CC-TTAGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTGGCAGATAACCCTTCTAGACTTAA
* *
60372 GTTATGCTGTAAATGATGTGCCCTCAAAGCTGAGTG
130 GTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
*
60408 CAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
* *
60473 CCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAA
66 CCTTAGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGG-TGGCAGATAACCCTTCTAGACTTAA
*
60537 GTTATGCTACAAATGATGTGCCCTCGAAGCTGAGTG
130 GTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
60573 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
* * * * *
60638 CCGTT-GAACTGAGCGTAGTCAAACTCAAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAA
66 CC-TTAGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTGGCAGATAACCCTTCTAGACTTAA
* * * * * *
60702 GTTGTGCTACAAATGATATG-CCTTGGAGCTGAGCG
130 GTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
* ** * * * * * * * *
60737 TAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCTTTCTAGCCTTGAGTTATGCTGTAAATGTT
1 TAATCGAACTCGGGGGTCTTT-G-G-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGAT
* * * * * * * *
60802 ATGCCCTT-GAAGCTGAGTGTAATCGAACTTAAGGGTC--TT--TGGCAGATAGCTCTTCTCGAC
63 GTG-CCTTAG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTGGCAGATAACCCTTCTAGAC
* * * * * * *
60862 TTAAGCTATACTGCAAATGGTGTG-CGTTGGAGCTGAGCG
126 TTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
* ** * * * * *
60901 TAGTCGAACTCGAAGGTCTTGGTGGCAGGTAGCCCTTCTGGCCTTGAGCTAAGCTGCAAAT
1 TAATCGAACTCGGGGGTCTT--TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
60962 AGTTTGTTTA
Statistics
Matches: 625, Mismatches: 81, Indels: 27
0.85 0.11 0.04
Matches are distributed among these distances:
163 29 0.05
164 241 0.39
165 288 0.46
166 8 0.01
167 36 0.06
168 23 0.04
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (165 bp):
TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
CCTTAGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTGGCAGATAACCCTTCTAGACTTAAG
TTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
Found at i:66219 original size:15 final size:15
Alignment explanation
Indices: 66201--66293 Score: 50
Period size: 15 Copynumber: 6.0 Consensus size: 15
66191 TAGCGACGAT
66201 AAATAAAATATAAAA
1 AAATAAAATATAAAA
*
66216 AAATAAACA-ATAAAT
1 AAATAAA-ATATAAAA
* *
66231 AAATAAATAGATCAAGAGT
1 AAATAAA-ATAT-AA-A-A
66250 AAATAAAATAATAAAA
1 AAATAAAAT-ATAAAA
* *
66266 TAA-CAAAT-TAAAA
1 AAATAAAATATAAAA
66279 AAATGAAAA-ATAAAA
1 AAAT-AAAATATAAAA
66294 TAAAAGTTGC
Statistics
Matches: 61, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
13 7 0.11
15 32 0.52
16 5 0.08
17 3 0.05
18 4 0.07
19 10 0.16
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.19
Consensus pattern (15 bp):
AAATAAAATATAAAA
Found at i:66308 original size:29 final size:28
Alignment explanation
Indices: 66250--66319 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 28
66240 GATCAAGAGT
*
66250 AAATAAAATAATAAAATAACAAATTAAAA
1 AAATGAAA-AATAAAATAACAAATTAAAA
*
66279 AAATGAAAAATAAAATAA-AAGTTGCAAAA
1 AAATGAAAAATAAAATAACAAATT--AAAA
*
66308 AAAGGAAAAATA
1 AAATGAAAAATA
66320 TGGTACATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 4 0.11
28 10 0.28
29 22 0.61
ACGTcount: A:0.73, C:0.03, G:0.07, T:0.17
Consensus pattern (28 bp):
AAATGAAAAATAAAATAACAAATTAAAA
Found at i:67393 original size:16 final size:15
Alignment explanation
Indices: 67367--67397 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
67357 ATGTATGACC
67367 GGTCATCCCGGGATG
1 GGTCATCCCGGGATG
67382 GGTCAGTCCCGGGATG
1 GGTCA-TCCCGGGATG
67398 CCGGCCGACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.13, C:0.26, G:0.42, T:0.19
Consensus pattern (15 bp):
GGTCATCCCGGGATG
Found at i:67559 original size:4 final size:4
Alignment explanation
Indices: 67552--67613 Score: 72
Period size: 4 Copynumber: 15.5 Consensus size: 4
67542 AACAAACAAT
* * *
67552 AATA AATA AATA AAT- AATA AATGA AAAA AATA AATA AATA GATA AATT
1 AATA AATA AATA AATA AATA AAT-A AATA AATA AATA AATA AATA AATA
*
67600 AATA AATT AATA AA
1 AATA AATA AATA AA
67614 AAACATTTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
3 3 0.06
4 42 0.88
5 3 0.06
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:67606 original size:24 final size:24
Alignment explanation
Indices: 67551--67613 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
67541 AAACAAACAA
67551 TAATAAATAAATAAATAATAAATG
1 TAATAAATAAATAAATAATAAATG
* *
67575 AAAAAAATAAATAAATAGATAAAT-
1 TAATAAATAAATAAATA-ATAAATG
*
67599 TAATAAATTAATAAA
1 TAATAAATAAATAAA
67614 AAACATTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
24 27 0.82
25 6 0.18
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (24 bp):
TAATAAATAAATAAATAATAAATG
Found at i:67684 original size:36 final size:36
Alignment explanation
Indices: 67610--67931 Score: 238
Period size: 35 Copynumber: 9.0 Consensus size: 36
67600 AATAAATTAA
* * *
67610 TAAAAAAC--ATTTTTAAAACTATACAATATATGTTTT
1 TAAAAAACTAATTTTCAAAACTATATAATATA--TATT
* * * *
67646 TAAAAAAATAATTTTCAAAACCACATAACATATATT
1 TAAAAAACTAATTTTCAAAACTATATAATATATATT
* **
67682 TAAAAAA-AAAAATTCAAAACTATATAATATAT-TT
1 TAAAAAACTAATTTTCAAAACTATATAATATATATT
*
67716 TTAAAAACTAATTTTCAAAACTATAT-ATATATATT
1 TAAAAAACTAATTTTCAAAACTATATAATATATATT
* *
67751 TTAAAAACTAATTTTCAAAATTATATAATATATATT
1 TAAAAAACTAATTTTCAAAACTATATAATATATATT
* *
67787 T-AGAAACTAATTTTCAAAATTATATAATATATATGTTT
1 TAAAAAACTAATTTTCAAAACTATATAATATATA---TT
** * *
67825 TTCAAAA-T-GTTTTTAAAAGCTATATATTATATATATT
1 TAAAAAACTAATTTTCAAAA-CTATATA--ATATATATT
* * *
67862 T-AAAAA--AGTTTTCAAAACAATATAATATGTATTT
1 TAAAAAACTAATTTTCAAAACTATATAATATATA-TT
* * *
