Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008822.1 Hibiscus syriacus cultivar Beakdansim tig00111990_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: 699754
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:488 original size:3 final size:3
Alignment explanation
Indices: 480--564 Score: 136
Period size: 3 Copynumber: 28.7 Consensus size: 3
470 TATATATGTT
*
480 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
528 TAA TAA TGA TAA TAA TAA TAA TAA TAA -AC TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
565 TTATAGTAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
2 1 0.01
3 74 0.99
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4272 original size:21 final size:23
Alignment explanation
Indices: 4222--4281 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
4212 GTCGAGGGTT
*
4222 CTATGTGGTCCTTCAGGACAAAA
1 CTATGTGGTCCTTCGGGACAAAA
4245 CTATGTGGTCCTTCGGGAC-AAA
1 CTATGTGGTCCTTCGGGACAAAA
4267 -TATGTGG-CACTTCGG
1 CTATGTGGTC-CTTCGG
4282 TGCAATTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
20 1 0.03
21 13 0.37
22 3 0.09
23 18 0.51
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (23 bp):
CTATGTGGTCCTTCGGGACAAAA
Found at i:6943 original size:26 final size:24
Alignment explanation
Indices: 6901--6948 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
6891 TATCAAATAC
6901 AATAAATAAGATTTATTATAAAAA
1 AATAAATAAGATTTATTATAAAAA
* *
6925 AATATAATAATATTATATTTTAAA
1 AATA-AATAAGATT-TATTATAAA
6949 TTCTTGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 8 0.40
26 8 0.40
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
AATAAATAAGATTTATTATAAAAA
Found at i:17023 original size:20 final size:20
Alignment explanation
Indices: 16929--17297 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
16919 GATTTTCCAT
* ** *
16929 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
16949 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
16969 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
16989 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
17009 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
17029 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
17049 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
17069 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
17089 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
17109 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
17129 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
17149 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
17169 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
17189 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
17209 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
17229 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
17249 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
17269 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
17289 AATCACAAC
1 AATCGCAAC
17298 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:18009 original size:24 final size:24
Alignment explanation
Indices: 17970--18016 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
17960 AAATTTGGTC
17970 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
17994 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
18017 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:20539 original size:19 final size:19
Alignment explanation
Indices: 20517--20822 Score: 340
Period size: 19 Copynumber: 17.4 Consensus size: 19
20507 CGGAAAATAC
*
20517 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
20536 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
20550 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
20570 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
20584 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
20603 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
20622 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
20636 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
20655 AATCACAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
20674 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
20688 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
20707 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
20726 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
20745 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
20763 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
20777 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
20796 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
20815 AATCGCAA
1 AATCGCAA
20823 CGAGATAATC
Statistics
Matches: 246, Mismatches: 15, Indels: 52
0.79 0.05 0.17
Matches are distributed among these distances:
14 45 0.18
15 5 0.02
16 20 0.08
17 10 0.04
18 14 0.06
19 139 0.57
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:20604 original size:33 final size:33
Alignment explanation
Indices: 20517--20844 Score: 239
Period size: 33 Copynumber: 9.5 Consensus size: 33
20507 CGGAAAATAC
* *
20517 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAA
*
20550 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAA
20584 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
*
20622 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
* * *
20655 AATCACAATGCGAAATGAAAATCG-AACCGACAT
1 AATCGCAATGCGAAATGAAAATCGCAA-CGAGAA
*
20688 AATCGCAATGCGAAATTAAAATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAA
*
20726 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGA
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAGA--A
20763 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
*
20796 AATCGCAATGCGAAATGAAAATCGCAACGAGAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
20829 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
20845 TATAAACGCA
Statistics
Matches: 247, Mismatches: 18, Indels: 60
0.76 0.06 0.18
Matches are distributed among these distances:
32 12 0.05
33 104 0.42
34 34 0.14
35 20 0.08
36 10 0.04
37 15 0.06
38 52 0.21
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAA
Found at i:20632 original size:52 final size:53
Alignment explanation
Indices: 20545--20822 Score: 340
Period size: 52 Copynumber: 5.2 Consensus size: 53
20535 AAATCCCAAC
*
20545 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
*
20598 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
* * * *
20650 ATGAAAATCACAATGCGAAATGAAAATCG-AACCGACATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
* *
20702 ATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG--A-GAAAATCGCAATGCGAA
20759 ATG-AAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG--A-GAAAATCGCAATGCGAA
20810 ATGAAAATCGCAA
1 ATGAAAATCGCAA
20823 CGAGATAATC
Statistics
Matches: 208, Mismatches: 10, Indels: 15
0.89 0.04 0.06
Matches are distributed among these distances:
51 38 0.18
52 117 0.56
53 19 0.09
54 7 0.03
56 10 0.05
57 17 0.08
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (53 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
Found at i:20860 original size:52 final size:51
Alignment explanation
Indices: 20688--20844 Score: 224
Period size: 51 Copynumber: 2.9 Consensus size: 51
20678 GAACCGACAT
*
20688 AATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAA-TGAAATCGC-A-ACGAAA-G--AATCGCAATGCGAAATGAA
20745 AATCGCAATGCGAAATGAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
* *
20796 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATG-AAATCGCAACGAAAGAATCGCAATGCGAAAT
20845 TATAAACGCA
Statistics
Matches: 96, Mismatches: 3, Indels: 7
0.91 0.03 0.07
Matches are distributed among these distances:
51 36 0.38
52 29 0.30
53 1 0.01
54 6 0.06
55 1 0.01
56 8 0.08
57 15 0.16
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (51 bp):
AATCGCAATGCGAAATGAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
Found at i:20960 original size:19 final size:19
Alignment explanation
Indices: 20851--20952 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
20841 AAATTATAAA
20851 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
20870 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
20890 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
20906 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
20923 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
20942 CGCATTGCGAT
1 CGCATTGCGAT
20953 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:21078 original size:14 final size:14
Alignment explanation
Indices: 21059--21095 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
21049 CATCAATTAC
21059 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
21073 ACAAATCATCTTTT
1 ACAAATCAACTTTT
21087 ACAAATCAA
1 ACAAATCAA
21096 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:23072 original size:14 final size:14
Alignment explanation
Indices: 23053--23109 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
23043 GCGAAATGAA
*
23053 AATCGCAACGACAG
1 AATCGCAACGAAAG
23067 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
23084 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
23100 AATCGCAACG
1 AATCGCAACG
23110 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:23080 original size:33 final size:33
Alignment explanation
Indices: 23034--23126 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
23024 GCGAAACCAA
*
23034 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
23067 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
23100 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
23127 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:23091 original size:19 final size:19
Alignment explanation
Indices: 22997--23131 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
22987 TAGTTTACTT
* *
22997 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
23017 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
23036 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
23055 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
23069 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
23088 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
23102 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
23121 TCGCAATGCGA
1 TCGCAACGCGA
23132 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:23149 original size:19 final size:19
Alignment explanation
Indices: 23127--23255 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
23117 AAAATCGCAA
23127 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
23146 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
23160 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
23179 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
23193 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
23212 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
23231 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
23251 TGCGA
1 TGCGA
23256 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:23169 original size:33 final size:33
Alignment explanation
Indices: 23127--23218 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
23117 AAAATCGCAA
23127 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
23160 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
23193 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
23219 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:23458 original size:93 final size:93
Alignment explanation
Indices: 23299--23771 Score: 939
Period size: 93 Copynumber: 5.1 Consensus size: 93
23289 TTGAATGGAT
