Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008561.1 Hibiscus syriacus cultivar Beakdansim tig00111470_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: 161482
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:2332 original size:32 final size:32
Alignment explanation
Indices: 2287--2575 Score: 123
Period size: 33 Copynumber: 8.5 Consensus size: 32
2277 CGGAAAATAC
*
2287 AATCGCAACGCGAAATGAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAATCCCAACGA-GAA
* *
2319 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATG-AAATCCCAACGAGAA
*
2352 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATG-AAATCCCAA--CG--A-GAA
* * *
2390 AATCGCAA--CGAGA-G-AATCGCAATGCGAAATGA
1 AATCGCAATGCGAAATGAAATCCCAA--CGAGA--A
* *
2422 AATCGC-ATGCGAAATGAAATCGCAATGCGAAATGGA
1 AATCGCAATGCGAAATGAAATCCCAA--CG--A-GAA
* *
2458 AATCGCAATGCG-AATGAAAATCGCAATGCGAAATGA
1 AATCGCAATGCGAAATG-AAATCCCAA--CGAGA--A
*
2494 AATCGCAA--CGAAA-G-AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAATCCCAA--CG--A-GAA
* *
2527 AATCGCAATGCGAAATGAAAATCGCAACGAGAT
1 AATCGCAATGCGAAATG-AAATCCCAACGAGAA
2560 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
2576 TATAAACGCA
Statistics
Matches: 215, Mismatches: 13, Indels: 57
0.75 0.05 0.20
Matches are distributed among these distances:
30 1 0.00
31 2 0.01
32 35 0.16
33 81 0.38
34 7 0.03
35 24 0.11
36 27 0.13
37 20 0.09
38 18 0.08
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (32 bp):
AATCGCAATGCGAAATGAAATCCCAACGAGAA
Found at i:2336 original size:19 final size:19
Alignment explanation
Indices: 2314--2553 Score: 313
Period size: 19 Copynumber: 13.7 Consensus size: 19
2304 AAATCCCAAC
2314 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
2333 ATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
*
2348 A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
2366 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
2385 ATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
*
2400 A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
2418 ATG-AAATCGC-ATGCGAA
1 ATGAAAATCGCAATGCGAA
2435 ATG-AAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
*
2453 ATGGAAATCGCAATGCG-A
1 ATGAAAATCGCAATGCGAA
2471 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
2490 ATG-AAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAA
2506 A-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
2522 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
2541 ATGAAAATCGCAA
1 ATGAAAATCGCAA
2554 CGAGATAATC
Statistics
Matches: 198, Mismatches: 5, Indels: 36
0.83 0.02 0.15
Matches are distributed among these distances:
14 28 0.14
15 3 0.02
16 14 0.07
17 22 0.11
18 44 0.22
19 87 0.44
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
ATGAAAATCGCAATGCGAA
Found at i:2591 original size:52 final size:52
Alignment explanation
Indices: 2314--2575 Score: 417
Period size: 52 Copynumber: 5.0 Consensus size: 52
2304 AAATCCCAAC
2314 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
2366 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
2418 ATG-AAATCGC-ATGCGAAATG-AAATCGCAATGCGAAATGGAAATCGCAATGCG-A
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAGA--G-AATCGCAATGCGAA
*
2471 ATGAAAATCGCAATGCGAAATG-AAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
2522 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
2574 AT
1 AT
2576 TATAAACGCA
Statistics
Matches: 198, Mismatches: 3, Indels: 18
0.90 0.01 0.08
Matches are distributed among these distances:
49 9 0.05
50 22 0.11
51 35 0.18
52 84 0.42
53 10 0.05
54 19 0.10
55 19 0.10
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:2674 original size:19 final size:19
Alignment explanation
Indices: 2582--2666 Score: 122
Period size: 19 Copynumber: 4.6 Consensus size: 19
2572 AAATTATAAA
2582 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2601 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
* *
2621 CGCATTGCGATTCTC-TCT
1 CGCATTGCGATTTTCATTT
2639 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2656 CGCATTGCGAT
1 CGCATTGCGAT
2667 AGTCATTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
16 10 0.17
17 4 0.07
18 4 0.07
19 21 0.36
20 19 0.33
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:2790 original size:14 final size:14
Alignment explanation
Indices: 2771--2807 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2761 CATCAATTAC
2771 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2785 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2799 ACAAATCAA
1 ACAAATCAA
2808 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:4682 original size:20 final size:19
Alignment explanation
Indices: 4657--4720 Score: 78
Period size: 18 Copynumber: 3.4 Consensus size: 19
4647 TAGTTTACTT
*
4657 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-TAAAA
*
4677 TCGCAACGCGAAAC-CAAA
1 TCGCAACGCGAAACTAAAA
*
4695 TCGCAACGCGAAA-TGAAA
1 TCGCAACGCGAAACTAAAA
4713 TCGCAACG
1 TCGCAACG
4721 ACAGAATCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
18 27 0.68
20 13 0.32
ACGTcount: A:0.44, C:0.28, G:0.17, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACTAAAA
Found at i:4738 original size:32 final size:32
Alignment explanation
Indices: 4693--4782 Score: 148
Period size: 31 Copynumber: 2.8 Consensus size: 32
4683 CGCGAAACCA
4693 AATCGCAACGCGAAATG-AAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGA-AG
*
4725 AATCGCAATGCGAAATGAAAATCGC-ACGAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAG
4756 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
4783 TGCGATTTTG
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
31 26 0.48
32 21 0.39
33 7 0.13
ACGTcount: A:0.46, C:0.22, G:0.21, T:0.11
Consensus pattern (32 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAG
Found at i:4805 original size:19 final size:19
Alignment explanation
Indices: 4783--4911 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
4773 AAAATCGCAA
4783 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
4802 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
4816 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
4835 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
4849 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
4868 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
4887 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
4907 TGCGA
1 TGCGA
4912 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:4825 original size:33 final size:33
Alignment explanation
Indices: 4783--4874 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
4773 AAAATCGCAA
4783 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
4816 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
4849 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
4875 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:5237 original size:92 final size:93
Alignment explanation
Indices: 4954--5331 Score: 694
Period size: 92 Copynumber: 4.1 Consensus size: 93
4944 TTGAATGGAT
4954 AAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTG-TAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5017 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
5045 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAATA-TATTTCACAGTGTTAAAGAATACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AAATACTATTTCACAGTGTTAAAGAATACA
