Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005650.1 Hibiscus syriacus cultivar Beakdansim tig00013205_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: 169512
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Found at i:1037 original size:12 final size:12
Alignment explanation
Indices: 1022--1081 Score: 59
Period size: 12 Copynumber: 5.0 Consensus size: 12
1012 CAGAAATTAA
1022 AACAGAATTCAG
1 AACAGAATTCAG
1034 AACAG-ATATCAG
1 AACAGAAT-TCAG
* *
1046 AACAGAATCCAT
1 AACAGAATTCAG
* * *
1058 ATCAGAAATCAT
1 AACAGAATTCAG
1070 AACAGAATTCAG
1 AACAGAATTCAG
1082 GTCATTTATC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
11 2 0.05
12 34 0.89
13 2 0.05
ACGTcount: A:0.50, C:0.18, G:0.13, T:0.18
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:1116 original size:24 final size:24
Alignment explanation
Indices: 1011--1116 Score: 81
Period size: 24 Copynumber: 4.4 Consensus size: 24
1001 AACGAAGATA
* *
1011 TCAGAAATTAAAACAGAATTC-AG
1 TCAGAAATCATAACAGAATTCAAG
* * * *
1034 AACAGATATCAGAACAGAATCCATA-
1 -TCAGAAATCATAACAGAATTCA-AG
*
1059 TCAGAAATCATAACAGAATTCAGG
1 TCAGAAATCATAACAGAATTCAAG
***
1083 TCATTTATCATAACAGAATTCAAG
1 TCAGAAATCATAACAGAATTCAAG
*
1107 TCGGAAATCA
1 TCAGAAATCA
1117 GATAAAATAT
Statistics
Matches: 61, Mismatches: 18, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
24 60 0.98
26 1 0.02
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (24 bp):
TCAGAAATCATAACAGAATTCAAG
Found at i:3571 original size:7 final size:7
Alignment explanation
Indices: 3559--3589 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
3549 TGGTCAACTC
3559 CGGTCAA
1 CGGTCAA
3566 CGGTCAA
1 CGGTCAA
3573 CGGTCAA
1 CGGTCAA
*
3580 TGGTCAA
1 CGGTCAA
3587 CGG
1 CGG
3590 GTCGGGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.32, T:0.16
Consensus pattern (7 bp):
CGGTCAA
Found at i:3599 original size:13 final size:13
Alignment explanation
Indices: 3581--3623 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
3571 AACGGTCAAT
3581 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
3594 GGTCAACGGATCG
1 GGTCAACGGGTCG
3607 GGTCAACGGGTCG
1 GGTCAACGGGTCG
3620 GGTC
1 GGTC
3624 GGGTTGTGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.16, C:0.23, G:0.44, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:10491 original size:29 final size:29
Alignment explanation
Indices: 10449--10507 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
10439 ATCAACGAAG
*
10449 AAGATGAACAGCAAGAAGGGGTATGCCAA
1 AAGATGAACAGCAAGAAGGGGTATACCAA
*
10478 AAGATGAACAGCAAGGAGGGGTATACCAA
1 AAGATGAACAGCAAGAAGGGGTATACCAA
10507 A
1 A
10508 GGCAAGATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.46, C:0.14, G:0.31, T:0.10
Consensus pattern (29 bp):
AAGATGAACAGCAAGAAGGGGTATACCAA
Found at i:12276 original size:21 final size:20
Alignment explanation
Indices: 12190--12347 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
12180 AAATGACCAA
**
12190 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
12209 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
12229 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
12249 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
12270 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
12291 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
12311 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
12332 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
12348 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:12338 original size:20 final size:20
Alignment explanation
Indices: 12314--12543 Score: 230
Period size: 20 Copynumber: 11.5 Consensus size: 20
12304 CGATTTTCCA
** *
12314 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGAATCCGT
*
12334 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATC-CGT
*
12354 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
**
12374 AAATCGCAACGC-ATATGGGT
1 AAATCGCAACGCGA-ATCCGT
* *
12394 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
12414 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
12434 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
12454 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
12474 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
12494 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
12514 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
*
12534 AAATCACAAC
1 AAATCGCAAC
12544 ACTGAAATTT
Statistics
Matches: 178, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
20 177 0.99
21 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Found at i:12668 original size:20 final size:20
Alignment explanation
Indices: 12631--12668 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12621 CTCTCTCCGG
*
12631 CGACATCCGTTCCTATCCAA
1 CGACATCCGTTCCAATCCAA
12651 CGACATCC-TTCCCAATCC
1 CGACATCCGTT-CCAATCC
12669 GGCAACAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.24, C:0.45, G:0.08, T:0.24
Consensus pattern (20 bp):
CGACATCCGTTCCAATCCAA
Found at i:13263 original size:24 final size:24
Alignment explanation
Indices: 13224--13270 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
13214 AAATTTGGTC
13224 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
13248 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
13271 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:13462 original size:12 final size:12
Alignment explanation
Indices: 13445--13469 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13435 ATATAATCCT
13445 GAAGAAGAAAAA
1 GAAGAAGAAAAA
13457 GAAGAAGAAAAA
1 GAAGAAGAAAAA
13469 G
1 G
13470 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:15841 original size:19 final size:19
Alignment explanation
Indices: 15801--15898 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
15791 GATTCTCTCG
15801 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
15821 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
15840 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
15854 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
15873 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
15892 TTGCGAT
1 TTGCGAT
15899 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:15895 original size:52 final size:53
Alignment explanation
Indices: 15782--15898 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
15772 GAAATGAAAA
15782 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
15835 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
15887 TCGCATTGCGAT
1 TCGCATTGCGAT
15899 AGTCAATTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:16024 original size:14 final size:14
Alignment explanation
Indices: 16005--16041 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
15995 CATCAATTAC
16005 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
16019 ACAAATCATCTTTT
1 ACAAATCAACTTTT
16033 ACAAATCAA
1 ACAAATCAA
16042 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:18040 original size:14 final size:14
Alignment explanation
Indices: 18021--18077 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
18011 GCGAAATGAA
*
18021 AATCGCAACGACAG
1 AATCGCAACGAAAG
18035 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
18052 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
18068 AATCGCAACG
1 AATCGCAACG
18078 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:18048 original size:33 final size:33
Alignment explanation
Indices: 18002--18094 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
17992 GCGAAACCAA
*
18002 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
18035 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
18068 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
18095 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:18059 original size:19 final size:19
Alignment explanation
Indices: 17965--18099 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
17955 TAGTTTACTT
* *
17965 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
17985 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
18004 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
18023 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
18037 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
18056 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
18070 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
18089 TCGCAATGCGA
1 TCGCAACGCGA
18100 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:18117 original size:19 final size:19
Alignment explanation
Indices: 18095--18223 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
18085 AAAATCGCAA
18095 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
18114 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
18128 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
18147 TACGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
18161 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
18180 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
18199 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
18219 TGCGA
1 TGCGA
18224 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 21 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 47 0.53
