Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007857.1 Hibiscus syriacus cultivar Beakdansim tig00110218_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: 94273
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1557 original size:33 final size:34
Alignment explanation
Indices: 1505--1794 Score: 244
Period size: 33 Copynumber: 8.4 Consensus size: 34
1495 GAAAATACAA
* *
1505 CGCAACGCGAAATGAAAATCCCAAC-ATGAAAAT
1 CGCAATGCGAAATGAAAATCGCAACAATGAAAAT
* *
1538 CGCAATGCGGAAATG-AAATCGCAACGA-GAGAAT
1 CGCAATGC-GAAATGAAAATCGCAACAATGAAAAT
1571 CGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAAT
1 CGCAATGCGAAATGAAAATCGCAA--C--AATGAAAAT
* * * *
1609 CGCAACGAGAGAATCG-CAAT-GCGA-AATGAAAAT
1 CGCAATGCGA-AAT-GAAAATCGCAACAATGAAAAT
*
1642 CGCAATGCGAAATGAAAATCGCAATGCGAATGGAAAT
1 CGCAATGCGAAATGAAAATCGCAA--C-AATGAAAAT
1679 CGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAAT
1 CGCAATGCGAAATGAAAATCGCAA--C--AATGAAAAT
1717 CGCAA--CGAAA-G--AATCGCAATGCGAATGAAAAT
1 CGCAATGCGAAATGAAAATCGCAA--C-AATGAAAAT
* *
1749 CGCAATGCGAAATGAAAATCGCAACGA-GATAAT
1 CGCAATGCGAAATGAAAATCGCAACAATGAAAAT
1782 CGCAATGCGAAAT
1 CGCAATGCGAAAT
1795 TATAAACGCA
Statistics
Matches: 216, Mismatches: 19, Indels: 44
0.77 0.07 0.16
Matches are distributed among these distances:
31 1 0.00
32 26 0.12
33 87 0.40
34 13 0.06
35 4 0.02
36 5 0.02
37 44 0.20
38 29 0.13
39 6 0.03
40 1 0.00
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
CGCAATGCGAAATGAAAATCGCAACAATGAAAAT
Found at i:1558 original size:19 final size:19
Alignment explanation
Indices: 1530--1772 Score: 324
Period size: 19 Copynumber: 13.7 Consensus size: 19
1520 AAATCCCAAC
1530 ATGAAAATCGCAATGCGGAA
1 ATGAAAATCGCAATGC-GAA
1550 ATG-AAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
*
1564 A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
1582 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
1601 ATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
*
1616 A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
1634 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
1653 ATGAAAATCGCAATGCG-A
1 ATGAAAATCGCAATGCGAA
*
1671 ATGGAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
1690 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
1709 ATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAA
1726 A-G--AATCGCAATGCG-A
1 ATGAAAATCGCAATGCGAA
1741 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
1760 ATGAAAATCGCAA
1 ATGAAAATCGCAA
1773 CGAGATAATC
Statistics
Matches: 199, Mismatches: 6, Indels: 37
0.82 0.02 0.15
Matches are distributed among these distances:
13 1 0.01
14 27 0.14
15 3 0.02
16 9 0.05
17 8 0.04
18 31 0.16
19 117 0.59
20 3 0.02
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (19 bp):
ATGAAAATCGCAATGCGAA
Found at i:1562 original size:52 final size:51
Alignment explanation
Indices: 1505--1774 Score: 241
Period size: 52 Copynumber: 5.1 Consensus size: 51
1495 GAAAATACAA
1505 CGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATG-AAAT
1 CGCAACGCGAAATG-AAATCCCAACATGAAAATCGCAATGC-GAAATGAAAAT
* * * *
1557 CGCAACGAGAGAATCGCAATGCGAA-ATGAAAATCGCAATGCGAAATGAAAAT
1 CGCAACGCGA-AAT-GAAATCCCAACATGAAAATCGCAATGCGAAATGAAAAT
* * * *
1609 CGCAACGAGAGAATCGCAATGCGAA-ATGAAAATCGCAATGCGAAATGAAAAT
1 CGCAACGCGA-AAT-GAAATCCCAACATGAAAATCGCAATGCGAAATGAAAAT
* *
1661 CGCAATGCG-AATGGAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAAT
1 CGCAACGCGAAAT-GAAATCCCAA--C---ATGAAAATCGCAATGCGAAATGAAAAT
*
1717 CGCAA--CGAAA-G-AATCGCAATGCGAATGAAAATCGCAATGCGAAATGAAAAT
1 CGCAACGCGAAATGAAATCCCAA--C--ATGAAAATCGCAATGCGAAATGAAAAT
1768 CGCAACG
1 CGCAACG
1775 AGATAATCGC
Statistics
Matches: 194, Mismatches: 12, Indels: 23
0.85 0.05 0.10
Matches are distributed among these distances:
50 9 0.05
51 39 0.20
52 99 0.51
53 10 0.05
54 3 0.02
55 2 0.01
56 32 0.16
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (51 bp):
CGCAACGCGAAATGAAATCCCAACATGAAAATCGCAATGCGAAATGAAAAT
Found at i:1891 original size:19 final size:19
Alignment explanation
Indices: 1801--1883 Score: 113
Period size: 20 Copynumber: 4.6 Consensus size: 19
1791 AAATTATAAA
1801 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
1820 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
1840 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
1856 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
1873 CGCATTGCGAT
1 CGCATTGCGAT
1884 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.11
16 7 0.12
17 7 0.12
19 17 0.30
20 19 0.34
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.43
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:2006 original size:14 final size:14
Alignment explanation
Indices: 1987--2023 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1977 CATCAATTAC
1987 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2001 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2015 ACAAATCAA
1 ACAAATCAA
2024 TTAAACATCA
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:3952 original size:19 final size:19
Alignment explanation
Indices: 3890--4022 Score: 110
Period size: 19 Copynumber: 7.6 Consensus size: 19
3880 ATAGTTACTT
* *
3890 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
3910 TCGC-ACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
3928 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
3947 TCGCAA--CG--A--CAAA
1 TCGCAACGCGAAATGAAAA
*
3960 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
3979 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
3993 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4012 TCGCAATGCGA
1 TCGCAACGCGA
4023 TTTGGTTTCG
Statistics
Matches: 93, Mismatches: 8, Indels: 25