5109 CAGTTTAGCAGAATTGGCAGCAACCGAAC
65 CAGTTTAGCAGAATTGGCAGCAACCGAAC
5138 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5202 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
5230 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTTAAAGAATACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTG-TTAAAGAATACA
5295 CAGTTTAGCAGAATTGGCAGCAACCGAA-
65 CAGTTTAGCAGAATTGGCAGCAACCGAAC
*
5323 TAATTTACT
1 AAATTTACT
5332 AAGCATCTAA
Statistics
Matches: 281, Mismatches: 1, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
91 23 0.08
92 119 0.42
93 99 0.35
94 40 0.14
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:5265 original size:185 final size:184
Alignment explanation
Indices: 4954--5331 Score: 690
Period size: 185 Copynumber: 2.0 Consensus size: 184
4944 TTGAATGGAT
4954 AAATTTACTTTCAACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTAAAGAATACACAG
1 AAATTTACTTTCAACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTAAAGAATACACAG
5019 TTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAAT
66 TTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AAAT
5084 A-TATTTCACAGTG-TTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
130 ACTATTTCACAGTGTTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
5137 CAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACA
1 -AAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTG-TAAAGAATACA
5201 CAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAA
63 CAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAA
5266 ATACTATTTCACAGTGTTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
128 ATACTATTTCACAGTGTTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
*
5323 TAATTTACT
1 AAATTTACT
5332 AAGCATCTAA
Statistics
Matches: 189, Mismatches: 1, Indels: 7
0.96 0.01 0.04
Matches are distributed among these distances:
184 40 0.21
185 109 0.58
186 40 0.21
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (184 bp):
AAATTTACTTTCAACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTAAAGAATACACAG
TTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA
CTATTTCACAGTGTTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
Found at i:7044 original size:19 final size:18
Alignment explanation
Indices: 7020--7116 Score: 93
Period size: 19 Copynumber: 5.7 Consensus size: 18
7010 CGCACGAGAG
7020 AATCGCAACGCGAGATGA
1 AATCGCAACGCGAGATGA
7038 CAATCGCAA--CGAGA-G-
1 -AATCGCAACGCGAGATGA
*
7053 AATCGCAACGCGAAATGA
1 AATCGCAACGCGAGATGA
7071 AATCGCAA--CGAGA-G-
1 AATCGCAACGCGAGATGA
*
7085 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAGATG-A
*
7104 AATCGCAATGCGA
1 AATCGCAACGCGA
7117 TTTTGGTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 18
0.75 0.05 0.21
Matches are distributed among these distances:
14 16 0.25
15 1 0.02
16 13 0.20
17 7 0.11
18 8 0.12
19 20 0.31
ACGTcount: A:0.42, C:0.23, G:0.25, T:0.10
Consensus pattern (18 bp):
AATCGCAACGCGAGATGA
Found at i:7058 original size:14 final size:14
Alignment explanation
Indices: 7007--7094 Score: 79
Period size: 14 Copynumber: 5.7 Consensus size: 14
6997 TTGAAATGAA
7007 AATCGC-ACGAGAG
1 AATCGCAACGAGAG
7020 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
7037 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
7053 AATCGCAACGCGAAATG
1 AATCGCAA--CGAGA-G
7070 AAATCGCAACGAGAG
1 -AATCGCAACGAGAG
7085 AATCGCAACG
1 AATCGCAACG
7095 CGAAATGAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 19
0.75 0.02 0.23
Matches are distributed among these distances:
13 6 0.10
14 19 0.30
15 1 0.02
16 14 0.22
17 7 0.11
18 8 0.13
19 8 0.13
ACGTcount: A:0.41, C:0.24, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:7075 original size:32 final size:33
Alignment explanation
Indices: 6999--7111 Score: 194
Period size: 32 Copynumber: 3.5 Consensus size: 33
6989 TCTTTTGGTT
6999 GAAATGAAAATCGC-ACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
7031 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
7064 GAAATG-AAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
7096 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
7112 TGCGATTTTG
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
32 43 0.57
33 32 0.43
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:7159 original size:32 final size:33
Alignment explanation
Indices: 7112--7181 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 33
7102 AAAATCGCAA
**
7112 TGCGATTTTGGTTTCGCGTTGCGA-TCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
7144 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
7177 TGCGA
1 TGCGA
7182 CAGTCATTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 22 0.63
33 13 0.37
ACGTcount: A:0.09, C:0.23, G:0.26, T:0.43
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:7189 original size:33 final size:33
Alignment explanation
Indices: 7123--7203 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
7113 GCGATTTTGG
***
7123 TTTCGCGTTGCGA-TCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
7155 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
7188 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
7204 TTCATTTATC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
32 13 0.30
33 18 0.42
34 12 0.28
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.42
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:7208 original size:20 final size:20
Alignment explanation
Indices: 7136--7222 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 20
7126 CGCGTTGCGA
7136 TCTCTCGTTGCGATTTTCAT
1 TCTCTCGTTGCGATTTTCAT
*
7156 T-TCGCGTTGCG------AT
1 TCTCTCGTTGCGATTTTCAT
***
7169 TCTCTCGTTGCGACAGTCAT
1 TCTCTCGTTGCGATTTTCAT
7189 TCTCTCGTTGCGATTTTCATT
1 TCTCTCGTTGCGATTTTCA-T
*
7210 TATCTCGTTGCGA
1 TCTCTCGTTGCGA
7223 CTCTTCTGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.06
14 9 0.17
19 9 0.17
20 19 0.36
21 13 0.25
ACGTcount: A:0.11, C:0.25, G:0.20, T:0.44
Consensus pattern (20 bp):
TCTCTCGTTGCGATTTTCAT
Found at i:7365 original size:33 final size:32
Alignment explanation
Indices: 7300--7369 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 32
7290 AATACTAACT
7300 TGAAAATCGCAACGAGAGATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGATAGCAACGCGAAA
* *
7332 TGAAAATCGCAACGACCGA-ATCGTAACGCGAAA
1 TGAAAATCGCAACGA--GAGATAGCAACGCGAAA
7365 TGAAA
1 TGAAA
7370 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 15 0.44
33 17 0.50
34 2 0.06
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (32 bp):
TGAAAATCGCAACGAGAGATAGCAACGCGAAA
Found at i:7764 original size:20 final size:20
Alignment explanation
Indices: 7739--7929 Score: 217
Period size: 20 Copynumber: 9.6 Consensus size: 20
7729 CTTTAAATAT
7739 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
7759 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
7781 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
7800 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
7820 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
7840 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
7860 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
7880 CGCGTTGCGATTTA-TG-TT
1 CGCGTTGCGATTTACGGATA
* ** *
7898 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