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:18137 original size:33 final size:33
Alignment explanation
Indices: 18095--18186 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
18085 AAAATCGCAA
18095 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
*
18128 TGCGATTTTGGTTTCGCGTTACGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
18161 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
18187 TTGGTTTCGC
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 52 0.96
34 2 0.04
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:18426 original size:93 final size:93
Alignment explanation
Indices: 18267--18740 Score: 912
Period size: 93 Copynumber: 5.1 Consensus size: 93
18257 TTGAATGGAT
*
18267 AAATTTACTTTCAACCAAAAGACAAAACAAAGAAAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
18332 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
18360 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
18425 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
18453 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
18518 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
18546 AAATTTACTTTCAACTAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
18611 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
18639 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
18704 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
18732 AAATTTACT
1 AAATTTACT
18741 AAGCAATCTA
Statistics
Matches: 375, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 375 1.00
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:20464 original size:14 final size:14
Alignment explanation
Indices: 20445--20534 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
20435 TTGAAATGAA
20445 AATCGCAACGAGAG
1 AATCGCAACGAGAG
20459 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
20476 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
20492 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
20511 AATCGCAACGAGAG
1 AATCGCAACGAGAG
20525 AATCGCAACG
1 AATCGCAACG
20535 CGAAATGAAA
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:0.41, C:0.24, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:20482 original size:33 final size:33
Alignment explanation
Indices: 20437--20551 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
20427 TCTTTTGGTT
20437 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
20470 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
20503 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
20536 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
20552 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:20483 original size:19 final size:18
Alignment explanation
Indices: 20444--20556 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
20434 GTTGAAATGA
20444 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
20459 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
20476 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
20492 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
20509 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
20525 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
20542 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
20557 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.42, C:0.23, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:20587 original size:14 final size:14
Alignment explanation
Indices: 20568--20621 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
20558 TTTGGTTTCG
20568 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
20582 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
20601 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
20615 CGTTGCG
1 CGTTGCG
20622 CTTTTCATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
16 3 0.09
17 3 0.09
19 10 0.30
ACGTcount: A:0.07, C:0.26, G:0.24, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:20600 original size:33 final size:33
Alignment explanation
Indices: 20552--20632 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
20542 AAAATCGCAA
**
20552 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
20585 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
20618 TGCGCTTTTCATTTC
1 TGCGATTTTCATTTC
20633 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.07, C:0.23, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:20668 original size:41 final size:41
Alignment explanation
Indices: 20608--20685 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
20598 TCGCGTTGCG
* *
20608 ATTCTCTCGTTGCGCTTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
20649 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
20686 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.12, C:0.27, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:20684 original size:21 final size:21
Alignment explanation
Indices: 20609--20684 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
20599 CGCGTTGCGA
*
20609 TTCTCTCGTTGCGCTTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
20630 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
20650 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
20671 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
20685 CTCTTCTGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.37
21 29 0.63
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:20810 original size:33 final size:33
Alignment explanation
Indices: 20763--20833 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
20753 AATACTAACT
* *
20763 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
20796 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
20829 TGAAA
1 TGAAA
20834 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:21041 original size:22 final size:22
Alignment explanation
Indices: 20989--21043 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
20979 ATATTGTGAG
**
20989 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
21011 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
21033 GGATTTCTTCG
1 GGATTTCTTCG
21044 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:21209 original size:39 final size:40
Alignment explanation
Indices: 21166--21247 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
21156 TACGCGTAGC
*
21166 GATTATAATGGCGCTTTA-A-ATATCGCGTTGCGATTTACG
1 GATTATAATGGCGATTTACAGAT-TCGCGTTGCGATTTACG
** * *
21205 GATTATCGTTGCGATTTACAGATTCTCGTTGCGATTTACG
1 GATTATAATGGCGATTTACAGATTCGCGTTGCGATTTACG
21245 GAT
1 GAT
21248 ACGCGTTGCG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 14 0.39
40 20 0.56
41 2 0.06
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (40 bp):
GATTATAATGGCGATTTACAGATTCGCGTTGCGATTTACG
Found at i:21216 original size:20 final size:20
Alignment explanation
Indices: 21189--21361 Score: 188
Period size: 20 Copynumber: 8.7 Consensus size: 20
21179 CTTTAAATAT
21189 CGCGTTGCGATTTACGGATTA
1 CGCGTTGCGATTTACGGA-TA
* * *
21210 -TCGTTGCGATTTACAGATT
1 CGCGTTGCGATTTACGGATA
*
21229 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
21249 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
21269 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
21289 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
21309 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
21329 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
21349 CGCGTTGCGATTT
1 CGCGTTGCGATTT
21362 TGGAAAATCG
Statistics
Matches: 129, Mismatches: 20, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
19 1 0.01
20 127 0.98
21 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:21378 original size:21 final size:21
Alignment explanation
Indices: 21348--21430 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
21338 ATTTTCATAT
*
21348 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
21369 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
21390 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
21411 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
21431 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:21421 original size:42 final size:43
Alignment explanation
Indices: 21328--21426 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
21318 ATTTATGTGT
* *
21328 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
21369 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
21411 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
21427 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:38202 original size:21 final size:21
Alignment explanation
Indices: 38176--38218 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
38166 TTTCTGGGTT
* *
38176 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
38197 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
38218 A
1 A
38219 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:38277 original size:65 final size:68
Alignment explanation
Indices: 38198--38347 Score: 207
Period size: 65 Copynumber: 2.2 Consensus size: 68
38188 ACCCATTCAA
* *
38198 GGGGAACCGATACCCCTTCAACGAATATG-ATTTCCAGAATGCTAGAGGGGAATCGATA-CCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