23299 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
23364 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
23392 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
23457 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
23485 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
23550 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
23578 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
23642 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
23670 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
23735 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
23763 AAATTTACT
1 AAATTTACT
23772 AAGCAATCTA
Statistics
Matches: 379, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.24
93 287 0.76
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:23744 original size:185 final size:186
Alignment explanation
Indices: 23299--23771 Score: 939
Period size: 185 Copynumber: 2.5 Consensus size: 186
23289 TTGAATGGAT
23299 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
23364 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
23429 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
23485 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
23550 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
23615 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
23670 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
23735 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
23772 AAGCAATCTA
Statistics
Matches: 287, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
185 155 0.54
186 132 0.46
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:25495 original size:14 final size:14
Alignment explanation
Indices: 25476--25532 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 14
25466 TTGAAATGAA
25476 AATCGCAACGAGAG
1 AATCGCAACGAGAG
25490 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
25507 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
25523 AATCGCAACG
1 AATCGCAACG
25533 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 18 0.47
16 6 0.16
17 6 0.16
19 8 0.21
ACGTcount: A:0.40, C:0.25, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:25513 original size:33 final size:33
Alignment explanation
Indices: 25468--25575 Score: 180
Period size: 33 Copynumber: 3.3 Consensus size: 33
25458 TCTTTTGGTT
25468 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
25501 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
25534 GAAATGAAAATCGCAACGACAGAATCGTAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
25567 GAAATGAAA
1 GAAATGAAA
25576 TCTAAGTGAA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 69 1.00
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:25514 original size:19 final size:18
Alignment explanation
Indices: 25475--25551 Score: 71
Period size: 19 Copynumber: 4.6 Consensus size: 18
25465 GTTGAAATGA
25475 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
25490 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
25507 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
25523 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
25540 AAAATCGCAACG
1 -AAATCGCAACG
25552 ACAGAATCGT
Statistics
Matches: 51, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
14 16 0.31
16 10 0.20
17 7 0.14
19 18 0.35
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:25809 original size:22 final size:22
Alignment explanation
Indices: 25757--25811 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
25747 TGGTTGTGAG
**
25757 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
25779 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
25801 GGATTTCTTCG
1 GGATTTCTTCG
25812 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:25982 original size:20 final size:20
Alignment explanation
Indices: 25957--26150 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
25947 CTTTAAATAT
25957 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
25977 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
25999 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
26018 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
26038 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
*
26058 CCCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
26078 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
26098 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
26118 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
26138 CGCGTTGCGATTT
1 CGCGTTGCGATTT
26151 TGGAAAATCG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 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:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:26144 original size:60 final size:60
Alignment explanation
Indices: 25957--26150 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
25947 CTTTAAATAT
**
25957 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCCCGTTGCGATTTACGGATA
* * *** *
26018 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACCCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCCCGTTGCGATTTACGGATA
* * * * ** *
26078 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCCCGTTGCGATTTACGGATA
26138 CGCGTTGCGATTT
1 CGCGTTGCGATTT
26151 TGGAAAATCG
Statistics
Matches: 111, Mismatches: 22, 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:0.25, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCCCGTTGCGATTTACGGATA
Found at i:26167 original size:21 final size:20
Alignment explanation
Indices: 26143--26219 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
26133 ATATTCGCGT
26143 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
26164 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
26184 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
26206 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
26220 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:26230 original size:20 final size:20
Alignment explanation
Indices: 26205--26256 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
26195 AAGAATCGCG
*
26205 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
26225 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
26245 TTGCGATTCTGG
1 TTGCGATTCTGG
26257 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:30071 original size:20 final size:20
Alignment explanation
Indices: 30005--30100 Score: 81
Period size: 20 Copynumber: 4.8 Consensus size: 20
29995 AAATAACCAA
**
30005 CGAATTCGCAATTCA-ATTT
1 CGAATTCGCAACACAGATTT
* **
30024 CGAATTCGCAACACGGAAGT
1 CGAATTCGCAACACAGATTT
*
30044 C-AATTTCGCAACACAGTTTT
1 CGAA-TTCGCAACACAGATTT
*
30064 CGAATTCGCAACTC-GAATTT
1 CGAATTCGCAACACAG-ATTT
*
30084 GGAATTCGCAACACAGA
1 CGAATTCGCAACACAGA
30101 AGTCAAATTT
Statistics
Matches: 59, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
19 15 0.25
20 41 0.69
21 3 0.05
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (20 bp):
CGAATTCGCAACACAGATTT
Found at i:30109 original size:20 final size:20
Alignment explanation
Indices: 30026--30109 Score: 62
Period size: 20 Copynumber: 4.2 Consensus size: 20
30016 TTCAATTTCG
*
30026 AATTCGCAACACGGAAGTCA
1 AATTCGCAACACAGAAGTCA
* *** *
30046 ATTTCGCAACACAGTTTTCG
1 AATTCGCAACACAGAAGTCA
* * **
30066 AATTCGCAACTC-GAATTTGG
1 AATTCGCAACACAGAA-GTCA
30086 AATTCGCAACACAGAAGTCA
1 AATTCGCAACACAGAAGTCA
30106 AATT
1 AATT
30110 TACAACTCAA
Statistics
Matches: 47, Mismatches: 15, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
19 1 0.02
20 43 0.91
21 3 0.06
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (20 bp):
AATTCGCAACACAGAAGTCA
Found at i:30225 original size:40 final size:40
Alignment explanation
Indices: 30148--30226 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
30138 ACGAATGTCT
* * * *
30148 TTTTCGTAAGTCGATTTTTAAATTCGCAGCACGAGTTTCG
1 TTTTCGAAACTCGATTTTTAAATTCGCAACACAAGTTTCG
*
30188 TTTTCGAAACTCGATTTTCT-AATTCGCAACGCAAGTTTC
1 TTTTCGAAACTCGATTTT-TAAATTCGCAACACAAGTTTC
30227 AATTTCGCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
40 32 0.97
41 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.39
Consensus pattern (40 bp):
TTTTCGAAACTCGATTTTTAAATTCGCAACACAAGTTTCG
Found at i:30233 original size:40 final size:40
Alignment explanation
Indices: 30149--30257 Score: 94
Period size: 40 Copynumber: 2.7 Consensus size: 40
30139 CGAATGTCTT
* * * * **
30149 TTTCGTAAGTCGATTTTTAAATTCGCAGCACGAGTTTCGT
1 TTTCGAAACTCGATTTTTAAATTCGCAACACAAGTTTCAA
*
30189 TTTCGAAACTCGATTTTCT-AATTCGCAACGCAAGTTTCAA
1 TTTCGAAACTCGATTTT-TAAATTCGCAACACAAGTTTCAA
* * * **
30229 TTTCGCAACACGAATTTTATTTTCGCAAC
1 TTTCGAAACTCGATTTTTAAATTCGCAAC
30258 TCGATTTTCG
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
39 1 0.02
40 53 0.96
41 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (40 bp):
TTTCGAAACTCGATTTTTAAATTCGCAACACAAGTTTCAA
Found at i:30252 original size:60 final size:60
Alignment explanation
Indices: 30164--30299 Score: 170
Period size: 60 Copynumber: 2.3 Consensus size: 60
30154 TAAGTCGATT
* * *
30164 TTTAAA-TTCGCAGCACGAGTTTCGTTTTCGAAACTCGATTTTC-TAATTCGCAACG-CAA
1 TTTAAATTTCGCAACACGAATTTCATTTTCGAAACTCGATTTTCGT-ATTCGCAACGTCAA
* * * *
30222 GTTTCAATTTCGCAACACGAATTTTATTTTCGCAACTCGATTTTCGTATTCGCAACGTTAA
1 -TTTAAATTTCGCAACACGAATTTCATTTTCGAAACTCGATTTTCGTATTCGCAACGTCAA
30283 TTTAAATTTCGCAACAC
1 TTTAAATTTCGCAACAC
30300 ATATATAAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
59 5 0.08
60 58 0.88
61 3 0.05
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (60 bp):
TTTAAATTTCGCAACACGAATTTCATTTTCGAAACTCGATTTTCGTATTCGCAACGTCAA
Found at i:30273 original size:20 final size:19
Alignment explanation
Indices: 30169--30277 Score: 65
Period size: 20 Copynumber: 5.5 Consensus size: 19
30159 CGATTTTTAA
* *
30169 ATTCGCAGCACGAGTTTCGT
1 ATTCGCAACACGATTTTC-T
* * *
30189 TTTCGAAACTCGATTTTCT
1 ATTCGCAACACGATTTTCT
* * * *
30208 AATTCGCAACGCAAGTTTCA
1 -ATTCGCAACACGATTTTCT
*
30228 ATTTCGCAACACGAATTTTAT
1 A-TTCGCAACACG-ATTTTCT
* *
30249 TTTCGCAACTCGATTTTCGT
1 ATTCGCAACACGATTTTC-T
30269 ATTCGCAAC
1 ATTCGCAAC
30278 GTTAATTTAA
Statistics
Matches: 65, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
19 7 0.11
20 54 0.83
21 4 0.06
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.36
Consensus pattern (19 bp):
ATTCGCAACACGATTTTCT
Found at i:31106 original size:36 final size:36
Alignment explanation
Indices: 31059--31129 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
31049 TAAAGCTAAG
* *
31059 ACTGGAATTTAAATAAGTTGAATCAAGAAGAAAGTC
1 ACTGGAATTTAAAGAAATTGAATCAAGAAGAAAGTC
* **
31095 ACTGGACTTTAAAGAAATTGAATTGAGAAGAAAGT
1 ACTGGAATTTAAAGAAATTGAATCAAGAAGAAAGT
31130 TACTCTAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.25
Consensus pattern (36 bp):
ACTGGAATTTAAAGAAATTGAATCAAGAAGAAAGTC
Found at i:32560 original size:42 final size:42
Alignment explanation
Indices: 32494--32656 Score: 210
Period size: 42 Copynumber: 4.0 Consensus size: 42
32484 CCCTACTTTT
* *
32494 TCATCGAGTCGA-TCTCCACTTCGACACCGAGATCCATCACC
1 TCATCGAGTCGATTCTACACCTCGACACCGAGATCCATCACC
* *
32535 TCATCGAGTCGATTCTCCACTTCGACACCGAGATCCATCACC
1 TCATCGAGTCGATTCTACACCTCGACACCGAGATCCATCACC
*
32577 TCATCGAG-CTGATTCTACACCTCGACACTGAGATCCATCACC
1 TCATCGAGTC-GATTCTACACCTCGACACCGAGATCCATCACC
* * *
32619 TC-T--AGCCGACTCTACACCTCGACACCGAAATCCATCAC
1 TCATCGAGTCGATTCTACACCTCGACACCGAGATCCATCAC
32657 TTATTCCATC
Statistics
Matches: 113, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
39 30 0.27
40 1 0.01
41 14 0.12
42 68 0.60
ACGTcount: A:0.26, C:0.39, G:0.13, T:0.22
Consensus pattern (42 bp):
TCATCGAGTCGATTCTACACCTCGACACCGAGATCCATCACC