7918 CGCGTTGCGATT
1 CGCGTTGCGATT
7930 ATTGAAAATC
Statistics
Matches: 145, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
18 14 0.10
19 3 0.02
20 112 0.77
21 14 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:12620 original size:17 final size:18
Alignment explanation
Indices: 12590--12623 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12580 GTCTTTATAC
*
12590 TTTGATTTATTTTTTTAG
1 TTTGATTTACTTTTTTAG
12608 TTTG-TTTACTTTTTTA
1 TTTGATTTACTTTTTTA
12624 AATTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.15, C:0.03, G:0.09, T:0.74
Consensus pattern (18 bp):
TTTGATTTACTTTTTTAG
Found at i:15551 original size:20 final size:20
Alignment explanation
Indices: 15528--15607 Score: 97
Period size: 20 Copynumber: 4.0 Consensus size: 20
15518 TTTCGCTACA
15528 CAAATTCGCGTTGCGAATTT
1 CAAATTCGCGTTGCGAATTT
**
15548 CAAATTCGCGTTGCGAAAAT
1 CAAATTCGCGTTGCGAATTT
* * *
15568 CAGATCCGCGTTGCAAATTT
1 CAAATTCGCGTTGCGAATTT
* *
15588 CAGATTCGTGTTGCGAATTT
1 CAAATTCGCGTTGCGAATTT
15608 GGAAAACCGC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (20 bp):
CAAATTCGCGTTGCGAATTT
Found at i:19943 original size:13 final size:13
Alignment explanation
Indices: 19925--19969 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
19915 ATAAATAATA
*
19925 AAAAAATTACAAT
1 AAAAAACTACAAT
* *
19938 AAAAAAGTCCAAT
1 AAAAAACTACAAT
*
19951 AAACAACTACAAT
1 AAAAAACTACAAT
19964 AAAAAA
1 AAAAAA
19970 GTACTAAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.69, C:0.13, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAAAACTACAAT
Found at i:22217 original size:21 final size:19
Alignment explanation
Indices: 22168--22219 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
22158 TTAATTAAAT
*
22168 AAAATATTAAA-CAATTAA
1 AAAATATTAAATAAATTAA
22186 AATAA-ATTAAATAAATTACTA
1 AA-AATATTAAATAAATTA--A
22207 AAAATATTAAATA
1 AAAATATTAAATA
22220 TAATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 8 0.29
19 7 0.25
20 2 0.07
21 11 0.39
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATATTAAATAAATTAA
Found at i:22219 original size:30 final size:30
Alignment explanation
Indices: 22154--22222 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
22144 ATATGCAAAA
* *
22154 AAAATTAATTAAATAAAATATTAAACAATT
1 AAAATAAATTAAATAAAATACTAAACAATT
* *
22184 AAAATAAATTAAATAAATTACTAAAAATATT
1 AAAATAAATTAAATAAAATACTAAACA-ATT
22215 AAATATAA
1 AAA-ATAA
22223 TAAAATATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 23 0.70
31 6 0.18
32 4 0.12
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAATAAATTAAATAAAATACTAAACAATT
Found at i:23020 original size:20 final size:20
Alignment explanation
Indices: 22995--23087 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
22985 TTTTCCCAAT
22995 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
23015 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
*
23035 TTCACAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* * *
23056 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAA-TAAGTAAA
23077 TCGCAATGCGA
1 TCGCAATGCGA
23088 TACTAACTAT
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 26 0.46
21 31 0.54
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:23037 original size:41 final size:41
Alignment explanation
Indices: 22992--23087 Score: 165
Period size: 41 Copynumber: 2.3 Consensus size: 41
22982 CGATTTTCCC
*
22992 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
*
23033 AATTCACAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
*
23074 AAATCGCAATGCGA
1 AATTCGCAATGCGA
23088 TACTAACTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
Found at i:23100 original size:41 final size:41
Alignment explanation
Indices: 23014--23148 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
23004 GAATAAGTAA
* * * *
23014 ATCGCAACGCGAATTGGGAAATTCACAATGCGA-A-TAAGT
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTAACT
23053 AAATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTAACT
1 --ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTAACT
* * * * * *
23096 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTAACT
*
23137 TTCGCAACGCGA
1 ATCGCAACGCGA
23149 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
41 72 0.91
42 3 0.04
43 4 0.05
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTAACT
Found at i:23101 original size:20 final size:20
Alignment explanation
Indices: 23076--23169 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
23066 AATTGAGAAA
*
23076 ATCGCAATGCGATACTAACT
1 ATCGCAACGCGATACTAACT
* * **
23096 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-AACT
* *
23117 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTAACT
* *
23137 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTAACT
*
23157 TTCGCAACGCGAT
1 ATCGCAACGCGAT
23170 TTACTTAGCG
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
20 46 0.75
21 15 0.25
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTAACT
Found at i:23728 original size:19 final size:19
Alignment explanation
Indices: 23690--23756 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
23680 TTCGAGAATG
*
23690 AAAATCGCAAAGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
23710 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
23729 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
23748 AAAATCGCA
1 AAAATCGCA
23757 TTGCGATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 30 0.75
20 10 0.25
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:23774 original size:19 final size:19
Alignment explanation
Indices: 23752--23897 Score: 96
Period size: 19 Copynumber: 8.1 Consensus size: 19
23742 GAAACCAAAA
*
23752 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
23771 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
23790 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
23804 TCTCGTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
23823 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
23837 TCTCATTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* *
23856 TCCGCGTTGCAATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
23876 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
23896 TC
1 TC
23898 AACCAAAAGA
Statistics
Matches: 97, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
14 18 0.19
16 4 0.04
17 5 0.05
19 41 0.42
20 28 0.29
21 1 0.01
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:23822 original size:33 final size:33
Alignment explanation
Indices: 23785--23872 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
23775 GTTGCGATTT
*
23785 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCATCGCGATAG
*
23818 TCATTTCGCGTTGCGATTCTCTCATTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCATCGCGATAG
*
23851 TCATTTCCGCGTTGCAATTCTC
1 TCATTT-CGCGTTGCGATTCTC
23873 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 37 0.73
34 14 0.27
ACGTcount: A:0.14, C:0.27, G:0.20, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCATCGCGATAG
Found at i:23874 original size:20 final size:20
Alignment explanation
Indices: 23851--23897 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
23841 ATTGCGATAG
23851 TCATTTCCGCGTTGCAATTC
1 TCATTTCCGCGTTGCAATTC
* * *
23871 TCATTAT-CTCGTTGCGATTT
1 TCATT-TCCGCGTTGCAATTC
23891 TCATTTC