38261 -GG
66 GGG
* * * *
38263 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
38328 GGGG
66 -GGG
*
38332 GGGGAACCGATTCCCC
1 GGGGAACCGATACCCC
38348 ATGAGAAAAG
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 26 0.35
66 26 0.35
67 5 0.07
69 17 0.23
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
GGG
Found at i:38771 original size:30 final size:30
Alignment explanation
Indices: 38713--38771 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
38703 GTTATATGGG
*
38713 CTATGTGATAAAGGTATGAAATTGATATGT
1 CTATGTGATAAAGGTATGAAATTAATATGT
38743 CTATGTGATAAAGGTATGGAAA-TAATATG
1 CTATGTGATAAAGGTAT-GAAATTAATATG
38772 ACTACGCGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGAAATTAATATGT
Found at i:39059 original size:22 final size:22
Alignment explanation
Indices: 38985--39051 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
38975 TTATGGACAT
38985 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
*
39007 AATTCTATGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
39029 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
39051 A
1 A
39052 TTTATACGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.28
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:45108 original size:21 final size:21
Alignment explanation
Indices: 45082--45124 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
45072 TTTCTGGGTT
* *
45082 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
45103 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
45124 A
1 A
45125 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:45175 original size:67 final size:69
Alignment explanation
Indices: 45104--45256 Score: 220
Period size: 67 Copynumber: 2.2 Consensus size: 69
45094 ACCCATTCAA
* *
45104 GGGGAACCGATACCCCTTCAACGAATATG-ATTTCCAGAATGCTAGAGGGCAATCGATA-CCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGCAATCGATACCCCCA
45167 GGGG
66 GGGG
* * * * *
45171 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGCAATCGATACCCCCA
45236 GGGG
66 GGGG
*
45240 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
45257 ATGAGAAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
67 26 0.34
68 25 0.33
69 25 0.33
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.18
Consensus pattern (69 bp):
GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGCAATCGATACCCCCA
GGGG
Found at i:45679 original size:30 final size:30
Alignment explanation
Indices: 45621--45679 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
45611 GTTATATGGG
*
45621 CTATGTGATAAAGGTATGAAATTGATATGT
1 CTATGTGATAAAGGTATGAAATTAATATGT
45651 CTATGTGATAAAGGTATGGAAA-TAATATG
1 CTATGTGATAAAGGTAT-GAAATTAATATG
45680 ACTACGCGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGAAATTAATATGT
Found at i:45967 original size:22 final size:22
Alignment explanation
Indices: 45893--45959 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
45883 TTATGGACAT
45893 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
45915 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
45937 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
45959 A
1 A
45960 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:48830 original size:16 final size:17
Alignment explanation
Indices: 48809--48850 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
48799 TAAAAATATT
*
48809 AAAATATAT-TTTTATC
1 AAAATATATATTTGATC
*
48825 AAAATAT-TATTTGATT
1 AAAATATATATTTGATC
48841 AAAATATATA
1 AAAATATATA
48851 AAGAACATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 1 0.05
16 19 0.86
17 2 0.09
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
AAAATATATATTTGATC
Found at i:52201 original size:17 final size:17
Alignment explanation
Indices: 52179--52211 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
52169 CTGAGAGAGT
52179 TTTGGT-TTTGTCTTGTG
1 TTTGGTGTTTGT-TTGTG
52196 TTTGGTGTTTGTTTGT
1 TTTGGTGTTTGTTTGT
52212 TTGTTTCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.00, C:0.03, G:0.30, T:0.67
Consensus pattern (17 bp):
TTTGGTGTTTGTTTGTG
Found at i:54474 original size:2 final size:2
Alignment explanation
Indices: 54469--54493 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
54459 TGCAATTTTT
54469 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
54494 TTGAAGGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56558 original size:18 final size:18
Alignment explanation
Indices: 56535--56570 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
56525 CTTTCAAGGC
56535 GGTGATCCGGAGAAAATG
1 GGTGATCCGGAGAAAATG
56553 GGTGATCCGGAGAAAATG
1 GGTGATCCGGAGAAAATG
56571 AAGGAATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.39, T:0.17
Consensus pattern (18 bp):
GGTGATCCGGAGAAAATG
Found at i:58965 original size:15 final size:16
Alignment explanation
Indices: 58945--58975 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
58935 AACAGCAAAA
58945 TACATAG-TGCAACAG
1 TACATAGCTGCAACAG
58960 TACATAGCTGCAACAG
1 TACATAGCTGCAACAG
58976 GCGGACAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (16 bp):
TACATAGCTGCAACAG
Found at i:66427 original size:2 final size:2
Alignment explanation
Indices: 66420--66469 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
66410 CCTTTCTCTT
* *
66420 TA TA TA TA CA CA 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
66462 TA TA TA TA
1 TA TA TA TA
66470 CTCATAACTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:73184 original size:43 final size:42
Alignment explanation
Indices: 73137--73512 Score: 305
Period size: 43 Copynumber: 8.8 Consensus size: 42
73127 TATTACGGTT
* * * *
73137 TTTTTTGAACAAACGTCGCAAAAGGTCAATATCTATATCGGCG
1 TTTTTGGAACAAACGCCGCAAAAGGTC-AGACCTATATCGGCG
* * *
73180 TTTTTGGAATAAACGCCGCAAAAAGTTATG--CTATATAGCGGCG
1 TTTTTGGAACAAACGCCGCAAAAGGTCA-GACCTATAT--CGGCG
* * * * * * * * *
73223 TTTCTAGAAAAAATGCCTCAAAATGTTAGATCTATAGCGGCG
1 TTTTTGGAACAAACGCCGCAAAAGGTCAGACCTATATCGGCG
* * * *
73265 TTTTTGGTTACAAACGCCGCAAAAGATAAGACCTATA-CTGGCA
1 TTTTTGG-AACAAACGCCGCAAAAGGTCAGACCTATATC-GGCG
* * *
73308 TTTTTAGTACAAACGCCGTAAAAGGTCAGACCTATAGT-GGCG
1 TTTTTGGAACAAACGCCGCAAAAGGTCAGACCTATA-TCGGCG
* *
73350 TTTTTGGACACAAACGCCGCAAAAGATAAGACCTATA-CTGGCG
1 TTTTTGGA-ACAAACGCCGCAAAAGGTCAGACCTATATC-GGCG
* *
73393 TTTTTAGAACAAACGCCGTAAAAGGTCAGACCTATAGT-GGCG
1 TTTTTGGAACAAACGCCGCAAAAGGTCAGACCTATA-TCGGCG
* * *
73435 TTTTTGGACACAAACGCCGCAAAATGTCATACCTATAACGGCG
1 TTTTTGGA-ACAAACGCCGCAAAAGGTCAGACCTATATCGGCG
* * *
73478 TTTTTGAACACAAACGCCTCAAAAAGTCAGACCTA
1 TTTTTGGA-ACAAACGCCGCAAAAGGTCAGACCTA
73513 CAAATGAATT
Statistics
Matches: 270, Mismatches: 47, Indels: 32
0.77 0.13 0.09
Matches are distributed among these distances:
41 6 0.02
42 84 0.31
43 175 0.65
44 5 0.02
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (42 bp):
TTTTTGGAACAAACGCCGCAAAAGGTCAGACCTATATCGGCG
Found at i:73469 original size:85 final size:84
Alignment explanation
Indices: 73137--73512 Score: 379
Period size: 85 Copynumber: 4.4 Consensus size: 84
73127 TATTACGGTT
* * * * * *
73137 TTTTTTGAACAAACGTCGCAAAAGGTCAATATCTATA-TCGGCGTTTTTGGA-ATAAACGCCGCA
1 TTTTTAGAACAAACGCCGTAAAAGGTC-AGACCTATAGT-GGCGTTTTTGGACACAAACGCCGC-
* * *
73200 AAAAGTTATG-CTATATAGCGGCG
63 AAAAGATAAGAC-CTATA-CGGCG
* * * * * * * **
73223 TTTCTAGAAAAAATGCC-TCAAAATGTTAGATCTATAGCGGCGTTTTTGGTTACAAACGCCGCAA
1 TTTTTAGAACAAACGCCGT-AAAAGGTCAGACCTATAGTGGCGTTTTTGGACACAAACGCCGCAA
*
73287 AAGATAAGACCTATACTGGCA
65 AAGATAAGACCTATAC-GGCG
*
73308 TTTTTAGTACAAACGCCGTAAAAGGTCAGACCTATAGTGGCGTTTTTGGACACAAACGCCGCAAA
1 TTTTTAGAACAAACGCCGTAAAAGGTCAGACCTATAGTGGCGTTTTTGGACACAAACGCCGCAAA
73373 AGATAAGACCTATACTGGCG
66 AGATAAGACCTATAC-GGCG
73393 TTTTTAGAACAAACGCCGTAAAAGGTCAGACCTATAGTGGCGTTTTTGGACACAAACGCCGCAAA
1 TTTTTAGAACAAACGCCGTAAAAGGTCAGACCTATAGTGGCGTTTTTGGACACAAACGCCGCAAA
* *
73458 ATG-TCATACCTATAACGGCG
66 A-GATAAGACCTAT-ACGGCG
*
73478 TTTTT-GAACACAAACGCC-TCAAAAAGTCAGACCTA
1 TTTTTAG-A-ACAAACGCCGT-AAAAGGTCAGACCTA
73513 CAAATGAATT
Statistics
Matches: 248, Mismatches: 31, Indels: 22
0.82 0.10 0.07
Matches are distributed among these distances:
84 2 0.01
85 190 0.77
86 56 0.23
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (84 bp):
TTTTTAGAACAAACGCCGTAAAAGGTCAGACCTATAGTGGCGTTTTTGGACACAAACGCCGCAAA
AGATAAGACCTATACGGCG
Found at i:73510 original size:128 final size:126
Alignment explanation
Indices: 73137--73512 Score: 357
Period size: 128 Copynumber: 2.9 Consensus size: 126
73127 TATTACGGTT
* * * * *
73137 TTTTTTGAACAAACGTCGCAAAAGGTCAATATCTATATCGGCGTTTTTGGAATAAACGCCGCAAA
1 TTTTTAGAACAAACGCCGCAAAAGGTC-AGACCTATAT-GGCGTTTTTGGAACAAACGCCGCAAA
* * * * * * *
73202 AAGTTAT-GCTATATAGCGGCGTTTCTAGAA-A-AAATGCCTCAAAATGTTAGATCTATAGCGGC
64 AAGTCATACCTATA-A-CGGCGTTT-TTGAACACAAACGCCTCAAAAAGTAAGACCTATAGCGGC
73264 G
126 G
* * * * * * * *
73265 TTTTTGGTTACAAACGCCGCAAAAGATAAGACCTATACTGGCATTTTTAGTACAAACGCCGTAAA
1 TTTTTAG-AACAAACGCCGCAAAAGGTCAGACCTATA-TGGCGTTTTTGGAACAAACGCCGCAAA
* * ** * *
73330 AGGTCAGACCTATAGTGGCGTTTTTGGACACAAACGCCGC-AAAAGATAAGACCTATA-CTGGCG
64 AAGTCATACCTATAACGGCGTTTTTGAACACAAACGCCTCAAAAAG-TAAGACCTATAGC-GGCG
*
73393 TTTTTAGAACAAACGCCGTAAAAGGTCAGACCTATAGTGGCGTTTTTGGACACAAACGCCGCAAA