0.74 0.06 0.20
Matches are distributed among these distances:
13 9 0.10
14 8 0.09
15 3 0.03
16 6 0.06
17 9 0.10
18 8 0.09
19 46 0.49
20 4 0.04
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:3971 original size:32 final size:32
Alignment explanation
Indices: 3924--4017 Score: 161
Period size: 32 Copynumber: 2.9 Consensus size: 32
3914 ACGCGAAACC
3924 AAAATCGCAACGCGAAATGAAAATCGCAACGA
1 AAAATCGCAACGCGAAATGAAAATCGCAACGA
* *
3956 CAAATCGCAATGCGAAATGAAAATCGCAACGA
1 AAAATCGCAACGCGAAATGAAAATCGCAACGA
3988 AAGAATCGCAACGCGAAATGAAAATCGCAA
1 AA-AATCGCAACGCGAAATGAAAATCGCAA
4018 TGCGATTTGG
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 31 0.54
33 26 0.46
ACGTcount: A:0.49, C:0.21, G:0.19, T:0.11
Consensus pattern (32 bp):
AAAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:4063 original size:33 final size:33
Alignment explanation
Indices: 4018--4108 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
4008 AAAATCGCAA
4018 TGCGA-TTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
4050 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
4083 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
4109 TGGTTTCGCG
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 5 0.09
33 48 0.87
34 2 0.04
ACGTcount: A:0.08, C:0.19, G:0.29, T:0.45
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:4345 original size:89 final size:93
Alignment explanation
Indices: 4188--4564 Score: 683
Period size: 89 Copynumber: 4.1 Consensus size: 93
4178 TTGAATGGAT
4188 AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
1 AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
4253 GTTTAGCAGAATTGGCAGCAACCGAACA
66 GTTTAGCAGAATTGGCAGCAACCGAACA
4281 AATTTACTTTCAACCAAAAGAC-AAACAAAGAC-AA-A-TATTTCACAGTGTTAAAGAATACACA
1 AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
4342 GTTTAGCAGAATTGGCAGCAACCGAACA
66 GTTTAGCAGAATTGGCAGCAACCGAACA
*
4370 AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATAATATTTCACAGTGTT-AAGAATACACA
1 AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
4434 GTTTAGCCAGAATTGGCAGCAACCGAACA
66 GTTTAG-CAGAATTGGCAGCAACCGAACA
4463 AATTTACTTTCAACCAAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AATTTACTTTCAACC-AAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
4528 AGTTTAGCAGAATTGGCAGCAACCGAATA
65 AGTTTAGCAGAATTGGCAGCAACCGAACA
4557 AATTTACT
1 AATTTACT
4565 AAGCAATCTA
Statistics
Matches: 275, Mismatches: 2, Indels: 13
0.95 0.01 0.04
Matches are distributed among these distances:
89 76 0.28
90 11 0.04
91 4 0.01
92 28 0.10
93 73 0.27
94 66 0.24
95 17 0.06
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
GTTTAGCAGAATTGGCAGCAACCGAACA
Found at i:6276 original size:14 final size:14
Alignment explanation
Indices: 6257--6346 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
6247 TTGAAATGAA
6257 AATCGCAACGAGAG
1 AATCGCAACGAGAG
6271 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
6288 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
6304 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
6323 AATCGCAACGAGAG
1 AATCGCAACGAGAG
6337 AATCGCAACG
1 AATCGCAACG
6347 CGAAATTAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:6294 original size:33 final size:33
Alignment explanation
Indices: 6249--6363 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
6239 TCTTTTGGTT
6249 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
6282 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
6315 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
6348 GAAATTAAAATCGCAA
1 GAAATGAAAATCGCAA
6364 TGCGATTTTG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:6295 original size:19 final size:18
Alignment explanation
Indices: 6256--6368 Score: 79
Period size: 19 Copynumber: 6.8 Consensus size: 18
6246 GTTGAAATGA
6256 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
6271 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
6288 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
6304 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
6321 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
* *
6337 -AATCGCAACGCGAAATTA
1 AAATCGCAACGCGAGA-TG
*
6355 AAATCGCAATGCGA
1 AAATCGCAACGCGA
6369 TTTTGGTTTC
Statistics
Matches: 78, Mismatches: 5, Indels: 26
0.72 0.05 0.24
Matches are distributed among these distances:
14 24 0.31
16 15 0.19
17 11 0.14
19 28 0.36
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:6399 original size:14 final size:14
Alignment explanation
Indices: 6380--6434 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
6370 TTTGGTTTCG
6380 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
6394 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
6413 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
6427 CGTTGCGA
1 CGTTGCGA
6435 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:6412 original size:33 final size:33
Alignment explanation
Indices: 6364--6434 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
6354 AAAATCGCAA
**
6364 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
6397 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
6430 TGCGA
1 TGCGA
6435 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:6442 original size:33 final size:33
Alignment explanation
Indices: 6375--6456 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
6365 GCGATTTTGG
***
6375 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
6408 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
6441 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
6457 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:6461 original size:20 final size:20
Alignment explanation