1 TCATTTC
23898 AACCAAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
19 1 0.05
20 20 0.91
21 1 0.05
ACGTcount: A:0.15, C:0.26, G:0.13, T:0.47
Consensus pattern (20 bp):
TCATTTCCGCGTTGCAATTC
Found at i:25954 original size:42 final size:42
Alignment explanation
Indices: 25894--26016 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
25884 GCCCGACTCG
* * *
25894 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
25936 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
25978 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
26017 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:25974 original size:21 final size:21
Alignment explanation
Indices: 25950--26016 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
25940 TCATTCCTCG
25950 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
25971 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
25992 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
26013 AGAG
1 AGAG
26017 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:27388 original size:13 final size:14
Alignment explanation
Indices: 27372--27406 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
27362 ATTGTTTAAT
27372 TGATTTGT-AAAGG
1 TGATTTGTAAAAGG
*
27385 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
27399 TGATTTGT
1 TGATTTGT
27407 TTAATTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.46
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:27414 original size:13 final size:14
Alignment explanation
Indices: 27359--27407 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
27349 TGCTTATTTT
*
27359 TTGA-TTGTTTAA-
1 TTGATTTGTTAAAG
27371 TTGATTTG-TAAAG
1 TTGATTTGTTAAAG
* *
27384 GTGATTTGTAAAAG
1 TTGATTTGTTAAAG
27398 TTGATTTGTT
1 TTGATTTGTT
27408 TAATTGATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 7 0.24
13 10 0.34
14 12 0.41
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (14 bp):
TTGATTTGTTAAAG
Found at i:27607 original size:19 final size:19
Alignment explanation
Indices: 27585--27702 Score: 76
Period size: 19 Copynumber: 6.7 Consensus size: 19
27575 CAAAATTAAA
27585 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
27604 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
27619 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
27637 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
27652 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
27670 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
27689 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
27703 GGACATTAAG
Statistics
Matches: 73, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
14 17 0.23
16 6 0.08
17 6 0.08
19 34 0.47
20 10 0.14
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:27631 original size:33 final size:33
Alignment explanation
Indices: 27589--27682 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
27579 ATTAAATTCG
27589 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
27622 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
27655 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
27683 AGTAATTTCC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:29990 original size:12 final size:12
Alignment explanation
Indices: 29973--29997 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29963 TCTTCGGGGA
29973 CTTTTTCTTCTT
1 CTTTTTCTTCTT
29985 CTTTTTCTTCTT
1 CTTTTTCTTCTT
29997 C
1 C
29998 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:31493 original size:14 final size:14
Alignment explanation
Indices: 31474--31510 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
31464 CATCAATTAA
31474 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
31488 ACAAATCATCTTTT
1 ACAAATCAACATTT
31502 ACAAATCAA
1 ACAAATCAA
31511 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:31902 original size:20 final size:20
Alignment explanation
Indices: 31877--32073 Score: 385
Period size: 20 Copynumber: 9.8 Consensus size: 20
31867 TTCATTTGAC
31877 TATCGCAACGCGAAAATGGT
1 TATCGCAACGCGAAAATGGT
31897 TATCGCAACGCGAAAATGGT
1 TATCGCAACGCGAAAATGGT
31917 TATCGCAACGCGAAAATGGT
1 TATCGCAACGCGAAAATGGT
31937 TATCGCAACGCGAAAATGGT
1 TATCGCAACGCGAAAATGGT
31957 TATCGCAACGCGAAAATGGT
1 TATCGCAACGCGAAAATGGT
31977 TATCGCAACGCGAAAATGGT
1 TATCGCAACGCGAAAATGGT
31997 TATCGCAACGCGAAAATGGT
1 TATCGCAACGCGAAAATGGT
32017 TATCGCAACGCGAAAATGGT
1 TATCGCAACGCGAAAATGGT
32037 TATCGCAACGCGAAAATGGT
1 TATCGCAACGCGAAAATGGT
*
32057 TATCGCAACGAGAAAAT
1 TATCGCAACGCGAAAAT
32074 CGCAATGCGA
Statistics
Matches: 176, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
20 176 1.00
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (20 bp):
TATCGCAACGCGAAAATGGT
Found at i:32224 original size:14 final size:14
Alignment explanation
Indices: 32205--32241 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
32195 CATCAATTAA
32205 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
32219 ACAAATCATCTTTT
1 ACAAATCAACATTT
32233 ACAAATCAA
1 ACAAATCAA
32242 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:32633 original size:20 final size:20
Alignment explanation
Indices: 32608--32664 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
32598 TTCATTTGAC
*
32608 TATCGCAATGCGAAAATGGT
1 TATCGCAACGCGAAAATGGT
32628 TATCGCAACGCGAAAATGGT
1 TATCGCAACGCGAAAATGGT
*
32648 TATCGCAACGAGAAAAT
1 TATCGCAACGCGAAAAT
32665 CGCAATGCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.21
Consensus pattern (20 bp):
TATCGCAACGCGAAAATGGT
Found at i:32724 original size:19 final size:19
Alignment explanation
Indices: 32683--32769 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
32673 GAAATGAAAA
32683 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
32699 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
32716 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
32735 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
32754 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
32770 TCGTTGCGAT
Statistics
Matches: 66, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.17
16 3 0.05
17 3 0.05
19 49 0.74
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:32753 original size:38 final size:33
Alignment explanation
Indices: 32683--32798 Score: 151
Period size: 33 Copynumber: 3.4 Consensus size: 33
32673 GAAATGAAAA
32683 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
32716 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTC---TCG--TTGCGATTTTCATT
***
32754 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
*
32787 TCGCGTTGCGAT
1 TCGCATTGCGAT
32799 AGTCTGTTTT
Statistics
Matches: 74, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
33 38 0.51
35 3 0.04
36 3 0.04
38 30 0.41
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.44
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
Found at i:32905 original size:14 final size:14
Alignment explanation
Indices: 32886--32922 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
32876 CATCAATTAA
32886 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
32900 ACAAATCATCTTTT
1 ACAAATCAACATTT
32914 ACAAATCAA
1 ACAAATCAA
32923 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:34812 original size:19 final size:18
Alignment explanation
Indices: 34786--34923 Score: 130