1 TTTTTAGAACAAACGCCGCAAAAGGTCAGACCTATA-TGGCGTTTTTGGA-ACAAACGCCGCAAA
* *
73458 ATGTCATACCTATAACGGCGTTTTTGAACACAAACGCCTCAAAAAGTCAGACCTA
64 AAGTCATACCTATAACGGCGTTTTTGAACACAAACGCCTCAAAAAGTAAGACCTA
73513 CAAATGAATT
Statistics
Matches: 197, Mismatches: 42, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
126 3 0.02
127 48 0.24
128 119 0.60
129 27 0.14
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (126 bp):
TTTTTAGAACAAACGCCGCAAAAGGTCAGACCTATATGGCGTTTTTGGAACAAACGCCGCAAAAA
GTCATACCTATAACGGCGTTTTTGAACACAAACGCCTCAAAAAGTAAGACCTATAGCGGCG
Found at i:75712 original size:23 final size:23
Alignment explanation
Indices: 75682--75740 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
75672 ATGCTATAGT
75682 GTTTGAAAGGTTGTGCATGACAA
1 GTTTGAAAGGTTGTGCATGACAA
75705 GTTTGAAAGGTTGTGCATGACAA
1 GTTTGAAAGGTTGTGCATGACAA
75728 GTTTGAAA-GTTGT
1 GTTTGAAAGGTTGT
75741 TAATGCCCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.14
23 31 0.86
ACGTcount: A:0.29, C:0.07, G:0.31, T:0.34
Consensus pattern (23 bp):
GTTTGAAAGGTTGTGCATGACAA
Found at i:77300 original size:41 final size:41
Alignment explanation
Indices: 77226--77628 Score: 382
Period size: 41 Copynumber: 9.7 Consensus size: 41
77216 TTGTAAACTT
* * * * *
77226 GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATA
1 GCGGCGTTTGTATA-A-AAACGCCACTAAAGTACGAGTCTTTA
* * * *
77269 ACGGCGTTTGAATAAAAATGCCACTAAAGTACGCGTCTTTA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTA
* *
77310 GCGGAGTTTGTATAAAAACGCCACTAAAGTATGAGTCTTTA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTA
* *
77351 GCGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTTTC
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTA
* * * * *
77392 GTGGCGTTTGTAAACACAAACGCCACTATAGTAC-ATGTGTATA
1 GCGGCGTTTGTATA-A-AAACGCCACTAAAGTACGA-GTCTTTA
* * * *
77435 ACGGCGTTTGTATAAAAACGCCACTAAAGTACAATTCTATA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTA
* * * *
77476 GCGACGTTTGTATAAAAATGCCACTAAATTACGAGTCTTTT
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTA
* * *
77517 GCGGCGTTTGTATAAAAACGCCACTAAAGTACTACTCTTTT
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTA
* * **
77558 GCGGCGTTTGT-TGAAAAAACGCCACTATAG-ATGAACCTATT-
1 GCGGCGTTTGTAT--AAAAACGCCACTAAAGTACGAGTCT-TTA
* **
77599 GCGGCGTTTTTATAAAAACGCTGCTAAAGT
1 GCGGCGTTTGTATAAAAACGCCACTAAAGT
77629 TACCATTTTG
Statistics
Matches: 299, Mismatches: 52, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
40 14 0.05
41 221 0.74
42 23 0.08
43 41 0.14
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (41 bp):
GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTA
Found at i:77448 original size:125 final size:123
Alignment explanation
Indices: 77243--77548 Score: 353
Period size: 125 Copynumber: 2.5 Consensus size: 123
77233 TTGTAAACAC
* * * * ** * ** *
77243 AAACGCCACTATAGTACAAGTGTATAACGGCGTTTG-AATAAAAATGCCACTAAAGTACGCGTCT
1 AAACGCCACTAAAGTACGAGTCTTTCGCGGCGTTTGTAA-AAAAACGCCACTAAAGTACATGTGT
* * * ** * *
77307 TTAGCGGAGTTTGTATAAAAACGCCACTAAAGTATGAGTCTTTAGCGGCGTTTGTATAA
65 ATAACGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGCGACGTTTGTATAA
* * *
77366 AAACGCCACTAAAGTATGAGTCTTTCGTGGCGTTTGTAAACACAAACGCCACTATAGTACATGTG
1 AAACGCCACTAAAGTACGAGTCTTTCGCGGCGTTTGTAAA-A-AAACGCCACTAAAGTACATGTG
*
77431 TATAACGGCGTTTGTATAAAAACGCCACTAAAGTACAATTCTATAGCGACGTTTGTATAA
64 TATAACGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGCGACGTTTGTATAA
* * * *
77491 AAATGCCACTAAATTACGAGTCTTTTGCGGCGTTTGTATAAAAACGCCACTAAAGTAC
1 AAACGCCACTAAAGTACGAGTCTTTCGCGGCGTTTGTAAAAAAACGCCACTAAAGTAC
77549 TACTCTTTTG
Statistics
Matches: 152, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
123 45 0.30
124 4 0.03
125 103 0.68
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (123 bp):
AAACGCCACTAAAGTACGAGTCTTTCGCGGCGTTTGTAAAAAAACGCCACTAAAGTACATGTGTA
TAACGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGCGACGTTTGTATAA
Found at i:77502 original size:166 final size:166
Alignment explanation
Indices: 77226--77587 Score: 534
Period size: 166 Copynumber: 2.2 Consensus size: 166
77216 TTGTAAACTT
*
77226 GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGGCGTTTGAATAAAAATGCC
1 GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGGCGTTTGAATAAAAACGCC
** * *
77291 ACTAAAGTACGCGTCTTTAGCGGAGTTTGTATAAAAACGCCACTAAAGTATGAGTCTTTAGCGGC
66 ACTAAAGTACAAGTCTATAGCGGAGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGC
*
77356 GTTTGTATAAAAACGCCACTAAAGTA-TGAGTCTTTC
131 GTTTGTATAAAAACGCCACTAAAGTACT-ACTCTTTC
* * *
77392 GTGGCGTTTGTAAACACAAACGCCACTATAGTACATGTGTATAACGGCGTTTGTATAAAAACGCC
1 GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGGCGTTTGAATAAAAACGCC
* * * *
77457 ACTAAAGTACAATTCTATAGC-GACGTTTGTATAAAAATGCCACTAAATTACGAGTCTTTTGCGG
66 ACTAAAGTACAAGTCTATAGCGGA-GTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGG
*
77521 CGTTTGTATAAAAACGCCACTAAAGTACTACTCTTTT
130 CGTTTGTATAAAAACGCCACTAAAGTACTACTCTTTC
*
77558 GCGGCGTTTGTTGAA-A-AAACGCCACTATAG
1 GCGGCGTTTG-TAAACACAAACGCCACTATAG
77588 ATGAACCTAT
Statistics
Matches: 177, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
165 16 0.09
166 157 0.89
167 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (166 bp):
GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGGCGTTTGAATAAAAACGCC
ACTAAAGTACAAGTCTATAGCGGAGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGC
GTTTGTATAAAAACGCCACTAAAGTACTACTCTTTC
Found at i:81511 original size:41 final size:42
Alignment explanation
Indices: 81466--81581 Score: 207
Period size: 42 Copynumber: 2.8 Consensus size: 42
81456 TCCCGAATTT
*
81466 CCGTGTTTGTTTCACGTAATTCGTTTT-CGGAAAATGTTTTC
1 CCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTC
*
81507 CCGTGTTTGTTTCACGTAATTCGTTTTCCAGAAAACGTTTTC
1 CCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTC
81549 CCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 CCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
81582 TGTAATTCAT
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
41 27 0.38
42 44 0.62
ACGTcount: A:0.17, C:0.20, G:0.19, T:0.44
Consensus pattern (42 bp):
CCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTC
Found at i:81817 original size:22 final size:23
Alignment explanation
Indices: 81770--81883 Score: 74
Period size: 22 Copynumber: 4.8 Consensus size: 23
81760 TAATTATTAA
* *
81770 AATATTTAAAAT-ATAT-TTATT
1 AATATTTATAATAATATAATATT
81791 AATATTTATAATAATATAATATT
1 AATATTTATAATAATATAATATT
* *
81814 -ATATTTTTAATATTATATAAAATAATC
1 AATATTTATAATA--ATAT--AAT-ATT
*
81841 AATTATATTATAATAATATAAGA-T
1 AA-TAT-TTATAATAATATAATATT
*
81865 ATTATTTATTAATAATATA
1 AATATTTA-TAATAATATA
81884 TAATAAATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 20
0.73 0.08 0.20
Matches are distributed among these distances:
21 11 0.15
22 18 0.24
23 17 0.23
24 5 0.07
25 1 0.01
26 5 0.07
27 2 0.03
28 5 0.07
29 3 0.04
30 7 0.09
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (23 bp):
AATATTTATAATAATATAATATT
Found at i:81846 original size:31 final size:32
Alignment explanation
Indices: 81781--81859 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 32
81771 ATATTTAAAA
81781 TATATTTATTAATATTTATAATAATATAATAT
1 TATATTTATTAATATTTATAATAATATAATAT
*
81813 TATATTT-TTAATA-TTAT-ATAAAATAATCAAT
1 TATATTTATTAATATTTATAATAATATAAT--AT
*
81844 TATATTATAATAATAT
1 TATATT-TATTAATAT
81860 AAGATATTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
29 9 0.22
30 4 0.10
31 14 0.35
32 8 0.20
33 5 0.12
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAATATAATAT
Found at i:81911 original size:31 final size:28
Alignment explanation
Indices: 81801--81942 Score: 89
Period size: 28 Copynumber: 5.0 Consensus size: 28
81791 AATATTTATA
* * *
81801 ATAATATAATATTATATTTTTAATATTAT
1 ATAATATTAT-TTATATATTTAATAATAT
* * **
81830 ATAAAATAATCAATTATATTATAATAATAT
1 ATAATATTATTTA-TATATT-TAATAATAT
*
81860 A-AGATATTATTTAT-TA-ATAAT-ATAT
1 ATA-ATATTATTTATATATTTAATAATAT
*
81885 AATAA-ATTTTTTTATATATTTAATAATGA-
1 -ATAATA-TTATTTATATATTTAATAAT-AT
81914 ATAATATTATTTATATATTTCAATAATAT
1 ATAATATTATTTATATATTT-AATAATAT
81943 TTTAGTAAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
25 5 0.06
26 13 0.15
27 3 0.03
28 25 0.29
29 25 0.29
30 16 0.18
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
ATAATATTATTTATATATTTAATAATAT
Found at i:82186 original size:20 final size:20
Alignment explanation
Indices: 82108--82177 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
82098 TTTCCATATG
82108 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
82128 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
82148 TTTTACAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
82168 TTTTCCAGAA
1 TTTTCCAGAA
82178 TTCAAATTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:82186 original size:40 final size:40
Alignment explanation
Indices: 82108--82186 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
82098 TTTCCATATG
* **
82108 TTTTCCAGAAATGTAATTCATTTTCCAGAAATGTAATTCA
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
*
82148 TTTTACAGAAATGTAATTCATTTTCCAGAATTCAAATTC