Indices: 6387--6475 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
6377 TCGCGTTGCG
6387 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
6407 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
6420 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
6440 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
6460 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
6476 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:6596 original size:33 final size:33
Alignment explanation
Indices: 6554--6624 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
6544 AATACTAACT
*
6554 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
6587 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
6620 TGAAA
1 TGAAA
6625 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:7020 original size:20 final size:20
Alignment explanation
Indices: 6995--7187 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
6985 CTTTAAATAT
6995 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
7015 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
7037 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
7056 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
7076 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
7096 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
7116 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
7136 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
7156 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
7176 CGCGTTGCGATT
1 CGCGTTGCGATT
7188 ATTGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:7182 original size:60 final size:60
Alignment explanation
Indices: 6995--7187 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
6985 CTTTAAATAT
**
6995 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
7056 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
7116 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
7176 CGCGTTGCGATT
1 CGCGTTGCGATT
7188 ATTGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:8207 original size:17 final size:19
Alignment explanation
Indices: 8185--8222 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8175 TAATAAAATC
*
8185 TAATAAT-TTT-ACTTTAT
1 TAATAATGTTTGACATTAT
8202 TAATAATGTTTGACATTAT
1 TAATAATGTTTGACATTAT
8221 TA
1 TA
8223 TTCAACTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 8 0.44
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
TAATAATGTTTGACATTAT
Found at i:10380 original size:31 final size:30
Alignment explanation
Indices: 10297--10381 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 30
10287 AACAAATATT
* * *
10297 AAATTTTAATTTAATCTCTAACTTTTAAATA
1 AAATATTAATTTAAT-TATAAATTTTAAATA
**
10328 AAATATTAAAATAATTAATAAATTTTAAATA
1 AAATATTAATTTAATT-ATAAATTTTAAATA
10359 AAATATTAATTTAATATATAAAT
1 AAATATTAATTTAAT-TATAAAT
10382 CTAATAAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
30 1 0.02
31 43 0.96
32 1 0.02
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (30 bp):
AAATATTAATTTAATTATAAATTTTAAATA
Found at i:12691 original size:37 final size:37
Alignment explanation
Indices: 12648--12722 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
12638 TTCGAAGAAA
12648 GCTCTTGTCATATTAATCCTCCATTCCCATCTACCAT
1 GCTCTTGTCATATTAATCCTCCATTCCCATCTACCAT
12685 GCTCTTGTCATATTAATCCTCCATTCCCATCTACCAT
1 GCTCTTGTCATATTAATCCTCCATTCCCATCTACCAT
12722 G
1 G
12723 AACCCAACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.21, C:0.35, G:0.07, T:0.37
Consensus pattern (37 bp):
GCTCTTGTCATATTAATCCTCCATTCCCATCTACCAT
Found at i:14965 original size:2 final size:2
Alignment explanation
Indices: 14958--14993 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
14948 TTTTATGTGT
14958 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
14994 AACATATACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16107 original size:21 final size:22
Alignment explanation
Indices: 16083--16137 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
16073 TATTTTTTCC
16083 ATATCATGTA-ATTCTATATAT
1 ATATCATGTATATTCTATATAT
* *
16104 ATAT-ACGTATTTTCTATATAT
1 ATATCATGTATATTCTATATAT
* *
16125 ATTTCATTTATAT
1 ATATCATGTATAT
16138 ACTTAGTATT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
20 4 0.15
21 17 0.65
22 5 0.19
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.53
Consensus pattern (22 bp):
ATATCATGTATATTCTATATAT
Found at i:16429 original size:21 final size:21
Alignment explanation
Indices: 16392--16435 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
16382 CATTCATTAA
*
16392 TTATTTATTCCATTTTTA-TT
1 TTATTTATTCCACTTTTACTT
*
16412 TTATTTATTTCCCCTTTTACTT
1 TTATTTA-TTCCACTTTTACTT
16434 TT
1 TT
16436 TACTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 9 0.45
22 4 0.20
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATTTATTCCACTTTTACTT
Found at i:19465 original size:17 final size:17
Alignment explanation
Indices: 19435--19477 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
19425 ATTAAAATAT
*
19435 TATTAAATAGA-AAAAAG
1 TATTAAATA-ACAAAAAA
19452 TA-TAAATAACAAAAAA
1 TATTAAATAACAAAAAA
19468 TATTAAATAA
1 TATTAAATAA
19478 GATTTAATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 1 0.04
16 13 0.57
17 9 0.39
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
TATTAAATAACAAAAAA
Found at i:22204 original size:11 final size:12
Alignment explanation
Indices: 22181--22218 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
22171 CAAAAATAAA
*
22181 AAAATACAAGAG
1 AAAAGACAAGAG
22193 AAAAGA-AAGAG
1 AAAAGACAAGAG
*
22204 AAAGGACAAGAG
1 AAAAGACAAGAG
22216 AAA
1 AAA
22219 GATGAAAGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.68, C:0.05, G:0.24, T:0.03
