Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008599.1 Hibiscus syriacus cultivar Beakdansim tig00111550_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: 235039
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:134 original size:52 final size:50
Alignment explanation
Indices: 75--393 Score: 289
Period size: 52 Copynumber: 6.3 Consensus size: 50
65 CGGAAAATAC
*
75 AATCGCAACGCGAAT-GAAAATCCCAACATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGAGAATCG-AAATCCCAA-ATGAAAATCGCAATGC-GAAATGAA
* * *
127 AATCGCAACGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAATCGAAATCCCAAATGAAAATCGCAATGCGAAATGAA
* * *
177 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAAC--GAGAATCGAAATCCCAAATGAAAATCGCAATGCGAAATGAA
* * *
229 AA-CGCAATGCGA-AAT-GAAATCGC-AACGACAGAATCGCAATGCGAAATTAA
1 AATCGCAA--CGAGAATCGAAATCCCAAATGA-A-AATCGCAATGCGAAATGAA
* *
279 AATCGCAATGCGA-AAT-GAAAATCGC-AACGAAAGAATCGCAATGCGAAATGAA
1 AATCGCAA--CGAGAATCG-AAATCCCAAATG-AA-AATCGCAATGCGAAATGAA
* * *
331 AATCGCAACGAAAGAATCGCAATGCGAAATG-AAATCGCAATGCGAAATG-A
1 AATCGCAACG--AGAATCGAAATCCCAAATGAAAATCGCAATGCGAAATGAA
381 AATCGCAACGAGA
1 AATCGCAACGAGA
394 TAATCGCAAT
Statistics
Matches: 236, Mismatches: 16, Indels: 34
0.83 0.06 0.12
Matches are distributed among these distances:
48 7 0.03
49 5 0.02
50 53 0.22
51 54 0.23
52 104 0.44
53 9 0.04
54 4 0.02
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.13
Consensus pattern (50 bp):
AATCGCAACGAGAATCGAAATCCCAAATGAAAATCGCAATGCGAAATGAA
Found at i:163 original size:19 final size:19
Alignment explanation
Indices: 102--388 Score: 321
Period size: 19 Copynumber: 16.7 Consensus size: 19
92 AAATCCCAAC
102 ATGAAAATCGCAATGCGGAA
1 ATGAAAATCGCAATGC-GAA
122 ATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
137 A-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
153 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
172 ATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
*
187 A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
205 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
224 ATGAAAA-CGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
*
242 ATG-AAATCGCAA--CGAC
1 ATGAAAATCGCAATGCGAA
258 A-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
*
274 ATTAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
293 ATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAA
310 A-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
326 ATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAA
343 A-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
359 ATG-AAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
377 ATG-AAATCGCAA
1 ATGAAAATCGCAA
389 CGAGATAATC
Statistics
Matches: 234, Mismatches: 6, Indels: 56
0.79 0.02 0.19
Matches are distributed among these distances:
12 8 0.03
14 37 0.16
15 3 0.01
16 23 0.10
17 19 0.08
18 47 0.20
19 84 0.36
20 13 0.06
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
ATGAAAATCGCAATGCGAA
Found at i:200 original size:33 final size:33
Alignment explanation
Indices: 158--410 Score: 204
Period size: 33 Copynumber: 7.5 Consensus size: 33
148 GCGAAATGAA
158 AATCGCAATGCGAAATGAAAATCGCAA-CGAGAG
1 AATCGCAATGCGAAATG-AAATCGCAAGCGAGAG
*
191 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATG
1 AATCGCAATGCGAAATG-AAATCGCAA-GCGAGA-G
* *
227 AAAACGCAATGCGAAATGAAATCGCAA-CGACAG
1 -AATCGCAATGCGAAATGAAATCGCAAGCGAGAG
* *
260 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAA-TGAAATCGCAA-GCG--A-GAG
*
298 AATCGCAA--CGAAA-G-AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAATCGCAA-GCG--A-GAG
*
331 AATCGCAA--CGAAA-G-AATCGCAATGCGAAATG
1 AATCGCAATGCGAAATGAAATCGCAA-GCGAGA-G
*
362 AAATCGCAATGCGAAATGAAATCGCAA-CGAGAT
1 -AATCGCAATGCGAAATGAAATCGCAAGCGAGAG
395 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
411 TATAAACGCA
Statistics
Matches: 192, Mismatches: 12, Indels: 33
0.81 0.05 0.14
Matches are distributed among these distances:
30 1 0.01
31 1 0.01
32 38 0.20
33 83 0.43
34 13 0.07
35 7 0.04
36 23 0.12
37 17 0.09
38 9 0.05
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAATCGCAAGCGAGAG
Found at i:526 original size:19 final size:19
Alignment explanation
Indices: 417--518 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
407 AAATTATAAA
417 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
436 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
456 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
472 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
489 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
508 CGCATTGCGAT
1 CGCATTGCGAT
519 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:637 original size:13 final size:14
Alignment explanation
Indices: 621--655 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
611 CATCAATTAC
621 ACAAATCA-CTTTT
1 ACAAATCATCTTTT
634 ACAAATCATCTTTT
1 ACAAATCATCTTTT
648 ACAAATCA
1 ACAAATCA
656 ATTAAACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (14 bp):
ACAAATCATCTTTT
Found at i:2639 original size:14 final size:14
Alignment explanation
Indices: 2620--2691 Score: 63
Period size: 14 Copynumber: 4.6 Consensus size: 14
2610 GCGAAATGAA
*
2620 AATCGCAACGACAG
1 AATCGCAACGAAAG
2634 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
2651 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
2667 AATCGCAACGCAAATG
1 AATCGCAACG-AAA-G
2683 AAATCGCAA
1 -AATCGCAA
2692 TGCGATTTTG
Statistics
Matches: 49, Mismatches: 1, Indels: 13
0.78 0.02 0.21
Matches are distributed among these distances:
14 18 0.37
15 3 0.06
16 6 0.12
17 14 0.29
19 8 0.16
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:2647 original size:33 final size:33
Alignment explanation
Indices: 2601--2691 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
2591 GCGAAACCAA
*
2601 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
2634 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
2667 AATCGCAACGC-AAATG-AAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
2692 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 9 0.16
32 5 0.09
33 41 0.75
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:2658 original size:19 final size:19
Alignment explanation
Indices: 2564--2696 Score: 110
Period size: 19 Copynumber: 7.6 Consensus size: 19
2554 TAGTTTACTT
* *
2564 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
2584 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
2603 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2622 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
2636 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
2655 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
2669 TCGCAACGC-AAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
2686 TCGCAATGCGA
1 TCGCAACGCGA
2697 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 8, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
14 16 0.17
15 3 0.03
16 8 0.08
17 20 0.21
18 1 0.01
19 35 0.37
20 12 0.13
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:2714 original size:19 final size:19
Alignment explanation
Indices: 2692--2820 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
2682 GAAATCGCAA
2692 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2711 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
2725 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2744 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
2758 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2777 TGTGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
2796 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
2816 TGCGA
1 TGCGA
2821 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 22 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 46 0.52
20 13 0.15
ACGTcount: A:0.09, C:0.16, G:0.29, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:2734 original size:33 final size:33
Alignment explanation
Indices: 2692--2783 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
2682 GAAATCGCAA
2692 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
2725 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
2758 TGCGATTTTCATTTCGCGTTGTGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
2784 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 53 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:3034 original size:90 final size:93
Alignment explanation
Indices: 2852--3313 Score: 857
Period size: 90 Copynumber: 5.0 Consensus size: 93
2842 GCAAATTGAA
2852 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTTAAAGAATACACAGTTT
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTG-TTAAAGAATACACAGTTT
2917 AGCAGAATTGGCAGCAACCGAACAAATTT
65 AGCAGAATTGGCAGCAACCGAACAAATTT
2946 ACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAG-ATACACAG-TTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
3008 GCAGAATTGGCAGCAACCGAACAAA-TT
66 GCAGAATTGGCAGCAACCGAACAAATTT
3035 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
3100 GCAGAATTGGCAGCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
3128 ACTTTCAACCAAAAGACAAAACAAAGAC-AA-A-TATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
3190 GCAGAATTGGCAGCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
3218 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
*
3283 GCAGAATTGGCAGCAACCGAATAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
3311 ACT
1 ACT
3314 AAGCAATCTA
Statistics
Matches: 360, Mismatches: 1, Indels: 15
0.96 0.00 0.04
Matches are distributed among these distances:
89 19 0.05
90 149 0.41
91 19 0.05
92 37 0.10
93 119 0.33
94 17 0.05
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
GCAGAATTGGCAGCAACCGAACAAATTT
Found at i:3160 original size:183 final size:182
Alignment explanation
Indices: 2852--3313 Score: 849
Period size: 183 Copynumber: 2.5 Consensus size: 182
2842 GCAAATTGAA
2852 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTTAAAGAATACACAGTTT
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTG-TTAAAGAATACACAGTTT
2917 AGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAATACTAT
65 AGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGAC-AA-A-TAT
2982 TTCACAGTGTTAAAG-ATACACAG-TTAGCAGAATTGGCAGCAACCGAACAAA-TT
127 TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTT
3035 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
3100 GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATTTC
66 GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATATTTC
3165 ACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTT
130 ACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTT
3218 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
*
3283 GCAGAATTGGCAGCAACCGAATAAATTTACT
66 GCAGAATTGGCAGCAACCGAACAAATTTACT
3314 AAGCAATCTA
Statistics
Matches: 274, Mismatches: 1, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
180 18 0.07
181 9 0.03
182 94 0.34
183 153 0.56
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (182 bp):
ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAATATTTCA
CAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTT
Found at i:5031 original size:14 final size:14
Alignment explanation
Indices: 5012--5101 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
5002 GTTGAAATGA
5012 AATCGCAACGAGAG
1 AATCGCAACGAGAG
5026 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
5043 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
5059 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
5078 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
5092 AATCACAACG
1 AATCGCAACG
5102 CGAAATGAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 20
0.73 0.03 0.23
Matches are distributed among these distances:
14 27 0.43
15 1 0.02
16 8 0.13
17 8 0.13
18 1 0.02
19 18 0.29
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:5049 original size:33 final size:33
Alignment explanation
Indices: 5005--5118 Score: 194
Period size: 33 Copynumber: 3.5 Consensus size: 33
4995 TCTTTTGGTT
5005 GAAATG-AAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
5037 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
5070 GAAATGAAAATCGCAACGAGAGAATCACAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
5103 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
5119 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 5 0.07
33 71 0.93
ACGTcount: A:0.46, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:5050 original size:19 final size:18
Alignment explanation
Indices: 5008--5123 Score: 85
Period size: 19 Copynumber: 6.9 Consensus size: 18
4998 TTTGGTTGAA
5008 ATGAAATCGCAA--CGAG
1 ATGAAATCGCAACGCGAG
5024 A-G-AATCGCAACGCGAG
1 ATGAAATCGCAACGCGAG
5040 ATGACAATCGCAA--CGAG
1 ATGA-AATCGCAACGCGAG
*
5057 A-G-AATCGCAACGCGAA
1 ATGAAATCGCAACGCGAG
5073 ATGAAAATCGCAA--CGAG
1 ATG-AAATCGCAACGCGAG
* *
5090 A-G-AATCACAACGCGAA
1 ATGAAATCGCAACGCGAG
*
5106 ATGAAAATCGCAATGCGA
1 ATG-AAATCGCAACGCGA
5124 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 6, Indels: 27
0.71 0.05 0.24
Matches are distributed among these distances:
14 23 0.29
15 1 0.01
16 16 0.20
17 12 0.15
19 27 0.34
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.10
Consensus pattern (18 bp):
ATGAAATCGCAACGCGAG
Found at i:5154 original size:14 final size:14
Alignment explanation
Indices: 5135--5189 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
5125 TTTGGTTTCG
5135 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
5149 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
5168 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
5182 CGTTGCGA
1 CGTTGCGA
5190 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:5167 original size:33 final size:33
Alignment explanation
Indices: 5119--5189 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
5109 AAAATCGCAA
**
5119 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
5152 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
5185 TGCGA
1 TGCGA
5190 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:5197 original size:33 final size:33
Alignment explanation
Indices: 5130--5211 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
5120 GCGATTTTGG
***
5130 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
5163 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
5196 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
5212 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:5216 original size:20 final size:20
Alignment explanation
Indices: 5142--5230 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
5132 TCGCGTTGCG
5142 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
5162 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
5175 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
5195 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
5215 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
5231 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:5351 original size:33 final size:33
Alignment explanation
Indices: 5309--5379 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
5299 AATACTAACT
*
5309 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
5342 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
5375 TGAAA
1 TGAAA
5380 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:5612 original size:21 final size:22
Alignment explanation
Indices: 5561--5614 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
5551 TGGTTGTGAG
**
5561 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
5583 GGAAATCTTCGGAGAT-GGGAC
1 GGATTTCTTCGGAGATGGGGAC
5604 GGATTTCTTCG
1 GGATTTCTTCG
5615 CCGTAGAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:5785 original size:20 final size:20
Alignment explanation
Indices: 5760--5952 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
5750 CTTTAAATAT
5760 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
5780 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
5802 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
5821 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
5841 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
5861 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
5881 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
5901 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
5921 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
5941 CGCGTTGCGATT
1 CGCGTTGCGATT
5953 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:5947 original size:60 final size:60
Alignment explanation
Indices: 5760--5952 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
5750 CTTTAAATAT
**
5760 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
5821 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
5881 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
5941 CGCGTTGCGATT
1 CGCGTTGCGATT
5953 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:6033 original size:20 final size:20
Alignment explanation
Indices: 6008--6059 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
5998 AAGAATCGCG
*
6008 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
6028 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
6048 TTGCGATTCTGG
1 TTGCGATTCTGG
6060 GGATCGCGTT
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:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:7256 original size:20 final size:20
Alignment explanation
Indices: 7231--7306 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
7221 CGAATTTGGA
* *
7231 AAATCGCAATGCCATTACGT
1 AAATCGCAATGCGAATACGT
7251 AAATCGCAATGCGAATACGT
1 AAATCGCAATGCGAATACGT
*
7271 AAATCGCAATGCGAATACAT
1 AAATCGCAATGCGAATACGT
*
7291 AAATCGCAACGCGAAT
1 AAATCGCAATGCGAAT
7307 CTGACTATCG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATCGCAATGCGAATACGT
Found at i:7294 original size:40 final size:40
Alignment explanation
Indices: 7212--7306 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
7202 GATCTCCGGT
** * * *
7212 ATCGCAACGCGAATTTGGAAAATCGCAATGCCATTACGTAA
1 ATCGCAACGCGAA-TACGTAAATCGCAATGCCAATACATAA
* *