Found at i:32618 original size:21 final size:21
Alignment explanation
Indices: 32556--32620 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
32546 ATTCTCCACT
*
32556 TCGACACCGAGATCCATCACC
1 TCGACACTGAGATCCATCACC
* *
32577 TC-ATCGAGCTGA-TTCTA-CACC
1 TCGA-C-A-CTGAGATCCATCACC
32598 TCGACACTGAGATCCATCACC
1 TCGACACTGAGATCCATCACC
32619 TC
1 TC
32621 TAGCCGACTC
Statistics
Matches: 33, Mismatches: 5, Indels: 12
0.66 0.10 0.24
Matches are distributed among these distances:
19 4 0.12
20 5 0.15
21 16 0.48
22 5 0.15
23 3 0.09
ACGTcount: A:0.26, C:0.38, G:0.14, T:0.22
Consensus pattern (21 bp):
TCGACACTGAGATCCATCACC
Found at i:32792 original size:21 final size:21
Alignment explanation
Indices: 32758--32969 Score: 223
Period size: 21 Copynumber: 10.1 Consensus size: 21
32748 ACCTCCACGG
* *
32758 GATGAGTTAAGTGCTTTACGT
1 GATGAGGTAGGTGCTTTACGT
*
32779 TATGAGGTAGGTGCTTTACGT
1 GATGAGGTAGGTGCTTTACGT
*
32800 GATGAGGTCGGTGCTTTACGT
1 GATGAGGTAGGTGCTTTACGT
*
32821 GATGAGGTATGTGCTTTACGT
1 GATGAGGTAGGTGCTTTACGT
* **
32842 GGTGAGGTAACTGCTTTACGT
1 GATGAGGTAGGTGCTTTACGT
** *
32863 GATGA-CAATGGTTCTTTACGT
1 GATGAGGTA-GGTGCTTTACGT
*
32884 GATGATGTAGGTGCTTTACGT
1 GATGAGGTAGGTGCTTTACGT
**
32905 GATGACAATA-GTGCTTTACGT
1 GATGA-GGTAGGTGCTTTACGT
**
32926 GATGACAATA-GTGCTTTACGT
1 GATGA-GGTAGGTGCTTTACGT
*
32947 GATGAGGTAGGTGCTCTACGT
1 GATGAGGTAGGTGCTTTACGT
32968 GA
1 GA
32970 GATTGTTTCA
Statistics
Matches: 163, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
20 3 0.02
21 157 0.96
22 3 0.02
ACGTcount: A:0.22, C:0.12, G:0.31, T:0.35
Consensus pattern (21 bp):
GATGAGGTAGGTGCTTTACGT
Found at i:32857 original size:63 final size:63
Alignment explanation
Indices: 32758--32969 Score: 257
Period size: 63 Copynumber: 3.4 Consensus size: 63
32748 ACCTCCACGG
* * * * **
32758 GATGAGTTAAGTGCTTTACGTTATGAGGTAGGTGCTTTACGTGATGA-GGTCGGTGCTTTACGT
1 GATGAGGTAGGTGCTTTACGTGATGAGGTAAGTGCTTTACGTGATGACAAT-GGTGCTTTACGT
* * * *
32821 GATGAGGTATGTGCTTTACGTGGTGAGGTAACTGCTTTACGTGATGACAATGGTTCTTTACGT
1 GATGAGGTAGGTGCTTTACGTGATGAGGTAAGTGCTTTACGTGATGACAATGGTGCTTTACGT
* ** *
32884 GATGATGTAGGTGCTTTACGTGATGA-CAATAGTGCTTTACGTGATGACAATAGTGCTTTACGT
1 GATGAGGTAGGTGCTTTACGTGATGAGGTA-AGTGCTTTACGTGATGACAATGGTGCTTTACGT
*
32947 GATGAGGTAGGTGCTCTACGTGA
1 GATGAGGTAGGTGCTTTACGTGA
32970 GATTGTTTCA
Statistics
Matches: 128, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
62 1 0.01
63 126 0.98
64 1 0.01
ACGTcount: A:0.22, C:0.12, G:0.31, T:0.35
Consensus pattern (63 bp):
GATGAGGTAGGTGCTTTACGTGATGAGGTAAGTGCTTTACGTGATGACAATGGTGCTTTACGT
Found at i:33329 original size:21 final size:21
Alignment explanation
Indices: 33303--33343 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33293 AAAAGCCTGA
33303 TCCACCTACCATTATTCAGGG
1 TCCACCTACCATTATTCAGGG
* *
33324 TCCACCTCCCATTCTTCAGG
1 TCCACCTACCATTATTCAGG
33344 ATTCATCTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.39, G:0.12, T:0.29
Consensus pattern (21 bp):
TCCACCTACCATTATTCAGGG
Found at i:33362 original size:21 final size:21
Alignment explanation
Indices: 33317--33425 Score: 96
Period size: 21 Copynumber: 5.2 Consensus size: 21
33307 CCTACCATTA
* *
33317 TTCAGGGTCCACCTCCCATTC-
1 TTCAGGATCCACCTCTCA-TCG
* *
33338 TTCAGGATTCATCTCTCATCG
1 TTCAGGATCCACCTCTCATCG
* * *
33359 TTCAAGAGGCC-CCTCCCATCG
1 TTCAGGA-TCCACCTCTCATCG
*
33380 TTCAGGATCCACCTCTCATCA
1 TTCAGGATCCACCTCTCATCG
* *
33401 TTCAGGATCCACCCCACATCG
1 TTCAGGATCCACCTCTCATCG
33422 TTCA
1 TTCA
33426 AAATCCACAT
Statistics
Matches: 69, Mismatches: 16, Indels: 6
0.76 0.18 0.07
Matches are distributed among these distances:
20 4 0.06
21 64 0.93
22 1 0.01
ACGTcount: A:0.20, C:0.39, G:0.14, T:0.28
Consensus pattern (21 bp):
TTCAGGATCCACCTCTCATCG
Found at i:33421 original size:42 final size:42
Alignment explanation
Indices: 33301--33425 Score: 123
Period size: 42 Copynumber: 3.0 Consensus size: 42
33291 GAAAAAGCCT
* *
33301 GATCCACCTAC-CATTATTCAGGGTCCACCTCCCATTC-TTCAG
1 GATCCACCT-CTCATCATTCAGGATCCACCTCCCA-TCGTTCAG
* * * * *
33343 GATTCATCTCTCATCGTTCAAGAGGCC-CCTCCCATCGTTCAG
1 GATCCACCTCTCATCATTCAGGA-TCCACCTCCCATCGTTCAG
33385 GATCCACCTCTCATCATTCAGGATCCACC-CCACATCGTTCA
1 GATCCACCTCTCATCATTCAGGATCCACCTCC-CATCGTTCA
33426 AAATCCACAT
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
41 7 0.11
42 57 0.86
43 2 0.03
ACGTcount: A:0.22, C:0.38, G:0.13, T:0.27
Consensus pattern (42 bp):
GATCCACCTCTCATCATTCAGGATCCACCTCCCATCGTTCAG
Found at i:37253 original size:2 final size:2
Alignment explanation
Indices: 37246--37274 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
37236 TACTGTCATT
37246 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 T
37275 TCTATATTAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37726 original size:20 final size:20
Alignment explanation
Indices: 37701--37758 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
37691 GCAACTCAAT
37701 TTCGCAACTCGAAAATCGAA
1 TTCGCAACTCGAAAATCGAA
* *
37721 TTCGCAATTCGAAACA-CAAA
1 TTCGCAACTCGAAA-ATCGAA
*
37741 TTCGCAACACGAAAATCG
1 TTCGCAACTCGAAAATCG
37759 CAGCTCGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.41, C:0.26, G:0.14, T:0.19
Consensus pattern (20 bp):
TTCGCAACTCGAAAATCGAA
Found at i:37787 original size:20 final size:20
Alignment explanation
Indices: 37764--37818 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
37754 AATCGCAGCT
* *
37764 CGAAAATGAAATTTGTAACA
1 CGAAAATGAAATTCGCAACA
* *
37784 CGAAAATGAAAATCGCAACT
1 CGAAAATGAAATTCGCAACA
37804 CGAAAATGAAATTCG
1 CGAAAATGAAATTCG
37819 AGTTGTGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (20 bp):
CGAAAATGAAATTCGCAACA
Found at i:41479 original size:24 final size:24
Alignment explanation
Indices: 41447--41498 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
41437 GAATTTTCCG
*
41447 ACACCGTATCACTATTCACGCGCC
1 ACACCGTATCACTATTCACGCACC
*
41471 ACACCGTATCACTGTTCACGCACC
1 ACACCGTATCACTATTCACGCACC
41495 ACAC
1 ACAC
41499 GCTCCACCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.27, C:0.42, G:0.12, T:0.19
Consensus pattern (24 bp):
ACACCGTATCACTATTCACGCACC
Found at i:45406 original size:12 final size:12
Alignment explanation
Indices: 45385--45418 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
45375 AGTTGTGGAT
*
45385 TTTGAGATTGTG
1 TTTGATATTGTG
45397 TTTGATATTGTG
1 TTTGATATTGTG
*
45409 TTTGGTATTG
1 TTTGATATTG
45419 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:46078 original size:22 final size:22
Alignment explanation
Indices: 46047--46094 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
46037 GAAAAGATTA
*
46047 GAGATGGGGACGGATGTCGTCG
1 GAGATGGGGACGGATGTCGCCG
* *
46069 GAGATTGGGACTGATGTCGCCG
1 GAGATGGGGACGGATGTCGCCG
46091 GAGA
1 GAGA
46095 GAGTGAGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.21, C:0.15, G:0.46, T:0.19
Consensus pattern (22 bp):
GAGATGGGGACGGATGTCGCCG
Found at i:46295 original size:20 final size:20
Alignment explanation
Indices: 46258--46446 Score: 77
Period size: 20 Copynumber: 9.4 Consensus size: 20
46248 TGCGAAAACG
* *
46258 AAATT-GAAACTCGCGTTGC
1 AAATTAGAAAATCGTGTTGC
*
46277 AAATTAGAAAATCTTGTTGC
1 AAATTAGAAAATCGTGTTGC
*
46297 GAAA--AGGAAACTCGTGTTGC
1 -AAATTA-GAAAATCGTGTTGC
* *
46317 GAATTAGAAAATCGAGTTGC
1 AAATTAGAAAATCGTGTTGC
*
46337 GAAA--AGGAAACTCGTGTTGC
1 -AAATTA-GAAAATCGTGTTGC
* **
46357 GAATTTA-AAAATCAAGTTGC
1 -AAATTAGAAAATCGTGTTGC
** *
46377 AAAAAAGAAATTCGTGTTGC
1 AAATTAGAAAATCGTGTTGC
* * *
46397 GAAA-AAGAAATTCGTATTGC
1 -AAATTAGAAAATCGTGTTGC
** * *
46417 GAAATTTCCAAATTCGAGTTGC
1 -AAA-TTAGAAAATCGTGTTGC
46439 AAATTAGA
1 AAATTAGA
46447 CTTCTATGTT
Statistics
Matches: 128, Mismatches: 29, Indels: 25
0.70 0.16 0.14
Matches are distributed among these distances:
19 12 0.09
20 92 0.72
21 12 0.09
22 12 0.09
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (20 bp):
AAATTAGAAAATCGTGTTGC
Found at i:46376 original size:60 final size:62
Alignment explanation
Indices: 46312--46446 Score: 157
Period size: 60 Copynumber: 2.2 Consensus size: 62
46302 GGAAACTCGT
* * *
46312 GTTGCGAATTAGAAAATCGAGTTGCGAAAAGGAAACTCGTGTTGCG-AATTT-AAAAATCAA
1 GTTGCAAATTAGAAAATCGAGTTGCGAAAAAGAAACTCGTATTGCGAAATTTCAAAAATCAA
** * * * * * *
46372 GTTGCAAAAAAGAAATTCGTGTTGCGAAAAAGAAATTCGTATTGCGAAATTTCCAAATTCGA
1 GTTGCAAATTAGAAAATCGAGTTGCGAAAAAGAAACTCGTATTGCGAAATTTCAAAAATCAA
46434 GTTGCAAATTAGA
1 GTTGCAAATTAGA
46447 CTTCTATGTT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
60 38 0.63
61 5 0.08
62 17 0.28
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (62 bp):
GTTGCAAATTAGAAAATCGAGTTGCGAAAAAGAAACTCGTATTGCGAAATTTCAAAAATCAA
Found at i:46397 original size:40 final size:40
Alignment explanation
Indices: 46226--46399 Score: 188
Period size: 40 Copynumber: 4.2 Consensus size: 40
46216 TTTAATTCGC
* * *
46226 GTTGCGAATTCGAAAATCGAGTTGCGAAAACGAAATTGAAACTCGC
1 GTTGCGAATTAGAAAATCAAGTTGCGAAAA-G-----GAAACTCGT
* **
46272 GTTGCAAATTAGAAAATCTTGTTGCGAAAAGGAAACTCGT
1 GTTGCGAATTAGAAAATCAAGTTGCGAAAAGGAAACTCGT
*
46312 GTTGCGAATTAGAAAATCGAGTTGCGAAAAGGAAACTCGT
1 GTTGCGAATTAGAAAATCAAGTTGCGAAAAGGAAACTCGT
* * *
46352 GTTGCGAATTTA-AAAATCAAGTTGCAAAAAAGAAATTCGT
1 GTTGCGAA-TTAGAAAATCAAGTTGCGAAAAGGAAACTCGT
46392 GTTGCGAA
1 GTTGCGAA
46400 AAAGAAATTC
Statistics
Matches: 115, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
40 85 0.74
41 3 0.03
45 1 0.01
46 26 0.23
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.25
Consensus pattern (40 bp):
GTTGCGAATTAGAAAATCAAGTTGCGAAAAGGAAACTCGT
Found at i:46497 original size:20 final size:19
Alignment explanation
Indices: 46453--46545 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 19
46443 TAGACTTCTA
*
46453 TGTTGCGAATTCCAAATTTTG
1 TGTTGCGAATTCGAAA--TTG
*
46474 TGTTGCGAATTCGGAAACTG
1 TGTTGCGAATTC-GAAATTG
* *
46494 TGTTGCGAAAAT-GAATTTCG
1 TGTTGCG-AATTCGAAATT-G
46514 TGTTGCGAATTCGAAATTG
1 TGTTGCGAATTCGAAATTG
*
46533 AGTTGCGAATTCG
1 TGTTGCGAATTCG
46546 TTGGTTATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
19 20 0.33
20 22 0.37
21 15 0.25
22 3 0.05
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (19 bp):
TGTTGCGAATTCGAAATTG
Found at i:47861 original size:2 final size:2
Alignment explanation
Indices: 47854--47878 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
47844 TACAAACTCT
47854 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
47879 TATTCACACA
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:48216 original size:30 final size:28
Alignment explanation
Indices: 48179--48252 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 28
48169 ATGAATTTTT
48179 AATATATTTTATTTT-TATTTAATATAAAA
1 AATATATTTTATTTTGTATTTAAT-T-AAA
* *
48208 ATATATATTTTTATCTTTGTCTTTACTTAAA
1 A-ATATA-TTTTAT-TTTGTATTTAATTAAA
48239 AATATATTTTATTT
1 AATATATTTTATTT
48253 GTAGCCTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
28 2 0.05
29 7 0.18
30 10 0.26
31 10 0.26
32 4 0.10
33 6 0.15
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (28 bp):
AATATATTTTATTTTGTATTTAATTAAA
Found at i:50149 original size:19 final size:20
Alignment explanation
Indices: 50109--50149 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
50099 GGCATAGTGC
50109 GGAGTTAGAAAATTTATTTT
1 GGAGTTAGAAAATTTATTTT
* *
50129 GGAGTTATAATATTT-TTTT
1 GGAGTTAGAAAATTTATTTT
50148 GG
1 GG
50150 TGTCAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (20 bp):
GGAGTTAGAAAATTTATTTT
Found at i:50396 original size:14 final size:14
Alignment explanation
Indices: 50368--50436 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 14
50358 TAAAATGATA
* *
50368 AACGAACACACACG