Consensus pattern (12 bp):
AAAAGACAAGAG
Found at i:22214 original size:12 final size:12
Alignment explanation
Indices: 22186--22219 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
22176 ATAAAAAAAT
*
22186 ACAAGAGAAAAG
1 ACAAGAGAAAGG
22198 A-AAGAGAAAGG
1 ACAAGAGAAAGG
22209 ACAAGAGAAAG
1 ACAAGAGAAAG
22220 ATGAAAGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.65, C:0.06, G:0.29, T:0.00
Consensus pattern (12 bp):
ACAAGAGAAAGG
Found at i:25447 original size:23 final size:22
Alignment explanation
Indices: 25413--25474 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
25403 CTTCTTCTTC
25413 CTTCTTTCCTTCCTTCCAACTTT
1 CTTC-TTCCTTCCTTCCAACTTT
**
25436 CTTTCTTCCTTCCTTCCTTCTTT
1 C-TTCTTCCTTCCTTCCAACTTT
*
25459 CTTCTTCTTCTCCTTC
1 CTTCTTCCT-TCCTTC
25475 TCCTTCTCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.21
23 24 0.71
24 3 0.09
ACGTcount: A:0.03, C:0.40, G:0.00, T:0.56
Consensus pattern (22 bp):
CTTCTTCCTTCCTTCCAACTTT
Found at i:25472 original size:19 final size:19
Alignment explanation
Indices: 25409--25475 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
25399 CCATCTTCTT
25409 CTTCCTTCTTTCCTTCCTTC
1 CTTCCTTCTTT-CTTCCTTC
** *
25429 CAACTTTCTTTCTTCCTTC
1 CTTCCTTCTTTCTTCCTTC
25448 CTTCCTTCTTTCTT-CTTC
1 CTTCCTTCTTTCTTCCTTC
*
25466 TTCTCCTTCT
1 CT-TCCTTCT
25476 CCTTCTCACA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
18 5 0.13
19 26 0.67
20 8 0.21
ACGTcount: A:0.03, C:0.40, G:0.00, T:0.57
Consensus pattern (19 bp):
CTTCCTTCTTTCTTCCTTC
Found at i:35121 original size:12 final size:12
Alignment explanation
Indices: 35103--35136 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
35093 CGAGCCATAC
35103 GTGACATACGGG
1 GTGACATACGGG
*
35115 TTGACATACGGG
1 GTGACATACGGG
35127 GTGACATACG
1 GTGACATACG
35137 AGCCAATGGT
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:0.26, C:0.18, G:0.35, T:0.21
Consensus pattern (12 bp):
GTGACATACGGG
Found at i:35146 original size:68 final size:68
Alignment explanation
Indices: 35039--35307 Score: 328
Period size: 68 Copynumber: 3.8 Consensus size: 68
35029 CAATCCAGGC
35039 GACATACGGG--GACATACGGGGTGACATACGAGCCAATGGTTCTCCCCATGCATACGAGCCATA
1 GACATACGGGTTGACATACGGGGTGACATACGAGCCAATGGTTCTCCCCATGCATACGAGCCATA
35102 CGT
66 CGT
35105 GACATACGGGTTGACATACGGGGTGACATACGAGCCAATGGTTCTCCCCATGCATACGAGCCATA
1 GACATACGGGTTGACATACGGGGTGACATACGAGCCAATGGTTCTCCCCATGCATACGAGCCATA
*
35170 CGA
66 CGT
* * * *
35173 GCCA-ATGGTTCTCCCCATGCGAGGTCGACATACGGGGTGACATACGAGCCAATGGTTCTCCCCA
1 GACATACGG--GT-----T--GA---C-ATA--CGGGGTGACATACGAGCCAATGGTTCTCCCCA
35237 TGCATACGAGCCATACGT
51 TGCATACGAGCCATACGT
*
35255 GACATACGGGTTAACATACGGGGTGACATACGAGCCAATGGTTCTCCCCATGC
1 GACATACGGGTTGACATACGGGGTGACATACGAGCCAATGGTTCTCCCCATGC
35308 GAGGTCGCCA
Statistics
Matches: 174, Mismatches: 11, Indels: 34
0.79 0.05 0.16
Matches are distributed among these distances:
66 10 0.06
67 3 0.02
68 93 0.53
69 1 0.01
70 2 0.01
71 1 0.01
74 2 0.01
76 3 0.02
79 1 0.01
80 2 0.01
81 1 0.01
82 52 0.30
83 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (68 bp):
GACATACGGGTTGACATACGGGGTGACATACGAGCCAATGGTTCTCCCCATGCATACGAGCCATA
CGT
Found at i:35386 original size:29 final size:29
Alignment explanation
Indices: 35342--35421 Score: 124
Period size: 29 Copynumber: 2.8 Consensus size: 29
35332 AGGAATAGAG
* *
35342 AGGTCGCCATGCAGTCTAGGCGACCTTGT
1 AGGTCGCCATGTAGTCCAGGCGACCTTGT
*
35371 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCAGGCGACCTTGT
*
35400 AGGTCGCCATGTAGTCCCGGCG
1 AGGTCGCCATGTAGTCCAGGCG
35422 CCATTCCCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.23
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCAGGCGACCTTGT
Found at i:35632 original size:25 final size:25
Alignment explanation
Indices: 35603--35654 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
35593 TGTACAATTA
35603 TTGGTGAAATAATTGAGGCAGCCGG
1 TTGGTGAAATAATTGAGGCAGCCGG
35628 TTGGTGAAATAATTGAGGCAGCCGG
1 TTGGTGAAATAATTGAGGCAGCCGG
35653 TT
1 TT
35655 ATAAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.12, G:0.35, T:0.27
Consensus pattern (25 bp):
TTGGTGAAATAATTGAGGCAGCCGG
Found at i:35718 original size:21 final size:21
Alignment explanation
Indices: 35694--35746 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
35684 TTGCAGCCGA
35694 GAAAGAAAGAAAGGGAGAAAG
1 GAAAGAAAGAAAGGGAGAAAG
35715 GAAAGAAAGAAAGGGAGAAAG
1 GAAAGAAAGAAAGGGAGAAAG
*
35736 GAAAGTAAGAA
1 GAAAGAAAGAA
35747 GAAGAAAGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (21 bp):
GAAAGAAAGAAAGGGAGAAAG
Found at i:35740 original size:17 final size:16
Alignment explanation
Indices: 35660--35723 Score: 58
Period size: 17 Copynumber: 3.9 Consensus size: 16
35650 CGGTTATAAA
35660 AGAAAGAAAGAAAGGG
1 AGAAAGAAAGAAAGGG
** * *
35676 AGAAGAGATTG-CAGCCG
1 AGAA-AGAAAGAAAG-GG
35693 AGAAAGAAAGAAAGGG
1 AGAAAGAAAGAAAGGG
35709 AGAAAGGAAAGAAAG
1 AGAAA-GAAAGAAAG
35724 AAAGGGAGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
16 16 0.44
17 20 0.56
ACGTcount: A:0.56, C:0.05, G:0.36, T:0.03
Consensus pattern (16 bp):
AGAAAGAAAGAAAGGG
Found at i:36012 original size:45 final size:46
Alignment explanation
Indices: 35909--36037 Score: 130
Period size: 45 Copynumber: 2.9 Consensus size: 46
35899 TACATAAATT
*
35909 AAAAATTATTTAATTAGTATATG-TTTG---ATAGTTA--TATAGTTA
1 AAAAATTATTTAATTAGT-T-TGTTTTGTTAATAGTTAGTTATAGTAA
*
35951 AAAAA-TAATTAATTAGTTTGTTTTGTTAATAGTTAGTTATA-TAA
1 AAAAATTATTTAATTAGTTTGTTTTGTTAATAGTTAGTTATAGTAA
*
35995 AAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTA
1 AAAAATTATTTAATTAGTTTGT-TTTGTT-AATAGTT-AGTTA
36038 GATTTGTTTG
Statistics
Matches: 73, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