7253 ATCGCAATGCGAATACGTAAATCGCAATGCGAATACATAA
1 ATCGCAACGCGAATACGTAAATCGCAATGCCAATACATAA
7293 ATCGCAACGCGAAT
1 ATCGCAACGCGAAT
7307 CTGACTATCG
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
40 34 0.74
41 12 0.26
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (40 bp):
ATCGCAACGCGAATACGTAAATCGCAATGCCAATACATAA
Found at i:7316 original size:20 final size:20
Alignment explanation
Indices: 7293--7379 Score: 147
Period size: 20 Copynumber: 4.3 Consensus size: 20
7283 GAATACATAA
* *
7293 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGATTCTGACT
*
7313 ATCGTAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
7333 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
7353 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
7373 ATCGCAA
1 ATCGCAA
7380 TACTGAATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:10734 original size:20 final size:20
Alignment explanation
Indices: 10709--10782 Score: 96
Period size: 20 Copynumber: 3.7 Consensus size: 20
10699 CAACGCGGAA
10709 ATCGCAACGCGAATATGACT
1 ATCGCAACGCGAATATGACT
* *
10729 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAATATGACT
**
10749 ATCGCAACGCGGAA-ATGAGA
1 ATCGCAACGC-GAATATGACT
10769 ATCGCAACGCGAAT
1 ATCGCAACGCGAAT
10783 TTAGTTTCGC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 3 0.06
20 41 0.87
21 3 0.06
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAATATGACT
Found at i:10833 original size:14 final size:14
Alignment explanation
Indices: 10814--10867 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
10804 CATTTACGCA
10814 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
10828 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
10845 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
10861 TTGCGAT
1 TTGCGAT
10868 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:10852 original size:33 final size:34
Alignment explanation
Indices: 10792--10887 Score: 149
Period size: 33 Copynumber: 2.9 Consensus size: 34
10782 TTTAGTTTCG
10792 CGTTGCGATTTTCATTTACGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTACGCATTGCGATTCTCT
10826 CGTTGCGATTTTCATTT-CGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTACGCATTGCGATTCTCT
** * *
10859 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTACGCATTGCGAT
10888 AGTCTGTTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 31 0.53
34 27 0.47
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.42
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTACGCATTGCGATTCTCT
Found at i:11012 original size:14 final size:15
Alignment explanation
Indices: 10993--11030 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
10983 CATCAATTAA
10993 ACAAATCAAT-ATTT
1 ACAAATCAATCATTT
*
11007 ACAAATC-ATCTTTT
1 ACAAATCAATCATTT
11021 ACAAATCAAT
1 ACAAATCAAT
11031 TAAACAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 17 0.81
15 2 0.10
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (15 bp):
ACAAATCAATCATTT
Found at i:12596 original size:20 final size:20
Alignment explanation
Indices: 12554--12600 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
12544 AAATTCAGTA
**
12554 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGAG
*
12574 TTGCGATAGTCAGATTCGAG
1 TTGCGATAGTCAGAATCGAG
12594 TTGCGAT
1 TTGCGAT
12601 TTACGTATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGAG
Found at i:12610 original size:20 final size:20
Alignment explanation
Indices: 12594--12700 Score: 160
Period size: 20 Copynumber: 5.3 Consensus size: 20
12584 CAGATTCGAG
12594 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
12614 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
12634 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
* ** *
12654 TTGCGATTTTTCAAATTCGCG
1 TTGCGA-TTTACGTATTCGCA
12675 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
12695 TTGCGA
1 TTGCGA
12701 ATTAGGAAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
20 61 0.80
21 15 0.20
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.39
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:12618 original size:40 final size:38
Alignment explanation
Indices: 12574--12700 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 38
12564 CAGAATCTCG
12574 TTGCGATAGTCAGATTCGAGTTGCGATTTACGTATTCGCA
1 TTGCGAT--TCAGATTCGAGTTGCGATTTACGTATTCGCA
* *
12614 TTGCGATTTACGTATTCGCA-TTGCGATTTACGTAATCGCA
1 TTGCGATTCA-G-ATTCG-AGTTGCGATTTACGTATTCGCA
* *
12654 TTGCGATTTTTCAAATTCGCGTTGCGATTTACGTATTCGCA
1 TTGCGA---TTCAGATTCGAGTTGCGATTTACGTATTCGCA
12695 TTGCGA
1 TTGCGA
12701 ATTAGGAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
38 2 0.03
39 1 0.01
40 37 0.50
41 31 0.42
43 3 0.04
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (38 bp):
TTGCGATTCAGATTCGAGTTGCGATTTACGTATTCGCA
Found at i:12721 original size:21 final size:21
Alignment explanation
Indices: 12697--12742 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
12687 TATTCGCATT
*
12697 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGAAAAATCGCAAC
* *
12718 GCGAATTTGAAAAATCGCAAT
1 GCGAATTAGAAAAATCGCAAC
12739 GCGA
1 GCGA
12743 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTAGAAAAATCGCAAC
Found at i:14988 original size:21 final size:21
Alignment explanation
Indices: 14962--15153 Score: 135
Period size: 23 Copynumber: 9.0 Consensus size: 21
14952 GATTTACATA
* *
14962 TTCGCATTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
14983 TTCGCATTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
15006 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
15025 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
* *
15048 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
15071 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
15090 TTCGTGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
15113 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
15136 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
15154 AATCGCAACG
Statistics
Matches: 143, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
19 24 0.17
21 50 0.35
23 69 0.48
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:15024 original size:42 final size:42
Alignment explanation
Indices: 14968--15159 Score: 194
Period size: 42 Copynumber: 4.5 Consensus size: 42
14958 CATATTCGCA
* * *
14968 TTGCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAATTCGCGTTGCGATTTATTCCAAGTTCG
* *
15010 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGCG
1 TTGCGATAGTCCAAATTCGCGTTGCGATTTATTCCAAGTT--CG
* * *
15054 TTGCGATTTATTCCAAATT--CGTTGCGA--TAGTCGAAGTTCGTG
1 TTGCGA--TAGTCCAAATTCGCGTTGCGATTTATTCCAAGTTC--G
*
15096 TTGCGATTTATTCCAAATTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGA--TAGTCCAAATTCGCGTTGCGATTTATTCCAAGTTCG
*
15140 TTGCGATAGTCCAAAATCGC
1 TTGCGATAGTCCAAATTCGC
15160 AACGACGGTA
Statistics
Matches: 130, Mismatches: 10, Indels: 20
0.81 0.06 0.12
Matches are distributed among these distances:
40 1 0.01
42 80 0.62
44 31 0.24
46 18 0.14
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCCAAATTCGCGTTGCGATTTATTCCAAGTTCG
Found at i:15052 original size:23 final size:23
Alignment explanation
Indices: 14980--15146 Score: 192
Period size: 23 Copynumber: 7.7 Consensus size: 23
14970 GCGATAGTCG
*
14980 AAGTTCGCATTGCGATTTATTCC
1 AAGTTCGCGTTGCGATTTATTCC
* *
15003 AAGTT--CGTTGCGA--TAGTCG
1 AAGTTCGCGTTGCGATTTATTCC
15022 AAGTTCGCGTTGCGATTTATTCC
1 AAGTTCGCGTTGCGATTTATTCC
15045 AAGTTCGCGTTGCGATTTATTCC
1 AAGTTCGCGTTGCGATTTATTCC
* * *
15068 AAATT--CGTTGCGA--TAGTCG
1 AAGTTCGCGTTGCGATTTATTCC
*
15087 AAGTTCGTGTTGCGATTTATTCC
1 AAGTTCGCGTTGCGATTTATTCC
*
15110 AAATTCGCGTTGCGATTTATTCC
1 AAGTTCGCGTTGCGATTTATTCC
15133 AAGTT--CGTTGCGAT
1 AAGTTCGCGTTGCGAT
15147 AGTCCAAAAT
Statistics
Matches: 121, Mismatches: 15, Indels: 18
0.79 0.10 0.12
Matches are distributed among these distances:
19 17 0.14
21 39 0.32
23 65 0.54
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (23 bp):
AAGTTCGCGTTGCGATTTATTCC
Found at i:15058 original size:65 final size:65
Alignment explanation
Indices: 14980--15150 Score: 306
Period size: 65 Copynumber: 2.6 Consensus size: 65
14970 GCGATAGTCG
*
14980 AAGTTCGCATTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCC
1 AAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCC
* *
15045 AAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGTGTTGCGATTTATTCC
1 AAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCC
*
15110 AAATTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTC
1 AAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTC
15151 CAAAATCGCA
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 101 1.00
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.37
Consensus pattern (65 bp):
AAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCC
Found at i:15247 original size:6 final size:6
Alignment explanation
Indices: 15236--15266 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
15226 GAAGACACGT
15236 ATTACC ATTACC ATTACC ATTACC ATTACC A
1 ATTACC ATTACC ATTACC ATTACC ATTACC A