1 AACGAACATAAACG
50382 AACGAACATAAACG
1 AACGAACATAAACG
*
50396 AA-G-ACAAAAAACG
1 AACGAAC-ATAAACG
**
50409 TAAATTAACATAAACG
1 --AACGAACATAAACG
50425 AACGAACATAAA
1 AACGAACATAAA
50437 ATTAATTGAG
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
12 2 0.05
13 7 0.16
14 24 0.56
15 2 0.05
16 6 0.14
17 2 0.05
ACGTcount: A:0.59, C:0.20, G:0.12, T:0.09
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:55050 original size:838 final size:827
Alignment explanation
Indices: 53292--54987 Score: 2912
Period size: 838 Copynumber: 2.0 Consensus size: 827
53282 AGGAATAAAA
53292 GGCAAAATTAAAAAGGTTCATAAC-ACAATATAATGAATAATGGCTAAATTGCATTTAGAGGCCA
1 GGCAAAATTAAAAAGGTTCATAACAAC-A-ATAA-GAATAATGGCTAAA-T--A--TAGAGGCCA
53356 AATTTCAAGAATTAAAATTAACATTAATGCAAGAAGGACTGAAATGAATTCACGTAGAAACCTAG
58 AATTT--AGAATTAAAATTAACATTAATGCAAGAAGGACTGAAATGAATTCACGTAGAAACCTAG
53421 AAGGTCACGGAGATAATTTGACAAAAAATCTCCAAACAAGTGGGTTACTCCCTGGAATGGCTTGA
121 AAGGTCACGGAGATAATTTGACAAAAAATCTCCAAACAAGTGGGTTACTCCCTGGAATGGCTTGA
*
53486 CACACTTAATTTAAAACCAAAAATTTGATTTCATTCATTTCTGTCTCCAAGAAATGAAAGAGAGT
186 CACACTTAATTTAAAACCAAAAATTTGATTTCATTCATTTCTGTCTCCAAGAAATGAAAGAGAGG
53551 TCTCTCTTGCCTCTGATTCAATTCTTATAAGCTGACGCTGGAATCACCGCACTGCACATCGTCGG
251 TCTCTCTTGCCTCTGATTCAATTCTTATAAGCTGACGCTGGAATCACCGCACTGCACATCGTCGG
53616 TCACAGTCTGATGTCATAAGCCGTCATTCGTTCGCGCCGTCCGTCGTTGTGCACCGATCACCGTT
316 TCACAGTCTGATGTCATAAGCCGTCATTCGTTCGCGCCGTCCGTCGTTGTGCACCGATCACCGTT
53681 CGGGAGTTTCATTTTGACGCCGTGTGATCACGGATCTGACATTCTTTTCGGTGGAACGACTTCCA
381 CGGGAGTTTCATTTTGACGCCGTGTGATCACGGATCTGACATTCTTTTCGGTGGAACGACTTCCA
53746 ACTACATGAAAATGGTCGAGAAACGTTTCGACTTTCCCGCTCTGAAGCTCCGCTGTCCATCGTTG
446 ACTACATGAAAATGGTCGAGAAACGTTTCGACTTTCCCGCTCTGAAGCTCCGCTGTCCATCGTTG
53811 GATTGGCTTGGTTTCCAAATATGTGGCTCTCTCACTATAGGAGCCATCTACCGCTCGGATCGTCG
511 GATTGGCTTGGTTTCCAAATATGTGGCTCTCTCACTATAGGAGCCATCTACCGCTCGGATCGTCG
* *
53876 GGTGGATGTCCCAATCGTCGGAAAAATGCGCCAGTCGAAAGGAAGAGCACCCCTTTTCTCTCCTT
576 GGTGGATGTCCCAATCGTCGGAAAAATGCGCCAGCCGAAAGGAAGAGCACACCTTTTCTCTCCTT
53941 TTATTTTCTTCTCGTTCTCACCACCACCGTGTCATGTCACCTCATCGACTTTCTTATTGCAAACA
641 TTATTTTCTTCTCGTTCTCACCACCACCGTGTCATGTCACCTCATCGACTTTCTTATTGCAAACA
54006 ATTTTTATAACTGGGAATCGCTGTTAAATGGAAAAGATTTGATAATCTCTTTTTTCTCTATCCAG
706 ATTTTTATAACTGGGAATCGCTGTTAAATGGAAAAGATTTGATAATCTCTTTTTTCTCTATCCAG
54071 GATATGAAATCCCTTTAAAATGGACTTAAAACTTCCATGCATTTTCTTTCCAATTTT
771 GATATGAAATCCCTTTAAAATGGACTTAAAACTTCCATGCATTTTCTTTCCAATTTT
54128 GGCAAAATTAAAAAGGTTCATAACAAACAATATAATGAATAATGGCTAAATTGCATTTAGAGGCC
1 GGCAAAATTAAAAAGGTTCATAAC-AAC-A-ATAA-GAATAATGGCTAAA-T--A--TAGAGGCC
54193 AAATTTCAAGAATTAAAATTAACATTAATGCAAGAAGGACTGAAATGAATTCACGTAGAAACCTA
57 AAATTT--AGAATTAAAATTAACATTAATGCAAGAAGGACTGAAATGAATTCACGTAGAAACCTA
54258 GAAGGTCACAGGAGATAATTTGAC-AAAAATCTCCAAAACAAGTGGGTTACTCCCTGGAATGGCT
120 GAAGGTCAC-GGAGATAATTTGACAAAAAATCTCC-AAACAAGTGGGTTACTCCCTGGAATGGCT
54322 TGACACACTTAATTTAAAAACCAAAAA-TTGATTTTCATTCATCATTTCTGTCTCCAAGAAATGA
183 TGACACACTTAATTT-AAAACCAAAAATTTGA-TTTCA-T--TCATTTCTGTCTCCAAGAAATG-
54386 AAAGAGAGAGTCTCTCTTGCCTCTGATTCAATTCTTATAAGCTGACGCTGGAATCACCGCACTGC
242 AAAGAGAG-GTCTCTCTTGCCTCTGATTCAATTCTTATAAGCTGACGCTGGAATCACCGCACTGC
54451 ACATCGTCGGTCACAGTCTGATGTCATAAGCCGTCATTCGTTCGTCGCCGTCCGTCGTTGTGCAC
306 ACATCGTCGGTCACAGTCTGATGTCATAAGCCGTCATTCGTTCG-CGCCGTCCGTCGTTGTGCAC
54516 CGATCACCGTTCGGGGAGTTTCATTTTGACGCCGTGTGATCACGGATCTGACATTCTTTTCGAGT
370 CGATCACCGTTC-GGGAGTTTCATTTTGACGCCGTGTGATCACGGATCTGACATTCTTTTCG-GT
54581 GGAACGACTTCCAACTACATGAAAATGGTCGAGAAACGTTTCGACTTTCCCGCTCTGAAGCTCCG
433 GGAACGACTTCCAACTACATGAAAATGGTCGAGAAACGTTTCGACTTTCCCGCTCTGAAGCTCCG
54646 CTGTCCATCGTTGGATTGGCTTGGTTTCCAAATATGTGGCTTCTCTCACTATAATGGAGCCATCT
498 CTGTCCATCGTTGGATTGGCTTGGTTTCCAAATATGTGGC-TCTCTCACTAT-A-GGAGCCATCT
*
54711 ACCGCTCGGATCGTCGGGTGGATGTCCCAATCGTCGGAAAAGTGCGCCAGCCGAAAGGAAGAGCA
560 ACCGCTCGGATCGTCGGGTGGATGTCCCAATCGTCGGAAAAATGCGCCAGCCGAAAGGAAGAGCA
*
54776 CACTTTTTCTCTCCTTTTATTTTCTTTCTCGGTTCTCACCACCACCGTGTCATGTCACCTCATCG
625 CACCTTTTCTCTCCTTTTATTTTC-TTCTC-GTTCTCACCACCACCGTGTCATGTCACCTCATCG
*
54841 ACTTTCTTATTGCAGATTCAATTTTTATAACTGGGAATCGCTGTTAAATGGAAAAGATTTGATAA
688 ACTTTCTTATTGCA-A-ACAATTTTTATAACTGGGAATCGCTGTTAAATGGAAAAGATTTGATAA
54906 TCTCTTTTTTCTCTATCCAAGGGATATGAAATCCCTTTAAAAATGGACTTAAAAACTTTCCATGC
751 TCTCTTTTTTCTCTATCC-A-GGATATGAAATCCCTTT-AAAATGGACTT-AAAAC-TTCCATGC
54971 ATTTTCTTTCCAATTTT
811 ATTTTCTTTCCAATTTT
54988 TGTGGGAGCT
Statistics
Matches: 828, Mismatches: 6, Indels: 28
0.96 0.01 0.03
Matches are distributed among these distances:
836 24 0.03
838 123 0.15
839 62 0.07
840 16 0.02
841 1 0.00
843 22 0.03
844 8 0.01
845 99 0.12
846 32 0.04
847 49 0.06
848 107 0.13
849 11 0.01
850 1 0.00
851 95 0.11
852 5 0.01
853 48 0.06
854 1 0.00
855 65 0.08
856 1 0.00
857 17 0.02
858 11 0.01
859 5 0.01
860 25 0.03
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (827 bp):
GGCAAAATTAAAAAGGTTCATAACAACAATAAGAATAATGGCTAAATATAGAGGCCAAATTTAGA
ATTAAAATTAACATTAATGCAAGAAGGACTGAAATGAATTCACGTAGAAACCTAGAAGGTCACGG
AGATAATTTGACAAAAAATCTCCAAACAAGTGGGTTACTCCCTGGAATGGCTTGACACACTTAAT
TTAAAACCAAAAATTTGATTTCATTCATTTCTGTCTCCAAGAAATGAAAGAGAGGTCTCTCTTGC
CTCTGATTCAATTCTTATAAGCTGACGCTGGAATCACCGCACTGCACATCGTCGGTCACAGTCTG
ATGTCATAAGCCGTCATTCGTTCGCGCCGTCCGTCGTTGTGCACCGATCACCGTTCGGGAGTTTC
ATTTTGACGCCGTGTGATCACGGATCTGACATTCTTTTCGGTGGAACGACTTCCAACTACATGAA
AATGGTCGAGAAACGTTTCGACTTTCCCGCTCTGAAGCTCCGCTGTCCATCGTTGGATTGGCTTG
GTTTCCAAATATGTGGCTCTCTCACTATAGGAGCCATCTACCGCTCGGATCGTCGGGTGGATGTC
CCAATCGTCGGAAAAATGCGCCAGCCGAAAGGAAGAGCACACCTTTTCTCTCCTTTTATTTTCTT
CTCGTTCTCACCACCACCGTGTCATGTCACCTCATCGACTTTCTTATTGCAAACAATTTTTATAA
CTGGGAATCGCTGTTAAATGGAAAAGATTTGATAATCTCTTTTTTCTCTATCCAGGATATGAAAT
CCCTTTAAAATGGACTTAAAACTTCCATGCATTTTCTTTCCAATTTT
Found at i:55586 original size:199 final size:195
Alignment explanation
Indices: 55158--55654 Score: 585
Period size: 199 Copynumber: 2.5 Consensus size: 195
55148 TCTAAGTAAA
* * *
55158 CGATATATTTATA-CTGATA-ACTTGCAAATTTACCT-TACATTATAATTATCGGTTTCGATGTT
1 CGATATATTTATACCAGGTACA-TTGTAAATTTACCTATACATTATAATTATCGGTTTCGATG-T
* * * *
55220 TTTTGGATCGATACAATTT--TAAATGTATCGACACTTTATGTATGCACCTCACTGGGCATTCAT
64 TTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGTATGCACCCCACTGGACATTCAT
* * * *
55283 TCTGGATAAAGGTATCGACATAAACTTAAAAAGTGTCGATACATTATTTAGACCTTTTCTCATAA
128 TATGGAAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATTTAGACCTTTTCTCATAA
55348 AAC
193 AAC
* * *** *
55351 CGGTATATTTCTATTGGGTACATTGTAAATTTACCTATCACATTGTAATTATCGGTTTCGATGTT
1 CGATATATTTATACCAGGTACATTGTAAATTTACCTAT-ACATTATAATTATCGGTTTCGATGTT
* * *
55416 TGTGGGATCGATACTTTTAATAAATGTATCGACACTTTAT-TCGTGCACCCCATTTGACATTCAT
65 T-TGGGATCGATACTTTTAATAAATGTATCGACACTTTATGT-ATGCACCCCACTGGACATTCAT
* * * *
55480 TATGGACAAAAAGTATCGACACAAATTTAAATAGTGTCGATACTTTATGTT-GACCTATTTCTTA
128 TATGGA-AAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTAT-TTAGACCT-TTTCTCA
55544 TAAAAC
190 TAAAAC
* * * *
55550 TGATATATTTATACCAGTTGCATTGTAAATTTACCTATTACATTATAATTATCGGTTTTGATGTT
1 CGATATATTTATACCAGGTACATTGTAAATTTACCTA-TACATTATAATTATCGGTTTCGATGTT
*
55615 ATTGGGGTCGATACTTTTAATAAATGTATCGACACTTTAT
65 -TTGGGATCGATACTTTTAATAAATGTATCGACACTTTAT
55655 ATTCTGGACA
Statistics
Matches: 258, Mismatches: 33, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
193 11 0.04
194 16 0.06
195 8 0.03
196 35 0.14
197 42 0.16
198 40 0.16
199 104 0.40
200 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (195 bp):
CGATATATTTATACCAGGTACATTGTAAATTTACCTATACATTATAATTATCGGTTTCGATGTTT
TGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTATGCACCCCACTGGACATTCATTAT
GGAAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATTTAGACCTTTTCTCATAAAAC
Found at i:55699 original size:177 final size:177
Alignment explanation
Indices: 55482--55826 Score: 460
Period size: 177 Copynumber: 1.9 Consensus size: 177
55472 ACATTCATTA
* * * * *
55482 TGGACAAAAAGTATCGACACAAATTTAAATAGTGTCGATACTTTATGTTGACCT-ATTTCTTATA
1 TGGACAAAAAGTATCAACACAAATTCAAAAAGTGTCGATACATTATGTTGACCTGATTTCTAAT-
* * * **
55546 AAACTGATATATTTATACCAGTTGCATTGTAAATTTACCTATTACATTATAATTATCGGTTTTGA
65 AAACCGATATATTTATACCAGTTACATTGTAAATTCACCTATTACATTATAATTATCGGTTTCAA
* * *
55611 TGTTATTGGGGTCGATACTTTTA-ATAAATGTATCGACACTTTATATTC
130 TGTTATTAGGGTAGATACTTTTAGA-AAATATATCGACACTTTATATTC
* * *
55659 TGGACAATAAGTATCAACACAAATTCAAAAAGTGTCGATACATTATGTTGACCTGTTTTCTAATT
1 TGGACAAAAAGTATCAACACAAATTCAAAAAGTGTCGATACATTATGTTGACCTGATTTCTAATA
* * * * *
55724 AACCGGTATATTTATATCGGTTACATTGTTAATTCACCTATTACATTATAATTATTGGTTTCAAT
66 AACCGATATATTTATACCAGTTACATTGTAAATTCACCTATTACATTATAATTATCGGTTTCAAT
*
55789 GTTTTTAGGGTAGATACTTTTAGAAAATATATCGACAC
131 GTTATTAGGGTAGATACTTTTAGAAAATATATCGACAC
55827 GTATTTAGCT
Statistics
Matches: 144, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
177 136 0.94
178 8 0.06
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (177 bp):
TGGACAAAAAGTATCAACACAAATTCAAAAAGTGTCGATACATTATGTTGACCTGATTTCTAATA
AACCGATATATTTATACCAGTTACATTGTAAATTCACCTATTACATTATAATTATCGGTTTCAAT
GTTATTAGGGTAGATACTTTTAGAAAATATATCGACACTTTATATTC
Found at i:59685 original size:199 final size:195
Alignment explanation
Indices: 59263--60021 Score: 988
Period size: 199 Copynumber: 3.8 Consensus size: 195
59253 TTTAAAAGCA
* * * *
59263 TATCGACACAAATTTAAAAGTATCGATATAATATGTTAACCTATTTTCTCTTAAAACCGGTATAT
1 TATCGACACAAATTTAAAAGTGTCGATACATTATGTT-ACCTATTTTCTCATAAAACCGGTATAT
* *
59328 TTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTTTTGGATC
65 TTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTTTTGGATC
* * *
59393 GATACTTTTTATAAATGTATCGACACTTTATGCGTGTACCCGTTTTG-CATTAATTATAGACAAA
130 GATACTTTTTATAAATGTATCGACACTTTATGCGTGAACCCG-TTTGAAATTCATTAT-GACAAA
59457 ATG
193 ATG
* * *
59460 TATCGACACAAATATAAAAAAGTGTCGATACATTATGTTCACTTATTTTCTCATAAAATCGGTAT
1 TATCGACACAAAT-T-TAAAAGTGTCGATACATTATGTT-ACCTATTTTCTCATAAAACCGGTAT
* * *
59525 ACTTATATTGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGAG
63 ATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTTTTG-G
* * *
59590 ATCGATACTTTTTAAAAATATATCGACACTTTATGCGTGCACCCGTTTGAAATTCATTATGGACA
127 ATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGAACCCGTTTGAAATTCATTAT-GACA
59655 AAATG
191 AAATG
59660 TATCGACACAAATTTAAACAGTGTCGATACATTATGTATACCTATTTTCTCATAAAACCGGTATA
1 TATCGACACAAATTTAAA-AGTGTCGATACATTATGT-TACCTATTTTCTCATAAAACCGGTATA
* * *
59725 TTTATATTGGTTACATTGTATATTTACCTATTACATTATAATTTTCGGTTTCGATGTTTTTTAGA
64 TTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATG-TTTTTGGA
* * * * ** *
59790 TCGATA-TAATTT-TAAATGTATCGACACTTTTATGCGTGAAGCTCATTGAGCAAAGGC-TCA-G
128 TCGATACT-TTTTATAAATGTATCGACAC-TTTATGCGTGAA-CCCGTT-TG-AAATTCATTATG
*
59851 ACAAAAAG
188 ACAAAATG
* * * **
59859 TATCGACACAAATTTAAAAGGTGTCGATACTTTATGCTGACCTATTTGCTCATAAAATAGGTATA
1 TATCGACACAAATTTAAAA-GTGTCGATACATTATG-TTACCTATTTTCTCATAAAACCGGTATA
*
59924 TTTATATCGGTCACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTTTTTGGA
64 TTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATG-TTTTTGGA
*
59989 TCGATACTTTTTATAAATGTATCCACACTTTAT
128 TCGATACTTTTTATAAATGTATCGACACTTTAT
60022 AGGAAACTTT
Statistics
Matches: 498, Mismatches: 48, Indels: 30
0.86 0.08 0.05
Matches are distributed among these distances:
197 13 0.03
198 19 0.04
199 360 0.72
200 99 0.20
201 3 0.01
202 4 0.01
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (195 bp):
TATCGACACAAATTTAAAAGTGTCGATACATTATGTTACCTATTTTCTCATAAAACCGGTATATT
TATATCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTTTTGGATCG