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTC
82187 CAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (40 bp):
TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
Found at i:82196 original size:15 final size:15
Alignment explanation
Indices: 82160--82234 Score: 100
Period size: 15 Copynumber: 5.1 Consensus size: 15
82150 TTACAGAAAT
**
82160 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
82175 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
82189 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
82204 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
82218 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
82233 GT
1 GT
82235 TGTCTGTTTG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
14 24 0.46
15 28 0.54
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:82233 original size:29 final size:29
Alignment explanation
Indices: 82160--82225 Score: 132
Period size: 29 Copynumber: 2.3 Consensus size: 29
82150 TTACAGAAAT
82160 GTAATTCATTTTCCAGAATTCAAATTCCA
1 GTAATTCATTTTCCAGAATTCAAATTCCA
82189 GTAATTCATTTTCCAGAATTCAAATTCCA
1 GTAATTCATTTTCCAGAATTCAAATTCCA
82218 GTAATTCA
1 GTAATTCA
82226 AATTCCAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.38
Consensus pattern (29 bp):
GTAATTCATTTTCCAGAATTCAAATTCCA
Found at i:82304 original size:14 final size:15
Alignment explanation
Indices: 82267--82308 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
82257 TGGTTTTCCA
82267 GAAAATGAATTACTG
1 GAAAATGAATTACTG
**
82282 GAATTTGAATT-CTG
1 GAAAATGAATTACTG
82296 GAAAATGAATTAC
1 GAAAATGAATTAC
82309 ATTTCTGTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (15 bp):
GAAAATGAATTACTG
Found at i:82314 original size:20 final size:20
Alignment explanation
Indices: 82291--82360 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
82281 GGAATTTGAA
82291 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
82311 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
82331 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
82351 TTCTGGAAAA
1 TTCTGGAAAA
82361 CATCTGGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:82583 original size:30 final size:28
Alignment explanation
Indices: 82526--82594 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 28
82516 CTTTACTAAA
*
82526 ATATTATTGAAATATATAAATAATATTAT
1 ATATTATT-AAATATATAAAAAATATTAT
82555 -TCATTATTAAATATATAAAAAATTTATTAT
1 AT-ATTATTAAATATATAAAAAA--TATTAT
82585 ATATTATTAA
1 ATATTATTAA
82595 TAAATAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
28 14 0.40
29 6 0.17
30 14 0.40
31 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
ATATTATTAAATATATAAAAAATATTAT
Found at i:82632 original size:23 final size:23
Alignment explanation
Indices: 82584--82671 Score: 69
Period size: 23 Copynumber: 3.9 Consensus size: 23
82574 AAATTTATTA
*
82584 TATATTATTAATAA-ATAATATCT
1 TATATTATT-ATAATATAATATAT
82607 TATATTATTATAATATAAT-TGAT
1 TATATTATTATAATATAATAT-AT
* *
82630 TATTTTA-TATAAT-TAAAAATAT
1 TATATTATTATAATAT-AATATAT
* *
82652 AATATTATTATTATA-AATAT
1 TATATTATTATAATATAATAT
82672 TAATAAATAT
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
21 1 0.02
22 24 0.46
23 27 0.52
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (23 bp):
TATATTATTATAATATAATATAT
Found at i:82673 original size:29 final size:30
Alignment explanation
Indices: 82618--82682 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
82608 ATATTATTAT
*
82618 AATATAATTGATTATTTTATATAATTAA-A
1 AATATAATTGATTATTTTATAAAATTAATA
82647 AATATAA-T-ATTATTATTATAAATATTAATA
1 AATATAATTGATTATT-TTATAAA-ATTAATA
82677 AATATA
1 AATATA
82683 TTTTAAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 6 0.19
28 7 0.22
29 12 0.38
30 7 0.22
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (30 bp):
AATATAATTGATTATTTTATAAAATTAATA
Found at i:82704 original size:30 final size:30
Alignment explanation
Indices: 82630--82706 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
82620 TATAATTGAT
*
82630 TATTTTATATAATTAA-AAATATAATATTAT
1 TATTTTA-ATAATTAATAAATATAATATTAA
* *
82660 TATTATAA-ATATTAATAAATAT-ATTTTAAA
1 TATTTTAATA-ATTAATAAATATAATATT-AA
82690 TATTTTAATAATTAATA
1 TATTTTAATAATTAATA
82707 TTTTGATGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
28 1 0.03
29 10 0.26
30 27 0.69
31 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
TATTTTAATAATTAATAAATATAATATTAA
Found at i:82941 original size:42 final size:42
Alignment explanation
Indices: 82882--83001 Score: 213
Period size: 42 Copynumber: 2.9 Consensus size: 42
82872 ATGAATTACA
* *
82882 TTCCGGAAAACGAATTACGTAAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
82924 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
82966 TTCCGAAAAACGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
83002 TTCGGGGAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.16
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:83701 original size:39 final size:40
Alignment explanation
Indices: 83644--83725 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 40
83634 ATTCATAAAT
*
83644 TCTATTTTTTTTATTAGTAAGAGTAATTATAAGGTTAATG
1 TCTATTTTTTTTAATAGTAAGAGTAATTATAAGGTTAATG
83684 TCTA-TTTTTTTAATAGTAAGAGTAATTATAAGGTTAATG
1 TCTATTTTTTTTAATAGTAAGAGTAATTATAAGGTTAATG
83723 TCT
1 TCT
83726 GTTTAAAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 37 0.90
40 4 0.10
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.49
Consensus pattern (40 bp):
TCTATTTTTTTTAATAGTAAGAGTAATTATAAGGTTAATG
Found at i:83946 original size:42 final size:42
Alignment explanation
Indices: 83887--84006 Score: 222
Period size: 42 Copynumber: 2.9 Consensus size: 42
83877 TTTCTCCGAA
*
83887 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
*
83929 TTCCCGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
83971 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
84007 TGTAATTCAT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.16, C:0.20, G:0.19, T:0.45
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
Found at i:84317 original size:27 final size:29
Alignment explanation
Indices: 84261--84363 Score: 92
Period size: 30 Copynumber: 3.6 Consensus size: 29
84251 AAATAATCAA
* *
84261 TTATATTATAATAATA-A-GATATTATATT
1 TTATATTTTAATAATATATAATATT-TATT
84289 TT-TATTTTAATAATATATAATAATTT-TT
1 TTATATTTTAATAATATATAAT-ATTTATT
84317 TTATATATTTAATAATGA-ATAATA-TTATT
1 TTATAT-TTTAATAAT-ATATAATATTTATT
*
84346 TATATATTTCAATAATAT
1 T-TATATTTTAATAATAT
84364 TTTAGTAAAG
Statistics
Matches: 63, Mismatches: 3, Indels: 17
0.76 0.04 0.20
Matches are distributed among these distances:
27 12 0.19
28 10 0.16
29 18 0.29
30 22 0.35
31 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (29 bp):
TTATATTTTAATAATATATAATATTTATT
Found at i:84607 original size:20 final size:20
Alignment explanation
Indices: 84528--84598 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
84518 TTTTCCAGAT
84528 ATTTTCCAGAAATGTAATTC
1 ATTTTCCAGAAATGTAATTC
84548 ATTTTCCAGAAATGTAATTC
1 ATTTTCCAGAAATGTAATTC
* *
84568 ATTTTACATAAATGTAATTC
1 ATTTTCCAGAAATGTAATTC
84588 ATTTTCCAGAA
1 ATTTTCCAGAA
84599 TTCAAATTCC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (20 bp):
ATTTTCCAGAAATGTAATTC
Found at i:84607 original size:40 final size:40
Alignment explanation
Indices: 84528--84607 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
84518 TTTTCCAGAT
* **
84528 ATTTTCCAGAAATGTAATTCATTTTCCAGAAATGTAATTC
1 ATTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTC
* *
84568 ATTTTACATAAATGTAATTCATTTTCCAGAATTCAAATTC
1 ATTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTC
84608 CAGTAATTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.41
Consensus pattern (40 bp):
ATTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTC
Found at i:84617 original size:15 final size:15
Alignment explanation
Indices: 84581--84662 Score: 139
Period size: 15 Copynumber: 5.5 Consensus size: 15
84571 TTACATAAAT
**
84581 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
84596 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
84610 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
84625 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
84640 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
84655 GTAATTCA
1 GTAATTCA
84663 TTTTCTGGAA
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
14 12 0.19
15 52 0.81
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:92319 original size:2 final size:2
Alignment explanation
Indices: 92312--92377 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
92302 TTATCTCGAG
92312 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
92354 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
92378 CGTCGTTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93367 original size:2 final size:2
Alignment explanation
Indices: 93360--93385 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
93350 AATAAAAATA
93360 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
93386 GTTTGATCTG
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:93805 original size:22 final size:21
Alignment explanation