15267 CGAACACGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (6 bp):
ATTACC
Found at i:15953 original size:21 final size:21
Alignment explanation
Indices: 15903--16046 Score: 193
Period size: 21 Copynumber: 7.0 Consensus size: 21
15893 CGTTGCGATT
*
15903 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAATGCGAAC
** *
15922 TTGGAAAATCGTAATGCGAAC
1 TTGGACTATCGCAATGCGAAC
* * *
15943 TTCGACTATCGCAATGCAAAT
1 TTGGACTATCGCAATGCGAAC
15964 TTGGACTATCGCAATGCGAAC
1 TTGGACTATCGCAATGCGAAC
15985 TTGGACTATCGCAATGCGAAC
1 TTGGACTATCGCAATGCGAAC
16006 TTGGACTATCGCAATGCGAAC
1 TTGGACTATCGCAATGCGAAC
* *
16027 TTCGACTATCGTAATGCGAA
1 TTGGACTATCGCAATGCGAA
16047 TATGTAAATC
Statistics
Matches: 108, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
19 11 0.10
21 97 0.90
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (21 bp):
TTGGACTATCGCAATGCGAAC
Found at i:15980 original size:42 final size:42
Alignment explanation
Indices: 15906--16065 Score: 209
Period size: 42 Copynumber: 3.9 Consensus size: 42
15896 TGCGATTTTG
* *
15906 GACTATCGCAA--CGAATTTGGAAAATCGTAATGCGAACTTC
1 GACTATCGCAATGCGAATTTGGACAATCGCAATGCGAACTTC
* * *
15946 GACTATCGCAATGCAAATTTGGACTATCGCAATGCGAACTTG
1 GACTATCGCAATGCGAATTTGGACAATCGCAATGCGAACTTC
* *
15988 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTC
1 GACTATCGCAATGCGAATTTGGACAATCGCAATGCGAACTTC
* * *
16030 GACTATCGTAATGCGAATATGTA-AATCGCAATGCGA
1 GACTATCGCAATGCGAATTTGGACAATCGCAATGCGA
16066 TAGTCCAAGT
Statistics
Matches: 105, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
40 11 0.10
41 12 0.11
42 82 0.78
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (42 bp):
GACTATCGCAATGCGAATTTGGACAATCGCAATGCGAACTTC
Found at i:16006 original size:63 final size:63
Alignment explanation
Indices: 15902--16065 Score: 201
Period size: 63 Copynumber: 2.7 Consensus size: 63
15892 TCGTTGCGAT
* *
15902 TTTGGACTATCGCAA--CGAATTTGGAAAATCGTAATGCGAACTTCGACTATCGCAATGCAAA
1 TTTGGACTATCGCAATGCGAACTTGGAAAATCGCAATGCGAACTTCGACTATCGCAATGCAAA
** * *
15963 TTTGGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAA
1 TTTGGACTATCGCAATGCGAACTTGGAAAATCGCAATGCGAACTTCGACTATCGCAATGCAAA
* * * *
16026 CTTCGACTATCGTAATGCGAA-TAT-GTAAATCGCAATGCGA
1 TTTGGACTATCGCAATGCGAACT-TGGAAAATCGCAATGCGA
16066 TAGTCCAAGT
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
61 15 0.17
62 14 0.16
63 59 0.67
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (63 bp):
TTTGGACTATCGCAATGCGAACTTGGAAAATCGCAATGCGAACTTCGACTATCGCAATGCAAA
Found at i:16085 original size:21 final size:21
Alignment explanation
Indices: 16055--16128 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
16045 AATATGTAAA
*
16055 TCGCAATGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
16076 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
16097 TCGTATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
16118 TTGCGTTGCGA
1 TCGCATTGCGA
16129 ATCTGGAAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:18035 original size:3 final size:3
Alignment explanation
Indices: 18027--18052 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18017 AAAGGATTAA
18027 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
18053 AAGAAATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:20460 original size:13 final size:13
Alignment explanation
Indices: 20439--20498 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
20429 ATTTTGTTAG
20439 TATTTTATTTAAT
1 TATTTTATTTAAT
* *
20452 TATTGTA-TTATT
1 TATTTTATTTAAT
20464 TAATTTT-TTT-AT
1 T-ATTTTATTTAAT
20476 TATTTTATTTAAT
1 TATTTTATTTAAT
20489 TATTTTATTT
1 TATTTTATTT
20499 TTTACAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 5 0.13
12 10 0.26
13 24 0.62
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.72
Consensus pattern (13 bp):
TATTTTATTTAAT
Found at i:20464 original size:21 final size:20
Alignment explanation
Indices: 20439--20502 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
20429 ATTTTGTTAG
20439 TATTTTATTTAATTATTGTAT
1 TATTTTATTTAATTATT-TAT
*
20460 TA-TTTAATT--TT-TTTAT
1 TATTTTATTTAATTATTTAT
20476 TATTTTATTTAATTATTTTAT
1 TATTTTATTTAATTA-TTTAT
20497 T-TTTTA
1 TATTTTA
20503 CAATTATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
16 5 0.14
17 8 0.22
18 2 0.06
19 2 0.06
20 11 0.31
21 8 0.22
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
TATTTTATTTAATTATTTAT
Found at i:20470 original size:37 final size:37
Alignment explanation
Indices: 20429--20502 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
20419 AATTAATCAT
20429 ATTTTGTTAGTATTTTATTTAATTATTGTATTATTTA
1 ATTTTGTTAGTATTTTATTTAATTATTGTATTATTTA
* * * *
20466 ATTTTTTTATTATTTTATTTAATTATTTTATTTTTTA
1 ATTTTGTTAGTATTTTATTTAATTATTGTATTATTTA
20503 CAATTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (37 bp):
ATTTTGTTAGTATTTTATTTAATTATTGTATTATTTA
Found at i:20485 original size:16 final size:16
Alignment explanation
Indices: 20443--20485 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
20433 TGTTAGTATT
* *
20443 TTATTTAATTATTGTA
1 TTATTTAATTTTTTTA
20459 TTATTTAATTTTTTTA
1 TTATTTAATTTTTTTA
*
20475 TTATTTTATTT
1 TTATTTAATTT
20486 AATTATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (16 bp):
TTATTTAATTTTTTTA
Found at i:20775 original size:20 final size:19
Alignment explanation
Indices: 20752--20801 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 19
20742 ATAACTGTAA
20752 AAAAAATAAAATAATTAAAT
1 AAAAAATAAAA-AATTAAAT
20772 AAAATAATAAAAAATTAAAT
1 AAAA-AATAAAAAATTAAAT
20792 AATAAAATAA
1 AA-AAAATAA
20802 TTAATACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAAATAAAAAATTAAAT
Found at i:20783 original size:28 final size:27
Alignment explanation
Indices: 20752--20814 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
20742 ATAACTGTAA
*
20752 AAAAAATAAAATAATTAAATAAAATAAT
1 AAAAAATAAAATAATAAAAT-AAATAAT
* *
20780 AAAAAATTAAATAATAAAATAATTAAT
1 AAAAAATAAAATAATAAAATAAATAAT
*
20807 ACAAAATA
1 AAAAAATA
20815 TGATTAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 12 0.40
28 18 0.60
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (27 bp):
AAAAAATAAAATAATAAAATAAATAAT
Found at i:20791 original size:15 final size:15
Alignment explanation
Indices: 20768--20805 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
20758 TAAAATAATT
*
20768 AAATAAAATAATAAA
1 AAATTAAATAATAAA
20783 AAATTAAATAATAAA
1 AAATTAAATAATAAA
20798 ATAATTAA
1 A-AATTAA
20806 TACAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATTAAATAATAAA
Found at i:29375 original size:38 final size:38
Alignment explanation
Indices: 29324--29415 Score: 166
Period size: 38 Copynumber: 2.4 Consensus size: 38
29314 CTGTAACCAG
29324 AAATGCAGTTCTTAAGTAAGAGTATTCCTTTGCATAAA
1 AAATGCAGTTCTTAAGTAAGAGTATTCCTTTGCATAAA
*
29362 AAATGCAGTTCTTAAGTAAGAGTATTCCTTTGCATCAA
1 AAATGCAGTTCTTAAGTAAGAGTATTCCTTTGCATAAA
*
29400 AAATGCTGTTCTTAAG
1 AAATGCAGTTCTTAAG
29416 GGGTCATGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (38 bp):
AAATGCAGTTCTTAAGTAAGAGTATTCCTTTGCATAAA
Found at i:32378 original size:31 final size:30
Alignment explanation
Indices: 32332--32418 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 30
32322 TTCGATAATA
*
32332 TAATAATTATTTTATAGTA-TTTAGAAAAATT
1 TAATAA-TATTTTATAATATTTTA-AAAAATT
* *
32363 TATTAATAATTTTATAATATTTTAATAAATT
1 TAATAAT-ATTTTATAATATTTTAAAAAATT
32394 TAATAAGTATTTTATAAT-TTTTAAA
1 TAATAA-TATTTTATAATATTTTAAA
32419 CTTTATTGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
30 7 0.15
31 36 0.75
32 5 0.10
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (30 bp):
TAATAATATTTTATAATATTTTAAAAAATT
Found at i:32380 original size:11 final size:10
Alignment explanation
Indices: 32334--32416 Score: 55
Period size: 11 Copynumber: 8.1 Consensus size: 10
32324 CGATAATATA
32334 ATAATTATTTT
1 ATAA-TATTTT
*
32345 ATAGTA-TTT
1 ATAATATTTT
* * *
32354 AGAAAAATTT
1 ATAATATTTT
32364 ATTAATAATTTT
1 A-TAAT-ATTTT
32376 ATAATATTTT
1 ATAATATTTT
*
32386 AATAA-ATTTA
1 -ATAATATTTT
32396 ATAAGTATTTT
1 ATAA-TATTTT
32407 ATAAT-TTTT
1 ATAATATTTT
32416 A
1 A
32417 AACTTTATTG
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
9 15 0.26
10 16 0.28
11 21 0.37
12 5 0.09
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (10 bp):
ATAATATTTT
Found at i:32410 original size:20 final size:20
Alignment explanation
Indices: 32365--32407 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
32355 GAAAAATTTA
*
32365 TTAAT-AATTTTATAATATT
1 TTAATAAATTTAATAATATT
32384 TTAATAAATTTAATAAGTATT
1 TTAATAAATTTAATAA-TATT
32405 TTA
1 TTA
32408 TAATTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 9 0.43
21 7 0.33
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TTAATAAATTTAATAATATT
Found at i:34199 original size:6 final size:6
Alignment explanation
Indices: 34190--34229 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
34180 GAAAGGGGAA
34190 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGA
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGA
34230 TATTTTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:34749 original size:21 final size:21