ATACTTTTTATAAATGTATCGACACTTTATGCGTGAACCCGTTTGAAATTCATTATGACAAAATG
Found at i:60280 original size:18 final size:18
Alignment explanation
Indices: 60257--60293 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
60247 CGAAATTTAT
60257 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
60275 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
60293 A
1 A
60294 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:61621 original size:12 final size:12
Alignment explanation
Indices: 61604--61635 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
61594 ACTTGTTTGG
61604 ATCATCATAATC
1 ATCATCATAATC
61616 ATCATCATAATC
1 ATCATCATAATC
*
61628 ATCTTCAT
1 ATCATCAT
61636 CGTCATCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (12 bp):
ATCATCATAATC
Found at i:64026 original size:393 final size:388
Alignment explanation
Indices: 63113--64259 Score: 1297
Period size: 393 Copynumber: 2.9 Consensus size: 388
63103 TGTGATTTTT
* * * * *
63113 AAAATGGTGTCGACACAAATTTAACAATTGTCGATACTTTATGCT-GACCTATTTTCTCATAAAA
1 AAAAT-GTATCGACACAAA-TTAAAAAGTGTCGATACATTATG-TAGACCTATTCTCTCATAAAA
* * *
63177 CTGGAATATTTATACCAGTTACATTAGAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
63 C-GGTATATTTATACCGGTTACATT-GAAATTTACCTATTACATTATAATTATGGGTTTCGATG-
* * * *
63242 TTTTGGGACTGAA-TCTTTTTAAAAATGTATCGACACTTAATGGGTGCACCCTTTT-GGCATTCC
125 TTTTGGGACCGAACT-TTTTTAAAAATGTATCGACACTTTAT-GGT-CACCATTTTGGGCATTCA
* ** * * * *
63305 TTCTGGACAAAAAGTATTGACATAAATTCCAGAAGTGTCGATATATTTTCTAGACCTATTCTCGC
187 TTCTGGACAAAAAGTATCGACACCAATTTCA-AAGTGTC-ATCTA---TGTAGACCTATTCTCAC
* *
63370 ATAAAACCAGTATATTTATA-TGGTTACATTGA-AAAATTACCTATTACATTATAATCATGGGTT
247 ATAAAACGA-TATATTTATACTGGTTACATT-ACAAAATTACCTATTACATTATAATTATGGGTT
* * *
63433 TCGATGTTTCTGGATCGATACTTTTTATAAATGTATCGACACTTTATGCTTGCACCATTTTTTTG
310 TCGATGTTTCTGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTACACC--TCTTTTG
*
63498 GTAATTCATTATGGAA
373 GGAATTCATTATGGAA
* * *
63514 AAAATGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGGCCTATGCTCACATAAAACC
1 AAAATGTATCGACAC-AAATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAA-C
* * *
63579 AGTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTCT
64 GGTATATTTATACCGGTTACATT-GAAATTTACCTATTACATTATAATTATGGGTTTCGATGT-T
63644 TTGGGACCGACACTTTTTTAAAAATGTATCGACACTTTATGCGTTCACCATTTTGGGCATTCATT
127 TTGGGACCGA-ACTTTTTTAAAAATGTATCGACACTTTATG-G-TCACCATTTTGGGCATTCATT
* * *
63709 CTGGACGAAAAGTATCGACACCAATTTCAAA-TGT-ATCGATGTAGACCTATTCTCATATAAAAC
189 CTGGACAAAAAGTATCGACACCAATTTCAAAGTGTCATCTATGTAGACCTATTCTCACATAAAAC
*
63772 TGATATATTTATACTGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTC
254 -GATATATTTATACTGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
* * * * * *
63837 TCTGGATCGACACTTTTAAAAAATGTATCGACACTTTATGGGTACACC-CTTTTGGGCATTCCTT
318 TCTGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTACACCTCTTTTGGGAATTCATT
*
63901 CTGGACA
383 ATGGA-A
* * *
63908 AACA-GTATCGACACAAATTCCAGAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAATC
1 AAAATGTATCGACACAAATT-AAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAA-C
* * * *
63972 GGTATAGTTGTATCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATATTT
64 GGTATATTTATACCGGTTACATTG-AAATTTACCTATTACATTATAATTATGGGTTTCGATGTTT
* * *
64037 CTGGGATCGATAC-TTTTTATAAATGTATCGACACTTTAT-G-----A---GGGGCATTCATTCT
128 -TGGGACCGA-ACTTTTTTAAAAATGTATCGACACTTTATGGTCACCATTTTGGGCATTCATTCT
64092 GGACAAAAAGTATCGACACCAATTTCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAA
191 GGACAAAAAGTATCGACACCAATTTC-AAAGTGTC-AT-C--TATGTAGACCTATTCTCACATAA
* * * *
64157 AACAGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATAGGTTTCGAT
251 AAC-GATATATTTATACTGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGAT
*
64222 GTTTTTGGGATCGATACTTTTTATAAATGTATCGACAC
315 GTTTCT-GGATCGATACTTTTTATAAATGTATCGACAC
64260 ATCTGCTTAC
Statistics
Matches: 649, Mismatches: 73, Indels: 60
0.83 0.09 0.08
Matches are distributed among these distances:
381 38 0.06
382 3 0.00
383 3 0.00
384 1 0.00
385 2 0.00
386 1 0.00
388 85 0.13
389 28 0.04
390 1 0.00
392 32 0.05
393 129 0.20
394 4 0.01
395 32 0.05
396 90 0.14
398 3 0.00
399 2 0.00
400 114 0.18
401 46 0.07
402 35 0.05
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (388 bp):
AAAATGTATCGACACAAATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACGG
TATATTTATACCGGTTACATTGAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTGG
GACCGAACTTTTTTAAAAATGTATCGACACTTTATGGTCACCATTTTGGGCATTCATTCTGGACA
AAAAGTATCGACACCAATTTCAAAGTGTCATCTATGTAGACCTATTCTCACATAAAACGATATAT
TTATACTGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGATC
GATACTTTTTATAAATGTATCGACACTTTATGCGTACACCTCTTTTGGGAATTCATTATGGAA
Found at i:64210 original size:189 final size:189
Alignment explanation
Indices: 63890--64259 Score: 580
Period size: 189 Copynumber: 2.0 Consensus size: 189
63880 ACACCCTTTT
* * *
63890 GGGCATTCCTTCTGGACAAACAGTATCGACACAAATTCCAGAAGTGTCGATACATTATGTAGACC
1 GGGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACC
* * * ** *
63955 TATTCTCTCATAAAATCGGTATAGTTGTATCGGTTACATTGTAAATTTACCTATTACATTATAAT
66 TATTCTCACATAAAATCGGTATAGTTATACCGGTTACATTACAAAATTACCTATTACATTATAAT
*
64020 TATGGGTTTCGATATTTCTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGAG
131 TATAGGTTTCGATATTTCTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGAG
* *
64079 GGGCATTCATTCTGGACAAAAAGTATCGACACCAATTTCAAAAGTGTCGATACATTATGTAGACC
1 GGGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACC
* *
64144 TATTCTCACATAAAA-CAGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAA
66 TATTCTCACATAAAATC-GGTATAGTTATACCGGTTACATTACAAAATTACCTATTACATTATAA
* *
64208 TTATAGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACAC
130 TTATAGGTTTCGATATTTCTGGGATCGATACTTTTTATAAATGTATCGACAC
64260 ATCTGCTTAC
Statistics
Matches: 164, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
188 1 0.01
189 163 0.99
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (189 bp):
GGGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACC
TATTCTCACATAAAATCGGTATAGTTATACCGGTTACATTACAAAATTACCTATTACATTATAAT
TATAGGTTTCGATATTTCTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGAG
Found at i:64579 original size:19 final size:19
Alignment explanation
Indices: 64555--64603 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
64545 TTACATTCAA
64555 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
64574 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
64593 ATACAAAATTA
1 ATACAAAATTA
64604 ACTCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:66177 original size:18 final size:18
Alignment explanation
Indices: 66154--66192 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
66144 TCCTCCTCAT
66154 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
66172 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
66190 TTC
1 TTC
66193 ATATTTTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:66411 original size:33 final size:33
Alignment explanation
Indices: 66374--66440 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
66364 CCATCTTAAG
*
66374 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACATCAACTTCTTTCACCAC
66407 TTCACCCCTCAACACATCAACTTCTTTCACCAC
1 TTCACCCCTCAACACATCAACTTCTTTCACCAC
66440 T
1 T
66441 CCATCTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.46, G:0.00, T:0.28
Consensus pattern (33 bp):
TTCACCCCTCAACACATCAACTTCTTTCACCAC
Found at i:69204 original size:182 final size:182
Alignment explanation
Indices: 68897--69569 Score: 983
Period size: 182 Copynumber: 3.7 Consensus size: 182
68887 TACGCGCACT
* * * *
68897 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGATTTTGTCATTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATACCGATTTTGTCCTTTAGAGACCG
* * * *
68962 GTTTTGTCATATTTTTACTTGTTATATCGTTATGGATCGATATATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCATTGTGGATCGATACATTTTTATAAAGTATCGACACT
69027 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTTGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTTGATACTTA
* * *
69079 TATTAAAGTATCGACACTTTTAATATATTCGGTCGCTCTATACCGATTTTGTCCTTTAGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATACCGATTTTGTCCTTTAGAGACCG
* * *
69144 GTTTTGTCATATTTTTACCTGTTATATCATTGTGGATCAATTCATTGTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCATTGTGGATCGATACATTTTTATAAAGTATCGACACT
*
69209 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTTGATACTTA
* ** * *
69261 TATTAAAGTATCAACACTTTCAATATATCCAATCGCTCTATACCGGTTTTGTCCTTTAGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATACCGATTTTGTCCTTTAGAGACCG
* * **
69326 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTATTATAAAGTATTAACACT
66 GTTTTGTCATATTTTTACCTGTTATATCATTGTGGATCGATACATTTTTATAAAGTATCGACACT
* * * *
69391 TTATAGGCGCCAAAACTACTTTTCTTTTAAATTCACAAAGTGATGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTTGATACTTA
* * * * * *
69443 TATTAAAGTATTGACACTTTCAATATATTCGGTAGCACTTTACC-AGTTTT-TCTTTTCGAGACC
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATACCGA-TTTTGTCCTTTAGAGACC
* *
69506 GGTTTTGTCATATTTTTACCTGTTATATTGA-TGTGGATCGATACATTTTTATAAAATATCGACA
65 GGTTTTGTCATATTTTTACCTGTTATA-TCATTGTGGATCGATACATTTTTATAAAGTATCGACA
69570 TAAACCGAAA
Statistics
Matches: 440, Mismatches: 49, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
181 67 0.15
182 373 0.85
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATACCGATTTTGTCCTTTAGAGACCG
GTTTTGTCATATTTTTACCTGTTATATCATTGTGGATCGATACATTTTTATAAAGTATCGACACT
TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTTGATACTTA
Found at i:69819 original size:16 final size:16
Alignment explanation
Indices: 69797--69852 Score: 78
Period size: 16 Copynumber: 3.5 Consensus size: 16
69787 ATGGACCTAC
69797 ATTAAT-AATATTAAT
1 ATTAATAAATATTAAT
*
69812 AGTTAATAAATAATAAT
1 A-TTAATAAATATTAAT
*
69829 ACTAATAAATATTAAT
1 ATTAATAAATATTAAT
69845 ATTAATAA
1 ATTAATAA
69853 TTAACCATTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
15 1 0.03
16 25 0.71
17 9 0.26
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (16 bp):
ATTAATAAATATTAAT
Found at i:70804 original size:36 final size:36
Alignment explanation
Indices: 70701--70995 Score: 175
Period size: 36 Copynumber: 8.2 Consensus size: 36
70691 AAAAGTATTG
* *
70701 AGTGAGACGAAA--TTTTTCAAGAGAAAATATCTCA
1 AGTGAGACTAAATTTTTTTCAAGAGAAATTATCTCA
* *
70735 AGGGAGA-TAAAATTTTGTTTCGAGAGAAATTATCTCA
1 AGTGAGACT-AAATTTT-TTTCAAGAGAAATTATCTCA
70772 AGTGAGACTAAATTTATTTT-AAGAGAAATTATCTCA
1 AGTGAGACTAAATTT-TTTTCAAGAGAAATTATCTCA
* ** * * *
70808 AGCGAG-CTAGTTTTTTTTTCGAGAGAAATTGTCTCG
1 AGTGAGACTA-AATTTTTTTCAAGAGAAATTATCTCA
* *
70844 AGTGGGAC-AAA-ATTTTTCAAGAGAACACTT-TCTCA
1 AGTGAGACTAAATTTTTTTCAAGAGAA-A-TTATCTCA
* ** * *
70879 AGCGAGA-TAAAGTTTTTGTTTTGAGAGAAACTATCTCG
1 AGTGAGACTAAA--TTTT-TTTCAAGAGAAATTATCTCA
* *
70917 AGTGAGACGAAA--ATTTTCAAGAGAAAACTT-TCTCA
1 AGTGAGACTAAATTTTTTTCAAGAG-AAA-TTATCTCA
* * *
70952 AGTGAGA-TAAAATTTTTGTTTCGAGAGAAAATATCTCG
1 AGTGAGACT-AAA-TTTT-TTTCAAGAGAAATTATCTCA
70990 AGTGAG
1 AGTGAG
70996 GTGAAACTTG
Statistics
Matches: 197, Mismatches: 38, Indels: 48
0.70 0.13 0.17
Matches are distributed among these distances:
34 28 0.14
35 38 0.19
36 46 0.23
37 36 0.18
38 29 0.15
39 20 0.10
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (36 bp):
AGTGAGACTAAATTTTTTTCAAGAGAAATTATCTCA
Found at i:70916 original size:73 final size:73
Alignment explanation
Indices: 70700--70995 Score: 354
Period size: 73 Copynumber: 4.1 Consensus size: 73
70690 AAAAAGTATT
* * * *
70700 GAGTGAGACG-AAATTTTTCAAGAGAAAATATCTCAAGGGAGATAAA-ATTTTGTTTCGAGAGAA