67896 TCAAAAA-T-GTTTTCAAAAACTATATATTATATATT
1 TAAAAAACTAATTTTC-AAAACTATATAATATATATT
67931 T
1 T
67932 TCAAAATATT
Statistics
Matches: 238, Mismatches: 31, Indels: 35
0.78 0.10 0.12
Matches are distributed among these distances:
33 6 0.03
34 17 0.07
35 112 0.47
36 55 0.23
37 11 0.05
38 27 0.11
39 3 0.01
40 7 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (36 bp):
TAAAAAACTAATTTTCAAAACTATATAATATATATT
Found at i:67949 original size:35 final size:35
Alignment explanation
Indices: 67650--67989 Score: 239
Period size: 35 Copynumber: 9.6 Consensus size: 35
67640 TGTTTTTAAA
* * ** **
67650 AAAATAATTTTCAAAACCACATAACATATATTTAA
1 AAAATAATTTTCAAAACTATATATTATATATTTTC
* ** * *
67685 AAAAAAAAATTCAAAACTATATAATATAT-TTTTA
1 AAAATAATTTTCAAAACTATATATTATATATTTTC
*
67719 AAAACTAATTTTCAAAACTATATA-TATATATTTTA
1 AAAA-TAATTTTCAAAACTATATATTATATATTTTC
* * **
67754 AAAACTAATTTTCAAAATTATATAATATATATTTAG
1 AAAA-TAATTTTCAAAACTATATATTATATATTTTC
* * *
67790 AAACTAATTTTCAAAATTATATAATATATATGTTTTTC
1 AAAATAATTTTCAAAACTATAT-AT-TATAT-ATTTTC
* *
67828 AAAAT-GTTTTTAAAAGCTATATATTATATATATTT-
1 AAAATAATTTTCAAAA-CTATATATTATATAT-TTTC
* * *
67863 AAAA-AAGTTTTCAAAACAATATAATATGTATTTTC
1 AAAATAA-TTTTCAAAACTATATATTATATATTTTC
*
67898 AAAA-ATGTTTTCAAAAACTATATATTATATATTTTC
1 AAAATA-ATTTTC-AAAACTATATATTATATATTTTC
** *
67934 AAAAT-ATTTGAAAAAAACCATATATTATATAATTTTC
1 AAAATAATTT--TCAAAACTATATATTATAT-ATTTTC
*
67971 AAAATGA-TTTC-AAACTATA
1 AAAATAATTTTCAAAACTATA
67990 AAAAAAATGG
Statistics
Matches: 248, Mismatches: 39, Indels: 37
0.77 0.12 0.11
Matches are distributed among these distances:
34 23 0.09
35 115 0.46
36 69 0.28
37 28 0.11
38 13 0.05
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.40
Consensus pattern (35 bp):
AAAATAATTTTCAAAACTATATATTATATATTTTC
Found at i:68101 original size:20 final size:20
Alignment explanation
Indices: 68073--68112 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
68063 TTAATCTTTA
*
68073 AATTTTTAAAATTATAAAAT
1 AATTATTAAAATTATAAAAT
* *
68093 AATTATTAAATTTATTAAAT
1 AATTATTAAAATTATAAAAT
68113 TGTTATATCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTATTAAAATTATAAAAT
Found at i:69074 original size:6 final size:6
Alignment explanation
Indices: 69063--69111 Score: 89
Period size: 6 Copynumber: 8.2 Consensus size: 6
69053 GTCATGTTTA
*
69063 GCGTAT GCGTAT GCGTAT GCGTAT GCGTAT ACGTAT GCGTAT GCGTAT
1 GCGTAT GCGTAT GCGTAT GCGTAT GCGTAT GCGTAT GCGTAT GCGTAT
69111 G
1 G
69112 TATATGTGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.18, C:0.16, G:0.33, T:0.33
Consensus pattern (6 bp):
GCGTAT
Found at i:73376 original size:16 final size:16
Alignment explanation
Indices: 73355--73387 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
73345 CACGTGAGGA
73355 TTATTTTC-TTTTCATT
1 TTATTTTCATTTT-ATT
73371 TTATTTTCATTTTATT
1 TTATTTTCATTTTATT
73387 T
1 T
73388 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCATTTTATT
Found at i:73377 original size:11 final size:11
Alignment explanation
Indices: 73357--73387 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
73347 CGTGAGGATT
*
73357 ATTTTCTTTTC
1 ATTTTATTTTC
73368 ATTTTATTTTC
1 ATTTTATTTTC
73379 ATTTTATTT
1 ATTTTATTT
73388 ACTGTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (11 bp):
ATTTTATTTTC
Found at i:76010 original size:18 final size:18
Alignment explanation
Indices: 75987--76051 Score: 112
Period size: 18 Copynumber: 3.6 Consensus size: 18
75977 GACCGGTCAC
75987 AACCCGACCCGACCCGTT
1 AACCCGACCCGACCCGTT
76005 AACCCGACCCGACCCGTT
1 AACCCGACCCGACCCGTT
*
76023 CACCCGACCCGACCCGTT
1 AACCCGACCCGACCCGTT
*
76041 GACCCGACCCG
1 AACCCGACCCG
76052 TTGACCGTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.20, C:0.52, G:0.18, T:0.09
Consensus pattern (18 bp):
AACCCGACCCGACCCGTT
Found at i:76044 original size:8 final size:8
Alignment explanation
Indices: 76033--76079 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
76023 CACCCGACCC
76033 GACCCGTT
1 GACCCGTT
76041 GACCC---
1 GACCCGTT
76046 GACCCGTT
1 GACCCGTT
76054 GA-CCGTT
1 GACCCGTT
76061 GACCCGTT
1 GACCCGTT
76069 GA-CCGTT
1 GACCCGTT
76076 GACC
1 GACC
76080 GGAGTTGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.15
7 14 0.41
8 15 0.44
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:76044 original size:13 final size:13
Alignment explanation
Indices: 76028--76072 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
76018 CCGTTCACCC
76028 GACCCGACCCGTT
1 GACCCGACCCGTT
76041 GACCCGACCCGTT
1 GACCCGACCCGTT
*
76054 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
76069 GACC
1 GACC
76073 GTTGACCGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 17 0.59
15 12 0.41
ACGTcount: A:0.16, C:0.42, G:0.24, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:76061 original size:7 final size:7
Alignment explanation
Indices: 76049--76080 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
76039 TTGACCCGAC
76049 CCGTTGA
1 CCGTTGA
76056 CCGTTGA
1 CCGTTGA
76063 CCCGTTGA
1 -CCGTTGA
76071 CCGTTGA
1 CCGTTGA
76078 CCG
1 CCG
76081 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:76066 original size:15 final size:15
Alignment explanation
Indices: 76033--76079 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
76023 CACCCGACCC
*
76033 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
76046 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
76061 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
76076 GACC
1 GACC
76080 GGAGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:77402 original size:18 final size:18
Alignment explanation
Indices: 77376--77411 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
77366 TCGAAAGGAC