39 2 0.03
40 5 0.07
41 11 0.15
42 5 0.07
43 7 0.10
44 7 0.10
45 19 0.26
46 5 0.07
47 7 0.10
48 5 0.07
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.47
Consensus pattern (46 bp):
AAAAATTATTTAATTAGTTTGTTTTGTTAATAGTTAGTTATAGTAA
Found at i:36109 original size:33 final size:34
Alignment explanation
Indices: 36060--36124 Score: 105
Period size: 33 Copynumber: 1.9 Consensus size: 34
36050 GAATTTATAT
36060 TATATAAAAAATTAGTTAGTAAGTTTATTAGTAG
1 TATATAAAAAATTAGTTAGTAAGTTTATTAGTAG
* *
36094 TATATAAAAAA-TAGTTTGTTAGTTTATTAGT
1 TATATAAAAAATTAGTTAGTAAGTTTATTAGT
36125 TTATTATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 18 0.62
34 11 0.38
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.45
Consensus pattern (34 bp):
TATATAAAAAATTAGTTAGTAAGTTTATTAGTAG
Found at i:36145 original size:15 final size:14
Alignment explanation
Indices: 36125--36155 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
36115 GTTTATTAGT
36125 TTATTATATTATAAG
1 TTATTATATTA-AAG
36140 TTATTATATTAAAG
1 TTATTATATTAAAG
36154 TT
1 TT
36156 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:36909 original size:19 final size:18
Alignment explanation
Indices: 36885--36940 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
36875 AATGATTATT
36885 ATCAAATCATTACTAAATC
1 ATCAAATCATTA-TAAATC
*
36904 ATCAAATCATTAAAAAT-
1 ATCAAATCATTATAAATC
*
36921 -TTAAATCATTATTAAATC
1 ATCAAATCATTA-TAAATC
36939 AT
1 AT
36941 TTTTATAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 10 0.32
17 4 0.13
18 4 0.13
19 13 0.42
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (18 bp):
ATCAAATCATTATAAATC
Found at i:37019 original size:124 final size:124
Alignment explanation
Indices: 36799--37202 Score: 763
Period size: 124 Copynumber: 3.3 Consensus size: 124
36789 TTTTAGTATC
*
36799 AAATCATTATTAAATCATTCTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAA
1 AAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAA
*
36864 ATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAAAATTT
66 ATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTT
*
36923 AAATCATTATTAAATCATTTTTATAATGATTATTATTAAATCATTATTATAATGATTATTATCAA
1 AAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAA
36988 ATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTT
66 ATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTT
*
37047 AAATCATTATTAAATCATTTTTATAAAGATTATTACTAAATCATTATTATAATGATTATTATCAA
1 AAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAA
*
37112 ATCATTACTATAATGATTATTATCAAATCATTACTAAATCATTAAATCATTAAATATTT
66 ATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTT
37171 AAATCATTATTAAATCATTTTTATAATGATTA
1 AAATCATTATTAAATCATTTTTATAATGATTA
37203 ATAAATACAT
Statistics
Matches: 273, Mismatches: 7, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
124 273 1.00
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (124 bp):
AAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAA
ATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTT
Found at i:37159 original size:8 final size:8
Alignment explanation
Indices: 37146--37179 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
37136 AAATCATTAC
37146 TAAATCAT
1 TAAATCAT
37154 TAAATCAT
1 TAAATCAT
37162 TAAAT-ATT
1 TAAATCA-T
37170 TAAATCAT
1 TAAATCAT
37178 TA
1 TA
37180 TTAAATCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 1 0.04
8 22 0.92
9 1 0.04
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (8 bp):
TAAATCAT
Found at i:37185 original size:98 final size:95
Alignment explanation
Indices: 36956--37202 Score: 257
Period size: 98 Copynumber: 2.5 Consensus size: 95
36946 TAATGATTAT
* * * * *
36956 TATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTA
1 TATTAAATCATTAATATAAAGATCATTATTAAATCATTATTATAATGATTATTATCAAATCATTA
*
37021 CTAAATCATCAAATCATTAAATATTTAAATC
66 CTAAATCAT-AAATCATCAAATATTTAAATC
** * *
37052 ATTATTAAATCATTTTTATAAAGATTATTACTAAATCATTATTATAATGATTATTATCAAATCAT
1 --TATTAAATCATTAATATAAAGATCATTATTAAATCATTATTATAATGATTATTATCAAATCAT
* * *
37117 TACTATAATGAT-TATTATCAAATCATTACTAAATC
64 TACTA-AATCATAAATCATCAAAT-ATT--TAAATC
* *
37152 -ATTAAATCATTAAATATTTAA-ATCATTATTAAATCATTTTTATAATGATTA
1 TATTAAATCATT-AATA-TAAAGATCATTATTAAATCATTATTATAATGATTA
37203 ATAAATACAT
Statistics
Matches: 128, Mismatches: 15, Indels: 12
0.83 0.10 0.08
Matches are distributed among these distances:
97 19 0.15
98 95 0.74
99 8 0.06
100 6 0.05
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (95 bp):
TATTAAATCATTAATATAAAGATCATTATTAAATCATTATTATAATGATTATTATCAAATCATTA
CTAAATCATAAATCATCAAATATTTAAATC
Found at i:37207 original size:23 final size:24
Alignment explanation
Indices: 36804--37208 Score: 229
Period size: 26 Copynumber: 16.5 Consensus size: 24
36794 GTATCAAATC
*
36804 ATTAT-TAAATCATTCTTATAATG
1 ATTATATAAATCATTATTATAATG
36827 ATTATTACTAAATCATTATTATAATG
1 ATTA-TA-TAAATCATTATTATAATG
*
36853 ATTATTATCAAATCATTACTATAATG
1 ATTA-TAT-AAATCATTATTATAATG
* *
36879 ATTATTATCAAATCATTACTA-AATC
1 ATTA-TAT-AAATCATTATTATAATG
* * * * * ** *
36904 ATCAAATCATTAAAAATT-TAAATC
1 ATTATATAAATCATTATTAT-AATG
*
36928 ATTAT-TAAATCATTTTTATAATG
1 ATTATATAAATCATTATTATAATG
36951 ATTATTATTAAATCATTATTATAATG
1 ATTA-TA-TAAATCATTATTATAATG
*
36977 ATTATTATCAAATCATTACTATAATG
1 ATTA-TAT-AAATCATTATTATAATG
* *
37003 ATTATTATCAAATCATTACTA-AATC
1 ATTA-TAT-AAATCATTATTATAATG
* * * * * * *
37028 ATCAAATCATTAAATATT-TAAATC
1 ATTATATAAATCATTATTAT-AATG
* *
37052 ATTAT-TAAATCATTTTTATAAAG
1 ATTATATAAATCATTATTATAATG
37075 ATTATTACTAAATCATTATTATAATG
1 ATTA-TA-TAAATCATTATTATAATG
*
37101 ATTATTATCAAATCATTACTATAATG
1 ATTA-TAT-AAATCATTATTATAATG
* *
37127 ATTATTATCAAATCATTACTA-AATC