1 GAGTGAGACGAAAATTTTTCAAGAGAAACTTTCTCAAGCGAGATAAAGTTTTTGTTTCGAGAGAA
70763 ATTATCTC
66 ATTATCTC
* * * * * *
70771 AAGTGAGACTAAATTTATTTTAAGAGAAA-TTATCTCAAGCGAGCT--AGTTTTTTTTTCGAGAG
1 GAGTGAGACGAAAATT-TTTCAAGAGAAACTT-TCTCAAGCGAGATAAAGTTTTTGTTTCGAGAG
*
70833 AAATTGTCTC
64 AAATTATCTC
* *
70843 GAGTGGGAC-AAAATTTTTCAAGAGAACACTTTCTCAAGCGAGATAAAGTTTTTGTTTTGAGAGA
1 GAGTGAGACGAAAATTTTTCAAGAGAA-ACTTTCTCAAGCGAGATAAAGTTTTTGTTTCGAGAGA
*
70907 AACTATCTC
65 AATTATCTC
* *
70916 GAGTGAGACGAAAA-TTTTCAAGAGAAAACTTTCTCAAGTGAGATAAAATTTTTGTTTCGAGAGA
1 GAGTGAGACGAAAATTTTTCAAGAG-AAACTTTCTCAAGCGAGATAAAGTTTTTGTTTCGAGAGA
*
70980 AAATATCTC
65 AATTATCTC
70989 GAGTGAG
1 GAGTGAG
70996 GTGAAACTTG
Statistics
Matches: 191, Mismatches: 24, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
70 10 0.05
71 27 0.14
72 36 0.19
73 112 0.59
74 6 0.03
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (73 bp):
GAGTGAGACGAAAATTTTTCAAGAGAAACTTTCTCAAGCGAGATAAAGTTTTTGTTTCGAGAGAA
ATTATCTC
Found at i:70964 original size:34 final size:34
Alignment explanation
Indices: 70852--70967 Score: 97
Period size: 35 Copynumber: 3.2 Consensus size: 34
70842 CGAGTGGGAC
* *
70852 AAAATTTTTCAAGAGAACACTTTCTCAAGCGAGAT
1 AAAA-TTTTCAAGAGAAAACTTTCTCAAGTGAGAT
* *** * * *
70887 AAAGTTTTTGTTTTGAGAGAAACTATCTCGAGTGAGACG
1 AAA--ATTT-TCAAGAGA-AAACTTTCTCAAGTGAGA-T
70926 AAAATTTTCAAGAGAAAACTTTCTCAAGTGAGAT
1 AAAATTTTCAAGAGAAAACTTTCTCAAGTGAGAT
70960 AAAATTTT
1 AAAATTTT
70968 TGTTTCGAGA
Statistics
Matches: 60, Mismatches: 16, Indels: 11
0.69 0.18 0.13
Matches are distributed among these distances:
34 8 0.13
35 19 0.32
36 8 0.13
37 8 0.13
38 14 0.23
39 3 0.05
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (34 bp):
AAAATTTTCAAGAGAAAACTTTCTCAAGTGAGAT
Found at i:71035 original size:73 final size:73
Alignment explanation
Indices: 70710--71040 Score: 295
Period size: 73 Copynumber: 4.6 Consensus size: 73
70700 GAGTGAGACG
* * * *
70710 AAATTTTTCAAGAGAAAA-TATCTCAAGGGAGATAAAA-TTTTGTTTCGAGAGAAATTATCTCAA
1 AAATTTTT-AAGAGAAAACTTTCTCAAGCGAGATAAAATTTTTGTTTCGAGAGAAAATATCTCGA
*
70773 GTGA-GACTA
65 GTGAGGA-GA
* * * * * *
70782 AATTTATTTTAAGAG-AAA-TTATCTCAAGCGAGCT--AGTTTTTTTTTCGAGAGAAATTGTCTC
1 AA-AT-TTTTAAGAGAAAACTT-TCTCAAGCGAGATAAAATTTTTGTTTCGAGAGAAAATATCTC
*
70843 GAGTG-GGACA
63 GAGTGAGGAGA
* * * *
70853 AAATTTTTCAAGAGAACACTTTCTCAAGCGAGATAAAGTTTTTGTTTTGAGAGAAACTATCTCGA
1 AAATTTTT-AAGAGAAAACTTTCTCAAGCGAGATAAAATTTTTGTTTCGAGAGAAAATATCTCGA
70918 GTGA-GACGA
65 GTGAGGA-GA
* *
70927 AAATTTTCAAGAGAAAACTTTCTCAAGTGAGATAAAATTTTTGTTTCGAGAGAAAATATCTCGAG
1 AAATTTTTAAGAGAAAACTTTCTCAAGCGAGATAAAATTTTTGTTTCGAGAGAAAATATCTCGAG
*
70992 TGAGGTGA
66 TGAGGAGA
* * * * * *
71000 AACTTGTTTAAG-GAAGACTATCTTAAGCAAAATAAAATTTT
1 AAATT-TTTAAGAGAAAACTTTCTCAAGCGAGATAAAATTTT
71041 ATTTTTGAAA
Statistics
Matches: 213, Mismatches: 32, Indels: 27
0.78 0.12 0.10
Matches are distributed among these distances:
69 4 0.02
70 6 0.03
71 18 0.08
72 36 0.17
73 131 0.62
74 18 0.08
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (73 bp):
AAATTTTTAAGAGAAAACTTTCTCAAGCGAGATAAAATTTTTGTTTCGAGAGAAAATATCTCGAG
TGAGGAGA
Found at i:71035 original size:146 final size:143
Alignment explanation
Indices: 70700--71048 Score: 334
Period size: 146 Copynumber: 2.4 Consensus size: 143
70690 AAAAAGTATT
* * * ** * *
70700 GAGTGAGACGAAATTTTTCAAGAGAA-AATATCTCAAGGGAGATAAAA-TTTTGTTTCGAGAGAA
1 GAGTGGGACAAAATTTTTCAAGAGAACACTATCTCAAGCAAAATAAAATTTTTGTTTTGAGAGAA
* * * * *
70763 ATTATCTCAAGTGAGACTAAATTTATTTTAAGAGAAATTATCTCAAGCGAGCTAGTTTTTTTTTC
66 ACTATCTCAAGTGAGACGAAA--TATTTTAAGAGAAATTATCTCAAGCGAGATAATTTTTGTTTC
* *
70828 GAGAGAAATTGTCTC
129 GAGAGAAAATATCTC
* * * *
70843 GAGTGGGACAAAATTTTTCAAGAGAACACTTTCTCAAGCGAGATAAAGTTTTTGTTTTGAGAGAA
1 GAGTGGGACAAAATTTTTCAAGAGAACACTATCTCAAGCAAAATAAAATTTTTGTTTTGAGAGAA
* *
70908 ACTATCTCGAGTGAGACGAAA-ATTTTCAAGAGAAAACTT-TCTCAAGTGAGATAAAATTTTTGT
66 ACTATCTCAAGTGAGACGAAATATTTT-AAGAG-AAA-TTATCTCAAGCGAGAT--AATTTTTGT
70971 TTCGAGAGAAAATATCTC
126 TTCGAGAGAAAATATCTC
** * * *
70989 GAGTGAGGTGAAACTTGTTT-AAG-GAAGACTATCTTAAGCAAAATAAAATTTTAT-TTTTGA
1 GAGTG-GGACAAAATT-TTTCAAGAGAACACTATCTCAAGCAAAATAAAATTTT-TGTTTTGA
71049 AAAGAACTTC
Statistics
Matches: 171, Mismatches: 25, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
142 5 0.03
143 29 0.17
144 31 0.18
145 35 0.20
146 57 0.33
147 11 0.06
148 3 0.02
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (143 bp):
GAGTGGGACAAAATTTTTCAAGAGAACACTATCTCAAGCAAAATAAAATTTTTGTTTTGAGAGAA
ACTATCTCAAGTGAGACGAAATATTTTAAGAGAAATTATCTCAAGCGAGATAATTTTTGTTTCGA
GAGAAAATATCTC
Found at i:76138 original size:14 final size:14
Alignment explanation
Indices: 76121--76163 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
76111 GGTAAAACAT
76121 ATTAAATAAATATA
1 ATTAAATAAATATA
* *
76135 ATTATATAACTATA
1 ATTAAATAAATATA
76149 ATTAAA-AAATA-A
1 ATTAAATAAATATA
76161 ATT
1 ATT
76164 TGGGGCTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 4 0.16
13 4 0.16
14 17 0.68
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (14 bp):
ATTAAATAAATATA
Found at i:77101 original size:31 final size:31
Alignment explanation
Indices: 77030--77103 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 31
77020 ACGGCGAGTA
* * *
77030 ATCAGTTTATTATAAATCGATAACATTAGTT
1 ATCAATTTGTTATAAATCGATAACATTAGTG
** * *
77061 ATCGGTTTGTTATAAATTGATAACGTTAGTG
1 ATCAATTTGTTATAAATCGATAACATTAGTG
*
77092 ATTAATTTGTTA
1 ATCAATTTGTTA
77104 GTTTTAAAAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.45
Consensus pattern (31 bp):
ATCAATTTGTTATAAATCGATAACATTAGTG
Found at i:79250 original size:29 final size:27
Alignment explanation
Indices: 79208--79272 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
79198 ACTCGTAATA
* *
79208 TTTTAATATTTAATTTATTCATAAATATT
1 TTTTAATATATAATTAATT-A-AAATATT
*
79237 TTTTATTATATAATTAATTAAAATATT
1 TTTTAATATATAATTAATTAAAATATT
*
79264 TTTTTATAT
1 TTTTAATAT
79273 CAAATAGATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 14 0.45
28 1 0.03
29 16 0.52
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTTAATATATAATTAATTAAAATATT
Found at i:80495 original size:13 final size:14
Alignment explanation
Indices: 80479--80516 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
80469 TGTTTATTTA
80479 TATATT-TATTTTT
1 TATATTATATTTTT
*
80492 TATATTCTATTTTT
1 TATATTATATTTTT
*
80506 TGTATTATATT
1 TATATTATATT
80517 CTATTTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (14 bp):
TATATTATATTTTT
Found at i:82852 original size:25 final size:25
Alignment explanation
Indices: 82824--82871 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
82814 TTTGTATTAG
* *
82824 AGGGGATAAATTTTTAAAAATTTGA
1 AGGGAATAAATTTATAAAAATTTGA
82849 AGGGAATAAATTTATAAAAATTT
1 AGGGAATAAATTTATAAAAATTT
82872 AAGAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (25 bp):
AGGGAATAAATTTATAAAAATTTGA
Found at i:83644 original size:47 final size:47
Alignment explanation
Indices: 83575--83671 Score: 178
Period size: 47 Copynumber: 2.1 Consensus size: 47
83565 ATTGAACAGC
83575 CGAATTGATGAAATTGGTTGTTTGTTCGTGTTTTTTATTGTCCGGAA
1 CGAATTGATGAAATTGGTTGTTTGTTCGTGTTTTTTATTGTCCGGAA
83622 CGAA-TGATGACAATTGGTTGTTTGTTCGTGTTTTTTATTGTCCGGAA
1 CGAATTGATGA-AATTGGTTGTTTGTTCGTGTTTTTTATTGTCCGGAA
83669 CGA
1 CGA
83672 TGAATCGATG
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 6 0.12
47 43 0.88
ACGTcount: A:0.20, C:0.10, G:0.26, T:0.44
Consensus pattern (47 bp):
CGAATTGATGAAATTGGTTGTTTGTTCGTGTTTTTTATTGTCCGGAA
Found at i:83909 original size:28 final size:28
Alignment explanation
Indices: 83869--83926 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
83859 CATGACATAT
* *
83869 CTAAGACCTAATTCAGATTTACACAGGA
1 CTAAGACCGAATTCAGATTCACACAGGA
**
83897 CTAAGACCGAATTGGGATTCACACAGGA
1 CTAAGACCGAATTCAGATTCACACAGGA
83925 CT
1 CT
83927 TTACAAATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.22
Consensus pattern (28 bp):
CTAAGACCGAATTCAGATTCACACAGGA
Found at i:84441 original size:17 final size:17
Alignment explanation
Indices: 84416--84450 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
84406 TAATACTCGA
*
84416 TAAATTAATAATATTTC
1 TAAAATAATAATATTTC
*
84433 TAAAATAATAATTTTTC
1 TAAAATAATAATATTTC
84450 T
1 T
84451 CAATCTCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAAATAATAATATTTC
Found at i:100008 original size:17 final size:18
Alignment explanation
Indices: 99986--100032 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
99976 GTATAATTAT
99986 ATTTTAATTAAAAT-ATA
1 ATTTTAATTAAAATCATA
*
100003 ATTTTAAAT-AAATCATA
1 ATTTTAATTAAAATCATA
100020 ATTTTCAATTAAA
1 ATTTT-AATTAAA
100033 TTGTTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 4 0.16
17 16 0.64
18 3 0.12
19 2 0.08
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTTAATTAAAATCATA
Found at i:103707 original size:23 final size:22
Alignment explanation
Indices: 103654--103706 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
103644 GAAGTAAATT
* * *
103654 AAAATAAATTTGAACATTTTTC
1 AAAATAAAATCGAACAGTTTTC
103676 AAAATAAAATCGAACAGTTTTC
1 AAAATAAAATCGAACAGTTTTC
*
103698 AAATTAAAA
1 AAAATAAAA
103707 AAAGCCGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (22 bp):
AAAATAAAATCGAACAGTTTTC
Found at i:105217 original size:54 final size:54
Alignment explanation
Indices: 105132--105419 Score: 395
Period size: 54 Copynumber: 5.4 Consensus size: 54
105122 CTATGTGTAC
**
105132 TATAGGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACAAAATTCATCATATGTTGATGAACAACCG
*
105186 TATAGGCACTAAGTGTGCAACCCACAAAATTCATCGTATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACAAAATTCATCATATGTTGATGAACAACCG
* * * *
105240 TATAGTCACTAAGTGTGCAAACCACGAAATTCATCATAGGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACAAAATTCATCATATGTTGATGAACAACCG
*
105294 TATAGGCACTAAGTGTGCAACCCACATAATTCATCATATGTTGATGAA-AACCG
1 TATAGGCACTAAGTGTGCAACCCACAAAATTCATCATATGTTGATGAACAACCG
* * * **
105347 TATAGGCACTATATGTGTG-AA-CCA-AGAAATTCATAATATATTTATGAATGACCG
1 TATAGGCACTA-A-GTGTGCAACCCACA-AAATTCATCATATGTTGATGAACAACCG
*
105401 TATAGGCACTACGTGTGCA
1 TATAGGCACTAAGTGTGCA
105420 TCTTAACGAA
Statistics
Matches: 210, Mismatches: 19, Indels: 11
0.88 0.08 0.05
Matches are distributed among these distances:
52 6 0.03
53 38 0.18
54 161 0.77
55 5 0.02
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACAAAATTCATCATATGTTGATGAACAACCG
Found at i:105716 original size:80 final size:80
Alignment explanation
Indices: 105610--105761 Score: 232
Period size: 80 Copynumber: 1.9 Consensus size: 80
105600 TGGAATCACC
* * * ***
105610 TCATCATTAATTGTATGATAGCTATGTCTATTTTGATATTATTAGTTGGCATGTAATAGAATTAT
1 TCATCAGTAATTATATGATAACTATGTCTATTTTGATATTATTAGTCAACATGTAATAGAATTAT
105675 GATAACGCTCTACAA
66 GATAACGCTCTACAA
* *
105690 TCATCAGTAATTATATGATAATTATGTCTATTTTGATATTATTAGTCAACATGTAATAGAATTCT
1 TCATCAGTAATTATATGATAACTATGTCTATTTTGATATTATTAGTCAACATGTAATAGAATTAT
105755 GATAACG
66 GATAACG
105762 TTCTGTAAAG
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (80 bp):
TCATCAGTAATTATATGATAACTATGTCTATTTTGATATTATTAGTCAACATGTAATAGAATTAT
GATAACGCTCTACAA
Found at i:109748 original size:64 final size:65
Alignment explanation
Indices: 109647--109799 Score: 186
Period size: 64 Copynumber: 2.4 Consensus size: 65
109637 GTAGTGTTCG
* * *
109647 AATGCATTTTGTGTACCGATGCACAAGGCATGCATCGATGCACTCCTAA-ATAATTTG-AACATC
1 AATGCATTTTATGTATCGATGCACAAGCCATGCATCGATGCACTCC-AAGATAATTTGAAACATC
109710 A
65 A
* * *
109711 AATGCATTTTATTTATCGATGCACATA-CCATGCATCGATGCACTCCAAGCTTATTTGAAACATC