*
77376 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
77394 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
77412 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:78582 original size:23 final size:23
Alignment explanation
Indices: 78556--78638 Score: 96
Period size: 23 Copynumber: 3.6 Consensus size: 23
78546 TCCGACTTGA
* *
78556 ATTCTGTTATGATCCTGACCTGG
1 ATTCTGATATGATCATGACCTGG
* *
78579 ATTCTGATCTGAT-ATTGACATGG
1 ATTCTGATATGATCA-TGACCTGG
*
78602 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGAT-CATGACCTGG
78626 ATTCTGATATGAT
1 ATTCTGATATGAT
78639 ACTTGACTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 31 0.61
24 19 0.37
25 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (23 bp):
ATTCTGATATGATCATGACCTGG
Found at i:78626 original size:24 final size:24
Alignment explanation
Indices: 78571--78645 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
78561 GTTATGATCC
78571 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
78594 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
78618 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
78642 TGAC
1 TGAC
78646 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:80839 original size:18 final size:18
Alignment explanation
Indices: 80816--80880 Score: 112
Period size: 18 Copynumber: 3.6 Consensus size: 18
80806 GACCGGTCAC
80816 AACCCGACCCGACCCGTT
1 AACCCGACCCGACCCGTT
80834 AACCCGACCCGACCCGTT
1 AACCCGACCCGACCCGTT
*
80852 CACCCGACCCGACCCGTT
1 AACCCGACCCGACCCGTT
*
80870 GACCCGACCCG
1 AACCCGACCCG
80881 TTGACCGTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.20, C:0.52, G:0.18, T:0.09
Consensus pattern (18 bp):
AACCCGACCCGACCCGTT
Found at i:80873 original size:8 final size:8
Alignment explanation
Indices: 80862--80908 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
80852 CACCCGACCC
80862 GACCCGTT
1 GACCCGTT
80870 GACCC---
1 GACCCGTT
80875 GACCCGTT
1 GACCCGTT
80883 GA-CCGTT
1 GACCCGTT
80890 GACCCGTT
1 GACCCGTT
80898 GA-CCGTT
1 GACCCGTT
80905 GACC
1 GACC
80909 GGAGTTGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.15
7 14 0.41
8 15 0.44
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:80873 original size:13 final size:13
Alignment explanation
Indices: 80857--80901 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
80847 CCGTTCACCC
80857 GACCCGACCCGTT
1 GACCCGACCCGTT
80870 GACCCGACCCGTT
1 GACCCGACCCGTT
*
80883 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
80898 GACC
1 GACC
80902 GTTGACCGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 17 0.59
15 12 0.41
ACGTcount: A:0.16, C:0.42, G:0.24, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:80890 original size:7 final size:7
Alignment explanation
Indices: 80878--80909 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
80868 TTGACCCGAC
80878 CCGTTGA
1 CCGTTGA
80885 CCGTTGA
1 CCGTTGA
80892 CCCGTTGA
1 -CCGTTGA
80900 CCGTTGA
1 CCGTTGA
80907 CCG
1 CCG
80910 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:80895 original size:15 final size:15
Alignment explanation
Indices: 80862--80908 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
80852 CACCCGACCC
*
80862 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
80875 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
80890 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
80905 GACC
1 GACC
80909 GGAGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:82232 original size:18 final size:18
Alignment explanation
Indices: 82206--82241 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
82196 TCGAAAGGAC
*
82206 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
82224 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
82242 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:83411 original size:23 final size:23
Alignment explanation
Indices: 83385--83467 Score: 96
Period size: 23 Copynumber: 3.6 Consensus size: 23
83375 TCCGACTTGA
* *
83385 ATTCTGTTATGATCCTGACCTGG
1 ATTCTGATATGATCATGACCTGG
* *
83408 ATTCTGATCTGAT-ATTGACATGG
1 ATTCTGATATGATCA-TGACCTGG
*
83431 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGAT-CATGACCTGG
83455 ATTCTGATATGAT
1 ATTCTGATATGAT
83468 ACTTGACTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 31 0.61
24 19 0.37
25 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (23 bp):
ATTCTGATATGATCATGACCTGG
Found at i:83455 original size:24 final size:24
Alignment explanation
Indices: 83400--83474 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
83390 GTTATGATCC
83400 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
83423 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
83447 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
83471 TGAC
1 TGAC
83475 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:86623 original size:21 final size:21
Alignment explanation
Indices: 86599--86643 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
86589 ATTTTATCGT
*
86599 TATAAATTTTGTTAAAT-TATA
1 TATAAATTTT-TAAAATCTATA
*
86620 TATATATTTTTAAAATCTATA
1 TATAAATTTTTAAAATCTATA
86641 TAT
1 TAT
86644 TTCGCATGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
TATAAATTTTTAAAATCTATA
Found at i:99198 original size:59 final size:60
Alignment explanation
Indices: 99142--99258 Score: 141
Period size: 59 Copynumber: 2.0 Consensus size: 60
99132 AAGAAAAATT
* * *
99142 TAAAT-GTAACTTATTCTAT-TCCCAATTTTACAGTTACTTTTAG-GTATATTTAAAAAAA
1 TAAATAGTAACTTATTATATCT-CCAAATTTACAGTTACTTTTAGAGAATATTTAAAAAAA
* * * *
99200 TATATAGTTACTTATTATATCTCCAAATTTACAGTTATTTTTAGAGAATATTTACAAAA
1 TAAATAGTAACTTATTATATCTCCAAATTTACAGTTACTTTTAGAGAATATTTAAAAAA