1 ATTA-TAT-AAATCATTATTATAATG
* * * * * *
37152 ATTAAATCATTAAATATT-TAAATC
1 ATTATATAAATCATTATTAT-AATG
*
37176 ATTAT-TAAATCATTTTTATAATG
1 ATTATATAAATCATTATTATAATG
37199 ATTA-ATAAAT
1 ATTATATAAAT
37209 ACATAGAAAT
Statistics
Matches: 304, Mismatches: 56, Indels: 44
0.75 0.14 0.11
Matches are distributed among these distances:
23 66 0.22
24 34 0.11
25 22 0.07
26 182 0.60
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (24 bp):
ATTATATAAATCATTATTATAATG
Found at i:40088 original size:26 final size:24
Alignment explanation
Indices: 40030--40088 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
40020 CTAATAAACC
*
40030 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
40054 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
40082 TAATAAT
1 TAATAAT
40089 ATGATTTAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:40943 original size:28 final size:30
Alignment explanation
Indices: 40895--40957 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
40885 TTTTTTTATA
*
40895 TAATATAATATATAACTTAAACTAATAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
40925 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
40953 TAATA
1 TAATA
40958 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:40964 original size:28 final size:28
Alignment explanation
Indices: 40899--40964 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
40889 TTTATATAAT
*
40899 ATAATATATAACTTAAACTAATAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
40927 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
40955 ATAATTTATA
1 ATAATATATA
40965 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.88
29 2 0.06
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:40967 original size:21 final size:21
Alignment explanation
Indices: 40934--40982 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
40924 CTAATATAAT
40934 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
40955 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
40976 ATTAACT
1 A-TAACT
40983 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:41467 original size:17 final size:16
Alignment explanation
Indices: 41447--41576 Score: 114
Period size: 17 Copynumber: 8.4 Consensus size: 16
41437 CATCCCCTCC
41447 CCCATGCATTCCCACGT
1 CCCATGCATTCCCAC-T
* * *
41464 CCCATGCATCCCCTCC
1 CCCATGCATTCCCACT
41480 CCCATGCATTCCCACGT
1 CCCATGCATTCCCAC-T
41497 CCCAT-C--T--C-C-
1 CCCATGCATTCCCACT
41506 CCCATGCATTCCCAC-
1 CCCATGCATTCCCACT
41521 CCCATGCATTCCCACGT
1 CCCATGCATTCCCAC-T
* * *
41538 CCCATGCATCCCCTCC
1 CCCATGCATTCCCACT
41554 CCCATGCATTCCCACGT
1 CCCATGCATTCCCAC-T
41571 CCCATG
1 CCCATG
41577 TTGATTGCAT
Statistics
Matches: 91, Mismatches: 12, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
9 5 0.05
10 1 0.01
11 1 0.01
12 2 0.02
14 2 0.02
15 16 0.18
16 27 0.30
17 37 0.41
ACGTcount: A:0.16, C:0.53, G:0.09, T:0.22
Consensus pattern (16 bp):
CCCATGCATTCCCACT
Found at i:41479 original size:33 final size:34
Alignment explanation
Indices: 41419--41501 Score: 132
Period size: 33 Copynumber: 2.4 Consensus size: 34
41409 CCATGCACAG
*
41419 TTCCCACGTCCAATGCACCATCCCCTCCCCCATGCA
1 TTCCCACGTCCCATG--CCATCCCCTCCCCCATGCA
41455 TTCCCACGTCCCATG-CATCCCCTCCCCCATGCA
1 TTCCCACGTCCCATGCCATCCCCTCCCCCATGCA
41488 TTCCCACGTCCCAT
1 TTCCCACGTCCCAT
41502 CTCCCCCATG
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
33 32 0.70
36 14 0.30
ACGTcount: A:0.17, C:0.53, G:0.08, T:0.22
Consensus pattern (34 bp):
TTCCCACGTCCCATGCCATCCCCTCCCCCATGCA
Found at i:41483 original size:16 final size:16
Alignment explanation
Indices: 41441--41566 Score: 95
Period size: 16 Copynumber: 8.2 Consensus size: 16
41431 ATGCACCATC
41441 CCCTCCCCCATGCATT
1 CCCTCCCCCATGCATT
* * *
41457 CCCACGTCCCATGCATC
1 CCCTC-CCCCATGCATT
41474 CCCTCCCCCATGCATT
1 CCCTCCCCCATGCATT
* **
41490 CCCACGTCC---CA-T
1 CCCTCCCCCATGCATT
41502 --CTCCCCCATGCATT
1 CCCTCCCCCATGCATT
*
41516 CCC-ACCCCATGCATT
1 CCCTCCCCCATGCATT
* * *
41531 CCCACGTCCCATGCATC
1 CCCTC-CCCCATGCATT
41548 CCCTCCCCCATGCATT
1 CCCTCCCCCATGCATT
41564 CCC
1 CCC
41567 ACGTCCCATG
Statistics
Matches: 82, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
10 4 0.05
12 1 0.01
13 4 0.05
14 1 0.01
15 14 0.17
16 32 0.39
17 26 0.32
ACGTcount: A:0.15, C:0.56, G:0.08, T:0.21
Consensus pattern (16 bp):
CCCTCCCCCATGCATT
Found at i:41493 original size:26 final size:25
Alignment explanation
Indices: 41470--41520 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
41460 ACGTCCCATG
41470 CATCCC-CTCCCCCATGCATTCCCA
1 CATCCCACTCCCCCATGCATTCCCA
*
41494 CGTCCCATCTCCCCCATGCATTCCCA
1 CATCCCA-CTCCCCCATGCATTCCCA
41520 C
1 C
41521 CCCATGCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 5 0.21
26 19 0.79
ACGTcount: A:0.16, C:0.57, G:0.06, T:0.22
Consensus pattern (25 bp):
CATCCCACTCCCCCATGCATTCCCA
Found at i:41528 original size:41 final size:42
Alignment explanation
Indices: 41464--41542 Score: 133
Period size: 41 Copynumber: 1.9 Consensus size: 42
41454 ATTCCCACGT
*
41464 CCCATGCATCCCCTCCCCCATGCATTCCCACGTCCCATCTCC
1 CCCATGCATCCCCTACCCCATGCATTCCCACGTCCCATCTCC
*
41506 CCCATGCATTCCC-ACCCCATGCATTCCCACGTCCCAT
1 CCCATGCATCCCCTACCCCATGCATTCCCACGTCCCAT
41543 GCATCCCCTC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
41 23 0.66
42 12 0.34
ACGTcount: A:0.16, C:0.54, G:0.08, T:0.22
Consensus pattern (42 bp):
CCCATGCATCCCCTACCCCATGCATTCCCACGTCCCATCTCC
Found at i:41561 original size:33 final size:32
Alignment explanation
Indices: 41506--41576 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 32
41496 TCCCATCTCC
*
41506 CCCATGCATTCCCACCCCATGCATTCCCACGT
1 CCCATGCATCCCCACCCCATGCATTCCCACGT
*
41538 CCCATGCATCCCCTCCCCCATGCATTCCCACGT