Alignment explanation
Indices: 34723--34768 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
34713 ATCCAGGCGA
34723 CATACGGGGTGACATACGAGC
1 CATACGGGGTGACATACGAGC
34744 CATACGGGGTGACATACGAGC
1 CATACGGGGTGACATACGAGC
34765 CATA
1 CATA
34769 TACGAGCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.24, G:0.30, T:0.15
Consensus pattern (21 bp):
CATACGGGGTGACATACGAGC
Found at i:34858 original size:37 final size:41
Alignment explanation
Indices: 34817--34912 Score: 119
Period size: 41 Copynumber: 2.4 Consensus size: 41
34807 TCTTATACGA
*
34817 GGAGAGGTCGCCATGCAGAC-GA-GCCATAC-A-AGCCAAT
1 GGAGAGGTCGCCATGCAGACTGATACCATACGAGAGCCAAT
* * * *
34854 GGAGAGGTCGCCATGCAGTCTTATACGATACGAGTGCCAAT
1 GGAGAGGTCGCCATGCAGACTGATACCATACGAGAGCCAAT
34895 GGAGAGGTCGCCATGCAG
1 GGAGAGGTCGCCATGCAG
34913 CCTAGGCGAC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
37 19 0.38
38 1 0.02
39 5 0.10
40 1 0.02
41 24 0.48
ACGTcount: A:0.28, C:0.24, G:0.32, T:0.16
Consensus pattern (41 bp):
GGAGAGGTCGCCATGCAGACTGATACCATACGAGAGCCAAT
Found at i:34949 original size:29 final size:29
Alignment explanation
Indices: 34899--34998 Score: 157
Period size: 29 Copynumber: 3.4 Consensus size: 29
34889 GCCAATGGAG
* *
34899 AGGTCGCCATGCAG-CCTAGGCGACCTTGT
1 AGGTCGCCATGTAGTCC-CGGCGACCTTGT
34928 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
*
34957 AGGTCGCCATGTAGTCCCAGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
34986 AGGTCGCCATGTA
1 AGGTCGCCATGTA
34999 ATCCTAGCTC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
29 65 0.97
30 2 0.03
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:35128 original size:46 final size:46
Alignment explanation
Indices: 35071--35160 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
35061 TGCACAGTTC
* *
35071 CCACGTCCCATGCACAGCATGCATCCCACAACTCCTCCATGCATTT
1 CCACGTCCCATGCACAACATGCATCCCACAACTCCCCCATGCATTT
*
35117 CCACGTCCCATGCACAACATGCATCCTACAACTCCCCCATGCAT
1 CCACGTCCCATGCACAACATGCATCCCACAACTCCCCCATGCAT
35161 GCTCCAATAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.26, C:0.44, G:0.10, T:0.20
Consensus pattern (46 bp):
CCACGTCCCATGCACAACATGCATCCCACAACTCCCCCATGCATTT
Found at i:35256 original size:29 final size:29
Alignment explanation
Indices: 35214--35275 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
35204 AATACCACAC
* *
35214 AGGTCGCTCGGATGCCATGGCGACCTCTA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
35243 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
35272 AGGT
1 AGGT
35276 TACTGTAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.18, C:0.32, G:0.32, T:0.18
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGGCGACCTCCA
Found at i:37800 original size:38 final size:38
Alignment explanation
Indices: 37749--37827 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
37739 ATACATAGTT
37749 TTTATCAAACAATATCTGATACTCCTATAATGTAATAA
1 TTTATCAAACAATATCTGATACTCCTATAATGTAATAA
37787 TTTATCAAACAATATCTGATACTCCTATAATGTAATAA
1 TTTATCAAACAATATCTGATACTCCTATAATGTAATAA
37825 TTT
1 TTT
37828 CTATTACTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (38 bp):
TTTATCAAACAATATCTGATACTCCTATAATGTAATAA
Found at i:48437 original size:23 final size:23
Alignment explanation
Indices: 48411--48486 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
48401 ACTTCTGTGC
48411 TGAATCATTCAACACTGTTTTGT
1 TGAATCATTCAACACTGTTTTGT
* *
48434 TGAATCATTTAGCACTGTTTTGT
1 TGAATCATTCAACACTGTTTTGT
* *
48457 TGAATCATTCAACATTGTTTTGC
1 TGAATCATTCAACACTGTTTTGT
48480 TGAATCA
1 TGAATCA
48487 GTCAGTACTG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.43
Consensus pattern (23 bp):
TGAATCATTCAACACTGTTTTGT
Found at i:48573 original size:20 final size:21
Alignment explanation
Indices: 48531--48573 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
48521 CGCGCTGAAT
*
48531 GCTGAACGGTTCAACATTCAGA
1 GCTGAACGGTTC-ACATTAAGA
*
48553 GCTGAATGGTTC-CATTAAGA
1 GCTGAACGGTTCACATTAAGA
48573 G
1 G
48574 GAAAACAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (21 bp):
GCTGAACGGTTCACATTAAGA
Found at i:50344 original size:2 final size:2
Alignment explanation
Indices: 50337--50361 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
50327 TACAAATAAT
50337 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
50362 CATTTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55306 original size:2 final size:2
Alignment explanation
Indices: 55299--55327 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
55289 AGATATCAGC
55299 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 A
55328 AACTGAAATA
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:56015 original size:17 final size:17
Alignment explanation
Indices: 55978--56011 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
55968 ATTTATTACT
*
55978 ATTTACGTGAATAGTGA
1 ATTTACGTGAATAGTAA
55995 ATTT-CGTGAATAGTAA
1 ATTTACGTGAATAGTAA
56011 A
1 A
56012 ATTTGTCGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (17 bp):
ATTTACGTGAATAGTAA
Found at i:69531 original size:84 final size:84
Alignment explanation
Indices: 69388--69545 Score: 235
Period size: 84 Copynumber: 1.9 Consensus size: 84
69378 GGAGGAGGAG
* *
69388 GGCCAAGGGACTTAAACCAAACGGACCCAAAACATAAGGGACAAGGAGCAGACCAATAACGTAAG
1 GGCCAAGGGACTTAAACCAAACAGACCCAAAACATAAGGGACAAGGAGCAGACCAATAACATAAG
*
69453 GGACAAGGAGAAGAAGACA
66 GGAAAAGGAGAAGAAGACA
** * * * *
69472 GGCCAAGGGACTTAAACCGGACAGTCCGATAACATAAGGGACAAGGAGCAGACCGATAACATAAG
1 GGCCAAGGGACTTAAACCAAACAGACCCAAAACATAAGGGACAAGGAGCAGACCAATAACATAAG
69537 GGAAAAGGA
66 GGAAAAGGA
69546 ACAGACCGAT
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 65 1.00
ACGTcount: A:0.44, C:0.20, G:0.28, T:0.08
Consensus pattern (84 bp):
GGCCAAGGGACTTAAACCAAACAGACCCAAAACATAAGGGACAAGGAGCAGACCAATAACATAAG
GGAAAAGGAGAAGAAGACA
Found at i:69535 original size:27 final size:27
Alignment explanation
Indices: 69500--69654 Score: 175
Period size: 27 Copynumber: 5.7 Consensus size: 27
69490 GGACAGTCCG
* *
69500 ATAACATAAGGGACAAGGAGCAGACCG
1 ATAACATAAGGGACAAGGAACAGACCA
* *
69527 ATAACATAAGGGAAAAGGAACAGACCG
1 ATAACATAAGGGACAAGGAACAGACCA
* *
69554 ATAACTTAAGGGACAAGGAACGGACCA
1 ATAACATAAGGGACAAGGAACAGACCA
* *
69581 ATAACATAAGGGGGCAAGGAACGGACCA
1 ATAACATAA-GGGACAAGGAACAGACCA
* * * *
69609 ATAAAATAGGGGATAAGGAACGGACCA
1 ATAACATAAGGGACAAGGAACAGACCA
* *
69636 ACAACAAAAGGGACAAGGA
1 ATAACATAAGGGACAAGGA
69655 GAAGAAGAAG
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 86 0.78
28 24 0.22
ACGTcount: A:0.48, C:0.16, G:0.28, T:0.08
Consensus pattern (27 bp):
ATAACATAAGGGACAAGGAACAGACCA
Found at i:69627 original size:55 final size:55
Alignment explanation
Indices: 69500--69647 Score: 163
Period size: 55 Copynumber: 2.7 Consensus size: 55
69490 GGACAGTCCG
* * * * *
69500 ATAACATAAGGGACAAGGAGCAGACCGATAACATAA-GGGAAAAGGAACAGACCG
1 ATAAAATAAGGGACAAGGAACGGACCAATAACATAAGGGGAAAAGGAACAGACCA
** ** *
69554 ATAACTTAAGGGACAAGGAACGGACCAATAACATAAGGGGGCAAGGAACGGACCA
1 ATAAAATAAGGGACAAGGAACGGACCAATAACATAAGGGGAAAAGGAACAGACCA
* * * *
69609 ATAAAATAGGGGATAAGGAACGGACCAACAACAAAAGGG
1 ATAAAATAAGGGACAAGGAACGGACCAATAACATAAGGG
69648 ACAAGGAGAA
Statistics
Matches: 79, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
54 32 0.41
55 47 0.59
ACGTcount: A:0.47, C:0.16, G:0.28, T:0.08
Consensus pattern (55 bp):
ATAAAATAAGGGACAAGGAACGGACCAATAACATAAGGGGAAAAGGAACAGACCA
Found at i:69628 original size:82 final size:81
Alignment explanation
Indices: 69500--69654 Score: 193
Period size: 82 Copynumber: 1.9 Consensus size: 81
69490 GGACAGTCCG
* * * * * **
69500 ATAACATAAGGGACAAGGAGCAGACCGATAACATAAGGGAAAAGGAACAGACCGATAACTTAAGG
1 ATAACATAAGGGACAAGGAACAGACCAATAAAATAAGGGAAAAGGAACAGACCAACAACAAAAGG
69565 GACAAGGAACGGACCA
66 GACAAGGAACGGACCA
* * * * *
69581 ATAACATAAGGGGGCAAGGAACGGACCAATAAAATAGGGGATAAGGAACGGACCAACAACAAAAG
1 ATAACATAA-GGGACAAGGAACAGACCAATAAAATAAGGGAAAAGGAACAGACCAACAACAAAAG
69646 GGACAAGGA
65 GGACAAGGA
69655 GAAGAAGAAG
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
81 9 0.15
82 52 0.85
ACGTcount: A:0.48, C:0.16, G:0.28, T:0.08
Consensus pattern (81 bp):
ATAACATAAGGGACAAGGAACAGACCAATAAAATAAGGGAAAAGGAACAGACCAACAACAAAAGG
GACAAGGAACGGACCA
Found at i:74400 original size:16 final size:14
Alignment explanation
Indices: 74371--74413 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
74361 TAAAATTTCT
74371 TAATATTATTTTAA
1 TAATATTATTTTAA
*
74385 TAATATTATTTT-T
1 TAATATTATTTTAA
*
74398 TAATATTATATTAA
1 TAATATTATTTTAA
74412 TA
1 TA
74414 TAATTCAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TAATATTATTTTAA
Found at i:74868 original size:18 final size:19
Alignment explanation
Indices: 74833--74869 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
74823 CACGGAATGT
74833 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
74853 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
74870 GGATTATTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:77594 original size:14 final size:13
Alignment explanation