Period size: 18 Copynumber: 7.9 Consensus size: 18
34776 ACGAAACTTA
34786 AAATCGCAACGCGAAATG
1 AAATCGCAACGCGAAATG
*
34804 ACTATCGCAACGCGGAAATGG
1 A-AATCGCAACGC-GAAAT-G
** *
34825 CTATCGCAATGCGAAATG
1 AAATCGCAACGCGAAATG
*
34843 AAAATCGCAA--CGACA--
1 -AAATCGCAACGCGAAATG
34858 AAATCGCAACGCGAAATG
1 AAATCGCAACGCGAAATG
*
34876 AAATCGCAA--CGACA--
1 AAATCGCAACGCGAAATG
34890 AAATCGCAACGCGAAATG
1 AAATCGCAACGCGAAATG
34908 AAATCGCAACGCGAAA
1 AAATCGCAACGCGAAA
34924 CACAAATCGC
Statistics
Matches: 99, Mismatches: 9, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
14 18 0.18
16 12 0.12
17 4 0.04
18 27 0.27
19 22 0.22
20 15 0.15
21 1 0.01
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.12
Consensus pattern (18 bp):
AAATCGCAACGCGAAATG
Found at i:34812 original size:39 final size:36
Alignment explanation
Indices: 34769--34934 Score: 141
Period size: 32 Copynumber: 4.6 Consensus size: 36
34759 TAGTTTACTT
*
34769 TCGCAACACGAAACTTAAAATCGCAACGCGAAATGACTA
1 TCGCAACACGAAAC--AAAATCGCAACGCGAAATGA-AA
* **** *
34808 TCGCAACGCGGAAATGGCTATCGCAATGCGAAATGAAAA
1 TCGCAACAC-GAAA-CAAAATCGCAACGCGAAATG-AAA
34847 TCGC-A-ACG--ACAAAATCGCAACGCGAAATGAAA
1 TCGCAACACGAAACAAAATCGCAACGCGAAATGAAA
34879 TCGC-A-ACG--ACAAAATCGCAACGCGAAATGAAA
1 TCGCAACACGAAACAAAATCGCAACGCGAAATGAAA
*
34911 TCGCAACGCGAAACACAAATCGCA
1 TCGCAACACGAAACA-AAATCGCA
34935 TTGCGATTTT
Statistics
Matches: 105, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
32 39 0.37
33 16 0.15
34 3 0.03
36 4 0.04
37 9 0.09
38 1 0.01
39 28 0.27
40 5 0.05
ACGTcount: A:0.43, C:0.25, G:0.19, T:0.12
Consensus pattern (36 bp):
TCGCAACACGAAACAAAATCGCAACGCGAAATGAAA
Found at i:34862 original size:14 final size:14
Alignment explanation
Indices: 34843--34900 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
34833 ATGCGAAATG
34843 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
34857 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
34873 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
34889 AAAATCGCAACG
1 AAAATCGCAACG
34901 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:34885 original size:32 final size:32
Alignment explanation
Indices: 34827--34918 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 32
34817 GGAAATGGCT
*
34827 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
34860 ATCGCAACGCGAAATGAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAATCGCAACGACAAA
34892 ATCGCAACGCGAAATGAAATCGCAACG
1 ATCGCAACGCGAAATGAAATCGCAACG
34919 CGAAACACAA
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 43 0.74
33 15 0.26
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.11
Consensus pattern (32 bp):
ATCGCAACGCGAAATGAAATCGCAACGACAAA
Found at i:34952 original size:19 final size:17
Alignment explanation
Indices: 34930--35025 Score: 78
Period size: 19 Copynumber: 5.6 Consensus size: 17
34920 GAAACACAAA
34930 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGA-TTTCATT
*
34949 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
34965 TCG-TTGCGATTTCATT
1 TCGCTTGCGATTTCATT
*
34981 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
34997 TCG-TTGCGATTTTCATT
1 TCGCTTGCGA-TTTCATT
35014 TCGCATTGCGAT
1 TCGC-TTGCGAT
35026 AGCCATTTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
14 15 0.24
15 3 0.05
16 12 0.19
17 4 0.06
18 13 0.21
19 16 0.25
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (17 bp):
TCGCTTGCGATTTCATT
Found at i:34971 original size:14 final size:14
Alignment explanation
Indices: 34952--35009 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
34942 TTTCATTTCG
34952 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
34966 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
34982 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
34998 CGTTGCGATTTT
1 CGTTGCGATTTT
35010 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:35016 original size:33 final size:33
Alignment explanation
Indices: 34935--35025 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
34925 ACAAATCGCA
34935 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
34968 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
35000 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
35026 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:35044 original size:20 final size:19
Alignment explanation
Indices: 35010--35064 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
35000 TTGCGATTTT
*
35010 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
35029 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
35049 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
35065 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:35563 original size:18 final size:18
Alignment explanation
Indices: 35537--35581 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
35527 GTCGATCAGA
*
35537 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
35555 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
35573 TGATGGCTC
1 TGATGGCTC
35582 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:36925 original size:20 final size:20
Alignment explanation
Indices: 36900--36937 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
36890 AATAGTTTCT
36900 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
36920 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
36938 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:37225 original size:22 final size:22
Alignment explanation
Indices: 37200--37243 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
37190 GATTTAGATA
37200 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
37222 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
37244 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:37453 original size:20 final size:20
Alignment explanation
Indices: 37428--37521 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
37418 GATTATGTAT
37428 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
37448 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
37468 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
37489 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
37509 TATCGCATTGCGA
1 TATCGCGTTGCGA
37522 TTTTCTCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:37493 original size:41 final size:42
Alignment explanation
Indices: 37448--37583 Score: 118
Period size: 41 Copynumber: 3.3 Consensus size: 42
37438 CGAAAGTCAG
* * * *
37448 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTAT
1 TATCGCGTTGCGAAAGTAAGTATCGCATTGCGATTTTCTCAA
* * *
37489 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCTCAA
1 TATCGCGTTGCGAAAGTAAGTATCGCATTGCGATTTTCTCAA
** ** * *
37531 T-TCGCGTTGCG-ATTTACTTATTCGCATTGCGAATTTCCCAA
1 TATCGCGTTGCGAAAGTAAGTA-TCGCATTGCGATTTTCTCAA
37572 T-TCGCGTTGCGA
1 TATCGCGTTGCGA
37584 TTTACTTATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
40 3 0.04
41 70 0.92
42 3 0.04
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (42 bp):
TATCGCGTTGCGAAAGTAAGTATCGCATTGCGATTTTCTCAA
Found at i:37522 original size:20 final size:20
Alignment explanation
Indices: 37408--37522 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
37398 CGCTTTGAAA
*
37408 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
37429 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