1 CCCATGCATCCCC-ACCCCATGCATTCCCACGT
41571 CCCATG
1 CCCATG
41577 TTGATTGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 12 0.33
33 24 0.67
ACGTcount: A:0.17, C:0.52, G:0.10, T:0.21
Consensus pattern (32 bp):
CCCATGCATCCCCACCCCATGCATTCCCACGT
Found at i:41675 original size:28 final size:28
Alignment explanation
Indices: 41616--41703 Score: 149
Period size: 29 Copynumber: 3.1 Consensus size: 28
41606 AAATACACAC
*
41616 AGGTCGCCCGGATGCCATGGCGACCTCTA
1 AGGTCGCCCGGATG-CATGGCGACCTCCA
41645 AGGTCGCCCGGATGCATGGCGACCTCCA
1 AGGTCGCCCGGATGCATGGCGACCTCCA
41673 AGGTCGCCCGGATGGCATGGCGACCTCCA
1 AGGTCGCCCGGAT-GCATGGCGACCTCCA
41702 AG
1 AG
41704 ACCACTGTAG
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
28 26 0.46
29 31 0.54
ACGTcount: A:0.18, C:0.34, G:0.33, T:0.15
Consensus pattern (28 bp):
AGGTCGCCCGGATGCATGGCGACCTCCA
Found at i:55141 original size:31 final size:31
Alignment explanation
Indices: 55106--55182 Score: 145
Period size: 31 Copynumber: 2.5 Consensus size: 31
55096 TGTAAATTAA
55106 ATTCAAACTACTTTCGGATTGAATAAATCAG
1 ATTCAAACTACTTTCGGATTGAATAAATCAG
*
55137 ATTCACACTACTTTCGGATTGAATAAATCAG
1 ATTCAAACTACTTTCGGATTGAATAAATCAG
55168 ATTCAAACTACTTTC
1 ATTCAAACTACTTTC
55183 AGTTTGAGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.34
Consensus pattern (31 bp):
ATTCAAACTACTTTCGGATTGAATAAATCAG
Found at i:63395 original size:163 final size:167
Alignment explanation
Indices: 63088--63395 Score: 380
Period size: 167 Copynumber: 1.9 Consensus size: 167
63078 ATTTATTAAT
* *
63088 TAAAATCTATGATTATCTGTTTCAGCTGATGAATTTTTCTTTCCATTATCTGTTTTTTAGTGTAC
1 TAAAATCTATGATTATCTGTGTCAGCTGATGAATTTTTCTTTCCATTATCTGTTATTTAGTGTAC
* * * * * *
63153 TATTTGTTGTTTTTTCAGATGTGCTCTTGATATTGACCCCCAATTCTTGGGTTTATGAAGTAAAG
66 TATTTGTTGTTTTTTCAGATGTGCTATCGACATTAACCCCAAATTCATGGGTTTATGAAGTAAAG
*
63218 TCTGTTATTGAAGACTTGAGGGTAAAAAGATATGAAG
131 TCTATTATTGAAGACTTGAGGGTAAAAAGATATGAAG
* * * *
63255 TAAAATTTATTATTATCTGTGTCGGCT-ATGGAATTTTTCTTTTCA-T-TCT-TTAATTTAGTGT
1 TAAAATCTATGATTATCTGTGTCAGCTGAT-GAATTTTTCTTTCCATTATCTGTT-ATTTAGTGT
* * *
63316 ATTATTTGTTG-TTTTTGAGATGTGCTATCGGCATTAACTCCCAAATT-AT-GGTTTATGAAGTT
64 ACTATTTGTTGTTTTTTCAGATGTGCTATCGACATTAAC-CCCAAATTCATGGGTTTATGAAG-T
63378 AAA-TCTATTATTGAAGAC
127 AAAGTCTATTATTGAAGAC
63396 CTGATCAATT
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
163 25 0.21
164 28 0.23
165 28 0.23
166 3 0.02
167 37 0.31
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.45
Consensus pattern (167 bp):
TAAAATCTATGATTATCTGTGTCAGCTGATGAATTTTTCTTTCCATTATCTGTTATTTAGTGTAC
TATTTGTTGTTTTTTCAGATGTGCTATCGACATTAACCCCAAATTCATGGGTTTATGAAGTAAAG
TCTATTATTGAAGACTTGAGGGTAAAAAGATATGAAG
Found at i:64550 original size:20 final size:20
Alignment explanation
Indices: 64525--64564 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
64515 AGCAACAGAA
*
64525 TAAAAATGATTCTATCTAAT
1 TAAAAATGATCCTATCTAAT
64545 TAAAAATGATCCTATCTAAT
1 TAAAAATGATCCTATCTAAT
64565 AACTAATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAAATGATCCTATCTAAT
Found at i:64607 original size:20 final size:21
Alignment explanation
Indices: 64578--64617 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
64568 TAATAGAATA
*
64578 AAAAACTGATTCTATCTAATT
1 AAAAACTGATCCTATCTAATT
64599 AAAAA-TGATCCTATCTAAT
1 AAAAACTGATCCTATCTAAT
64618 AACTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAACTGATCCTATCTAATT
Found at i:64656 original size:20 final size:20
Alignment explanation
Indices: 64631--64669 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
64621 TAATAGAATA
*
64631 AAAATTGATTCTATCTAATT
1 AAAATTGATCCTATCTAATT
64651 AAAATTGATCCTATCTAAT
1 AAAATTGATCCTATCTAAT
64670 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (20 bp):
AAAATTGATCCTATCTAATT
Found at i:64660 original size:52 final size:51
Alignment explanation
Indices: 64521--64670 Score: 264
Period size: 53 Copynumber: 2.9 Consensus size: 51
64511 AATTAGCAAC
64521 AGAATAAAAATGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
1 AGAATAAAAATGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
64572 AGAATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
1 AGAAT-AAAAA-TGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
*
64625 AGAATAAAAATTGATTCTATCTAATTAAAATTGATCCTATCTAATA
1 AGAATAAAAA-TGATTCTATCTAATTAAAAATGATCCTATCTAATA
64671 TTTAATTTAG
Statistics
Matches: 95, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
51 5 0.05
52 44 0.46
53 46 0.48
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.34
Consensus pattern (51 bp):
AGAATAAAAATGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
Found at i:69265 original size:19 final size:20
Alignment explanation
Indices: 69238--69282 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
69228 ATTAGCAACA
*
69238 GAAT-AAAAATGATTCTATC
1 GAATAAAAAATGATCCTATC
*
69257 GAATTAAAAATGATCCTATC
1 GAATAAAAAATGATCCTATC
*
69277 TAATAA
1 GAATAA
69283 CTAATAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (20 bp):
GAATAAAAAATGATCCTATC
Found at i:69323 original size:20 final size:21
Alignment explanation
Indices: 69294--69333 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
69284 TAATAGAATA
*
69294 AAAAACTGATTCTATCTAATT
1 AAAAACTGATCCTATCTAATT
69315 AAAAA-TGATCCTATCTAAT
1 AAAAACTGATCCTATCTAAT
69334 AACTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAACTGATCCTATCTAATT
Found at i:69372 original size:20 final size:20
Alignment explanation
Indices: 69347--69385 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
69337 TAATAGAATA
69347 AAAACTGATTC-TATCTAATT
1 AAAACTGA-TCATATCTAATT
69367 AAAACTGATCATATCTAAT
1 AAAACTGATCATATCTAAT