99259 CCATACAACA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
58 4 0.08
59 32 0.65
60 13 0.27
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (60 bp):
TAAATAGTAACTTATTATATCTCCAAATTTACAGTTACTTTTAGAGAATATTTAAAAAAA
Found at i:104485 original size:2 final size:2
Alignment explanation
Indices: 104478--104529 Score: 54
Period size: 2 Copynumber: 27.0 Consensus size: 2
104468 ATCGGGTCGG
* * * *
104478 AT AT AT AT AT AT TT AA AT -T AA AT AT AT AA AT AT -T 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
104518 AT AT AT AT AT AT
1 AT AT AT AT AT AT
104530 TAATTTAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:104576 original size:43 final size:47
Alignment explanation
Indices: 104488--104619 Score: 168
Period size: 43 Copynumber: 2.9 Consensus size: 47
104478 ATATATATAT
*
104488 ATTTAAATTAAATATATAAATATTATATATATATATATATATTAATTTA
1 ATTTAAATTAAATTTATAAATA-T-TATATATATATATATATTAATTTA
*
104537 ATTTAAATTTAATTTATAAATATTATATATAT-T-T-T-TTAATTTA
1 ATTTAAATTAAATTTATAAATATTATATATATATATATATTAATTTA
* *
104580 ATTTAAATTAAATTTATTAGTATTATATATATA-AT-TATTA
1 ATTTAAATTAAATTTATAAATATTATATATATATATATATTA
104620 TTTTTAATAT
Statistics
Matches: 75, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
43 37 0.49
44 3 0.04
45 4 0.05
46 1 0.01
47 9 0.12
48 1 0.01
49 20 0.27
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (47 bp):
ATTTAAATTAAATTTATAAATATTATATATATATATATATTAATTTA
Found at i:104580 original size:38 final size:40
Alignment explanation
Indices: 104478--104589 Score: 126
Period size: 44 Copynumber: 2.8 Consensus size: 40
104468 ATCGGGTCGG
* *
104478 ATATATATA-TATTTAAATTAAATATATAAATATTATATATAT
1 ATATATATATTATTTAATTTAAAT-T-T-AATATTATAAATAT
104520 ATATATATATTAATTTAATTTAAATTTAAT-TTATAAATAT
1 ATATATATATT-ATTTAATTTAAATTTAATATTATAAATAT
*
104560 -TATATATATTTTTTAATTT-AATTTAA-ATTA
1 ATATATATATTATTTAATTTAAATTTAATATTA
104590 AATTTATTAG
Statistics
Matches: 64, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
37 10 0.16
38 8 0.12
39 10 0.16
40 9 0.14
41 3 0.05
42 10 0.16
43 2 0.03
44 12 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (40 bp):
ATATATATATTATTTAATTTAAATTTAATATTATAAATAT
Found at i:104646 original size:12 final size:12
Alignment explanation
Indices: 104631--104665 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
104621 TTTTAATATT
*
104631 TATCGGGTCGGG
1 TATCGGGCCGGG
104643 TATCGGGCCGGG
1 TATCGGGCCGGG
*
104655 TATCGAGCCGG
1 TATCGGGCCGG
104666 ATAATTAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.11, C:0.23, G:0.46, T:0.20
Consensus pattern (12 bp):
TATCGGGCCGGG
Found at i:105544 original size:29 final size:30
Alignment explanation
Indices: 105507--105586 Score: 87
Period size: 28 Copynumber: 2.8 Consensus size: 30
105497 AAAAAAATTA
* *
105507 AAATATTATAATATTATTTTGATATTATAAT
1 AAAT-TTATAATATTATTATAATATTATAAT
*
105538 -AATTTATAATATT-TTATAATATTTTAAT
1 AAATTTATAATATTATTATAATATTATAAT
*
105566 AAATTTA-AATAATATTA-AATA
1 AAATTTATAATATTATTATAATA
105587 AATCAACATT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
28 21 0.49
29 19 0.44
30 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (30 bp):
AAATTTATAATATTATTATAATATTATAAT
Found at i:105546 original size:10 final size:10
Alignment explanation
Indices: 105531--105587 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
105521 TATTTTGATA
105531 TTATAATAAT
1 TTATAATAAT
*
105541 TTATAATATT
1 TTATAATAAT
105551 TTATAAT-AT
1 TTATAATAAT
105560 TT-TAATAAAT
1 TTATAAT-AAT
105570 TTA-AATAAT
1 TTATAATAAT
105579 ATTA-AATAA
1 -TTATAATAA
105588 ATCAACATTG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 4 0.10
9 6 0.15
10 31 0.76
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TTATAATAAT
Found at i:110268 original size:20 final size:21
Alignment explanation
Indices: 110230--110281 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 21
110220 ATGTCGATAC
*
110230 ATTTAATCAATTT-TATTTTA-
1 ATTTAATAAATTTAT-TTTTAT
110250 ATTTAATAAATTTACTTTTTAT
1 ATTTAATAAATTTA-TTTTTAT
110272 ATTTAA-AAAT
1 ATTTAATAAAT
110282 CAATCAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 12 0.43
21 9 0.32
22 7 0.25
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTAATAAATTTATTTTTAT
Found at i:111646 original size:105 final size:107
Alignment explanation
Indices: 111532--111746 Score: 416
Period size: 107 Copynumber: 2.0 Consensus size: 107
111522 TTAATTATTT
111532 AGAAGTGTTATTGTTTTTTTCAACCCATATGCAATTTTT-CCGTC-TTTTTACATTTGAAATTGA
1 AGAAGTGTTATTGTTTTTTTCAACCCATATGCAATTTTTGCCGTCTTTTTTACATTTGAAATTGA
111595 TCATAAAATTATGTGACTGGGAATTGATGGTTTTTAAACCAC
66 TCATAAAATTATGTGACTGGGAATTGATGGTTTTTAAACCAC
111637 AGAAGTGTTATTGTTTTTTTCAACCCATATGCAATTTTTGCCGTCTTTTTTACATTTGAAATTGA
1 AGAAGTGTTATTGTTTTTTTCAACCCATATGCAATTTTTGCCGTCTTTTTTACATTTGAAATTGA
111702 TCATAAAATTATGTGACTGGGAATTGATGGTTTTTAAACCAC
66 TCATAAAATTATGTGACTGGGAATTGATGGTTTTTAAACCAC
111744 AGA
1 AGA
111747 TGTTTCGCCT
Statistics
Matches: 108, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
105 39 0.36
106 5 0.05
107 64 0.59
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (107 bp):
AGAAGTGTTATTGTTTTTTTCAACCCATATGCAATTTTTGCCGTCTTTTTTACATTTGAAATTGA
TCATAAAATTATGTGACTGGGAATTGATGGTTTTTAAACCAC
Found at i:113450 original size:37 final size:36
Alignment explanation
Indices: 113375--113450 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
113365 TTTTTATATT
*
113375 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
113411 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
113448 TTT
1 TTT
113451 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:117357 original size:183 final size:183
Alignment explanation
Indices: 117034--117404 Score: 516