Indices: 93763--93815 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
93753 ATTCTGACTA
93763 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* *
93784 TCGCGTTGCGATTTTCCTAAA-
1 TCGCATTGCGA-TTTCCCAAAT
*
93805 TCGCAATGCGA
1 TCGCATTGCGA
93816 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:93826 original size:20 final size:20
Alignment explanation
Indices: 93801--94038 Score: 277
Period size: 21 Copynumber: 11.8 Consensus size: 20
93791 GCGATTTTCC
*
93801 TAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGATTACG
93821 TAAATCGCAATGCGATTACG
1 TAAATCGCAATGCGATTACG
93841 TAAATCGCAATGCGAATTACG
1 TAAATCGCAATGCG-ATTACG
*
93862 TAAATCGCAATGCGAATTAGG
1 TAAATCGCAATGCG-ATTACG
*
93883 AAAATCGCAATGCGATTACG
1 TAAATCGCAATGCGATTACG
*
93903 TAAATCGCAATGCGAATTAGG
1 TAAATCGCAATGCG-ATTACG
* *
93924 AAAATCGCAATGCGAATTATG
1 TAAATCGCAATGCG-ATTACG
* *
93945 AAAATCGCAATACGATTACG
1 TAAATCGCAATGCGATTACG
*
93965 T-ATTCGCAATGCGATTACG
1 TAAATCGCAATGCGATTACG
* *
93984 T-ATTCGCATTGCGATTACG
1 TAAATCGCAATGCGATTACG
* *
94003 T-ATTCGCATTGCGATTTACG
1 TAAATCGCAATGCGA-TTACG
*
94023 T-AATCGCATTGCGATT
1 TAAATCGCAATGCGATT
94039 TTCCTAATTC
Statistics
Matches: 200, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
19 50 0.25
20 74 0.37
21 76 0.38
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (20 bp):
TAAATCGCAATGCGATTACG
Found at i:93835 original size:41 final size:40
Alignment explanation
Indices: 93801--94038 Score: 259
Period size: 41 Copynumber: 5.9 Consensus size: 40
93791 GCGATTTTCC
93801 TAAATCGCAATGCGAATACGTAAATCGCAATGCGATTACG
1 TAAATCGCAATGCGAATACGTAAATCGCAATGCGATTACG
*
93841 TAAATCGCAATGCGAATTACGTAAATCGCAATGCGAATTAGG
1 TAAATCGCAATGCGAA-TACGTAAATCGCAATGCG-ATTACG
* * *
93883 AAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGG
1 TAAATCGCAATGCGAATACGTAAATCGCAATGCG-ATTACG
* * * *
93924 AAAATCGCAATGCGAATTATGAAAATCGCAATACGATTACG
1 TAAATCGCAATGCGAA-TACGTAAATCGCAATGCGATTACG
* * * *
93965 T-ATTCGCAATGCGATTACGT-ATTCGCATTGCGATTACG
1 TAAATCGCAATGCGAATACGTAAATCGCAATGCGATTACG
* * * *
94003 T-ATTCGCATTGCGATTTACGT-AATCGCATTGCGATT
1 TAAATCGCAATGCGA-ATACGTAAATCGCAATGCGATT
94039 TTCCTAATTC
Statistics
Matches: 176, Mismatches: 18, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
38 28 0.16
39 23 0.13
40 28 0.16
41 63 0.36
42 34 0.19
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (40 bp):
TAAATCGCAATGCGAATACGTAAATCGCAATGCGATTACG
Found at i:93905 original size:62 final size:61
Alignment explanation
Indices: 93801--94036 Score: 293
Period size: 62 Copynumber: 3.9 Consensus size: 61
93791 GCGATTTTCC
*
93801 TAAATCGCAATGCGAA-TACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTACG
1 TAAATCGCAATGCGAATTACGAAAATCGCAATGCGATTACGT-AATCGCAATGCGAATTACG
* *
93862 TAAATCGCAATGCGAATTAGGAAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGG
1 TAAATCGCAATGCGAATTACGAAAATCGCAATGCGATTACGT-AATCGCAATGCGAATTACG
* * * *
93924 AAAATCGCAATGCGAATTATGAAAATCGCAATACGATTACGTATTCGCAATGCG-ATTACG
1 TAAATCGCAATGCGAATTACGAAAATCGCAATGCGATTACGTAATCGCAATGCGAATTACG
* * * * * *
93984 T-ATTCGCATTGCG-ATTACG-TATTCGCATTGCGATTTACGTAATCGCATTGCGA
1 TAAATCGCAATGCGAATTACGAAAATCGCAATGCGA-TTACGTAATCGCAATGCGA
94037 TTTTCCTAAT
Statistics
Matches: 154, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
57 10 0.06
58 21 0.14
59 10 0.06
60 5 0.03
61 27 0.18
62 81 0.53
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (61 bp):
TAAATCGCAATGCGAATTACGAAAATCGCAATGCGATTACGTAATCGCAATGCGAATTACG
Found at i:94652 original size:21 final size:21
Alignment explanation
Indices: 94591--94669 Score: 94
Period size: 20 Copynumber: 3.9 Consensus size: 21
94581 TTCTAAACTT
94591 AAAATCGCAAC-ATGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
94611 AAAATCGCAAC-ACGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
**
94631 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACGAGAGAAATG
94652 AAAATCGCAACGAGAGAA
1 AAAATCGCAACGAGAGAA
94670 TCGCAACGCG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
20 30 0.58
21 22 0.42
ACGTcount: A:0.52, C:0.18, G:0.19, T:0.11
Consensus pattern (21 bp):
AAAATCGCAACGAGAGAAATG
Found at i:94692 original size:19 final size:19
Alignment explanation
Indices: 94591--94712 Score: 92
Period size: 20 Copynumber: 6.5 Consensus size: 19
94581 TTCTAAACTT
**
94591 AAAATCGCAACATGAAAATG
1 AAAATCGCAACGCG-AAATG
*
94611 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCG-AAATG
** *
94631 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAAC--GCGAAATG
94652 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
*
94666 AGAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
**
94685 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATG
94704 AAAATCGCA
1 AAAATCGCA
94713 TTGCGATTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
14 10 0.12
15 1 0.01
16 2 0.02
17 1 0.01
18 1 0.01
19 26 0.31
20 28 0.34
21 13 0.16
22 1 0.01
ACGTcount: A:0.49, C:0.21, G:0.19, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:94730 original size:19 final size:19
Alignment explanation
Indices: 94708--94867 Score: 116
Period size: 19 Copynumber: 9.1 Consensus size: 19
94698 GAAACCAAAA
*
94708 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
94727 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
94741 TCACGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
94760 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
94774 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
94793 TCGTGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
94807 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
94826 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
*
94846 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
94866 TC
1 TC
94868 AACCAAAAGA
Statistics
Matches: 109, Mismatches: 15, Indels: 34
0.69 0.09 0.22
Matches are distributed among these distances:
14 29 0.27
16 7 0.06
17 8 0.07
19 32 0.29
20 32 0.29
21 1 0.01
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:94755 original size:33 final size:33
Alignment explanation
Indices: 94713--94867 Score: 202
Period size: 33 Copynumber: 4.5 Consensus size: 33
94703 CAAAATCGCA
*
94713 TTGCGATTTTCATTTCGCGTTGCGATTCTCACG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
94746 TTGCGATTTTAATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
94779 TTGCGATTTTCATTTCGTGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
94812 TTGCGATAGTCATTTCCGCGTTGCGATTTTCATTCTCTCG
1 TTGCGATTTTCATTT-CGCGTTGCG------ATTCTCTCG
94852 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
94868 AACCAAAAGA
Statistics
Matches: 106, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
33 75 0.71
34 8 0.08
39 1 0.01
40 22 0.21
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:94782 original size:14 final size:14
Alignment explanation
Indices: 94763--94818 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
94753 TTTAATTTCG
94763 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
94777 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
94794 CGTGTTGCGATTCTCT
1 C--GTTGCGATTCTCT
94810 CGTTGCGAT
1 CGTTGCGAT
94819 AGTCATTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 6 0.17
19 7 0.20
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:96765 original size:94 final size:94
Alignment explanation
Indices: 96554--97021 Score: 752
Period size: 94 Copynumber: 5.1 Consensus size: 94
96544 TAGATTGCTT
* * *
96554 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
* *
96615 ATTTATCTTT-TGTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
96642 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
96707 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
**
96736 AGTAAATTTGTTCGGTTGCTATCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
96801 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
96830 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
* *
96895 ATTTGTCTTTGTTTTGTCCTTAGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * **
96924 AGTAAATTTGTTTGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCCGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
96989 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
97017 AGTAA
1 AGTAA
97022 TGCAATCCAT
Statistics
Matches: 356, Mismatches: 18, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
88 35 0.10
90 3 0.01
91 2 0.01
92 28 0.08
93 21 0.06
94 267 0.75
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.47
Consensus pattern (94 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:97146 original size:20 final size:20
Alignment explanation
Indices: 97117--97174 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 20
97107 GGTTGAAATA
97117 AAAATCGCAACGAGAGAATG
1 AAAATCGCAACGAGAGAATG
* * *
97137 AAAATTGCAACGCGA-AACG
1 AAAATCGCAACGAGAGAATG
97156 AAAATCGCAACGAGAGAAT
1 AAAATCGCAACGAGAGAAT
97175 CGCAACGCGA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.50, C:0.17, G:0.22, T:0.10
Consensus pattern (20 bp):
AAAATCGCAACGAGAGAATG
Found at i:97302 original size:39 final size:39
Alignment explanation
Indices: 97222--97302 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