Indices: 77575--77620 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 13
77565 CTCGTGCTAC
77575 ATATATATACTTTT
1 ATATATATA-TTTT
77589 ATATATATATTTT
1 ATATATATATTTT
77602 -TATAATATATTTT
1 ATAT-ATATATTTT
77615 CATATA
1 -ATATA
77621 ACTTTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.10
13 13 0.45
14 10 0.34
15 3 0.10
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (13 bp):
ATATATATATTTT
Found at i:79102 original size:19 final size:18
Alignment explanation
Indices: 79060--79112 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
79050 AAATTGTTCA
* *
79060 GAGTGTATCGATACACAG
1 GAGTGTATCGATGCAAAG
79078 GAAGTGTATCGATGCATAAG
1 G-AGTGTATCGATGCA-AAG
*
79098 GAGTGCATCGATGCA
1 GAGTGTATCGATGCA
79113 CATATTAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 26 0.87
20 3 0.10
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (18 bp):
GAGTGTATCGATGCAAAG
Found at i:79666 original size:13 final size:14
Alignment explanation
Indices: 79637--79667 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
79627 AAACATGCAA
79637 GTGATATGAACTAT
1 GTGATATGAACTAT
79651 GTGATATGAA-TAT
1 GTGATATGAACTAT
79664 GTGA
1 GTGA
79668 AATATGATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.35
Consensus pattern (14 bp):
GTGATATGAACTAT
Found at i:81033 original size:24 final size:24
Alignment explanation
Indices: 81006--81086 Score: 58
Period size: 24 Copynumber: 3.2 Consensus size: 24
80996 ATTGGGATGT
81006 TTGTGTAGTTGAAGGAAATTGTAG
1 TTGTGTAGTTGAAGGAAATTGTAG
* *
81030 TTGT-TA-TGTGCAATTTGATATTTAGATAG
1 TTGTGTAGT-TG-AA--GGA-AATT-G-TAG
*
81059 TGGTGTAGTTGAAGGAAATTGTAG
1 TTGTGTAGTTGAAGGAAATTGTAG
81083 TTGT
1 TTGT
81087 TGTAATGTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 18
0.64 0.09 0.27
Matches are distributed among these distances:
22 1 0.02
23 4 0.10
24 12 0.29
25 1 0.02
26 5 0.12
27 5 0.12
28 1 0.02
29 8 0.19
30 4 0.10
31 1 0.02
ACGTcount: A:0.27, C:0.01, G:0.30, T:0.42
Consensus pattern (24 bp):
TTGTGTAGTTGAAGGAAATTGTAG
Found at i:85771 original size:26 final size:26
Alignment explanation
Indices: 85737--85786 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
85727 GTTACAGTAT
*
85737 AAAACATTAAACACCAAACTAAAATA
1 AAAAAATTAAACACCAAACTAAAATA
* * *
85763 AAAAAATTAGATACTAAACTAAAA
1 AAAAAATTAAACACCAAACTAAAA
85787 AATATATACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.66, C:0.14, G:0.02, T:0.18
Consensus pattern (26 bp):
AAAAAATTAAACACCAAACTAAAATA
Found at i:89304 original size:2 final size:2
Alignment explanation
Indices: 89297--89333 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
89287 TTTTGATGTT
89297 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89334 TACAGTAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:89567 original size:2 final size:2
Alignment explanation
Indices: 89560--89613 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
89550 TTATTTAGTG
89560 AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89601 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
89614 ACTTTATTGT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89933 original size:27 final size:27
Alignment explanation
Indices: 89893--89944 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
89883 GGGTGCGTCT
*
89893 TCCCACTCCAACCCTAATTTCCAGCTA
1 TCCCACTCCAACCCCAATTTCCAGCTA
* * *
89920 TCCCCCTCCCACCCCGATTTCCAGC
1 TCCCACTCCAACCCCAATTTCCAGC
89945 CAAATTCTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.19, C:0.52, G:0.06, T:0.23
Consensus pattern (27 bp):
TCCCACTCCAACCCCAATTTCCAGCTA
Found at i:90115 original size:24 final size:24
Alignment explanation
Indices: 90073--90129 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
90063 GTTTTTATAG
* * *
90073 TTTATTATTTTATTCATTAA-AAT
1 TTTATTATTTAAATAATTAATAAT
*
90096 TGTTATTATTTAAATAATTAATTAT
1 T-TTATTATTTAAATAATTAATAAT
90121 TTTATTATT
1 TTTATTATT
90130 ATATTTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 1 0.04
24 24 0.86
25 3 0.11
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (24 bp):
TTTATTATTTAAATAATTAATAAT
Found at i:93418 original size:56 final size:56
Alignment explanation
Indices: 93239--93776 Score: 691
Period size: 56 Copynumber: 9.7 Consensus size: 56
93229 CCTGCTACCA
* * * * * * *
93239 ATACGAAAATTTATACACTTAGTATAAATTTCCT-AGTTTTGCACATATACTGCAC
1 ATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
* ** * *
93294 ATAC-AGAAATTCATCTACTTAGTATGAAAATCTTAA-ATTTACACATAAAGTGCCC
1 ATACGA-AAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
* * * * *
93349 ATACAAAAATTCATCCACTTAGTATGAATTTCTTCAGTTTTAGACATATAATGCAC
1 ATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
* * * *
93405 ATACGGAAATTCATCCAGTTAATACGAATTTCTTAAGTTTTACACATATAGTGCCC
1 ATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
* *
93461 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACATATATAGTGCCC
1 ATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
* * * *
93517 ATAAGAAAATTCATTCACTTAG--T--A-TTCTTAAGTTTTACACATATAGAGGCC
1 ATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
* *
93568 ATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACAAATATAGTTCCC
1 ATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
* * *
93624 ATACGGAAATTCATCCACTTAGTATTAATTTCTTAAGTTTTACACATATAGTACCC
1 ATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
93680 ATAC-AGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
1 ATACGA-AAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
93736 ATACGAAAATTCATCCA-TCTAGTATGAATTTCTTAAGTTTT
1 ATACGAAAATTCATCCACT-TAGTATGAATTTCTTAAGTTTT
93777 TGCACACTTA
Statistics
Matches: 418, Mismatches: 53, Indels: 23
0.85 0.11 0.05
Matches are distributed among these distances:
51 44 0.11
52 1 0.00
53 1 0.00
54 2 0.00
55 71 0.17
56 298 0.71
57 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (56 bp):
ATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
Found at i:93710 original size:219 final size:220
Alignment explanation
Indices: 93245--93749 Score: 687
Period size: 219 Copynumber: 2.3 Consensus size: 220
93235 ACCAATACGA
* * * * * * *
93245 AAATTTATACACTTAGTATAAATTTCCT-AGTTTTGCACATATACTGCACATACAG-AAATTCA-
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATA-AGAAAATTCAT
*
93307 TCTACTTAGTATGAAAATCTTAAATTTACACATAAAGTGCCCATACAAAAATTCATCCACTTAGT
65 TCTACTTAGTAT----ATCTTAAATTTACACATAAAGAGCCCATACAAAAATTCATCCACTTAGT
* * * *
93372 ATGAATTTCTTCAGTTTTAGACATATAATGCACATACGGAAATTCATCCAGTTAATACGAATTTC
126 ATGAATTTCTTAAGTTTTACAAATATAATGCACATACGGAAATTCATCCACTTAATACGAATTTC
* *
93437 TTAAGTTTTACACATATAGTGCCCATACGG
191 TTAAGTTTTACACATATAGTACCCATACAG
*
93467 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACATATATAGTGCCCATAAGAAAATTCATT
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATAAGAAAATTCATT
* * * *
93532 C-ACTTAGTAT-TCTTAAGTTTTACACATATAGAGGCCATACGAAAATTCATCCACTTAGTATGA
66 CTACTTAGTATATCTTAA-ATTTACACATAAAGAGCCCATACAAAAATTCATCCACTTAGTATGA
* * * * **
93595 ATTTCTTAAGTTTTACAAATATAGTTCCCATACGGAAATTCATCCACTTAGTATTAATTTCTTAA
130 ATTTCTTAAGTTTTACAAATATAATGCACATACGGAAATTCATCCACTTAATACGAATTTCTTAA
93660 GTTTTACACATATAGTACCCATACAG
195 GTTTTACACATATAGTACCCATACAG
*
93686 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATACGAAAATTCAT
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATAAGAAAATTCAT
93750 CCATCTAGTA
Statistics
Matches: 252, Mismatches: 27, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
218 6 0.02
219 182 0.72
222 26 0.10
223 36 0.14
224 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (220 bp):
AAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATAAGAAAATTCATT
CTACTTAGTATATCTTAAATTTACACATAAAGAGCCCATACAAAAATTCATCCACTTAGTATGAA
TTTCTTAAGTTTTACAAATATAATGCACATACGGAAATTCATCCACTTAATACGAATTTCTTAAG
TTTTACACATATAGTACCCATACAG
Found at i:94229 original size:20 final size:20
Alignment explanation
Indices: 94204--94241 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
94194 TCGATACTTT
* *
94204 CCCCTTCGGTATTGATACCC
1 CCCCTTCGATATCGATACCC
94224 CCCCTTCGATATCGATAC
1 CCCCTTCGATATCGATAC
94242 TGATTGAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.39, G:0.13, T:0.29
Consensus pattern (20 bp):
CCCCTTCGATATCGATACCC
Found at i:97198 original size:19 final size:19
Alignment explanation
Indices: 97174--97213 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
97164 AATAAATTTA
97174 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
97193 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
97212 AT
1 AT
97214 ATATACCGGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:107932 original size:57 final size:57
Alignment explanation
Indices: 107864--107979 Score: 205
Period size: 57 Copynumber: 2.0 Consensus size: 57
107854 AACCAGCAGC
*
107864 ATACACTACTGTATATCGAAGAAAGTTGCTTCCTTTCTCATATGGATGGATGGATGG
1 ATACACTACTGTATATCGAAGAAAGTTGCTTCCTTTCTCAGATGGATGGATGGATGG
* *
107921 ATACACTACTGTATATCGAAGAAAGTTGCTTTCTTTCTCGGATGGATGGATGGATGG
1 ATACACTACTGTATATCGAAGAAAGTTGCTTCCTTTCTCAGATGGATGGATGGATGG
107978 AT
1 AT
107980 GGATGGATCA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (57 bp):