Period size: 183 Copynumber: 2.0 Consensus size: 183
117024 TGAATGCTTA
* *
117034 TCTACATTCGATTTTGGCCTCCATTCTTTTTTTCCCCCCTTAGATTTATTATTGGCTTGGTGTTT
1 TCTACATTCGATTTTGGCCTCCACTCTTTTTTT---CCCTTAGATTTATTATTGGCTTGGGGTTT
117099 GGGATTGACAGTAGCTTCTGAAGTTGGCTTCTTGCCCTTGCTACATTTCTCACCCTTACATATAC
63 GGGATTGACAGTAGCTTCTGAAGTTGGCTTCTTGCCCTTGCTACATTTCTCACCCTTACATATAC
* *
117164 TCTCTTTCACACAACAATGGTGATC-GGATTCCTAGGATATATGGGTTTCATCTTTT
128 TCTCTTTCACACAACAATGGTCA-CAGGATTCCTAGGATACATGGGTTTCATCTTTT
* * *
117220 TCTACTTTCGATTTTGGCCTCCACTCTTGTTTTT-TCTTAGATTTATTGTT-GCTTTGGGGTTTG
1 TCTACATTCGATTTTGGCCTCCACTCTT-TTTTTCCCTTAGATTTATTATTGGC-TTGGGGTTTG
* *
117283 GGATT-ACCAGTAGCTTCTGAAGTTGGCTTCTTGCCCTTTCTACATTTCTCACCCTTACATCTAC
64 GGATTGA-CAGTAGCTTCTGAAGTTGGCTTCTTGCCCTTGCTACATTTCTCACCCTTACATATAC
* * * * * *
117347 TCTTTTTCACACCACAGTGGTCACAGGGTTCCTCGGATACATGGTTTTCATCTTTT
128 TCTCTTTCACACAACAATGGTCACAGGATTCCTAGGATACATGGGTTTCATCTTTT
117403 TC
1 TC
117405 CAAATAACGT
Statistics
Matches: 166, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
182 4 0.02
183 131 0.79
186 26 0.16
187 5 0.03
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.43
Consensus pattern (183 bp):
TCTACATTCGATTTTGGCCTCCACTCTTTTTTTCCCTTAGATTTATTATTGGCTTGGGGTTTGGG
ATTGACAGTAGCTTCTGAAGTTGGCTTCTTGCCCTTGCTACATTTCTCACCCTTACATATACTCT
CTTTCACACAACAATGGTCACAGGATTCCTAGGATACATGGGTTTCATCTTTT
Found at i:117786 original size:33 final size:33
Alignment explanation
Indices: 117748--117873 Score: 169
Period size: 33 Copynumber: 4.0 Consensus size: 33
117738 TTCCTAGATA
117748 TACCTAAAAAATACATCAAATAACAATAAGCAT
1 TACCTAAAAAATACATCAAATAACAATAAGCAT
*
117781 TACCTAAAAAATACATC---T--C-CT-AG-AT
1 TACCTAAAAAATACATCAAATAACAATAAGCAT
117806 ATACCTAAAAAATACATCAAATAACAATAAGCAT
1 -TACCTAAAAAATACATCAAATAACAATAAGCAT
117840 TACCTAAAAAATACATCAAAATAACAATAAGCAT
1 TACCTAAAAAATACATC-AAATAACAATAAGCAT
117874 GATCCAAACG
Statistics
Matches: 81, Mismatches: 2, Indels: 19
0.79 0.02 0.19
Matches are distributed among these distances:
25 2 0.02
26 19 0.23
27 1 0.01
28 1 0.01
29 1 0.01
30 1 0.01
31 1 0.01
32 1 0.01
33 36 0.44
34 18 0.22
ACGTcount: A:0.56, C:0.19, G:0.03, T:0.22
Consensus pattern (33 bp):
TACCTAAAAAATACATCAAATAACAATAAGCAT
Found at i:117811 original size:59 final size:59
Alignment explanation
Indices: 117739--117856 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
117729 AGACAAGTTT
117739 TCCTAGATATACCTAAAAAATACATCAAATAACAATAAGCATTACCTAAAAAATACATC
1 TCCTAGATATACCTAAAAAATACATCAAATAACAATAAGCATTACCTAAAAAATACATC
117798 TCCTAGATATACCTAAAAAATACATCAAATAACAATAAGCATTACCTAAAAAATACATC
1 TCCTAGATATACCTAAAAAATACATCAAATAACAATAAGCATTACCTAAAAAATACATC
117857 AAAATAACAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.53, C:0.20, G:0.03, T:0.24
Consensus pattern (59 bp):
TCCTAGATATACCTAAAAAATACATCAAATAACAATAAGCATTACCTAAAAAATACATC
Found at i:124315 original size:36 final size:35
Alignment explanation
Indices: 124241--124338 Score: 117
Period size: 36 Copynumber: 2.8 Consensus size: 35
124231 AACACATTCA
* * *
124241 TCAATTATATTCTAAA-CTCCAAATTCCAAAATATT
1 TCAATTACATTCTAAACCT-CAAATTCAAAAATACT
124276 TCAATTACATTCTAAACCTCAAATTCTAAAAATACT
1 TCAATTACATTCTAAACCTCAAATTC-AAAAATACT
* **
124312 TCAATTACATGCCCAACCTCAAATTCA
1 TCAATTACATTCTAAACCTCAAATTCA
124339 TAATTCATTC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
35 23 0.42
36 32 0.58
ACGTcount: A:0.42, C:0.24, G:0.01, T:0.33
Consensus pattern (35 bp):
TCAATTACATTCTAAACCTCAAATTCAAAAATACT
Found at i:125080 original size:148 final size:148
Alignment explanation
Indices: 124807--125099 Score: 426
Period size: 148 Copynumber: 2.0 Consensus size: 148
124797 AAACTATTTA
* * * *
124807 AATTAGAATCAAATAATATTAGAGTATTATAAATATTTATAATTAAATTTAAACAGAAACTCGAG
1 AATTAGAATAAAATAATATTAGAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCGAA
* *
124872 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAGATCGAAAAAAATTCGAGTCATCT
66 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAATTCGAGTCAACT
124937 ATTTTATAAAATGAACTG
131 ATTTTATAAAATGAACTG
* *
124955 AATTAGAATAAAATAATATTATAATATGATCAATATTTATAATTAAATTTAAACAGAAACTCGAA
1 AATTAGAATAAAATAATATTAGAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCGAA
* * **** *
125020 AATTCAATTCAATTTGACTTGATTTCAATTTTATAAACTCAAATC-AAATTTTTTTTGAGTCAAC
66 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAA-AAAATTCGAGTCAAC
*
125084 TATTTTATAAACTGAA
130 TATTTTATAAAATGAA
125100 TTGAGTATTT
Statistics
Matches: 128, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
147 3 0.02
148 125 0.98
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (148 bp):
AATTAGAATAAAATAATATTAGAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCGAA
AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAATTCGAGTCAACT
ATTTTATAAAATGAACTG
Found at i:125337 original size:35 final size:34
Alignment explanation
Indices: 125281--125377 Score: 113
Period size: 35 Copynumber: 2.8 Consensus size: 34
125271 GAATGGATTA
* *
125281 TGAATTTGGGTTTAGGCATGTAATTGAAGTATTTT
1 TGAATTTGGGTTTA-GAATGTAATTGAAGCATTTT
*
125316 TGAATTTGAAGTTTAGAATGTAATTGAAGCATTTT
1 TGAATTTG-GGTTTAGAATGTAATTGAAGCATTTT
* * *
125351 GGATTTTGGGGTTTAAAATGTAATTGA
1 TGAATTT-GGGTTTAGAATGTAATTGA
125378 TAACTGTGTT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
35 47 0.89
36 6 0.11
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.43
Consensus pattern (34 bp):
TGAATTTGGGTTTAGAATGTAATTGAAGCATTTT
Found at i:125939 original size:6 final size:6
Alignment explanation
Indices: 125928--125970 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
125918 TTAATTAAAT
*