69386 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCATATCTAATT
Found at i:69376 original size:52 final size:52
Alignment explanation
Indices: 69237--69386 Score: 257
Period size: 53 Copynumber: 2.9 Consensus size: 52
69227 AATTAGCAAC
*
69237 AGAATAAAAA-TGATTCTATCGAATTAAAAATGATCCTATCTAATAACTAAT
1 AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
69288 AGAATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
1 AGAAT-AAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
* *
69341 AGAATAAAAACTGATTCTATCTAATTAAAACTGATCATATCTAATA
1 AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATA
69387 TTTAATTTAG
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
51 5 0.05
52 44 0.47
53 45 0.48
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.32
Consensus pattern (52 bp):
AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
Found at i:77355 original size:213 final size:212
Alignment explanation
Indices: 76949--77355 Score: 593
Period size: 217 Copynumber: 1.9 Consensus size: 212
76939 GGTTTCGGGA
* *
76949 GTAAGTGTCGAACATGAGTAGGCTCAAAATTTGCCCACGTTTTCGTGTACGTGGAGGATCTTTTA
1 GTAAGTGTCGAACATGAGTAGGCTCAAAATTTGCCAACGTTTTAGTGTACGTGGAGGATCTTTTA
*
77014 GAGACTCCCATCTCCATCCTCATGTCCAAGAATGTGTTTAGTGTTTCCATATGTACTTCAGGAAA
66 GAGAATCCCATCTCCATCCTCATGTCCAAGAATGTGTTTA-----T-CATATGTACTTCAGGAAA
* * *
77079 AATGAAGAATCGGATTATCAAAGTTTAAGCTACTCGCTTGAATCTTATACAAGCTAAGACATGTG
125 AATGAAGAATCAGATTAACAAAGTTTAAGCTACTCGCTTGAATCGTATACAAGCTAAGACATGTG
77144 AGAGTTTTAATGTGGATATCCAT
190 AGAGTTTTAATGTGGATATCCAT
* * * * * * *
77167 GTAATTGTCGGACATG-GTAGGCTCAAAATTTTCCAAGGTTTTAGTGTTCGTGGTGGGTCTTTTA
1 GTAAGTGTCGAACATGAGTAGGCTCAAAATTTGCCAACGTTTTAGTGTACGTGGAGGATCTTTTA
*
77231 GATAATCCCATCTCCATCCTCATGTCCAAGAATGTGTTTA-CATATGTACTTCAGGAAAAAAAAT
66 GAGAATCCCATCTCCATCCTCATGTCCAAGAATGTGTTTATCATATGTACTTCAGG---AAAAAT
77295 GAAGAATCAGATTAACAAAGTTTAAGCTACTCGCTTGAATCGTATACAAGCTAAGACATGT
128 GAAGAATCAGATTAACAAAGTTTAAGCTACTCGCTTGAATCGTATACAAGCTAAGACATGT
77356 AATTGTGTAT
Statistics
Matches: 172, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
210 15 0.09
213 64 0.37
217 79 0.46
218 14 0.08
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (212 bp):
GTAAGTGTCGAACATGAGTAGGCTCAAAATTTGCCAACGTTTTAGTGTACGTGGAGGATCTTTTA
GAGAATCCCATCTCCATCCTCATGTCCAAGAATGTGTTTATCATATGTACTTCAGGAAAAATGAA
GAATCAGATTAACAAAGTTTAAGCTACTCGCTTGAATCGTATACAAGCTAAGACATGTGAGAGTT
TTAATGTGGATATCCAT
Found at i:85123 original size:29 final size:28
Alignment explanation
Indices: 85058--85114 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
85048 CTAAATATTC
*
85058 ATCAATATCACCCTTTAACAGACAAAGCG
1 ATCAATACCA-CCTTTAACAGACAAAGCG
*
85087 ATGAATACCACCTTCTAACAGACAAAGC
1 ATCAATACCACCTT-TAACAGACAAAGC
85115 TTCACATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.42, C:0.28, G:0.11, T:0.19
Consensus pattern (28 bp):
ATCAATACCACCTTTAACAGACAAAGCG
Found at i:91796 original size:30 final size:31
Alignment explanation
Indices: 91713--91849 Score: 118
Period size: 31 Copynumber: 4.5 Consensus size: 31
91703 TTGACGTCTT
*
91713 AGTAATCAAAACTTAATAAAACGATAACGTA
1 AGTAACCAAAACTTAATAAAACGATAACGTA
* * * *
91744 AGTAACTAAAAGTTAATGAAACGGTAACGTA
1 AGTAACCAAAACTTAATAAAACGATAACGTA
* **
91775 A-TGACCAAAACTTAATAAAACGATAATATA
1 AGTAACCAAAACTTAATAAAACGATAACGTA
* * * ***
91805 AGTGA-C-TAACTTAATAAAACAATAATACA
1 AGTAACCAAAACTTAATAAAACGATAACGTA
*
91834 AGTGACCAAAACTTAA
1 AGTAACCAAAACTTAA
91850 CTTTTTGAAT
Statistics
Matches: 87, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
29 25 0.29
30 25 0.29
31 37 0.43
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.23
Consensus pattern (31 bp):
AGTAACCAAAACTTAATAAAACGATAACGTA
Found at i:91820 original size:29 final size:29
Alignment explanation
Indices: 91783--91839 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
91773 TAATGACCAA
* *
91783 AACTTAATAAAACGATAATATAAGTGACT
1 AACTTAATAAAACAATAATACAAGTGACT
91812 AACTTAATAAAACAATAATACAAGTGAC
1 AACTTAATAAAACAATAATACAAGTGAC
91840 CAAAACTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.54, C:0.12, G:0.09, T:0.25
Consensus pattern (29 bp):
AACTTAATAAAACAATAATACAAGTGACT
Found at i:92267 original size:60 final size:59
Alignment explanation
Indices: 92168--92281 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 59
92158 ACGTCACTTG
* * *
92168 ACTATAGGATATTACTTTGGTGAGTCCTTCAATTATTAAAAGTTATAAAATGATCCTCCA
1 ACTATAGGATACTACTTTGGTGAGTCCTCCAACTATTAAAAGTTA-AAAATGATCCTCCA
* * * *
92228 ACTATAGGATACTATTTTGTTGAGTCAC-CCAACTGTTAAAAGTTACAAATGATC
1 ACTATAGGATACTACTTTGGTGAGTC-CTCCAACTATTAAAAGTTAAAAATGATC
92282 ACCTTACTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
59 8 0.17
60 37 0.80
61 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (59 bp):
ACTATAGGATACTACTTTGGTGAGTCCTCCAACTATTAAAAGTTAAAAATGATCCTCCA
Found at i:93539 original size:61 final size:61
Alignment explanation
Indices: 93399--93580 Score: 237
Period size: 59 Copynumber: 3.0 Consensus size: 61
93389 GTCGATAAAA
* *
93399 GTGAAGTTATGGATGTTACTAATCCTAGTAGTTAGGAGTCTTC-AATC-TG-ATAAATCACT
1 GTGAAGTTGTGGATGTTACTAATCCTAGTAGTTAGGAGTGTTCAAATCTTGCA-AAATCACT
* *
93458 GTGAAATTGTGGATGTTACTAATTCTAGTAGTTAGGAGTGTTCAAATCTTGCAAAATCACT
1 GTGAAGTTGTGGATGTTACTAATCCTAGTAGTTAGGAGTGTTCAAATCTTGCAAAATCACT
* * * *
93519 GTGAAGTTGTGGATATTACTAATGCTTAGTTGTTAGGATTGTTCAAAT-TTGGCAAAATCACT
1 GTGAAGTTGTGGATGTTACTAAT-CCTAGTAGTTAGGAGTGTTCAAATCTT-GCAAAATCACT
93581 TAAATATCAT
Statistics
Matches: 108, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
59 39 0.36
60 4 0.04
61 33 0.31
62 32 0.30
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (61 bp):
GTGAAGTTGTGGATGTTACTAATCCTAGTAGTTAGGAGTGTTCAAATCTTGCAAAATCACT
Done.