37449 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
37469 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
37490 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
37510 ATCGCATTGCGAT
1 ATCGCATTGCGAT
37523 TTTCTCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:37555 original size:20 final size:20
Alignment explanation
Indices: 37511--37603 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
37501 ATAGTCAGTA
*
37511 TCGCATTGCGATTTTCTCAAT
1 TCGCATTGCGATTTACT-AAT
* *
37532 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
* *
37552 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTAAT
* *
37573 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
37593 TCGCATTGCGA
1 TCGCATTGCGA
37604 ATTGGGAAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.47
21 31 0.53
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACTAAT
Found at i:37584 original size:41 final size:41
Alignment explanation
Indices: 37511--37606 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
37501 ATAGTCAGTA
* *
37511 TCGCATTGCGATTTTCTCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
37552 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
37593 TCGCATTGCGAATT
1 TCGCATTGCGAATT
37607 GGGAAAATCG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:45130 original size:22 final size:23
Alignment explanation
Indices: 45105--45151 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
45095 TAAAATGTTA
*
45105 AATTATAAAGTA-TTAAACATAT
1 AATTATAAAGTAGTTAAAAATAT
*
45127 AATTATAAATTAGTTAAAAATAT
1 AATTATAAAGTAGTTAAAAATAT
45150 AA
1 AA
45152 ATGTAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (23 bp):
AATTATAAAGTAGTTAAAAATAT
Found at i:47126 original size:12 final size:12
Alignment explanation
Indices: 47109--47139 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
47099 ATTAATTTAT
47109 ATATTTTCAAAG
1 ATATTTTCAAAG
47121 ATATTTTCAAAG
1 ATATTTTCAAAG
47133 ATATTTT
1 ATATTTT
47140 ATAAGTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (12 bp):
ATATTTTCAAAG
Found at i:52744 original size:9 final size:9
Alignment explanation
Indices: 52730--52756 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
52720 TTTTATCAAA
52730 CACTTGGTG
1 CACTTGGTG
52739 CACTTGGTG
1 CACTTGGTG
52748 CACTTGGTG
1 CACTTGGTG
52757 AATGCCTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (9 bp):
CACTTGGTG
Found at i:71190 original size:19 final size:19
Alignment explanation
Indices: 71168--71206 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
71158 TAAAATAATT
*
71168 ATTT-ATTTATTTTTTATAA
1 ATTTGATTT-TTTTTAATAA
71187 ATTTGATTTTTTTTAATAA
1 ATTTGATTTTTTTTAATAA
71206 A
1 A
71207 AAATGACGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
ATTTGATTTTTTTTAATAA
Found at i:71839 original size:2 final size:2
Alignment explanation
Indices: 71832--71861 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
71822 ACATATTACA
71832 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71862 CTGGAAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72810 original size:20 final size:20
Alignment explanation
Indices: 72785--72836 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
72775 TATTCCCTTG
**
72785 TAATCTTACATTTTTACTGA
1 TAATCTTACATTTCCACTGA
*
72805 TAATCTTACATTTCCACTGG
1 TAATCTTACATTTCCACTGA
*
72825 TAATTTTACATT
1 TAATCTTACATT
72837 CCGTAAACCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (20 bp):
TAATCTTACATTTCCACTGA
Found at i:75084 original size:44 final size:44
Alignment explanation
Indices: 75021--75115 Score: 176
Period size: 44 Copynumber: 2.2 Consensus size: 44
75011 GATGACATAA
75021 TATTTCAAACAGTTGATAGATGTCAAAATATAAACGAAGAGTCG
1 TATTTCAAACAGTTGATAGATGTCAAAATATAAACGAAGAGTCG
75065 TATTTCAAACAGTTGATAGATGTCAAAATATAAACGAAGAGTCG
1 TATTTCAAACAGTTGATAGATGTCAAAATATAAACGAAGAGTCG
75109 -A-TTCAAA
1 TATTTCAAA
75116 AATATACAGC
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 6 0.12
43 1 0.02
44 44 0.86
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (44 bp):
TATTTCAAACAGTTGATAGATGTCAAAATATAAACGAAGAGTCG
Found at i:78622 original size:2 final size:2
Alignment explanation
Indices: 78615--78667 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
78605 AATTAAAAAT
78615 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78657 TA TA TA TA TA T
1 TA TA TA TA TA T
78668 CAGATCAAGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:84165 original size:3 final size:3
Alignment explanation
Indices: 84151--84191 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
84141 AAATATGTAA
*
84151 AAT AAT ATT AAT AAT AAT AAT AAT ACAT -AT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AA
84192 GAACGAGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:84495 original size:48 final size:48
Alignment explanation
Indices: 84427--84815 Score: 416
Period size: 48 Copynumber: 8.4 Consensus size: 48
84417 CCGCTGTCAC
* * * * ** *
84427 AGGGAATACCAAACCTTGGAAAAAAGAGATATGTTCCGCTT-CTTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTAC-TCTGA
* *
84475 AGGGAATATCAAATCATGGA-AAAAGAGACCTGTTCCACTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
* * * *
84522 AGGGAATGTCAGATC-T---G--G-TAGACTTGTTCCACTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
*
84563 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCGCTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
* * * **
84611 AGGAAATATCAGATCTTGGAGAAGATAGATTTGTTCCACTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
* *
84659 AGGGAATATCAAATCTTTGAGAAGAGAGACCTGTTCCGCTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
* * * *
84707 AGGGAATATCAGATC-T---G--G-CAGACTTGTTCCACTTACTCTAA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
84748 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
*
84796 AGGGAATATCAGATC-TGGAG
1 AGGGAATATCAAATCTTGGAG
84816 GAGTTGATCC
Statistics
Matches: 286, Mismatches: 39, Indels: 33
0.80 0.11 0.09
Matches are distributed among these distances:
41 67 0.23
42 3 0.01
44 1 0.00
45 2 0.01
46 1 0.00
47 43 0.15
48 169 0.59
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (48 bp):
AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
Found at i:84613 original size:89 final size:89
Alignment explanation
Indices: 84470--84813 Score: 528
Period size: 89 Copynumber: 3.8 Consensus size: 89
84460 TTCCGCTTCT
* * *
84470 TCTGAAGGGAATATCAAATCATGGA-AAAAGAGACCTGTTCCACTTACTCTGAAGGGAATGTCAG
1 TCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAG
84534 ATCTGGTAGACTTGTTCCACTTAC
66 ATCTGGTAGACTTGTTCCACTTAC
* *
84558 TCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCGCTTACTCTGAAGGAAATATCAG
1 TCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAG
*
84623 ATCTTGGAGAAGATAGATTTGTTCCACTTAC
66 ATC-T---G--G-TAGACTTGTTCCACTTAC
* *
84654 TCTGAAGGGAATATCAAATCTTTGAGAAGAGAGACCTGTTCCGCTTACTCTGAAGGGAATATCAG
1 TCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAG
*
84719 ATCTGGCAGACTTGTTCCACTTAC
66 ATCTGGTAGACTTGTTCCACTTAC
*
84743 TCTAAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAG
1 TCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAG
84808 ATCTGG
66 ATCTGG
84814 AGGAGTTGAT
Statistics
Matches: 235, Mismatches: 13, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
88 24 0.10
89 122 0.52
90 2 0.01
92 1 0.00
93 1 0.00
95 2 0.01