125928 ATTTAA ATTT-A ATTTCATA ATTTAA ATTTAT ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTT-A-A ATTTAA ATTTAA ATTTAA ATTTAA
125971 TTTTTTATCT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 5 0.16
6 21 0.66
7 1 0.03
8 5 0.16
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (6 bp):
ATTTAA
Found at i:125941 original size:18 final size:18
Alignment explanation
Indices: 125918--125970 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
125908 TACTTTTTAG
*
125918 TTAATTAAATATTTAAAT
1 TTAATTTAATATTTAAAT
*
125936 TTAATTTCATAATTTAAAT
1 TTAATTTAAT-ATTTAAAT
125955 TTATATTTAA-ATTTAA
1 TTA-ATTTAATATTTAA
125971 TTTTTTATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 14 0.47
19 11 0.37
20 5 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAATTTAATATTTAAAT
Found at i:125952 original size:19 final size:18
Alignment explanation
Indices: 125928--125970 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
125918 TTAATTAAAT
125928 ATTTAAATTTA-ATTTCATA
1 ATTTAAATTTATATTT-A-A
125947 ATTTAAATTTATATTTAA
1 ATTTAAATTTATATTTAA
125965 ATTTAA
1 ATTTAA
125971 TTTTTTATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.30
19 12 0.52
20 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTAAATTTATATTTAA
Found at i:125983 original size:18 final size:18
Alignment explanation
Indices: 125928--125983 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
125918 TTAATTAAAT
*
125928 ATTTAAATTTA-ATTTCATA
1 ATTTAAATTTATATCT-A-A
*
125947 ATTTAAATTTATATTTAA
1 ATTTAAATTTATATCTAA
* *
125965 ATTTAATTTTTTATCTAA
1 ATTTAAATTTATATCTAA
125983 A
1 A
125984 ATAACACTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 17 0.52
19 12 0.36
20 4 0.12
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTAAATTTATATCTAA
Found at i:129106 original size:17 final size:18
Alignment explanation
Indices: 129064--129107 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
129054 AGAAACTAAA
129064 GCTAAAAATGCAAATATG
1 GCTAAAAATGCAAATATG
*
129082 GCTAAAAATGCGAATATG
1 GCTAAAAATGCAAATATG
*
129100 GCCAAAAA
1 GCTAAAAA
129108 GTTCGAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (18 bp):
GCTAAAAATGCAAATATG
Found at i:130483 original size:21 final size:20
Alignment explanation
Indices: 130397--130554 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
130387 AAATGACCAA
**
130397 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
130416 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
130436 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
130456 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
130477 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
130498 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
130518 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
130539 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
130555 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:130757 original size:20 final size:20
Alignment explanation
Indices: 130521--130770 Score: 236
Period size: 20 Copynumber: 12.5 Consensus size: 20
130511 CGATTTTCCA
* ** *
130521 AAATCGCAACGCGAATATGA
1 AAATCGCAACGAGAATCCGT
* *
130541 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGAGAATC-CGT
*
130561 AAATCGCAACGCA-TATCCGT
1 AAATCGCAACG-AGAATCCGT
*
130581 AAATCGCAACGTA-TATCCGT
1 AAATCGCAACG-AGAATCCGT
* * **
130601 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGAGAATCCGT
* * *
130621 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
130641 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
*
130661 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
130681 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
130701 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
130721 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
130741 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
130761 AAATCACAAC
1 AAATCGCAAC
130771 ACTGAAATTT
Statistics
Matches: 199, Mismatches: 27, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
20 198 0.99
21 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGAGAATCCGT
Found at i:131685 original size:12 final size:12
Alignment explanation
Indices: 131668--131692 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
131658 ATATAATCCT
131668 GAAGAAGAAAAA
1 GAAGAAGAAAAA
131680 GAAGAAGAAAAA
1 GAAGAAGAAAAA
131692 G
1 G
131693 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:134038 original size:33 final size:33
Alignment explanation
Indices: 133987--134197 Score: 193
Period size: 33 Copynumber: 6.2 Consensus size: 33
133977 CGGAAATTAC
*
133987 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAAC-ATGAAAATCGCAATGCGAAATGAA
* *
134020 AATCCCAACATGAAAATCGCAATGCGGAAATAAA
1 AATCGCAACATGAAAATCGCAATGC-GAAATGAA
134054 AATCGCAAC--GAAAGAATCGCAATGCGAAATGAA
1 AATCGCAACATG-AA-AATCGCAATGCGAAATGAA
*
134087 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAAC-ATGAAAATCGCAATGCGAAATGAA
* * *
134120 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCG-C
1 AATCGCAA--C---ATGAAAATCGCAATGCGA-AAT-GAA
134159 AAT-GCGAA-ATGAAAATCGCAATGCGAAATGAA
1 AATCGC-AACATGAAAATCGCAATGCGAAATGAA
134191 AATCGCA
1 AATCGCA
134198 TTGCGATTCT
Statistics
Matches: 148, Mismatches: 14, Indels: 33
0.76 0.07 0.17
Matches are distributed among these distances:
31 1 0.01
32 9 0.06
33 84 0.57
34 27 0.18
35 2 0.01
37 1 0.01
38 15 0.10
39 8 0.05
40 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (33 bp):
AATCGCAACATGAAAATCGCAATGCGAAATGAA
Found at i:134073 original size:14 final size:14
Alignment explanation
Indices: 134054--134108 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
134044 CGGAAATAAA
134054 AATCGCAACGAAAG
1 AATCGCAACGAAAG