97212 CCGCATTGAG
* **
97222 ATTCTCTCGTTGCGATTTTCGTTTCGCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
97261 ATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
97300 ATT
1 ATT
97303 TTTCACGTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.47
Consensus pattern (39 bp):
ATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
Found at i:97303 original size:19 final size:19
Alignment explanation
Indices: 97193--97295 Score: 108
Period size: 19 Copynumber: 5.6 Consensus size: 19
97183 GAAACTATAA
97193 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* * *
97212 CCGCATTGAGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
97226 TCTCGTTGCGATTTTCGTT
1 TCGCGTTGCGATTTTCATT
97245 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
97264 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
97284 TCGCGTTGCGAT
1 TCGCGTTGCGAT
97296 AGTCATTTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
14 7 0.10
16 3 0.04
17 3 0.04
19 36 0.54
20 18 0.27
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:99209 original size:14 final size:14
Alignment explanation
Indices: 99189--99225 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
99179 GATTGTTTAA
99189 TTGATTTGTAAAA-
1 TTGATTTGTAAAAG
99202 TATGATTTGTAAAAG
1 T-TGATTTGTAAAAG
99217 TTGATTTGT
1 TTGATTTGT
99226 TTAATTGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:99348 original size:19 final size:17
Alignment explanation
Indices: 99332--99415 Score: 72
Period size: 14 Copynumber: 5.1 Consensus size: 17
99322 AAAAATGACT
99332 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
99351 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
99365 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
99384 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
99398 ATCGCAATGCGAAATGA
1 ATCGCAATGCGAAATGA
99415 A
1 A
99416 AATCGCAACG
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
14 16 0.30
16 10 0.19
17 12 0.23
19 15 0.28
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (17 bp):
ATCGCAATGCGAAATGA
Found at i:99374 original size:33 final size:33
Alignment explanation
Indices: 99332--99444 Score: 190
Period size: 33 Copynumber: 3.4 Consensus size: 33
99322 AAAAATGACT
99332 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
99365 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
99398 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
99431 ATTGCAACGCGAAA
1 ATCGCAATGCGAAA
99445 CTAAATTCGC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:99421 original size:19 final size:19
Alignment explanation
Indices: 99332--99423 Score: 96
Period size: 19 Copynumber: 5.4 Consensus size: 19
99322 AAAAATGACT
99332 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
99351 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
99365 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
99384 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
99398 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
99417 ATCGCAA
1 ATCGCAA
99424 CGACAAAATT
Statistics
Matches: 59, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 20 0.34
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 27 0.46
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:99496 original size:33 final size:33
Alignment explanation
Indices: 99454--99577 Score: 221
Period size: 33 Copynumber: 3.8 Consensus size: 33
99444 ACTAAATTCG
* * *
99454 CGTTGCGATTTTCATTTTGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
99487 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
99520 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
99553 CGTTGCGATTTTCATTTCGCATTGC
1 CGTTGCGATTTTCATTTCGCATTGC
99578 AATAGTAATT
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:99511 original size:19 final size:19
Alignment explanation
Indices: 99489--99600 Score: 91
Period size: 19 Copynumber: 6.4 Consensus size: 19
99479 GATTCCCTCG
99489 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
99508 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
99522 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
99541 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
99555 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* ** *
99574 TTGCAATAGTAATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
99594 TTGCGAT
1 TTGCGAT
99601 AGACATTAAG
Statistics
Matches: 73, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
14 12 0.16
16 14 0.19
17 14 0.19
19 23 0.32
20 10 0.14
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:99527 original size:14 final size:14
Alignment explanation
Indices: 99475--99562 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 14
99465 TCATTTTGCT
*
99475 TTGCGATTCCCTCG
1 TTGCGATTCTCTCG
*
99489 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
99506 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
*
99522 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
99539 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
99555 TTGCGATT
1 TTGCGATT
99563 TTCATTTCGC
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
14 20 0.34
16 14 0.24
17 13 0.22
19 12 0.20
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:102151 original size:24 final size:24
Alignment explanation
Indices: 102117--102170 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
102107 CTGAAAAATC
102117 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
102141 ATCAAAGTCCGGGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
102165 ATCAAA
1 ATCAAA
102171 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:103025 original size:20 final size:20
Alignment explanation
Indices: 102996--103045 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
102986 CAGAATCTCG
102996 TTGCGATTTACGTAATT-GCA
1 TTGCGATTTACGT-ATTCGCA
*
103016 TTGTGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
103036 TTGCGATTTA
1 TTGCGATTTA
103046 GGAAAATCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.44
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:103071 original size:22 final size:21
Alignment explanation
Indices: 103041--103083 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
103031 TCGCATTGCG
103041 ATTTAGGAAAATCGCAACGCGA
1 ATTTAGG-AAATCGCAACGCGA
* *
103063 ATTTGGGAAATCGCAATGCGA
1 ATTTAGGAAATCGCAACGCGA
103084 TAGTCAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (21 bp):
ATTTAGGAAATCGCAACGCGA
Found at i:103537 original size:2 final size:2
Alignment explanation
Indices: 103530--103560 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
103520 AAATAAAGTA
103530 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
103561 AAACAATGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:108528 original size:32 final size:33
Alignment explanation
Indices: 108488--108870 Score: 482
Period size: 32 Copynumber: 11.9 Consensus size: 33
108478 ACATAGGTAA
* * *
108488 CTGTCCATATGGCCCAAAAGACATAGGCAAT-T
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
*
108520 CTGTCCATATGTCCCGAAAGACATAGGTACTAT
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
* *
108553 -TGTCCATATGTCTCGAAAGACATAGGTACTAT
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
108585 -TGTCCATATGTCCCGAAAGACATAGGTAATA-
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
*
108616 CTGTCCATATATCCCGAAAGACATAGGTAATAT
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
* *
108649 -TGTCCATATGTCCCGAAAGACATAAGTTATA-
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
* ** *
108680 CTATCCATATGTCCTAAAAGATATAGGTAATAT
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
108713 -TGTCCATATGTCCCGAAAGACATAGGTAATA-
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
* * *
108744 CTGTTCATATGTCCCGAAAGATATAGATAATAT
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
*
108777 -TGTCCATATGTCCCGAAAGACATACGTAATA-
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
*
108808 CTGTCCATATGTCCCGAAAGACATAGGTAAAAT
1 CTGTCCATATGTCCCGAAAGACATAGGTAATAT
* * * *
108841 TTATCCATATGTCTC-AAAGGACATCGGTAA
1 CTGTCCATATGTCCCGAAA-GACATAGGTAA
108871 CCATCGACTC
Statistics
Matches: 307, Mismatches: 34, Indels: 19
0.85 0.09 0.05
Matches are distributed among these distances:
32 284 0.93
33 23 0.07
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (33 bp):
CTGTCCATATGTCCCGAAAGACATAGGTAATAT
Found at i:108572 original size:64 final size:64
Alignment explanation
Indices: 108478--108870 Score: 533
Period size: 64 Copynumber: 6.2 Consensus size: 64
108468 GTTCCTAAGA
* * *
108478 ACATAGGT-A-ACTGTCCATATGGCCCAAAAGACATAGGCAAT-TCTGTCCATATGTCCCGAAAG
1 ACATAGGTAATACTGTCCATATGTCCCGAAAGACATAGGTAATAT-TGTCCATATGTCCCGAAAG
* * * *
108540 ACATAGGTACTATTGTCCATATGTCTCGAAAGACATAGGTACTATTGTCCATATGTCCCGAAAG
1 ACATAGGTAATACTGTCCATATGTCCCGAAAGACATAGGTAATATTGTCCATATGTCCCGAAAG
*
108604 ACATAGGTAATACTGTCCATATATCCCGAAAGACATAGGTAATATTGTCCATATGTCCCGAAAG
1 ACATAGGTAATACTGTCCATATGTCCCGAAAGACATAGGTAATATTGTCCATATGTCCCGAAAG
* * * ** *
108668 ACATAAGTTATACTATCCATATGTCCTAAAAGATATAGGTAATATTGTCCATATGTCCCGAAAG
1 ACATAGGTAATACTGTCCATATGTCCCGAAAGACATAGGTAATATTGTCCATATGTCCCGAAAG
* * *
108732 ACATAGGTAATACTGTTCATATGTCCCGAAAGATATAGATAATATTGTCCATATGTCCCGAAAG