1 AATGCATTTTATGTATCGATGCACA-AGCCATGCATCGATGCACTCCAAGATAATTTGAAACATC
*
109775 G
65 A
* *
109776 AATGTATTTTATGCATCGATGCAC
1 AATGCATTTTATGTATCGATGCAC
109800 CCCTAGTGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
63 2 0.03
64 46 0.61
65 28 0.37
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (65 bp):
AATGCATTTTATGTATCGATGCACAAGCCATGCATCGATGCACTCCAAGATAATTTGAAACATCA
Found at i:115585 original size:23 final size:22
Alignment explanation
Indices: 115555--115633 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 22
115545 CACTAGACAG
115555 TGCATCGATGCATCCTTTGAATA
1 TGCATCGATGCATCC-TTGAATA
* *
115578 TGCATCGATACA-CCTTGAAGA
1 TGCATCGATGCATCCTTGAATA
* *
115599 TGCACCAATGCACTCCTTGAATA
1 TGCATCGATGCA-TCCTTGAATA
*
115622 TGCATTGATGCA
1 TGCATCGATGCA
115634 CTATGTTGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 28 0.62
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (22 bp):
TGCATCGATGCATCCTTGAATA
Found at i:115623 original size:44 final size:43
Alignment explanation
Indices: 115534--115636 Score: 120
Period size: 44 Copynumber: 2.4 Consensus size: 43
115524 TTAGTGCATA
* *
115534 ATGCATCGATACACTAGACAGTGCATCGATGCATCCTTTGAAT
1 ATGCATCGATACACTAGACAGTGCACCAATGCATCCTTTGAAT
*
115577 ATGCATCGATACACCTTGA-AGATGCACCAATGCACTCC-TTGAAT
1 ATGCATCGATACA-CTAGACAG-TGCACCAATGCA-TCCTTTGAAT
* *
115621 ATGCATTGATGCACTA
1 ATGCATCGATACACTA
115637 TGTTGTGCAT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
43 17 0.33
44 31 0.61
45 3 0.06
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCATCGATACACTAGACAGTGCACCAATGCATCCTTTGAAT
Found at i:118328 original size:64 final size:65
Alignment explanation
Indices: 118227--118382 Score: 192
Period size: 64 Copynumber: 2.4 Consensus size: 65
118217 AGAGTAGTGT
* * * * *
118227 TCGAATGCATTTTGTGTACCGATGCACAAGGCATGCATCGATGCACT-CTTAAATAATTTG-AAC
1 TCGAATGCATTTTATGCATCGATGCACAAGGCATGCATCGATACACTCCAT-AATAATTTGAAAC
118290 A
65 A
** *
118291 TCGAATGCATTTTATGCATCGATGCACATA-GCATGCATCGATACACTCCATGCTTATTTGAAAC
1 TCGAATGCATTTTATGCATCGATGCACA-AGGCATGCATCGATACACTCCATAATAATTTGAAAC
118355 A
65 A
*
118356 TCGAATGTATTTTATGCATCGATGCAC
1 TCGAATGCATTTTATGCATCGATGCAC
118383 CCCTAGTGTA
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 47 0.59
65 33 0.41
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (65 bp):
TCGAATGCATTTTATGCATCGATGCACAAGGCATGCATCGATACACTCCATAATAATTTGAAACA
Found at i:121461 original size:54 final size:54
Alignment explanation
Indices: 121376--121610 Score: 307
Period size: 54 Copynumber: 4.4 Consensus size: 54
121366 CTATGTGTAT
*
121376 TATAGGCACTAAGTATGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
* *
121430 TATAGGCACTAATTGTGCAACCCAC-ATAATTCATCATAGGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACAACCG
*
121484 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATATTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
* * * ***
121538 TATAGGTACTATA-TGTGCGAA-CCAC-AGAATTCATAATATGTTTATGAATGGCCG
1 TATAGGCACTA-AGTGTGC-AACCCACGA-AATTCATCATATGTTGATGAACAACCG
*
121592 TATAGGCACTACGTGTGCA
1 TATAGGCACTAAGTGTGCA
121611 TCTTAACGAA
Statistics
Matches: 160, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
53 3 0.02
54 153 0.96
55 4 0.03
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
Found at i:121569 original size:108 final size:108
Alignment explanation
Indices: 121376--121610 Score: 339
Period size: 108 Copynumber: 2.2 Consensus size: 108
121366 CTATGTGTAT
* *
121376 TATAGGCACTAAGTATGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTATAGGCACTA
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATATTGATGAACAACCGTATAGGCACTA
* *
121441 ATTGTGCAACCCACATAATTCATCATAGGTTGATGAACAACCG
66 ATTGTGCAACCCACAGAATTCATAATAGGTTGATGAACAACCG
*
121484 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATATTGATGAACAACCGTATAGGTACT-
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATATTGATGAACAACCGTATAGGCACTA
* * ***
121548 ATATGTGCGAA-CCACAGAATTCATAATATGTTTATGAATGGCCG
66 AT-TGTGC-AACCCACAGAATTCATAATAGGTTGATGAACAACCG
*
121592 TATAGGCACTACGTGTGCA
1 TATAGGCACTAAGTGTGCA
121611 TCTTAACGAA
Statistics
Matches: 114, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
107 2 0.02
108 110 0.96
109 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (108 bp):
TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATATTGATGAACAACCGTATAGGCACTA
ATTGTGCAACCCACAGAATTCATAATAGGTTGATGAACAACCG
Found at i:130024 original size:28 final size:28
Alignment explanation
Indices: 129982--130037 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
129972 TACAAGATGT
129982 ATATTCATTAAGAAA-GATGAACATATAC
1 ATATTCATTAAGAAAGGA-GAACATATAC
*
130010 ATATTCATTACGAAAGGAGAACATATAC
1 ATATTCATTAAGAAAGGAGAACATATAC
130038 TATCTTGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 24 0.92
29 2 0.08
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.27
Consensus pattern (28 bp):
ATATTCATTAAGAAAGGAGAACATATAC
Found at i:132253 original size:17 final size:17
Alignment explanation
Indices: 132227--132262 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
132217 CACGAGTATA
132227 TAAAAATGAAATTATTC
1 TAAAAATGAAATTATTC
*
132244 TAAAATTGAAATTATTC
1 TAAAAATGAAATTATTC
132261 TA
1 TA
132263 GTTCAGGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
TAAAAATGAAATTATTC
Found at i:133235 original size:35 final size:35
Alignment explanation
Indices: 133189--133255 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
133179 AACCAGAAAG
133189 TAAAGCAAATATCATCTTGAATTTCCTAAGCAAGT
1 TAAAGCAAATATCATCTTGAATTTCCTAAGCAAGT
133224 TAAAGCAAATATCATCTTGAATTTCCTAAGCA
1 TAAAGCAAATATCATCTTGAATTTCCTAAGCA
133256 GGTTTACCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.31
Consensus pattern (35 bp):
TAAAGCAAATATCATCTTGAATTTCCTAAGCAAGT
Found at i:148427 original size:90 final size:87
Alignment explanation
Indices: 148299--148463 Score: 267
Period size: 89 Copynumber: 1.9 Consensus size: 87
148289 CCGAATATAT
*
148299 AATTTCAATTAATTAAATATATTTAATTAATTTAAAATAATAAAATCCCTAATATGATTAGGGTA
1 AATTCCAATTAATTAAATATATTTAATTAATTTAAAATAATAAAA-CCCTAATATGATTAGGGTA
148364 ACTTGGATATAAGAGGATTATTA
65 ACTTGGATATAAGAGGATTATTA
* *
148387 AATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCTTAATATGATTAGGGT
1 AATTCCAATTAATTAAATAT--ATTTAATTAATTTAAAATAATAAAACCCTAATATGATTAGGGT
*
148452 AACTTGGCTATA
64 AACTTGGATATA
148464 GAATGGTGTG
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
88 19 0.27
89 28 0.39
90 24 0.34
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (87 bp):
AATTCCAATTAATTAAATATATTTAATTAATTTAAAATAATAAAACCCTAATATGATTAGGGTAA
CTTGGATATAAGAGGATTATTA
Found at i:151908 original size:26 final size:25
Alignment explanation
Indices: 151879--151961 Score: 66
Period size: 25 Copynumber: 3.3 Consensus size: 25
151869 TTAATTTAAA
151879 CTAAACTACTTAGTAGTTATCCTTAT
1 CTAAACTACTTAGTAGTTAT-CTTAT
* * *
151905 CT-AACTTTCTAAG-AGTTAAT-TTAAA
1 CTAAAC-TACTTAGTAGTT-ATCTT-AT
151930 CTAAACTACTTAGTAGTTATCTTTAT
1 CTAAACTACTTAGTAGTTATC-TTAT
151956 C-AAACT
1 CTAAACT
151962 TTCTAAGAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 15
0.68 0.09 0.23
Matches are distributed among these distances:
24 2 0.05
25 22 0.50
26 18 0.41
27 2 0.05
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (25 bp):
CTAAACTACTTAGTAGTTATCTTAT
Found at i:151921 original size:25 final size:24
Alignment explanation
Indices: 151893--151973 Score: 58
Period size: 25 Copynumber: 3.2 Consensus size: 24
151883 ACTACTTAGT
151893 AGTTATCCTTATCTAACTTTCTAAG
1 AGTTAT-CTTATCTAACTTTCTAAG
* * *
151918 AGTTAAT-TTAAACTAAAC-TACTTAG
1 AGTT-ATCTT-ATCT-AACTTTCTAAG
*
151943 TAGTTATCTTTATCAAACTTTCTAAG
1 -AGTTATC-TTATCTAACTTTCTAAG
151969 AGTTA
1 AGTTA
151974 GTGTTATATT
Statistics
Matches: 42, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
24 2 0.05
25 22 0.52
26 16 0.38
27 2 0.05
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.42
Consensus pattern (24 bp):
AGTTATCTTATCTAACTTTCTAAG
Found at i:151945 original size:51 final size:51
Alignment explanation
Indices: 151869--152010 Score: 194
Period size: 51 Copynumber: 2.8 Consensus size: 51
151859 GAACAAGTAT
151869 TTAATTTAAACTAAACTACTTAGTAGTTATCCTTATCTAACTTTCTAAGAG
1 TTAATTTAAACTAAACTACTTAGTAGTTATCCTTATCTAACTTTCTAAGAG
* *
151920 TTAATTTAAACTAAACTACTTAGTAGTTATCTTTATCAAACTTTCTAAGAG
1 TTAATTTAAACTAAACTACTTAGTAGTTATCCTTATCTAACTTTCTAAGAG
* * * * * * *
151971 TTAGTGTTATATTAAAATACTAATTAATTATCCTTATCTA
1 TTAAT-TTAAACTAAACTACTTAGTAGTTATCCTTATCTA
152011 TCGCATAACC
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
51 53 0.67
52 26 0.33
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (51 bp):
TTAATTTAAACTAAACTACTTAGTAGTTATCCTTATCTAACTTTCTAAGAG
Found at i:156096 original size:51 final size:51
Alignment explanation
Indices: 156020--156124 Score: 183
Period size: 51 Copynumber: 2.1 Consensus size: 51
156010 GAACAAGTAT
*
156020 TTAATTTAAACTAAACTACTTAGTAGATATCCTTATCTAACTTTGTAAGAG
1 TTAATTTAAACTAAACTACTTAGTAGATATCCTTATCTAACTTTCTAAGAG
* *
156071 TTAATTTAAACTAAACTACTTAGTAGTTATCTTTATCTAACTTTCTAAGAG
1 TTAATTTAAACTAAACTACTTAGTAGATATCCTTATCTAACTTTCTAAGAG
156122 TTA
1 TTA
156125 GTGTTATATT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (51 bp):
TTAATTTAAACTAAACTACTTAGTAGATATCCTTATCTAACTTTCTAAGAG
Found at i:156098 original size:26 final size:26
Alignment explanation
Indices: 156015--156099 Score: 63
Period size: 26 Copynumber: 3.3 Consensus size: 26
156005 GGTGAGAACA
*
156015 AGTATTTAATTTAAACTAAACTACTT
1 AGTAGTTAATTTAAACTAAACTACTT
* * *
156041 AGTAGAT-ATCCTT-ATCT-AACT-TTGT
1 AGTAGTTAAT--TTAAACTAAACTACT-T
156066 AAG-AGTTAATTTAAACTAAACTACTT
1 -AGTAGTTAATTTAAACTAAACTACTT
156092 AGTAGTTA
1 AGTAGTTA
156100 TCTTTATCTA
Statistics
Matches: 43, Mismatches: 7, Indels: 18
0.63 0.10 0.26
Matches are distributed among these distances:
24 3 0.07
25 15 0.35
26 22 0.51
27 3 0.07
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (26 bp):
AGTAGTTAATTTAAACTAAACTACTT
Found at i:156110 original size:26 final size:26
Alignment explanation
Indices: 156030--156110 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
156020 TTAATTTAAA
* *
156030 CTAAACTACTTAGTAGATATCCTTAT
1 CTAAACTACTTAGTAGTTATCTTTAT
* * *
156056 CT-AACT-TTGTAAG-AGTTAAT-TTAAA
1 CTAAACTACT-T-AGTAGTT-ATCTTTAT
156081 CTAAACTACTTAGTAGTTATCTTTAT
1 CTAAACTACTTAGTAGTTATCTTTAT
156107 CTAA
1 CTAA
156111 CTTTCTAAGA
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
24 1 0.03
25 16 0.40
26 22 0.55
27 1 0.03
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.41
Consensus pattern (26 bp):
CTAAACTACTTAGTAGTTATCTTTAT
Found at i:156123 original size:25 final size:25
Alignment explanation
Indices: 156047--156124 Score: 61
Period size: 25 Copynumber: 3.1 Consensus size: 25
156037 ACTTAGTAGA
* *
156047 TATCCTTATCTAACTTTGTAAGAGT
1 TATCTTTATCTAACTTTCTAAGAGT
* * * *
156072 TAAT-TTAAACTAAAC-TACTTAGTAGT
1 T-ATCTTTATCT-AACTTTCTAAG-AGT
156098 TATCTTTATCTAACTTTCTAAGAGT
1 TATCTTTATCTAACTTTCTAAGAGT
156123 TA
1 TA
156125 GTGTTATATT
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
25 19 0.50
26 19 0.50
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (25 bp):
TATCTTTATCTAACTTTCTAAGAGT
Found at i:156453 original size:15 final size:16
Alignment explanation
Indices: 156424--156453 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
156414 CGCTTTCACA
156424 CTAAATCGTGTTCAAT
1 CTAAATCGTGTTCAAT
156440 CTAAATCG-GTTCAA
1 CTAAATCGTGTTCAA
156454 AAGACACCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (16 bp):
CTAAATCGTGTTCAAT
Found at i:159607 original size:90 final size:89