134068 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
134085 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
134101 AATCGCAA
1 AATCGCAA
134109 TGCGAAATGA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 5 0.14
19 8 0.23
ACGTcount: A:0.47, C:0.20, G:0.22, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:134092 original size:19 final size:19
Alignment explanation
Indices: 134001--134203 Score: 212
Period size: 19 Copynumber: 11.7 Consensus size: 19
133991 GCAACGAGAG
134001 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
134020 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
*
134034 AATCGCAATGCGGAAATAAA
1 AATCGCAATGC-GAAATGAA
134054 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
134068 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
134087 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
134101 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
134120 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
134139 AATCGCAA--CG--A-GAT
1 AATCGCAATGCGAAATGAA
134153 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
134172 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
134191 AATCGCATTGCGA
1 AATCGCAATGCGA
134204 TTCTCTCGTT
Statistics
Matches: 154, Mismatches: 9, Indels: 42
0.75 0.04 0.20
Matches are distributed among these distances:
14 40 0.26
15 2 0.01
16 10 0.06
17 10 0.06
18 3 0.02
19 77 0.50
20 12 0.08
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:134132 original size:52 final size:52
Alignment explanation
Indices: 133987--134197 Score: 267
Period size: 52 Copynumber: 4.1 Consensus size: 52
133977 CGGAAATTAC
*
133987 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*** * *
134034 AATCGCAATGCG-GA-AATAAAAAT-CGCAACGAAAGAATCGCAATGCGAAATGAA
1 AATCGCAA--CGAGAGAATCGCAATGCGAAATG-AA-AATCGCAATGCGAAATGAA
134087 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
134139 AATCGCAACGAGATAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
134191 AATCGCA
1 AATCGCA
134198 TTGCGATTCT
Statistics
Matches: 140, Mismatches: 12, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
46 5 0.04
47 16 0.11
48 9 0.06
49 2 0.01
50 1 0.01
51 2 0.01
52 79 0.56
53 21 0.15
54 5 0.04
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:134306 original size:52 final size:53
Alignment explanation
Indices: 134193--134309 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
134183 GAAATGAAAA
134193 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
134246 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
134298 TCGCATTGCGAT
1 TCGCATTGCGAT
134310 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:134317 original size:19 final size:19
Alignment explanation
Indices: 134212--134309 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
134202 GATTCTCTCG
134212 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
134232 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
134251 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
134265 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
134284 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
134303 TTGCGAT
1 TTGCGAT
134310 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:134435 original size:14 final size:14
Alignment explanation
Indices: 134416--134452 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
134406 CATCAATTAC
134416 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
134430 ACAAATCATCTTTT
1 ACAAATCAACTTTT
134444 ACAAATCAA
1 ACAAATCAA
134453 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:137294 original size:2 final size:2
Alignment explanation
Indices: 137287--137319 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
137277 ACTTACTCTC
137287 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
137320 CACACACACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:146729 original size:22 final size:22
Alignment explanation
Indices: 146704--146747 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
146694 TTTACAAAAT
*
146704 TAAAAATATAAA-AAATGTTTAA
1 TAAAAAGATAAATAAAT-TTTAA
*
146726 TAAAAGGATAAATAAATTTTAA
1 TAAAAAGATAAATAAATTTTAA
146748 ACTCCTAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (22 bp):
TAAAAAGATAAATAAATTTTAA
Found at i:150270 original size:16 final size:16
Alignment explanation
Indices: 150196--150268 Score: 101
Period size: 16 Copynumber: 4.6 Consensus size: 16
150186 TTAATCGTTA
150196 AATGATTCAAATACTG
1 AATGATTCAAATACTG
*
150212 AATGATTCAATTACTG
1 AATGATTCAAATACTG
*
150228 AATGATTCAAATACGG
1 AATGATTCAAATACTG
* *
150244 AATGATACAGATACTG
1 AATGATTCAAATACTG
*
150260 AATAATTCA
1 AATGATTCA
150269 GAAACTCTGA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (16 bp):
AATGATTCAAATACTG
Found at i:159559 original size:2 final size:2
Alignment explanation
Indices: 159552--159580 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
159542 GGAGGCCATC
159552 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
159581 ATTATATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:166055 original size:14 final size:15
Alignment explanation
Indices: 166034--166083 Score: 68
Period size: 14 Copynumber: 3.5 Consensus size: 15
166024 TTAATAATAC
166034 TAATAATTGTTATAA
1 TAATAATTGTTATAA
166049 T-ATAATTGTTATAA
1 TAATAATTGTTATAA
**
166063 TAATAA-TAATATAA
1 TAATAATTGTTATAA
166077 TAATAAT
1 TAATAAT
166084 ATAATAGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 26 0.84
15 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (15 bp):
TAATAATTGTTATAA
Found at i:166067 original size:3 final size:3
Alignment explanation
Indices: 166059--166109 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
166049 TATAATTGTT