ATACACTACTGTATATCGAAGAAAGTTGCTTCCTTTCTCAGATGGATGGATGGATGG
Found at i:107967 original size:4 final size:4
Alignment explanation
Indices: 107960--107987 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
107950 TTTCTTTCTC
107960 GGAT GGAT GGAT GGAT GGAT GGAT GGAT
1 GGAT GGAT GGAT GGAT GGAT GGAT GGAT
107988 CAGGTTCAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.50, T:0.25
Consensus pattern (4 bp):
GGAT
Found at i:115369 original size:68 final size:69
Alignment explanation
Indices: 115292--115419 Score: 170
Period size: 68 Copynumber: 1.9 Consensus size: 69
115282 GTAATTATTT
* ** * *
115292 TTTTGAATATGTCAAATT-AAATATATTTATTATTTATTTAATTTTGAATATT-AAAGATAATTA
1 TTTTAAATATGTCAAATTAAAATATA-TTATTAACTATTCAAATTTGAATATTAAAAGATAATTA
115355 TATAA
65 TATAA
* *
115360 TTTTAAATATTTTAAATTAAAATATATTATTAACTATTCAAATTTGAATATTAAAAGATA
1 TTTTAAATATGTCAAATTAAAATATATTATTAACTATTCAAATTTGAATATTAAAAGATA
115420 TCTTATTGGA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
68 37 0.73
69 14 0.27
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (69 bp):
TTTTAAATATGTCAAATTAAAATATATTATTAACTATTCAAATTTGAATATTAAAAGATAATTAT
ATAA
Found at i:115413 original size:34 final size:33
Alignment explanation
Indices: 115310--115420 Score: 91
Period size: 34 Copynumber: 3.2 Consensus size: 33
115300 ATGTCAAATT
* * *
115310 AAATATATTTATTATTTATTTAATTTTGAATATTA
1 AAATATA-TTATTA-ATATTAAAATTTGAATATTA
* *
115345 AAGATA-ATTATATAATTTTAAATATTTTAA-ATTA
1 AA-ATATATTAT-TAATATTAAA-ATTTGAATATTA
*
115379 AAATATATTATTAACTATTCAAATTTGAATATTA
1 AAATATATTATTAA-TATTAAAATTTGAATATTA
*
115413 AAAGATAT
1 AAATATAT
115421 CTTATTGGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
33 12 0.20
34 36 0.59
35 10 0.16
36 3 0.05
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.48
Consensus pattern (33 bp):
AAATATATTATTAATATTAAAATTTGAATATTA
Found at i:117775 original size:32 final size:31
Alignment explanation
Indices: 117733--117841 Score: 116
Period size: 31 Copynumber: 3.5 Consensus size: 31
117723 TTACATGAGA
* * *
117733 CACATTATCACTTTTAA-ACATGTATTATGTGT
1 CACATCATCACTTTTAACACATG-A-AATGTGC
* * *
117765 CACATCATCACTTTGAACACACGACATGTGC
1 CACATCATCACTTTTAACACATGAAATGTGC
117796 CACATCATC-CTTTTGAACACATGAAATGTGC
1 CACATCATCACTTTT-AACACATGAAATGTGC
117827 CACATCATCA-TTTTA
1 CACATCATCACTTTTA
117842 GAGATGTAGT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
30 5 0.08
31 41 0.62
32 16 0.24
33 4 0.06
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.33
Consensus pattern (31 bp):
CACATCATCACTTTTAACACATGAAATGTGC
Found at i:121655 original size:2 final size:2
Alignment explanation
Indices: 121650--121678 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
121640 CAAGCAACCA
121650 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 A
121679 GCCCTAACAA
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:123135 original size:2 final size:2
Alignment explanation
Indices: 123128--123152 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
123118 TAATAGGATC
123128 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 A
123153 AGATAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:130104 original size:2 final size:2
Alignment explanation
Indices: 130097--130128 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
130087 AGCAAAAATG
130097 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
130129 GTTTAACCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:130304 original size:218 final size:219
Alignment explanation
Indices: 129922--130362 Score: 695
Period size: 218 Copynumber: 2.0 Consensus size: 219
129912 GCGGTCATAT
* * * * *
129922 TTTCGGTCACGTCACGTTTATCGCGGTTGTGGACATTACGGATGTCATCGCGGTCACTGCATGTG
1 TTTCGGTCACGTCACGATTATCGCGGTTGTGAACATTACAGATGCCATCGCGGTCACTGCAAGTG
*
129987 TCGCGATCGTGATTTTTTTTAAATTTCGCACAACTTATCCTAAAATATAATAATTATAATTATAA
66 TCGCGATCGTGAATTTTTTTAAATTTCGCACAACTTATCCTAAAATATAATAATTATAATTATAA
* * * * * * *
130052 TGAGTCATTTTTAATGATTTTTAGAATATTTTCTAAGCAAAAATG-ATATATATATATATATATA
131 TGAGTAATTTTTAATGATTTTTAGAATATTTTCTAAACAAAAATGAACACACACACATATATATA
130116 TATATATAATATAGTTTAACCAAA
196 TATATATAATATAGTTTAACCAAA
*
130140 TTTCGGTCACGTCACGATTATCGCGGTTGTGAACATTACAGATGCCATCGCGGTCACTGTAAGTG
1 TTTCGGTCACGTCACGATTATCGCGGTTGTGAACATTACAGATGCCATCGCGGTCACTGCAAGTG
*
130205 TCGCGGTCGTGAATTTTTTTAAATTTCGCACAACTTATCCTAAAATATAATAATTATAATTATAA
66 TCGCGATCGTGAATTTTTTTAAATTTCGCACAACTTATCCTAAAATATAATAATTATAATTATAA
* *
130270 TGAGTAATTTTTAATGATTTTTAGAATGTTTTCTAAACGAAAATGACACACACACACACATATAT
131 TGAGTAATTTTTAATGATTTTTAGAATATTTTCTAAACAAAAATG--A-ACACACACACATATAT
130335 ATATATATATAATATAGTTTAACCAAA
193 ATATATATATAATATAGTTTAACCAAA
130362 T
1 T
130363 ATAAAATTTT
Statistics
Matches: 202, Mismatches: 17, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
218 163 0.81
222 39 0.19
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (219 bp):
TTTCGGTCACGTCACGATTATCGCGGTTGTGAACATTACAGATGCCATCGCGGTCACTGCAAGTG
TCGCGATCGTGAATTTTTTTAAATTTCGCACAACTTATCCTAAAATATAATAATTATAATTATAA
TGAGTAATTTTTAATGATTTTTAGAATATTTTCTAAACAAAAATGAACACACACACATATATATA
TATATATAATATAGTTTAACCAAA
Found at i:130472 original size:13 final size:13
Alignment explanation
Indices: 130454--130493 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
130444 AATAAGATGT
130454 ATAATATAATTAA
1 ATAATATAATTAA
*
130467 ATAATATAAAGTAA
1 ATAATAT-AATTAA
*
130481 ATAATTTAATTAA
1 ATAATATAATTAA
130494 CGATTTACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
ATAATATAATTAA
Found at i:131020 original size:25 final size:26
Alignment explanation
Indices: 130990--131041 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
130980 TTCTTTCCCT
*
130990 AGTTGTTTTTT-GGGGTGAGAATTCC
1 AGTTGTTTTTTGGGGGTGAAAATTCC
131015 AGTTGTTTTTTGGGGGTGAAAATTCC
1 AGTTGTTTTTTGGGGGTGAAAATTCC
131041 A
1 A
131042 ACTCTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (26 bp):
AGTTGTTTTTTGGGGGTGAAAATTCC
Found at i:131049 original size:26 final size:25
Alignment explanation
Indices: 130995--131049 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
130985 TCCCTAGTTG
* ** *
130995 TTTTTTGGGGTGAGAATTCCAGTTG
1 TTTTTTGGGGTGAAAATTCCAACTC
131020 TTTTTTGGGGGTGAAAATTCCAACTC
1 TTTTTT-GGGGTGAAAATTCCAACTC
131046 TTTT
1 TTTT
131050 AAGGTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.18, C:0.11, G:0.25, T:0.45
Consensus pattern (25 bp):
TTTTTTGGGGTGAAAATTCCAACTC
Found at i:132764 original size:29 final size:29
Alignment explanation
Indices: 132732--132788 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
132722 GCGATCTCCT
*
132732 AGGTCGCCATGCACT-CCGAGCGACCAAGG
1 AGGTCGCCATGCA-TGCCCAGCGACCAAGG
132761 AGGTCGCCATGCATGCCCAGCGACCAAG
1 AGGTCGCCATGCATGCCCAGCGACCAAG
132789 CTTTTAACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.25, C:0.35, G:0.30, T:0.11
Consensus pattern (29 bp):
AGGTCGCCATGCATGCCCAGCGACCAAGG
Found at i:132986 original size:22 final size:22
Alignment explanation
Indices: 132942--132987 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
132932 GGTCGCCGGG
* **
132942 CGTGCATGGCGACCTCGTTGGT
1 CGTGCATGGCGACCTAGGAGGT
132964 CGTGCATGGCGACCTAGGAGGT
1 CGTGCATGGCGACCTAGGAGGT
132986 CG
1 CG
132988 CTAGGAGTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.13, C:0.26, G:0.39, T:0.22
Consensus pattern (22 bp):
CGTGCATGGCGACCTAGGAGGT
Found at i:133891 original size:23 final size:24
Alignment explanation
Indices: 133852--133901 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
133842 TTTTAAACTG
133852 GTGCCTAATATGTAATTAATTTTT
1 GTGCCTAATATGTAATTAATTTTT
133876 GTGCCTAATATG-AATTAATTTTT
1 GTGCCTAATATGTAATTAATTTTT
133899 GTG
1 GTG
133902 ATATATGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (24 bp):
GTGCCTAATATGTAATTAATTTTT
Found at i:134091 original size:12 final size:10
Alignment explanation
Indices: 134065--134123 Score: 64
Period size: 10 Copynumber: 5.8 Consensus size: 10
134055 TTACTTCTTT
134065 TAAAAATAAA
1 TAAAAATAAA
134075 TAAAAATATAA
1 TAAAAATA-AA
*
134086 TAAAAATGAA
1 TAAAAATAAA
* *
134096 TTAAAATGAA
1 TAAAAATAAA
* *
134106 TAAAATTTAA
1 TAAAAATAAA
134116 TAAAAATA
1 TAAAAATA
134124 TAATGTAAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
10 32 0.78
11 9 0.22
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.27
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:134678 original size:10 final size:10
Alignment explanation
Indices: 134652--134710 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
134642 TTTTACATTA
134652 CATTTTTATT
1 CATTTTTATT
* *
134662 GAATTTTATT
1 CATTTTTATT
134672 CATTTTTAATT
1 CATTTTT-ATT
*
134683 CATTTTTAATG
1 CATTTTT-ATT
*
134694 CATTTTTCTT
1 CATTTTTATT
*
134704 TATTTTT
1 CATTTTT
134711 TTTAAAAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
10 20 0.50
11 20 0.50
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.66
Consensus pattern (10 bp):
CATTTTTATT
Found at i:134683 original size:11 final size:11
Alignment explanation
Indices: 134642--134700 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 11