Alignment explanation
Indices: 159496--159668 Score: 301
Period size: 90 Copynumber: 1.9 Consensus size: 89
159486 TAATCCTGAA
* *
159496 TATTTAATTTCAATTAATTAAATATAGATTTAATTGATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
*
159561 TATGGTAACTTGGATATAAGCGGAT
65 TAGGGTAACTTGGATATAAGCGGAT
159586 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
*
159651 AGGGTAACTTGGCTATAA
66 AGGGTAACTTGGATATAA
159669 AAAGGTGTGT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 29 0.37
90 50 0.63
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (89 bp):
TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
AGGGTAACTTGGATATAAGCGGAT
Found at i:162050 original size:27 final size:28
Alignment explanation
Indices: 162019--162073 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
162009 CATTTGGATA
162019 AAACACTGAAATGGGTTTCA-CCATCTT
1 AAACACTGAAATGGGTTTCAGCCATCTT
*
162046 AAACACTGAAATTGGTTTCAGCCATCTT
1 AAACACTGAAATGGGTTTCAGCCATCTT
162074 TTGGAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 19 0.73
28 7 0.27
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (28 bp):
AAACACTGAAATGGGTTTCAGCCATCTT
Found at i:167489 original size:20 final size:20
Alignment explanation
Indices: 167466--167612 Score: 204
Period size: 20 Copynumber: 7.3 Consensus size: 20
167456 GTTTCCAAAT
*
167466 TCGCAACGCGAATATGTAAA
1 TCGCAACGCGAATTTGTAAA
*
167486 TCGCAACGCGAATATGTAAA
1 TCGCAACGCGAATTTGTAAA
167506 TCGCAACGCGAATTTGTAAA
1 TCGCAACGCGAATTTGTAAA
*
167526 TCGCAACACGAATTTGTAAA
1 TCGCAACGCGAATTTGTAAA
* * *
167546 TCACAACGCGAATCTATAAA
1 TCGCAACGCGAATTTGTAAA
* *
167566 TCGCAACGCAAATCTGTAAA
1 TCGCAACGCGAATTTGTAAA
* *
167586 TCGCAATGCGAATTTGTAAT
1 TCGCAACGCGAATTTGTAAA
167606 TCGCAAC
1 TCGCAAC
167613 ACATAAGTCA
Statistics
Matches: 113, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 113 1.00
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (20 bp):
TCGCAACGCGAATTTGTAAA
Found at i:167630 original size:40 final size:40
Alignment explanation
Indices: 167461--167631 Score: 152
Period size: 40 Copynumber: 4.2 Consensus size: 40
167451 ACTCAGTTTC
* * *
167461 CAAATTCGCAACGCGAATATGTAAATCGCAACGCGAATATGT
1 CAAA-TCGCAACGCGAATTTGTAAATCGCAACAC-AATAAGT
**
167503 -AAATCGCAACGCGAATTTGTAAATCGCAACACGAATTTGT
1 CAAATCGCAACGCGAATTTGTAAATCGCAACAC-AATAAGT
* * * * **
167543 -AAATCACAACGCGAATCTATAAATCGCAACGCAAATCTGT
1 CAAATCGCAACGCGAATTTGTAAATCGCAACAC-AATAAGT
* *
167583 -AAATCGCAATGCGAATTTGTAATTCGCAACAC-ATAAGT
1 CAAATCGCAACGCGAATTTGTAAATCGCAACACAATAAGT
167621 CAAATTCGCAA
1 CAAA-TCGCAA
167632 AGCGCGTTTA
Statistics
Matches: 110, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
38 4 0.04
39 3 0.03
40 100 0.91
41 3 0.03
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.23
Consensus pattern (40 bp):
CAAATCGCAACGCGAATTTGTAAATCGCAACACAATAAGT
Found at i:167630 original size:60 final size:59
Alignment explanation
Indices: 167466--167631 Score: 167
Period size: 60 Copynumber: 2.8 Consensus size: 59
167456 GTTTCCAAAT
* * * *
167466 TCGCAACGCGAATATGTAAATCGCAACGCGAATATGT-AAATCGCAACGCGAATTTGTAAA
1 TCGCAACGCGAATTTGTAAATCGCAACGC--ATAAGTCAAATCGCAACGCAAATCTGTAAA
* * *
167526 TCGCAACACGAATTTGTAAATCACAACGC-GAA-TCTATAAATCGCAACGCAAATCTGTAAA
1 TCGCAACGCGAATTTGTAAATCGCAACGCATAAGTC---AAATCGCAACGCAAATCTGTAAA
* * *
167586 TCGCAATGCGAATTTGTAATTCGCAACACATAAGTCAAATTCGCAA
1 TCGCAACGCGAATTTGTAAATCGCAACGCATAAGTCAAA-TCGCAA
167632 AGCGCGTTTA
Statistics
Matches: 86, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
56 1 0.01
57 1 0.01
59 3 0.03
60 77 0.90
61 2 0.02
62 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (59 bp):
TCGCAACGCGAATTTGTAAATCGCAACGCATAAGTCAAATCGCAACGCAAATCTGTAAA
Found at i:167830 original size:22 final size:22
Alignment explanation
Indices: 167779--167831 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
167769 TCACTCTCTA
* *
167779 CGGCGACATCCGTCCCCATCTC
1 CGGCGAAATACGTCCCCATCTC
**
167801 CGATGAAATACGTCCCCATCTC
1 CGGCGAAATACGTCCCCATCTC
167823 CGGCGAAAT
1 CGGCGAAAT
167832 CCGTTTATCT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.23, C:0.40, G:0.19, T:0.19
Consensus pattern (22 bp):
CGGCGAAATACGTCCCCATCTC
Found at i:168199 original size:20 final size:20
Alignment explanation
Indices: 168168--168215 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
168158 AAACTTAAAT
*
168168 TCGCAACACGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
168188 TCGGAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
168208 TCGCAACG
1 TCGCAACG
168216 TGATTTTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.48, C:0.21, G:0.21, T:0.10
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:168241 original size:19 final size:20
Alignment explanation
Indices: 168217--168269 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
168207 ATCGCAACGT
168217 GATTTT-AGTTTCACATTGC
1 GATTTTAAGTTTCACATTGC
* * ** *
168236 GATTTTCATTTTTGCGTTGC
1 GATTTTAAGTTTCACATTGC
168256 GATTTTAAGTTTCA
1 GATTTTAAGTTTCA
168270 AAAACTATTC
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.19, C:0.13, G:0.17, T:0.51
Consensus pattern (20 bp):
GATTTTAAGTTTCACATTGC
Found at i:168385 original size:28 final size:30
Alignment explanation
Indices: 168345--168402 Score: 102
Period size: 28 Copynumber: 2.0 Consensus size: 30
168335 CAAATACTAA
168345 CTTCACAGTGTTGCGAA-TT-AGTTTCAAG
1 CTTCACAGTGTTGCGAATTTAAGTTTCAAG
168373 CTTCACAGTGTTGCGAATTTAAGTTTCAAG
1 CTTCACAGTGTTGCGAATTTAAGTTTCAAG
168403 AAAACTACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 17 0.61
29 2 0.07
30 9 0.32
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (30 bp):
CTTCACAGTGTTGCGAATTTAAGTTTCAAG
Found at i:169785 original size:67 final size:67
Alignment explanation
Indices: 169666--169859 Score: 231
Period size: 67 Copynumber: 3.0 Consensus size: 67
169656 CAATTCATAC
*
169666 AATGCATTCGATGTTTCA-A-AATAGCCTGAGTGCATCGATGCATGGT-TGGTGCATCGATACAT
1 AATGCATTCGATGTTTCATATAATACCCTGAGTGCATCGATGCATGGTATGGTGCATCGATACAT
169728 CA
66 CA
* *
169730 AATGCATTCGATGTTTTCATATAAAACCCTGAGTGCATCGATGCATGGTAT-GTGCATCGATGCA
1 AATGCATTCGATG-TTTCATATAATACCCTGAGTGCATCGATGCATGGTATGGTGCATCGATACA
*
169794 TGA
65 TCA
* * * * * *
169797 AATGTATTCGATG-CTCATTTTATTCCATG-GTGCATCGATGCATGG-ATTGGTGCATCGATACA
1 AATGCATTCGATGTTTCATATAATACCCTGAGTGCATCGATGCATGGTA-TGGTGCATCGATACA
169859 T
65 T
169860 GGATTGGTGC
Statistics
Matches: 112, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
63 1 0.01
64 30 0.27
65 28 0.25
66 1 0.01
67 51 0.46
68 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (67 bp):
AATGCATTCGATGTTTCATATAATACCCTGAGTGCATCGATGCATGGTATGGTGCATCGATACAT
CA
Found at i:169801 original size:19 final size:19
Alignment explanation
Indices: 169762--169801 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
169752 AAAACCCTGA
**
169762 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATGAAAT
169781 GTGCATCGATGCATGAAAT
1 GTGCATCGATGCATGAAAT
169800 GT
1 GT
169802 ATTCGATGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (19 bp):
GTGCATCGATGCATGAAAT
Found at i:169849 original size:20 final size:20
Alignment explanation
Indices: 169824--169879 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
169814 TTTTATTCCA
169824 TGGTGCATCGATGCATGGAT
1 TGGTGCATCGATGCATGGAT
*
169844 TGGTGCATCGATACATGGAT
1 TGGTGCATCGATGCATGGAT
*
169864 TGGTGCATCGGTGCAT
1 TGGTGCATCGATGCAT
169880 CACTTTGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.20, C:0.16, G:0.34, T:0.30
Consensus pattern (20 bp):
TGGTGCATCGATGCATGGAT
Found at i:178989 original size:32 final size:32
Alignment explanation
Indices: 178952--179016 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
178942 TAAAATTCAT
178952 TTAAACTAATTTGTTATATCGAAACATCAAAA
1 TTAAACTAATTTGTTATATCGAAACATCAAAA
178984 TTAAACTAATTTGTTATATCGAAACATCAAAA
1 TTAAACTAATTTGTTATATCGAAACATCAAAA
179016 T
1 T
179017 GTTTTCAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.35
Consensus pattern (32 bp):
TTAAACTAATTTGTTATATCGAAACATCAAAA
Found at i:180139 original size:63 final size:63
Alignment explanation
Indices: 180042--180161 Score: 143
Period size: 63 Copynumber: 1.9 Consensus size: 63
180032 GTTGGTACTT
* * *
180042 TACGTGACGACAATGGTGCATGGCGTGATAAGGTA-CGGTCTTTACGTGGTGAGGTAGAGGTTG
1 TACGTGACGACAATGGTGCATGACGTGATAAGGTATCGAT-TTTACGTGATGAGGTAGAGGTTG
* * * * * *
180105 TACGTGATGACAATGGTGCTTTACGTGGTGAGGTATCTATTTTACGTGATGAGGTAG
1 TACGTGACGACAATGGTGCATGACGTGATAAGGTATCGATTTTACGTGATGAGGTAG
180162 CCGCTCTACG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
63 45 0.96
64 2 0.04
ACGTcount: A:0.23, C:0.12, G:0.35, T:0.31
Consensus pattern (63 bp):
TACGTGACGACAATGGTGCATGACGTGATAAGGTATCGATTTTACGTGATGAGGTAGAGGTTG
Found at i:180527 original size:42 final size:42
Alignment explanation
Indices: 180456--180574 Score: 148
Period size: 42 Copynumber: 2.8 Consensus size: 42
180446 GATTCACCTG
* * * * *
180456 TCATCGTTCAAAAGGCCTCTCCTATCGTTCAAGAGGCCCCTA
1 TCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTA
* * * *
180498 TCATCCTTCAAGAGGCCCCTCCCACCGTTCAAGCGGCCCTTG
1 TCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTA
*
180540 TCATCATTCAAGAGGTCCCTCCCACCGTTCAAGAG
1 TCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAG
180575 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.24
Consensus pattern (42 bp):
TCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTA
Found at i:180570 original size:21 final size:21
Alignment explanation
Indices: 180460--180574 Score: 97
Period size: 21 Copynumber: 5.5 Consensus size: 21
180450 CACCTGTCAT
* * * *
180460 CGTTCAAAAGGCCTCTCCTAT
1 CGTTCAAGAGGCCCCTCCCAC
**
180481 CGTTCAAGAGGCCCCTATCATC
1 CGTTCAAGAGGCCCCTCCCA-C
180503 C-TTCAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
* * ** *
180523 CGTTCAAGCGGCCCTTGTCAT
1 CGTTCAAGAGGCCCCTCCCAC
* *
180544 CATTCAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
180565 CGTTCAAGAG
1 CGTTCAAGAG
180575 CCCGATTCAC
Statistics
Matches: 71, Mismatches: 21, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
20 2 0.03
21 68 0.96
22 1 0.01
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTCCCAC
Found at i:181863 original size:20 final size:20
Alignment explanation
Indices: 181836--181938 Score: 127
Period size: 20 Copynumber: 5.2 Consensus size: 20
181826 AGGTACACTT
* *
181836 TCGCAACGCGAAAATCAAAT
1 TCGCAACGCGAAAGTCAAAC
* *
181856 TCGTAACGTGAAAGTCAAAC
1 TCGCAACGCGAAAGTCAAAC
*
181876 TCGCAACGTGAAAGTCAAAC
1 TCGCAACGCGAAAGTCAAAC
* *
181896 TCACAACGCAAAAGTCAAAC
1 TCGCAACGCGAAAGTCAAAC
*
181916 TCGCAACGC-AAAGTCAAAT
1 TCGCAACGCGAAAGTCAAAC
181935 TCGC
1 TCGC
181939 GTTGCAAAAG
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
19 13 0.18
20 60 0.82
ACGTcount: A:0.42, C:0.26, G:0.17, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGAAAGTCAAAC
Found at i:181894 original size:40 final size:39
Alignment explanation
Indices: 181836--181962 Score: 128
Period size: 40 Copynumber: 3.2 Consensus size: 39
181826 AGGTACACTT
* * **
181836 TCGCAACGCGAAAATCAAATTCGTAACGTGAAAGTCAAAC
1 TCGCAACG-GAAAGTCAAATTCGCAACGCAAAAGTCAAAC
* *
181876 TCGCAACGTGAAAGTCAAACTCACAACGCAAAAGTCAAAC
1 TCGCAACG-GAAAGTCAAATTCGCAACGCAAAAGTCAAAC
* *** * *
181916 TCGCAACGCAAAGTCAAATTCGCGTTGCAAAAGTAAAAT
1 TCGCAACGGAAAGTCAAATTCGCAACGCAAAAGTCAAAC
181955 TCGCAACG
1 TCGCAACG
181963 CTAAATTCAA
Statistics
Matches: 72, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
39 31 0.43
40 41 0.57
ACGTcount: A:0.42, C:0.24, G:0.17, T:0.17
Consensus pattern (39 bp):
TCGCAACGGAAAGTCAAATTCGCAACGCAAAAGTCAAAC
Done.