1 ACATAGGTAATACTGTCCATATGTCCCGAAAGACATAGGTAATATTGTCCATATGTCCCGAAAG
* * * *
108796 ACATACGTAATACTGTCCATATGTCCCGAAAGACATAGGTAAAATTTATCCATATGTCTC-AAAG
1 ACATAGGTAATACTGTCCATATGTCCCGAAAGACATAGGTAATA-TTGTCCATATGTCCCGAAA-
108860 G
64 G
*
108861 ACATCGGTAA
1 ACATAGGTAA
108871 CCATCGACTC
Statistics
Matches: 291, Mismatches: 35, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
62 8 0.03
64 260 0.89
65 23 0.08
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (64 bp):
ACATAGGTAATACTGTCCATATGTCCCGAAAGACATAGGTAATATTGTCCATATGTCCCGAAAG
Found at i:113487 original size:21 final size:22
Alignment explanation
Indices: 113447--113494 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
113437 ATTTCCAGAA
113447 TGCTACAGGGTTATCAATACCC
1 TGCTACAGGGTTATCAATACCC
* *
113469 TGCTACAGTG-TATCGATACCC
1 TGCTACAGGGTTATCAATACCC
113490 TGCTA
1 TGCTA
113495 TAGTATTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (22 bp):
TGCTACAGGGTTATCAATACCC
Found at i:114212 original size:32 final size:32
Alignment explanation
Indices: 114136--114384 Score: 276
Period size: 32 Copynumber: 7.8 Consensus size: 32
114126 GAATGATCTA
* *
114136 TCCATATGTTCC-TAAGAACATAGGTAA--CTG
1 TCCATATGTCCCGAAAG-ACATAGGTAATTCTG
114166 TCCATATGTCCCGAAAGACATAGGTAATTCTG
1 TCCATATGTCCCGAAAGACATAGGTAATTCTG
* * * *
114198 TTCGTATGTTCCGAAAAACATAGGTAATAT-TG
1 TCCATATGTCCCGAAAGACATAGGTAAT-TCTG
* *
114230 TTCATATGTCCCGAAATACATAGGTAATAT-TG
1 TCCATATGTCCCGAAAGACATAGGTAAT-TCTG
* * *
114262 TCCATATGTCCCAAAAGACATAGATAATACTG
1 TCCATATGTCCCGAAAGACATAGGTAATTCTG
* * *
114294 TCTATATGTCCCGAAAGACACAAGTAA-TCATG
1 TCCATATGTCCCGAAAGACATAGGTAATTC-TG
* *
114326 TCCATATGTCCCGAAAGACATAGGCAATACTG
1 TCCATATGTCCCGAAAGACATAGGTAATTCTG
114358 TCCATATGTCCCGAAAGACATAGGTAA
1 TCCATATGTCCCGAAAGACATAGGTAA
114385 CCCTCGACTC
Statistics
Matches: 186, Mismatches: 26, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
30 21 0.11
31 4 0.02
32 159 0.85
33 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (32 bp):
TCCATATGTCCCGAAAGACATAGGTAATTCTG
Found at i:120572 original size:3 final size:3
Alignment explanation
Indices: 120564--120590 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
120554 TCTTCCTGGC
120564 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
120591 CCTTTGGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:122843 original size:27 final size:27
Alignment explanation
Indices: 122787--122836 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
122777 TTATTGAAAA
*
122787 TTTTAAATTTTTATATATAATAGATTT
1 TTTTAAATTTTTATATATAATAAATTT
*
122814 TTTTATATTTTT-TAT-TAATAAAT
1 TTTTAAATTTTTATATATAATAAAT
122837 CTGTTTTGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 3 0.14
27 11 0.52
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTTAAATTTTTATATATAATAAATTT
Found at i:126208 original size:24 final size:23
Alignment explanation
Indices: 126176--126227 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
126166 TTAAATGAGT
* *
126176 TTAAAAATATTTTAAAATGTTAAA
1 TTAATAATATATTAAAATG-TAAA
*
126200 TTAATAATATATTAAACTGTAAA
1 TTAATAATATATTAAAATGTAAA
126223 -TAATA
1 TTAATA
126228 TTTTAATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.20
23 4 0.16
24 16 0.64
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (23 bp):
TTAATAATATATTAAAATGTAAA
Found at i:128643 original size:136 final size:134
Alignment explanation
Indices: 128394--128643 Score: 317
Period size: 139 Copynumber: 1.8 Consensus size: 134
128384 TAATGATGTT
* * * *
128394 GGGAGGTATCTGTATTTACACTATTCCATCATGTTACTTGATAATCTTTTATATAGAAATTGGAA
1 GGGAGGTATCTGTATTTACACAATTCCATCATGTTACATGATAATCTTCTATATAGAAACTGGAA
* * *
128459 ATCTAGACATGTGGGATCATGAAGTGTTTGTCGGTATGAACTTGGTCACTGCAGTGAGCATAAGG
66 ATCGAGACACGTGGGA--ATGAAGTGTTTGTCGGTATCAACTTGGTCACTGCAGTGAGCATAAGG
128524 AAGTTG
129 AAGTTG
* *
128530 GGGAGGTATTTCTGTATATT-CACAATTCCATCATGTTACATGTCTAATCTTCTATGTAGAAACT
1 GGGAGGTA--TCTGTAT-TTACACAATTCCATCATGTTACATG-ATAATCTTCTATATAGAAACT
* *
128594 GGAAATCGAGGCACGTGGG-ATGAAGTGTTTGTCGGTA-CAAGCTTTGTCAC
62 GGAAATCGAGACACGTGGGAATGAAGTGTTTGTCGGTATCAA-CTTGGTCAC
128644 GGCTGTAAGG
Statistics
Matches: 98, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
135 2 0.02
136 34 0.35
138 27 0.28
139 35 0.36
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (134 bp):
GGGAGGTATCTGTATTTACACAATTCCATCATGTTACATGATAATCTTCTATATAGAAACTGGAA
ATCGAGACACGTGGGAATGAAGTGTTTGTCGGTATCAACTTGGTCACTGCAGTGAGCATAAGGAA
GTTG
Found at i:128919 original size:135 final size:137
Alignment explanation
Indices: 128676--128929 Score: 311
Period size: 135 Copynumber: 1.9 Consensus size: 137
128666 ATTTCTGTAT
* * *
128676 ATCATGTTACATATCGTTTAATTTTTTTATAGAAACCGGAAATCGAGGCATGTGGGATGAAGTGC
1 ATCATGTTACATATCGTTTAATTTTTTGATAGAAACCGGAAATCAAGCCATGTGGGATGAAGTGC
** *
128741 TTGTCGGTATAAACTTGGTCACGGCAGTGAACTTAAGGATGTT-GGAGGTATTTCTGGATTTGTA
66 TCCTCGGCATAAACTTGGTCACGGCAGTGAACTTAAGGATGTTGGGAGGTATTTCTGGATTTGTA
128805 CTTTTCC
131 CTTTTCC
* * *
128812 ATCATGTTCCATATCGTTTAA-TTTTTGATAGAAACTGGAAATCAAGCCGATGTTGGATGAAG-G
1 ATCATGTTACATATCGTTTAATTTTTTGATAGAAACCGGAAATCAAGCC-ATGTGGGATGAAGTG
* * ** * *
128875 GTACCTCTGCA-AAACTTGGTCGTGGCAGTG-AGTGTAATGATGTTGGGAGGTATTT
65 CT-CCTCGGCATAAACTTGGTCACGGCAGTGAACT-TAAGGATGTTGGGAGGTATTT
128930 TTGGCTTTAC
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
134 2 0.02
135 51 0.52
136 46 0.46
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (137 bp):
ATCATGTTACATATCGTTTAATTTTTTGATAGAAACCGGAAATCAAGCCATGTGGGATGAAGTGC
TCCTCGGCATAAACTTGGTCACGGCAGTGAACTTAAGGATGTTGGGAGGTATTTCTGGATTTGTA
CTTTTCC
Found at i:131073 original size:2 final size:2
Alignment explanation
Indices: 131066--131094 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
131056 ACTGTTATGT
131066 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
131095 TAATTTTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:144574 original size:61 final size:61
Alignment explanation
Indices: 144479--144600 Score: 208
Period size: 61 Copynumber: 2.0 Consensus size: 61
144469 CTCCGACTCT
* *
144479 CTCAGTGAAAGCTGGAGGATCTGTCTACCTTTTCAATATCGGTTTACAGTGGACTAAAAAA
1 CTCAGTGAAACCTGGAGGATCTGTCTACCTTTTCAATATCGGTTTACAGTGGAATAAAAAA
* *
144540 CTCAGTGAAACCTGGAGGATCTGTCTCCCTTTTCAATATTGGTTTACAGTGGAATAAAAAA
1 CTCAGTGAAACCTGGAGGATCTGTCTACCTTTTCAATATCGGTTTACAGTGGAATAAAAAA
144601 TTGATCAGGC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (61 bp):
CTCAGTGAAACCTGGAGGATCTGTCTACCTTTTCAATATCGGTTTACAGTGGAATAAAAAA
Found at i:144644 original size:51 final size:51
Alignment explanation
Indices: 144568--144669 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
144558 ATCTGTCTCC
144568 CTTTTCAATATTGGTTTACAGTGGAATAAAAAATTGATCAGGCATTTGAGA
1 CTTTTCAATATTGGTTTACAGTGGAATAAAAAATTGATCAGGCATTTGAGA
144619 CTTTTCAATATTGGTTTACAGTGGAATAAAAAATTGATCAGGCATTTGAGA
1 CTTTTCAATATTGGTTTACAGTGGAATAAAAAATTGATCAGGCATTTGAGA
144670 TATGCTTCAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (51 bp):
CTTTTCAATATTGGTTTACAGTGGAATAAAAAATTGATCAGGCATTTGAGA
Found at i:149546 original size:27 final size:27
Alignment explanation
Indices: 149508--149572 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
149498 TAACCCACAG
149508 TCCATAAATCAAAACATGAACTGCAAA
1 TCCATAAATCAAAACATGAACTGCAAA
149535 TCCATAAATCAAAACATGAACTGCAAA
1 TCCATAAATCAAAACATGAACTGCAAA
149562 TCCATAAATCA
1 TCCATAAATCA
149573 GTGCAGTCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.51, C:0.23, G:0.06, T:0.20
Consensus pattern (27 bp):
TCCATAAATCAAAACATGAACTGCAAA
Found at i:151793 original size:64 final size:64
Alignment explanation
Indices: 151692--151815 Score: 153
Period size: 64 Copynumber: 1.9 Consensus size: 64
151682 ATGCACTCTT
* * *
151692 TTAAAATAAAAACATCGAATGCAATTCGTGCATCGATGCATAAGGCA-TGCATCGATGCATCCCA
1 TTAAAATAAAAACATCGAATGCAATTCATGCACCGATGCACAA-GCAGTGCATCGATGCATCCCA
** * *
151756 TTAATAAT-AAAACATCGAATGCCTTTTATGCACCGATGCACAAGTAGTGCATCGATGCAT
1 TTAA-AATAAAAACATCGAATGCAATTCATGCACCGATGCACAAGCAGTGCATCGATGCAT
151816 ACCTTTATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
63 2 0.04
64 46 0.90
65 3 0.06
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (64 bp):
TTAAAATAAAAACATCGAATGCAATTCATGCACCGATGCACAAGCAGTGCATCGATGCATCCCA
Found at i:159586 original size:5 final size:5
Alignment explanation
Indices: 159573--159639 Score: 107
Period size: 5 Copynumber: 13.4 Consensus size: 5
159563 GCGTCATGAT
* * *
159573 GTTTT GTTTC GTTTA GTTTA GTTTA GTTTC GTTTA GTTTA GTTTA GTTTA
1 GTTTA GTTTA GTTTA GTTTA GTTTA GTTTA GTTTA GTTTA GTTTA GTTTA
159623 GTTTA GTTTA GTTTA GT
1 GTTTA GTTTA GTTTA GT
159640 ACGAGGGTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 58 1.00
ACGTcount: A:0.15, C:0.03, G:0.21, T:0.61
Consensus pattern (5 bp):
GTTTA
Found at i:163042 original size:15 final size:14
Alignment explanation
Indices: 163022--163051 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
163012 TTCCCTTTAA
163022 TTAAATTAAATATTT
1 TTAAATTAAA-ATTT
163037 TTAAATTAAAATTT
1 TTAAATTAAAATTT
163051 T
1 T
163052 GAGTGTGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTAAATTAAAATTT
Done.