96 83 0.35
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (89 bp):
TCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAG
ATCTGGTAGACTTGTTCCACTTAC
Found at i:84703 original size:185 final size:183
Alignment explanation
Indices: 84453--84815 Score: 593
Period size: 185 Copynumber: 2.0 Consensus size: 183
84443 TGGAAAAAAG
*
84453 AGATATGTTCCGCTTCTTCTGAAGGGAATATCAAATCATGGAAAAAGAGACCTGTTCCACTTACT
1 AGATATGTTCCACTTCTTCTGAAGGGAATATCAAATCATGGAAAAAGAGACCTGTTCCACTTACT
* * *
84518 CTGAAGGGAATGTCAGATCTGGTAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGA
66 CTGAAGGGAATATCAGATCTGGCAGACTTGTTCCACTTACTCTAAAGGGAATATCAAATCTTGGA
*
84583 GAAGAGAGACCTGTTCCGCTTACTCTGAAGGAAATATCAGATCTTGGAGAAGAT
131 GAAGAGAGACCTGTTCCACTTACTCTGAAGGAAATATCAGATC-TGGAGAAGAT
* * * * *
84637 AGATTTGTTCCACTTAC-TCTGAAGGGAATATCAAATCTTTGAGAAGAGAGACCTGTTCCGCTTA
1 AGATATGTTCCACTT-CTTCTGAAGGGAATATCAAATCATGGA-AAAAGAGACCTGTTCCACTTA
84701 CTCTGAAGGGAATATCAGATCTGGCAGACTTGTTCCACTTACTCTAAAGGGAATATCAAATCTTG
64 CTCTGAAGGGAATATCAGATCTGGCAGACTTGTTCCACTTACTCTAAAGGGAATATCAAATCTTG
*
84766 GAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAGATCTGGAG
129 GAGAAGAGAGACCTGTTCCACTTACTCTGAAGGAAATATCAGATCTGGAG
84816 GAGTTGATCC
Statistics
Matches: 166, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
184 41 0.25
185 125 0.75
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (183 bp):
AGATATGTTCCACTTCTTCTGAAGGGAATATCAAATCATGGAAAAAGAGACCTGTTCCACTTACT
CTGAAGGGAATATCAGATCTGGCAGACTTGTTCCACTTACTCTAAAGGGAATATCAAATCTTGGA
GAAGAGAGACCTGTTCCACTTACTCTGAAGGAAATATCAGATCTGGAGAAGAT
Found at i:86001 original size:27 final size:27
Alignment explanation
Indices: 85951--86013 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
85941 CCTCCTTTTA
85951 TTTTTTTTC-TTTTCTTTCTCTTTC-T
1 TTTTTTTTCATTTTCTTTCTCTTTCAT
*
85976 TTTATTTTTCATTTT-TTGTCTTTTTCAT
1 TTT-TTTTTCATTTTCTT-TCTCTTTCAT
86004 TTTTTTTTCA
1 TTTTTTTTCA
86014 AGCGAAATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 3 0.09
26 8 0.24
27 18 0.55
28 4 0.12
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.78
Consensus pattern (27 bp):
TTTTTTTTCATTTTCTTTCTCTTTCAT
Found at i:98919 original size:3 final size:3
Alignment explanation
Indices: 98905--98945 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
98895 AAATATGTAA
*
98905 AAT AAT ATT AAT AAT AAT AAT AAT ACAT -AT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AA
98946 GAACGAGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:102603 original size:17 final size:18
Alignment explanation
Indices: 102572--102605 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
102562 AATAATTAAA
102572 TAAATTATAAAAAAATAC
1 TAAATTATAAAAAAATAC
*
102590 TAAA-TATAATAAAATA
1 TAAATTATAAAAAAATA
102606 TACCTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAATTATAAAAAAATAC
Found at i:104502 original size:14 final size:14
Alignment explanation
Indices: 104483--104564 Score: 81
Period size: 14 Copynumber: 6.4 Consensus size: 14
104473 AATATGTCTT
104483 TTTATGTTCGTTCA
1 TTTATGTTCGTTCA
*
104497 TTTATGTTTGTTCA
1 TTTATGTTCGTTCA
104511 TTTATGTTCG----
1 TTTATGTTCGTTCA
*
104521 TTTATGTTCATTCA
1 TTTATGTTCGTTCA
104535 TTTA---T-GTTCA
1 TTTATGTTCGTTCA
*
104545 TTTATGTTCGTTCG
1 TTTATGTTCGTTCA
104559 TTTATG
1 TTTATG
104565 CTTGTTTATA
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
10 17 0.31
11 1 0.02
13 1 0.02
14 36 0.65
ACGTcount: A:0.15, C:0.11, G:0.15, T:0.60
Consensus pattern (14 bp):
TTTATGTTCGTTCA
Found at i:104519 original size:24 final size:24
Alignment explanation
Indices: 104492--104590 Score: 119
Period size: 24 Copynumber: 4.1 Consensus size: 24
104482 TTTTATGTTC
*
104492 GTTCATTTATGTTTGTTCATTTAT
1 GTTCATTTATGTTCGTTCATTTAT
* *
104516 GTTCGTTTATGTTCATTCATTTAT
1 GTTCATTTATGTTCGTTCATTTAT
*
104540 GTTCATTTATGTTCGTTCGTTTAT
1 GTTCATTTATGTTCGTTCATTTAT
* * *
104564 GCTT-GTTTATATGCGTTCATTTAT
1 G-TTCATTTATGTTCGTTCATTTAT
104588 GTT
1 GTT
104591 TAGCACAATC
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
23 2 0.03
24 60 0.94
25 2 0.03
ACGTcount: A:0.15, C:0.11, G:0.15, T:0.59
Consensus pattern (24 bp):
GTTCATTTATGTTCGTTCATTTAT
Found at i:104524 original size:10 final size:10
Alignment explanation
Indices: 104505--104553 Score: 53
Period size: 10 Copynumber: 4.5 Consensus size: 10
104495 CATTTATGTT
104505 TGTTCATTTA
1 TGTTCATTTA
*
104515 TGTTCGTTTA
1 TGTTCATTTA
104525 TGTTCATTCATTTA
1 TG----TTCATTTA
104539 TGTTCATTTA
1 TGTTCATTTA
104549 TGTTC
1 TGTTC
104554 GTTCGTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 24 0.73
14 9 0.27
ACGTcount: A:0.16, C:0.12, G:0.12, T:0.59
Consensus pattern (10 bp):
TGTTCATTTA
Found at i:104546 original size:48 final size:48
Alignment explanation
Indices: 104492--104590 Score: 137
Period size: 48 Copynumber: 2.1 Consensus size: 48
104482 TTTTATGTTC
* * *
104492 GTTCATTTATGTTTGTTCATTTATG-TTCGTTTATGTTCATTCATTTAT
1 GTTCATTTATGTTCGTTCATTTATGCTT-GTTTATATGCATTCATTTAT
* *
104540 GTTCATTTATGTTCGTTCGTTTATGCTTGTTTATATGCGTTCATTTAT
1 GTTCATTTATGTTCGTTCATTTATGCTTGTTTATATGCATTCATTTAT
104588 GTT
1 GTT
104591 TAGCACAATC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
48 43 0.96
49 2 0.04
ACGTcount: A:0.15, C:0.11, G:0.15, T:0.59
Consensus pattern (48 bp):
GTTCATTTATGTTCGTTCATTTATGCTTGTTTATATGCATTCATTTAT
Found at i:104558 original size:38 final size:38
Alignment explanation
Indices: 104483--104564 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 38
104473 AATATGTCTT
* ** *
104483 TTTATGTTCGTTCATTTATGTTTGTTCATTTATGTTCG
1 TTTATGTTCATTCATTTATGTTCATTCATTTACGTTCG
*
104521 TTTATGTTCATTCATTTATGTTCATTTATGTT-CGTTCG
1 TTTATGTTCATTCATTTATGTTCATTCAT-TTACGTTCG
104559 TTTATG
1 TTTATG
104565 CTTGTTTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
38 36 0.95
39 2 0.05
ACGTcount: A:0.15, C:0.11, G:0.15, T:0.60
Consensus pattern (38 bp):
TTTATGTTCATTCATTTATGTTCATTCATTTACGTTCG
Found at i:105257 original size:16 final size:17
Alignment explanation
Indices: 105236--105268 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
105226 AGGGCTTGTA
105236 TTTTTCAT-AAAAGTTT
1 TTTTTCATAAAAAGTTT
*
105252 TTTTTCTTAAAAAGTTT
1 TTTTTCATAAAAAGTTT
105269 AAAAATAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (17 bp):
TTTTTCATAAAAAGTTT
Found at i:109284 original size:16 final size:18
Alignment explanation
Indices: 109255--109292 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
109245 TATAAATCAG
*
109255 TTTTTTAGTAATATTTTA
1 TTTTTTAGTAATATTTCA
109273 TTTTTTA-T-ATATTTCA
1 TTTTTTAGTAATATTTCA
109289 TTTT
1 TTTT
109293 ATTGTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 11 0.58
17 1 0.05
18 7 0.37
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTTTAGTAATATTTCA
Found at i:114655 original size:2 final size:2
Alignment explanation
Indices: 114648--114673 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
114638 ACACCACCAC
114648 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
114674 ATGGATTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:123335 original size:2 final size:2
Alignment explanation
Indices: 123328--123353 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
123318 ACAATTAATA
123328 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
123354 GTATTTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123708 original size:23 final size:24