134632 CTATTTTTAG
134642 TTTTACATTACAT
1 TTTTA-ATT-CAT
* *
134655 TTTT-ATTGAA
1 TTTTAATTCAT
134665 TTTT-ATTCAT
1 TTTTAATTCAT
134675 TTTTAATTCAT
1 TTTTAATTCAT
*
134686 TTTTAATGCAT
1 TTTTAATTCAT
134697 TTTT
1 TTTT
134701 CTTTATTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
10 13 0.32
11 23 0.57
13 4 0.10
ACGTcount: A:0.25, C:0.08, G:0.03, T:0.63
Consensus pattern (11 bp):
TTTTAATTCAT
Found at i:134966 original size:26 final size:26
Alignment explanation
Indices: 134937--134989 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
134927 TATTTATTCA
*
134937 TTTTTAATAAAATTTAAATTTAATAT
1 TTTTTAATAAAATTTAAAATTAATAT
***
134963 TTTTTAATATTTTTTAAAATTAATAT
1 TTTTTAATAAAATTTAAAATTAATAT
134989 T
1 T
134990 AGAAAGAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TTTTTAATAAAATTTAAAATTAATAT
Found at i:134968 original size:10 final size:10
Alignment explanation
Indices: 134955--134979 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
134945 AAAATTTAAA
134955 TTTAATATTT
1 TTTAATATTT
134965 TTTAATATTT
1 TTTAATATTT
134975 TTTAA
1 TTTAA
134980 AATTAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTAATATTT
Found at i:138788 original size:18 final size:18
Alignment explanation
Indices: 138735--138804 Score: 86
Period size: 18 Copynumber: 3.9 Consensus size: 18
138725 ATTAATCTAC
* * *
138735 GTCTGATAATTATAAAAC
1 GTCTGATAACTGTAAAAT
* *
138753 ATCTGATAACTGAAAAAT
1 GTCTGATAACTGTAAAAT
138771 GTCTGATAACTGTAAAAT
1 GTCTGATAACTGTAAAAT
*
138789 GTTTGATAACTGTAAA
1 GTCTGATAACTGTAAA
138805 CATTTAGAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (18 bp):
GTCTGATAACTGTAAAAT
Found at i:144601 original size:17 final size:17
Alignment explanation
Indices: 144572--144604 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
144562 CATATTATTT
144572 ATATAAAATATAATATA
1 ATATAAAATATAATATA
144589 ATATGAAAA-ATAATAT
1 ATAT-AAAATATAATAT
144605 TGTGATCTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
ATATAAAATATAATATA
Found at i:153325 original size:50 final size:51
Alignment explanation
Indices: 153170--153412 Score: 341
Period size: 50 Copynumber: 4.8 Consensus size: 51
153160 TTCATAATAC
***
153170 AAAAAA-TGTAGCACTTAACACATACTTACATATGTGTAAGTGAATAAAAT
1 AAAAAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAAT
* *
153220 AAATAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAAC
1 AAAAAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAAT
*
153271 AAAAAAGTGTAGCACTTAACACATTC-TACACCGGTGTAAGTGAATAAAAT
1 AAAAAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAAT
* * * * *
153321 AAAAAAGTGTAGCACTTAACACATATTTACAACAGTGCAAGTAAATAAAAT
1 AAAAAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAAT
*
153372 -AAAAAGTGTAGCAGC-TAACACATACTTACACCGATGTAAGT
1 AAAAAAGTGTAGCA-CTTAACACATACTTACACCGGTGTAAGT
153413 TACATCTCCC
Statistics
Matches: 171, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
50 86 0.50
51 85 0.50
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (51 bp):
AAAAAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAAT
Found at i:153343 original size:101 final size:102
Alignment explanation
Indices: 153163--153412 Score: 346
Period size: 101 Copynumber: 2.5 Consensus size: 102
153153 TTCATAATTC
* *** *
153163 ATAATACAAAAAA-TGTAGCACTTAACACATACTTACATATGTGTAAGTGAATAAAATAAATAAG
1 ATAAAACAAAAAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAATAAAAAAG
* * * *
153227 TGTAGCACTTAACACATACTTACACCGGTGTAAGTGA
66 TGTAGCACTTAACACATACTTACAACAGTGCAAGTAA
*
153264 ATAAAACAAAAAAGTGTAGCACTTAACACATTC-TACACCGGTGTAAGTGAATAAAATAAAAAAG
1 ATAAAACAAAAAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAATAAAAAAG
*
153328 TGTAGCACTTAACACATATTTACAACAGTGCAAGTAA
66 TGTAGCACTTAACACATACTTACAACAGTGCAAGTAA
* *
153365 ATAAAA-TAAAAAGTGTAGCAGC-TAACACATACTTACACCGATGTAAGT
1 ATAAAACAAAAAAGTGTAGCA-CTTAACACATACTTACACCGGTGTAAGT
153413 TACATCTCCC
Statistics
Matches: 132, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
100 22 0.17
101 92 0.70
102 18 0.14
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (102 bp):
ATAAAACAAAAAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAATAAAAAAG
TGTAGCACTTAACACATACTTACAACAGTGCAAGTAA
Found at i:156015 original size:171 final size:172
Alignment explanation
Indices: 155730--156083 Score: 622
Period size: 171 Copynumber: 2.0 Consensus size: 172
155720 AAGTTCTTGT
155730 TCCAGTGTCCTTGCTGTTCTTGTTTCTACTTCATGAAGCCTAAGCAAGGGAAACAAAAAAATGAA
1 TCCAGTGTCCTTGCTGTTCTTGTTTCTACTTCATGAAGCCTAAGCAAGGGAAACAAAAAAATGAA
155795 GGATGCTCCTAAGGTGGAGAAAAACAAGGAAGTGAAAGCTGATAAGGCAAAGTGAA-TT-TTCTT
66 GGATGCTCCTAAGGTGGAGAAAAACAAGGAAGTGAAAGCTGATAAGGCAAAGTGAATTTCTTCTT
155858 CTTCTTCTTCTCAAATAAATTGTATGAAATAACTTTTTATTTA
131 CTTCTTCTTCTCAAATAAATTGTATGAAATAAC-TTTTATTTA
155901 TCCAGTGTCCTTGCTGTTCTTGTTTCTACTTCATGAAGCCTAAGCAAGGGAAACAAAAAAATGAA
1 TCCAGTGTCCTTGCTGTTCTTGTTTCTACTTCATGAAGCCTAAGCAAGGGAAACAAAAAAATGAA
155966 GGATGCTCCTAAGGTGGAGAAAAACAAGGAAGTGAAAGCTGATAAGGCAAAGTGAATTTTCTTCT
66 GGATGCTCCTAAGGTGGAGAAAAACAAGGAAGTGAAAGCTGATAAGGCAAAGTGAA------T-T
156031 TCTTCTTCTTCTTCTTCTCAAATAAATTGTATGAAATAACTTTTATTTA
124 TCTTCTTCTTCTTCTTCTCAAATAAATTGTATGAAATAACTTTTATTTA
156080 TCCA
1 TCCA
156084 AGTTTGCATG
Statistics
Matches: 174, Mismatches: 0, Indels: 10
0.95 0.00 0.05
Matches are distributed among these distances:
171 121 0.70
179 15 0.09
180 38 0.22
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (172 bp):
TCCAGTGTCCTTGCTGTTCTTGTTTCTACTTCATGAAGCCTAAGCAAGGGAAACAAAAAAATGAA
GGATGCTCCTAAGGTGGAGAAAAACAAGGAAGTGAAAGCTGATAAGGCAAAGTGAATTTCTTCTT
CTTCTTCTTCTCAAATAAATTGTATGAAATAACTTTTATTTA
Found at i:156032 original size:3 final size:3
Alignment explanation
Indices: 156024--156048 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
156014 AAAGTGAATT
156024 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
156049 CAAATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:156685 original size:42 final size:42
Alignment explanation
Indices: 156626--156710 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
156616 TATTGGATTA
156626 AGACACTAGATCCCTTCAATAAGGTCAGTAGTTCGAATCTCG
1 AGACACTAGATCCCTTCAATAAGGTCAGTAGTTCGAATCTCG
*
156668 AGACACTAGATCCCTTCAATAAGGTTAGTAGTTCGAATCTCG
1 AGACACTAGATCCCTTCAATAAGGTCAGTAGTTCGAATCTCG
156710 A
1 A
156711 CTTTTATTGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (42 bp):
AGACACTAGATCCCTTCAATAAGGTCAGTAGTTCGAATCTCG
Found at i:161281 original size:50 final size:50
Alignment explanation
Indices: 161206--161307 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
161196 TCTGGGATAG
* *
161206 TACTATAATGTATTTTTAGTTGTGTTCCCCGATTATGAAGAGTTACTAAA
1 TACTATAATGTATTTTTAGTTGTGTTCCCCAATTATGAAAAGTTACTAAA
*
161256 TACTATAATGTATTTTTAGTTGTGTTCCCCAATTATGAAAATTTACTAAA
1 TACTATAATGTATTTTTAGTTGTGTTCCCCAATTATGAAAAGTTACTAAA
161306 TA
1 TA
161308 GTAATACAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (50 bp):
TACTATAATGTATTTTTAGTTGTGTTCCCCAATTATGAAAAGTTACTAAA
Found at i:180400 original size:34 final size:34
Alignment explanation
Indices: 180355--180421 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
180345 AATAGGAATT
*
180355 ACAACTTCTCTC-GATCTAACAAGGAGAAAACAATG
1 ACAACTTCTCTCTGA--TAAAAAGGAGAAAACAATG
180390 ACAA-TTCTCTCTTGATAAAAAGGAGAAAACAA
1 ACAACTTCTCTC-TGATAAAAAGGAGAAAACAA
180422 CTCTCAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 23 0.79
35 4 0.14
36 2 0.07
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.21
Consensus pattern (34 bp):
ACAACTTCTCTCTGATAAAAAGGAGAAAACAATG
Found at i:183519 original size:2 final size:2
Alignment explanation
Indices: 183514--183538 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
183504 CTTAAAGTTC
183514 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 A
183539 CATACATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:213772 original size:60 final size:60
Alignment explanation
Indices: 213689--213805 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 60
213679 AAATGGTCTC
* * * *
213689 CCGACTATAGGGTGGTGTTTTATTGAGTCACTCGACTATTAAATGTTATAAAATGATTAT
1 CCGACTATAGAGTGGTGTTTTATTGAATCACTCGACTATTAAAAGTTACAAAATGATTAT
* * * *
213749 CCGATTATAGAGTGTTGTTTTATTGAATCTCTCGACTATTAAAAGTTACGAAATGAT
1 CCGACTATAGAGTGGTGTTTTATTGAATCACTCGACTATTAAAAGTTACAAAATGAT
213806 CACATGGCTA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (60 bp):
CCGACTATAGAGTGGTGTTTTATTGAATCACTCGACTATTAAAAGTTACAAAATGATTAT
Found at i:214312 original size:2 final size:2
Alignment explanation
Indices: 214305--214339 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
214295 GCATGCATGC
214305 AT 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 AT A
214340 ATGCGGCTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:222593 original size:3 final size:3
Alignment explanation
Indices: 222585--222610 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
222575 AATCAGGGTT
222585 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
222611 AACATCCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Done.