* *
166059 ATA ATA ATA ATA AT- ATA ATA ATA AT- ATA ATA GTA ATA ATT ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
166104 ATA ATA
1 ATA ATA
166110 TTTATAACCA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 6 0.15
3 35 0.85
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:166078 original size:11 final size:11
Alignment explanation
Indices: 166062--166109 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
166052 AATTGTTATA
166062 ATAATAATAAT
1 ATAATAATAAT
166073 ATAATAATAAT
1 ATAATAATAAT
*
166084 ATAATAGT-A-
1 ATAATAATAAT
*
166093 ATAATTATAAT
1 ATAATAATAAT
166104 ATAATA
1 ATAATA
166110 TTTATAACCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 6 0.19
10 2 0.06
11 23 0.74
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:166084 original size:14 final size:14
Alignment explanation
Indices: 166058--166109 Score: 68
Period size: 14 Copynumber: 3.5 Consensus size: 14
166048 ATATAATTGT
166058 TATAATAATAATAA
1 TATAATAATAATAA
166072 TATAATAATAATATAA
1 TATAATAAT-A-ATAA
*
166088 TAGTAATAATTATAA
1 TA-TAATAATAATAA
166103 TATAATA
1 TATAATA
166110 TTTATAACCA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
14 14 0.41
15 7 0.21
16 6 0.18
17 7 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
TATAATAATAATAA
Found at i:166109 original size:20 final size:19
Alignment explanation
Indices: 166027--166110 Score: 75
Period size: 20 Copynumber: 4.4 Consensus size: 19
166017 CCTGATATTA
*
166027 ATAATACTAATAATTGT--T
1 ATAATA-TAATAATTATAAT
**
166045 ATAATATAATTGTTATAAT
1 ATAATATAATAATTATAAT
*
166064 AATAATA-ATATAATAATAAT
1 -ATAATATA-ATAATTATAAT
166084 ATAATAGTAATAATTATAAT
1 ATAATA-TAATAATTATAAT
166104 ATAATAT
1 ATAATAT
166111 TTATAACCAG
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
17 7 0.13
18 6 0.11
19 9 0.17
20 30 0.57
21 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.42
Consensus pattern (19 bp):
ATAATATAATAATTATAAT
Found at i:166114 original size:14 final size:13
Alignment explanation
Indices: 166043--166116 Score: 62
Period size: 14 Copynumber: 5.5 Consensus size: 13
166033 CTAATAATTG
*
166043 TTATAATATAATTG
1 TTATAATATAA-TA
166057 TTATAATAATAATA
1 TTATAAT-ATAATA
*
166071 ATAT-A-ATAATA
1 TTATAATATAATA
*
166082 ATATAATAGTAATAA
1 TTATAATA-TAAT-A
166097 TTATAATATAATA
1 TTATAATATAATA
166110 TTTATAA
1 -TTATAA
166117 CCAGGACAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
11 10 0.20
12 1 0.02
13 3 0.06
14 25 0.49
15 12 0.24
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (13 bp):
TTATAATATAATA
Found at i:166370 original size:52 final size:52
Alignment explanation
Indices: 166311--166915 Score: 1068
Period size: 52 Copynumber: 11.7 Consensus size: 52
166301 TTCGCTCTCT
* * *
166311 TTTTCTTCAGGGAGTAGAACTCGAACGATAATCTTCCTACGAGACTGCCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAA
*
166363 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAA
* *
166415 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGTCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAA
166467 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAA
* * *
166519 TTTTCTTCAAGGACTAGAACTCGAACAATAATCTTCATACGGGTCTGCCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAA
*
166571 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAA
*
166623 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAA
*
166675 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAA
*
166727 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAA
*
166779 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAA
*
166831 TTTTCTTCAGGGACTAGAACTCGAAC-ATAATCTTCCTACGGGTCTGCCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAA
166882 TTTTCTTCAGGGACTAGAACTCGAACAATAATCT
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCT
166916 CCAACGATCG
Statistics
Matches: 534, Mismatches: 18, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
51 49 0.09
52 485 0.91
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (52 bp):
TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAA
Found at i:166421 original size:24 final size:24
Alignment explanation
Indices: 166342--166422 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
166332 CGAACGATAA
166342 TCTTCCTACGAGACTGCCCAATTT
1 TCTTCCTACGAGACTGCCCAATTT
** * ** **
166366 TCTTCAGGGACTAGAACTCGAACAATAA
1 TCTTC--CTACGAG-ACT-GCCCAATTT
166394 TCTTCCTACGAGACTGCCCAATTT
1 TCTTCCTACGAGACTGCCCAATTT
166418 TCTTC
1 TCTTC
166423 AGGGACTAGA
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
24 15 0.38
25 3 0.08
26 8 0.21
27 3 0.08
28 10 0.26
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.31
Consensus pattern (24 bp):
TCTTCCTACGAGACTGCCCAATTT
Found at i:166970 original size:55 final size:55
Alignment explanation
Indices: 166911--167190 Score: 456
Period size: 55 Copynumber: 5.1 Consensus size: 55
166901 CTCGAACAAT
*
166911 AATCTCCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * *
166966 AATCTTCAACAATCGCGTCTGCCCCTTATTTATTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
*
167021 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TC-CAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * *
167074 AATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAT
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* *
167129 AATCTTCAACGATCGCGTCTGCCCCCAATTTATTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
167184 AATCTTC
1 AATCTTC
167191 TTTTGCTTCA
Statistics
Matches: 206, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
53 48 0.23
54 4 0.02
55 154 0.75
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (55 bp):
AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
Done.