Alignment explanation
Indices: 123663--123719 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
123653 ATATATATTT
**
123663 AATAATATAAAATTTTTCGAATAAA
1 AATAA-ATAAAATTTTTAAAATAAA
*
123688 CATAAATAAAA-TTTTAAAATAAA
1 AATAAATAAAATTTTTAAAATAAA
123711 AATAAATAA
1 AATAAATAA
123720 TTAATTGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 18 0.64
24 6 0.21
25 4 0.14
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.32
Consensus pattern (24 bp):
AATAAATAAAATTTTTAAAATAAA
Found at i:129562 original size:18 final size:18
Alignment explanation
Indices: 129541--129578 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
129531 TATTATATTG
*
129541 ATATTT-TTTATTTTTTTC
1 ATATTTATTT-TTTTTATC
129559 ATATTTATTTTTTTTATC
1 ATATTTATTTTTTTTATC
129577 AT
1 AT
129579 TTAACATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (18 bp):
ATATTTATTTTTTTTATC
Found at i:130303 original size:17 final size:18
Alignment explanation
Indices: 130278--130311 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
130268 TGACGTTCAA
130278 TGACGAATTATAATTGAT
1 TGACGAATTATAATTGAT
*
130296 TGAC-AATTGTAATTGA
1 TGACGAATTATAATTGA
130312 AAATTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (18 bp):
TGACGAATTATAATTGAT
Found at i:134668 original size:75 final size:75
Alignment explanation
Indices: 134545--134685 Score: 221
Period size: 75 Copynumber: 1.9 Consensus size: 75
134535 CATCATCGAG
* *
134545 TTCTGCCAAGGGAGTTGGCTTGGGACAACCAGCCACGGGGAAGCCTGAAATTCCTGAGAAGAAGT
1 TTCTGCCAAAGGAGTTGGCTTGGGAAAACCAGCCACGGGGAAGCCTGAAATTCCTGAGAAGAAGT
134610 CGGTTAGCCC
66 CGGTTAGCCC
* * *
134620 TTCTGCCAAAGGTGTTGG-TTAGGGAAAACCAGCCATGGTGAAGCCTGAAATTCCTGAGAAGAAG
1 TTCTGCCAAAGGAGTTGGCTT-GGGAAAACCAGCCACGGGGAAGCCTGAAATTCCTGAGAAGAAG
134684 TC
65 TC
134686 AGTCAACCCC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 2 0.03
75 58 0.97
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (75 bp):
TTCTGCCAAAGGAGTTGGCTTGGGAAAACCAGCCACGGGGAAGCCTGAAATTCCTGAGAAGAAGT
CGGTTAGCCC
Found at i:140389 original size:37 final size:37
Alignment explanation
Indices: 140348--140426 Score: 158
Period size: 37 Copynumber: 2.1 Consensus size: 37
140338 AAATTTGTTT
140348 AAGGAGTAAGCAGAGAAAAAGATAAGACAATGAACAC
1 AAGGAGTAAGCAGAGAAAAAGATAAGACAATGAACAC
140385 AAGGAGTAAGCAGAGAAAAAGATAAGACAATGAACAC
1 AAGGAGTAAGCAGAGAAAAAGATAAGACAATGAACAC
140422 AAGGA
1 AAGGA
140427 TTTATAATGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.57, C:0.10, G:0.25, T:0.08
Consensus pattern (37 bp):
AAGGAGTAAGCAGAGAAAAAGATAAGACAATGAACAC
Found at i:149132 original size:11 final size:11
Alignment explanation
Indices: 149108--149152 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
149098 TTGGTGCTGG
149108 AAACAAGATAA
1 AAACAAGATAA
* *
149119 AAATAAGATTA
1 AAACAAGATAA
149130 AAACAAGATAA
1 AAACAAGATAA
149141 AGAA-AAGATAA
1 A-AACAAGATAA
149152 A
1 A
149153 TGAATTGCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 27 0.93
12 2 0.07
ACGTcount: A:0.71, C:0.04, G:0.11, T:0.13
Consensus pattern (11 bp):
AAACAAGATAA
Found at i:149136 original size:22 final size:22
Alignment explanation
Indices: 149108--149149 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
149098 TTGGTGCTGG
149108 AAACAAGATAAA-AATAAGATTA
1 AAACAAGATAAAGAA-AAGATTA
149130 AAACAAGATAAAGAAAAGAT
1 AAACAAGATAAAGAAAAGAT
149150 AAATGAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.69, C:0.05, G:0.12, T:0.14
Consensus pattern (22 bp):
AAACAAGATAAAGAAAAGATTA
Found at i:153475 original size:11 final size:11
Alignment explanation
Indices: 153461--153487 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
153451 TTTTTTGAAA
153461 TTTTGGCTTTT
1 TTTTGGCTTTT
153472 TTTTGGCTTTT
1 TTTTGGCTTTT
153483 TTTTG
1 TTTTG
153488 TTGTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.19, T:0.74
Consensus pattern (11 bp):
TTTTGGCTTTT
Found at i:153847 original size:11 final size:11
Alignment explanation
Indices: 153823--153867 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
153813 TTGGTGCTGG
153823 AAACAAGATAA
1 AAACAAGATAA
* *
153834 AAATAAGATTA
1 AAACAAGATAA
153845 AAACAAGATAA
1 AAACAAGATAA
153856 AGAA-AAGATAA
1 A-AACAAGATAA
153867 A
1 A
153868 TGAATTGCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 27 0.93
12 2 0.07
ACGTcount: A:0.71, C:0.04, G:0.11, T:0.13
Consensus pattern (11 bp):
AAACAAGATAA
Found at i:153851 original size:22 final size:22
Alignment explanation
Indices: 153823--153864 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
153813 TTGGTGCTGG
153823 AAACAAGATAAA-AATAAGATTA
1 AAACAAGATAAAGAA-AAGATTA
153845 AAACAAGATAAAGAAAAGAT
1 AAACAAGATAAAGAAAAGAT
153865 AAATGAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.69, C:0.05, G:0.12, T:0.14
Consensus pattern (22 bp):
AAACAAGATAAAGAAAAGATTA
Found at i:156852 original size:16 final size:16
Alignment explanation
Indices: 156833--156866 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
156823 CAATATACGA
156833 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
156849 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
156865 AT
1 AT
156867 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:156940 original size:16 final size:18
Alignment explanation
Indices: 156908--156941 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
156898 TATTAATGTA
156908 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
156926 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
156942 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:157614 original size:130 final size:129
Alignment explanation
Indices: 157410--157656 Score: 422
Period size: 130 Copynumber: 1.9 Consensus size: 129
157400 AATTTTCTTC
* *
157410 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
**
157475 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAA-TTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
157540 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
157605 CCTAATTAAATGATTAATTTATTAAATTTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTTATTTAATTTAGGACCAAATTGAT
157657 TATATAAATA
Statistics
Matches: 110, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
129 26 0.24
130 84 0.76
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (129 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:158100 original size:35 final size:35
Alignment explanation
Indices: 158050--158125 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
158040 AATTGAATTT
* *
158050 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
158085 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
158120 AATTGA
1 AATTGA
158126 GAACTGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.01, G:0.24, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:160199 original size:39 final size:39
Alignment explanation
Indices: 160153--160234 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
160143 GAGAGTCCCT
*
160153 GTGATATAAGAATGGATAAATTAAGTTTTAGTCCCTGAA
1 GTGATATAAGAATGGATAAATTAAGTTTTAGTACCTGAA
160192 GTGATATAAGAATGGATAAATTAAGTTTTAGTACCTGAA
1 GTGATATAAGAATGGATAAATTAAGTTTTAGTACCTGAA
160231 GTGA
1 GTGA
160235 GGTTTAAGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (39 bp):
GTGATATAAGAATGGATAAATTAAGTTTTAGTACCTGAA
Done.